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Useful for analyzing data from standard RNA-seq or meta-RNA-seq assays as well as selected and unselected values from in-vitro sequence selections. Uses a Dirichlet-multinomial model to infer abundance from counts, optimized for three or more experimental replicates. The method infers biological and sampling variation to calculate the expected false discovery rate, given the variation, based on a Wilcoxon Rank Sum test and Welch's t-test (via aldex.ttest), a Kruskal-Wallis test (via aldex.kw), a generalized linear model (via aldex.glm), or a correlation test (via aldex.corr). All tests report predicted p-values and posterior Benjamini-Hochberg corrected p-values. ALDEx2 also calculates expected standardized effect sizes for paired or unpaired study designs. ALDEx2 can now be used to estimate the effect of scale on the results and report on the scale-dependent robustness of results. 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Specifically, the package includes Analysis of Compositions of Microbiomes with Bias Correction 2 (ANCOM-BC2), Analysis of Compositions of Microbiomes with Bias Correction (ANCOM-BC), and Analysis of Composition of Microbiomes (ANCOM) for DA analysis, and Sparse Estimation of Correlations among Microbiomes (SECOM) for correlation analysis. Microbiome data are typically subject to two sources of biases: unequal sampling fractions (sample-specific biases) and differential sequencing efficiencies (taxon-specific biases). Methodologies included in the ANCOMBC package are designed to correct these biases and construct statistically consistent estimators. 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This is akin to a ragged array but the raggedness is in the third dimension, much like a bumpy surface - hence the name. Of particular interest is the BumpyDataFrameMatrix, where each entry is a Bioconductor data frame. This allows us to naturally represent multivariate data in a format that is compatible with two-dimensional containers like the SummarizedExperiment and MultiAssayExperiment objects. 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Package: r-bioc-cghbase Architecture: all Version: 1.68.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1383 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-bioc-marray Filename: pool/dists/focal/main/r-bioc-cghbase_1.68.0-1.ca2004.1_all.deb Size: 1087992 MD5sum: 94a38a3e000a37fb1b198d37b95d7ecf SHA1: 2afd2e750e5a9ef51302d27de9e2f817aabeec18 SHA256: 10ddf7de47db15ed1309aefed94b00211fdc7c0ac39e7e01c4b16b7006b79b00 SHA512: 10247107f5f9d0de7c231448e0875687442ece835e2f8f06c2034631a926bee47b66ab5a5846e99316dfb3a168106af4da8204e8ecd147817d8983e76c490859 Homepage: https://cran.r-project.org/package=CGHbase Description: Bioc Package 'CGHbase' (CGHbase: Base functions and classes for arrayCGH data analysis.) Contains functions and classes that are needed by arrayCGH packages. Package: r-bioc-cghcall Architecture: all Version: 2.70.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 788 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-impute, r-bioc-dnacopy, r-bioc-biobase, r-bioc-cghbase, r-cran-snowfall Filename: pool/dists/focal/main/r-bioc-cghcall_2.70.0-1.ca2004.1_all.deb Size: 523052 MD5sum: 091251d2a5cba0a3a96421218085f3e8 SHA1: 0450b3652fa2c6f98f4966bbed3e06dff38cbee0 SHA256: 7d4b3988c325f5b3a4fbdaad74384ab3561f2d7313fbbb438170648fe69a8e53 SHA512: 2585188d6e786665508172eb238f247a65b3857c8313ca1652455fb27fc2f69e6477b48f3899087894be0863ce993a4e34e1a4ba524cdeadaaca54948ae2a9c1 Homepage: https://cran.r-project.org/package=CGHcall Description: Bioc Package 'CGHcall' (Calling aberrations for array CGH tumor profiles.) Calls aberrations for array CGH data using a six state mixture model as well as several biological concepts that are ignored by existing algorithms. Visualization of profiles is also provided. Package: r-bioc-chippeakanno Architecture: all Version: 3.42.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 28456 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-iranges, r-bioc-genomicranges, r-bioc-s4vectors, r-bioc-annotationdbi, r-bioc-biocgenerics, r-bioc-biostrings, r-bioc-pwalign, r-cran-dbi, r-cran-dplyr, r-bioc-genomeinfodb, r-bioc-genomicalignments, r-bioc-genomicfeatures, r-bioc-rbgl, r-bioc-rsamtools, r-bioc-summarizedexperiment, r-cran-venndiagram, r-bioc-biomart, r-cran-ggplot2, r-bioc-graph, r-bioc-interactionset, r-bioc-keggrest, r-cran-matrixstats, r-bioc-multtest, r-bioc-regioner, r-bioc-rtracklayer, r-bioc-universalmotif, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-data.table, r-cran-scales, r-bioc-ensembldb Suggests: r-bioc-annotationhub, r-bioc-bsgenome, r-bioc-limma, r-bioc-reactome.db, r-cran-biocmanager, r-bioc-biocstyle, r-bioc-bsgenome.ecoli.ncbi.20080805, r-bioc-bsgenome.hsapiens.ucsc.hg19, r-bioc-org.ce.eg.db, r-bioc-org.hs.eg.db, r-bioc-bsgenome.celegans.ucsc.ce10, r-bioc-bsgenome.drerio.ucsc.danrer7, r-bioc-bsgenome.hsapiens.ucsc.hg38, r-bioc-delayedarray, r-cran-idr, r-cran-seqinr, r-bioc-ensdb.hsapiens.v75, r-bioc-ensdb.hsapiens.v79, r-bioc-ensdb.hsapiens.v86, r-bioc-txdb.hsapiens.ucsc.hg18.knowngene, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-bioc-txdb.hsapiens.ucsc.hg38.knowngene, r-bioc-go.db, r-cran-gplots, r-cran-upsetr, r-cran-knitr, r-cran-rmarkdown, r-cran-reshape2, r-cran-testthat, r-bioc-trackviewer, r-bioc-motifstack, r-bioc-organismdbi, r-bioc-biocfilecache Filename: pool/dists/focal/main/r-bioc-chippeakanno_3.42.0-1.ca2004.1_all.deb Size: 22809324 MD5sum: 5f7ae25214b1804594558d5e04050056 SHA1: 77697e6230e87a5aeb5fd11e7370f5d1383a91a4 SHA256: 0af3628443fb0a7c1ee75907b3efa732ada79db4285a6b59b8554789f245813d SHA512: b137f0d9e8135538af8d2e72aae5c7f4d9cfabaff3a602e9e514f2b80c5c35d0b184c70a0a7a3c65b528fc545aed0e4dcb95b06414cea210cd4bda7e149b0e07 Homepage: https://cran.r-project.org/package=ChIPpeakAnno Description: Bioc Package 'ChIPpeakAnno' (Batch annotation of the peaks identified from either ChIP-seq,ChIP-chip experiments, or any experiments that result in largenumber of genomic interval data) The package encompasses a range of functions for identifying the closest gene, exon, miRNA, or custom features—such as highly conserved elements and user-supplied transcription factor binding sites. Additionally, users can retrieve sequences around the peaks and obtain enriched Gene Ontology (GO) or Pathway terms. In version 2.0.5 and beyond, new functionalities have been introduced. These include features for identifying peaks associated with bi-directional promoters along with summary statistics (peaksNearBDP), summarizing motif occurrences in peaks (summarizePatternInPeaks), and associating additional identifiers with annotated peaks or enrichedGO (addGeneIDs). The package integrates with various other packages such as biomaRt, IRanges, Biostrings, BSgenome, GO.db, multtest, and stat to enhance its analytical capabilities. Package: r-bioc-chipseeker Architecture: all Version: 1.44.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8076 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi, r-cran-aplot, r-bioc-biocgenerics, r-cran-boot, r-cran-dplyr, r-bioc-enrichplot, r-bioc-iranges, r-bioc-genomeinfodb, r-bioc-genomicranges, r-bioc-genomicfeatures, r-cran-ggplot2, r-cran-gplots, r-cran-gtools, r-cran-magrittr, r-cran-plotrix, r-cran-rcolorbrewer, r-cran-rlang, r-bioc-rtracklayer, r-bioc-s4vectors, r-cran-scales, r-cran-tibble, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-cran-yulab.utils Suggests: r-bioc-clusterprofiler, r-cran-ggimage, r-cran-ggplotify, r-cran-ggupset, r-cran-ggvenndiagram, r-cran-knitr, r-bioc-org.hs.eg.db, r-cran-prettydoc, r-bioc-reactomepa, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-chipseeker_1.44.0-1.ca2004.1_all.deb Size: 7475308 MD5sum: 06a697de32a97d6e2282c330b6c37aca SHA1: 774bea0ef99459c3068837c618af0ddb39992320 SHA256: 4ce094bce3fe8806757dbf245f03b820c63b26d3600c104ed236cb71fb1e7381 SHA512: 6d87cc22627135aaf4c2a938c2ab293f3f99cdb1b31fa9a621d11999efc27849519b4a60ec6f93aa96139b27230013dba4001a2e77e841c87dc81c4d86a589ca Homepage: https://cran.r-project.org/package=ChIPseeker Description: Bioc Package 'ChIPseeker' (ChIPseeker for ChIP peak Annotation, Comparison, andVisualization) This package implements functions to retrieve the nearest genes around the peak, annotate genomic region of the peak, statstical methods for estimate the significance of overlap among ChIP peak data sets, and incorporate GEO database for user to compare the own dataset with those deposited in database. The comparison can be used to infer cooperative regulation and thus can be used to generate hypotheses. Several visualization functions are implemented to summarize the coverage of the peak experiment, average profile and heatmap of peaks binding to TSS regions, genomic annotation, distance to TSS, and overlap of peaks or genes. Package: r-bioc-clusterprofiler Architecture: all Version: 4.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1412 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-dose, r-cran-dplyr, r-bioc-enrichplot, r-bioc-go.db, r-bioc-gosemsim, r-cran-gson, r-cran-httr, r-cran-igraph, r-cran-magrittr, r-cran-plyr, r-bioc-qvalue, r-cran-rlang, r-cran-tidyr, r-cran-yulab.utils Suggests: r-bioc-annotationhub, r-cran-knitr, r-cran-jsonlite, r-cran-readr, r-cran-rmarkdown, r-bioc-org.hs.eg.db, r-cran-prettydoc, r-cran-biocmanager, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-clusterprofiler_4.16.0-1.ca2004.1_all.deb Size: 974052 MD5sum: f7173e67b2514b590d8c8e1a0cad2f2f SHA1: b5082450f1244066b357708c3c2436770bd45a41 SHA256: d0b5c3c9c5885d3b68162149060bd2d8731e116260b3738498198dfd58c56581 SHA512: 6dc678110cd98fd8bb8288458c7c409dfc36d4c1059191687fc846c06ddd7c50532f2a590636d2a78a11ff58cb090f5091e3d06b1d675c241c92d7fb282b9156 Homepage: https://cran.r-project.org/package=clusterProfiler Description: Bioc Package 'clusterProfiler' (A universal enrichment tool for interpreting omics data) This package supports functional characteristics of both coding and non-coding genomics data for thousands of species with up-to-date gene annotation. It provides a univeral interface for gene functional annotation from a variety of sources and thus can be applied in diverse scenarios. It provides a tidy interface to access, manipulate, and visualize enrichment results to help users achieve efficient data interpretation. Datasets obtained from multiple treatments and time points can be analyzed and compared in a single run, easily revealing functional consensus and differences among distinct conditions. Package: r-bioc-complexheatmap Architecture: all Version: 2.24.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3530 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-circlize, r-cran-getoptlong, r-cran-colorspace, r-cran-clue, r-cran-rcolorbrewer, r-cran-globaloptions, r-cran-png, r-cran-digest, r-bioc-iranges, r-cran-matrixstats, r-cran-foreach, r-cran-doparallel, r-cran-codetools Suggests: r-cran-testthat, r-cran-knitr, r-cran-markdown, r-cran-dendsort, r-cran-jpeg, r-cran-tiff, r-cran-fastcluster, r-bioc-enrichedheatmap, r-cran-dendextend, r-cran-grimport, r-cran-grimport2, r-cran-glue, r-bioc-genomicranges, r-cran-gridtext, r-cran-pheatmap, r-cran-gridgraphics, r-cran-gplots, r-cran-rmarkdown, r-cran-cairo, r-cran-magick Filename: pool/dists/focal/main/r-bioc-complexheatmap_2.24.1-1.ca2004.1_all.deb Size: 3014284 MD5sum: 7df89b472e5a844a4f6f98981feadc78 SHA1: fffdacdcdb4f91f157558fd083e0531f371d78d7 SHA256: 79bae7203f7a92526013308d6e796bab51bf0f2e3e03c374af513d47dbdcaa1a SHA512: fbc5ffdc8a95262e6b3214c84099470932a3ea75d5a8909246c66cc6c6d55ddff6ce90c3cede625f53ccd8d87e9e7a3f4dc020c14578e74a7695834d5942367a Homepage: https://cran.r-project.org/package=ComplexHeatmap Description: Bioc Package 'ComplexHeatmap' (Make Complex Heatmaps) Complex heatmaps are efficient to visualize associations between different sources of data sets and reveal potential patterns. Here the ComplexHeatmap package provides a highly flexible way to arrange multiple heatmaps and supports various annotation graphics. Package: r-bioc-consensusclusterplus Architecture: all Version: 1.72.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 511 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-bioc-all, r-cran-cluster Filename: pool/dists/focal/main/r-bioc-consensusclusterplus_1.72.0-1.ca2004.1_all.deb Size: 447384 MD5sum: 53c6cb1bda6ec7a1615c1eeb9b88d744 SHA1: 22da37423130c70f1c37006d79df50de95a53524 SHA256: 8ec78e6f25671a406f10c5cd2e8fbae1a1b18dbcc2153864be39d1bd0c4a6c17 SHA512: 05c758b602d1d8ed71e93ec0f2c10c53efcadb54e35c6aeeaa0a081cd5d653c0b4508fc6876180960dc6ec2697410293c988f6eb69c56e2317b99ec3c542971f Homepage: https://cran.r-project.org/package=ConsensusClusterPlus Description: Bioc Package 'ConsensusClusterPlus' (ConsensusClusterPlus) algorithm for determining cluster count and membership by stability evidence in unsupervised analysis Package: r-bioc-copynumber Architecture: all Version: 1.38.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2015 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-genomicranges Filename: pool/dists/focal/main/r-bioc-copynumber_1.38.0-1.ca2004.1_all.deb Size: 1882628 MD5sum: 21fb45d398a6883bac507c0379764212 SHA1: 5362250b96724817dae004908fb55ddd795dc18e SHA256: 175d2fafb3318d09deb48ca02b918e1ebb77735765487d745a7cd06a3f5d544a SHA512: 19e6ca56eccbb1a395616b0e34189933560f699d253061568c50abf68d91b108a2562ee3ddb781fdd4a41653e699bbed35503cf44abfdac6532e77bf059dacd7 Homepage: https://cran.r-project.org/package=copynumber Description: Bioc Package 'copynumber' (Segmentation of single- and multi-track copy number data bypenalized least squares regression.) Penalized least squares regression is applied to fit piecewise constant curves to copy number data to locate genomic regions of constant copy number. Procedures are available for individual segmentation of each sample, joint segmentation of several samples and joint segmentation of the two data tracks from SNP-arrays. Several plotting functions are available for visualization of the data and the segmentation results. Package: r-bioc-cordon Architecture: all Version: 1.26.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3906 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biostrings, r-bioc-biobase, r-cran-dplyr, r-cran-stringr, r-cran-purrr, r-cran-ggplot2, r-cran-data.table Suggests: r-bioc-biocstyle, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-cordon_1.26.0-1.ca2004.1_all.deb Size: 2675020 MD5sum: fbde94c9685814c30183ef7c52a06a68 SHA1: 29850900e9376b4616d26a6fa642561811e915dc SHA256: 5cc3b91fb80a0e7112860d7972428fd9eb72579b1dcd0c44fc62f1311ebf6e18 SHA512: da2976d5e007c300494887faaea11e3c261b759bcdf1c920813eddf9b075efa923f73719bdd80d14663fb8c0d8cef6138df82645ecb248dcddeeaf20f4460100 Homepage: https://cran.r-project.org/package=coRdon Description: Bioc Package 'coRdon' (Codon Usage Analysis and Prediction of Gene Expressivity) Tool for analysis of codon usage in various unannotated or KEGG/COG annotated DNA sequences. Calculates different measures of CU bias and CU-based predictors of gene expressivity, and performs gene set enrichment analysis for annotated sequences. Implements several methods for visualization of CU and enrichment analysis results. 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This package was created to abstract shared functionality from other lab package releases to increase ease of maintainability and reduce code repetition in current and future 'Gx' suite programs. Major features include a 'CoreSet' class, from which 'RadioSet' and 'PharmacoSet' are derived, along with get and set methods for each respective slot. Additional functions related to fitting and plotting dose response curves, quantifying statistical correlation and calculating area under the curve (AUC) or survival fraction (SF) are included. For more details please see the included documentation, as well as: Smirnov, P., Safikhani, Z., El-Hachem, N., Wang, D., She, A., Olsen, C., Freeman, M., Selby, H., Gendoo, D., Grossman, P., Beck, A., Aerts, H., Lupien, M., Goldenberg, A. (2015) . Manem, V., Labie, M., Smirnov, P., Kofia, V., Freeman, M., Koritzinksy, M., Abazeed, M., Haibe-Kains, B., Bratman, S. (2018) . Package: r-bioc-correp Architecture: all Version: 1.68.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 362 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-e1071 Suggests: r-cran-cluster, r-cran-mass Filename: pool/dists/focal/main/r-bioc-correp_1.68.0-1.ca2004.1_all.deb Size: 281272 MD5sum: 5601c4bc0cc72f8fd7faa4a11023ca85 SHA1: 04116308e7962b51fb2853698e81ff6614bf3e9c SHA256: a19194f613999afba31b7006827630027cd9cd68be12f2324778d1264c6a8f29 SHA512: ed3bd294bae1c3078ddf177e2f85996ba434b9c52f94acd7b5f67c5e3c90a981aadc61a5d0f2ad221f1f35fbef663539e5d20e222797b8b728c701b2989ebeb1 Homepage: https://cran.r-project.org/package=CORREP Description: Bioc Package 'CORREP' (Multivariate Correlation Estimator and Statistical InferenceProcedures.) Multivariate correlation estimation and statistical inference. See package vignette. 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Allows for persistent storage, access, exploration, and manipulation of Cufflinks high-throughput sequencing data. In addition, provides numerous plotting functions for commonly used visualizations. 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Works on any kind of feature derived from environmental sequencing data (e.g. ASVs, OTUs, taxonomic groups, MAGs,...). Requires DNA quantitation data or sequenced negative control samples. 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Here, we present decoupleR, a Bioconductor package containing different statistical methods to extract these signatures within a unified framework. decoupleR allows the user to flexibly test any method with any resource. It incorporates methods that take into account the sign and weight of network interactions. decoupleR can be used with any omic, as long as its features can be linked to a biological process based on prior knowledge. For example, in transcriptomics gene sets regulated by a transcription factor, or in phospho-proteomics phosphosites that are targeted by a kinase. Package: r-bioc-degreport Architecture: all Version: 1.44.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4168 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-bioc-biocgenerics, r-cran-broom, r-cran-circlize, r-bioc-complexheatmap, r-cran-cowplot, r-bioc-consensusclusterplus, r-cran-cluster, r-cran-dendextend, r-bioc-deseq2, r-cran-dplyr, r-bioc-edger, r-cran-ggplot2, r-cran-ggdendro, r-cran-ggrepel, r-cran-knitr, r-cran-logging, r-cran-magrittr, r-cran-psych, r-cran-rcolorbrewer, r-cran-reshape, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-stringi, r-bioc-s4vectors, r-bioc-summarizedexperiment, r-cran-tidyr, r-cran-tibble Suggests: r-bioc-biocstyle, r-bioc-annotationdbi, r-bioc-limma, r-cran-pheatmap, r-cran-rmarkdown, r-cran-statmod, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-degreport_1.44.0-1.ca2004.1_all.deb Size: 3223128 MD5sum: 7b09205c5fbce97068fed05c0b084061 SHA1: 0fe12b01d038b551c1f27092cf41f6bb09a5263e SHA256: b1d4b08f065e8e9a7dbc77ebb9f8ad6777e81608d97ed1be913f23521885a2cb SHA512: aa09929e113e4cbe49fc0befd1688af3850175f2ddf1ebe3138f35842e647dce187ce6aa45686452a74066c4887d187217109cd4c3db0ebcd857c58ab23f331e Homepage: https://cran.r-project.org/package=DEGreport Description: Bioc Package 'DEGreport' (Report of DEG analysis) Creation of ready-to-share figures of differential expression analyses of count data. It integrates some of the code mentioned in DESeq2 and edgeR vignettes, and report a ranked list of genes according to the fold changes mean and variability for each selected gene. 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High-performing functions operating on rows and columns of DelayedMatrix objects, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). Functions optimized per data type and for subsetted calculations such that both memory usage and processing time is minimized. Package: r-bioc-dexseq Architecture: all Version: 1.54.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3468 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocparallel, r-bioc-biobase, r-bioc-summarizedexperiment, r-bioc-iranges, r-bioc-genomicranges, r-bioc-deseq2, r-bioc-annotationdbi, r-cran-rcolorbrewer, r-bioc-s4vectors, r-bioc-biocgenerics, r-bioc-biomart, r-cran-hwriter, r-cran-stringr, r-bioc-rsamtools, r-cran-statmod, r-bioc-geneplotter, r-bioc-genefilter Suggests: r-bioc-genomicfeatures, r-bioc-txdbmaker, r-bioc-pasilla, r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-pasillabamsubset, r-bioc-genomicalignments, r-cran-roxygen2, r-bioc-glmgampoi Filename: pool/dists/focal/main/r-bioc-dexseq_1.54.0-1.ca2004.1_all.deb Size: 2024780 MD5sum: 4a0dd43a303b4c1d789ebcb1a4720ead SHA1: b7b227ff2640160be86eac9d7ad15fce72bb7341 SHA256: 823107e83a9332359c81190de296ce84bef22197186731f4f73a262847a1e166 SHA512: 3138e6c36f389de90ba5304a963c382ee7215c6d32dd5be5b9a5239345653d729a9e5ec5b1e86820544646333d7ea9acf89534d37f1b2126e736efc2b7e6f3d0 Homepage: https://cran.r-project.org/package=DEXSeq Description: Bioc Package 'DEXSeq' (Inference of differential exon usage in RNA-Seq) The package is focused on finding differential exon usage using RNA-seq exon counts between samples with different experimental designs. It provides functions that allows the user to make the necessary statistical tests based on a model that uses the negative binomial distribution to estimate the variance between biological replicates and generalized linear models for testing. The package also provides functions for the visualization and exploration of the results. 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DCLs are gene pairs with significantly different correlation coefficients under two conditions. DCGs are genes with significantly more DCLs than by chance. 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This aims to reduce disk usage by eliminating obsolete caches generated by old versions of packages. Package: r-bioc-dittoseq Architecture: all Version: 1.20.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3387 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-colorspace, r-cran-gridextra, r-cran-cowplot, r-cran-reshape2, r-cran-pheatmap, r-cran-ggrepel, r-cran-ggridges, r-bioc-summarizedexperiment, r-bioc-singlecellexperiment, r-bioc-s4vectors Suggests: r-cran-plotly, r-cran-testthat, r-cran-seurat, r-bioc-deseq2, r-bioc-edger, r-cran-ggplot.multistats, r-cran-knitr, r-cran-rmarkdown, r-bioc-biocstyle, r-bioc-scrnaseq, r-cran-ggrastr, r-bioc-complexheatmap, r-bioc-bluster, r-bioc-scater, r-bioc-scran Filename: pool/dists/focal/main/r-bioc-dittoseq_1.20.0-1.ca2004.1_all.deb Size: 1910428 MD5sum: 9f1e129c0eaa15b6a35a51cc986d7c9a SHA1: 4f95b035db3c75e4038ec313efae93d28c6f4c34 SHA256: 5bece0e5feea64c37ecabf6a3fc3e7eabf86770221f5fd67f772ec35efa54e3c SHA512: 11c8a07b35a53955b538ea9a2b8d76f01602ad30c923e717f82b4d98821da7ee09e906f4a6a59535823430b070bace606603f440fbce7c3ec9db5bb7621625d9 Homepage: https://cran.r-project.org/package=dittoSeq Description: Bioc Package 'dittoSeq' (User Friendly Single-Cell and Bulk RNA Sequencing Visualization) A universal, user friendly, single-cell and bulk RNA sequencing visualization toolkit that allows highly customizable creation of color blindness friendly, publication-quality figures. dittoSeq accepts both SingleCellExperiment (SCE) and Seurat objects, as well as the import and usage, via conversion to an SCE, of SummarizedExperiment or DGEList bulk data. Visualizations include dimensionality reduction plots, heatmaps, scatterplots, percent composition or expression across groups, and more. Customizations range from size and title adjustments to automatic generation of annotations for heatmaps, overlay of trajectory analysis onto any dimensionality reduciton plot, hidden data overlay upon cursor hovering via ggplotly conversion, and many more. All with simple, discrete inputs. Color blindness friendliness is powered by legend adjustments (enlarged keys), and by allowing the use of shapes or letter-overlay in addition to the carefully selected dittoColors(). 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Provides functionality for filtering probes possibly confounded by SNPs and cross-hybridisation. Includes GRanges generation and plotting functions. Package: r-bioc-do.db Architecture: all Version: 2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6703 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi Filename: pool/dists/focal/main/r-bioc-do.db_2.9-1.ca2004.1_all.deb Size: 1444864 MD5sum: 436d5ddbb26143901e450d8e4f396c66 SHA1: bd9840f54f223794ee6ac429c14da6ac1805dab2 SHA256: 9a2243bb761bca820276e947e0a418c0570b83bd14aaadf4c698ef12d975a552 SHA512: 8ba8f5c9690308c7e9052b913b9e0903fc3af5849e606265113da6cf956cf2fc22ce257e876ff5662af39bcfea80615f1d8797580a2f72574dd5182ada2a4d8a Homepage: https://cran.r-project.org/package=DO.db Description: Bioc Package 'DO.db' (A set of annotation maps describing the entire Disease Ontology) A set of annotation maps describing the entire Disease Ontology assembled using data from DO Package: r-bioc-dose Architecture: all Version: 4.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6116 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-biocparallel, r-bioc-fgsea, r-cran-ggplot2, r-bioc-gosemsim, r-bioc-qvalue, r-cran-reshape2, r-cran-yulab.utils Suggests: r-cran-prettydoc, r-bioc-clusterprofiler, r-cran-gson, r-cran-knitr, r-cran-memoise, r-bioc-org.hs.eg.db, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-dose_4.2.0-1.ca2004.1_all.deb Size: 6100816 MD5sum: 843a4f880b54df4e5f1de0d018e48c8b SHA1: 101a0305146ae283f3ab6db67bb8b8703d1ae7c2 SHA256: 5d07fbc49c6dbcf42a347cefabade3861cca4d9ce3df89a74171bd53fd991322 SHA512: b648ce58509edacb8c710cf310f38d0f643379427c0721f7a54102dbbb21622ce86a18b4c2baa0b44f5d2e5740bbf2488ab5d656fd2127e6a1710be95b5139de Homepage: https://cran.r-project.org/package=DOSE Description: Bioc Package 'DOSE' (Disease Ontology Semantic and Enrichment analysis) This package implements five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for measuring semantic similarities among DO terms and gene products. 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Within-lane normalization procedures to adjust for GC-content effect (or other gene-level effects) on read counts: loess robust local regression, global-scaling, and full-quantile normalization (Risso et al., 2011). Between-lane normalization procedures to adjust for distributional differences between lanes (e.g., sequencing depth): global-scaling and full-quantile normalization (Bullard et al., 2010). Package: r-bioc-empiricalbrownsmethod Architecture: all Version: 1.36.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-bioc-biocstyle, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-empiricalbrownsmethod_1.36.0-1.ca2004.1_all.deb Size: 52596 MD5sum: 5b07431d28454a21f00ebde9a8ee3270 SHA1: bbf5c3260c8ac90577d2603c5bc13e06dc389143 SHA256: 9c786d23fbb1b581f4ca48e7ae9045065c0c0ef61bf95131c157ab6189f2f2fc SHA512: fba720c649de85f75b853fb2448bcdfdecff5fd9f078f6adc8b3bf51fbf464807f4d7661e09c53e9fe672d5ac0ca58ad173f89c14571b138b3125ab191afc5d8 Homepage: https://cran.r-project.org/package=EmpiricalBrownsMethod Description: Bioc Package 'EmpiricalBrownsMethod' (Uses Brown's method to combine p-values from dependent tests) Combining P-values from multiple statistical tests is common in bioinformatics. 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Here, we present a highly-configurable function that produces publication-ready volcano plots. EnhancedVolcano will attempt to fit as many point labels in the plot window as possible, thus avoiding 'clogging' up the plot with labels that could not otherwise have been read. Other functionality allows the user to identify up to 4 different types of attributes in the same plot space via colour, shape, size, and shade parameter configurations. Package: r-bioc-enrichplot Architecture: all Version: 1.28.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 391 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-aplot, r-bioc-dose, r-cran-ggfun, r-cran-ggnewscale, r-cran-ggplot2, r-cran-ggrepel, r-cran-ggtangle, r-cran-igraph, r-cran-plyr, r-cran-purrr, r-cran-rcolorbrewer, r-cran-reshape2, r-cran-rlang, r-cran-scatterpie, r-bioc-gosemsim, r-cran-magrittr, r-bioc-ggtree, r-cran-yulab.utils Suggests: r-bioc-clusterprofiler, r-cran-dplyr, r-cran-europepmc, r-cran-ggarchery, r-cran-ggupset, r-cran-glue, r-cran-knitr, r-cran-rmarkdown, r-bioc-org.hs.eg.db, r-cran-prettydoc, r-cran-tibble, r-cran-tidyr, r-cran-ggforce, r-cran-gghoriplot, r-bioc-annotationdbi, r-cran-ggplotify, r-cran-ggridges, r-cran-gridextra, r-cran-ggstar, r-cran-scales, r-bioc-ggtreeextra, r-cran-tidydr Filename: pool/dists/focal/main/r-bioc-enrichplot_1.28.1-1.ca2004.1_all.deb Size: 306344 MD5sum: 7a8ab394d047ae9c8a4603196e8d9f20 SHA1: 762b64b34b7c72785652215f2727419838b10103 SHA256: 9d89d2adf44575e44235b0ea63fa196777c32c3a65e9c8df88a2798408a56386 SHA512: 29e593b828d9ebecfa585fd8af548eb52857592dd422ef94c6654a911c486d1305a3c1bfd27d700e03a6042d26fd32505f3c0e4aab9604b7b6afa27d83cbd69e Homepage: https://cran.r-project.org/package=enrichplot Description: Bioc Package 'enrichplot' (Visualization of Functional Enrichment Result) The 'enrichplot' package implements several visualization methods for interpreting functional enrichment results obtained from ORA or GSEA analysis. It is mainly designed to work with the 'clusterProfiler' package suite. All the visualization methods are developed based on 'ggplot2' graphics. Package: r-bioc-ensdb.hsapiens.v75 Architecture: all Version: 2.99.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 352493 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-ensembldb Filename: pool/dists/focal/main/r-bioc-ensdb.hsapiens.v75_2.99.0-1.ca2004.1_all.deb Size: 48924368 MD5sum: 9cec2a92ce265f8e623f17c67ed199c5 SHA1: 1b85f985b8738d89950da032a741591d346a996c SHA256: e074af0f212a28e443017f01165afcdde528d5c09ab47705cb2ef3a7d7ebbe3e SHA512: cddb4c5cdd76e00df27091a862d30a91000f0bfe6b8a6bdbe7c78f1617c0ce40b331635b3571fb01a57d6de81d0e70e1fb0d748b7761a398c607f5fec84dcc0d Homepage: https://cran.r-project.org/package=EnsDb.Hsapiens.v75 Description: Bioc Package 'EnsDb.Hsapiens.v75' (Ensembl based annotation package) Exposes an annotation databases generated from Ensembl. 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The annotation for the databases are directly fetched from Ensembl using their Perl API. The functionality and data is similar to that of the TxDb packages from the GenomicFeatures package, but, in addition to retrieve all gene/transcript models and annotations from the database, ensembldb provides a filter framework allowing to retrieve annotations for specific entries like genes encoded on a chromosome region or transcript models of lincRNA genes. EnsDb databases built with ensembldb contain also protein annotations and mappings between proteins and their encoding transcripts. Finally, ensembldb provides functions to map between genomic, transcript and protein coordinates. 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J Neurosci 28:264-278, 2008; Carrel and Willard, Nature, 434:400-404, 2005; Huang et al. PNAS, 104:9758-9763, 2007; Pickrell et al. Nature, 464:768-722, 2010; Skaletsky et al. Nature, 423:825-837; Verhaak et al. Cancer Cell 17:98-110, 2010; Costa et al. FEBS J, 288:2311-2331, 2021. 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It implements the HDF5Array, H5SparseMatrix, H5ADMatrix, and TENxMatrix classes, 4 convenient and memory-efficient array-like containers for representing and manipulating either: (1) a conventional (a.k.a. dense) HDF5 dataset, (2) an HDF5 sparse matrix (stored in CSR/CSC/Yale format), (3) the central matrix of an h5ad file (or any matrix in the /layers group), or (4) a 10x Genomics sparse matrix. All these containers are DelayedArray extensions and thus support all operations (delayed or block-processed) supported by DelayedArray objects. 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Its annotation data comes from https://github.com/DiseaseOntology/HumanDiseaseOntology/tree/main/src/ontology. Package: r-bioc-heatplus Architecture: all Version: 3.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1472 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rcolorbrewer Suggests: r-bioc-biobase, r-bioc-hgu95av2.db, r-bioc-limma Filename: pool/dists/focal/main/r-bioc-heatplus_3.16.0-1.ca2004.1_all.deb Size: 1198756 MD5sum: e5cedf5c52172fc43e798086145a5f8d SHA1: 8c178135ca6c229733ccdfca30acba74224d9661 SHA256: e6638ecf1f2ce33f9fc90405ccf8f08c49d4e0354d7a70ba384e77b55cf20802 SHA512: 7194b3c3437d2e00150e946c9dc48ee29b09044c9133140cd7d102e43c75785e690819e83fa5b6c07f5e0c6293edf9680e15e8635dd81f588b2f23b83f842840 Homepage: https://cran.r-project.org/package=Heatplus Description: Bioc Package 'Heatplus' (Heatmaps with row and/or column covariates and colored clusters) Display a rectangular heatmap (intensity plot) of a data matrix. By default, both samples (columns) and features (row) of the matrix are sorted according to a hierarchical clustering, and the corresponding dendrogram is plotted. Optionally, panels with additional information about samples and features can be added to the plot. Package: r-bioc-hgu95a.db Architecture: all Version: 3.13.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1323 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-org.hs.eg.db Suggests: r-cran-dbi, r-bioc-annotate, r-cran-runit Filename: pool/dists/focal/main/r-bioc-hgu95a.db_3.13.0-1.ca2004.1_all.deb Size: 354760 MD5sum: 9bd92268536a4e466e650f9e781d1c83 SHA1: 54d6e88c79f3abd135c0364c816536f4df075a63 SHA256: d9b3a1db252408f1851d03ab8e12bf9d65d87ad804aac1c521aedf380fc23a73 SHA512: 7ad8df5898247b972838e6ee41f440fb9457fef36b05c16b94e891f84c676c93e88f658db417bb211cd3094853fe2587538432011646f4d301df3eb96b9c3a27 Homepage: https://cran.r-project.org/package=hgu95a.db Description: Bioc Package 'hgu95a.db' (Affymetrix Affymetrix HG_U95A Array annotation data (chiphgu95a)) Affymetrix Affymetrix HG_U95A Array annotation data (chip hgu95a) assembled using data from public repositories Package: r-bioc-hiccompare Architecture: all Version: 1.30.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4089 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-data.table, r-cran-ggplot2, r-cran-gridextra, r-cran-mgcv, r-bioc-interactionset, r-bioc-genomicranges, r-bioc-iranges, r-bioc-s4vectors, r-bioc-biocparallel, r-cran-kernsmooth, r-cran-pheatmap, r-cran-gtools, r-bioc-rhdf5 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-multihiccompare Filename: pool/dists/focal/main/r-bioc-hiccompare_1.30.0-1.ca2004.1_all.deb Size: 3865688 MD5sum: 2a6f6cb73eb53dc100e5e19047e2d0ad SHA1: 222578c707863a3a4d77e863fc34bac368abc14b SHA256: 7074ceb4039b42fa26c9fa07f8fef8b634e778e3c3579b4274eeec31f5a41eb8 SHA512: 436a2150ff15525ab471c12db83e085c0fc82ca18ff0e21bebcba2e6c13a5cd84ac25675ba9de594a15eae23e350f5298ce6cc4e9dcfb3a40943cf6550ae3bf6 Homepage: https://cran.r-project.org/package=HiCcompare Description: Bioc Package 'HiCcompare' (HiCcompare: Joint normalization and comparative analysis ofmultiple Hi-C datasets) HiCcompare provides functions for joint normalization and difference detection in multiple Hi-C datasets. HiCcompare operates on processed Hi-C data in the form of chromosome-specific chromatin interaction matrices. It accepts three-column tab-separated text files storing chromatin interaction matrices in a sparse matrix format which are available from several sources. HiCcompare is designed to give the user the ability to perform a comparative analysis on the 3-Dimensional structure of the genomes of cells in different biological states.`HiCcompare` differs from other packages that attempt to compare Hi-C data in that it works on processed data in chromatin interaction matrix format instead of pre-processed sequencing data. In addition, `HiCcompare` provides a non-parametric method for the joint normalization and removal of biases between two Hi-C datasets for the purpose of comparative analysis. `HiCcompare` also provides a simple yet robust method for detecting differences between Hi-C datasets. Package: r-bioc-hpo.db Architecture: all Version: 0.99.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 548 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-annotationhub, r-bioc-biocfilecache, r-cran-dbi Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-hpo.db_0.99.2-1.ca2004.1_all.deb Size: 395612 MD5sum: 5ab3f44f5fba668cf5ced586f719646c SHA1: ec0a1dd577de3854561ac54c28b1b90365015e19 SHA256: 84c89293df27b09d873fa634dc409c82a297dfc6820fc77cfca9b18457858009 SHA512: 646266ac97da7134b115125612dde5173b981f40f36d18d7346581c9a64b0cefa654f2ee6976c105dd8914527aa8d72cb8d41a918e50dfed681e5cfbb0b69dfb Homepage: https://cran.r-project.org/package=HPO.db Description: Bioc Package 'HPO.db' (A set of annotation maps describing the entire Human PhenotypeOntology) Human Phenotype Ontology (HPO) was developed to create a consistent description of gene products with disease perspectives, and is essential for supporting functional genomics in disease context. Accurate disease descriptions can discover new relationships between genes and disease, and new functions for previous uncharacteried genes and alleles.We have developed the [DOSE](https://bioconductor.org/packages/DOSE/) package for semantic similarity analysis and disease enrichment analysis, and `DOSE` import an Bioconductor package 'DO.db' to get the relationship(such as parent and child) between MPO terms. But `DO.db` hasn't been updated for years, and a lot of semantic information is [missing](https://github.com/YuLab-SMU/DOSE/issues/57). So we developed the new package `HPO.db` for Human Human Phenotype Ontology annotation. 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In this experiment, primary human skeletal muscle myoblasts (HSMM) were expanded under high mitogen conditions (GM) and then differentiated by switching to low-mitogen media (DM). RNA-Seq libraries were sequenced from each of several hundred cells taken over a time-course of serum-induced differentiation. Between 49 and 77 cells were captured at each of four time points (0, 24, 48, 72 hours) following serum switch using the Fluidigm C1 microfluidic system. RNA from each cell was isolated and used to construct mRNA-Seq libraries, which were then sequenced to a depth of ~4 million reads per library, resulting in a complete gene expression profile for each cell. 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The version 2 covers more than 935K CpG sites in the human genome hg38. It is an update of the original EPIC v1.0 array (i.e., the 850K methylation array). 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Package: r-bioc-interactivecomplexheatmap Architecture: all Version: 1.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2012 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-complexheatmap, r-cran-shiny, r-cran-getoptlong, r-bioc-s4vectors, r-cran-digest, r-bioc-iranges, r-cran-kableextra, r-cran-svglite, r-cran-htmltools, r-cran-clisymbols, r-cran-jsonlite, r-cran-rcolorbrewer, r-cran-fontawesome Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-enrichedheatmap, r-bioc-genomicranges, r-cran-data.table, r-cran-circlize, r-bioc-genomicfeatures, r-cran-tidyverse, r-cran-tidyheatmap, r-cran-cluster, r-bioc-org.hs.eg.db, r-bioc-simplifyenrichment, r-bioc-go.db, r-bioc-sc3, r-bioc-goexpress, r-bioc-singlecellexperiment, r-bioc-scater, r-cran-gplots, r-cran-pheatmap, r-bioc-airway, r-bioc-deseq2, r-cran-dt, r-bioc-cola, r-cran-biocmanager, r-cran-gridtext, r-bioc-hilbertcurve, r-cran-shinydashboard, r-bioc-summarizedexperiment, r-cran-pkgndep, r-cran-ks Filename: pool/dists/focal/main/r-bioc-interactivecomplexheatmap_1.16.0-1.ca2004.1_all.deb Size: 1075292 MD5sum: ece70beccb057e0b7d1ec2e07843075c SHA1: 4e26f31bc4635354d00a64269dd349779a0214bf SHA256: 26cd26a38b33ac8807da35989958fcde5eb378d0559ac6b1d41e34ccc6091ed6 SHA512: d42f4988ea826aeec7b1c78431b20f5a1db863c163d2f052b1e95dd8625781a99f90cf46b68e3c65257f9b572c778d880b09490c1c4efab1a6dc038d9affab90 Homepage: https://cran.r-project.org/package=InteractiveComplexHeatmap Description: Bioc Package 'InteractiveComplexHeatmap' (Make Interactive Complex Heatmaps) This package can easily make heatmaps which are produced by the ComplexHeatmap package into interactive applications. 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Package: r-bioc-matrixgenerics Architecture: all Version: 1.20.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 648 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-matrixstats Suggests: r-cran-matrix, r-bioc-sparsematrixstats, r-bioc-sparsearray, r-bioc-delayedarray, r-bioc-delayedmatrixstats, r-bioc-summarizedexperiment, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-matrixgenerics_1.20.0-1.ca2004.1_all.deb Size: 426256 MD5sum: 11b837912ec0961e94a8fb32d589fc0a SHA1: 5f6ab40146c34a474be0790a64df3537921e0da9 SHA256: 30fbb3a41188df0fd7eae8480949f2986f4b3889a1ada9c1e44f256a1592ff4a SHA512: 2bc0029a7f5e0ab1529f4172235822ff5b68e343539aa6c213c0e456b05759187413364cba8dda0267a39c747400f7b6f49182c310d5099e80419191cd0d0303 Homepage: https://cran.r-project.org/package=MatrixGenerics Description: Bioc Package 'MatrixGenerics' (S4 Generic Summary Statistic Functions that Operate onMatrix-Like Objects) S4 generic functions modeled after the 'matrixStats' API for alternative matrix implementations. 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Package: r-bioc-meigor Architecture: all Version: 1.42.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2816 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rsolnp, r-cran-snowfall, r-cran-desolve, r-bioc-cnorode Suggests: r-bioc-cellnoptr, r-cran-knitr, r-bioc-biocstyle Filename: pool/dists/focal/main/r-bioc-meigor_1.42.0-1.ca2004.1_all.deb Size: 1713988 MD5sum: da446e131ae8568d8eb836fb877fbe62 SHA1: 71411815f95edcc7f71347e0ed253e8ea7bb1bdc SHA256: e61741369aac8fcc94b8d2f6b29fd50c97c85739afcad1bf62b5d64017130bb3 SHA512: 4fb50f4d3f9f0bc5786ce061e5d22911857b1076ca0d09bb2312b388b9c28fbfdd3280b3b2127dbb7fc3d6173c4b307eacc7c1d6eeea946e3cf47b36cb8667b8 Homepage: https://cran.r-project.org/package=MEIGOR Description: Bioc Package 'MEIGOR' (MEIGOR - MEtaheuristics for bIoinformatics Global Optimization) MEIGOR provides a comprehensive environment for performing global optimization tasks in bioinformatics and systems biology. 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'memes' provides data aware utilities for using GRanges objects as entrypoints to motif analysis, data structures for examining & editing motif lists, and novel data visualizations. 'memes' functions and data structures are amenable to both base R and tidyverse workflows. Package: r-bioc-mergeomics Architecture: all Version: 1.36.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8853 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-runit, r-bioc-biocgenerics Filename: pool/dists/focal/main/r-bioc-mergeomics_1.36.0-1.ca2004.1_all.deb Size: 2784464 MD5sum: b7ddc68558a9df9eef3e69ec33b1ee6e SHA1: 5a18d67a54f0d576221e87bde615ae3152bee720 SHA256: 89e802af6534fa9d16cceb9cc86f0fff22a63ad25a61ee77ae166790991c5441 SHA512: 14f3056f1d85cc107736e3c4cfad0f32d245df78e9b7d98c76cee940d04f678f03b4dfbaf255725b63ce6b0a201b2e694a5c88599c11381519c23112f4643821 Homepage: https://cran.r-project.org/package=Mergeomics Description: Bioc Package 'Mergeomics' (Integrative network analysis of omics data) The Mergeomics pipeline serves as a flexible framework for integrating multidimensional omics-disease associations, functional genomics, canonical pathways and gene-gene interaction networks to generate mechanistic hypotheses. 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Package: r-bioc-metabocoreutils Architecture: all Version: 1.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2859 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-mscoreutils, r-bioc-biocparallel Suggests: r-bioc-biocstyle, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-robustbase Filename: pool/dists/focal/main/r-bioc-metabocoreutils_1.16.0-1.ca2004.1_all.deb Size: 1298004 MD5sum: 03502b36477d1abfd0db1036971a5e87 SHA1: 2d6ba622a9de9d2f8460e9836331d9ffeacec81b SHA256: 618ce38e9b4bcf8b518a0d5592a069b5b45579ddd7db74940958604d9c17368d SHA512: 14bf2c1f17628ef0f1556afcb5c507704a6134176a008652a5391cd4f3025579533c4be39c7e1a6b6bd00da21d8d4b33a108be5502a029c6b57109cf463265bd Homepage: https://cran.r-project.org/package=MetaboCoreUtils Description: Bioc Package 'MetaboCoreUtils' (Core Utils for Metabolomics Data) MetaboCoreUtils defines metabolomics-related core functionality provided as low-level functions to allow a data structure-independent usage across various R packages. 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Package: r-bioc-metagenomeseq Architecture: all Version: 1.50.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2636 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-bioc-limma, r-cran-glmnet, r-cran-rcolorbrewer, r-cran-matrixstats, r-cran-foreach, r-cran-matrix, r-cran-gplots, r-bioc-wrench Suggests: r-bioc-annotate, r-bioc-biocgenerics, r-bioc-biomformat, r-cran-knitr, r-cran-gss, r-cran-testthat, r-cran-vegan, r-bioc-interactivedisplay, r-bioc-ihw Filename: pool/dists/focal/main/r-bioc-metagenomeseq_1.50.0-1.ca2004.1_all.deb Size: 2135208 MD5sum: 43864ca575237af3c9f799653097c721 SHA1: d67a1363f4febf2b0987492e90de796880ea37c5 SHA256: 850205bda1ec292c0b7212f82c6a3fcd6518cbe21ad48b15a916ddb49cf9b686 SHA512: 0bcfac58151ee910b6b77d9fe5532001b5c3c15d3e55502686e56d7d6279ffaa16eb76952b56a1ce70aa37ec7ad293e8d3833d997025c1871a051be2d291ac19 Homepage: https://cran.r-project.org/package=metagenomeSeq Description: Bioc Package 'metagenomeSeq' (Statistical analysis for sparse high-throughput sequencing) metagenomeSeq is designed to determine features (be it Operational Taxanomic Unit (OTU), species, etc.) that are differentially abundant between two or more groups of multiple samples. metagenomeSeq is designed to address the effects of both normalization and under-sampling of microbial communities on disease association detection and the testing of feature correlations. Package: r-bioc-methylumi Architecture: all Version: 2.54.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 12113 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-cran-scales, r-cran-reshape2, r-cran-ggplot2, r-cran-matrixstats, r-bioc-fdb.infiniummethylation.hg19, r-bioc-minfi, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-genomeinfodb, r-bioc-genomicranges, r-bioc-summarizedexperiment, r-cran-lattice, r-bioc-annotate, r-bioc-genefilter, r-bioc-annotationdbi, r-bioc-illuminaio, r-bioc-genomicfeatures Suggests: r-bioc-lumi, r-bioc-limma, r-cran-xtable, r-cran-sqn, r-cran-mass, r-bioc-rtracklayer, r-bioc-biostrings, r-bioc-tcgamethylation450k, r-bioc-illuminahumanmethylation450kanno.ilmn12.hg19, r-bioc-fdb.infiniummethylation.hg18, r-bioc-homo.sapiens, r-cran-knitr Filename: pool/dists/focal/main/r-bioc-methylumi_2.54.0-1.ca2004.1_all.deb Size: 7279716 MD5sum: 1baa1c16c981a16be2088a4a9ee97d80 SHA1: 6892f2a63ab6e93e0674e9f2a6db820e8eb6b229 SHA256: b1065572d1ea021d9c9866014b14b1544244fc8a3035579745fe6ee5e6be7b72 SHA512: fe9429be9f4b818c15c539eeb5ddfd7c9496c094da43d71dcd1584489ca17c1a646a08abea2b6e8a50c8e3da9a198ec3e73375fb30fb3522b6a24d0fca2ac047 Homepage: https://cran.r-project.org/package=methylumi Description: Bioc Package 'methylumi' (Handle Illumina methylation data) This package provides classes for holding and manipulating Illumina methylation data. Based on eSet, it can contain MIAME information, sample information, feature information, and multiple matrices of data. An "intelligent" import function, methylumiR can read the Illumina text files and create a MethyLumiSet. methylumIDAT can directly read raw IDAT files from HumanMethylation27 and HumanMethylation450 microarrays. Normalization, background correction, and quality control features for GoldenGate, Infinium, and Infinium HD arrays are also included. 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Package: r-bioc-microbiome Architecture: all Version: 1.30.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1518 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-phyloseq, r-cran-ggplot2, r-bioc-biostrings, r-cran-compositions, r-cran-dplyr, r-cran-reshape2, r-cran-rtsne, r-cran-scales, r-cran-tibble, r-cran-tidyr, r-cran-vegan Suggests: r-bioc-biocgenerics, r-bioc-biocstyle, r-cran-cairo, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-microbiome_1.30.0-1.ca2004.1_all.deb Size: 1005572 MD5sum: db827b6d0f51b83971edef2635ef99f6 SHA1: a425fb3d7d3d58126ba2be17008c87fbc98e52ac SHA256: e064d18ec4f414610d527607538904d9f7416ac68ec4ad4d4775949e9ba841c3 SHA512: 167152c7a014ede664f98cd2e722fc28ae3209774d4d95c346cd1454766f27ef1fe27d7a77797c820a52f2c83f3226ee1d3a021548a86bde9133d9ab85a91d1e Homepage: https://cran.r-project.org/package=microbiome Description: Bioc Package 'microbiome' (Microbiome Analytics) Utilities for microbiome analysis. Package: r-bioc-minfi Architecture: all Version: 1.54.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2573 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-genomicranges, r-bioc-summarizedexperiment, r-bioc-biostrings, r-bioc-bumphunter, r-bioc-s4vectors, r-bioc-genomeinfodb, r-bioc-biobase, r-bioc-iranges, r-cran-beanplot, r-cran-rcolorbrewer, r-cran-lattice, r-cran-nor1mix, r-bioc-siggenes, r-bioc-limma, r-bioc-preprocesscore, r-bioc-illuminaio, r-bioc-delayedmatrixstats, r-cran-mclust, r-bioc-genefilter, r-cran-nlme, r-cran-reshape, r-cran-mass, r-cran-quadprog, r-cran-data.table, r-bioc-geoquery, r-bioc-delayedarray, r-bioc-hdf5array, r-bioc-biocparallel Suggests: r-bioc-illuminahumanmethylation450kmanifest, r-bioc-illuminahumanmethylation450kanno.ilmn12.hg19, r-bioc-minfidata, r-bioc-minfidataepic, r-bioc-flowsorted.blood.450k, r-cran-runit, r-cran-digest, r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-minfi_1.54.0-1.ca2004.1_all.deb Size: 1340052 MD5sum: 4e0be8f6741ad3b12566984372ee7528 SHA1: cd5988eb1efbe141efd77571f21fdcb4f0ffe38e SHA256: 9511bf5b494516e84e7111ef4e3ddce789c15fcc02a6ca81628c8564d2f4d549 SHA512: 087db1bd069348c616906a5dc8ceb239f90df5711513987f807fdc92b2b72cf8bd799a94d1d0b1014672766eaefe8edb6650e564b667b8b2f612e4becc206951 Homepage: https://cran.r-project.org/package=minfi Description: Bioc Package 'minfi' (Analyze Illumina Infinium DNA methylation arrays) Tools to analyze & visualize Illumina Infinium methylation arrays. Package: r-bioc-missmethyl Architecture: all Version: 1.42.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2555 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-illuminahumanmethylation450kanno.ilmn12.hg19, r-bioc-illuminahumanmethylationepicanno.ilm10b4.hg19, r-bioc-illuminahumanmethylationepicv2anno.20a1.hg38, r-bioc-annotationdbi, r-cran-biasedurn, r-bioc-biobase, r-bioc-biocgenerics, r-bioc-genomicranges, r-bioc-go.db, r-bioc-illuminahumanmethylation450kmanifest, r-bioc-illuminahumanmethylationepicmanifest, r-bioc-illuminahumanmethylationepicv2manifest, r-bioc-iranges, r-bioc-limma, r-bioc-methylumi, r-bioc-minfi, r-bioc-org.hs.eg.db, r-cran-ruv, r-bioc-s4vectors, r-cran-statmod, r-cran-stringr, r-bioc-summarizedexperiment Suggests: r-bioc-biocstyle, r-bioc-edger, r-cran-knitr, r-bioc-minfidata, r-cran-rmarkdown, r-bioc-tweedeseqcountdata, r-bioc-dmrcate, r-bioc-experimenthub Filename: pool/dists/focal/main/r-bioc-missmethyl_1.42.0-1.ca2004.1_all.deb Size: 1551444 MD5sum: 5d2e0e28d4688ae9c61af268fc4a6139 SHA1: 9db2744af6f30ce752a4590bd3f033ae1951ced7 SHA256: 395feee939302f41ef1a15c2e7dfd739ea8f034e6f944f363f8913524136285c SHA512: ccdf13515465d5c65c4c4a90df2223aeb700bea3cf7019b881d61d04c391f1cf25596c7e21199ad488979ecefec8e2adc6028add1f46f3df37fe14dff237d93c Homepage: https://cran.r-project.org/package=missMethyl Description: Bioc Package 'missMethyl' (Analysing Illumina HumanMethylation BeadChip Data) Normalisation, testing for differential variability and differential methylation and gene set testing for data from Illumina's Infinium HumanMethylation arrays. The normalisation procedure is subset-quantile within-array normalisation (SWAN), which allows Infinium I and II type probes on a single array to be normalised together. The test for differential variability is based on an empirical Bayes version of Levene's test. Differential methylation testing is performed using RUV, which can adjust for systematic errors of unknown origin in high-dimensional data by using negative control probes. Gene ontology analysis is performed by taking into account the number of probes per gene on the array, as well as taking into account multi-gene associated probes. Package: r-bioc-mixomics Architecture: all Version: 6.32.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 24864 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-lattice, r-cran-ggplot2, r-cran-igraph, r-cran-ellipse, r-cran-corpcor, r-cran-rcolorbrewer, r-cran-dplyr, r-cran-tidyr, r-cran-reshape2, r-cran-matrixstats, r-cran-rarpack, r-cran-gridextra, r-cran-ggrepel, r-bioc-biocparallel, r-cran-gsignal, r-cran-rgl Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-mime, r-cran-testthat, r-cran-microbenchmark, r-cran-magick, r-cran-vdiffr, r-cran-kableextra, r-cran-devtools Filename: pool/dists/focal/main/r-bioc-mixomics_6.32.0-1.ca2004.1_all.deb Size: 19171228 MD5sum: cab10ce014fd5fd74aa098890371933c SHA1: dc57a4d7ecc37f802d3fddf107c5a4be705a24a7 SHA256: d2389a593febd4fc9b1347681580f99b1731fb39d961ab4d764dad8565980b0a SHA512: a17df12cca90c79b2d613eb44e30dabaee92260a22389cf1c2a72ac9263eb8acc77886d53be801567c335af1a43e8614c01483cc1afe4144dad37489cfca118d Homepage: https://cran.r-project.org/package=mixOmics Description: Bioc Package 'mixOmics' (Omics Data Integration Project) Multivariate methods are well suited to large omics data sets where the number of variables (e.g. genes, proteins, metabolites) is much larger than the number of samples (patients, cells, mice). They have the appealing properties of reducing the dimension of the data by using instrumental variables (components), which are defined as combinations of all variables. Those components are then used to produce useful graphical outputs that enable better understanding of the relationships and correlation structures between the different data sets that are integrated. mixOmics offers a wide range of multivariate methods for the exploration and integration of biological datasets with a particular focus on variable selection. The package proposes several sparse multivariate models we have developed to identify the key variables that are highly correlated, and/or explain the biological outcome of interest. The data that can be analysed with mixOmics may come from high throughput sequencing technologies, such as omics data (transcriptomics, metabolomics, proteomics, metagenomics etc) but also beyond the realm of omics (e.g. spectral imaging). The methods implemented in mixOmics can also handle missing values without having to delete entire rows with missing data. A non exhaustive list of methods include variants of generalised Canonical Correlation Analysis, sparse Partial Least Squares and sparse Discriminant Analysis. Recently we implemented integrative methods to combine multiple data sets: N-integration with variants of Generalised Canonical Correlation Analysis and P-integration with variants of multi-group Partial Least Squares. Package: r-bioc-mlinterfaces Architecture: all Version: 1.88.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5095 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rcpp, r-bioc-biocgenerics, r-bioc-biobase, r-bioc-annotate, r-cran-cluster, r-cran-gdata, r-cran-pls, r-cran-sfsmisc, r-cran-mass, r-cran-rpart, r-bioc-genefilter, r-cran-fpc, r-cran-ggvis, r-cran-shiny, r-cran-gbm, r-cran-rcolorbrewer, r-cran-hwriter, r-cran-threejs, r-cran-mlbench, r-cran-magrittr, r-bioc-summarizedexperiment Suggests: r-cran-class, r-cran-e1071, r-cran-ipred, r-cran-randomforest, r-bioc-gpls, r-cran-pamr, r-cran-nnet, r-bioc-all, r-bioc-hgu95av2.db, r-cran-som, r-bioc-hu6800.db, r-cran-lattice, r-cran-caret, r-bioc-golubesets, r-cran-ada, r-bioc-keggorthology, r-cran-kernlab, r-cran-mboost, r-cran-party, r-cran-klar, r-bioc-biocstyle, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-mlinterfaces_1.88.0-1.ca2004.1_all.deb Size: 3032968 MD5sum: a231007a9bebb617ff91430869586604 SHA1: 2fdbf561c7fcccc625c1680874e4816da7edf8c1 SHA256: f1672fbbab5b3c29dcf504d621176240aa69b5873d2777b148da79fd131e2d1c SHA512: 2e963e4508f59e4c78a29cd8514bded696caa295868d5a4fa1815567922e3e63f4bb6bc1027c2825fda074427fd724b1f2f7821a2edb146d069f05fc37c46e18 Homepage: https://cran.r-project.org/package=MLInterfaces Description: Bioc Package 'MLInterfaces' (Uniform interfaces to R machine learning procedures for data inBioconductor containers) This package provides uniform interfaces to machine learning code for data in R and Bioconductor containers. Package: r-bioc-motifdb Architecture: all Version: 1.50.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5099 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-genomicranges, r-bioc-biostrings, r-bioc-rtracklayer, r-cran-splitstackshape Suggests: r-cran-runit, r-bioc-seqlogo, r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-formatr, r-cran-markdown Filename: pool/dists/focal/main/r-bioc-motifdb_1.50.0-1.ca2004.1_all.deb Size: 4568008 MD5sum: f9fdba4afea3d08a2433c719963a8090 SHA1: bab428b7bf16009bef133364939ad0a346f91e84 SHA256: 8a4466f2e31c0ac7830f2d42d537ba1c64570fd81392378505d286dcadf63746 SHA512: 6b12ab703e15427675bc8d595469fd719a89f58eefa3004de2d3a65ebafdf728a1ca13adce52cb43ce833c064ee912bcab35a3a69054ecf7112cce422c151e35 Homepage: https://cran.r-project.org/package=MotifDb Description: Bioc Package 'MotifDb' (An Annotated Collection of Protein-DNA Binding Sequence Motifs) More than 9900 annotated position frequency matrices from 14 public sources, for multiple organisms. 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It works with both DNA/RNA sequence motif and amino acid sequence motif. In addition, it provides the flexibility for users to customize the graphic parameters such as the font type and symbol colors. Package: r-bioc-mpo.db Architecture: all Version: 0.99.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 599 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-annotationhub, r-bioc-biocfilecache, r-cran-dbi Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-mpo.db_0.99.8-1.ca2004.1_all.deb Size: 403376 MD5sum: d8ae2e77563fa041119be7bf5c40abac SHA1: a44cf74b367aa464d85d4f12a75c6fcae454a29b SHA256: f5c7e3dddb4960420f195060b118a8f08c4ec5c346429f2eaa0989a03e795af0 SHA512: f7a6cc45458053ea9a4c3ddbfe158d4aecb73c72fbc5b96cce330eca3d4ddd1550e2fba4d5e4896a5124b2cc55dedae17e33bb0984c21ddc23e5f2c12c099eec Homepage: https://cran.r-project.org/package=MPO.db Description: Bioc Package 'MPO.db' (A set of annotation maps describing the Mouse Phenotype Ontology) We have developed the human disease ontology R package HDO.db, which provides the semantic relationship between human diseases. Relying on the DOSE and GOSemSim packages we developed, we can carry out disease enrichment and semantic similarity analyses. Many biological studies are achieved through mouse models, and a large number of data indicate the association between genotypes and phenotypes or diseases. The study of model organisms can be transformed into useful knowledge about normal human biology and disease to facilitate treatment and early screening for diseases. Organism-specific genotype-phenotypic associations can be applied to cross-species phenotypic studies to clarify previously unknown phenotypic connections in other species. Using the same principle to diseases can identify genetic associations and even help to identify disease associations that are not obvious. Therefore, as a supplement to HDO.db and DOSE, we developed mouse phenotypic ontology R package MPO.db. Package: r-bioc-msexperiment Architecture: all Version: 1.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2659 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-protgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-spectra, r-bioc-summarizedexperiment, r-bioc-qfeatures, r-cran-dbi, r-bioc-biocgenerics Suggests: r-cran-testthat, r-cran-knitr, r-cran-roxygen2, r-bioc-biocstyle, r-cran-rmarkdown, r-bioc-rpx, r-bioc-mzr, r-bioc-msdata, r-bioc-msbackendsql, r-cran-rsqlite Filename: pool/dists/focal/main/r-bioc-msexperiment_1.10.0-1.ca2004.1_all.deb Size: 1454968 MD5sum: e90d4ac2c71274071da9e8560d9f54ef SHA1: a18c207e09b3f5fbf6d9926e4f31c809f216ebad SHA256: 57068ed4394cc0c5eccb07400daf013167ffea2ec4818667ab0c54f0d36c9af1 SHA512: c6f36ce04a79da18414f6b87ddd173d53476f8ff83b3727d55b59ed7c0049651193f17f0b40c8e2dd32578e1a0824e69e277504f9067c6416876433477d94981 Homepage: https://cran.r-project.org/package=MsExperiment Description: Bioc Package 'MsExperiment' (Infrastructure for Mass Spectrometry Experiments) Infrastructure to store and manage all aspects related to a complete proteomics or metabolomics mass spectrometry (MS) experiment. The MsExperiment package provides light-weight and flexible containers for MS experiments building on the new MS infrastructure provided by the Spectra, QFeatures and related packages. Along with raw data representations, links to original data files and sample annotations, additional metadata or annotations can also be stored within the MsExperiment container. To guarantee maximum flexibility only minimal constraints are put on the type and content of the data within the containers. Package: r-bioc-msfeatures Architecture: all Version: 1.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2630 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-protgenerics, r-bioc-mscoreutils, r-bioc-summarizedexperiment Suggests: r-cran-testthat, r-cran-roxygen2, r-bioc-biocstyle, r-cran-pheatmap, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-msfeatures_1.16.0-1.ca2004.1_all.deb Size: 1486768 MD5sum: 28bbb0edeef73e6e23586d79e4b19641 SHA1: 141766c77ad6afc95300524de53c70088b8a294a SHA256: ea002d87cc3377de8705d2d7f684a04faf48984b114d4f3c6b67429fb47967d5 SHA512: be5ecd24ea193413bdf77e699798dc2fade46582035ccdbb71a3c6fb3f400b641fcaf8751c328c9716558c8c3c2e6e46dbd90301a27bc757a212f8d3b69a7a38 Homepage: https://cran.r-project.org/package=MsFeatures Description: Bioc Package 'MsFeatures' (Functionality for Mass Spectrometry Features) The MsFeature package defines functionality for Mass Spectrometry features. This includes functions to group (LC-MS) features based on some of their properties, such as retention time (coeluting features), or correlation of signals across samples. This packge hence allows to group features, and its results can be used as an input for the `QFeatures` package which allows to aggregate abundance levels of features within each group. This package defines concepts and functions for base and common data types, implementations for more specific data types are expected to be implemented in the respective packages (such as e.g. `xcms`). All functionality of this package is implemented in a modular way which allows combination of different grouping approaches and enables its re-use in other R packages. Package: r-bioc-multiassayexperiment Architecture: all Version: 1.34.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3911 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-summarizedexperiment, r-bioc-biobase, r-bioc-biocbaseutils, r-bioc-biocgenerics, r-bioc-delayedarray, r-bioc-genomicranges, r-bioc-iranges, r-bioc-s4vectors, r-cran-tidyr Suggests: r-bioc-biocstyle, r-bioc-hdf5array, r-bioc-h5mread, r-cran-knitr, r-bioc-maftools, r-cran-r.rsp, r-bioc-raggedexperiment, r-cran-reshape2, r-cran-rmarkdown, r-cran-survival, r-cran-survminer, r-cran-testthat, r-cran-upsetr Filename: pool/dists/focal/main/r-bioc-multiassayexperiment_1.34.0-1.ca2004.1_all.deb Size: 1428944 MD5sum: cada6fa99cb1a48c2ab6932d9809071b SHA1: 9e4cc148362b4f06e736842efc0dbc867bde4b4b SHA256: 4484811e71ed0338caaccba750600bd5b21efcd2e0eb237cb241c58dc2f4ab87 SHA512: 6d6f84604a2036abed79d64c6db598718dc50c8b0b8f310b7332eae703e3a242abbeec02acd09b6615e2d7b79204f5e8757419e753e173e4d0aec60d8160c01b Homepage: https://cran.r-project.org/package=MultiAssayExperiment Description: Bioc Package 'MultiAssayExperiment' (Software for the integration of multi-omics experiments inBioconductor) Harmonize data management of multiple experimental assays performed on an overlapping set of specimens. It provides a familiar Bioconductor user experience by extending concepts from SummarizedExperiment, supporting an open-ended mix of standard data classes for individual assays, and allowing subsetting by genomic ranges or rownames. Facilities are provided for reshaping data into wide and long formats for adaptability to graphing and downstream analysis. 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MultiDataSet is designed for integrating multi omics data sets and ResultSet is a container for omics results. This package contains base classes for MEAL and rexposome packages. Package: r-bioc-multihiccompare Architecture: all Version: 1.26.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7063 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-bioc-hiccompare, r-bioc-edger, r-bioc-biocparallel, r-cran-qqman, r-cran-pheatmap, r-bioc-genomicranges, r-cran-pbapply, r-bioc-genomeinfodbdata, r-bioc-genomeinfodb, r-cran-aggregation Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-biocstyle Filename: pool/dists/focal/main/r-bioc-multihiccompare_1.26.0-1.ca2004.1_all.deb Size: 5273784 MD5sum: a36976c82cc879e936f937d0e61b8761 SHA1: 4f9438d525e08f1153c89775c377b035ccdfcd16 SHA256: ae137a073af147c66f570df2522ca0820621b86893a90ee3a845094db0bffec4 SHA512: 55bab52664f37d91164af181b20edc6a77fb6f288498b9f3476a1ad502b3fdf301f7c2e56ef24303bb6ccc802b090bee71f3b4000fe80b068d2b8b90c5b01de7 Homepage: https://cran.r-project.org/package=multiHiCcompare Description: Bioc Package 'multiHiCcompare' (Normalize and detect differences between Hi-C datasets whenreplicates of each experimental condition are available) multiHiCcompare provides functions for joint normalization and difference detection in multiple Hi-C datasets. This extension of the original HiCcompare package now allows for Hi-C experiments with more than 2 groups and multiple samples per group. multiHiCcompare operates on processed Hi-C data in the form of sparse upper triangular matrices. It accepts four column (chromosome, region1, region2, IF) tab-separated text files storing chromatin interaction matrices. multiHiCcompare provides cyclic loess and fast loess (fastlo) methods adapted to jointly normalizing Hi-C data. Additionally, it provides a general linear model (GLM) framework adapting the edgeR package to detect differences in Hi-C data in a distance dependent manner. Package: r-bioc-mungesumstats Architecture: all Version: 1.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4284 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-r.utils, r-cran-dplyr, r-bioc-genomicranges, r-bioc-genomeinfodb, r-bioc-iranges, r-cran-ieugwasr, r-bioc-bsgenome, r-bioc-biostrings, r-cran-stringr, r-bioc-variantannotation, r-bioc-rtracklayer, r-cran-rcurl Suggests: r-bioc-snplocs.hsapiens.dbsnp144.grch37, r-bioc-snplocs.hsapiens.dbsnp144.grch38, r-bioc-snplocs.hsapiens.dbsnp155.grch37, r-bioc-snplocs.hsapiens.dbsnp155.grch38, r-bioc-bsgenome.hsapiens.1000genomes.hs37d5, r-bioc-bsgenome.hsapiens.ncbi.grch38, r-bioc-biocgenerics, r-bioc-s4vectors, r-cran-rmarkdown, r-cran-markdown, r-cran-knitr, r-cran-testthat, r-cran-upsetr, r-bioc-biocstyle, r-cran-covr, r-bioc-rsamtools, r-bioc-matrixgenerics, r-cran-badger, r-bioc-biocparallel, r-bioc-genomicfiles Filename: pool/dists/focal/main/r-bioc-mungesumstats_1.16.0-1.ca2004.1_all.deb Size: 2385756 MD5sum: 94d8c7b67bee2ba0e72c0564b2b7e203 SHA1: 19ae723f039458c6517c3f168aa2c5fbcf81c5b9 SHA256: d8c2bc96ca25218f114fe10fcb9394a317719ff3e186911bc8a32652cb50e071 SHA512: ecf62f6d256e4aea09c22447cb6cfc092f7c8ded9cf366b3cae816ac375db0e5b235d728b5afc0c92f16d835720b6d951a2cf876a029955cd3e642f020aefabe Homepage: https://cran.r-project.org/package=MungeSumstats Description: Bioc Package 'MungeSumstats' (Standardise summary statistics from GWAS) The *MungeSumstats* package is designed to facilitate the standardisation of GWAS summary statistics. It reformats inputted summary statisitics to include SNP, CHR, BP and can look up these values if any are missing. It also pefrorms dozens of QC and filtering steps to ensure high data quality and minimise inter-study differences. Package: r-bioc-mutationalpatterns Architecture: all Version: 3.18.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10146 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-genomicranges, r-cran-nmf, r-bioc-s4vectors, r-bioc-biocgenerics, r-bioc-bsgenome, r-bioc-variantannotation, r-cran-dplyr, r-cran-tibble, r-cran-purrr, r-cran-tidyr, r-cran-stringr, r-cran-magrittr, r-cran-ggplot2, r-cran-pracma, r-bioc-iranges, r-bioc-genomeinfodb, r-bioc-biostrings, r-cran-ggdendro, r-cran-cowplot, r-cran-ggalluvial, r-cran-rcolorbrewer Suggests: r-bioc-bsgenome.hsapiens.ucsc.hg19, r-bioc-biocstyle, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-bioc-biomart, r-cran-gridextra, r-bioc-rtracklayer, r-bioc-ccfindr, r-bioc-genomicfeatures, r-bioc-annotationdbi, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-mutationalpatterns_3.18.0-1.ca2004.1_all.deb Size: 6220296 MD5sum: 37df658a621bc1f45f9daab41d75e4bd SHA1: f2b863483dd77f640e3c20c868740674c0df6a24 SHA256: c7b093b5d50d90f9cb7516975c461fbcbb3935f68cbc5ee1b0690d000e4b80e0 SHA512: b162962c486c7fdb1f0d8eee45d384e81a1e31acd80b33874ffdf8d7251229e277cdd8e9119c6b2d364ebd52fe4fbb2bd09025851168525c0c26d6766d599924 Homepage: https://cran.r-project.org/package=MutationalPatterns Description: Bioc Package 'MutationalPatterns' (Comprehensive genome-wide analysis of mutational processes) Mutational processes leave characteristic footprints in genomic DNA. This package provides a comprehensive set of flexible functions that allows researchers to easily evaluate and visualize a multitude of mutational patterns in base substitution catalogues of e.g. healthy samples, tumour samples, or DNA-repair deficient cells. The package covers a wide range of patterns including: mutational signatures, transcriptional and replicative strand bias, lesion segregation, genomic distribution and association with genomic features, which are collectively meaningful for studying the activity of mutational processes. The package works with single nucleotide variants (SNVs), insertions and deletions (Indels), double base substitutions (DBSs) and larger multi base substitutions (MBSs). The package provides functionalities for both extracting mutational signatures de novo and determining the contribution of previously identified mutational signatures on a single sample level. MutationalPatterns integrates with common R genomic analysis workflows and allows easy association with (publicly available) annotation data. Package: r-bioc-mzid Architecture: all Version: 1.46.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3395 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-xml, r-cran-plyr, r-cran-doparallel, r-cran-foreach, r-cran-iterators, r-bioc-protgenerics Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-mzid_1.46.0-1.ca2004.1_all.deb Size: 732880 MD5sum: bf6fe12981315a5084837ebd4686e8b1 SHA1: ba530b41149bb23e022da06a3ea764e88addf4cd SHA256: c6d88356f2b875db7effa2000db12473757a07e1f6240dfaef8b05018f86b652 SHA512: 6646ad8a1a4e4332746ae3e568c354bf8e72177736faeb4757bf7a01e23d28b58e724492a4220b01c9a0efb0516f5b8ec64742fe3e1e05467950ab8d52998de5 Homepage: https://cran.r-project.org/package=mzID Description: Bioc Package 'mzID' (An mzIdentML parser for R) A parser for mzIdentML files implemented using the XML package. 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Package: r-bioc-netsam Architecture: all Version: 1.48.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3088 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-seriation, r-cran-igraph, r-cran-wgcna, r-bioc-biomart, r-bioc-annotationdbi, r-cran-doparallel, r-cran-foreach, r-cran-survival, r-bioc-go.db, r-cran-r2html, r-cran-dbi Suggests: r-cran-runit, r-bioc-biocgenerics, r-bioc-org.sc.sgd.db, r-bioc-org.hs.eg.db, r-bioc-org.mm.eg.db, r-bioc-org.rn.eg.db, r-bioc-org.dr.eg.db, r-bioc-org.ce.eg.db, r-bioc-org.cf.eg.db, r-bioc-org.dm.eg.db, r-bioc-org.at.tair.db, r-cran-rmarkdown, r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-bioc-netsam_1.48.0-1.ca2004.1_all.deb Size: 1127724 MD5sum: f26851696634b93d88df742ec7ca8ac3 SHA1: f3b74430ca96462efca6cd27de9780e5d3b4c03e SHA256: 605b36cfa23ddbcb4733d7504293acdec9c75f8cb20e3acfa17588da9dedf52a SHA512: a649c9690466cbf4f4778e625a2478eb4f5fca3d972c034291104217fcd5f6b8f97e1500497aba52f4ed24c4975f6ca879b8911f07fe320f6f5269f311a8ecd2 Homepage: https://cran.r-project.org/package=NetSAM Description: Bioc Package 'NetSAM' (Network Seriation And Modularization) The NetSAM (Network Seriation and Modularization) package takes an edge-list representation of a weighted or unweighted network as an input, performs network seriation and modularization analysis, and generates as files that can be used as an input for the one-dimensional network visualization tool NetGestalt (http://www.netgestalt.org) or other network analysis. The NetSAM package can also generate correlation network (e.g. co-expression network) based on the input matrix data, perform seriation and modularization analysis for the correlation network and calculate the associations between the sample features and modules or identify the associated GO terms for the modules. Package: r-bioc-noiseq Architecture: all Version: 2.52.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2716 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-cran-matrix Filename: pool/dists/focal/main/r-bioc-noiseq_2.52.0-1.ca2004.1_all.deb Size: 2508216 MD5sum: adf8bd10157d503c851b54a768c5866b SHA1: 383b94c55b61d7f60db7adf394d82a09d736097a SHA256: 207b1c652d575054abd3da9b25a2c6301d8b0060fd6679c55d68459f4a53fdb8 SHA512: 801203cc8983001f8308e3b199047d72b5146ea101be379b3a9b661a93ed9e5d2fb499985ce91b8fecd6ea8b66aec0cf99f166cf4b59c3a7e0710e79bc86a230 Homepage: https://cran.r-project.org/package=NOISeq Description: Bioc Package 'NOISeq' (Exploratory analysis and differential expression for RNA-seqdata) Analysis of RNA-seq expression data or other similar kind of data. Exploratory plots to evualuate saturation, count distribution, expression per chromosome, type of detected features, features length, etc. Differential expression between two experimental conditions with no parametric assumptions. Package: r-bioc-oligoclasses Architecture: all Version: 1.70.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1819 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-biobase, r-bioc-iranges, r-bioc-genomicranges, r-bioc-summarizedexperiment, r-bioc-biostrings, r-bioc-affyio, r-cran-foreach, r-cran-biocmanager, r-bioc-s4vectors, r-cran-rsqlite, r-cran-dbi, r-cran-ff Suggests: r-bioc-hapmapsnp5, r-bioc-hapmapsnp6, r-bioc-pd.genomewidesnp.6, r-bioc-pd.genomewidesnp.5, r-bioc-pd.mapping50k.hind240, r-bioc-pd.mapping50k.xba240, r-bioc-pd.mapping250k.sty, r-bioc-pd.mapping250k.nsp, r-bioc-genomewidesnp6crlmm, r-bioc-genomewidesnp5crlmm, r-cran-runit, r-bioc-human370v1ccrlmm, r-bioc-vanillaice, r-bioc-crlmm Filename: pool/dists/focal/main/r-bioc-oligoclasses_1.70.0-1.ca2004.1_all.deb Size: 1270496 MD5sum: 158b54f2244a9dc689b581eadd374fde SHA1: 06701a1ac669855dfb30c20de9178a0f60cd81e3 SHA256: 25134fe86d50c8a7c4feb33fa1272d3bb7959c84c628f010c9f5e40da7205f84 SHA512: aa8f30a02c5614afafc76bac2f89d1d1f60427da6fe1d3c3752d7ed952bbc493cdd0af12fd77c91798747b6332ebadfcacf5e04df699f83aa1ee93319a01f8c4 Homepage: https://cran.r-project.org/package=oligoClasses Description: Bioc Package 'oligoClasses' (Classes for high-throughput arrays supported by oligo and crlmm) This package contains class definitions, validity checks, and initialization methods for classes used by the oligo and crlmm packages. Package: r-bioc-org.dr.eg.db Architecture: all Version: 3.21.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118680 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi Suggests: r-cran-dbi, r-bioc-annotate, r-cran-runit Filename: pool/dists/focal/main/r-bioc-org.dr.eg.db_3.21.0-1.ca2004.1_all.deb Size: 13405760 MD5sum: 47ee09a838c9feca0c9c1fbb0d69856c SHA1: 351bc905e148b58ccdbdcf9404249ef507673fc3 SHA256: 7c406e08abdc1696b8d8ab670d0e285b57da1cce5752ab51e16cbec86ee9166c SHA512: 070ddd4c4c20ee57f2c1f235e4361df3936dd0fe6c66b0ead93951afe111bee3022cde6436878606ef625e63f06d9d23f03ecf1c760a29b24fa3b6545667790d Homepage: https://cran.r-project.org/package=org.Dr.eg.db Description: Bioc Package 'org.Dr.eg.db' (Genome wide annotation for Zebrafish) Genome wide annotation for Zebrafish, primarily based on mapping using Entrez Gene identifiers. Package: r-bioc-org.hs.eg.db Architecture: all Version: 3.21.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 374325 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi Suggests: r-cran-dbi, r-bioc-annotate, r-cran-runit Filename: pool/dists/focal/main/r-bioc-org.hs.eg.db_3.21.0-1.ca2004.1_all.deb Size: 40451076 MD5sum: 2e9888ae4d01fc4b1550697e2321f9b4 SHA1: f403e3a4b62567616d173e83d573850bcdbf12cf SHA256: 231359d610013ce7f5b39698024e634f227cdef4b4551fc974b3398f8dbef55c SHA512: 4ef912a3141b5eefc15309ad6b9f02bfcd23aef03ea9f1a5ae38d7ee53cb50d9c8d375f9fd36a311e82976b20a7c5b769d7978af2b10018ebfc69a339d7897a1 Homepage: https://cran.r-project.org/package=org.Hs.eg.db Description: Bioc Package 'org.Hs.eg.db' (Genome wide annotation for Human) Genome wide annotation for Human, primarily based on mapping using Entrez Gene identifiers. Package: r-bioc-org.mm.eg.db Architecture: all Version: 3.21.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 349323 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi Suggests: r-cran-dbi, r-bioc-annotate, r-cran-runit Filename: pool/dists/focal/main/r-bioc-org.mm.eg.db_3.21.0-1.ca2004.1_all.deb Size: 35720852 MD5sum: b6e2bf36b124bbee29aa2a97f6283f6f SHA1: 9b0313049ed5992fb55f553ebc6c09255fab6bed SHA256: 1bf9c86d154df31ed27b817432389d1c053b30153929aaf147622e4862d1e8f0 SHA512: 12b16ce44a1ee6dccf9ffd21000f50fc4a63b27eae778c259ae7d3472c4ac90bbb1eac767e5cc385d062c061f6724fc8595bd12f8e3be5ab31692f3a21fe6b8c Homepage: https://cran.r-project.org/package=org.Mm.eg.db Description: Bioc Package 'org.Mm.eg.db' (Genome wide annotation for Mouse) Genome wide annotation for Mouse, primarily based on mapping using Entrez Gene identifiers. Package: r-bioc-organismdbi Architecture: all Version: 1.50.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1384 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-annotationdbi, r-bioc-genomicfeatures, r-cran-dbi, r-cran-biocmanager, r-bioc-biobase, r-bioc-graph, r-bioc-rbgl, r-bioc-s4vectors, r-bioc-iranges, r-bioc-genomicranges, r-bioc-txdbmaker Suggests: r-bioc-homo.sapiens, r-bioc-rattus.norvegicus, r-bioc-bsgenome.hsapiens.ucsc.hg19, r-bioc-annotationhub, r-bioc-fdb.ucsc.trnas, r-bioc-mirbase.db, r-bioc-rtracklayer, r-bioc-biomart, r-cran-runit, r-cran-rmariadb, r-bioc-biocstyle, r-cran-knitr Filename: pool/dists/focal/main/r-bioc-organismdbi_1.50.0-1.ca2004.1_all.deb Size: 701676 MD5sum: e5a2e4cbe16b6c11397e7e35a25dcd71 SHA1: 075270aafc07dc364982e177c62dd3ca1ef6c174 SHA256: f029ae807673f6183755b8b743071754c36a747c317244ce345769e6919d7e5a SHA512: bc5b59f9ff5c15d558fae02a7d6f17681606163c0c6fb217e48aa55d3fd503b84d2e11d9853f8f34ef36c57f64c0c8d66b5a6f22c016cf02cd74f460a62adaa3 Homepage: https://cran.r-project.org/package=OrganismDbi Description: Bioc Package 'OrganismDbi' (Software to enable the smooth interfacing of different databasepackages) The package enables a simple unified interface to several annotation packages each of which has its own schema by taking advantage of the fact that each of these packages implements a select methods. Package: r-bioc-pasilla Architecture: all Version: 1.36.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 23786 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-dexseq Suggests: r-cran-rmarkdown, r-bioc-biocstyle, r-cran-knitr, r-cran-roxygen2 Filename: pool/dists/focal/main/r-bioc-pasilla_1.36.0-1.ca2004.1_all.deb Size: 1803256 MD5sum: 29f8ede65b17ecf32fec3b3bd1e2d932 SHA1: fb7ce97b76b9a8640fa11591699a79f6544ccf59 SHA256: 087ac447711f024c27a8587be4e85140d172bb579d8ae88c2cc1ca8af064d84a SHA512: 36011e395d7c4202d3ec695cc893248b4eac94892ed0ed2fe9dd7e6647148db6be3fba9450be98d14bb11f2133c3449850e95e87b96dad241d23ec930138e4ff Homepage: https://cran.r-project.org/package=pasilla Description: Bioc Package 'pasilla' (Data package with per-exon and per-gene read counts of RNA-seqsamples of Pasilla knock-down by Brooks et al., Genome Research2011.) This package provides per-exon and per-gene read counts computed for selected genes from RNA-seq data that were presented in the article "Conservation of an RNA regulatory map between Drosophila and mammals" by Brooks AN, Yang L, Duff MO, Hansen KD, Park JW, Dudoit S, Brenner SE, Graveley BR, Genome Res. 2011 Feb;21(2):193-202, Epub 2010 Oct 4, PMID: 20921232. The experiment studied the effect of RNAi knockdown of Pasilla, the Drosophila melanogaster ortholog of mammalian NOVA1 and NOVA2, on the transcriptome. The package vignette describes how the data provided here were derived from the RNA-Seq read sequence data that are provided by NCBI Gene Expression Omnibus under accession numbers GSM461176 to GSM461181. Package: r-bioc-pathview Architecture: all Version: 1.48.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3313 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-kegggraph, r-cran-xml, r-bioc-rgraphviz, r-bioc-graph, r-cran-png, r-bioc-annotationdbi, r-bioc-org.hs.eg.db, r-bioc-keggrest Suggests: r-bioc-gage, r-bioc-org.mm.eg.db, r-cran-runit, r-bioc-biocgenerics Filename: pool/dists/focal/main/r-bioc-pathview_1.48.0-1.ca2004.1_all.deb Size: 3049112 MD5sum: 10c2b28f64bbe7648269f3b9427bbda1 SHA1: 9e29527a41a012c7dcbc0f4bb0459c2540c63bf5 SHA256: 039bb04ce6b44e4cc090c6697c209d40a83788afc2375b820910b39992870b9a SHA512: e47b70328815e37a1d32efcc0f3bfc3e31cb269f863fb89f7e3a70f078609ec9522cdeee1250c5f0884bbf36c2060f29d27cb4f7f0e99a17f99e9b442a03e674 Homepage: https://cran.r-project.org/package=pathview Description: Bioc Package 'pathview' (a tool set for pathway based data integration and visualization) Pathview is a tool set for pathway based data integration and visualization. It maps and renders a wide variety of biological data on relevant pathway graphs. All users need is to supply their data and specify the target pathway. Pathview automatically downloads the pathway graph data, parses the data file, maps user data to the pathway, and render pathway graph with the mapped data. In addition, Pathview also seamlessly integrates with pathway and gene set (enrichment) analysis tools for large-scale and fully automated analysis. Package: r-bioc-pfam.db Architecture: all Version: 3.21.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 27769 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi Suggests: r-cran-dbi Filename: pool/dists/focal/main/r-bioc-pfam.db_3.21.0-1.ca2004.1_all.deb Size: 3577648 MD5sum: fe7b53015fd24759a6fda4948a5c0ad2 SHA1: c814d05f4b0358d094a343201ae630daa27c92a4 SHA256: d1d688b98e28b383bcb081713612953bb5dcf44ae43b4a12e7e182046ddce462 SHA512: 547dd3cce0e3fb4b26c979d735dfacb002101807cd6399a58ea2a2025388e2a768d048405e48b776982720ea08a992bb2ace251c1b10f05672f7d4ae4f3c1c9e Homepage: https://cran.r-project.org/package=PFAM.db Description: Bioc Package 'PFAM.db' (A set of protein ID mappings for PFAM) A set of protein ID mappings for PFAM assembled using data from public repositories Package: r-bioc-pfamanalyzer Architecture: all Version: 1.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 842 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-readr, r-cran-stringr, r-cran-dplyr, r-cran-tibble, r-cran-magrittr Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-pfamanalyzer_1.8.0-1.ca2004.1_all.deb Size: 286904 MD5sum: 822858703540f49fcd1b131b54f6da3b SHA1: 0cbd1e94dfa61be47515fa9df13c72e1d9d25ba0 SHA256: 24af17ad2221b53fbd92c759cde7563bed0ffcab06c48065d2f4bcec33b6eff2 SHA512: 2971cc3d1f375916251243d055e8d06b48e0cd6e5aee4991c630f300ed4eaf739069e297f8f1094ee3fb0382bb8dd3c36f14f2c0e28bec36b7a650598863aa13 Homepage: https://cran.r-project.org/package=pfamAnalyzeR Description: Bioc Package 'pfamAnalyzeR' (Identification of domain isotypes in pfam data) Protein domains is one of the most import annoation of proteins we have with the Pfam database/tool being (by far) the most used tool. This R package enables the user to read the pfam prediction from both webserver and stand-alone runs into R. We have recently shown most human protein domains exist as multiple distinct variants termed domain isotypes. Different domain isotypes are used in a cell, tissue, and disease-specific manner. Accordingly, we find that domain isotypes, compared to each other, modulate, or abolish the functionality of a protein domain. This R package enables the identification and classification of such domain isotypes from Pfam data. Package: r-bioc-phyloseq Architecture: all Version: 1.52.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10287 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ade4, r-cran-ape, r-bioc-biobase, r-bioc-biocgenerics, r-bioc-biomformat, r-bioc-biostrings, r-cran-cluster, r-cran-data.table, r-cran-foreach, r-cran-ggplot2, r-cran-igraph, r-bioc-multtest, r-cran-plyr, r-cran-reshape2, r-cran-scales, r-cran-vegan Suggests: r-bioc-biocstyle, r-bioc-deseq2, r-bioc-genefilter, r-cran-knitr, r-cran-magrittr, r-bioc-metagenomeseq, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-phyloseq_1.52.0-1.ca2004.1_all.deb Size: 5752300 MD5sum: ff479d127ed433dc18bd8181adf516ae SHA1: 65270ee4a0635f8e50db4ddfd5510d6462df4412 SHA256: aa46493f93a49b25fd98ddb81c023ffc57d765031aa0d7bbcd1a2fb668868622 SHA512: e664b1f76569e09c9d35ec1538cd7fd53fd9139ed608da8d7dfc86e8c26c5fe2f2c3badf0f59e66b4f9005f5c59148476c862af37f7a3ee821717d4013c4efbc Homepage: https://cran.r-project.org/package=phyloseq Description: Bioc Package 'phyloseq' (Handling and analysis of high-throughput microbiome census data) phyloseq provides a set of classes and tools to facilitate the import, storage, analysis, and graphical display of microbiome census data. Package: r-bioc-piano Architecture: all Version: 2.24.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2340 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-biobase, r-cran-gplots, r-cran-igraph, r-cran-relations, r-bioc-marray, r-bioc-fgsea, r-cran-shiny, r-cran-dt, r-cran-htmlwidgets, r-cran-shinyjs, r-cran-shinydashboard, r-cran-visnetwork, r-cran-scales Suggests: r-bioc-yeast2.db, r-bioc-rsbml, r-cran-plotrix, r-bioc-limma, r-bioc-affy, r-bioc-plier, r-bioc-affyplm, r-cran-gtools, r-bioc-biomart, r-cran-snowfall, r-bioc-annotationdbi, r-cran-knitr, r-cran-rmarkdown, r-bioc-biocstyle Filename: pool/dists/focal/main/r-bioc-piano_2.24.0-1.ca2004.1_all.deb Size: 1680924 MD5sum: 62d120a8f3e7b1bce5fa786a13cbe6f7 SHA1: 3fb15925d664232817de4a0762d3b5dd279ab8eb SHA256: 5056f028fd00275b92f761664827a017e0f01f95e17c754841e4e1b87f1cd660 SHA512: fa507c5ee419c419fa54bdde96c3a92c7e4010e0a2520ce021bad6d4cb7f60cc14c8edd0e3951b7859f91d7ebcd6fbbff999816ff8700e99d7ec03951bdf3712 Homepage: https://cran.r-project.org/package=piano Description: Bioc Package 'piano' (Platform for integrative analysis of omics data) Piano performs gene set analysis using various statistical methods, from different gene level statistics and a wide range of gene-set collections. Furthermore, the Piano package contains functions for combining the results of multiple runs of gene set analyses. 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It provides functions to model peptide-protein relations as adjacency matrices and connected components, visualise these as graphs and make informed decision about shared peptide filtering. The package also provides functions to calculate and visualise MS2 fragment ions. Package: r-bioc-purecn Architecture: all Version: 2.14.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7990 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-dnacopy, r-bioc-variantannotation, r-bioc-genomicranges, r-bioc-iranges, r-cran-rcolorbrewer, r-bioc-s4vectors, r-cran-data.table, r-bioc-summarizedexperiment, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-bioc-rsamtools, r-bioc-biobase, r-bioc-biostrings, r-bioc-biocgenerics, r-bioc-rtracklayer, r-cran-ggplot2, r-cran-gridextra, r-cran-futile.logger, r-cran-vgam, r-cran-mclust, r-bioc-rhdf5, r-cran-matrix Suggests: r-bioc-biocparallel, r-bioc-biocstyle, r-cran-pscbs, r-cran-r.utils, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-cran-covr, r-cran-knitr, r-cran-optparse, r-bioc-org.hs.eg.db, r-cran-jsonlite, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-purecn_2.14.1-1.ca2004.1_all.deb Size: 6309628 MD5sum: c4c92ca21399acc5bad2ef5dade46d41 SHA1: 4153bf1625ab4381f83a87be5ee65452a4c36c07 SHA256: 90132b3b5b06655fa9cdb9613977dd1e9398fa4341714199cc457f576179f277 SHA512: e3448cde116b93ec697df25605ad46da106726e55e0c8054f689d8a176470a3c78c16f9208c4137362a2aac888f638bb00a860971903e50f11aba60bccfa27f4 Homepage: https://cran.r-project.org/package=PureCN Description: Bioc Package 'PureCN' (Copy number calling and SNV classification using targeted shortread sequencing) This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide variants (SNVs) by somatic status and clonality. PureCN is designed for targeted short read sequencing data, integrates well with standard somatic variant detection and copy number pipelines, and has support for tumor samples without matching normal samples. Package: r-bioc-pvca Architecture: all Version: 1.48.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-matrix, r-bioc-biobase, r-bioc-vsn, r-cran-lme4 Suggests: r-bioc-golubesets Filename: pool/dists/focal/main/r-bioc-pvca_1.48.0-1.ca2004.1_all.deb Size: 228904 MD5sum: 70f1e9bb08ba70c07b5d3ea1bef9fdf1 SHA1: ef23b8bcab69fdf22c7c77c8bfaedd2b5b2ca3bc SHA256: 19b355e7ee57ebcbb570b772daa25e9cc7295ad3e94b730c6828db5cd493ba08 SHA512: 541b267a1b4f6fc4ff7335209d63f107dbf4dd96bbae96889cb5251bb7b36a3cd09b008859f4363829a27464eca463aa6cea0cb3cb04f843bfdc920b8f85c7d2 Homepage: https://cran.r-project.org/package=pvca Description: Bioc Package 'pvca' (Principal Variance Component Analysis (PVCA)) This package contains the function to assess the batch sourcs by fitting all "sources" as random effects including two-way interaction terms in the Mixed Model(depends on lme4 package) to selected principal components, which were obtained from the original data correlation matrix. This package accompanies the book "Batch Effects and Noise in Microarray Experiements, chapter 12. Package: r-bioc-pwmenrich Architecture: all Version: 4.44.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2331 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-biostrings, r-bioc-seqlogo, r-cran-gdata, r-cran-evd, r-bioc-s4vectors Suggests: r-bioc-motifdb, r-bioc-bsgenome, r-bioc-bsgenome.dmelanogaster.ucsc.dm3, r-bioc-pwmenrich.dmelanogaster.background, r-cran-testthat, r-cran-gtools, r-bioc-pwmenrich.hsapiens.background, r-bioc-pwmenrich.mmusculus.background, r-bioc-biocstyle, r-cran-knitr Filename: pool/dists/focal/main/r-bioc-pwmenrich_4.44.0-1.ca2004.1_all.deb Size: 2043808 MD5sum: 5f03c5417f0a10ba77cf5c8f583715c7 SHA1: d2406b9df188e8768c7fa6388c470b3e4d382c7f SHA256: 3ff893c8251b9cb2bfa87e5b1a7b8fe5ac77ba973ddd0a2a991df7049aa789fa SHA512: f6396b8ba48f9909e406252869691f329c02508679142077de8b20962f6c90574e3c4c60d15c9823d11b59e101ee03f152a51e5fd02e3e9da2e9ef4e6a8df667 Homepage: https://cran.r-project.org/package=PWMEnrich Description: Bioc Package 'PWMEnrich' (PWM enrichment analysis) A toolkit of high-level functions for DNA motif scanning and enrichment analysis built upon Biostrings. The main functionality is PWM enrichment analysis of already known PWMs (e.g. from databases such as MotifDb), but the package also implements high-level functions for PWM scanning and visualisation. The package does not perform "de novo" motif discovery, but is instead focused on using motifs that are either experimentally derived or computationally constructed by other tools. Package: r-bioc-qdnaseq Architecture: all Version: 1.44.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1962 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-bioc-cghbase, r-bioc-cghcall, r-bioc-dnacopy, r-bioc-genomicranges, r-bioc-iranges, r-cran-matrixstats, r-cran-r.utils, r-bioc-rsamtools, r-cran-future.apply Suggests: r-bioc-biocstyle, r-bioc-bsgenome, r-cran-digest, r-bioc-genomeinfodb, r-cran-future, r-cran-parallelly, r-cran-r.cache, r-bioc-qdnaseq.hg19, r-bioc-qdnaseq.mm10 Filename: pool/dists/focal/main/r-bioc-qdnaseq_1.44.0-1.ca2004.1_all.deb Size: 1569436 MD5sum: 393e6174df53e129b1816ce4d6e9930d SHA1: 1859599d95e70bba19cbe6ec4a27978f72130f78 SHA256: 83b090be0c565d6e8f570feccc3f3abeceb6f976b89896cdd1e358cd535743fb SHA512: 711417f3020f19942ce777066ec39d22f62ee650dfe10789cef3ea3f5f813635b03fafe4517d89bec17e2f23e4e86b2fbc664fbdd4db63243a3fe509af0872e3 Homepage: https://cran.r-project.org/package=QDNAseq Description: Bioc Package 'QDNAseq' (Quantitative DNA Sequencing for Chromosomal Aberrations) Quantitative DNA sequencing for chromosomal aberrations. The genome is divided into non-overlapping fixed-sized bins, number of sequence reads in each counted, adjusted with a simultaneous two-dimensional loess correction for sequence mappability and GC content, and filtered to remove spurious regions in the genome. Downstream steps of segmentation and calling are also implemented via packages DNAcopy and CGHcall, respectively. Package: r-bioc-qfeatures Architecture: all Version: 1.18.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10637 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-multiassayexperiment, r-bioc-s4vectors, r-bioc-iranges, r-bioc-summarizedexperiment, r-bioc-biocgenerics, r-bioc-protgenerics, r-bioc-annotationfilter, r-cran-lazyeval, r-bioc-biobase, r-bioc-mscoreutils, r-cran-igraph, r-cran-plotly, r-cran-tidyr, r-cran-tidyselect, r-cran-reshape2 Suggests: r-bioc-singlecellexperiment, r-bioc-msdatahub, r-cran-matrix, r-bioc-hdf5array, r-bioc-msdata, r-cran-ggplot2, r-cran-gplots, r-cran-dplyr, r-bioc-limma, r-cran-dt, r-cran-shiny, r-cran-shinydashboard, r-cran-testthat, r-cran-knitr, r-bioc-biocstyle, r-cran-rmarkdown, r-bioc-vsn, r-bioc-preprocesscore, r-cran-matrixstats, r-cran-imputelcmd, r-bioc-pcamethods, r-bioc-impute, r-cran-norm, r-bioc-complexheatmap Filename: pool/dists/focal/main/r-bioc-qfeatures_1.18.0-1.ca2004.1_all.deb Size: 4051708 MD5sum: 2d902f6ba76d2618e7b382ee82750bbb SHA1: ef0b2fa3437825f810fed9cbdbb2e09372769cad SHA256: c55ffd066fb60c9bf173eb1d3caa485b0aae3d782686e0b30e544e518f8c9088 SHA512: aa4b84b543abdf0946ee755d9d12f6fc29f2c805717cf426bd89a3f51f14727a02076236fbc369dbd1488b6b380acc986b52b6b46d6cd162753ced1e251e510b Homepage: https://cran.r-project.org/package=QFeatures Description: Bioc Package 'QFeatures' (Quantitative features for mass spectrometry data) The QFeatures infrastructure enables the management and processing of quantitative features for high-throughput mass spectrometry assays. It provides a familiar Bioconductor user experience to manages quantitative data across different assay levels (such as peptide spectrum matches, peptides and proteins) in a coherent and tractable format. Package: r-bioc-qsutils Architecture: all Version: 1.26.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4991 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biostrings, r-bioc-pwalign, r-bioc-biocgenerics, r-cran-ape, r-cran-psych Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-bioc-qsutils_1.26.0-1.ca2004.1_all.deb Size: 1162664 MD5sum: e8fde161bea6c0f786442f35ccefc1b1 SHA1: 2f682bb73db96e37a315ae4a5f1df46cf3277118 SHA256: 2d74f80b120c9002960d96224766d81705ae98ee863de8e4ff64c100e8a711ca SHA512: 7f2198d5a07343471c34ff4587c8d9b487e1cbea66a8739304adfc8a486f3c70ef4ab686adbe4553c76b0676b5887ec314394a8e47430159f34d42c04cbf4403 Homepage: https://cran.r-project.org/package=QSutils Description: Bioc Package 'QSutils' (Quasispecies Diversity) Set of utility functions for viral quasispecies analysis with NGS data. Most functions are equally useful for metagenomic studies. There are three main types: (1) data manipulation and exploration—functions useful for converting reads to haplotypes and frequencies, repairing reads, intersecting strand haplotypes, and visualizing haplotype alignments. (2) diversity indices—functions to compute diversity and entropy, in which incidence, abundance, and functional indices are considered. (3) data simulation—functions useful for generating random viral quasispecies data. Package: r-bioc-qtlizer Architecture: all Version: 1.22.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 696 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-httr, r-cran-curl, r-bioc-genomicranges, r-cran-stringi Suggests: r-bioc-biocstyle, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-qtlizer_1.22.0-1.ca2004.1_all.deb Size: 214028 MD5sum: f995f88048885a15801e3e5e121fa2f8 SHA1: 722147910d1fa84229f3dd9fc53c5e5ae8e4120e SHA256: 1d425c90888632d84046ca146244a176e9a8018025793095975281af2e3ecc44 SHA512: 91d32aa435986bedb56ad5c8f341f94d210f950195833406742acf9bf2409bfa3bb83ae8f5fad74e8941c8059b2fcaf94c8e6ef58d0741fa623d22100fb2b74c Homepage: https://cran.r-project.org/package=Qtlizer Description: Bioc Package 'Qtlizer' (Comprehensive QTL annotation of GWAS results) This R package provides access to the Qtlizer web server. Qtlizer annotates lists of common small variants (mainly SNPs) and genes in humans with associated changes in gene expression using the most comprehensive database of published quantitative trait loci (QTLs). Package: r-bioc-quantsmooth Architecture: all Version: 1.74.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 489 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-quantreg Filename: pool/dists/focal/main/r-bioc-quantsmooth_1.74.0-1.ca2004.1_all.deb Size: 431612 MD5sum: 7327f4f40c365c80cf18977851b89a31 SHA1: dfb330bf357c54758ba68fa27ecc59da880a0494 SHA256: f2dd56d25c02e7c54fd36ad83cba5a5d770c54392b446144b366b515a4504e97 SHA512: 80455c27bc03bf2ced04408f27b3cef37ff9c82fcd8280e23a2ade0448ae67a29022f317e83a45fe4c5f06360c407b6ddfc3c29107a0a821b75600f0ddbbe52e Homepage: https://cran.r-project.org/package=quantsmooth Description: Bioc Package 'quantsmooth' (Quantile smoothing and genomic visualization of array data) Implements quantile smoothing as introduced in: Quantile smoothing of array CGH data; Eilers PH, de Menezes RX; Bioinformatics. 2005 Apr 1;21(7):1146-53. Package: r-bioc-qusage Architecture: all Version: 2.42.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10267 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-limma, r-bioc-biobase, r-cran-nlme, r-cran-emmeans, r-cran-fftw Filename: pool/dists/focal/main/r-bioc-qusage_2.42.0-1.ca2004.1_all.deb Size: 10219492 MD5sum: c4390aaa5158728379f82e120dc780db SHA1: 54bdc16b7672c4301abd27bdc13ccd4aa838b562 SHA256: 3e8a5e77a70692f1eb509de6282f23e00d4fc79877b332dc6caf33b1de52d4a6 SHA512: 7d18579724a87c88641141b1f87769726a155bd5d680f85544880559cfbfdf9e816e81710e19fad6e5fd50f504203b87854895e1acb624a390fc2409c8ffb358 Homepage: https://cran.r-project.org/package=qusage Description: Bioc Package 'qusage' (qusage: Quantitative Set Analysis for Gene Expression) This package is an implementation the Quantitative Set Analysis for Gene Expression (QuSAGE) method described in (Yaari G. et al, Nucl Acids Res, 2013). This is a novel Gene Set Enrichment-type test, which is designed to provide a faster, more accurate, and easier to understand test for gene expression studies. qusage accounts for inter-gene correlations using the Variance Inflation Factor technique proposed by Wu et al. (Nucleic Acids Res, 2012). In addition, rather than simply evaluating the deviation from a null hypothesis with a single number (a P value), qusage quantifies gene set activity with a complete probability density function (PDF). From this PDF, P values and confidence intervals can be easily extracted. Preserving the PDF also allows for post-hoc analysis (e.g., pair-wise comparisons of gene set activity) while maintaining statistical traceability. Finally, while qusage is compatible with individual gene statistics from existing methods (e.g., LIMMA), a Welch-based method is implemented that is shown to improve specificity. The QuSAGE package also includes a mixed effects model implementation, as described in (Turner JA et al, BMC Bioinformatics, 2015), and a meta-analysis framework as described in (Meng H, et al. PLoS Comput Biol. 2019). For questions, contact Chris Bolen (cbolen1@gmail.com) or Steven Kleinstein (steven.kleinstein@yale.edu) Package: r-bioc-qvalue Architecture: all Version: 2.40.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2813 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-bioc-qvalue_2.40.0-1.ca2004.1_all.deb Size: 2809632 MD5sum: 519d9baa29578c3ad0b09bcbc8f7a50e SHA1: 4e94ae003d035f9cbbc17e2d6a70428f13eeeace SHA256: 9e3ac4b3866d4c98cbe719f98878c5e987517c5073dde10f3dfcd4507dfb93c1 SHA512: 4e85091c26e81ba468499ba38f686163817a155700ce46b6da7388c9f8fcb96d1f5c61b031d273c2fc94cbe9ad1e6f0eaa7a60a4636e14c3c42bc89bf9ea1824 Homepage: https://cran.r-project.org/package=qvalue Description: Bioc Package 'qvalue' (Q-value estimation for false discovery rate control) This package takes a list of p-values resulting from the simultaneous testing of many hypotheses and estimates their q-values and local FDR values. The q-value of a test measures the proportion of false positives incurred (called the false discovery rate) when that particular test is called significant. The local FDR measures the posterior probability the null hypothesis is true given the test's p-value. Various plots are automatically generated, allowing one to make sensible significance cut-offs. Several mathematical results have recently been shown on the conservative accuracy of the estimated q-values from this software. The software can be applied to problems in genomics, brain imaging, astrophysics, and data mining. Package: r-bioc-r4rna Architecture: all Version: 1.36.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1118 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biostrings Filename: pool/dists/focal/main/r-bioc-r4rna_1.36.0-1.ca2004.1_all.deb Size: 1041024 MD5sum: 3c49575ecd40995c4fcb9b7453af8d11 SHA1: 8b020d018915f9e0c6671d270239d7ab6bc2f6d5 SHA256: 1a2de6d7410ee0205c13e36e0afaf4eecdda1703a578671dce1448b1a1e65b12 SHA512: ba3250d477e59b36f18f99e92df1c42087610a8f38638216beb3bdf1ae043dc88b7afc6d355b6246e97bd816fb734b2eb9f8fb4522d1349774b1c10049b295c2 Homepage: https://cran.r-project.org/package=R4RNA Description: Bioc Package 'R4RNA' (An R package for RNA visualization and analysis) A package for RNA basepair analysis, including the visualization of basepairs as arc diagrams for easy comparison and annotation of sequence and structure. 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Anything you can do using the graphical user interface of Cytoscape, you can now do with a single RCy3 function. Package: r-bioc-reactome.db Architecture: all Version: 1.92.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1333816 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi Suggests: r-cran-rsqlite Filename: pool/dists/focal/main/r-bioc-reactome.db_1.92.0-1.ca2004.1_all.deb Size: 153731240 MD5sum: b914b5068118c4da794a01ebc84cfc52 SHA1: 20569112b95371f206717581634b160aa978f5d2 SHA256: b31fee472592eec2460eefac2fb6c40ede3099678961af3afaafc0a27e223f97 SHA512: f5f1fced7f361805700ea1e010c2d665cc248e105c527b200ca17a9dd3d89329682af7e3f00274f7a404b0aa9f9a44bc7343faba2909fda4bd2a06f391a7b050 Homepage: https://cran.r-project.org/package=reactome.db Description: Bioc Package 'reactome.db' (A set of annotation maps for reactome) A set of annotation maps for reactome assembled using data from reactome. 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The main advantage of this package is, that the retrieved results can be visualized using REACTOME's powerful webapplication. Since Reactome's analysis service also uses R to perfrom the actual gene set analysis you will get similar results when using the same packages (such as limma and edgeR) locally. Therefore, if you only require a gene set analysis, different packages are more suited. 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The package allows users to create HTML pages that may be viewed on a web browser such as Safari, or in other formats readable by programs such as Excel. Users can generate tables with sortable and filterable columns, make and display plots, and link table entries to other data sources such as NCBI or larger plots within the HTML page. Using the package, users can also produce a table of contents page to link various reports together for a particular project that can be viewed in a web browser. For more examples, please visit our site: http:// research-pub.gene.com/ReportingTools. 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Package: r-bioc-rlmm Architecture: all Version: 1.70.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 422 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-bioc-rlmm_1.70.0-1.ca2004.1_all.deb Size: 381624 MD5sum: faeb4808ef020b773785815c080b8e40 SHA1: 35faab8851321280d06fb85f2811b596873d7474 SHA256: 8914116e2b7a53c643ef8892d2a21f374a064f48653ac1ca9c073380ee31b516 SHA512: bc06ba92476ebd6986b24517fb6de6f63b16f404f013011ee312cf65f4abf7a738c16cb59b7b1d1df27cb6f4b9075964ffa17560c93a7a8bed01bc0d34578848 Homepage: https://cran.r-project.org/package=RLMM Description: Bioc Package 'RLMM' (A Genotype Calling Algorithm for Affymetrix SNP Arrays) A classification algorithm, based on a multi-chip, multi-SNP approach for Affymetrix SNP arrays. Using a large training sample where the genotype labels are known, this aglorithm will obtain more accurate classification results on new data. 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Package: r-bioc-ropls Architecture: all Version: 1.40.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10907 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-cran-ggplot2, r-cran-plotly, r-bioc-multiassayexperiment, r-bioc-multidataset, r-bioc-summarizedexperiment Suggests: r-bioc-biocgenerics, r-bioc-biocstyle, r-cran-knitr, r-bioc-multtest, r-bioc-omicade4, r-bioc-phenomis, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-bioc-ropls_1.40.0-1.ca2004.1_all.deb Size: 5966524 MD5sum: d9df49cc3b182390c3dc8d2445a271b7 SHA1: ee8fb41ada51e7bc8f0b098034e6278728db7642 SHA256: 6d7e198b6b992ecef3622839b9432159080f14c15db59f8b01d100a0853f6adb SHA512: 17d06380ddb88c55fcbd05873b4f6de187c9dd93623286a46732d2432e07e7fdf0567665bdb1043d168d5d91ae9beffdd227d9a795f7b4865501f90edacafeb1 Homepage: https://cran.r-project.org/package=ropls Description: Bioc Package 'ropls' (PCA, PLS(-DA) and OPLS(-DA) for multivariate analysis andfeature selection of omics data) Latent variable modeling with Principal Component Analysis (PCA) and Partial Least Squares (PLS) are powerful methods for visualization, regression, classification, and feature selection of omics data where the number of variables exceeds the number of samples and with multicollinearity among variables. Orthogonal Partial Least Squares (OPLS) enables to separately model the variation correlated (predictive) to the factor of interest and the uncorrelated (orthogonal) variation. While performing similarly to PLS, OPLS facilitates interpretation. Successful applications of these chemometrics techniques include spectroscopic data such as Raman spectroscopy, nuclear magnetic resonance (NMR), mass spectrometry (MS) in metabolomics and proteomics, but also transcriptomics data. In addition to scores, loadings and weights plots, the package provides metrics and graphics to determine the optimal number of components (e.g. with the R2 and Q2 coefficients), check the validity of the model by permutation testing, detect outliers, and perform feature selection (e.g. with Variable Importance in Projection or regression coefficients). The package can be accessed via a user interface on the Workflow4Metabolomics.org online resource for computational metabolomics (built upon the Galaxy environment). 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Several efforts, such as Firehose project, make TCGA pre-processed data publicly available via web services and data portals but it requires managing, downloading and preparing the data for following steps. We developed an open source and extensible R based data client for Firehose pre-processed data and demonstrated its use with sample case studies. Results showed that RTCGAToolbox could improve data management for researchers who are interested with TCGA data. In addition, it can be integrated with other analysis pipelines for following data analysis. 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The result is equivalent to using the scale() function but avoids explicit realization of a dense matrix during block processing. This permits greater efficiency in common operations, most notably matrix multiplication. 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Slingshot was designed to model developmental trajectories in single-cell RNA sequencing data and serve as a component in an analysis pipeline after dimensionality reduction and clustering. It is flexible enough to handle arbitrarily many branching events and allows for the incorporation of prior knowledge through supervised graph construction. Package: r-bioc-spatialexperiment Architecture: all Version: 1.18.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7712 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-singlecellexperiment, r-cran-rjson, r-cran-magick, r-bioc-s4vectors, r-bioc-summarizedexperiment, r-bioc-biocgenerics, r-bioc-biocfilecache Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-biocstyle, r-bioc-bumpymatrix, r-bioc-dropletutils Filename: pool/dists/focal/main/r-bioc-spatialexperiment_1.18.0-1.ca2004.1_all.deb Size: 5095040 MD5sum: f7053117b821d6c801c62e0a8f6bc89a SHA1: 8548de8c6e460669f530d29b1260edae04fa352b SHA256: 5a007874aed109ff77f4f698756c84a89ce0de540067ee44cc56324714ed322e SHA512: 024b0dbc62edf0bb2f38ed54fab15d0cb5ad244dc8e92172161ed3ad12df4af8eec5b05277e2aaac5e640296796f75aeddd92adb1abf0a657ad118c3ab681c4f Homepage: https://cran.r-project.org/package=SpatialExperiment Description: Bioc Package 'SpatialExperiment' (S4 Class for Spatially Resolved -omics Data) Defines an S4 class for storing data from spatial -omics experiments. The class extends SingleCellExperiment to support storage and retrieval of additional information from spot-based and molecule-based platforms, including spatial coordinates, images, and image metadata. A specialized constructor function is included for data from the 10x Genomics Visium platform. Package: r-bioc-spectra Architecture: all Version: 1.18.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5343 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-s4vectors, r-bioc-biocparallel, r-bioc-protgenerics, r-bioc-iranges, r-bioc-mscoreutils, r-cran-fs, r-bioc-biocgenerics, r-bioc-metabocoreutils Suggests: r-cran-testthat, r-cran-knitr, r-bioc-msdata, r-cran-roxygen2, r-bioc-biocstyle, r-bioc-mzr, r-bioc-rhdf5, r-cran-rmarkdown, r-cran-vdiffr, r-cran-msentropy, r-cran-patrick Filename: pool/dists/focal/main/r-bioc-spectra_1.18.0-1.ca2004.1_all.deb Size: 1792412 MD5sum: 4f9bbdd776056046f752d97219bcd84a SHA1: dda07b006353904bd156336f94b428b72ca2b8b8 SHA256: 194526980626530bc8f78be577729efe29e9080038ab44e8cc297ff8953f91ec SHA512: 8f6fa73758eb55da3bf58d4cd3a218334b3bd2bd5d2221a5f8fe0df2ce81e318e5365b1fc702b831338a73868d7b8a6f57e57be51604187217d795dfc8aee9ce Homepage: https://cran.r-project.org/package=Spectra Description: Bioc Package 'Spectra' (Spectra Infrastructure for Mass Spectrometry Data) The Spectra package defines an efficient infrastructure for storing and handling mass spectrometry spectra and functionality to subset, process, visualize and compare spectra data. It provides different implementations (backends) to store mass spectrometry data. These comprise backends tuned for fast data access and processing and backends for very large data sets ensuring a small memory footprint. Package: r-bioc-spia Architecture: all Version: 2.60.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4908 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-kegggraph Suggests: r-bioc-graph, r-bioc-rgraphviz, r-bioc-hgu133plus2.db Filename: pool/dists/focal/main/r-bioc-spia_2.60.0-1.ca2004.1_all.deb Size: 2577524 MD5sum: fd532fa0fcb4f09b7360a785b24e4587 SHA1: db1b44615c4fb056d88470e614dcd96a42424da6 SHA256: 3a794a9dfcb7f606bf9edb2e682178d5f62e256265b295470ed5d7f824676a50 SHA512: 84c75d7150cdc6621fd109f76ee6ac3ce0b29b77a96f4a19db070aeb9861982c3f56fbd57c944ffc823ee87835b1de095e6b3418c2be3086468010f697480f21 Homepage: https://cran.r-project.org/package=SPIA Description: Bioc Package 'SPIA' (Signaling Pathway Impact Analysis (SPIA) using combined evidenceof pathway over-representation and unusual signalingperturbations) This package implements the Signaling Pathway Impact Analysis (SPIA) which uses the information form a list of differentially expressed genes and their log fold changes together with signaling pathways topology, in order to identify the pathways most relevant to the condition under the study. Package: r-bioc-splatter Architecture: all Version: 1.32.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10518 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-singlecellexperiment, r-bioc-biocgenerics, r-bioc-biocparallel, r-cran-checkmate, r-cran-crayon, r-bioc-edger, r-cran-fitdistrplus, r-cran-locfit, r-cran-matrixstats, r-cran-rlang, r-bioc-s4vectors, r-bioc-scuttle, r-bioc-summarizedexperiment, r-cran-withr Suggests: r-bioc-basics, r-cran-biocmanager, r-bioc-biocsingular, r-bioc-biocstyle, r-bioc-biostrings, r-cran-covr, r-cran-cowplot, r-bioc-genomeinfodb, r-bioc-genomicranges, r-cran-ggplot2, r-cran-igraph, r-bioc-iranges, r-cran-knitr, r-cran-limsolve, r-cran-lme4, r-cran-magick, r-bioc-mfa, r-bioc-phenopath, r-bioc-preprocesscore, r-cran-progress, r-cran-pscl, r-cran-rmarkdown, r-cran-scales, r-bioc-scater, r-bioc-scdd, r-bioc-scran, r-cran-sparsedc, r-cran-spelling, r-cran-testthat, r-bioc-variantannotation, r-bioc-zinbwave Filename: pool/dists/focal/main/r-bioc-splatter_1.32.0-1.ca2004.1_all.deb Size: 6096808 MD5sum: cfccc2643fec853c0fb45af342aaddc7 SHA1: 373916a2061422cbe60f6baf0abb76af9dbb224a SHA256: 5e71ad49a2bd1cc0c73408f12dc80d6ba575083ae55b4743c60319d1133ca27b SHA512: 255610f03a14997f62694f77d73161e1c45c1b7c18a465443f550a99fd3bd7a73f260c45801aadfbe75301200439527fa0c2e77137da5b382e5114de7063e1f7 Homepage: https://cran.r-project.org/package=splatter Description: Bioc Package 'splatter' (Simple Simulation of Single-cell RNA Sequencing Data) Splatter is a package for the simulation of single-cell RNA sequencing count data. It provides a simple interface for creating complex simulations that are reproducible and well-documented. Parameters can be estimated from real data and functions are provided for comparing real and simulated datasets. Package: r-bioc-stringdb Architecture: all Version: 2.20.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10479 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-png, r-cran-sqldf, r-cran-plyr, r-cran-igraph, r-cran-httr, r-cran-rcolorbrewer, r-cran-gplots, r-cran-hash, r-cran-plotrix Suggests: r-cran-runit, r-bioc-biocgenerics Filename: pool/dists/focal/main/r-bioc-stringdb_2.20.0-1.ca2004.1_all.deb Size: 10623200 MD5sum: 2ecf21d24d749a252bc529fd2be2b1ae SHA1: 048571206b2068919be37787f5c858d749e7d97d SHA256: e392ff6480703e3835c894d26fbbe598458535f5926586ddf8ff3331a7f5e07b SHA512: 9fff5987b730f7c25231d735c767d56c61ee1f0399f39305989b3773044164262f37a16a67f021d9a00107183bfcced48a8c097edf17556fbd92a01543c8211e Homepage: https://cran.r-project.org/package=STRINGdb Description: Bioc Package 'STRINGdb' (STRINGdb - Protein-Protein Interaction Networks and FunctionalEnrichment Analysis) The STRINGdb package provides a R interface to the STRING protein-protein interactions database (https://string-db.org). Package: r-bioc-structuralvariantannotation Architecture: all Version: 1.24.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2736 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-genomicranges, r-bioc-rtracklayer, r-bioc-variantannotation, r-bioc-biocgenerics, r-cran-assertthat, r-bioc-biostrings, r-bioc-pwalign, r-cran-stringr, r-cran-dplyr, r-cran-rlang, r-bioc-genomicfeatures, r-bioc-iranges, r-bioc-s4vectors, r-bioc-summarizedexperiment, r-bioc-genomeinfodb Suggests: r-cran-ggplot2, r-cran-devtools, r-cran-testthat, r-cran-roxygen2, r-cran-rmarkdown, r-cran-tidyverse, r-cran-knitr, r-bioc-ggbio, r-bioc-biovizbase, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-bioc-bsgenome.hsapiens.ucsc.hg19 Filename: pool/dists/focal/main/r-bioc-structuralvariantannotation_1.24.0-1.ca2004.1_all.deb Size: 1015068 MD5sum: 17b2c335f183bb6a1be5716b02bbe419 SHA1: e755d931b2404538e2b29c1ddf79a91294266f9a SHA256: dc40523a869b2fdd8b7e9a2a73c4096e102465b422ce92d489b026b1c165c800 SHA512: f3a22271ccecdafd499d31facacab0ad5204bbb9c99e30eba819339882130a938bad987501f2f1d5b1039bd98d38718e60093031eec677f0039f85bb5b51a84d Homepage: https://cran.r-project.org/package=StructuralVariantAnnotation Description: Bioc Package 'StructuralVariantAnnotation' (Variant annotations for structural variants) StructuralVariantAnnotation provides a framework for analysis of structural variants within the Bioconductor ecosystem. This package contains contains useful helper functions for dealing with structural variants in VCF format. The packages contains functions for parsing VCFs from a number of popular callers as well as functions for dealing with breakpoints involving two separate genomic loci encoded as GRanges objects. Package: r-bioc-summarizedexperiment Architecture: all Version: 1.38.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3976 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-matrixgenerics, r-bioc-genomicranges, r-bioc-biobase, r-cran-matrix, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-genomeinfodb, r-bioc-s4arrays, r-bioc-delayedarray Suggests: r-cran-jsonlite, r-bioc-rhdf5, r-bioc-hdf5array, r-bioc-annotate, r-bioc-annotationdbi, r-bioc-genomicfeatures, r-bioc-sparsearray, r-bioc-singlecellexperiment, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-bioc-hgu95av2.db, r-bioc-airway, r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-runit, r-cran-testthat, r-cran-digest Filename: pool/dists/focal/main/r-bioc-summarizedexperiment_1.38.1-1.ca2004.1_all.deb Size: 1428100 MD5sum: 253649f35ccc2b118f428c77577755d3 SHA1: 2daf222f758c9cdda51775ed3b4771da433ed37f SHA256: e434380f5ca30c874755b5b9bd4926b0d6bd8501b1ab3180b1328cfadc1d2f55 SHA512: 91161bf6ec4e4ea85f34c4e061d9f9cbf1cea5dd558522c10e99d022e9522c501f7454a372d80fb863340295951eb373b4c0ec2c899b1a782eeb32c1e0bfa079 Homepage: https://cran.r-project.org/package=SummarizedExperiment Description: Bioc Package 'SummarizedExperiment' (A container (S4 class) for matrix-like assays) The SummarizedExperiment container contains one or more assays, each represented by a matrix-like object of numeric or other mode. The rows typically represent genomic ranges of interest and the columns represent samples. Package: r-bioc-suprahex Architecture: all Version: 1.42.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3856 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-hexbin, r-cran-ape, r-cran-mass, r-cran-readr, r-cran-tibble, r-cran-tidyr, r-cran-dplyr, r-cran-stringr, r-cran-purrr, r-cran-magrittr, r-cran-igraph Filename: pool/dists/focal/main/r-bioc-suprahex_1.42.0-1.ca2004.1_all.deb Size: 3413396 MD5sum: 80ec2be61870af9de05a6ca8a6692475 SHA1: 907644eb6a182b52e5418fefe4f84cb377c7489e SHA256: c9f7a411cf741455794457b1af6cb75cd47934201eb635a75bb4839e82dcbd1f SHA512: 192fabdf326b73dbb94484d370546671b2768fe4018c2c8e83af1f32f83dfb3e1a00c28e9c15234d051b6141f58dee591db50a2f08f9b53d36f9065c26f8e3ab Homepage: https://cran.r-project.org/package=supraHex Description: Bioc Package 'supraHex' (supraHex: a supra-hexagonal map for analysing tabular omics data) A supra-hexagonal map is a giant hexagon on a 2-dimensional grid seamlessly consisting of smaller hexagons. It is supposed to train, analyse and visualise a high-dimensional omics input data. The supraHex is able to carry out gene clustering/meta-clustering and sample correlation, plus intuitive visualisations to facilitate exploratory analysis. More importantly, it allows for overlaying additional data onto the trained map to explore relations between input and additional data. So with supraHex, it is also possible to carry out multilayer omics data comparisons. Newly added utilities are advanced heatmap visualisation and tree-based analysis of sample relationships. Uniquely to this package, users can ultrafastly understand any tabular omics data, both scientifically and artistically, especially in a sample-specific fashion but without loss of information on large genes. Package: r-bioc-systempiper Architecture: all Version: 2.14.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 12610 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-rsamtools, r-bioc-biostrings, r-bioc-shortread, r-bioc-genomicranges, r-bioc-summarizedexperiment, r-cran-ggplot2, r-cran-yaml, r-cran-stringr, r-cran-magrittr, r-bioc-s4vectors, r-cran-crayon, r-bioc-biocgenerics, r-cran-htmlwidgets Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-bioc-systempiperdata, r-bioc-genomicalignments, r-cran-dplyr, r-cran-testthat, r-cran-rjson, r-bioc-annotate, r-bioc-annotationdbi, r-cran-kableextra, r-bioc-go.db, r-bioc-genomeinfodb, r-cran-dt, r-bioc-rtracklayer, r-bioc-limma, r-bioc-edger, r-bioc-deseq2, r-bioc-iranges, r-cran-batchtools, r-bioc-genomicfeatures, r-bioc-txdbmaker, r-bioc-variantannotation Filename: pool/dists/focal/main/r-bioc-systempiper_2.14.0-1.ca2004.1_all.deb Size: 5237168 MD5sum: 486fc128419c4a105640da6a562037db SHA1: d16ecb0cf045b645a1e44889de5a44ede55cef44 SHA256: 09cd817d4eeadfabbb9860186d6ed1e692e5d06c16ec905cd9abc2fa1b4d131e SHA512: 8acee91eb33661caba94e4e297a4cfca0eb9e6104f0d8e83f7ba28e8cf31b3081e0ef1be7de3a209fce04779a1e47ef3d5bbc9e0bbe9815c88a61127a2b34201 Homepage: https://cran.r-project.org/package=systemPipeR Description: Bioc Package 'systemPipeR' (systemPipeR: Workflow Environment for Data Analysis and ReportGeneration) systemPipeR is a multipurpose data analysis workflow environment that unifies R with command-line tools. It enables scientists to analyze many types of large- or small-scale data on local or distributed computer systems with a high level of reproducibility, scalability and portability. At its core is a command-line interface (CLI) that adopts the Common Workflow Language (CWL). This design allows users to choose for each analysis step the optimal R or command-line software. It supports both end-to-end and partial execution of workflows with built-in restart functionalities. Efficient management of complex analysis tasks is accomplished by a flexible workflow control container class. Handling of large numbers of input samples and experimental designs is facilitated by consistent sample annotation mechanisms. As a multi-purpose workflow toolkit, systemPipeR enables users to run existing workflows, customize them or design entirely new ones while taking advantage of widely adopted data structures within the Bioconductor ecosystem. Another important core functionality is the generation of reproducible scientific analysis and technical reports. For result interpretation, systemPipeR offers a wide range of plotting functionality, while an associated Shiny App offers many useful functionalities for interactive result exploration. The vignettes linked from this page include (1) a general introduction, (2) a description of technical details, and (3) a collection of workflow templates. Package: r-bioc-tcc Architecture: all Version: 1.48.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3986 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-deseq2, r-bioc-edger, r-bioc-roc Suggests: r-cran-runit, r-bioc-biocgenerics Filename: pool/dists/focal/main/r-bioc-tcc_1.48.0-1.ca2004.1_all.deb Size: 3549544 MD5sum: fc073fc80efb2cbc082422d566a367f6 SHA1: 8909503d6fa588e76af995486c5eccdfd3d63efa SHA256: 14cfdc0d559735126ac36a984db5d81beac57f37e8ca5abb50c04e161550e921 SHA512: 17ed40f0235125a0494913ab4abfe35e77687e0c97d2135931268a9741519dc468a4becdd5e8a0aacebdfa77fd3b8a29c1793fb699501b75051ec92ad897d40f Homepage: https://cran.r-project.org/package=TCC Description: Bioc Package 'TCC' (TCC: Differential expression analysis for tag count data withrobust normalization strategies) This package provides a series of functions for performing differential expression analysis from RNA-seq count data using robust normalization strategy (called DEGES). The basic idea of DEGES is that potential differentially expressed genes or transcripts (DEGs) among compared samples should be removed before data normalization to obtain a well-ranked gene list where true DEGs are top-ranked and non-DEGs are bottom ranked. This can be done by performing a multi-step normalization strategy (called DEGES for DEG elimination strategy). A major characteristic of TCC is to provide the robust normalization methods for several kinds of count data (two-group with or without replicates, multi-group/multi-factor, and so on) by virtue of the use of combinations of functions in depended packages. Package: r-bioc-tcgabiolinks Architecture: all Version: 2.36.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110193 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-downloader, r-bioc-biomart, r-cran-dplyr, r-cran-tibble, r-bioc-genomicranges, r-cran-xml, r-cran-data.table, r-cran-jsonlite, r-cran-plyr, r-cran-knitr, r-cran-ggplot2, r-cran-stringr, r-bioc-iranges, r-cran-rvest, r-bioc-s4vectors, r-cran-r.utils, r-bioc-summarizedexperiment, r-bioc-tcgabiolinksgui.data, r-cran-readr, r-cran-tidyr, r-cran-purrr, r-cran-xml2, r-cran-httr Suggests: r-cran-jpeg, r-cran-png, r-bioc-biocstyle, r-cran-rmarkdown, r-cran-devtools, r-bioc-maftools, r-cran-parmigene, r-cran-c3net, r-bioc-minet, r-bioc-biobase, r-bioc-affy, r-cran-testthat, r-bioc-sesame, r-bioc-annotationhub, r-bioc-experimenthub, r-bioc-pathview, r-bioc-clusterprofiler, r-cran-seurat, r-bioc-complexheatmap, r-cran-circlize, r-bioc-consensusclusterplus, r-cran-igraph, r-bioc-limma, r-bioc-edger, r-bioc-sva, r-bioc-edaseq, r-cran-survminer, r-bioc-genefilter, r-cran-gridextra, r-cran-survival, r-cran-doparallel, r-cran-ggrepel, r-cran-scales, r-cran-dt Filename: pool/dists/focal/main/r-bioc-tcgabiolinks_2.36.0-1.ca2004.1_all.deb Size: 37376564 MD5sum: fa3b9512fd44a22de0dac4c35ba822ac SHA1: eb29982a42d2b22827180e53b78d9e103348848a SHA256: 1553e77395d74b757daa229edb886b3d006db006ca1484c54a128d9dcc18d218 SHA512: 52f1cae8f42b771732883aded51a06dbf612ebb97617b7e1e0e92f3caaef76a9e16f68d38f07b87255e0630def731f3befbb989973148419b041f03744d4a08c Homepage: https://cran.r-project.org/package=TCGAbiolinks Description: Bioc Package 'TCGAbiolinks' (TCGAbiolinks: An R/Bioconductor package for integrative analysiswith GDC data) The aim of TCGAbiolinks is : i) facilitate the GDC open-access data retrieval, ii) prepare the data using the appropriate pre-processing strategies, iii) provide the means to carry out different standard analyses and iv) to easily reproduce earlier research results. In more detail, the package provides multiple methods for analysis (e.g., differential expression analysis, identifying differentially methylated regions) and methods for visualization (e.g., survival plots, volcano plots, starburst plots) in order to easily develop complete analysis pipelines. Package: r-bioc-tcgabiolinksgui.data Architecture: all Version: 1.28.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 23169 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-readr, r-cran-dt Filename: pool/dists/focal/main/r-bioc-tcgabiolinksgui.data_1.28.0-1.ca2004.1_all.deb Size: 22781952 MD5sum: b868086ae84a54d7194f940086c82593 SHA1: b37b4e43a8c2fdb7d91a2f07b886d17eafa33530 SHA256: 739a42402fbb6a0a2fc50a39c01bcf17cf2c4b08a6234290fa96a62b76ee83d1 SHA512: 4baddef4e1f5e08d6f0f63f263c49d4dc898fd6bae7398644ea1a2ee09a687bae9196fc4b598c353f3913347b49cb12387cabb4dcdc0109bba3856100eb3f9d6 Homepage: https://cran.r-project.org/package=TCGAbiolinksGUI.data Description: Bioc Package 'TCGAbiolinksGUI.data' (Data for the TCGAbiolinksGUI package) Supporting data for the TCGAbiolinksGUI package. Package: r-bioc-tcgautils Architecture: all Version: 1.28.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1114 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-biocgenerics, r-bioc-biocbaseutils, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-bioc-genomicranges, r-bioc-genomicdatacommons, r-bioc-iranges, r-bioc-multiassayexperiment, r-bioc-raggedexperiment, r-cran-rvest, r-bioc-s4vectors, r-cran-stringr, r-bioc-summarizedexperiment, r-cran-xml2 Suggests: r-bioc-annotationhub, r-bioc-biocstyle, r-bioc-curatedtcgadata, r-bioc-complexheatmap, r-cran-devtools, r-cran-dplyr, r-cran-httr, r-bioc-illuminahumanmethylation450kanno.ilmn12.hg19, r-bioc-impute, r-cran-knitr, r-cran-magrittr, r-bioc-mirbase.db, r-bioc-org.hs.eg.db, r-cran-rcolorbrewer, r-cran-readr, r-cran-rmarkdown, r-bioc-rtcgatoolbox, r-bioc-rtracklayer, r-cran-r.utils, r-cran-testthat, r-bioc-txdb.hsapiens.ucsc.hg18.knowngene, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene Filename: pool/dists/focal/main/r-bioc-tcgautils_1.28.0-1.ca2004.1_all.deb Size: 498192 MD5sum: 085e007202cf037990c9f525adcfc05b SHA1: 91b0e9ec1e950473afa58bb306b546bfab996557 SHA256: 26c3300c6be26d6dd22794c40cd2f1cea1669ce1027834246357a428a581d2d3 SHA512: 72cf82ae1870f593c77573585281c1e7d4d82e5df3c7b142d285333ecce03063a711d1012362842d07eaa7dbedddd64cf87952aef32825d7a500d5b992e2da99 Homepage: https://cran.r-project.org/package=TCGAutils Description: Bioc Package 'TCGAutils' (TCGA utility functions for data management) A suite of helper functions for checking and manipulating TCGA data including data obtained from the curatedTCGAData experiment package. These functions aim to simplify and make working with TCGA data more manageable. Exported functions include those that import data from flat files into Bioconductor objects, convert row annotations, and identifier translation via the GDC API. 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This package furthermore contains functions for computing pairwise values of LD measures and for identifying LD blocks, as well as functions for setting up matched case pseudo-control genotype data for case-parent trios in order to run trio logic regression, for imputing missing genotypes in trios, for simulating case-parent trios with disease risk dependent on SNP interaction, and for power and sample size calculation in trio data. 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Computes pseudotemporal cell orderings by mapping cells in each cluster (or new cells) to the closest edge in the tree. Uses linear modelling to identify differentially expressed genes along each path through the tree. Several plotting and interactive visualization functions are also implemented. Package: r-bioc-txdb.hsapiens.ucsc.hg19.knowngene Architecture: all Version: 3.2.2-1.ca2004.2 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47194 Depends: r-base-core (>= 4.2.3), r-api-4.0, r-bioc-genomicfeatures, r-bioc-annotationdbi Filename: pool/dists/focal/main/r-bioc-txdb.hsapiens.ucsc.hg19.knowngene_3.2.2-1.ca2004.2_all.deb Size: 7951312 MD5sum: c05c9f58594af9da105f16398978b250 SHA1: 8f259fc4d92d4a31343ee0ace5f692cf06d7abf3 SHA256: 335ebd7231bdab9974b1176258604b42a291b660934590ba987ca57954ca6c5a SHA512: 45d65db31959b67776433a527ec72d1c081526d77af4a01d032b4025ee84c340a3533e868664cd1e2c9148ee708ca43ba39780456c37188b0f11a8a1ed083a30 Homepage: https://cran.r-project.org/package=TxDb.Hsapiens.UCSC.hg19.knownGene Description: Bioc Package 'TxDb.Hsapiens.UCSC.hg19.knownGene' (Annotation package for TxDb object(s)) Exposes an annotation databases generated from UCSC by exposing these as TxDb objects Package: r-bioc-txdb.hsapiens.ucsc.hg38.knowngene Architecture: all Version: 3.21.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150160 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-genomicfeatures, r-bioc-annotationdbi Filename: pool/dists/focal/main/r-bioc-txdb.hsapiens.ucsc.hg38.knowngene_3.21.0-1.ca2004.1_all.deb Size: 26122448 MD5sum: 1af56aa5e990bc8d1adea15fe94b20c2 SHA1: 3702a1b21be7712ebea9f7a16c4e4766291816f3 SHA256: 7821f9cad76a78254bc6850ca34036fd9a71c11e06d1aec65e848591b5ba3fe3 SHA512: 87108d74fe6732caa2addcd7dae57c586e8372fff32b9153f552e240de192078f84620dc512b465c71c994a17b2e893acb25c75097e9e128cd5d2ee2613602e2 Homepage: https://cran.r-project.org/package=TxDb.Hsapiens.UCSC.hg38.knownGene Description: Bioc Package 'TxDb.Hsapiens.UCSC.hg38.knownGene' (Annotation package for TxDb object(s)) Exposes an annotation databases generated from UCSC by exposing these as TxDb objects Package: r-bioc-txdb.mmusculus.ucsc.mm10.knowngene Architecture: all Version: 3.10.0-1.ca2004.2 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59884 Depends: r-base-core (>= 4.2.3), r-api-4.0, r-bioc-genomicfeatures, r-bioc-annotationdbi Filename: pool/dists/focal/main/r-bioc-txdb.mmusculus.ucsc.mm10.knowngene_3.10.0-1.ca2004.2_all.deb Size: 11203032 MD5sum: 61dfdabdb5c82fcd170d90458d797271 SHA1: 992b37df57421c07511b78149f760406683de21b SHA256: 724617b5a3ac33dc435bf64517e82e05c89ee9648593b242b5d2e4791c041539 SHA512: b30cf24297e12042174b778c46c22ababd5e953621d41b7360064b68ac2d2847301b369d1abe69be3d61b6b03929bc689c715d0761eea5eb6cb2701ac1591e90 Homepage: https://cran.r-project.org/package=TxDb.Mmusculus.UCSC.mm10.knownGene Description: Bioc Package 'TxDb.Mmusculus.UCSC.mm10.knownGene' (Annotation package for TxDb object(s)) Exposes an annotation databases generated from UCSC by exposing these as TxDb objects Package: r-bioc-txdbmaker Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3672 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-genomeinfodb, r-bioc-genomicranges, r-bioc-genomicfeatures, r-cran-httr, r-cran-rjson, r-cran-dbi, r-cran-rsqlite, r-bioc-iranges, r-bioc-ucsc.utils, r-bioc-annotationdbi, r-bioc-biobase, r-bioc-biocio, r-bioc-rtracklayer, r-bioc-biomart Suggests: r-cran-rmariadb, r-bioc-mirbase.db, r-bioc-ensembldb, r-cran-runit, r-bioc-biocstyle, r-cran-knitr Filename: pool/dists/focal/main/r-bioc-txdbmaker_1.4.1-1.ca2004.1_all.deb Size: 926320 MD5sum: c00e1394492725a85ebb0a29d94489b4 SHA1: 743b2a9fb1ed84661e4747aeff6ff771adf39c42 SHA256: 53c6e0b2877b8809bff0c3b5be60c3c2860582bbf6da941c40f67501f2165651 SHA512: 09e05be1d97db9a11655cf6548c90d4b4da0acf7e188a2f7bb3489718ea1588f86e16ccbbecf912397e310b85c1244e1f055d8b77572b581fec8f70257614725 Homepage: https://cran.r-project.org/package=txdbmaker Description: Bioc Package 'txdbmaker' (Tools for making TxDb objects from genomic annotations) A set of tools for making TxDb objects from genomic annotations from various sources (e.g. UCSC, Ensembl, and GFF files). These tools allow the user to download the genomic locations of transcripts, exons, and CDS, for a given assembly, and to import them in a TxDb object. TxDb objects are implemented in the GenomicFeatures package, together with flexible methods for extracting the desired features in convenient formats. Package: r-bioc-tximeta Architecture: all Version: 1.26.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2110 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-jsonlite, r-bioc-s4vectors, r-bioc-iranges, r-bioc-genomicranges, r-bioc-annotationdbi, r-bioc-genomicfeatures, r-bioc-txdbmaker, r-bioc-ensembldb, r-bioc-biocfilecache, r-bioc-annotationhub, r-bioc-biostrings, r-cran-tibble, r-bioc-genomeinfodb, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-tximportdata, r-bioc-org.dm.eg.db, r-bioc-deseq2, r-bioc-fishpond, r-bioc-edger, r-bioc-limma, r-cran-devtools Filename: pool/dists/focal/main/r-bioc-tximeta_1.26.0-1.ca2004.1_all.deb Size: 1094344 MD5sum: 0812498c8d5f3edbc3d214b310c10707 SHA1: 5ca0c8e077d60ca389c253571b42efc1eee0aae5 SHA256: e5de3c30c5b60d5b748edbb79ba7728356cc3d2b83d1f3ed9af7e3b3467c786c SHA512: d18c7115054a85dc7a5b691fbb82ce8907491ba385e24d29974904ef4b7dd1389ceb972d70927dd99c0c8babb413d1fa6e14d526506cfaad19412650a4f6186c Homepage: https://cran.r-project.org/package=tximeta Description: Bioc Package 'tximeta' (Transcript Quantification Import with Automatic Metadata) Transcript quantification import from Salmon and other quantifiers with automatic attachment of transcript ranges and release information, and other associated metadata. De novo transcriptomes can be linked to the appropriate sources with linkedTxomes and shared for computational reproducibility. Package: r-bioc-tximport Architecture: all Version: 1.36.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1035 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-tximportdata, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-cran-readr, r-cran-arrow, r-bioc-limma, r-bioc-edger, r-bioc-deseq2, r-bioc-rhdf5, r-cran-jsonlite, r-cran-matrixstats, r-cran-matrix, r-bioc-eds Filename: pool/dists/focal/main/r-bioc-tximport_1.36.0-1.ca2004.1_all.deb Size: 321680 MD5sum: 5adfb21a4e5df552a15e30a67d76c58c SHA1: 77594490750ba911e54f858d505417adf7d31f09 SHA256: 42dd17e4817ea7185e878947401378134ee980a1201a40746ca4e43f9be36e6a SHA512: 6c247766c192f9e2b0142f9962d9e2d7aafc2a1e253f8bff93ab96eee6396acf51ccef62f3b76f4827a579e3f018ea234c576bbe313acbbc6018077a1fc8e06d Homepage: https://cran.r-project.org/package=tximport Description: Bioc Package 'tximport' (Import and summarize transcript-level estimates for transcript-and gene-level analysis) Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample-specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts. Package: r-bioc-tximportdata Architecture: all Version: 1.36.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 513023 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-bioc-tximportdata_1.36.0-1.ca2004.1_all.deb Size: 285818360 MD5sum: e8f45931c528580e96106ece39f351b6 SHA1: baa664a39dc33b89eeccd194c05cf2cfbf8d1bc1 SHA256: e6a41c1ab9b645ccf0738804257765a896a41b09aa9924c8bdcdc1479837210c SHA512: 8a66291380ec70ccb97be5b43f6f777206f839b4615a22c18be0f2c93b29eb875fc2b28b64c8378332a60cf27958ef2c1dbe36e068ee63360f9bf9efcf780b00 Homepage: https://cran.r-project.org/package=tximportData Description: Bioc Package 'tximportData' (tximportData) This package provides the output of running various transcript abundance quantifiers on a set of 6 RNA-seq samples from the GEUVADIS project. The quantifiers were Cufflinks, RSEM, kallisto, Salmon and Sailfish. alevin example output is also included. Forr details on version numbers, sample information, and details on calls, see the package vignette. Package: r-bioc-ucell Architecture: all Version: 2.12.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3907 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-matrix, r-bioc-biocparallel, r-bioc-biocneighbors, r-bioc-singlecellexperiment, r-bioc-summarizedexperiment Suggests: r-bioc-scater, r-bioc-scrnaseq, r-cran-reshape2, r-cran-patchwork, r-cran-ggplot2, r-bioc-biocstyle, r-cran-seurat, r-cran-seuratobject, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-bioc-ucell_2.12.0-1.ca2004.1_all.deb Size: 1159464 MD5sum: 5accc3b3c8bb82d7e4f705f6e7b282fe SHA1: ede8431c182ff0d93daddb9066d129949a793340 SHA256: ba53b3e955cec1d718669c807f2d7ea9435d201216264c9494295707ee1ac4d2 SHA512: db17da1caabaaeeb4733361cb326be599b22b78295e5c7751cd33df47c298682a8f9eb49e75c1f923eea55227cb62a02dad2b7b66e3716aa3f05cc762c34eaeb Homepage: https://cran.r-project.org/package=UCell Description: Bioc Package 'UCell' (Rank-based signature enrichment analysis for single-cell data) UCell is a package for evaluating gene signatures in single-cell datasets. UCell signature scores, based on the Mann-Whitney U statistic, are robust to dataset size and heterogeneity, and their calculation demands less computing time and memory than other available methods, enabling the processing of large datasets in a few minutes even on machines with limited computing power. UCell can be applied to any single-cell data matrix, and includes functions to directly interact with SingleCellExperiment and Seurat objects. Package: r-bioc-ucsc.utils Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 735 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-bioc-s4vectors Suggests: r-cran-dbi, r-cran-rmariadb, r-bioc-genomeinfodb, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-bioc-biocstyle Filename: pool/dists/focal/main/r-bioc-ucsc.utils_1.4.0-1.ca2004.1_all.deb Size: 261748 MD5sum: fcd9ad82ef81b08490355710a747320f SHA1: 3eab66a938af5a38fd577663bc522684fe833ace SHA256: 72dd70fe604d056e73f4a0dab015dfc6a7152c00153590be933e780d8350eb43 SHA512: 15a2be62b10e19d5aabe909703dd5994118dc16fe6908a12b61c1c2d3c06cfe8db1dd2995071fba911803e06b5f6ef72d0a66fe654e3f9994be6f03dc5351f2b Homepage: https://cran.r-project.org/package=UCSC.utils Description: Bioc Package 'UCSC.utils' (Low-level utilities to retrieve data from the UCSC GenomeBrowser) A set of low-level utilities to retrieve data from the UCSC Genome Browser. Most functions in the package access the data via the UCSC REST API but some of them query the UCSC MySQL server directly. Note that the primary purpose of the package is to support higher-level functionalities implemented in downstream packages like GenomeInfoDb or txdbmaker. Package: r-bioc-uniprot.ws Architecture: all Version: 2.48.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 980 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-anvilbase, r-bioc-biocfilecache, r-bioc-biocbaseutils, r-bioc-biocgenerics, r-cran-httr2, r-cran-jsonlite, r-cran-progress, r-cran-rjsoncons Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-bioc-uniprot.ws_2.48.0-1.ca2004.1_all.deb Size: 438200 MD5sum: 6e5b0552fe4bd21e947ae1eb7f24e472 SHA1: 722020f3d86570d570a6f3828bdc5cd9a56a3aa3 SHA256: 1f373234b2ca46b5ed411abbbcc566b4f198befe335da9e87b28c14c3b4f022d SHA512: 1f298fda7293b69650a69937fcb46ec7bfb32be2af91fc69d75894fd8d9c7c9515d08e525650802b1a1d9974ac5e37d9e473d0b21fede8c4110f4140a4766054 Homepage: https://cran.r-project.org/package=UniProt.ws Description: Bioc Package 'UniProt.ws' (R Interface to UniProt Web Services) The Universal Protein Resource (UniProt) is a comprehensive resource for protein sequence and annotation data. This package provides a collection of functions for retrieving, processing, and re-packaging UniProt web services. The package makes use of UniProt's modernized REST API and allows mapping of identifiers accross different databases. Package: r-bioc-variancepartition Architecture: all Version: 1.38.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8578 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-bioc-limma, r-bioc-biocparallel, r-cran-mass, r-cran-pbkrtest, r-cran-lmertest, r-cran-matrix, r-cran-iterators, r-cran-gplots, r-cran-corpcor, r-cran-matrixstats, r-cran-rhpcblasctl, r-cran-reshape2, r-cran-remacor, r-cran-fancova, r-cran-aod, r-cran-scales, r-cran-rdpack, r-cran-rlang, r-cran-lme4, r-bioc-biobase Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-pander, r-cran-rmarkdown, r-bioc-edger, r-cran-dendextend, r-bioc-tximport, r-bioc-tximportdata, r-bioc-ballgown, r-bioc-deseq2, r-cran-runit, r-cran-cowplot, r-cran-rfast, r-bioc-zenith, r-cran-statmod, r-bioc-biocgenerics, r-cran-r2glmm, r-cran-readr Filename: pool/dists/focal/main/r-bioc-variancepartition_1.38.0-1.ca2004.1_all.deb Size: 3839556 MD5sum: da71cc5b78fda30e07ca4661fae39bf3 SHA1: 6a86e4aad25ddaf4252fb98a01acfd0a523d41f0 SHA256: 5359ea754364555310bd5c8a50edeff56fa0d69d941250e0dd2b6851de9eb2f8 SHA512: f9913403e8d7158647733d18651c96fb15be3110f49fc2eff2bc94cf45b6ad0a2789d9cb6237986cce735e39a38d20994bc0f122e0cf19f39a7805cc1e2ffb6f Homepage: https://cran.r-project.org/package=variancePartition Description: Bioc Package 'variancePartition' (Quantify and interpret drivers of variation in multilevel geneexpression experiments) Quantify and interpret multiple sources of biological and technical variation in gene expression experiments. Uses a linear mixed model to quantify variation in gene expression attributable to individual, tissue, time point, or technical variables. Includes dream differential expression analysis for repeated measures. Package: r-bioc-vbmp Architecture: all Version: 1.76.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1905 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-bioc-biobase, r-cran-statmod Filename: pool/dists/focal/main/r-bioc-vbmp_1.76.0-1.ca2004.1_all.deb Size: 1888884 MD5sum: 73d6637734c9af927674c182fdd58aa2 SHA1: 13226213435ed584bc48ab76c67d1132bba0fc8c SHA256: d0ed2e160b3046be7478b1fe629d72e106c0402889f7e20a1bc8aa10c2778cf8 SHA512: 9e3217187dd102961429ce41d56e58c30bf687c9e69f52ad7e6a8ea66a69f5965b1de4e87c280cc93409217a0f90ffef01886667a2767bcafce43f49454090fc Homepage: https://cran.r-project.org/package=vbmp Description: Bioc Package 'vbmp' (Variational Bayesian Multinomial Probit Regression) Variational Bayesian Multinomial Probit Regression with Gaussian Process Priors. It estimates class membership posterior probability employing variational and sparse approximation to the full posterior. 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Based on an ABC analysis the algorithm calculates, with the help of the ABC curve, the optimal limits by exploiting the mathematical properties pertaining to distribution of analyzed items. The data containing positive values is divided into three disjoint subsets A, B and C, with subset A comprising very profitable values, i.e. largest data values ("the important few"), subset B comprising values where the yield equals to the effort required to obtain it, and the subset C comprising of non-profitable values, i.e., the smallest data sets ("the trivial many"). Package is based on "Computed ABC Analysis for rational Selection of most informative Variables in multivariate Data", PLoS One. Ultsch. A., Lotsch J. (2015) . 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This package has a set of datasets commonly used in our book. 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Package: r-cran-abms Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayeslogit, r-cran-gigrvg, r-cran-mvtnorm, r-cran-truncnorm Filename: pool/dists/focal/main/r-cran-abms_0.2-1.ca2004.1_all.deb Size: 121556 MD5sum: b1679d41b82549d6056c578f289c6f2d SHA1: 5d84e7e367b6693e92481f22fd05394585ed3141 SHA256: 695b7d85f4d479876d0d7eb8fa054cfb238a9bbc5f046113f22327fd2a766893 SHA512: 1dc9b23c1d41f74e72b685c0c2fafc9320af17f6228ccd19d30a925652f260195886ebc00cd4e5e64806b954b2997193e06c97a69f267d84faba9fb0e418effd Homepage: https://cran.r-project.org/package=abms Description: CRAN Package 'abms' (Augmented Bayesian Model Selection for Regression Models) Tools to perform model selection alongside estimation under Linear, Logistic, Negative binomial, Quantile, and Skew-Normal regression. Under the spike-and-slab method, a probability for each possible model is estimated with the posterior mean, credibility interval, and standard deviation of coefficients and parameters under the most probable model. Package: r-cran-abnormality Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrix Filename: pool/dists/focal/main/r-cran-abnormality_0.1.0-1.ca2004.1_all.deb Size: 20404 MD5sum: e916f1e1710259b2964f3a50ba6330c1 SHA1: 67f83301963b3eff5c37d9a2de82bdf31b7566b7 SHA256: 750ae43fccd11703822027789c6fb043d621a95bd36cdd8a0d6c89c2000ae690 SHA512: 88f153e05d502a95d6f6503c9849f8408089d6a003f2c7017eac74d9e1b8ffb59621ee8bf66460f22c3536929a7ef90aade19dfa80c6928ad38fbb6ec26fa4a9 Homepage: https://cran.r-project.org/package=abnormality Description: CRAN Package 'abnormality' (Measure a Subject's Abnormality with Respect to a ReferencePopulation) Contains the functions to implement the methodology and considerations laid out by Marks et al. in the manuscript Measuring Abnormality in High Dimensional Spaces: Applications in Biomechanical Gait Analysis. As of 2/27/2018 this paper has been submitted and is under scientific review. Using high-dimensional datasets to measure a subject’s overall level of abnormality as compared to a reference population is often needed in outcomes research. Utilizing applications in instrumented gait analysis, that article demonstrates how using data that is inherently non-independent to measure overall abnormality may bias results. A methodology is introduced to address this bias to accurately measure overall abnormality in high dimensional spaces. While this methodology is in line with previous literature, it differs in two major ways. Advantageously, it can be applied to datasets in which the number of observations is less than the number of features/variables, and it can be abstracted to practically any number of domains or dimensions. After applying the proposed methodology to the original data, the researcher is left with a set of uncorrelated variables (i.e. principal components) with which overall abnormality can be measured without bias. Different considerations are discussed in that article in deciding the appropriate number of principal components to keep and the aggregate distance measure to utilize. Package: r-cran-abodoutlier Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster Filename: pool/dists/focal/main/r-cran-abodoutlier_0.1-1.ca2004.1_all.deb Size: 15164 MD5sum: 843a0ca78e19d83c756f78f9e521a3a6 SHA1: 889aec7261989030fc01a3f6f8ccb8eee8e58b60 SHA256: f5112011cf23ac51c429fa28d6be926f743d8bc07e97528e0afbbd6bddcf0e78 SHA512: c54c489f756631c5cf6f85cab93d121e74fdc9e90c8ea789480a1d93812f3fccb6dde56c8741d460edf6f735f488026340ccf501a8e501ebb5f448850f4af42e Homepage: https://cran.r-project.org/package=abodOutlier Description: CRAN Package 'abodOutlier' (Angle-Based Outlier Detection) Performs angle-based outlier detection on a given dataframe. Three methods are available, a full but slow implementation using all the data that has cubic complexity, a fully randomized one which is way more efficient and another using k-nearest neighbours. These algorithms are specially well suited for high dimensional data outlier detection. Package: r-cran-abps Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernlab Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-abps_0.3-1.ca2004.1_all.deb Size: 125268 MD5sum: 6396727f32b7576082130c7e88f0d0ca SHA1: df0187dfee3a51c2fb32a04bc0d78e4fe8769860 SHA256: fa4415fb161a8762970eaf5fb8c607167e3c0b2e13818054f098ae983f84bfc3 SHA512: 25b49c89885d6f240f59336ec47b335dbd036618249fc9496f12ad9fb8d8a6605a5a76e12bbc3920d7258ed84e0ca1e6e0cda040692b60f58011ee07b0ac622d Homepage: https://cran.r-project.org/package=ABPS Description: CRAN Package 'ABPS' (The Abnormal Blood Profile Score to Detect Blood Doping) An implementation of the Abnormal Blood Profile Score (ABPS, part of the Athlete Biological Passport program of the World Anti-Doping Agency), which combines several blood parameters into a single score in order to detect blood doping (Sottas et al. (2006) ). The package also contains functions to calculate other scores used in anti-doping programs, such as the OFF-score (Gore et al. (2003) ), as well as example data. Package: r-cran-abrsqol Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-abrsqol_1.0.0-1.ca2004.1_all.deb Size: 28224 MD5sum: d3a06d289d370fc4d14e90f5324ad01a SHA1: aeb3eb70424cdb7a26176f22e68b6fa276c5637a SHA256: a0387b2d771f35ad4467ab9aad011ce7502ad900a27c0ec90ec0f8e5a4372fc3 SHA512: 6dcf50f04e4a4abec43e871798676544cfac2d35f16ec45f64a776579cdfad19492abcb77d3dbcdc353eca64b617510b4c282aa062641e0c16d43c33c965b17c Homepage: https://cran.r-project.org/package=ABRSQOL Description: CRAN Package 'ABRSQOL' (Quality-of-Life Solver for "Measuring Quality of Life underSpatial Frictions") This toolkit implements a numerical solution algorithm to invert a quality of life measure from observed data. Unlike the traditional Rosen-Roback measure, this measure accounts for mobility frictions—generated by idiosyncratic tastes and local ties — and trade frictions — generated by trade costs and non-tradable services, thereby reducing non-classical measurement error. The QoL measure is based on Ahlfeldt, Bald, Roth, Seidel (2024) "Measuring Quality of Life under Spatial Frictions". When using this programme or the toolkit in your work, please cite the paper. 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Package: r-cran-absorber Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix, r-cran-sparsegl, r-cran-fda, r-cran-ggplot2, r-cran-mass, r-cran-irlba Suggests: r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-absorber_1.0-1.ca2004.1_all.deb Size: 93612 MD5sum: 3c16ba369671e5456331b87c0148aa1e SHA1: 392ddadd623e61d8fd23c9ab82dec9beb2637a6a SHA256: 06768b4951af91d69f9ccc0a1c7b5aa00d2d5162e178f7535dc858a393fb8148 SHA512: e0bc763dd1ec21222d0b70ad0f4ea94640c9b877a345a5b84fb55a0406140baebc11c783b9c739a39e5b9e0e0e4bd322cd3939b2a152ca38a438fed9776e4935 Homepage: https://cran.r-project.org/package=absorber Description: CRAN Package 'absorber' (Variable Selection in Nonparametric Models using B-Splines) A variable selection method using B-Splines in multivariate nOnparametric Regression models Based on partial dErivatives Regularization (ABSORBER) implements a novel variable selection method in a nonlinear multivariate model using B-splines. For further details we refer the reader to the paper Savino, M. E. and Lévy-Leduc, C. (2024), . 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Survival model examines the relationship between survival and one or more predictors, usually termed covariates in the survival-analysis literature. To this end, Cox-proportional (Cox-PH) hazard rate model introduced in a seminal paper by Cox (1972) , is a broadly applicable and the most widely used method of survival analysis. This package can be used to estimate the effect of fixed and time-dependent covariates and also to compute the survival probabilities of the lactation of dairy animal. This package has been developed using algorithm of Klein and Moeschberger (2003) . 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Permutation inference for canonical correlation analysis. NeuroImage, . Furthermore, it provides plotting tools to visualize the results. Package: r-cran-accelmissing Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4843 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mice, r-cran-pscl Filename: pool/dists/focal/main/r-cran-accelmissing_2.2-1.ca2004.1_all.deb Size: 4924868 MD5sum: 088acf0190bd49d29eb29b30490f0370 SHA1: 446cd65ed2916c74b982ad0b6614a31222b89394 SHA256: 379cdacd864e096f769be2862eea5d19cb12dc6aa547e9b2fd14ed330b07b737 SHA512: 3246c1eed7f2dbad1a91e920ddbe5e04a99fc650c6bbaa8b379befbc641898b1ab6956fdb599686369656e9078bba2d4229b5168b39b5b14c6b5c4d9f8e1928e Homepage: https://cran.r-project.org/package=accelmissing Description: CRAN Package 'accelmissing' (Missing Value Imputation for Accelerometer Data) We present a statistical method for imputing missing values in accelerometer data. The methodology includes both parametric and semi-parametric multiple imputation under the zero-inflated Poisson lognormal model. It also offers several functions to preprocess accelerometer data before imputation. These include detecting wear and non-wear time, selecting valid days and subjects, and generating plots. 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A closed-form (analytic) solution to the degradation model is implemented as a non-linear fit, allowing for the extrapolation of the degradation of a drug product - both in time and temperature. Parametric bootstrap, with kinetic parameters drawn from the multivariate t-distribution, and analytical formulae (the delta method) are available options to calculate the confidence and prediction intervals. The results (modelling, extrapolations and statistical intervals) can be visualised with multiple plots. The examples illustrate the accelerated stability modelling in drugs and vaccines development. 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(2020) and Safari et al. (2022) . Package: r-cran-acceptancesampling Architecture: all Version: 1.0-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 495 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-acceptancesampling_1.0-10-1.ca2004.1_all.deb Size: 409508 MD5sum: bb478e65dc7a0fafe22ee96f9a2b3bd3 SHA1: f552ceae97d8dc32cbbb2303ca45c64a0a063873 SHA256: 9689b4a83551978d2263fc342626e1e62c7aa039271d4ae44693baead39e0939 SHA512: f74d3e9e0a784a71a027f5fdb93cf2a1bb393a0c9c457e5f26855a38ccd1b080026ad09bb46dd12e68f4703d01556b91597b5b99a0bf4a2b0395641df9e31183 Homepage: https://cran.r-project.org/package=AcceptanceSampling Description: CRAN Package 'AcceptanceSampling' (Creation and Evaluation of Acceptance Sampling Plans) Provides functionality for creating and evaluating acceptance sampling plans. Sampling plans can be single, double or multiple. Package: r-cran-accessibility Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3225 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-hmisc, r-cran-rdpack Suggests: r-cran-covr, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-accessibility_1.4.0-1.ca2004.1_all.deb Size: 2735092 MD5sum: 7349b44deabb5fa9e0d093ef3cbc5aba SHA1: da9bbe222fe3b8ef3b75bcd07bb3a9cb5a684281 SHA256: 3f3bae0820b94fd4bc7165a824b5427467cba634d016a47e1ebcc11f91c8994b SHA512: afefd277cb36e87aa1ba6c1ec69add5fd5d8c569f5713d54372005e241daafd352a8ffaff1e8de4b9c1b8f11d535831b9f5fad6e95f9f4644d1485c44f98ab8e Homepage: https://cran.r-project.org/package=accessibility Description: CRAN Package 'accessibility' (Transport Accessibility Measures) A set of fast and convenient functions to help conducting accessibility analyses. Given a pre-computed travel cost matrix and a land use dataset (containing the location of jobs, healthcare and population, for example), the package allows one to calculate accessibility levels and accessibility poverty and inequality. The package covers the majority of the most commonly used accessibility measures (such as cumulative opportunities, gravity-based and floating catchment areas methods), as well as the most frequently used inequality and poverty metrics (such as the Palma ratio, the concentration and Theil indices and the FGT family of measures). 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Accessible 'PDF' files are produced only on a 'Windows' Operating System. One aspect of accessibility is providing a headings structure that is recognised by a screen reader, providing a navigational tool for a blind or partially-sighted person. A key aim is to produce documents of different formats easily from each of a collection of 'R markdown' source files. Input 'R markdown' files are rendered using the render() function from the 'rmarkdown' package . A 'zip' file containing multiple output files can be produced from one function call. A user-supplied template 'Word' document can be used to determine the formatting of an output 'Word' document. Accessible 'PDF' files are produced from 'Word' documents using 'OfficeToPDF' . A convenience function, install_otp() is provided to install this software. The option to print 'HTML' output to (non-accessible) 'PDF' files is also available. 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The package provides functions for creating or modifying 'rmarkdown' documents, resolving known errors and alerts that result in accessibility issues for screen reader users. Package: r-cran-accrual Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tcltk2, r-cran-fgui, r-cran-smpracticals Filename: pool/dists/focal/main/r-cran-accrual_1.4-1.ca2004.1_all.deb Size: 59604 MD5sum: 6dedfb4ed1581c113ac5c930f4f6d66e SHA1: faf1fbfe768bef190486483f66ffdd372b507539 SHA256: 6f0b1481d7c52b25565ff428803bfe4550224b85c11d61f820a1fdfbcb2420f8 SHA512: bf1e53316401c2dd10533c44d365eb5a48b2d74de69c36646925fb29e5024d6208621ff67527b65df6f3bef08dbc967c69784ce794cd892c6bb25e81b6b009ff Homepage: https://cran.r-project.org/package=accrual Description: CRAN Package 'accrual' (Bayesian Accrual Prediction) Participant recruitment for medical research is challenging. Slow accrual leads to delays in research. Accrual monitoring during the process of recruitment is critical. Researchers need reliable tools to manage the accrual rate. We developed a Bayesian method that integrates the researcher's experience with previous trials and data from the current study, providing reliable predictions on accrual rate for clinical studies. For more details and background on these methodologies, see the publications of Byron, Stephen and Susan (2008) , and Yu et al. (2015) . In this R package, Bayesian accrual prediction functions are presented, which can be easily used by statisticians and clinical researchers. 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See the examples, testing versions and more details from: . Package: r-cran-ace.coco Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-quantreg Suggests: r-cran-mvtnorm, r-cran-mass Filename: pool/dists/focal/main/r-cran-ace.coco_0.1-1.ca2004.1_all.deb Size: 18192 MD5sum: 5cb659d0acf16ab7a54a965c890548ef SHA1: 3a51fe62cebecd5f20513e2c61a5e75f564c9f95 SHA256: 6ad64ace87a42d40b458da97561d5a1ba0d2e30c98b242f4b2203e0e40c046bd SHA512: 0b28714a6b6615480b6cfa474e69ccef5518e9926cb2dcefd304870e319f915dc68d9d1bdf7f14c7659a2f400a470b9d903a0166a65c06f1e4487cbfc861b91a Homepage: https://cran.r-project.org/package=ACE.CoCo Description: CRAN Package 'ACE.CoCo' (Analysis of Correlated High-Dimensional Expression (ACE) Data) A function for estimating factor models. Give factor-adjusted statistics, factor-adjusted mean estimation (one-sample test) or factor-adjusted mean difference estimation (two-sample test). Package: r-cran-ace2fastq Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-ace2fastq_0.6.0-1.ca2004.1_all.deb Size: 25764 MD5sum: 300381e9a94a27050514600a8ab912ef SHA1: 13bab40b3bdb1d99785b5ecf5c57ac08cb98cfe0 SHA256: 0004f78b9997b3895feaf3c3f04cdcc0771290887432eca20af1a458b2dd21a5 SHA512: 3b6cd9e4bb1a7c4debbd0cee8c16f8496a1f1efa9e0c7b00ed97d253f0eff26cbe80819a7f29ce96dd4d3a7e41ba955e851bea0e280f64b9f0da60c4e219aeaf Homepage: https://cran.r-project.org/package=ace2fastq Description: CRAN Package 'ace2fastq' (ACE File to FASTQ Converter) The ACE file format is used in genomics to store contigs from sequencing machines. This tools converts it into FASTQ format. Both formats contain the sequence characters and their corresponding quality information. Unlike the FASTQ file, the ace file stores the quality values numerically. The conversion algorithm uses the standard Sanger formula. The package facilitates insertion into pipelines, and content inspection. Package: r-cran-aceeditor Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 11922 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-htmlwidgets, r-cran-reactr, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-aceeditor_1.0.1-1.ca2004.1_all.deb Size: 1592740 MD5sum: b781ac1aada586e9982dbe5f2820fa64 SHA1: 1a9164e518ac79d7769c10c5b5626a913e317322 SHA256: 3246ba11098801e637a047a4e58ddc95e01e8dabcbb3546ef89bb3845582e3de SHA512: d23a30b6b04eaf8e41480cd0db5ba88efee1d92042cc40474ec69169a039cd14c761d4fac528f3c37c1ba7cfe6bfb7e591851fac5480f8210cdaf1ea607cb992 Homepage: https://cran.r-project.org/package=aceEditor Description: CRAN Package 'aceEditor' (The 'Ace' Editor as a HTML Widget) Wraps the 'Ace' editor in a HTML widget. The 'Ace' editor has support for many languages. It can be opened in the viewer pane of 'RStudio', and this provides a second source editor. Package: r-cran-acep Architecture: all Version: 0.0.22-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1867 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-acep_0.0.22-1.ca2004.1_all.deb Size: 1591388 MD5sum: da34e9b5fbc247e3551757ad5e421c88 SHA1: 62983c6de0e3e9a69ba333af16bdd1eafd514381 SHA256: ca85ff1321eafe29e0fe9d11589a2aac725cdb2e0d5fcf129028a2e2f3fc10d2 SHA512: 76b3dca6de744f396ecd34f910dc58b397030c924777548d3e747029f8335d1b752f536a54cce5056c7a07fced24c09da001d49bff4eb5a61cb3d5679938a675 Homepage: https://cran.r-project.org/package=ACEP Description: CRAN Package 'ACEP' (Analisis Computacional de Eventos de Protesta) La libreria 'ACEP' contiene funciones especificas para desarrollar analisis computacional de eventos de protesta. Asimismo, contiene base de datos con colecciones de notas sobre protestas y diccionarios de palabras conflictivas. Coleccion de diccionarios que reune diccionarios de diferentes origenes. The 'ACEP' library contains specific functions to perform computational analysis of protest events. It also contains a database with collections of notes on protests and dictionaries of conflicting words. Collection of dictionaries that brings together dictionaries from different sources. Package: r-cran-acesearch Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-acesearch_1.0.0-1.ca2004.1_all.deb Size: 25904 MD5sum: 5261f5689a2aee6cdd1d34da31e843cc SHA1: 0e68b903c5eda1ddab1f94b710ff566c01a76f5c SHA256: 66ae0bc3932fae9463fbaf1a5359a907d0cf6548663abda909d428ba228c0b26 SHA512: 2d6f41e0d19acdcad6b68221c88b0f040c248eceb525638b2682fa52bfacf7c2e15c6f5fb342ec16891c21f945f88d2a5675ed52df5de76f213de6843c17c477 Homepage: https://cran.r-project.org/package=ACEsearch Description: CRAN Package 'ACEsearch' ('ACE' Search Engine API) 'ACE' (Advanced Cohort Engine) is a powerful tool that allows constructing cohorts of patients extremely quickly and efficiently. This package is designed to interface directly with an instance of 'ACE' search engine and facilitates API queries and data dumps. Prerequisite is a good knowledge of the temporal language to be able to efficiently construct a query. More information available at . Package: r-cran-acesimfit Architecture: all Version: 0.0.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-openmx Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-acesimfit_0.0.0.9-1.ca2004.1_all.deb Size: 51664 MD5sum: 9fb61cb05f9479228a67f90a78cecf1f SHA1: 602fcda5d628453fc5b93a3c67d497b92afec9a2 SHA256: f9ec0e9cff005fa44017dbcb884d8ded88e02aceb70459a3c8a2e39b58d3cbe8 SHA512: 5afb4642e1a6877c1bd9ea0e3267cb5add2ec9dff1cdc700ac6619c3594525fb57bbd3a58c49090a8dd0d6413fac0e88c2f0c04edef4cf239e08158c9e802dd4 Homepage: https://cran.r-project.org/package=ACEsimFit Description: CRAN Package 'ACEsimFit' (ACE Kin Pair Data Simulations and Model Fitting) A few functions aim to provide a statistic tool for three purposes. First, simulate kin pairs data based on the assumption that every trait is affected by genetic effects (A), common environmental effects (C) and unique environmental effects (E).Second, use kin pairs data to fit an ACE model and get model fit output.Third, calculate power of A estimate given a specific condition. For the mechanisms of power calculation, we suggest to check Visscher(2004). Package: r-cran-acfmperiod Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-acfmperiod_1.0.0-1.ca2004.1_all.deb Size: 55884 MD5sum: 6c6546eb7455bce1caa94451f55d44fd SHA1: a4700442228a7503e7a391667a1f25f42a7a7f6b SHA256: 19f4841de25b811422b75a7f0da3a8c2a62ca0e0457053579d7119f56d5c6b8e SHA512: 4780c485eff3f2c884728d2f71a70010f0b7553242f2c5ee6c71783503c477ce8da6705b9a6e839251bcb8e190cad5c64f05832772afac1a2a9ba6f110ddce1d Homepage: https://cran.r-project.org/package=acfMPeriod Description: CRAN Package 'acfMPeriod' (Robust Estimation of the ACF from the M-Periodogram) Non-robust and robust computations of the sample autocovariance (ACOVF) and sample autocorrelation functions (ACF) of univariate and multivariate processes. The methodology consists in reversing the diagonalization procedure involving the periodogram or the cross-periodogram and the Fourier transform vectors, and, thus, obtaining the ACOVF or the ACF as discussed in Fuller (1995) . The robust version is obtained by fitting robust M-regressors to obtain the M-periodogram or M-cross-periodogram as discussed in Reisen et al. (2017) . Package: r-cran-achilles Architecture: all Version: 1.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1562 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-databaseconnector, r-cran-sqlrender, r-cran-dplyr, r-cran-jsonlite, r-cran-parallellogger, r-cran-readr, r-cran-data.table, r-cran-lubridate, r-cran-tseries, r-cran-rlang Suggests: r-cran-dt, r-cran-magrittr, r-cran-tidyr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-achilles_1.7.2-1.ca2004.1_all.deb Size: 700520 MD5sum: 9276258fe55670fd7a345a3c729df59d SHA1: c3ce4cbb0ae055baab0d6be61a5fd6f98a99c184 SHA256: 2f0c84a83b375b9a50e90e759f1cf5b22a07908087aa2ac5b6d79cc6111ba802 SHA512: 8cbeaac44bc6ddb20313f0e70415490a2fd0ecea044e13912fdcf63c1c1193095bc6a5926592a00c56790a60c3319e6bc3c9faf0e79f945de4f61465e611df34 Homepage: https://cran.r-project.org/package=Achilles Description: CRAN Package 'Achilles' (Achilles Data Source Characterization) Automated Characterization of Health Information at Large-Scale Longitudinal Evidence Systems. Creates a descriptive statistics summary for an Observational Medical Outcomes Partnership Common Data Model standardized data source. This package includes functions for executing summary queries on the specified data source and exporting reporting content for use across a variety of Observational Health Data Sciences and Informatics community applications. Package: r-cran-acid Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 379 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gamlss, r-cran-gamlss.dist, r-cran-hmisc Suggests: r-cran-ineq Filename: pool/dists/focal/main/r-cran-acid_1.1-1.ca2004.1_all.deb Size: 341488 MD5sum: 34771c3f032cbf3f4d45021ca82df5c7 SHA1: c3c3607eea7db734e187ca1dccfaa27d9b333d6c SHA256: d05733d1e54e69c75038313afa99e155aec0b3dabfb07e5d4a0a06c9e6b17387 SHA512: 241821dbb02934e9354b07155515cd8453028c4ebced68e3de2e7c15866c2fd8ec6d6570bb98546e235eeb2bcfc8298252249b85be3cef731cabf4b5c3026631 Homepage: https://cran.r-project.org/package=acid Description: CRAN Package 'acid' (Analysing Conditional Income Distributions) Functions for the analysis of income distributions for subgroups of the population as defined by a set of variables like age, gender, region, etc. This entails a Kolmogorov-Smirnov test for a mixture distribution as well as functions for moments, inequality measures, entropy measures and polarisation measures of income distributions. This package thus aides the analysis of income inequality by offering tools for the exploratory analysis of income distributions at the disaggregated level. Package: r-cran-acled.api Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-acled.api_1.1.8-1.ca2004.1_all.deb Size: 33452 MD5sum: 509a061618aa6448469f818e3bee868a SHA1: 6d26b540dd2563236787012e2407e08cc67ced52 SHA256: dacc509b3ed772e322bed0455fb9a8cb6d513ece8b49c3fcb505c376cc2419f8 SHA512: f1c7d8d422dc12cace9c704385fdcbce5397ff0e84580aae3542c78d6b96c5778872603d379d121ead96e74df09fde199b547080491ce5bd13c9af4f142fd9c6 Homepage: https://cran.r-project.org/package=acled.api Description: CRAN Package 'acled.api' (Automated Retrieval of ACLED Conflict Event Data) Access and manage the application programming interface (API) of the Armed Conflict Location & Event Data Project (ACLED) at . The package makes it easy to retrieve a user-defined sample (or all of the available data) of ACLED, enabling a seamless integration of regular data updates into the research work flow. It requires a minimal number of dependencies. See the package's README file for a note on replicability when drawing on ACLED data. When using this package, you acknowledge that you have read ACLED's terms and conditions of use, and that you agree with their attribution requirements. 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Functions include simplified access to ACLED's API (), methods for keeping local versions of ACLED data up-to-date, and functions for common ACLED data transformations. Package: r-cran-acmer Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 398 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreign Suggests: r-cran-knitr, r-cran-devtools Filename: pool/dists/focal/main/r-cran-acmer_1.1.0-1.ca2004.1_all.deb Size: 273260 MD5sum: 74feeb63896b75213bd9f5901a51aab1 SHA1: 9eb88cfa138627558a65f23e08b934df4a061309 SHA256: 67eb18290893d0e60094a59fee9afbf0007b1f2cabacac0bc0906089b9f80a49 SHA512: 93cd4880ece7d41cb6d605c3700ba0d362d8ecca72c1764c4252fcedae1730464bd0619da64fe4b62f51ab5d53d57d033f91caa49b4785af36fdaef9a3adfff9 Homepage: https://cran.r-project.org/package=acmeR Description: CRAN Package 'acmeR' (Implements ACME Estimator of Bird and Bat Mortality by WindTurbines) Implementation of estimator ACME, described in Wolpert (2015), ACME: A Partially Periodic Estimator of Avian & Chiropteran Mortality at Wind Turbines (submitted). Unlike most other models, this estimator supports decreasing-hazard Weibull model for persistence; decreasing search proficiency as carcasses age; variable bleed-through at successive searches; and interval mortality estimates. The package provides, based on search data, functions for estimating the mortality inflation factor in Frequentist and Bayesian settings. Package: r-cran-acne Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 185 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-aroma.affymetrix, r-cran-mass, r-cran-r.methodss3, r-cran-r.oo, r-cran-r.utils, r-cran-matrixstats, r-cran-r.filesets, r-cran-aroma.core Suggests: r-bioc-dnacopy Filename: pool/dists/focal/main/r-cran-acne_0.9.1-1.ca2004.1_all.deb Size: 130064 MD5sum: 4528ff7b42fdf9f25fd0ad4f134f8c1f SHA1: 43a492e0e5b0e68e1c7e73f72ee508ce3cb93bd8 SHA256: ad1449fb391c9d9296b8f4a996fe4e3c98edea314ff159f34523396e5e15ec71 SHA512: 25fc5fc41d2924208aecc99fc573fcf7fad20000816308d31e0fcfa396cc724e302227bf60916c1cc859602b6630aea300b3d33ef9ee77baaf3460547b5c8e13 Homepage: https://cran.r-project.org/package=ACNE Description: CRAN Package 'ACNE' (Affymetrix SNP Probe-Summarization using Non-Negative MatrixFactorization) A summarization method to estimate allele-specific copy number signals for Affymetrix SNP microarrays using non-negative matrix factorization (NMF). Package: r-cran-acnr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3037 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-r.utils, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-acnr_1.0.0-1.ca2004.1_all.deb Size: 2820308 MD5sum: 50c414b9da5ceb3b7c2ceb7839ccc195 SHA1: fe9ef2351e77a79246f8c4cc075b47769f8ce64e SHA256: 748449972cacfbe14ae7133b0b8d53c47f8a8e1932236a41a9f3f203788f6e35 SHA512: b15cc15bbc18f51f132a724ff54e010bd4241be96a75767d58edfaa927e9d1d209b75cec98b5d0c84c10782db9ad4f11cfb7ddd1601871357a107b3d822e5008 Homepage: https://cran.r-project.org/package=acnr Description: CRAN Package 'acnr' (Annotated Copy-Number Regions) Provides SNP array data from different types of copy-number regions. These regions were identified manually by the authors of the package and may be used to generate realistic data sets with known truth. Package: r-cran-acopula Architecture: all Version: 0.9.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 680 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-acopula_0.9.4-1.ca2004.1_all.deb Size: 622364 MD5sum: caf027df33d5b38671e77e904352d657 SHA1: 6429a5e8343562192ae2c29a5d888578e72b89e9 SHA256: 7bbc5ffce2b69989defe1ad274cf9959379401b59baaff1207e0ae708a973da1 SHA512: 690b724d297a1af60962839100977c6448a32bb648b6b9ee76c9c22b16416be786b1821415b2287af5c86133925e03b4cf03f0b3f7fe6bf8e638a413a947432b Homepage: https://cran.r-project.org/package=acopula Description: CRAN Package 'acopula' (Modelling Dependence with Multivariate Archimax (or anyUser-Defined Continuous) Copulas) Archimax copulas are mixture of Archimedean and EV copulas. The package provides definitions of several parametric families of generator and dependence function, computes CDF and PDF, estimates parameters, tests for goodness of fit, generates random sample and checks copula properties for custom constructs. In 2-dimensional case explicit formulas for density are used, contrary to higher dimensions when all derivatives are linearly approximated. Several non-archimax families (normal, FGM, Plackett) are provided as well. Package: r-cran-acorn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-stringr, r-cran-stringi Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-acorn_0.1.0-1.ca2004.1_all.deb Size: 106292 MD5sum: 90c307c35e3975ea50f89aae1a922304 SHA1: f0fed07cbb3ff07771b399b9d907878f7ee63ffd SHA256: 52060c1126d2f02ed9c2c81f103c3389c1360ad6da2e276c4bc5f52066b81ad3 SHA512: d61f6c2811a0ad5c99e2ac0306eb85448e5230954534473dbfa5edd8b96dcdd4b4e8b3bc2f28acffe2b078bf37910e0478583af179075ba309f0036dd5605ad5 Homepage: https://cran.r-project.org/package=acoRn Description: CRAN Package 'acoRn' (Exclusion-Based Parentage Assignment Using Multilocus GenotypeData) Exclusion-based parentage assignment is essential for studies in biodiversity conservation and breeding programs - Kang Huang, Rui Mi, Derek W Dunn, Tongcheng Wang, Baoguo Li, (2018), . The tool compares multilocus genotype data of potential parents and offspring, identifying likely parentage relationships while accounting for genotyping errors, missing data, and duplicate genotypes. 'acoRn' includes two algorithms: one generates synthetic genotype data based on user-defined parameters, while the other analyzes existing genotype data to identify parentage patterns. The package is versatile, applicable to diverse organisms, and offers clear visual outputs, making it a valuable resource for researchers. Package: r-cran-acousticndlcoder Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 673 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tuner, r-cran-zoo, r-cran-seewave Filename: pool/dists/focal/main/r-cran-acousticndlcoder_1.0.2-1.ca2004.1_all.deb Size: 599708 MD5sum: 86041eba95140253409ea4c8c5c73dc0 SHA1: 1458ee298d540bc60e76db9583fda314b42e2b56 SHA256: ddd32acf9fc7d7e655f330f9866eed1e7054f842652dc35e1a7abd2049d23a35 SHA512: f5f6b6cf64180eed7a899869ab77e22c26d1241a9d1ea82a3e2f277945ac0b53e7c291455e44fb552a283290300f47210ce012f25bf6487b21e2061d97b6cafd Homepage: https://cran.r-project.org/package=AcousticNDLCodeR Description: CRAN Package 'AcousticNDLCodeR' (Coding Sound Files for Use with NDL) Make acoustic cues to use with the R packages 'ndl' or 'ndl2'. The package implements functions used in the PLoS ONE paper: Denis Arnold, Fabian Tomaschek, Konstantin Sering, Florence Lopez, and R. Harald Baayen (2017). Words from spontaneous conversational speech can be recognized with human-like accuracy by an error-driven learning algorithm that discriminates between meanings straight from smart acoustic features, bypassing the phoneme as recognition unit. PLoS ONE 12(4):e0174623 More details can be found in the paper and the supplement. 'ndl' is available on CRAN. 'ndl2' is available by request from . 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For a given set of symbols in a string, all possible or a large number of random samples of Turing machines (TM) with a given number of states (e.g., 5) and number of symbols corresponding to the number of symbols in the strings were simulated until they reached a halting state or failed to end. This package contains data on 4.5 million strings from length 1 to 12 simulated on TMs with 2, 4, 5, 6, and 9 symbols. The complexity of the string corresponds to the distribution of the halting states of the TMs. Package: r-cran-acss Architecture: all Version: 0.3-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1311 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-acss.data, r-cran-zoo Suggests: r-cran-effects, r-cran-lattice, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-acss_0.3-2-1.ca2004.1_all.deb Size: 1209928 MD5sum: 9fab49e6451d0cb16c2803a421f5a17e SHA1: e477c75f59a44463e915058eb8388b449238f8b6 SHA256: 8566ae553927169bb148fa759006c1b9fb38008d3943850bc3e07196b70e1e07 SHA512: 053e136cc1a8477dac64d98f7bd3072a1aabde41f7f94ef0176b5c019b9f01bd768a3c19818bf064a606f120605e9408f9c8fb6a49dedcd3a9c79582d39d902e Homepage: https://cran.r-project.org/package=acss Description: CRAN Package 'acss' (Algorithmic Complexity for Short Strings) Main functionality is to provide the algorithmic complexity for short strings, an approximation of the Kolmogorov Complexity of a short string using the coding theorem method (see ?acss). The database containing the complexity is provided in the data only package acss.data, this package provides functions accessing the data such as prob_random returning the posterior probability that a given string was produced by a random process. In addition, two traditional (but problematic) measures of complexity are also provided: entropy and change complexity. Package: r-cran-acswr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 320 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-acswr_1.0-1.ca2004.1_all.deb Size: 233960 MD5sum: a2f5f3033cf02901b956cf6768bd2f80 SHA1: 0186976abcff9c93970a8a1b09986336fc91f475 SHA256: 9782fa126284a234e1b148f8cfce6194fd909c0deb272870493f9b1bbdf0a5d8 SHA512: bd9d66566095e21655c69ded51104809184e5bafee99ded2db12f341698c43294a4735af2c231393f78182e399db2a187f03d0bed374af75c03cee37f7cb7af5 Homepage: https://cran.r-project.org/package=ACSWR Description: CRAN Package 'ACSWR' (A Companion Package for the Book "A Course in Statistics with R") A book designed to meet the requirements of masters students. Tattar, P.N., Suresh, R., and Manjunath, B.G. "A Course in Statistics with R", J. Wiley, ISBN 978-1-119-15272-9. Package: r-cran-act Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4399 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-stringr, r-cran-stringi, r-cran-textutils, r-cran-progress, r-cran-xml, r-cran-xml2, r-cran-openxlsx Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-act_1.3.1-1.ca2004.1_all.deb Size: 2060124 MD5sum: 51b6e2dff067ddb7b71adb723b78aeb0 SHA1: 8493ad89dd02a21975e375901db252bb2ed61b77 SHA256: 183e06c88c037290bdc3b847c1208d0dfaa445b362c920f006342df28a9a4f46 SHA512: 34d4a78d8771108cc14af94213c5b79e3c07580ed633e795e6674d63b9ea4e1da0e13d74aa5505cc2048fab96bfdb7122020e788e192c136477d94182a5acc8c Homepage: https://cran.r-project.org/package=act Description: CRAN Package 'act' (Aligned Corpus Toolkit) The Aligned Corpus Toolkit (act) is designed for linguists that work with time aligned transcription data. It offers functions to import and export various annotation file formats ('ELAN' .eaf, 'EXMARaLDA .exb and 'Praat' .TextGrid files), create print transcripts in the style of conversation analysis, search transcripts (span searches across multiple annotations, search in normalized annotations, make concordances etc.), export and re-import search results (.csv and 'Excel' .xlsx format), create cuts for the search results (print transcripts, audio/video cuts using 'FFmpeg' and video sub titles in 'Subrib title' .srt format), modify the data in a corpus (search/replace, delete, filter etc.), interact with 'Praat' using 'Praat'-scripts, and exchange data with the 'rPraat' package. The package is itself written in R and may be expanded by other users. 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Measuring circadian rhythm with wearables is based on a principle that there is increased movement during wake periods and reduced movement during sleep periods, and has been shown to be reliable and valid. This package can be used to extract nonparametric circadian metrics like intradaily variability (IV), interdaily stability (IS), and relative amplitude (RA); and parametric cosinor model and extended cosinor model coefficient. Details can be found in Junrui Di et al (2019) . Package: r-cran-actel Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1523 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-circular, r-cran-data.table, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-fasttime, r-cran-ggplot2, r-cran-knitr, r-cran-readr, r-cran-reshape2, r-cran-rmarkdown, r-cran-rsvg, r-cran-scales, r-cran-stringi, r-cran-stringr, r-cran-svglite Suggests: r-cran-gdistance, r-cran-gwidgets2, r-cran-gwidgets2tcltk, r-cran-raster, r-cran-sp, r-cran-sf, r-cran-terra, r-cran-testthat Filename: pool/dists/focal/main/r-cran-actel_1.3.0-1.ca2004.1_all.deb Size: 1415160 MD5sum: 59ff8a26e88828bb2c0ba82b666a2004 SHA1: 33a635bb97b3980812e0ec1780529c9e5039118b SHA256: 2e4a10b55e44520fae9c247659f149f3724dc99f2d3f02292ecf3420cae502a3 SHA512: 75782e6b55cc845d9a284163c80a4a4c71fee9196e35929451727f18c39fd92700898fe9b2a854c56472b9c980dfebfa95e410f55d085b7fef8600631d2cab1b Homepage: https://cran.r-project.org/package=actel Description: CRAN Package 'actel' (Acoustic Telemetry Data Analysis) Designed for studies where animals tagged with acoustic tags are expected to move through receiver arrays. 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It includes functions to compute and visualize the autocorrelation function (ACF) and the partial autocorrelation function (PACF). Additionally, it performs the Dickey-Fuller, KPSS, and Phillips-Perron unit root tests to assess the stationarity of time series. Theoretical foundations are based on Box and Cox (1964) , Box and Jenkins (1976) , and Box and Pierce (1970) . Statistical methods are also drawn from Kolmogorov (1933) , Kwiatkowski et al. (1992) , and Ljung and Box (1978) . The package integrates functions from 'forecast' (Hyndman & Khandakar, 2008) , 'tseries' (Trapletti & Hornik, 2020) , 'xts' (Ryan & Ulrich, 2020) , and 'stats' (R Core Team, 2023) . Additionally, it provides visualization tools via 'plotly' (Sievert, 2020) and 'reactable' (Glaz, 2023) . The package also incorporates macroeconomic datasets from the U.S. Bureau of Economic Analysis: Disposable Personal Income (DPI) , Gross Domestic Product (GDP) , and Personal Consumption Expenditures (PCEC) . Package: r-cran-actilifecounts Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4859 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gsignal, r-cran-pracma, r-cran-ggirread Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-actilifecounts_1.1.1-1.ca2004.1_all.deb Size: 522040 MD5sum: 1eafbae7d4889fcb865bc5e884e29b91 SHA1: fc1172b9c4e6f64e947e1eab7d5d950f24f8281c SHA256: ba1f5eec6c73ff1582e0195b5ef8caded191daf6bd827d0449fcb8414fd1ccd5 SHA512: cd89be9538d4a23e26c60acfe852b192315a9bdd8b0a2794402820448aa4beedc615cb9993f465e7d461f731cced70f963d85a86b2b386737938d0a4e78a474c Homepage: https://cran.r-project.org/package=actilifecounts Description: CRAN Package 'actilifecounts' (Generate Activity Counts from Raw Accelerometer Data) A tool to obtain activity counts, originally a translation of the 'python' package 'agcounts' . This tool allows the processing of data from any accelerometer brand, with a more flexible approach to handle different sampling frequencies. Package: r-cran-activanalyzer Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4757 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-dbplyr, r-cran-dplyr, r-cran-flextable, r-cran-forcats, r-cran-ggplot2, r-cran-golem, r-cran-hms, r-cran-lubridate, r-cran-magrittr, r-cran-modelr, r-cran-patchwork, r-cran-physicalactivity, r-cran-plyr, r-cran-reactable, r-cran-rmarkdown, r-cran-rsqlite, r-cran-shiny, r-cran-shinycssloaders, r-cran-shinydashboard, r-cran-shinydashboardplus, r-cran-shinyfeedback, r-cran-shinyjs, r-cran-stringr, r-cran-tidyr, r-cran-zoo Suggests: r-cran-covr, r-cran-knitr, r-cran-spelling, r-cran-testthat, r-cran-processx, r-cran-globals, r-cran-config, r-cran-tidyselect, r-cran-dbi, r-cran-htmltools, r-cran-officer, r-cran-pkgload, r-cran-scales, r-cran-tibble, r-cran-rlang, r-cran-tinytex, r-cran-shinytest2, r-cran-pkgdown, r-cran-callr Filename: pool/dists/focal/main/r-cran-activanalyzer_2.1.2-1.ca2004.1_all.deb Size: 1966880 MD5sum: e97fd8bc541f72993e6c95b1dbf39654 SHA1: d2a550396bbe6cf52e23d2ac399f8fa40ad9753a SHA256: 2fea7f970997c287a1f6203acfcfbbfd92998db419dc29af8ee41231033f6b3a SHA512: 2fa8f877935881fa90d28b7f07578e23aa48ab857db82afd92543c765b7b0120e8eec79076b025636191a22a1dd6015e3c0ceed35659385872461f19991fb015 Homepage: https://cran.r-project.org/package=activAnalyzer Description: CRAN Package 'activAnalyzer' (A 'Shiny' App to Analyze Accelerometer-Measured Daily PhysicalBehavior Data) A tool to analyse 'ActiGraph' accelerometer data and to implement the use of the PROactive Physical Activity in COPD (chronic obstructive pulmonary disease) instruments. Once analysis is completed, the app allows to export results to .csv files and to generate a report of the measurement. All the configured inputs relevant for interpreting the results are recorded in the report. In addition to the existing 'R' packages that are fully integrated with the app, the app uses some functions from the 'actigraph.sleepr' package developed by Petkova (2021) . Package: r-cran-activatr Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2966 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-geosphere, r-cran-ggmap, r-cran-glue, r-cran-httr, r-cran-lubridate, r-cran-rlang, r-cran-tibble, r-cran-slider, r-cran-xml2 Suggests: r-cran-covr, r-cran-ggplot2, r-cran-knitr, r-cran-mockery, r-cran-rmarkdown, r-cran-roxygen2, r-cran-sf, r-cran-testthat Filename: pool/dists/focal/main/r-cran-activatr_0.2.1-1.ca2004.1_all.deb Size: 2744160 MD5sum: a6807df565b2ce91c52428aef4b512aa SHA1: 5dabd27c4a58a1737591476df3cf5b970fc1bef6 SHA256: ccb48f3be56aaccc27b3ebe431db1bb1dc2507c1bc2baee98074785acce7473e SHA512: acd10b72d4c96558249618b0bef6909e4948e0e7132cca7b169c2670599f97be71019446082cde497bc1cf60baed951f51acc0583d80dc8af9400c09d9ff002b Homepage: https://cran.r-project.org/package=activatr Description: CRAN Package 'activatr' (Utilities for Parsing and Plotting Activities) This contains helpful functions for parsing, managing, plotting, and visualizing activities, most often from GPX (GPS Exchange Format) files recorded by GPS devices. It allows easy parsing of the source files into standard R data formats, along with functions to compute derived data for the activity, and to plot the activity in a variety of ways. Package: r-cran-activedriver Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-activedriver_1.0.0-1.ca2004.1_all.deb Size: 180920 MD5sum: a6c26502808c1287446d54f9de13dfdf SHA1: 2f5bf4d365e10723ca7c610e9e12aa4bfdc1ae6e SHA256: 3f3b3e6328ac15ab78aec4dc553c4ec07833e73158e5b5fc1d2af7e0b1d9faaa SHA512: 391137868481bb806c7197359efc6198578076f5d970e2f8ddaf3bced2c6b4e6feb2d50f83c154bb6b5c2ed5277f46572fd2797e4478c27d35ab366866d9a011 Homepage: https://cran.r-project.org/package=ActiveDriver Description: CRAN Package 'ActiveDriver' (Finding Cancer Driver Proteins with Enriched Mutations inPost-Translational Modification Sites) A mutation analysis tool that discovers cancer driver genes with frequent mutations in protein signalling sites such as post-translational modifications (phosphorylation, ubiquitination, etc). The Poisson generalised linear regression model identifies genes where cancer mutations in signalling sites are more frequent than expected from the sequence of the entire gene. Integration of mutations with signalling information helps find new driver genes and propose candidate mechanisms to known drivers. Reference: Systematic analysis of somatic mutations in phosphorylation signaling predicts novel cancer drivers. Juri Reimand and Gary D Bader. Molecular Systems Biology (2013) 9:637 . Package: r-cran-activedriverwgs Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1420 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-bioc-bsgenome, r-bioc-bsgenome.hsapiens.ucsc.hg19, r-bioc-bsgenome.hsapiens.ucsc.hg38, r-bioc-bsgenome.mmusculus.ucsc.mm9, r-bioc-bsgenome.mmusculus.ucsc.mm10, r-bioc-biostrings, r-bioc-genomeinfodb, r-bioc-genomicranges, r-bioc-iranges, r-bioc-s4vectors Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-activedriverwgs_1.2.0-1.ca2004.1_all.deb Size: 890152 MD5sum: 8bec27106129661093b743f4f3599576 SHA1: c84946f7daa9da8bd189a512df0af6740eba9930 SHA256: fc52cab2ef21f4179d027e8c7cca3b7b4677a79d363076c0813973c694e70dcb SHA512: e362c59c96c1e451c49be8638760beb671cbecf6bde1d89698b1f5ee196b03c4e599326680f797c88422c7400208b38e322bb4153bdd44b7a189947db6c149b3 Homepage: https://cran.r-project.org/package=ActiveDriverWGS Description: CRAN Package 'ActiveDriverWGS' (A Driver Discovery Tool for Cancer Whole Genomes) A method for finding an enrichment of cancer simple somatic mutations (SNVs and Indels) in functional elements across the human genome. 'ActiveDriverWGS' detects coding and noncoding driver elements using whole genome sequencing data. The method is part of the following publication: Candidate Cancer Driver Mutations in Distal Regulatory Elements and Long-Range Chromatin Interaction Networks. Molecular Cell (2020) . Package: r-cran-activepathways Architecture: all Version: 2.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3024 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-activepathways_2.0.5-1.ca2004.1_all.deb Size: 1709588 MD5sum: 41228a6953f3ff23843108538826241e SHA1: 679879e4764d38d9deea294a51af54bbb3515dbf SHA256: 5c655e91fe687c42eca48b74435d7eb8a6c93c7c875b1b22d42f3728ecde12b1 SHA512: be45b1a196108383ce77d7de5b40f33ba6b7ef2305d9cc981f07bab9ea9dd95b519ac3df9c2535e774ba1f132d2027bff0b04ab4195b7c3355b021cf7a1115f9 Homepage: https://cran.r-project.org/package=ActivePathways Description: CRAN Package 'ActivePathways' (Integrative Pathway Enrichment Analysis of Multivariate OmicsData) Framework for analysing multiple omics datasets in the context of molecular pathways, biological processes and other types of gene sets. The package uses p-value merging to combine gene- or protein-level signals, followed by ranked hypergeometric tests to determine enriched pathways and processes. Genes can be integrated using directional constraints that reflect how the input datasets are expected interact with one another. This approach allows researchers to interpret a series of omics datasets in the context of known biology and gene function, and discover associations that are only apparent when several datasets are combined. The recent version of the package is part of the following publication: Directional integration and pathway enrichment analysis for multi-omics data. Slobodyanyuk M^, Bahcheli AT^, Klein ZP, Bayati M, Strug LJ, Reimand J. Nature Communications (2024) . Package: r-cran-activity Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 327 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pbapply Filename: pool/dists/focal/main/r-cran-activity_1.3.4-1.ca2004.1_all.deb Size: 276712 MD5sum: 8af8a3bd5e5a51e8de3bf3132f6224b5 SHA1: ed78aac8e5595d677371d8032ec99e31b9f2a167 SHA256: 4760e9e0b7e866e461691aacb437bbadb68e0454acb3e5a7869eda56920f003d SHA512: 33289d86ace49e47a5e64d3293d68b5ff04cae8a7941bd055f2d41529e562ead5d41c916e1e0b114712f1df47ea856a50ff5bbea31d03f911bd105790be3f24a Homepage: https://cran.r-project.org/package=activity Description: CRAN Package 'activity' (Animal Activity Statistics) Provides functions to express clock time data relative to anchor points (typically solar); fit kernel density functions to animal activity time data; plot activity distributions; quantify overall levels of activity; statistically compare activity metrics through bootstrapping; evaluate variation in linear variables with time (or other circular variables). Package: r-cran-activitycounts Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1603 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-seewave, r-cran-signal, r-cran-tibble, r-cran-lubridate, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-activitycounts_0.2.1-1.ca2004.1_all.deb Size: 940588 MD5sum: 3c9aad246e2924becae66464ce5c4715 SHA1: ff2b67e895d4c813506f206e80e69a0715bd9eaa SHA256: c114b996ce3193323f22c025dd41fe7e38b01f68913102d8562e6f219eb42b9a SHA512: ad714f5a08420bffa07461bd9a59d7426353046934e04a89fa15478126f2509f0c7c603ba426329066e68432460834f06ed4f9df4c665556375282b84c163459 Homepage: https://cran.r-project.org/package=activityCounts Description: CRAN Package 'activityCounts' (Generate ActiLife Counts) ActiLife software generates activity counts from data collected by Actigraph accelerometers . Actigraph is one of the most common research-grade accelerometers. There is considerable research validating and developing algorithms for human activity using ActiLife counts. Unfortunately, ActiLife counts are proprietary and difficult to implement if researchers use different accelerometer brands. The code creates ActiLife counts from raw acceleration data for different accelerometer brands and it is developed based on the study done by Brond and others (2017) . Package: r-cran-activitygcmm Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 242 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mclust, r-cran-runjags, r-cran-circular, r-cran-overlap Filename: pool/dists/focal/main/r-cran-activitygcmm_1.1.1-1.ca2004.1_all.deb Size: 208264 MD5sum: 5950fed7296affef15ac5c3ad4dc08be SHA1: f71b70f99a815a4104182277b8ab878f9738515a SHA256: 95e77ebf92de3d94e4e2072520df5dbb35f5b8365e7f01a848c5d2d36b438c8f SHA512: 17cf2288cec83e5c11ad8d95bededba9027e0f45b05be7feaf7c81d1597300ceab13fc0c0d44d32050c9bc9af7cd04c0cb254030d55fef3bf2cd175c47625e37 Homepage: https://cran.r-project.org/package=activityGCMM Description: CRAN Package 'activityGCMM' (Circular Mixed Effect Mixture Models of Animal Activity Patterns) Bayesian parametric generalized circular mixed effect mixture models (GCMMs) for estimating animal activity patterns from camera trap data and other nested data structures using 'JAGS', including automatic Bayesian k-cluster selection and random circular intercepts for nested data. The GCMM function automatically selects the number of components for the mixture model (supporting up to 4 mixture components) based on a Bayesian linear finite normal mixture model and fits a Bayesian parametric circular mixed effect mixture model with one or two random effects as random circular intercepts with a a von Mises or wrapped Cauchy distribution. Provides graphs of the combined mixture model or separate mixture components. Functionality is provided to allow quantitative comparisons between model parameters. See Campbell et al. (in press) It's time to expand our analyses of animal activity; Campbell et al. (in press) Temporal and microspatial niche partitioning; Campbell et al. (in press) A novel approach to comparing animal activity patterns. News, updates, and tutorials will be available on www.atlasgoldenwolf.org/stats and www.github.com/LizADCampbell . Package: r-cran-activityindex Architecture: all Version: 0.3.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4483 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrixstats, r-cran-data.table, r-cran-r.utils Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-activityindex_0.3.7-1.ca2004.1_all.deb Size: 4110244 MD5sum: d1331eb215c6ef46711911330824dfde SHA1: 8839cbbbd4b1825aec652e418898d43b80a2a0f1 SHA256: eba6badb0bf93e9cbe9bf6cdb6b609bba1737b68e2c91b658a27cf8b53bfdc8d SHA512: 4745a3c22f9369074a5765a22741e4e0b515927d66daeb62023122e391cbb2a63ff88965dcd4d58ffcd2c5e0b924493c7272c9264919fe9d764e44cb0b3bcbf3 Homepage: https://cran.r-project.org/package=ActivityIndex Description: CRAN Package 'ActivityIndex' (Activity Index Calculation using Raw 'Accelerometry' Data) Reads raw 'accelerometry' from 'GT3X+' data and plain table data to calculate Activity Index from 'Bai et al.' (2016) . The Activity Index refers to the square root of the second-level average variance of the three 'accelerometry' axes. Package: r-cran-activpal Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1134 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-lubridate, r-cran-magrittr, r-cran-devtools Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-activpal_0.1.3-1.ca2004.1_all.deb Size: 310936 MD5sum: 67931e5c5c13737b3921b08c5358bdff SHA1: 8d1370c2714393db02fb0d4cb02cb98d23634984 SHA256: e106688be18f555bc74e5bc96d293582d668d8170f2aa815d224f9327bea25d3 SHA512: 8430c6ad512d1e03a6e6e7e302d82b4cb606d9ca767093961a791a9ad7117615cb56552ca110c3c70382902dd2c84aaa35ea386b45ff7953c8c9303a670b2368 Homepage: https://cran.r-project.org/package=activPAL Description: CRAN Package 'activPAL' (Advanced Processing and Chart Generation from activPAL EventsFiles) Contains functions to generate pre-defined summary statistics from activPAL events files . The package also contains functions to produce informative graphics that visualise physical activity behaviour and trends. This includes generating graphs that align physical activity behaviour with additional time based observations described by other data sets, such as sleep diaries and continuous glucose monitoring data. Package: r-cran-actlifer Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 632 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-htmltools Filename: pool/dists/focal/main/r-cran-actlifer_1.0.0-1.ca2004.1_all.deb Size: 455276 MD5sum: 88024b17ce5ad83e0c5fd8721ca13c9f SHA1: f4e5d485653f8411e2d3c99cc537428172899f84 SHA256: 20a7c56ba309de982e1dccad9265701bba892a7a884b923882da5dced6a48f89 SHA512: f37e0ba0797f79070441d41cb72f4a418f07b3690e1f9dd779738df85590e4fe7672b3801c1c7ef64b99522cdc82340b7e070e94b7f371c9c650427dc3748def Homepage: https://cran.r-project.org/package=actLifer Description: CRAN Package 'actLifer' (Creating Actuarial Life Tables) Contains data and functions that can be used to make actuarial life tables. Each function adds a column to the inputted dataset for each intermediate calculation between mortality rate and life expectancy. Users can run any of our functions to complete the life table until that step, or run lifetable() to output a full life table that can be customized to remove optional columns. Methods for creating lifetables are as described in Zedstatistics (2021) . Package: r-cran-actogrammr Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1590 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-lubridate, r-cran-readr, r-cran-tidyr Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-actogrammr_0.2.3-1.ca2004.1_all.deb Size: 163280 MD5sum: bc47943ab1936371f8fe1c477aa51129 SHA1: c7eb0a1bf99f4a8f2b95e3faf951165fd873b490 SHA256: 259440180496be074dc53b55bf3d766a4b19d751c0a507ff1e25fe6aad253e7c SHA512: ee2e867428670314f24acd201cc9cd9ac487ee262b79192127e763e4d548bbd8b0484cc6930c8f48db8f60ab58731cc1d737c9ddb6d02675d5e8423006625199 Homepage: https://cran.r-project.org/package=actogrammr Description: CRAN Package 'actogrammr' (Read in Activity Data and Plot Actograms) Read in activity measurements from standard file formats used by circadian rhythm researchers, currently only 'ClockLab' format, and process and plot the data. The central type of plot is the actogram, as first described by in "Activity and distribution of certain wild mice in relation to biotic communities" by MS Johnson (1926) . Package: r-cran-actuare Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1750 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cplm, r-cran-statmod, r-cran-nlme, r-cran-lme4, r-cran-magrittr, r-cran-data.table, r-cran-ggplot2, r-cran-knitr Suggests: r-cran-plyr, r-cran-insurancedata, r-cran-actuar, r-cran-lattice, r-cran-minqa Filename: pool/dists/focal/main/r-cran-actuare_0.1.5-1.ca2004.1_all.deb Size: 1065108 MD5sum: 0b925375ed54a41f6574438db9039006 SHA1: 2de174afb72646f7ec63ff5062b1b6133c4fd70e SHA256: f67b83734903366fb328c0ff1d997fcd7e40e8e23c71acb5c9d8526e08308053 SHA512: 02be467ae481fe257699c31b3e4551186fca8fc83f5dbc95a9b07f3ec6e9a939b7cd18d7276fcaea17d59c6021b94882a5b3793547be818d5647a49c48ab587d Homepage: https://cran.r-project.org/package=actuaRE Description: CRAN Package 'actuaRE' (Handling Hierarchically Structured Risk Factors using RandomEffects Models) Using this package, you can fit a random effects model using either the hierarchical credibility model, a combination of the hierarchical credibility model with a generalized linear model or a Tweedie generalized linear mixed model. See Campo, B.D.C. and Antonio, K. (2023) . Package: r-cran-actuarialm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-actuarialm_0.1.0-1.ca2004.1_all.deb Size: 49396 MD5sum: 88f224a723c32588e3344839d7b1388c SHA1: b3019dbb01da18930c9957364ff0a282c548be14 SHA256: 918edef1734c6d26eaca11f3afd7823328c4c752b4f2e40cfc4dfd624421f683 SHA512: ca73d105cfbc8ff1c35bda8b78b0ac46350227931490176f07d4b7442d9a37499000e7778a3ae98e29140858b90ba2426c10894858a27e79d45cde5e1fd0be90 Homepage: https://cran.r-project.org/package=ActuarialM Description: CRAN Package 'ActuarialM' (Computation of Actuarial Measures Using Bell G Family) It computes two frequently applied actuarial measures, the expected shortfall and the value at risk. Seven well-known classical distributions in connection to the Bell generalized family are used as follows: Bell-exponential distribution, Bell-extended exponential distribution, Bell-Weibull distribution, Bell-extended Weibull distribution, Bell-Lomax distribution, Bell-Burr-12 distribution, and Bell-Burr-X distribution. Related works include: a) Fayomi, A., Tahir, M. H., Algarni, A., Imran, M., & Jamal, F. (2022). "A new useful exponential model with applications to quality control and actuarial data". Computational Intelligence and Neuroscience, 2022. . b) Alsadat, N., Imran, M., Tahir, M. H., Jamal, F., Ahmad, H., & Elgarhy, M. (2023). "Compounded Bell-G class of statistical models with applications to COVID-19 and actuarial data". Open Physics, 21(1), 20220242. . 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See Lei, Lihua and Fithian, William (2016) . Package: r-cran-adaptr Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2719 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-covr, r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-adaptr_1.4.0-1.ca2004.1_all.deb Size: 2294540 MD5sum: 5e1ee449be0c6aa340b33ec47c5c6fb3 SHA1: 4e2000825b74c7f1ec5c1a860db1dd57521be6cf SHA256: 821096aa6ad4e26316d447f74b53cfe8ae8597fcd50fce53fe258bfe5c91c8b6 SHA512: 2a7418caea17379613491bab9cfe779fb58bb87f26b7f8ab940dc180b3c8392b6d29e6c2d42f7064585c3a3c915065a4b5c7c668a34dd23791a73a4e2b8b14c6 Homepage: https://cran.r-project.org/package=adaptr Description: CRAN Package 'adaptr' (Adaptive Trial Simulator) Package that simulates adaptive (multi-arm, multi-stage) clinical trials using adaptive stopping, adaptive arm dropping, and/or adaptive randomisation. 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The first contribution refers to the assessment of the adequacy of probabilistic models through a combination of several statistics, which measure the relative quality of statistical models for a given data set. The second one provides a general purpose optimization method based on meta-heuristics functions for maximizing or minimizing an arbitrary objective function. 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The package implements a set of S3 classes and functions consistent with current adherence guidelines and definitions. It allows the computation of different measures of adherence (as defined in the literature, but also several original ones), their publication-quality plotting, the estimation of event duration and time to initiation, the interactive exploration of patient medication history and the real-time estimation of adherence given various parameter settings. It scales from very small datasets stored in flat CSV files to very large databases and from single-thread processing on mid-range consumer laptops to parallel processing on large heterogeneous computing clusters. It exposes a standardized interface allowing it to be used from other programming languages and platforms, such as Python. 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It is implemented using Shiny and HTML/CSS/JavaScript. Package: r-cran-adhoc Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-pegas, r-cran-polynom Filename: pool/dists/focal/main/r-cran-adhoc_1.1-1.ca2004.1_all.deb Size: 55036 MD5sum: f5e8b634e28baaddbf738e7b17549bda SHA1: 25ae93456b94fa7184fd2452c686a408e933b20f SHA256: e723e1ec8da86ef8a1721a34f028b9f800b4f58b8629aa0f51056c9b3a1a23e1 SHA512: bff64ad9a876eabc2ff4eb202c3b441f11d06374e4b592e077faf7863d72c0565f142102240b38d2e6c3d0aad62cac7c0e3639ee4ddd949892876f08fd6dfa1b Homepage: https://cran.r-project.org/package=adhoc Description: CRAN Package 'adhoc' (Calculate Ad Hoc Distance Thresholds for DNA BarcodingIdentification) Two functions to calculate intra- and interspecific pairwise distances, evaluate DNA barcoding identification error and calculate an ad hoc distance threshold for each particular reference library of DNA barcodes. Specimen identification at this ad hoc distance threshold (using the best close match method) will produce identifications with an estimated relative error probability that can be fixed by the user (e.g. 5%). Package: r-cran-adismf Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aiccmodavg, r-cran-ggplot2, r-cran-nls2 Filename: pool/dists/focal/main/r-cran-adismf_0.1.0-1.ca2004.1_all.deb Size: 36776 MD5sum: 9642cece3fc4136d883dd5a71b0fa46a SHA1: 366a0573840966fd0efbb5fb123f3cb08877149e SHA256: acbcca0207b93f2354dbb4ed4784a339c4bc61a132080150522a693334a440be SHA512: 02af081f607668ae2fda1973de88e031fe83ff6ec11dee1f26815a8410cd9ad0d53aad8110b02688d3101320e439bb1a418894242974cb6a2dd6b3883ba8361e Homepage: https://cran.r-project.org/package=AdIsMF Description: CRAN Package 'AdIsMF' (Adsorption Isotherm Model Fitting) The Langmuir and Freundlich adsorption isotherms are pivotal in characterizing adsorption processes, essential across various scientific disciplines. Proper interpretation of adsorption isotherms involves robust fitting of data to the models, accurate estimation of parameters, and efficiency evaluation of the models, both in linear and non-linear forms. For researchers and practitioners in the fields of chemistry, environmental science, soil science, and engineering, a comprehensive package that satisfies all these requirements would be ideal for accurate and efficient analysis of adsorption data, precise model selection and validation for rigorous scientific inquiry and real-world applications. Details can be found in Langmuir (1918) and Giles (1973) . 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Part of the indices are expressed in terms of equivalent numbers of species. The package also provides ways to partition biodiversity across spatial or temporal scales (alpha, beta, gamma diversities). In addition to the quantification of biodiversity, ordination approaches are available which rely on diversity indices and allow the detailed identification of species, functional or phylogenetic differences between communities. 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Also includes a significance test for the difference between two adjusted survival curves and the calculation of adjusted restricted mean survival times. Additionally enables the user to estimate and plot cause-specific confounder-adjusted cumulative incidence functions in the competing risks setting using the same methods (with some exceptions). For details, see Denz et. al (2023) . Package: r-cran-adklakedata Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 445 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rappdirs, r-cran-httr Suggests: r-cran-ggplot2, r-cran-maps, r-cran-testthat, r-cran-sf Filename: pool/dists/focal/main/r-cran-adklakedata_0.6.1-1.ca2004.1_all.deb Size: 229432 MD5sum: 5a2738f1b0bc52bbd2be4bca208e10e0 SHA1: 34502f8cef31e4d5828da8004c9a83b1172d27b9 SHA256: 988bca28af42b6272fcb98dcef25f7fe24f9764e73b246af96ebb397a45681f9 SHA512: cdaa3976aaf141ad7257a02e2f2d7fe04529cff0344c033537e5eb558b118855f54e4bd0569bc9fd88f1535d8c3322220c291e34f01ac7cc80e51a4d9eddb887 Homepage: https://cran.r-project.org/package=adklakedata Description: CRAN Package 'adklakedata' (Adirondack Long-Term Lake Data) Package for the access and distribution of Long-term lake datasets from lakes in the Adirondack Park, northern New York state. Includes a wide variety of physical, chemical, and biological parameters from 28 lakes. Data are from multiple collection organizations and have been harmonized in both time and space for ease of reuse. Package: r-cran-adlp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1196 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-tidyverse, r-cran-synthetic Filename: pool/dists/focal/main/r-cran-adlp_0.1.0-1.ca2004.1_all.deb Size: 523116 MD5sum: b7418fece039e4271f9d06010b3dfe8d SHA1: 2c26c298abef2a51ac53d12482ab53c8cbaeb50f SHA256: cbf4e587fc6e3947b3bd41b3f02f0004db61776162f2dd34eae771d614773aea SHA512: 5276ad1efe3bcf0c408161ed487fc2aa2fff5b639b2690d8b8acddef67dc01cb9700098ff02ac1890345618988d6698f68ca438e7e915e61820ec4bf4c24d059 Homepage: https://cran.r-project.org/package=ADLP Description: CRAN Package 'ADLP' (Accident and Development Period Adjusted Linear Pools forActuarial Stochastic Reserving) Loss reserving generally focuses on identifying a single model that can generate superior predictive performance. However, different loss reserving models specialise in capturing different aspects of loss data. This is recognised in practice in the sense that results from different models are often considered, and sometimes combined. For instance, actuaries may take a weighted average of the prediction outcomes from various loss reserving models, often based on subjective assessments. This package allows for the use of a systematic framework to objectively combine (i.e. ensemble) multiple stochastic loss reserving models such that the strengths offered by different models can be utilised effectively. Our framework is developed in Avanzi et al. (2023). Firstly, our criteria model combination considers the full distributional properties of the ensemble and not just the central estimate - which is of particular importance in the reserving context. Secondly, our framework is that it is tailored for the features inherent to reserving data. These include, for instance, accident, development, calendar, and claim maturity effects. Crucially, the relative importance and scarcity of data across accident periods renders the problem distinct from the traditional ensemble techniques in statistical learning. Our framework is illustrated with a complex synthetic dataset. In the results, the optimised ensemble outperforms both (i) traditional model selection strategies, and (ii) an equally weighted ensemble. In particular, the improvement occurs not only with central estimates but also relevant quantiles, such as the 75th percentile of reserves (typically of interest to both insurers and regulators). Reference: Avanzi B, Li Y, Wong B, Xian A (2023) "Ensemble distributional forecasting for insurance loss reserving" . Package: r-cran-admiral.test Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3615 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-devtools, r-cran-lintr, r-cran-pkgdown, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling, r-cran-usethis, r-cran-covr Filename: pool/dists/focal/main/r-cran-admiral.test_0.7.0-1.ca2004.1_all.deb Size: 3099032 MD5sum: 54ffc69ac67fcdec9bb0425861c1d045 SHA1: d15752f070ab6b4157f55570a949511185ac7238 SHA256: 00c1f293b367d9f31cbc6b21b23cfe115fc5ead388f940eca20bc719128c1f0c SHA512: 71422f1f07ed18d6fcccb1aba35147efa47d1b0d1c770909724da36ed413bbd6267af5bd02b9044f943751eb3bb1617175e78cbd71c75dfc9ff8e8c6adde304e Homepage: https://cran.r-project.org/package=admiral.test Description: CRAN Package 'admiral.test' (Test Data for the 'admiral' Package) A set of Study Data Tabulation Model (SDTM) datasets from the Clinical Data Interchange Standards Consortium (CDISC) pilot project used for testing and developing Analysis Data Model (ADaM) derivations inside the 'admiral' package. Package: r-cran-admiral Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4486 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-admiraldev, r-cran-cli, r-cran-dplyr, r-cran-hms, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-diffdf, r-cran-dt, r-cran-htmltools, r-cran-knitr, r-cran-pharmaversesdtm, r-cran-reactable, r-cran-readxl, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-withr Filename: pool/dists/focal/main/r-cran-admiral_1.3.0-1.ca2004.1_all.deb Size: 2270668 MD5sum: db2f526ecee02d388589e820e033c977 SHA1: cd6efcf5aec6385dd2e2e72ad0a7e303dd3bf9fa SHA256: 98901b206b164207d47e318301729725263776948e1ecf08e0b95efd6f91a723 SHA512: 30607b99a8c82e8f6fcdb0a6228d99ec91d9acdfb0c2752f87244880e1c3714cbf14702ae4837280a7e8adb14b0f790b6da2fc896b8eb9eec9ad993c34d9317a Homepage: https://cran.r-project.org/package=admiral Description: CRAN Package 'admiral' (ADaM in R Asset Library) A toolbox for programming Clinical Data Interchange Standards Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team, 2021, ). Package: r-cran-admiraldev Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1560 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-lifecycle, r-cran-lubridate, r-cran-purrr, r-cran-rlang, r-cran-roxygen2, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect, r-cran-withr Suggests: r-cran-diffdf, r-cran-dt, r-cran-htmltools, r-cran-knitr, r-cran-pkgdown, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-admiraldev_1.3.1-1.ca2004.1_all.deb Size: 1161416 MD5sum: c618795a3afee4fc2bdcc35c75c3b125 SHA1: da747d96422e7a1b4a1685ffe7972b77cb0e772e SHA256: 010d53fd20c561ebc9bd1d734a9d24e324482dea41a8446c3fa604a90ac0444d SHA512: d4b380a365948576aef949c8147770c6c36ee076af7eb2d7b68e7073420d046d95708e4064247a6a3bc199f728649a2f3cee0f0746004be84aa17e36709a52dc Homepage: https://cran.r-project.org/package=admiraldev Description: CRAN Package 'admiraldev' (Utility Functions and Development Tools for the Admiral PackageFamily) Utility functions to check data, variables and conditions for functions used in 'admiral' and 'admiral' extension packages. Additional utility helper functions to assist developers with maintaining documentation, testing and general upkeep of 'admiral' and 'admiral' extension packages. Package: r-cran-admiralmetabolic Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 388 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-admiral, r-cran-admiraldev, r-cran-cli, r-cran-dplyr, r-cran-stringr, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-tidyselect Suggests: r-cran-diffdf, r-cran-dt, r-cran-htmltools, r-cran-knitr, r-cran-pharmaversesdtm, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-usethis Filename: pool/dists/focal/main/r-cran-admiralmetabolic_0.1.0-1.ca2004.1_all.deb Size: 198840 MD5sum: 58e0f3fc4adaa05c17c8f6b53458fcc5 SHA1: 14bf9f2006bd67b23891f61cf707d90400408aa5 SHA256: c6eeb000e07807a545eec3bd2a84d6afe9d63087487ce56f799caed6a7f2ad72 SHA512: 27c5e567f665ca1df159b20fac7a3a2971c17db56755c7e8d8fbf457b424b349ead3d76754896a081222673adf1bb3043f8f1a7a9c19653265580f82d6d067f9 Homepage: https://cran.r-project.org/package=admiralmetabolic Description: CRAN Package 'admiralmetabolic' (Metabolism Extension Package for ADaM in 'R' Asset Library) A toolbox for programming Clinical Data Standards Interchange Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team, 2021, ). The package is an extension package of the 'admiral' package focusing on the metabolism therapeutic area. Package: r-cran-admiralonco Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1464 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-admiral, r-cran-admiraldev, r-cran-dplyr, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-rlang, r-cran-tidyselect Suggests: r-cran-pharmaversesdtm, r-cran-pharmaverseadam, r-cran-devtools, r-cran-diffdf, r-cran-lintr, r-cran-pkgdown, r-cran-testthat, r-cran-knitr, r-cran-miniui, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling, r-cran-stringr, r-cran-tibble, r-cran-usethis, r-cran-covr, r-cran-dt, r-cran-metatools, r-cran-cli, r-cran-gt Filename: pool/dists/focal/main/r-cran-admiralonco_1.2.0-1.ca2004.1_all.deb Size: 295776 MD5sum: 707b80bbdcc437262c0b25409b7504a6 SHA1: adc196e8f3f440666ec098c3796839f5576df488 SHA256: 341e3926e76482aec61e624317e91fb14fc86fba7383b3e69831317df354b97d SHA512: 120e314c220ddf957181a0b7aba1a3fbc54dc370ac614fc6048720e30c1bf16e1eb73d5782b1a6e302a77d64513a965f56c5acac9ef9b8e4cb5241116b1edcd7 Homepage: https://cran.r-project.org/package=admiralonco Description: CRAN Package 'admiralonco' (Oncology Extension Package for ADaM in 'R' Asset Library) Programming oncology specific Clinical Data Interchange Standards Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in 'R'. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team (2021), ). The package is an extension package of the 'admiral' package. Package: r-cran-admiralophtha Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 954 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-admiral, r-cran-admiraldev, r-cran-cli, r-cran-dplyr, r-cran-hms, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-devtools, r-cran-diffdf, r-cran-knitr, r-cran-lintr, r-cran-miniui, r-cran-pharmaversesdtm, r-cran-pkgdown, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-usethis Filename: pool/dists/focal/main/r-cran-admiralophtha_1.2.0-1.ca2004.1_all.deb Size: 630132 MD5sum: 954200bafa474f02d04fa739d4f9d957 SHA1: ff6e8763d6ef44258e3a5e12d765348939688912 SHA256: 6f9e116b9df4c6255d3f4d449fdb2caddb75251b8055ac4c6bbe9a2d8250d541 SHA512: 1c1dd0c5f7f4c8942b732f090bc5abe67d167652227d3e888a9c9207721b9c2e1934793aac35e5c7fba696ce4fd7978910f736d6959e6b016db5889007ec78bf Homepage: https://cran.r-project.org/package=admiralophtha Description: CRAN Package 'admiralophtha' (ADaM in R Asset Library - Ophthalmology) Aids the programming of Clinical Data Standards Interchange Consortium (CDISC) compliant Ophthalmology Analysis Data Model (ADaM) datasets in R. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team, 2021, ). Package: r-cran-admiralpeds Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 571 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-admiral, r-cran-admiraldev, r-cran-cli, r-cran-dplyr, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-tidyselect, r-cran-zoo Suggests: r-cran-knitr, r-cran-lubridate, r-cran-pharmaversesdtm, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-admiralpeds_0.2.0-1.ca2004.1_all.deb Size: 413136 MD5sum: f98c45192de2c7d2f5a6308d1ac816fb SHA1: f7f0a368658027cb02e5cb1cf8d70ee40b2fb99e SHA256: 10ac848daa59855a4bd6792e36d07402a6f51213e193666bed2932ba6881b298 SHA512: 969d6447b1774048a79eccb1e5a9eb790dc75adc54e4ba7c49d5dda0ec1167c57cb3e889d925ed6a1db2565ee7c24b604aa122ffe2a17bb298e42989af78d186 Homepage: https://cran.r-project.org/package=admiralpeds Description: CRAN Package 'admiralpeds' (Pediatrics Extension Package for ADaM in 'R' Asset Library) A toolbox for programming Clinical Data Standards Interchange Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team, 2021, ). The package is an extension package of the 'admiral' package for pediatric clinical trials. Package: r-cran-admiralvaccine Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 601 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-admiral, r-cran-admiraldev, r-cran-assertthat, r-cran-dplyr, r-cran-hms, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-covr, r-cran-devtools, r-cran-diffdf, r-cran-dt, r-cran-knitr, r-cran-lintr, r-cran-miniui, r-cran-pharmaversesdtm, r-cran-pkgdown, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-usethis, r-cran-metatools Filename: pool/dists/focal/main/r-cran-admiralvaccine_0.4.0-1.ca2004.1_all.deb Size: 189776 MD5sum: ad1ace6206b36ab53e6b991ffaa70041 SHA1: 1bb5f296533c08e8e1b2d7c57cd85ca79369444a SHA256: 49530285467064dd3073f922d174a73f420e890151b5ec7ba393ffe1d512b31f SHA512: ed9cb4be9e7ee14c1002a5be8d67b6800e3952891f810c3f4b1018f9b29195606a22ab861f35775f11cccf5f434579f30c0aa3505be479f619a2c2693965ff5c Homepage: https://cran.r-project.org/package=admiralvaccine Description: CRAN Package 'admiralvaccine' (Vaccine Extension Package for ADaM in 'R' Asset Library) Programming vaccine specific Clinical Data Interchange Standards Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in 'R'. Flat model is followed as per Center for Biologics Evaluation and Research (CBER) guidelines for creating vaccine specific domains. ADaM datasets are a mandatory part of any New Drug or Biologics License Application submitted to the United States Food and Drug Administration (FDA). Analysis derivations are implemented in accordance with the "Analysis Data Model Implementation Guide" (CDISC Analysis Data Model Team (2021), ). The package is an extension package of the 'admiral' package. Package: r-cran-admixr Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 476 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-readr, r-cran-stringr, r-cran-tibble, r-cran-rlang Suggests: r-cran-covr, r-cran-glue, r-cran-testthat, r-cran-tidyr, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-admixr_0.9.1-1.ca2004.1_all.deb Size: 245056 MD5sum: c69699f7a043025467e2c31bd4547b6e SHA1: b9ee20dc0a035c1d7543dc5ab29b41105987f77b SHA256: d2947126b7327b6f9b125f36dbc53ce4c3494d5f965a571aa69d146905f95dbb SHA512: a85c7382217e9a25bc51e05cb842f15b336ec1c52af5094016e06a0b14a87548a1e361a9780c44af420d9c71e18a2e98c3c00d937eb3a5b40347f52eb2c56c7e Homepage: https://cran.r-project.org/package=admixr Description: CRAN Package 'admixr' (An Interface for Running 'ADMIXTOOLS' Analyses) An interface for performing all stages of 'ADMIXTOOLS' analyses () entirely from R. Wrapper functions (D, f4, f3, etc.) completely automate the generation of intermediate configuration files, run 'ADMIXTOOLS' programs on the command-line, and parse output files to extract values of interest. This allows users to focus on the analysis itself instead of worrying about low-level technical details. A set of complementary functions for processing and filtering of data in the 'EIGENSTRAT' format is also provided. Package: r-cran-admmdensestsubmatrix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 834 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-admmdensestsubmatrix_0.1.0-1.ca2004.1_all.deb Size: 494208 MD5sum: cb0891fbc5ab8dd156f50af1040fe801 SHA1: ea8a028e52a0935cca7c8210720fe2cd25d49413 SHA256: 1c866b5ba76c141158358dcec614e468d45551193da2c5b3a9cd3111c4a0d35e SHA512: 03398c33e79251ae291735ae81b384def96a41c98e62e934e735374c000b2bf41ec398104c8c0106727293870f9de9b0062ef2f07b3564c0991099375f0d52c0 Homepage: https://cran.r-project.org/package=admmDensestSubmatrix Description: CRAN Package 'admmDensestSubmatrix' (Alternating Direction Method of Multipliers to Solve DenseDubmatrix Problem) Solves the problem of identifying the densest submatrix in a given or sampled binary matrix, Bombina et al. (2019) . Package: r-cran-admtools Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 798 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ape Suggests: r-cran-fossilsim, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-admtools_0.6.0-1.ca2004.1_all.deb Size: 439976 MD5sum: dff0990a1786f7b2156bf54ab07ea192 SHA1: d73d56fd765c439e218fe68aee65e3a69ff2521b SHA256: bc2aaa01f8ba0238860459c5d6daaf90f8cdcdaea59e3af0f646f20ea3a774b7 SHA512: 531ea83fde1e9e7a3af3187919806a4d68e778d130e86b89110a40dbbda986af140fd4f0564c48ec93e97b31a92641c15ed0d9f461b5174af1b58804d22c07f5 Homepage: https://cran.r-project.org/package=admtools Description: CRAN Package 'admtools' (Estimate and Manipulate Age-Depth Models) Estimate age-depth models from stratigraphic and sedimentological data, and transform data between the time and stratigraphic domain. Package: r-cran-admur Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3165 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mathjaxr, r-cran-scales, r-cran-zoo Suggests: r-cran-deoptimr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-admur_1.0.3-1.ca2004.1_all.deb Size: 1812796 MD5sum: c5bce80b9424e0b6d68687fa36f692fc SHA1: 3161f10e503f08f3e594b88f7221401d6aaffa3f SHA256: f7ed4b03d28370f6e50954ce9617e1257259323bae5d42efc562c1b8af112baa SHA512: 8d75e70019f6909559eac1889ab4a62140bf31c974b9b3422286d77ce89b61598f28474dd9024c10495d84cf85a235e90b2008faf76ef67b97458918b11cffd5 Homepage: https://cran.r-project.org/package=ADMUR Description: CRAN Package 'ADMUR' (Ancient Demographic Modelling Using Radiocarbon) Provides tools to directly model underlying population dynamics using date datasets (radiocarbon and other) with a Continuous Piecewise Linear (CPL) model framework. Various other model types included. Taphonomic loss included optionally as a power function. Model comparison framework using BIC. Package also calibrates 14C samples, generates Summed Probability Distributions (SPD), and performs SPD simulation analysis to generate a Goodness-of-fit test for the best selected model. Details about the method can be found in Timpson A., Barberena R., Thomas M. G., Mendez C., Manning K. (2020) . Package: r-cran-adnuts Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1036 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-snowfall, r-cran-ellipse, r-cran-rstan, r-cran-r2admb, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-shinystan, r-cran-matrixcalc, r-cran-knitr, r-cran-tmb, r-cran-rmarkdown, r-cran-withr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-adnuts_1.1.2-1.ca2004.1_all.deb Size: 778276 MD5sum: eb29863666a753f6844f456b463dfc0a SHA1: d0e876d075e4dcaad75341bfb981328a44f762ed SHA256: cd36971a5bd3885829b9c60b45d07ae9e910f1bac9fa17067651d5841a1a845d SHA512: bdf54d4e606378487813d7673e7dbee4ced92c6e0832f93af38fc5ddda1c2b999acc5047699b4bea486ff6c6561743edefb02402c12738d6448a4476531e3350 Homepage: https://cran.r-project.org/package=adnuts Description: CRAN Package 'adnuts' (No-U-Turn MCMC Sampling for 'ADMB' Models) Bayesian inference using the no-U-turn (NUTS) algorithm by Hoffman and Gelman (2014) . Designed for 'AD Model Builder' ('ADMB') models, or when R functions for log-density and log-density gradient are available, such as 'Template Model Builder' models and other special cases. Functionality is similar to 'Stan', and the 'rstan' and 'shinystan' packages are used for diagnostics and inference. Package: r-cran-adobeanalyticsr Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1506 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-jsonlite, r-cran-dplyr, r-cran-stringr, r-cran-purrr, r-cran-httr, r-cran-tidyr, r-cran-rlang, r-cran-lubridate, r-cran-ggplot2, r-cran-scales, r-cran-r6, r-cran-jose, r-cran-openssl, r-cran-lifecycle, r-cran-glue, r-cran-vctrs, r-cran-progress, r-cran-memoise, r-cran-httr2 Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-adobeanalyticsr_0.5.0-1.ca2004.1_all.deb Size: 1227480 MD5sum: 3f153e40ea7df88dbe7aced0053ca77f SHA1: 0f7e5929ff0982a201d3f23bc6c2903d9b28fb8a SHA256: 264f62c7d1d425266ba9fa21eb4ee1229e38a9537d4925125c088e974d013f06 SHA512: 43a0495d14a1b0af41b8ecc5dfdda8de73a98f8f3160d1a96324393787a0991d89e5d0a027d6ac195ef5473bdec244b3af09ee947dfd431568cfb64304d5adfc Homepage: https://cran.r-project.org/package=adobeanalyticsr Description: CRAN Package 'adobeanalyticsr' (R Client for 'Adobe Analytics' API 2.0) Connect to the 'Adobe Analytics' API v2.0 which powers 'Analysis Workspace'. The package was developed with the analyst in mind, and it will continue to be developed with the guiding principles of iterative, repeatable, timely analysis. Package: r-cran-adoptr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1742 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nloptr, r-cran-glue Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr, r-cran-rpact, r-cran-vdiffr, r-cran-pwr, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-gridextra, r-cran-bookdown Filename: pool/dists/focal/main/r-cran-adoptr_1.1.1-1.ca2004.1_all.deb Size: 822268 MD5sum: fd4acba9da21b648f229207aae1a10a5 SHA1: 73f8c41db255163cb4279b55f719c340a78dcee1 SHA256: 4492bc0fd14670969f7aba707c72a41ef9fc583ec5f0fd8ecd58b22cac3c8dbd SHA512: 994cddbea686cbbcdde14ee20be6105a6e1eb178e0a2eb0d1e8c9867d4a5851cdd05fa373a6726ae0bb7cc42b6b8f10ce143868c2fda6cab1a86e9001642d4be Homepage: https://cran.r-project.org/package=adoptr Description: CRAN Package 'adoptr' (Adaptive Optimal Two-Stage Designs) Optimize one or two-arm, two-stage designs for clinical trials with respect to several implemented objective criteria or custom objectives. Optimization under uncertainty and conditional (given stage-one outcome) constraints are supported. See Pilz et al. (2019) and Kunzmann et al. (2021) for details. Package: r-cran-adp Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-adp_0.1.6-1.ca2004.1_all.deb Size: 24280 MD5sum: 364a63a0bcfc008575caa37197c92fd1 SHA1: d1374ab1525dc8878278f2513865a8993744118a SHA256: b5164e6eb8163ca43920b84129b70fcecd719c6c5a85109b017cf81e4ff55c3a SHA512: e0fdbb9905a4c9ce105ae21a6eeb1cd9ac06279204653996b68671ea5e5965a35f7635cbab5dd8890a394c6c1bf4fb50b71bcfb66fab33c6cef5e780ac1db375 Homepage: https://cran.r-project.org/package=ADP Description: CRAN Package 'ADP' (Adoption Probability, Triers and Users Rate of a New Product) Calculate users prevalence of a product based on the prevalence of triers in the population. The measurement of triers is relatively easy. It is just a question of whether a person tried a product even once in his life or not. On the other hand, The measurement of people who also adopt it as part of their life is more complicated since adopting an innovative product is a subjective view of the individual. Mickey Kislev and Shira Kislev developed a formula to calculate the prevalence of a product's users to overcome this difficulty. The current package assists in calculating the users prevalence of a product based on the prevalence of triers in the population. See for: Kislev, M. M., and S. Kislev (2020) . Package: r-cran-adpclust Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1571 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-cluster, r-cran-fields, r-cran-knitr Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-adpclust_0.7-1.ca2004.1_all.deb Size: 1153620 MD5sum: ba5a1a45c45d9ae2e3b3f5c252f11fe4 SHA1: 7268ebc31f2ca4aa931d6abc383fff36079de488 SHA256: cdfc0f66bb29bcdd6a6f306feda62c459366bee5cc5db930354f2860e3170c62 SHA512: fa24bff9e08fccc8ab07b7dc63ee9216be9931f8b771d4a028dac73b7d78bc3fdd85f33a107c24b0e9d0f97e64c4c30732dda7650094a8fd57e9b952bee8d241 Homepage: https://cran.r-project.org/package=ADPclust Description: CRAN Package 'ADPclust' (Fast Clustering Using Adaptive Density Peak Detection) An implementation of ADPclust clustering procedures (Fast Clustering Using Adaptive Density Peak Detection). The work is built and improved upon the idea of Rodriguez and Laio (2014). ADPclust clusters data by finding density peaks in a density-distance plot generated from local multivariate Gaussian density estimation. It includes an automatic centroids selection and parameter optimization algorithm, which finds the number of clusters and cluster centroids by comparing average silhouettes on a grid of testing clustering results; It also includes a user interactive algorithm that allows the user to manually selects cluster centroids from a two dimensional "density-distance plot". Here is the research article associated with this package: "Wang, Xiao-Feng, and Yifan Xu (2015) Fast clustering using adaptive density peak detection." Statistical methods in medical research". url: http://smm.sagepub.com/content/early/2015/10/15/0962280215609948.abstract. Package: r-cran-adpf Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-adpf_0.0.1-1.ca2004.1_all.deb Size: 37092 MD5sum: 767baf76c343ec3481067917cac5835a SHA1: a1e9cf2b31028d6b14c3fc191fa6e7d138d5b1ad SHA256: b86535435c27e42e12f76f08b515a85b1850909c3807bc20999f6c5a4f17fe70 SHA512: 5e3d34588a55da4baeb68380c9db291baad0421fa6e18ff5bc7df73429ad5a658870f16ee05a7611b9361fbb36256e2564eb16a5b917f75f4b7ab8a2a494fb4c Homepage: https://cran.r-project.org/package=ADPF Description: CRAN Package 'ADPF' (Use Least Squares Polynomial Regression and Statistical Testingto Improve Savitzky-Golay) This function takes a vector or matrix of data and smooths the data with an improved Savitzky Golay transform. The Savitzky-Golay method for data smoothing and differentiation calculates convolution weights using Gram polynomials that exactly reproduce the results of least-squares polynomial regression. Use of the Savitzky-Golay method requires specification of both filter length and polynomial degree to calculate convolution weights. For maximum smoothing of statistical noise in data, polynomials with low degrees are desirable, while a high polynomial degree is necessary for accurate reproduction of peaks in the data. Extension of the least-squares regression formalism with statistical testing of additional terms of polynomial degree to a heuristically chosen minimum for each data window leads to an adaptive-degree polynomial filter (ADPF). Based on noise reduction for data that consist of pure noise and on signal reproduction for data that is purely signal, ADPF performed nearly as well as the optimally chosen fixed-degree Savitzky-Golay filter and outperformed sub-optimally chosen Savitzky-Golay filters. For synthetic data consisting of noise and signal, ADPF outperformed both optimally chosen and sub-optimally chosen fixed-degree Savitzky-Golay filters. See Barak, P. (1995) for more information. Package: r-cran-adplots Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-adplots_0.1.0-1.ca2004.1_all.deb Size: 68544 MD5sum: 0923877a1b51d1bdd3b1be6e2360f5de SHA1: f6f2ca562790a9109dd62d84451bb58efbf9de8a SHA256: 118bf042df400204934d60c23897c59f078084984f549ffc457a9f3fdc4aebef SHA512: dbcbab15d4a0853d35c44323c8bc53af84985d889ffbda59143c290604991d01189686fca4f559fa4cfaa6ebaa3665a7dccb6db8b7d305dba71996d72ede2f1f Homepage: https://cran.r-project.org/package=adplots Description: CRAN Package 'adplots' (Ad-Plot and Ud-Plot for Visualizing Distributional Propertiesand Normality) The empirical cumulative average deviation function introduced by the author is utilized to develop both Ad- and Ud-plots. The Ad-plot can identify symmetry, skewness, and outliers of the data distribution, including anomalies. The Ud-plot created by slightly modifying Ad-plot is exceptional in assessing normality, outperforming normal QQ-plot, normal PP-plot, and their derivations. The d-value that quantifies the degree of proximity between the Ud-plot and the graph of the estimated normal density function helps guide to make decisions on confirmation of normality. Full description of this methodology can be found in the article by Wijesuriya (2025) . Package: r-cran-adproclus Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 215 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-corrplot, r-cran-ggplot2, r-cran-ggrepel, r-cran-gtools, r-cran-igraph, r-cran-matrixstats, r-cran-multichull, r-cran-nmfn, r-cran-qgraph, r-cran-readr, r-cran-rlang, r-cran-scales, r-cran-tidyr, r-cran-withr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-adproclus_2.0.0-1.ca2004.1_all.deb Size: 179880 MD5sum: 47414a9719d8e00e550540948af808bb SHA1: 344fa2bd86259df2f207a32a4881686f696085ee SHA256: 0cdd8755c2d8def1cfe25fe7d37f8d945186b23fcba4672b6e1ce88cf1b96ea1 SHA512: e39168756e25b2eb930cdd44b01c0ecf1dd59d8cc15d712c912544f1b93c146a9a2d8b59d966a73db7f0bc716034f77ca9bc0f9497389b80090231ad2fc0a995 Homepage: https://cran.r-project.org/package=adproclus Description: CRAN Package 'adproclus' (Additive Profile Clustering Algorithms) Obtain overlapping clustering models for object-by-variable data matrices using the Additive Profile Clustering (ADPROCLUS) method. Also contains the low dimensional ADPROCLUS method for simultaneous dimension reduction and overlapping clustering. For reference see Depril, Van Mechelen, Mirkin (2008) and Depril, Van Mechelen, Wilderjans (2012) . Package: r-cran-adsdatahubr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-lubridate Filename: pool/dists/focal/main/r-cran-adsdatahubr_0.1.1-1.ca2004.1_all.deb Size: 28204 MD5sum: 12fca527ec2a85dd8dd9ed49a016ac6f SHA1: 061f530835d77db084c284de42bf32d173498e04 SHA256: c6a98176dcd344ceda55006d1a71776e44f4dd34234eb312fc709c5413341276 SHA512: 9170bb3a70739ed1bdc7b48a87217e5830fd556c37cb806cf8b95e775a358b33bfd17bcd3bbd523a5a13604c58fb5153ff468904a883c16b59d7a44383e4c11c Homepage: https://cran.r-project.org/package=adsDataHubR Description: CRAN Package 'adsDataHubR' (Google Ads Data Hub API Client) Interact with Google Ads Data Hub API . The functionality allows to fetch customer details, submit queries to ADH. Package: r-cran-adsorpr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 347 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-adsorpr_0.1.0-1.ca2004.1_all.deb Size: 215516 MD5sum: 659405eb613be4a39c14d3ee6a83c177 SHA1: 1c69d6099a065f4909b5afc70898f3262b30577f SHA256: 60dd2d04cc8d4b5e8ed5ccb382f19c9c78fdf0086016b13a9fd68d3968c23de1 SHA512: 1ddce6e6f8bc1708931efbb41485f32a2b6bc237266aea16c066fa714ef4e868e1322ba6e7ae47193fa1dc7348dc0be38d07bc370c992bc1d5903c7b48a32730 Homepage: https://cran.r-project.org/package=AdsorpR Description: CRAN Package 'AdsorpR' (Adsorption Isotherm Models) Model adsorption behavior using classical isotherms, including Langmuir, Freundlich, Brunauer–Emmett–Teller (BET), and Temkin models. The package supports parameter estimation through both linearized and non-linear fitting techniques and generates high-quality plots for model diagnostics. It is intended for environmental scientists, chemists, and researchers working on adsorption phenomena in soils, water treatment, and material sciences. Functions are compatible with base 'R' and 'ggplot2' for visualization. Package: r-cran-adsorptioncmf Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-nls2, r-cran-metrics, r-cran-ggplot2, r-cran-boot Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-adsorptioncmf_0.1.1-1.ca2004.1_all.deb Size: 105332 MD5sum: b4700a2cc36473e1a002c98ae3a9c249 SHA1: 6134e24a8859e6c8a485e7f4242a4334e6c213ce SHA256: ec50bedf8467d1ca2a8f9733ad95b1514ba36aa8370933f3a3d5667731fc97e4 SHA512: e2de5f55616e58b871e6b6ad0103617568664001c2e76eb3ffea870c7cffbc2f1afc5c1136e62c3a08d7dc6b62c2d8c3d4d6a59a094b4ffee0ba007cad9337e1 Homepage: https://cran.r-project.org/package=adsoRptionCMF Description: CRAN Package 'adsoRptionCMF' (Classical Model Fitting of Adsorption Isotherms) Provides tools for classical parameter estimation of adsorption isotherm models, including both linear and nonlinear forms of the Freundlich, Langmuir, and Temkin isotherms. This package allows users to fit these models to experimental data, providing parameter estimates along with fit statistics such as Akaike Information Criterion (AIC) and Bayesian Information Criterion (BIC). Error metrics are computed to evaluate model performance, and the package produces model fit plots with bootstrapped 95% confidence intervals. Additionally, it generates residual plots for diagnostic assessment of the models. Researchers and engineers in material science, environmental engineering, and chemical engineering can rigorously analyze adsorption behavior in their systems using this straightforward, non-Bayesian approach. For more details, see Harding (1907) . Package: r-cran-adsorptioncv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-nls2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-adsorptioncv_0.1.0-1.ca2004.1_all.deb Size: 68884 MD5sum: 0faf025c949a4b468a6331e47d0ca9bd SHA1: c1145bde4e90f4ffd0251b548cb8b1c47bf1c35f SHA256: 7cd22af78744ad95aedc8dcab9b4d965c6b5e4d5a612755d452238acd64b87b0 SHA512: 442a422a3cc0997598885361ecb9a1c7ecbe120bd551a7988ba3b3d0157223e2f95493e77404851680f1a75df9d425fcad9b5461e1fb7b70dc87398fe4fd6bdd Homepage: https://cran.r-project.org/package=adsoRptionCV Description: CRAN Package 'adsoRptionCV' (Cross-Validation Methods for Adsorption Isotherm Models) Provides cross-validation tools for adsorption isotherm models, supporting both linear and non-linear forms. Current methods cover commonly used isotherms including the Freundlich, Langmuir, and Temkin models. This package implements K-fold and leave-one-out cross-validation (LOOCV) with optional clustering-based fold assignment to preserve underlying data structures during validation. Model predictive performance is assessed using mean squared error (MSE), with optional graphical visualization of fold-wise MSEs to support intuitive evaluation of model accuracy. This package is intended to facilitate rigorous model validation in adsorption studies and aid researchers in selecting robust isotherm models. For more details, see Montgomery et al. (2012) , Lumumba et al. (2024) , and Yates et al. (2022) . Package: r-cran-adsorptionmcmc Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mcmcpack, r-cran-coda Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-adsorptionmcmc_0.1.0-1.ca2004.1_all.deb Size: 85728 MD5sum: b91750ef7cacf156913cee35ec1be97e SHA1: 580737c89ebf1027f71d4436c1574a09d948c702 SHA256: f35e2e76e6e8751e4caebd2202b9a5dab0eec79991aa0d5258cb561704cf8f0e SHA512: 90e04483afd7134bba0b9595e6d7029d00f451afdab8562de6cbe467a8582a56eb9ca61324db10cbe9ac1a5c7ff25db5ca7d5caa750eff54874bed836fe3b544 Homepage: https://cran.r-project.org/package=adsoRptionMCMC Description: CRAN Package 'adsoRptionMCMC' (Bayesian Estimation of Adsorption Isotherms via MCMC) Provides tools for Bayesian parameter estimation of adsorption isotherm models using Markov Chain Monte Carlo (MCMC) methods. This package enables users to fit non-linear and linear adsorption isotherm models—Freundlich, Langmuir, and Temkin—within a probabilistic framework, capturing uncertainty and parameter correlations. It provides posterior summaries, 95% credible intervals, convergence diagnostics (Gelman-Rubin), and visualizations through trace and density plots. With this R package, researchers can rigorously analyze adsorption behavior in environmental and chemical systems using robust Bayesian inference. For more details, see Gilks et al. (1995) , and Gamerman & Lopes (2006) . Package: r-cran-adtsa Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-adtsa_1.0.1-1.ca2004.1_all.deb Size: 54272 MD5sum: 19874c82ea5a4c98748d921ff8de3148 SHA1: 85f6098414f6f5428e7989d492cf87807c4f2484 SHA256: de02ed1a1e33ff61cdb4d0a5f6f90a2a2a17ad49f912ac25cfa3012d76c0e942 SHA512: b045ee281613423bb014587098090af4f0bc55ac3cdece8b778c8551f7fde9ff1b6c5902da8216a8c440ba5c6c2fc420623d0356dca5886ea565a36feb10a63c Homepage: https://cran.r-project.org/package=ADTSA Description: CRAN Package 'ADTSA' (Time Series Analysis) Analyzes autocorrelation and partial autocorrelation using surrogate methods and bootstrapping, and computes the acceleration constants for the vectorized moving block bootstrap provided by this package. It generates percentile, bias-corrected, and accelerated intervals and estimates partial autocorrelations using Durbin-Levinson. This package calculates the autocorrelation power spectrum, computes cross-correlations between two time series, computes bandwidth for any time series, and performs autocorrelation frequency analysis. It also calculates the periodicity of a time series. Package: r-cran-advancedbasketballstats Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1039 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-advancedbasketballstats_1.0.1-1.ca2004.1_all.deb Size: 406236 MD5sum: bc82218472b31755b8d612851984d79f SHA1: 251760d6b30cbf61d85ea0e85fbf0cd48fcd0785 SHA256: 43489bcc8576da02b4820b718bff2ae7ed0ae8a7a7847f4c98d80d8da99b7144 SHA512: ff278b8e2f0b035bc96be94287995015c6f38dea66c891b9189f9466c006a151ac5ac76e2ae831445d3d5aee081ecdf994d64c5bde052ddfbffee61a986a83b4 Homepage: https://cran.r-project.org/package=AdvancedBasketballStats Description: CRAN Package 'AdvancedBasketballStats' (Advanced Basketball Statistics) Provides different functionalities and calculations used in the world of basketball to analyze the statistics of the players, the statistics of the teams, the statistics of the quintets and the statistics of the plays. For more details of the calculations included in the package can be found in the book Basketball on Paper written by Dean Oliver. 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Silva, L.G., Knupp, D.C., Bevilacqua, L., Galeao, A.C.N.R., Silva Neto, A.J., 2014, Formulation and solution of an Inverse Anomalous Diffusion Problem with Stochastic Techniques. . In this version, it is possible to include a source as a function depending on space and time, that is, s(x,t). 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Package: r-cran-aelab Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1923 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble, r-cran-lubridate, r-cran-dplyr, r-cran-openxlsx, r-cran-readxl, r-cran-ggplot2, r-cran-readr, r-cran-tidyr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-aelab_1.0.1-1.ca2004.1_all.deb Size: 1628912 MD5sum: 78541df8dabed3353433bca1f21840c9 SHA1: a956c4332ff73b7e2f346ee1be3adf68282cc8c5 SHA256: 9228e4710da61ab83579002785374d87fc8fac0f2051254fd9d5c881f6f40862 SHA512: 3c3b27b45fd0dd60abb1c339f9cd7d021ce8ff4dce69eef714a552504b00744997f1c3721e2fa776d5b88a7cdf5d0be1f527b257a6aab0611d1d38a651a49411 Homepage: https://cran.r-project.org/package=aelab Description: CRAN Package 'aelab' (Data Processing for Aquatic Ecology) Facilitate the analysis of data related to aquatic ecology, specifically the establishment of carbon budget. Currently, the package allows the below analysis. (i) the calculation of greenhouse gas flux based on data obtained from trace gas analyzer using the method described in Lin et al. (2024). (ii) the calculation of Dissolved Oxygen (DO) metabolism based on data obtained from dissolved oxygen data logger using the method described in Staehr et al. (2010). Yong et al. (2024) . Staehr et al. (2010) . Package: r-cran-aep Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-aep_0.1.4-1.ca2004.1_all.deb Size: 54960 MD5sum: daee03d5bc940d5a196abde5a0e42d53 SHA1: d2b7808e3b4200365cc4113e802970c199df5f36 SHA256: 205273c1ee9bacdb8a0237afbfb137825d1ca5a91e1490ad6138a26ebd3b2e48 SHA512: eb951eaf938f888b2de6273da8c1c73a809aeea871054e2e306d7391c19d8e7479da9072858a7af8775f30e16456213295e144673583c0958e1f4fa262d4b34a Homepage: https://cran.r-project.org/package=AEP Description: CRAN Package 'AEP' (Statistical Modelling for Asymmetric Exponential PowerDistribution) Developed for Computing the probability density function, cumulative distribution function, random generation, estimating the parameters of asymmetric exponential power distribution, and robust regression analysis with error term that follows asymmetric exponential power distribution. The asymmetric exponential power distribution studied here is a special case of that introduced by Dongming and Zinde-Walsh (2009) . Package: r-cran-aer Architecture: all Version: 1.2-15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2770 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-car, r-cran-lmtest, r-cran-sandwich, r-cran-survival, r-cran-zoo, r-cran-formula Suggests: r-cran-boot, r-cran-dynlm, r-cran-effects, r-cran-fgarch, r-cran-forecast, r-cran-foreign, r-cran-ineq, r-cran-kernsmooth, r-cran-lattice, r-cran-longmemo, r-cran-mass, r-cran-mlogit, r-cran-nlme, r-cran-nnet, r-cran-np, r-cran-plm, r-cran-pscl, r-cran-quantreg, r-cran-rgl, r-cran-rocr, r-cran-rugarch, r-cran-sampleselection, r-cran-scatterplot3d, r-cran-strucchange, r-cran-systemfit, r-cran-truncreg, r-cran-tseries, r-cran-urca, r-cran-vars Filename: pool/dists/focal/main/r-cran-aer_1.2-15-1.ca2004.1_all.deb Size: 2541340 MD5sum: 451f2362d512c86e9929f4d8db426362 SHA1: 5ca9dc928959cbe6ce07fc3ba8e1e594978fba1f SHA256: 7c20c76ad459668035e21f2afb55e6e58cb86abb4629ea25a9cc3f64d0d488ee SHA512: dd9c08429df4bedd0c64da98af5e91307c91816fb28de308a206f567915e7ce690accca07fb35cb2f6cefedf0cf0b1d1aa94508256afa8e276defee171efa814 Homepage: https://cran.r-project.org/package=AER Description: CRAN Package 'AER' (Applied Econometrics with R) Functions, data sets, examples, demos, and vignettes for the book Christian Kleiber and Achim Zeileis (2008), Applied Econometrics with R, Springer-Verlag, New York. ISBN 978-0-387-77316-2. (See the vignette "AER" for a package overview.) Package: r-cran-aerobiology Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1107 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-writexl, r-cran-ggvis, r-cran-lubridate, r-cran-plotly, r-cran-ggplot2, r-cran-tidyr, r-cran-circular, r-cran-scales, r-cran-zoo, r-cran-data.table Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-aerobiology_2.0.1-1.ca2004.1_all.deb Size: 690056 MD5sum: b390f7bef20ff597b69cf646f05f7f0c SHA1: f41a865b0dba75ab2f527b40e8c8790026ea29e7 SHA256: a14f1542585b12dc2c2f2c4412a8e1b9badadc0255ef087a21e24ba95b5553e7 SHA512: 16f4ddf209a3d1e640e50ad5427926092dd3b7c2961a6dc8fd4f61d2feaeda6389cca562e8a8b7a06e17ebb23594e05b997a8d755d3555554e392ef3cbd2ec3f Homepage: https://cran.r-project.org/package=AeRobiology Description: CRAN Package 'AeRobiology' (A Computational Tool for Aerobiological Data) Different tools for managing databases of airborne particles, elaborating the main calculations and visualization of results. In a first step, data are checked using tools for quality control and all missing gaps are completed. Then, the main parameters of the pollen season are calculated and represented graphically. Multiple graphical tools are available: pollen calendars, phenological plots, time series, tendencies, interactive plots, abundance plots... Package: r-cran-aerosampler Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 320 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-tidyr, r-cran-ggplot2, r-cran-ggthemes, r-cran-stringr, r-cran-tidyselect, r-cran-flextable Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-aerosampler_0.2.0-1.ca2004.1_all.deb Size: 171116 MD5sum: f9ce646977ee4e424215de7771703c42 SHA1: 722cd653b404bdd7afdd8b84a22e51adab3dbbaf SHA256: d5e8133218b8b5a974a01bd783c52ec1e491b473bdc372c27450dc8155131194 SHA512: e06133ba1e88067323e09d9d9fdee40af9b96dccb2c9d81a7dd47079ae4aeebdd296375e99492f0b52fd381b5f372f0ff76ff97b6cb5b03996d60fb8d66493db Homepage: https://cran.r-project.org/package=AeroSampleR Description: CRAN Package 'AeroSampleR' (Estimate Aerosol Particle Collection Through Sample Lines) Estimate ideal efficiencies of aerosol sampling through sample lines. Functions were developed consistent with the approach described in Hogue, Mark; Thompson, Martha; Farfan, Eduardo; Hadlock, Dennis, (2014), "Hand Calculations for Transport of Radioactive Aerosols through Sampling Systems" Health Phys 106, 5, S78-S87, . Package: r-cran-af Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 289 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-drgee, r-cran-stdreg, r-cran-data.table, r-cran-ivtools Filename: pool/dists/focal/main/r-cran-af_0.1.5-1.ca2004.1_all.deb Size: 255428 MD5sum: bb2af978f0a4590c79786bb8e5227e7a SHA1: fa2192e927fded125dc223c8b3573eef9392e3b6 SHA256: 4120a2691ad4506d67bc3786e1a0f0c9868da86429f0fb0909aef8b65cab7fcd SHA512: 0c4f4a7f525f85744a06eaf8945872644a965021efa953d9e0d11fb2136802d7978b40d267f06ee4844870c4c5346dcf1b0ad6c2b4127fadb9e61d6ca8a786dc Homepage: https://cran.r-project.org/package=AF Description: CRAN Package 'AF' (Model-Based Estimation of Confounder-Adjusted AttributableFractions) Estimates the attributable fraction in different sampling designs adjusted for measured confounders using logistic regression (cross-sectional and case-control designs), conditional logistic regression (matched case-control design), Cox proportional hazard regression (cohort design with time-to- event outcome), gamma-frailty model with a Weibull baseline hazard and instrumental variables analysis. An exploration of the AF with a genetic exposure can be found in the package 'AFheritability' Dahlqwist E et al. (2019) . Package: r-cran-afc Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-afc_1.4.0-1.ca2004.1_all.deb Size: 103304 MD5sum: a1eb6703960939dad4197d500ab676fe SHA1: 33777830cd8dc4c503ff3fd1395b003d0d87da62 SHA256: 6a76af41bdd73b69f23e1ff4287d71f68333535848a409456d8855cba8c47071 SHA512: dc249f2444c742194ff2c97ce92a1d91e1d9fe473158caaed7c4d9d32af0e20b48030d0975babf743dca2b498c0339a1e2d4dc19d55532a0138d4efff06dee7d Homepage: https://cran.r-project.org/package=afc Description: CRAN Package 'afc' (Generalized Discrimination Score) This is an implementation of the Generalized Discrimination Score (also known as Two Alternatives Forced Choice Score, 2AFC) for various representations of forecasts and verifying observations. The Generalized Discrimination Score is a generic forecast verification framework which can be applied to any of the following verification contexts: dichotomous, polychotomous (ordinal and nominal), continuous, probabilistic, and ensemble. A comprehensive description of the Generalized Discrimination Score, including all equations used in this package, is provided by Mason and Weigel (2009) . 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Package: r-cran-afdx Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 655 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maxlik, r-cran-dplyr, r-cran-magrittr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-desctools, r-cran-kableextra, r-cran-coda, r-cran-rjags, r-cran-ggmcmc, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-afdx_1.1.1-1.ca2004.1_all.deb Size: 287856 MD5sum: e53317eb32263fba7066b89dc8b03d5c SHA1: 034ac310a0d7275307270269e0838c7f2b6520ab SHA256: b27bb077bd3b7cfa318e88cae68513f0c48142e4856fba4a47a17cde2db41b82 SHA512: bf34532e4935cfb07c24b91ee7a6318fe9c5a82cea6f3a9d436591babe974facd9201f0f66e9e95e16f07ce107f7289428ba93dcec4fea34f2e8f1fe3b8e35f1 Homepage: https://cran.r-project.org/package=afdx Description: CRAN Package 'afdx' (Diagnosis Performance Using Attributable Fraction) Estimate diagnosis performance (Sensitivity, Specificity, Positive predictive value, Negative predicted value) of a diagnostic test where can not measure the golden standard but can estimate it using the attributable fraction. Package: r-cran-afex Architecture: all Version: 1.4-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3381 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-pbkrtest, r-cran-lmertest, r-cran-car, r-cran-reshape2 Suggests: r-cran-emmeans, r-cran-coin, r-cran-xtable, r-cran-plyr, r-cran-optimx, r-cran-nloptr, r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp, r-cran-lattice, r-cran-latticeextra, r-cran-multcomp, r-cran-testthat, r-cran-mlmrev, r-cran-dplyr, r-cran-tidyr, r-cran-dfoptim, r-cran-matrix, r-cran-psychtools, r-cran-ggplot2, r-cran-memss, r-cran-effects, r-cran-cardata, r-cran-ggbeeswarm, r-cran-nlme, r-cran-cowplot, r-cran-jtools, r-cran-ggpubr, r-cran-ggpol, r-cran-mass, r-cran-glmmtmb, r-cran-brms, r-cran-rstanarm, r-cran-statmod, r-cran-performance, r-cran-see, r-cran-ez, r-cran-ggresidpanel, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-afex_1.4-1-1.ca2004.1_all.deb Size: 2650784 MD5sum: eb0d8d28befd9ad21af1907754982756 SHA1: f6d2830c2597b3b97fdc455c207e1d505868f635 SHA256: 5c7e0ca8e4d3bc957517cc158f75e0b7fb15316713fdfeeb486bb8febf557460 SHA512: 058720f26fd09fd213b78ad5785285fdf0f2cb95851a4077b2a5fc080bd97a8b3a8977cdc4ffc3dd11a21231fa1656ef900e98a223a39e6b0b664bb381285335 Homepage: https://cran.r-project.org/package=afex Description: CRAN Package 'afex' (Analysis of Factorial Experiments) Convenience functions for analyzing factorial experiments using ANOVA or mixed models. aov_ez(), aov_car(), and aov_4() allow specification of between, within (i.e., repeated-measures), or mixed (i.e., split-plot) ANOVAs for data in long format (i.e., one observation per row), automatically aggregating multiple observations per individual and cell of the design. mixed() fits mixed models using lme4::lmer() and computes p-values for all fixed effects using either Kenward-Roger or Satterthwaite approximation for degrees of freedom (LMM only), parametric bootstrap (LMMs and GLMMs), or likelihood ratio tests (LMMs and GLMMs). afex_plot() provides a high-level interface for interaction or one-way plots using ggplot2, combining raw data and model estimates. afex uses type 3 sums of squares as default (imitating commercial statistical software). Package: r-cran-affect Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-affect_0.1.2-1.ca2004.1_all.deb Size: 41012 MD5sum: e1ebb82186feaed236819b98537de891 SHA1: 7c05e7acd2d01b2ad5df01a256c29100e7845c22 SHA256: c88418593a27d1bf99f44e71c4483e5f9ffa9e81b2a624161f97ee286adb7723 SHA512: 1804f8f8f7e28b27ec5d28ce2e6d6aa61f8b4aa17a02efe8bb0ce9a10955af1fa98c8f8b9d6d18994d578d92e072457abd6e5c694f201bb2e4efbc37a0f37bd6 Homepage: https://cran.r-project.org/package=AFFECT Description: CRAN Package 'AFFECT' (Accelerated Functional Failure Time Model withError-Contaminated Survival Times) We aim to deal with data with measurement error in the response and misclassification censoring status under an AFT model. This package primarily contains three functions, which are used to generate artificial data, correction for error-prone data and estimate the functional covariates for an AFT model. Package: r-cran-affiner Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1623 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6 Suggests: r-cran-artsy, r-cran-ggplot2, r-cran-gridpattern, r-cran-gtable, r-cran-knitr, r-cran-ragg, r-cran-rgl, r-cran-rlang, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-withr Filename: pool/dists/focal/main/r-cran-affiner_0.1.3-1.ca2004.1_all.deb Size: 1303376 MD5sum: d418b1684f1acebf181e4bb9f4200198 SHA1: a24c18641c4a730d9e988ca37af2a003dd562128 SHA256: efefb66990c6f75fb82bddec29a16561e2bbff9349dee1375200d9172c8187af SHA512: df4b21abeb5afaafc0813087222bd7d3a97b4047ea92822e28f780513dcf1a3e118dc408d6f36e91c3210e7b6bb6ca216ba09fd0407087d437e9b1ad81cdfeb5 Homepage: https://cran.r-project.org/package=affiner Description: CRAN Package 'affiner' (A Finer Way to Render 3D Illustrated Objects in 'grid' UsingAffine Transformations) Dilate, permute, project, reflect, rotate, shear, and translate 2D and 3D points. Supports parallel projections including oblique projections such as the cabinet projection as well as axonometric projections such as the isometric projection. Use 'grid's "affine transformation" feature to render illustrated flat surfaces. Package: r-cran-affinity Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 674 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-reproj Suggests: r-cran-rmarkdown, r-cran-covr, r-cran-knitr Filename: pool/dists/focal/main/r-cran-affinity_0.2.5-1.ca2004.1_all.deb Size: 619492 MD5sum: abcdbaf82b238a55586cfee646adcf5e SHA1: 5682c997bd0d2275be285e6ef4cc3fbc7d04eea6 SHA256: bdd53717648a645f1037236c7fffae935ab915295fcd4ae1c2f28dd1ded5dc62 SHA512: 1d22c88b92ab59108669f4beaadda439a2cda7c4b8aac2f97340d13a3014fbe2c7d882e8523aab1fec13987c00f036c25f2d24d73f82f4deb6b206f18f317476 Homepage: https://cran.r-project.org/package=affinity Description: CRAN Package 'affinity' (Raster Georeferencing, Grid Affine Transforms, Cell Abstraction) Tools for raster georeferencing, grid affine transforms, and general raster logic. These functions provide converters between raster specifications, world vector, geotransform, 'RasterIO' window, and 'RasterIO window' in 'sf' package list format. There are functions to offset a matrix by padding any of four corners (useful for vectorizing neighbourhood operations), and helper functions to harvesting user clicks on a graphics device to use for simple georeferencing of images. Methods used are available from and . Package: r-cran-affinitymatrix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-expm, r-cran-mass, r-cran-hmisc, r-cran-ggplot2, r-cran-ggrepel Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-affinitymatrix_0.1.0-1.ca2004.1_all.deb Size: 123928 MD5sum: 6c2cc6d4996414d1dca71507ff515461 SHA1: 68e1acf8bddb1d2f1bad20e1cd7352afc61b1763 SHA256: 46ba36f177b75b1476e7b8d100e5bffe150af5c5d41f1d3a9e8922ac8ae2dd28 SHA512: 16902c9590ce2d820722da1c958e909141a3fdf81eceb04f9250129ec4c050617b9391e395117a7ed394a0db759f6babd9cf210f266fe79db92402dfa5bd7772 Homepage: https://cran.r-project.org/package=affinitymatrix Description: CRAN Package 'affinitymatrix' (Estimation of Affinity Matrix) Tools to study sorting patterns in matching markets and to estimate the affinity matrix of both the bipartite one-to-one matching model without frictions and with Transferable Utility by 'Dupuy' and 'Galichon' (2014) and its 'unipartite' variant by 'Ciscato', 'Galichon' and 'Gousse' (2020) . It also contains all the necessary tools to implement the 'saliency' analysis, to run rank tests of the affinity matrix and to build tables and plots summarizing the findings. Package: r-cran-affluenceindex Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spatstat.univar Filename: pool/dists/focal/main/r-cran-affluenceindex_2.2-1.ca2004.1_all.deb Size: 87308 MD5sum: 574b774ad815a206129273d5dfcae8e6 SHA1: cadb946a36217aa351d9cb487dd0a277103afc38 SHA256: 7619b7b4a60609f2809a6d78d7396622701a96c2361615e85aaab916fe6e3910 SHA512: 49c8631121b3c61e4cfccb1ce7a9ccdb7e78be27ced8233418df78c679036e203d7994ad2db2161ac03376a3fa0644084468363c6f2289ebb6c31e1d2fa2f464 Homepage: https://cran.r-project.org/package=affluenceIndex Description: CRAN Package 'affluenceIndex' (Affluence (Richness) Indices) Enables to compute the statistical indices of affluence (richness) with bootstrap errors, and inequality and polarization indices. Moreover, gives the possibility of calculation of affluence line. Some simple errors are fixed and it works with new version of Spatial Statistics packaged. Package: r-cran-afheritability Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-mvtnorm, r-cran-ggplot2, r-cran-shiny Filename: pool/dists/focal/main/r-cran-afheritability_0.1.0-1.ca2004.1_all.deb Size: 63888 MD5sum: 55bbd9660514c875a4517ad33b3312d0 SHA1: af5510d31db2a33320c1a8e1dc4b01e01f7a2ebe SHA256: ae8caf6a40fa2dedd3917aaa2c42ece9ec6d8864ab7b3b314534d989513cbf96 SHA512: c0fc20866a8ca6e4650f3d80e058d6d54deae67fd5457d95f4c91eb1d101ad5ff5fbfd6de4955c66417dca18229e4e6f1ae4893796b34530a4709af658ccdbf2 Homepage: https://cran.r-project.org/package=AFheritability Description: CRAN Package 'AFheritability' (The Attributable Fraction (AF) Described as a Function ofDisease Heritability, Prevalence and Intervention SpecificFactors) The AFfunction() is a function which returns an estimate of the Attributable Fraction (AF) and a plot of the AF as a function of heritability, disease prevalence, size of target group and intervention effect. Since the AF is a function of several factors, a shiny app is used to better illustrate how the relationship between the AF and heritability depends on several other factors. The app is ran by the function runShinyApp(). For more information see Dahlqwist E et al. (2019) . Package: r-cran-afm Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2128 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-afm_2.0-1.ca2004.1_all.deb Size: 1865112 MD5sum: 21621959ecb43e261069a0f1442fcebd SHA1: 87c4d2fd550ced4aea32d4db2c81b95dc2cfd21f SHA256: 6bd6ec590bc391967062e272cfdb0c25356f59a62b53b8784ee0dde5e81ba35b SHA512: 9189a1fad84b37eae3cec4997c63e72ab6be272f4b9040bc159519f40fc1cb174a5d86c826542986cf26910eb3b36a433200ada6f2ab6da1e505f06f78fe7e12 Homepage: https://cran.r-project.org/package=AFM Description: CRAN Package 'AFM' (Atomic Force Microscope Image Analysis) Provides Atomic Force Microscope images analysis such as Gaussian mixes identification, Power Spectral Density, roughness against lengthscale, experimental variogram and variogram models, fractal dimension and scale, 2D network analysis. The AFM images can be exported to STL format for 3D printing. Package: r-cran-afmtoolkit Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3230 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-minpack.lm, r-cran-gridextra, r-cran-scales, r-cran-dplyr, r-cran-dbi, r-cran-assertthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-afmtoolkit_0.0.1-1.ca2004.1_all.deb Size: 2954256 MD5sum: b55dacacac8624279dacc39e8abb6928 SHA1: f6b2eccfa7d3a3851b672aed6d7f044cec556cc8 SHA256: 06bfec5411729d21f7fb9f02bc9a50c6ac28e775ece9dddbc2dd32ef750d0589 SHA512: baa41d7b2808bc1d9da225c3beae56db23b59ed0d8d0530a035a641cedf05690fd9d30b6c0d32ae903ea43d2d22eb881f024d9560a3c219353296ab4bd7dd6bc Homepage: https://cran.r-project.org/package=afmToolkit Description: CRAN Package 'afmToolkit' (Functions for Atomic Force Microscope Force-Distance CurvesAnalysis) Set of functions for analyzing Atomic Force Microscope (AFM) force-distance curves. It allows to obtain the contact and unbinding points, perform the baseline correction, estimate the Young's modulus, fit up to two exponential decay function to a stress-relaxation / creep experiment, obtain adhesion energies. These operations can be done either over a single F-d curve or over a set of F-d curves in batch mode. 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The package includes functions from existing R packages adapted for banking sector of Kazakhstan. The purpose of the package is to optimize statistical functions for easier interpretation for bank analysts and non-statisticians. 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The database contains >700 macroeconomic time series from mostly international sources, grouped into 50 macroeconomic and development-related topics. Series are carefully selected on the basis of data coverage for Africa, frequency, and relevance to the macro-development context. The project is part of the 'Kiel Institute Africa Initiative' , which, amongst other things, aims to develop a parsimonious database with highly relevant indicators to monitor macroeconomic developments in Africa, accessible through a fast API and a web-based platform at . The database is maintained at the Kiel Institute for the World Economy . 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Users can create Bayesian network models from scratch or import existing models in R and export to 'agena.ai' cloud or local API for calculations. Note: running calculations requires a valid 'agena.ai' API license (past the initial trial period of the local API). Package: r-cran-agepopdenom Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1408 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tmb, r-cran-dplyr, r-cran-curl, r-cran-exactextractr, r-cran-ggplot2, r-cran-numderiv, r-cran-pdist, r-cran-sf, r-cran-cli, r-cran-tibble, r-cran-terra, r-cran-tidyr, r-cran-httr Suggests: r-cran-stringr, r-cran-openxlsx2, r-cran-countrycode, r-cran-crayon, r-cran-scales, r-cran-glue, r-cran-haven, r-cran-here, r-cran-rstudioapi, r-cran-geodata, r-cran-pbmcapply, r-cran-future, r-cran-future.apply, r-cran-purrr, r-cran-rdhs, r-cran-rlang, r-cran-pak, r-cran-sp, r-cran-automap, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-matrixstats, r-cran-mockery, r-cran-gstat, r-cran-rcppeigen Filename: pool/dists/focal/main/r-cran-agepopdenom_0.4.0-1.ca2004.1_all.deb Size: 650068 MD5sum: e57bc92a533dd9108b7a84209363a45a SHA1: 00cf82d69953421ce7d7e1b1d323dc14d5e00472 SHA256: ac5ff782b73b11722a8994ebbde20cc85f5659b4357beb95bd57ebf82896a77f SHA512: 90d876e3030ba91d9da458826dbfe34e8c8f482dfb69dc488dcd1b48581defa0dcdd62d1cbba01d7e821fa2b1b032a3595f6139c3c73607c1adb3500319851f1 Homepage: https://cran.r-project.org/package=AgePopDenom Description: CRAN Package 'AgePopDenom' (Model Fine-Scale Age-Structured Population Data usingOpen-Source Data) Automate the modelling of age-structured population data using survey data, grid population estimates and urban-rural extents. 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Instead of choosing the best model trained on V subsamples, it determines a winner model for each subsample, and then aggregates the V outputs. For the details, see "Aggregated hold-out" by Guillaume Maillard, Sylvain Arlot, Matthieu Lerasle (2021) published in Journal of Machine Learning Research 22(20):1--55. Package: r-cran-aggrecat Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1607 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-magrittr, r-cran-gofkernel, r-cran-purrr, r-cran-r2jags, r-cran-coda, r-cran-precrec, r-cran-mathjaxr, r-cran-cli, r-cran-vgam, r-cran-crayon, r-cran-dplyr, r-cran-stringr, r-cran-tidyr, r-cran-tibble, r-cran-ggplot2, r-cran-insight, r-cran-desctools, r-cran-mlmetrics Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-pointblank, r-cran-janitor, r-cran-qualtrics, r-cran-here, r-cran-readxl, r-cran-readr, r-cran-lubridate, r-cran-forcats, r-cran-ggforce, r-cran-ggpubr, r-cran-ggridges, r-cran-rjags, r-cran-tidybayes, r-cran-tidyverse, r-cran-usethis, r-cran-nlme, r-cran-gt, r-cran-gtextras, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-aggrecat_1.0.0-1.ca2004.1_all.deb Size: 1518680 MD5sum: 8dce9249f94d940b730f4d3ad4976a2f SHA1: 73bbbcb905637fe4382dc7910b753ebb641ad8af SHA256: 69de7d11d995f36335f210e1dfb6bd90c8645c8944189d98de9f9b515261b2b3 SHA512: 2e1d9926981bd7e499f9444e968dc4be609a634cf1391a062aac21bab064c49e7dfcdb046c11748c9246738c7fae63502f008fddb0653da8ffde6dd26257ff6a Homepage: https://cran.r-project.org/package=aggreCAT Description: CRAN Package 'aggreCAT' (Mathematically Aggregating Expert Judgments) The use of structured elicitation to inform decision making has grown dramatically in recent decades, however, judgements from multiple experts must be aggregated into a single estimate. 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Package: r-cran-aggregation Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-aggregation_1.0.1-1.ca2004.1_all.deb Size: 15452 MD5sum: c353b0e87ff09fc93f0173eceeb99696 SHA1: 844d173cbdbaeef00a3bac9604c0af66df396d00 SHA256: 89f8f0b40d7fb3b00f4757875e0e6620c48c4983d8cd923b1785ea128757ef42 SHA512: 4e1fc1cb099a3585cd9cf6888acc07c3dc05a59d736808673820c64f4c7cb5ec1781303689ab08dcbc36fb7b9e2b54068a279c96ce8322859c91eca78f148153 Homepage: https://cran.r-project.org/package=aggregation Description: CRAN Package 'aggregation' (p-Value Aggregation Methods) Contains functionality for performing the following methods of p-value aggregation: Fisher's method [Fisher, RA (1932, ISBN: 9780028447308)], the Lancaster method (weighted Fisher's method) [Lancaster, HO (1961, )], and Sidak correction [Sidak, Z (1967, )]. Please cite Yi et al., the manuscript corresponding to this package [Yi, L et al., (2017), ]. 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Several methods are implemented considering additive and non-additive models. Package: r-cran-aghq Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 390 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvquad, r-cran-matrix, r-cran-rlang, r-cran-polynom, r-cran-numderiv Suggests: r-cran-trustoptim, r-cran-trust, r-cran-testthat Filename: pool/dists/focal/main/r-cran-aghq_0.4.1-1.ca2004.1_all.deb Size: 316600 MD5sum: 91a727ec79191829e733afe0e8cc2fb2 SHA1: a82d929c0acab1cdb7aac6c816bb0948dd90d4a8 SHA256: c4d2071e2bf2cd4fe56bb29ffb2f131c5b605e4281bb16eb39b7341ac16b0913 SHA512: b157025bb514eb8cdcb9034a5175999a93986bf70ca0486bc746a5b5164d74663ee744cdd1d40f49f5ccd36361bf7f721d586d61d288f38c04445a3898335783 Homepage: https://cran.r-project.org/package=aghq Description: CRAN Package 'aghq' (Adaptive Gauss Hermite Quadrature for Bayesian Inference) Adaptive Gauss Hermite Quadrature for Bayesian inference. 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Package: r-cran-agricolae Architecture: all Version: 1.3-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1472 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-nlme, r-cran-cluster, r-cran-algdesign Filename: pool/dists/focal/main/r-cran-agricolae_1.3-7-1.ca2004.1_all.deb Size: 1171392 MD5sum: 65e02d86b64124ca4f761324a39691a6 SHA1: ec7172576a547bc1290bd9100599454c0f77dede SHA256: 9e9e4d04dcf706e20045d63a0941a603e0f79d9507c265624e826b7136063917 SHA512: e15bad3fd085d5917042e1d17002dde8b228347eae0126402e185322381369f8fad9bd165f5ad842773267405b33ed11e4770fcce3bf124e050e3834d22a1d03 Homepage: https://cran.r-project.org/package=agricolae Description: CRAN Package 'agricolae' (Statistical Procedures for Agricultural Research) Original idea was presented in the thesis "A statistical analysis tool for agricultural research" to obtain the degree of Master on science, National Engineering University (UNI), Lima-Peru. Some experimental data for the examples come from the CIP and others research. Agricolae offers extensive functionality on experimental design especially for agricultural and plant breeding experiments, which can also be useful for other purposes. It supports planning of lattice, Alpha, Cyclic, Complete Block, Latin Square, Graeco-Latin Squares, augmented block, factorial, split and strip plot designs. There are also various analysis facilities for experimental data, e.g. treatment comparison procedures and several non-parametric tests comparison, biodiversity indexes and consensus cluster. 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As there are many different designs, each design is tested on its type. The output can be modified with standard 'ggplot2' commands or with other packages with 'ggplot2' function extensions. Package: r-cran-agridat Architecture: all Version: 1.24-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3853 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-aer, r-cran-agricolae, r-cran-betareg, r-cran-broom, r-cran-car, r-cran-coin, r-cran-corrgram, r-cran-desplot, r-cran-dplyr, r-cran-effects, r-cran-emmeans, r-cran-equivalence, r-cran-frf2, r-cran-gam, r-cran-gge, r-cran-ggplot2, r-cran-gnm, r-cran-gstat, r-cran-hh, r-cran-knitr, r-cran-lattice, r-cran-latticeextra, r-cran-lme4, r-cran-lucid, r-cran-mapproj, r-cran-maps, r-cran-mass, r-cran-mcmcglmm, r-cran-metafor, r-cran-mgcv, r-cran-nada, r-cran-nlme, r-cran-nullabor, r-cran-ordinal, r-cran-pbkrtest, r-cran-pls, r-cran-pscl, r-cran-qicharts, r-cran-qtl, r-cran-reshape2, r-cran-rmarkdown, r-cran-sp, r-cran-spats, r-cran-survival, r-cran-testthat, r-cran-vcd Filename: pool/dists/focal/main/r-cran-agridat_1.24-1.ca2004.1_all.deb Size: 3224532 MD5sum: 75bea0390b5c8ddca1fe9c6ed0c02a73 SHA1: 166ac64070b9483fbd538de59d8dd4dfd2bb3583 SHA256: 15d50a57af2cd34a0712df55c061fc084a75bbb284f20e984c8e64942e390bd0 SHA512: 570301b206924842fd2eb5abf12e935135b6b0cb8084553e4c6bae96d5ccaea1578554f37d36f08d3d9e7f2a67c38453021810a614811cdb314e3cec8fe0519b Homepage: https://cran.r-project.org/package=agridat Description: CRAN Package 'agridat' (Agricultural Datasets) Datasets from books, papers, and websites related to agriculture. Example graphics and analyses are included. Data come from small-plot trials, multi-environment trials, uniformity trials, yield monitors, and more. Package: r-cran-agrifeature Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-agrifeature_1.0.3-1.ca2004.1_all.deb Size: 24440 MD5sum: 6a6766e18998a64b7bd84e1f83220e83 SHA1: c48a9d702898d566481a72556f881e3a3396ff30 SHA256: 87735c96f1bb752141c149770dc1a947bf283b8e20188a7bf5bea8010a3711b1 SHA512: 67b4349fada102a442dded2136f127bc716febb25dd0a483bff9c36cbafe11ab445c69d9802f29d0a32792760a768ba22078a434192a1361e39f66b2f733fb29 Homepage: https://cran.r-project.org/package=agrifeature Description: CRAN Package 'agrifeature' (Agriculture Image Feature) Functions to calculate Gray Level Co-occurrence Matrix(GLCM), RGB-based Vegetative Index(RGB VI) and Normalized Difference Vegetation Index(NDVI) family image features. GLCM calculations are based on Haralick (1973) . Package: r-cran-agritutorial Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 343 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lmertest, r-cran-emmeans, r-cran-pbkrtest, r-cran-lattice, r-cran-nlme, r-cran-ggplot2 Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-agritutorial_0.1.5-1.ca2004.1_all.deb Size: 295136 MD5sum: c7d685166e8a73a2eb6c497955cbb85f SHA1: c3ec675edf8cb77a8d275b5956ad21cf06143cfd SHA256: f243379c80eff636818232da134cd1d4b8b7b1899a5e7a0468bc2b4bcf06474d SHA512: 946d06f8e59078048ff1a0f5ab1089eef3888dbccb498afddda9fa306e8c3021069562066fec7c593d919bc2fb783cd34c464bb3be0df1413d4375d11e40a997 Homepage: https://cran.r-project.org/package=agriTutorial Description: CRAN Package 'agriTutorial' (Tutorial Analysis of Some Agricultural Experiments) Example software for the analysis of data from designed experiments, especially agricultural crop experiments. The basics of the analysis of designed experiments are discussed using real examples from agricultural field trials. A range of statistical methods using a range of R statistical packages are exemplified . The experimental data is made available as separate data sets for each example and the R analysis code is made available as example code. The example code can be readily extended, as required. Package: r-cran-agriutilities Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2367 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-psych, r-cran-dplyr, r-cran-tidyr, r-cran-lme4, r-cran-matrix, r-cran-ggpubr, r-cran-lmertest, r-cran-data.table, r-cran-magrittr, r-cran-emmeans, r-cran-ggrepel, r-cran-tibble, r-cran-rlang, r-cran-statgensta, r-cran-spats Suggests: r-cran-knitr, r-cran-lattice, r-cran-cluster, r-cran-rmarkdown, r-cran-agridat, r-cran-gt Filename: pool/dists/focal/main/r-cran-agriutilities_1.2.1-1.ca2004.1_all.deb Size: 1605484 MD5sum: e078dd60dd8bdb5f693bd1216ecded5b SHA1: 74662c33296b3f727f252299cbbd22e8c5c0ca68 SHA256: 15cc731166b42dd3331fe1dab81fb0de3acca36db2bebfad9cdc5c450e2e121f SHA512: 5c52454a8f20140581267fac4e97580c27dddacd9397f85a947580485f01ed5d1b3585fac07d1d9f9a88c51ebb86daee6627163465a416dd9b1bbc00c25fefa4 Homepage: https://cran.r-project.org/package=agriutilities Description: CRAN Package 'agriutilities' (Utilities for Data Analysis in Agriculture) Utilities designed to make the analysis of field trials easier and more accessible for everyone working in plant breeding. It provides a simple and intuitive interface for conducting single and multi-environmental trial analysis, with minimal coding required. Whether you're a beginner or an experienced user, 'agriutilities' will help you quickly and easily carry out complex analyses with confidence. With built-in functions for fitting Linear Mixed Models, 'agriutilities' is the ideal choice for anyone who wants to save time and focus on interpreting their results. Some of the functions require the R package 'asreml' for the 'ASReml' software, this can be obtained upon purchase from 'VSN' international . 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Respectively spatial resolutions are 30, 100, 10 and 250 meters. User can use data from a single meteorological station or a grid of meteorological stations (using any spatial interpolation method). Silva, Teixeira, and Manzione (2019) . Package: r-cran-agrmt Architecture: all Version: 1.42.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 447 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-agrmt_1.42.12-1.ca2004.1_all.deb Size: 381104 MD5sum: c8cac33968e79c9c84ec38a575cab3a6 SHA1: 0082c80724185ab8e83009e383639c03a81a93de SHA256: 055eda49b25f880cf1654097e1b3fcd53129fe4f0ac70f276b902531c9a0e046 SHA512: d4f4983cf9da9f54ec997f036d0c2dcf276b5ea6ba02349ac1b97af80fcda6ac4d62b9bc2c3a64f2e731d0c535e962fc8dd161f718f65fcc279eb0bdcb9bd7e9 Homepage: https://cran.r-project.org/package=agrmt Description: CRAN Package 'agrmt' (Calculate Concentration and Dispersion in Ordered Rating Scales) Calculates concentration and dispersion in ordered rating scales. 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Package: r-cran-agroclim Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 198 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-gtable, r-cran-zoo, r-cran-abind, r-cran-raster, r-cran-ggpubr, r-cran-cowplot, r-cran-reshape, r-cran-ggforce, r-cran-ncdf4, r-cran-easyncdf, r-cran-sp, r-cran-multiapply Filename: pool/dists/focal/main/r-cran-agroclim_0.3.0-1.ca2004.1_all.deb Size: 166436 MD5sum: de330fe5c068a23c9987dbd1cbc94258 SHA1: 694b9d9095c11d0dffa62ce5ddbfb2499d8a27f2 SHA256: f83ebe4c3bc323b57a257b62628a57a6e186df6e8f3a1ce78dfa919e5311764f SHA512: 132afbd153e2da6fefdc1d78326ced6595883c915596cf384b21af0882b38fdb26211a4204ff3bb1a8e6c1dbbf49ce3635365625e89a98d78beb34dd097ef7e8 Homepage: https://cran.r-project.org/package=agroclim Description: CRAN Package 'agroclim' (Climatic Indices for Agriculture) Collection of functions to compute agroclimatic indices useful to zoning areas based on climatic variables and to evaluate the importance of temperature and precipitation for individual crops, or in general for agricultural lands. Package: r-cran-agror Architecture: all Version: 1.3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1624 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-knitr, r-cran-ggplot2, r-cran-nortest, r-cran-lme4, r-cran-crayon, r-cran-lmtest, r-cran-emmeans, r-cran-multcomp, r-cran-ggrepel, r-cran-mass, r-cran-cowplot, r-cran-multcompview, r-cran-rcolorbrewer, r-cran-drc, r-cran-dunn.test, r-cran-gtools, r-cran-gridextra Suggests: r-cran-dt, r-cran-rmarkdown, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-agror_1.3.6-1.ca2004.1_all.deb Size: 1574136 MD5sum: 6dd5349e327c51d42833f1fe74b4fd98 SHA1: 99a7c8883e4f1a3bb43d55a12ee65376e04df837 SHA256: a1ab1d9b4a13d0d6c7e5f32e7d347f9653bbc2c44f55623cf8996797431ee7e0 SHA512: e94c52f6b8aa536fd34847018aa20a68baafa33796dea982e5ba32bc87ab8e9c269de8022cae8507391b5cfc808adcc1e834ce8c8cbcbd894ff1549e061a4f4e Homepage: https://cran.r-project.org/package=AgroR Description: CRAN Package 'AgroR' (Experimental Statistics and Graphics for Agricultural Sciences) Performs the analysis of completely randomized experimental designs (CRD), randomized blocks (RBD) and Latin square (LSD), experiments in double and triple factorial scheme (in CRD and RBD), experiments in subdivided plot scheme (in CRD and RBD), subdivided and joint analysis of experiments in CRD and RBD, linear regression analysis, test for two samples. The package performs analysis of variance, ANOVA assumptions and multiple comparison test of means or regression, according to Pimentel-Gomes (2009, ISBN: 978-85-7133-055-9), nonparametric test (Conover, 1999, ISBN: 0471160687), test for two samples, joint analysis of experiments according to Ferreira (2018, ISBN: 978-85-7269-566-4) and generalized linear model (glm) for binomial and Poisson family in CRD and RBD (Carvalho, FJ (2019), ). It can also be used to obtain descriptive measures and graphics, in addition to correlations and creative graphics used in agricultural sciences (Agronomy, Zootechnics, Food Science and related areas). Package: r-cran-agroreg Architecture: all Version: 1.2.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 687 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-drc, r-cran-ggplot2, r-cran-boot, r-cran-minpack.lm, r-cran-dplyr, r-cran-rcompanion, r-cran-broom, r-cran-egg, r-cran-purrr Filename: pool/dists/focal/main/r-cran-agroreg_1.2.10-1.ca2004.1_all.deb Size: 629968 MD5sum: 8404d8e8a50f5932c883367693bf2dba SHA1: 1583ea53ab8f3e49d854ea11593b2b04379770b3 SHA256: dfdd81c617db8068982c160a894fe2e0093a06761e8004ab0a8378fc840ed985 SHA512: b7f3bb76142e3774a7b63d4a3a6bd395b659a90f695f5aced523aedef6c7e292c73c370d9b6d5a9b0e00645966e62ed531cb66355734fa513424a62543f57d27 Homepage: https://cran.r-project.org/package=AgroReg Description: CRAN Package 'AgroReg' (Regression Analysis Linear and Nonlinear for Agriculture) Linear and nonlinear regression analysis common in agricultural science articles (Archontoulis & Miguez (2015). ). The package includes polynomial, exponential, gaussian, logistic, logarithmic, segmented, non-parametric models, among others. The functions return the model coefficients and their respective p values, coefficient of determination, root mean square error, AIC, BIC, as well as graphs with the equations automatically. 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(1979), variance of specific adaptive ability by Kilchevsky&Khotyleva (1989), weighted homeostaticity index by Martynov (1990), steadiness of stability index by Udachin (1990), superiority measure by Lin&Binn (1988) , regression on environmental index by Erberhart&Rassel (1966) , Tai's (1971) stability parameters , stability variance by Shukla (1972) , ecovalence by Wricke (1962), nonparametric stability parameters by Nassar&Huehn (1987) , Francis&Kannenberg's parameters of stability (1978) . 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Two functions for graphs of the flow distribution of the nozzles (L/min) in the application bar and, of the temporal variability of the meteorological conditions (air temperature, relative humidity of the air and wind speed). Two functions to determine the spray deposit (uL/cm2), through the methodology called spectrophotometry, with the aid of bright blue (Palladini, L.A., Raetano, C.G., Velini, E.D. (2005), ) or metallic markers (Chaim, A., Castro, V.L.S.S., Correles, F.M., Galvão, J.A.H., Cabral, O.M.R., Nicolella, G. (1999), ). The package supports the analysis and representation of information, using a single free software that meets the most diverse areas of activity in application technology. 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Package: r-cran-aire.zmvm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 289 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-lubridate, r-cran-progress, r-cran-readr, r-cran-readxl, r-cran-rvest, r-cran-sp, r-cran-stringr, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-aire.zmvm_1.0.0-1.ca2004.1_all.deb Size: 252448 MD5sum: 0413a7a0de7929a38c4f563455524f6d SHA1: c29beebeac3c31e36864eb6b0ef20b5eddc6279b SHA256: 50defa6bf00671ef63af6a81076664cd0957ed7a69623cc856ad58c3364cab64 SHA512: ee6be5373110a94ae1cbb514a229cf157d04337edfc510148d664aedc907b3c2b574705a74079d5e1627aa16cd4fa072232d53661e3ab08e01f4400e9fb04e6c Homepage: https://cran.r-project.org/package=aire.zmvm Description: CRAN Package 'aire.zmvm' (Download Mexico City Pollution, Wind, and Temperature Data) Tools for downloading hourly averages, daily maximums and minimums from each of the pollution, wind, and temperature measuring stations or geographic zones in the Mexico City metro area. The package also includes the locations of each of the stations and zones. See for more information. Package: r-cran-airexposure Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-htmltools, r-cran-httr, r-cran-jsonlite, r-cran-leaflet, r-cran-htmlwidgets, r-cran-lubridate, r-cran-sf Filename: pool/dists/focal/main/r-cran-airexposure_1.0-1.ca2004.1_all.deb Size: 79124 MD5sum: 28134183fd3a408e1c35dfc114dc4e86 SHA1: cc152da2b81c8cf20dfd8be59fb05f7aad710cd2 SHA256: 4d1ecc39b0fb9d2b4cc3e8a80f5c803bfa2686c92d5d7aa52cba0b88e849fbfd SHA512: b6abcffb48913c13d686f3770ea790036523b1227a340fc8f533fbe7a6812d5da607cd7761d9ef1e2deb8340a5556702064f0b3da9b72d56395735cc3f0039a4 Homepage: https://cran.r-project.org/package=AirExposure Description: CRAN Package 'AirExposure' (Exposure Model to Air Pollutants Based on Mobility and DailyActivities) Model that assesses daily exposure to air pollution, which considers daily population mobility on a geographical scale and the spatial and temporal variability of pollutant concentrations, in addition to traditional parameters such as exposure time and pollutant concentration. Package: r-cran-airgrdatasets Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2164 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-airgrdatasets_0.2.1-1.ca2004.1_all.deb Size: 1542864 MD5sum: f09931779b414b0c0bb4ceed932d8db0 SHA1: 4461db160e7b31b06f9c346bf2b951b1e7b2c43a SHA256: 049387f56867c382e4e2a22f451d179fe43603ee6a8fb60ce9d4ba2cd7df3f6e SHA512: 6d63e9f3711fa752bea5a6e02ab8d3bec7249c70fc25c691715cddaea00b6c15196293ff40f66ba34c18e30b8324e02f379761c5e65e1d08f97ae810526e5b81 Homepage: https://cran.r-project.org/package=airGRdatasets Description: CRAN Package 'airGRdatasets' (Hydro-Meteorological Catchments Datasets for the 'airGR'Packages) Sample of hydro-meteorological datasets extracted from the 'CAMELS-FR' French database . It provides metadata and catchment-scale aggregated hydro-meteorological time series on a pool of French catchments for use by the 'airGR' packages. Package: r-cran-airgrdatassim Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-airgrdatassim_0.1.4-1.ca2004.1_all.deb Size: 101916 MD5sum: d83a5050cdae63ec5c26d75e2b144819 SHA1: 048999d8eb1f49d2707fbbb08a636b5f20a19c3a SHA256: 60fe847b47b29f57ccec4dacb111ed62fc6bd99a4d95953bf786d65cc7c64740 SHA512: 8cec9a75799f1ac54db505d5865d8b768de138c84b20de2170a391fc39aa8b7f15c44d2af7900456eae7a7f60aab33d376f37dd530767e1a173dda329281e430 Homepage: https://cran.r-project.org/package=airGRdatassim Description: CRAN Package 'airGRdatassim' (Ensemble-Based Data Assimilation with GR Hydrological Models) Add-on to the 'airGR' package which provides the tools to assimilate observed discharges in daily GR hydrological models. The package consists in two functions allowing to perform the assimilation of observed discharges via the Ensemble Kalman filter or the Particle filter as described in Piazzi et al. (2021) . Package: r-cran-airgriwrm Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1997 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-jsonlite, r-cran-png, r-cran-rlang, r-cran-zlib Suggests: r-cran-htmltools, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-waldo Filename: pool/dists/focal/main/r-cran-airgriwrm_0.7.0-1.ca2004.1_all.deb Size: 1300892 MD5sum: 3f4e597f52163ed6599f6acb9ce7e93d SHA1: e3be074319a6818b2c5bbc263acabceb9a18cc8d SHA256: 4b6da6aa12b0df13a78a0fb0d133b5cbf29905d952a3bcbfc92152a5ac98bed6 SHA512: 3099ad4841a049116603615e1b034a390b4074bc806d45f7080dd8bf0bfccbc0045d6e86d78775379dc2dbd58189e4cf5efaab3fd398d95eb500a9173f023b03 Homepage: https://cran.r-project.org/package=airGRiwrm Description: CRAN Package 'airGRiwrm' ('airGR' Integrated Water Resource Management) Semi-distributed Precipitation-Runoff Modeling based on 'airGR' package models integrating human infrastructures and their managements. Package: r-cran-airgrteaching Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7092 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dygraphs, r-cran-markdown, r-cran-plotrix, r-cran-shiny, r-cran-shinyjs, r-cran-xts Suggests: r-cran-airgrdatasets, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-htmlwidgets Filename: pool/dists/focal/main/r-cran-airgrteaching_0.3.5-1.ca2004.1_all.deb Size: 3494984 MD5sum: 5026b9d742cfcd49735c9de4471934ea SHA1: e9fa4c417071b16d48f8819d44d077a3acaba6f0 SHA256: 2c3f83bd50f633190e8a4f473e97dc91d0d8da00a653356b92e6791c1313ffea SHA512: bfd70f4447de989d27ab64d82d5ced0ed637cd591d7524b7354876b0c2d8c5bed1b02e73ea2942cf7966484edd34033401f85c541e0c2a76bf5fd43b2d829f51 Homepage: https://cran.r-project.org/package=airGRteaching Description: CRAN Package 'airGRteaching' (Teaching Hydrological Modelling with the GR Rainfall-RunoffModels ('Shiny' Interface Included)) Add-on package to the 'airGR' package that simplifies its use and is aimed at being used for teaching hydrology. The package provides 1) three functions that allow to complete very simply a hydrological modelling exercise 2) plotting functions to help students to explore observed data and to interpret the results of calibration and simulation of the GR ('Génie rural') models 3) a 'Shiny' graphical interface that allows for displaying the impact of model parameters on hydrographs and models internal variables. Package: r-cran-airly Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-reshape2, r-cran-tibble Suggests: r-cran-testthat, r-cran-httptest, r-cran-covr Filename: pool/dists/focal/main/r-cran-airly_0.1.0-1.ca2004.1_all.deb Size: 116640 MD5sum: b7c3e4c19b7ab77f98028a94271c5fa4 SHA1: 5a8d762f26906164e2be84187278e5bcde4cb0ea SHA256: 3406f9f9d1345cca3953e442f64765be0e9e6aca012709114f3e18e25568d8c8 SHA512: 6a1344feec0c38b4a9cfb14d629268edc998145e488e44b3328285d41e597305321da55f69d52f45274671dc725a8cd66149251620ef14ea13ca5a34def7c5a1 Homepage: https://cran.r-project.org/package=aiRly Description: CRAN Package 'aiRly' (R Wrapper for 'Airly' API) Get information about air quality using 'Airly' API through R. Package: r-cran-airmonitor Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2113 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-dygraphs, r-cran-leaflet, r-cran-lubridate, r-cran-magrittr, r-cran-mazamacoreutils, r-cran-mazamarollutils, r-cran-mazamatimeseries, r-cran-readr, r-cran-rlang, r-cran-stringr, r-cran-tidyselect, r-cran-xts Suggests: r-cran-knitr, r-cran-markdown, r-cran-testthat, r-cran-rmarkdown, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-airmonitor_0.4.3-1.ca2004.1_all.deb Size: 983572 MD5sum: af1673cf1a5ce345a8a885931156f6f3 SHA1: 4ef60a3393f49eefbd961691fba747205365e117 SHA256: 876fa90d152007afd2404873e4a960fa70ad21052b9d607d722148c8a64c3753 SHA512: e1a4c92b92a87580935ce13be34f14a42b5c10e7a5019acb83215d5012b4f15ffb5b317bbb73e527746c1b5dc24860e7d222753b80939ea3ba0477acf876f3d9 Homepage: https://cran.r-project.org/package=AirMonitor Description: CRAN Package 'AirMonitor' (Air Quality Data Analysis) Utilities for working with hourly air quality monitoring data with a focus on small particulates (PM2.5). A compact data model is structured as a list with two dataframes. A 'meta' dataframe contains spatial and measuring device metadata associated with deployments at known locations. A 'data' dataframe contains a 'datetime' column followed by columns of measurements associated with each "device-deployment". Algorithms to calculate NowCast and the associated Air Quality Index (AQI) are defined at the US Environmental Projection Agency AirNow program: . Package: r-cran-airnow Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-httr2, r-cran-jsonlite, r-cran-lifecycle, r-cran-rlang, r-cran-tibble Suggests: r-cran-covr, r-cran-lintr, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-airnow_0.1.0-1.ca2004.1_all.deb Size: 58780 MD5sum: 9d69084f704ac9ebb171051c8faaf55b SHA1: 5c48ede892d01f53328003d1e09920615c83dc49 SHA256: 7064b347cc67c34c7e2b6ec515d2022d5c6f03f52e6d01def7402b887bb31be4 SHA512: cc7fc3803234bd77b59ad1692e1524eb1afc7ab452996117c55451a96e98b4b83e0dc6876a67ca5dc1b34c443b88ba1b4aa13bdc359b0320ac24b9c64528a3bf Homepage: https://cran.r-project.org/package=airnow Description: CRAN Package 'airnow' (Retrieve 'AirNow' Air Quality Observations and Forecasts) Retrieve air quality data via the 'AirNow' API. Package: r-cran-airportproblems Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 362 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-magrittr, r-cran-plotly Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-airportproblems_0.1.0-1.ca2004.1_all.deb Size: 330336 MD5sum: 012ddb58b9ff723608156ee9000232f7 SHA1: 6751ccf1ded7932b525c2add5c9396f80354ac55 SHA256: a470d980964a8e9aea710397f24f71071a953f1a6386e1554cd5d4edbc75d58a SHA512: b950b711668ea2f6770d0170e832b75528779554e14941cb294051b7d1a0cb3e2ba4124bf0cb2a88fc40a5b55383895fdd57844735dfcdd1cd88e4b979e709be Homepage: https://cran.r-project.org/package=AirportProblems Description: CRAN Package 'AirportProblems' (Analysis of Cost Allocation for Airport Problems) Airport problems, introduced by Littlechild and Owen (1973) , are cost allocation problems where agents share the cost of a facility (or service) based on their ordered needs. Valid allocations must satisfy no-subsidy constraints, meaning that no group of agents contributes more than the highest cost of its members (i.e., no agent is allowed to subsidize another). A rule is a mechanism that selects an allocation vector for a given problem. This package computes several rules proposed in the literature, including both standard rules and their variants, such as weighted versions, rules for clones, and rules based on the agents’ hierarchy order. These rules can be applied to various problems of interest, including the allocation of liabilities and the maintenance of irrigation systems, among others. Moreover, the package provides functions for graphical representation, enabling users to visually compare the outcomes produced by each rule, or to display the no-subsidy set. In addition, it includes four datasets illustrating different applications and examples of airport problems. For a more detailed explanation of all concepts, see Thomson (2024) . Package: r-cran-airportr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 784 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-airportr_0.1.3-1.ca2004.1_all.deb Size: 380268 MD5sum: b78f47d62322556487c1224c5c9f9b92 SHA1: bf1b64d65648fc7be1f88a7432b6dbf3e0819ac2 SHA256: 2ec56d09e885f9ed082b0d4f806f976ba94911a3f11e5e26573910bdc351cf1e SHA512: c23c56412d14c5ef86a6790c4f4fd9d54a25f4fc206a2627e18cf321a10b9fcbe9621eeb79d6f50770213889de4cda1393e83f2c5cee8f2ec24e89a50f27b623 Homepage: https://cran.r-project.org/package=airportr Description: CRAN Package 'airportr' (Convenience Tools for Working with Airport Data) Retrieves open source airport data and provides tools to look up information, translate names into codes and vice-verse, as well as some basic calculation functions for measuring distances. Data is licensed under the Open Database License. Package: r-cran-airports Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 825 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-airports_0.1.0-1.ca2004.1_all.deb Size: 799924 MD5sum: 23333c9ab74c06597db8a112a6d473b8 SHA1: edd7966706146d88be230627fb909fef5ca07e5b SHA256: 252b38a19db30e131b7c9552d419e0be3c69532dd27b2270f5a83fe0c64a351d SHA512: 4517c6271d3545b4381c9e7b12114b1aca282e81ba162bb0f0bfdbb9b715d693a7d29d9666ca00a30e6a991a7683bcda43fa8eb8237737ff0e7978fe4395509c Homepage: https://cran.r-project.org/package=airports Description: CRAN Package 'airports' (Data on Airports) Geographic, use, and property related data on airports. Package: r-cran-airqualityes Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3810 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-airqualityes_1.0.0-1.ca2004.1_all.deb Size: 3824452 MD5sum: 57deaaf2e042d306601f85aa3d34bcf5 SHA1: c12879b9c8299889ae77186d9dcc4df8d9bb8d50 SHA256: 82b9527d051819dcf05babef198cb29409c500e78fc27478d1d2120a92dc0e0e SHA512: eec9963fe3390b4e77bd6cb92ccef8415be7ecafaf6e61ddd5942fc6ef7543585d36f8637c647e15b67c1e19fbac00d21fea591dd23ce461255385448505c240 Homepage: https://cran.r-project.org/package=airqualityES Description: CRAN Package 'airqualityES' (Air Quality Measurements in Spain from 2011 to 2018) These dataset contains daily quality air measurements in Spain over a period of 18 years (from 2001 to 2018). The measurements refer to several pollutants. These data are openly published by the Government of Spain. The datasets were originally spread over a number of files and formats. Here, the same information is contained in simple dataframe for convenience of researches, journalists or general public. See the Spanish Government website for more information. Package: r-cran-airr Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1252 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-jsonlite, r-cran-readr, r-cran-stringi, r-cran-yaml Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tibble, r-cran-testthat Filename: pool/dists/focal/main/r-cran-airr_1.5.0-1.ca2004.1_all.deb Size: 523148 MD5sum: 0b58cfb5254ccdeea529119d2f89ea3b SHA1: 034c27b831d1752151482982756ac7b95363d007 SHA256: 1ad0d0caa0c8ff2691e27de7fc6e9522f269482674e34ea8202a30b934ede848 SHA512: 523b9b2d139f6552ad04ca6b67893a8dbfaff0693dac00c87673917a07fa1418c0b0d6f47769d9d1b7c4192730695ce1e28bf6fc4537ff90ff8f09288af2c590 Homepage: https://cran.r-project.org/package=airr Description: CRAN Package 'airr' (AIRR Data Representation Reference Library) Schema definitions and read, write and validation tools for data formatted in accordance with the AIRR Data Representation schemas defined by the AIRR Community . Package: r-cran-airsensor Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4424 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-countrycode, r-cran-cowplot, r-cran-dplyr, r-cran-dygraphs, r-cran-geodist, r-cran-geosphere, r-cran-ggally, r-cran-ggmap, r-cran-ggplot2, r-cran-gridextra, r-cran-httpcode, r-cran-httr, r-cran-jsonlite, r-cran-leaflet, r-cran-lubridate, r-cran-magrittr, r-cran-mazamacoreutils, r-cran-mazamalocationutils, r-cran-mazamaspatialutils, r-cran-openair, r-cran-pwfslsmoke, r-cran-readr, r-cran-rcolorbrewer, r-cran-rlang, r-cran-scales, r-cran-seismicroll, r-cran-sp, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-worldmet, r-cran-xts, r-cran-zoo Suggests: r-cran-knitr, r-cran-markdown, r-cran-testthat, r-cran-rmarkdown, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-airsensor_1.0.8-1.ca2004.1_all.deb Size: 4092240 MD5sum: c1e694dcb66935b7f6c6ce05dfa7baf5 SHA1: 71b13468b788b6d212d85af72133eef86b31023e SHA256: 1cc0153ac451d207df4bd0ae0cf523f514320fd8de5cc2298975268b7b5dfc3f SHA512: 696567ce385fc25b93cac9d854b71d0722e6883243b64092f5b184d501b8aad6cee2efc85c525006faf167d67e0e0edc9dbfa2296c456a07e8ca607d59348ea8 Homepage: https://cran.r-project.org/package=AirSensor Description: CRAN Package 'AirSensor' (Process and Display Data from Air Quality Sensors) Process and display data from air quality sensors. Initial focus is on PM2.5 measurements from sensors produced by 'PurpleAir' . 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(2015) ) for grouping trajectories based on the similarities of their long-term trends and determines the optimal solution based on either the average silhouette width (Rousseeuw P. J. 1987) or the Calinski-Harabatz criterion (Calinski and Harabatz (1974) ). Includes functions to extract descriptive statistics and generate a visualisation of the resulting groups, drawing methods from the 'ggplot2' library (Wickham H. (2016) ). The package also includes a number of other useful functions for exploring and manipulating longitudinal data prior to the clustering process. Package: r-cran-alabama Architecture: all Version: 2023.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-alabama_2023.1.0-1.ca2004.1_all.deb Size: 71868 MD5sum: b15ac9a1772fb587fe2fc537963e3926 SHA1: d00053d6f450b96f09eb8ce59429b8677cd86a94 SHA256: b338de52cb83687dbf13bf367dfad429dd557f1f41fb7906a5ee11db7dc77e68 SHA512: 281de9a1ed6e10371c51c23d827ea0303fc7d9eca16e28e62cd2eb045734350a777a0b2788e365cace8c3bc0c039b80dd6208253b9b7cdd245c2a89585e85a9e Homepage: https://cran.r-project.org/package=alabama Description: CRAN Package 'alabama' (Constrained Nonlinear Optimization) Augmented Lagrangian Adaptive Barrier Minimization Algorithm for optimizing smooth nonlinear objective functions with constraints. Linear or nonlinear equality and inequality constraints are allowed. 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The package extends the data introduced in McCartan, Kenny, Simko, Garcia, Wang, Wu, Kuriwaki, and Imai (2022) to also include states with only a single district. Package: r-cran-albatross Architecture: all Version: 0.3-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 806 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-multiway, r-cran-cmls, r-cran-pracma, r-cran-lattice, r-cran-matrix Filename: pool/dists/focal/main/r-cran-albatross_0.3-8-1.ca2004.1_all.deb Size: 507320 MD5sum: d36fb532259ee4e192dc36dba269871d SHA1: 1977f90cce2aefc12a8eff8c7ffaea647c68cd83 SHA256: df5dcbef8349d562314dc47ecf83b684087e62ced6dd081d99f68182142548db SHA512: 3ccc8d338b2fad50be635499b7aa6bf83b7b588f8dbb5f11be3439a9583c43251fe7598ac285e99468b68525ca320e75605917fff89814ba514fb3b40a7af4f5 Homepage: https://cran.r-project.org/package=albatross Description: CRAN Package 'albatross' (PARAFAC Analysis of Fluorescence Excitation-Emission Matrices) Perform parallel factor analysis (PARAFAC: Hitchcock, 1927) on fluorescence excitation-emission matrices: handle scattering signal and inner filter effect, scale the dataset, fit the model; perform split-half validation or jack-knifing. Modified approaches such as Whittaker interpolation, randomised split-half, and fluorescence and scattering model estimation are also available. The package has a low dependency footprint and has been tested on a wide range of R versions. Package: r-cran-albi Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-cran-readxl Filename: pool/dists/focal/main/r-cran-albi_0.1.7-1.ca2004.1_all.deb Size: 107868 MD5sum: 9118fcb44e47e6642c0e52be85dc7199 SHA1: 31bdeabf9cac70a61e6e20dbfb9c0472d1ba7125 SHA256: a0c10f5cbcfc430388e8ea2ae442b0cd8398747bf96854f4229800320bdea9a6 SHA512: dc97e7506e1d4dac2a344cac00c14c3cd10fd44b9ac27c46699c18a86c24e585762b9733bc19fc1ac047075ec99fb03ff0b4d9deadec860dd5b3ebd4ad9ef4d7 Homepage: https://cran.r-project.org/package=aLBI Description: CRAN Package 'aLBI' (Estimating Length-Based Indicators for Fish Stock) Provides tools for estimating length-based indicators from length frequency data to assess fish stock status and manage fisheries sustainably. Implements methods from Cope and Punt (2009) for data-limited stock assessment and Froese (2004) for detecting overfishing using simple indicators. Key functions include: FrequencyTable(): Calculate the frequency table from the collected and also the extract the length frequency data from the frequency table with the upper length_range. A numeric value specifying the bin width for class intervals. If not provided, the bin width is automatically calculated using Sturges (1926) formula. CalPar(): Calculates various lengths used in fish stock assessment as biological length indicators such as asymptotic length (Linf), maximum length (Lmax), length at sexual maturity (Lm), and optimal length (Lopt). FishPar(): Calculates length-based indicators (LBIs) proposed by Froese (2004) such as the percentage of mature fish (Pmat), percentage of optimal length fish (Popt), percentage of mega spawners (Pmega), and the sum of these as Pobj. This function also estimates confidence intervals for different lengths, visualizes length frequency distributions, and provides data frames containing calculated values. FishSS(): Makes decisions based on input from Cope and Punt (2009) and parameters calculated by FishPar() (e.g., Pobj, Pmat, Popt, LM_ratio) to determine stock status as target spawning biomass (TSB40) and limit spawning biomass (LSB25). These tools support fisheries management decisions by providing robust, data-driven insights. Package: r-cran-albopictus Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-albopictus_0.5-1.ca2004.1_all.deb Size: 117808 MD5sum: fbf5ac235d420bcb9dc92c1bdffb599f SHA1: 4224e87b5dd9615f4def34e95a81facc8500476a SHA256: 7702386b4c4f61e9093152c274f1cc89fa2b10e6eac699939e6ca8f127ec7371 SHA512: 4ee6eb06a14202d459418e94f144e2c71d228518a18b88d108e43bb8e6ae04059d45e875e8000b6755519dcb496ca460eb66835bbfa31f25c77d364c49e61831 Homepage: https://cran.r-project.org/package=albopictus Description: CRAN Package 'albopictus' (Age-Structured Population Dynamics Model) Implements discrete time deterministic and stochastic age-structured population dynamics models described in Erguler and others (2016) and Erguler and others (2017) . Package: r-cran-alcoholsurv Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-sensitivitymv Suggests: r-cran-survival, r-cran-itos, r-cran-coin Filename: pool/dists/focal/main/r-cran-alcoholsurv_0.7.0-1.ca2004.1_all.deb Size: 125032 MD5sum: ac00d1c77e9a5b58414e95adda5804b5 SHA1: 9a339784f10d3858efc7b7989449ddaf66423edf SHA256: 548d9853143dfefdcc6026cf05e998b885b08773b3eac83634b56e6961e1bf2f SHA512: a409d92365e4c7a42c564068bb8daffd7b1cbbbe90fdc95543cdd1c515c6ebf8d9ef0bca38b15453c192554efaaaf02bacb1ba6abfd0dd596336d7336d508a44 Homepage: https://cran.r-project.org/package=alcoholSurv Description: CRAN Package 'alcoholSurv' (Light Daily Alcohol and Longevity) Contains data from an observational study concerning possible effects of light daily alcohol consumption on survival and on HDL cholesterol. It also replicates various simple analyses in Rosenbaum (2025a) . Finally, it includes new R code in wgtRankCef() that implements and replicates a new method for constructing evidence factors in observational block designs. Package: r-cran-ald Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ald_1.3.1-1.ca2004.1_all.deb Size: 43392 MD5sum: d160d34aef74b1576d66a6348f7c37db SHA1: 3f0f08b07c908766e444efce2f7a1c98b1fab6e8 SHA256: f7829e71d421d549c3abd60a33bba00613bf72d7811cd90b6372d800f7f6d4ad SHA512: 860a881f20061c27e8472d2d66f43f568d5418a93e753a688138218f39ec6d7781d9a8fca7f33333b3639db36a53f7ff3d99d1c65d589ebdd9db365a1795c66c Homepage: https://cran.r-project.org/package=ald Description: CRAN Package 'ald' (The Asymmetric Laplace Distribution) It provides the density, distribution function, quantile function, random number generator, likelihood function, moments and Maximum Likelihood estimators for a given sample, all this for the three parameter Asymmetric Laplace Distribution defined in Koenker and Machado (1999). This is a special case of the skewed family of distributions available in Galarza et.al. (2017) useful for quantile regression. Package: r-cran-aldqr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hyperbolicdist, r-cran-sn Filename: pool/dists/focal/main/r-cran-aldqr_1.0-1.ca2004.1_all.deb Size: 39820 MD5sum: aad9cdb5f0c923adffaf8d0d5f745194 SHA1: 9e2e785e4b2a839296860a5d227e0e0352579821 SHA256: 8357b5b29278c30fdbedfc19d5183397181c5f0daaf2ecc6b4785366cb4a3f6f SHA512: 8a7e118aa5df18d5b317ecd8cc73b2800764696345d812af0cbb9fac4c167b2ca5c0a8a67fd066aafc6046575d757ecedb1dd4153d732a7c81505a64b1753591 Homepage: https://cran.r-project.org/package=ALDqr Description: CRAN Package 'ALDqr' (Quantile Regression Using Asymmetric Laplace Distribution) EM algorithm for estimation of parameters and other methods in a quantile regression. Package: r-cran-aldvmm Architecture: all Version: 0.8.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 903 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-numderiv, r-cran-checkmate, r-cran-optimx, r-cran-formula, r-cran-sandwich, r-cran-lmtest Suggests: r-cran-knitr, r-cran-kableextra, r-cran-markdown, r-cran-tinytex, r-cran-testthat, r-cran-covr, r-cran-rmarkdown, r-cran-bookdown, r-cran-xtable, r-cran-ggplot2, r-cran-scales, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-aldvmm_0.8.8-1.ca2004.1_all.deb Size: 504024 MD5sum: 14a7f3354583db8b9b29a529877b1c60 SHA1: 4b1b48821df18727ca002420fc24fe221c5806d3 SHA256: 4d254891c060fea04fa9afc1cff046832050adcf37ef078516feddb43116b0b8 SHA512: d7e5808f0fadd628245433bae689d6450e2335ced671c0a729770affc57c5a794b173ff0752cc821d587c0de701a2ae9e6f6c01d8eeda3a922c18f0922698990 Homepage: https://cran.r-project.org/package=aldvmm Description: CRAN Package 'aldvmm' (Adjusted Limited Dependent Variable Mixture Models) The goal of the package 'aldvmm' is to fit adjusted limited dependent variable mixture models of health state utilities. Adjusted limited dependent variable mixture models are finite mixtures of normal distributions with an accumulation of density mass at the limits, and a gap between 100% quality of life and the next smaller utility value. The package 'aldvmm' uses the likelihood and expected value functions proposed by Hernandez Alava and Wailoo (2015) using normal component distributions and a multinomial logit model of probabilities of component membership. Package: r-cran-ale Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2021 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-cli, r-cran-dplyr, r-cran-furrr, r-cran-future, r-cran-ggplot2, r-cran-insight, r-cran-patchwork, r-cran-progressr, r-cran-purrr, r-cran-rlang, r-cran-s7, r-cran-staccuracy, r-cran-stringr, r-cran-tidyr, r-cran-univariateml Suggests: r-cran-aleplot, r-cran-gbm, r-cran-knitr, r-cran-mgcv, r-cran-nnet, r-cran-readr, r-cran-rmarkdown, r-cran-testthat, r-cran-yaimpute Filename: pool/dists/focal/main/r-cran-ale_0.5.0-1.ca2004.1_all.deb Size: 1507496 MD5sum: d1f959d714f08acaf10e18fe064912c0 SHA1: 159d054ded3ee17b133a86760b1eac23ce1fa4e1 SHA256: 4cf8ef5f4007342b8ad22d42ed3a9d39a005bff700db61fdbf7ce6ade49cedbf SHA512: 78bf1c4917a97bf2f796364f22fe18daf562056d7269c9a1d76221fa9a691e710291fdfd9fabf04ceb372abca3aec1a03971e9ad7ffe9afc42f42ee823177e1f Homepage: https://cran.r-project.org/package=ale Description: CRAN Package 'ale' (Interpretable Machine Learning and Statistical Inference withAccumulated Local Effects (ALE)) Accumulated Local Effects (ALE) were initially developed as a model-agnostic approach for global explanations of the results of black-box machine learning algorithms. ALE has a key advantage over other approaches like partial dependency plots (PDP) and SHapley Additive exPlanations (SHAP): its values represent a clean functional decomposition of the model. As such, ALE values are not affected by the presence or absence of interactions among variables in a mode. Moreover, its computation is relatively rapid. This package reimplements the algorithms for calculating ALE data and develops highly interpretable visualizations for plotting these ALE values. It also extends the original ALE concept to add bootstrap-based confidence intervals and ALE-based statistics that can be used for statistical inference. For more details, see Okoli, Chitu. 2023. “Statistical Inference Using Machine Learning and Classical Techniques Based on Accumulated Local Effects (ALE).” arXiv. . Package: r-cran-aleplot Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 823 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-yaimpute Suggests: r-cran-r.rsp, r-cran-nnet Filename: pool/dists/focal/main/r-cran-aleplot_1.1-1.ca2004.1_all.deb Size: 632628 MD5sum: 7f345ffcf8c888915427e62f65cbc524 SHA1: f26f9eca59a0a318ff3c096aee0a869849294466 SHA256: 7650930d1600c3157037427ac0a3ca067891d7545ba3f5debfe118e76f374058 SHA512: 0bf495adf1a9472344ac71a90e68d78ebc4e58b7560d0f11ed56cc14d976b25d942c4b89c7790f9e14b921435afffd44c8187b9f0b1cb3429c446a3f42b9f111 Homepage: https://cran.r-project.org/package=ALEPlot Description: CRAN Package 'ALEPlot' (Accumulated Local Effects (ALE) Plots and Partial Dependence(PD) Plots) Visualizes the main effects of individual predictor variables and their second-order interaction effects in black-box supervised learning models. The package creates either Accumulated Local Effects (ALE) plots and/or Partial Dependence (PD) plots, given a fitted supervised learning model. Package: r-cran-alfq Architecture: all Version: 1.3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 349 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-plyr, r-cran-caret, r-cran-seqinr, r-cran-lattice, r-cran-randomforest, r-cran-rocr, r-cran-reshape2, r-cran-bio3d Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-alfq_1.3.6-1.ca2004.1_all.deb Size: 259116 MD5sum: cc3da7c83e29fbd808c9426927e9b55d SHA1: 73b0d2d90896d9b4434ed2e768db20b63a5652d1 SHA256: ae87532ce8ae3449092c9eeef2843c1141af2ae03570dc2d330f520d6df37801 SHA512: 90dbe4c4f179677e475775514f26e9ad13dd61be1dc82a4dd4e307e5010b5afef79a4f92c7ac4432e5faf5b2a010392352450077774264be56a9887be9ce317d Homepage: https://cran.r-project.org/package=aLFQ Description: CRAN Package 'aLFQ' (Estimating Absolute Protein Quantities from Label-Free LC-MS/MSProteomics Data) Determination of absolute protein quantities is necessary for multiple applications, such as mechanistic modeling of biological systems. Quantitative liquid chromatography tandem mass spectrometry (LC-MS/MS) proteomics can measure relative protein abundance on a system-wide scale. To estimate absolute quantitative information using these relative abundance measurements requires additional information such as heavy-labeled references of known concentration. Multiple methods have been using different references and strategies; some are easily available whereas others require more effort on the users end. Hence, we believe the field might benefit from making some of these methods available under an automated framework, which also facilitates validation of the chosen strategy. We have implemented the most commonly used absolute label-free protein abundance estimation methods for LC-MS/MS modes quantifying on either MS1-, MS2-levels or spectral counts together with validation algorithms to enable automated data analysis and error estimation. Specifically, we used Monte-carlo cross-validation and bootstrapping for model selection and imputation of proteome-wide absolute protein quantity estimation. Our open-source software is written in the statistical programming language R and validated and demonstrated on a synthetic sample. Package: r-cran-alfr Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-stringr Suggests: r-cran-devtools, r-cran-httptest, r-cran-roxygen2, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-remotes, r-cran-spelling, r-cran-fs Filename: pool/dists/focal/main/r-cran-alfr_1.2.1-1.ca2004.1_all.deb Size: 51124 MD5sum: 65b039fe3f686680117f371883713c56 SHA1: 08592c4f6685fa4b8e14fee42cc6bc3cb5c55118 SHA256: 257c28666cc143efaefa4f516d583e3997ea035fe0d039a64d1302895d8ca7b1 SHA512: a8985b2bcacb5e171192b470338c4b49dc9688cf46172d498899f5cd182738791e88c8da68ec9b9ec9d196e2ba308ec5859535a84fa8e8e50b225c2fb74a55f1 Homepage: https://cran.r-project.org/package=alfr Description: CRAN Package 'alfr' (Connectivity to 'Alfresco' Content Management Repositories) Allows you to connect to an 'Alfresco' content management repository and interact with its contents using simple and intuitive functions. You will be able to establish a connection session to the 'Alfresco' repository, read and upload content and manage folder hierarchies. For more details on the 'Alfresco' content management repository see . Package: r-cran-alfred Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-tidyselect, r-cran-tidyr, r-cran-tibble, r-cran-magrittr, r-cran-lubridate, r-cran-jsonlite, r-cran-rlang, r-cran-httr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-covr Filename: pool/dists/focal/main/r-cran-alfred_0.2.1-1.ca2004.1_all.deb Size: 19312 MD5sum: 3c545690ff84983961f33c9841c8dafc SHA1: a22d85a8630d26cd2b546bf95e930e635f6c2af9 SHA256: 44020353ad11597f6e1277e1acc686fa2f2f010635fd89a26eea042ed7cdc16a SHA512: 2de6dfd19e33efefac22b8334536991371e29288267a55776135a7318a1b1d5d00c3b862aac3466f7e5c7956e852ece441b5929ad0e66f96fa0f41cf5dd14da8 Homepage: https://cran.r-project.org/package=alfred Description: CRAN Package 'alfred' (Downloading Time Series from ALFRED Database for VariousVintages) Provides direct access to the ALFRED () and FRED () databases. Its functions return tidy data frames for different releases of the specified time series. Note that this product uses the FRED© API but is not endorsed or certified by the Federal Reserve Bank of St. Louis. Package: r-cran-algaeclassify Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 269 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lubridate, r-cran-ritis, r-cran-curl, r-cran-jsonlite, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-algaeclassify_2.0.4-1.ca2004.1_all.deb Size: 228784 MD5sum: db46d7187dc7778c4a6c4b53c50285ca SHA1: d40bd3c60741d72db7d2b53805d55019fef679bc SHA256: 4de9de12eea4f720fdf280bdf1e7312ec852c81df6e5c88b1b2a0751cdc06680 SHA512: 8fedf3691b06b2b682b58d81db20ff019a8d14ef4940bd62f2f53eebdfc44886d49d70f60cd0a93dec7ba111755393e31d4b2820f7a2ba602d00c6b18d3358b4 Homepage: https://cran.r-project.org/package=algaeClassify Description: CRAN Package 'algaeClassify' (Tools to Query the 'Algaebase' Online Database, StandardizePhytoplankton Taxonomic Data, and Perform Functional GroupClassifications) Functions that facilitate the use of accepted taxonomic nomenclature, collection of functional trait data, and assignment of functional group classifications to phytoplankton species. Possible classifications include Morpho-functional group (MFG; Salmaso et al. 2015 ) and CSR (Reynolds 1988; Functional morphology and the adaptive strategies of phytoplankton. In C.D. Sandgren (ed). Growth and reproductive strategies of freshwater phytoplankton, 388-433. Cambridge University Press, New York). Versions 2.0.0 and later includes new functions for querying the 'algaebase' online taxonomic database (www.algaebase.org), however these functions require a valid API key that must be acquired from the 'algaebase' administrators. Note that none of the 'algaeClassify' authors are affiliated with 'algaebase' in any way. Taxonomic names can also be checked against a variety of taxonomic databases using the 'Global Names Resolver' service via its API (). In addition, currently accepted and outdated synonyms, and higher taxonomy, can be extracted for lists of species from the 'ITIS' database using wrapper functions for the ritis package. The 'algaeClassify' package is a product of the GEISHA (Global Evaluation of the Impacts of Storms on freshwater Habitat and Structure of phytoplankton Assemblages), funded by CESAB (Centre for Synthesis and Analysis of Biodiversity) and the U.S. Geological Survey John Wesley Powell Center for Synthesis and Analysis, with data and other support provided by members of GLEON (Global Lake Ecology Observation Network). DISCLAIMER: This software has been approved for release by the U.S. Geological Survey (USGS). Although the software has been subjected to rigorous review, the USGS reserves the right to update the software as needed pursuant to further analysis and review. No warranty, expressed or implied, is made by the USGS or the U.S. Government as to the functionality of the software and related material nor shall the fact of release constitute any such warranty. Furthermore, the software is released on condition that neither the USGS nor the U.S. Government shall be held liable for any damages resulting from its authorized or unauthorized use. Package: r-cran-algebraichaplopackage Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-algebraichaplopackage_1.2-1.ca2004.1_all.deb Size: 88880 MD5sum: 602f277faaae2dbd011d12b6eb6a2fd1 SHA1: 0770225bac95affee644cdff13d2a97dec3f3f39 SHA256: a56ad0136b9465d66e11a081af5296c54d48b213c8783bd0f513f47b3c5e7386 SHA512: 3f0280a334f7fe1cb3d0c11caf32a25d57a4413de7c8245cc123b388cb68982029f6faa652129fac7844f0fcede62e49bdeb3acd819c098bd7783c5ea55f3928 Homepage: https://cran.r-project.org/package=AlgebraicHaploPackage Description: CRAN Package 'AlgebraicHaploPackage' (Haplotype Two Snips Out of a Paired Group of Patients) Two unordered pairs of data of two different snips positions is haplotyped by resolving a small number ob closed equations. 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This is done using the 'Algolia Places' 'JavaScript' library. See . Package: r-cran-algorithmia Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 283 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-base64enc, r-cran-httr, r-cran-rjson Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-runit Filename: pool/dists/focal/main/r-cran-algorithmia_0.3.0-1.ca2004.1_all.deb Size: 225040 MD5sum: e917835182c644ac130a9a11025d47e7 SHA1: 693b2e1c4f9ba49ecb3de4f5eed2f7e857a27cc1 SHA256: 6df64b60be9adf12d64a4bf842f6e9560d8e444e612824184829a7a6dd840539 SHA512: d8fd665ef4214b41bcbdd3e46350d19be61920c8aff7683d0002db180a9fbd436ce9cd908896adc8d4c72edfc85d4066b9472b31eddaea1e4ab28d31d0f2e178 Homepage: https://cran.r-project.org/package=algorithmia Description: CRAN Package 'algorithmia' (Allows you to Easily Interact with the Algorithmia Platform) The company, Algorithmia, houses the largest marketplace of online algorithms. This package essentially holds a bunch of REST wrappers that make it very easy to call algorithms in the Algorithmia platform and access files and directories in the Algorithmia data API. To learn more about the services they offer and the algorithms in the platform visit . More information for developers can be found at . Package: r-cran-aliases2entrez Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2010 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-bioc-limma, r-bioc-org.hs.eg.db, r-bioc-annotationdbi, r-cran-foreach, r-cran-readr, r-cran-rcurl Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-aliases2entrez_0.1.2-1.ca2004.1_all.deb Size: 565296 MD5sum: 90100ce35e2f9efd0899ea821ee7199a SHA1: 7365ebe7dd4dfde83f797678f1c847289af3cb95 SHA256: 0f8fe215f3ee1cebc3ffb783a6b9286fd2dabef48d3df73b4b6179832eb79506 SHA512: 82288bd0f355aa976854f6908030d7191e3dda78ae0ed072b7cec97fa3c93a4f6afe96d2cf02a43b7c6b50d4d61828f471c2025127c514e982c2c647b9abe403 Homepage: https://cran.r-project.org/package=aliases2entrez Description: CRAN Package 'aliases2entrez' (Converts Human gene symbols to entrez IDs) Queries multiple resources authors HGNC (2019) , authors limma (2015) to find the correspondence between evolving nomenclature of human gene symbols, aliases, previous symbols or synonyms with stable, curated gene entrezID from NCBI database. This allows fast, accurate and up-to-date correspondence between human gene expression datasets from various date and platform (e.g: gene symbol: BRCA1 - ID: 672). 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It specializes in addressing the role of sampling on the pattern of discoveries, thus providing better estimates than using Generalized Linear Models which assume perfect immediate detection of newly introduced species. Package: r-cran-align Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matlab Filename: pool/dists/focal/main/r-cran-align_0.1.0-1.ca2004.1_all.deb Size: 30224 MD5sum: bacbbd5553c2067fdf63ab1ddc0eeac0 SHA1: 863f66fa8dc7a1f1431d312a26e9020d89109c58 SHA256: 4aaab92e39a762a2390820b772713e50fc95fc927eae60484fb9ba877e283d5b SHA512: c265668c7a87548b706cca963bbd0c9e1f1cbd7fce83a0d6a3adba05bc0475a0fc39e5c4a810fc62e06627ebf91aacaa369bfef3503c87516b7d1c2ac84b6a89 Homepage: https://cran.r-project.org/package=align Description: CRAN Package 'align' (A Modified DTW Algorithm for Stratigraphic Time Series Alignment) A dynamic time warping (DTW) algorithm for stratigraphic alignment, translated into R from the original published 'MATLAB' code by Hay et al. (2019) . The DTW algorithm incorporates two geologically relevant parameters (g and edge) for augmenting the typical DTW cost matrix, allowing for a range of sedimentologic and chronologic conditions to be explored, as well as the generation of an alignment library (as opposed to a single alignment solution). The g parameter relates to the relative sediment accumulation rate between the two time series records, while the edge parameter relates to the amount of total shared time between the records. Note that this algorithm is used for all DTW alignments in the Align Shiny application, detailed in Hagen et al. (in review). Package: r-cran-alignfigr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-alignfigr_0.1.1-1.ca2004.1_all.deb Size: 131708 MD5sum: 2c674eda7f003ffddb1535bd8eec3e89 SHA1: 9d2f78e43f710a406f251b528b189fbda435ab69 SHA256: 413df11b5204ea6f77b58757a22c014d9aa86866810603a130041c0b966bc694 SHA512: a6ba652d231d8b76aa67c3e99184b486dee438dacead7fd3bc704802378f1ff3958c8bb7fc5a11d2721a7aa08f204f07cc24d901f9a4fb273a71c6aa04fc0361 Homepage: https://cran.r-project.org/package=alignfigR Description: CRAN Package 'alignfigR' (Visualizing Multiple Sequence Alignments with 'ggplot2') Create extensible figures of multiple sequence alignments, using the 'ggplot2' plotting engine. 'alignfigr' will create a baseline figure of a multiple sequence alignment which can be fully customized to the user's liking with standard 'ggplot2' features. Package: r-cran-alignlv Architecture: all Version: 0.1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-abind, r-cran-mirt, r-cran-lavaan, r-cran-magrittr, r-cran-purrr, r-cran-dplyr, r-cran-tibble, r-cran-tidyr, r-cran-rlang Suggests: r-cran-dorng, r-cran-doparallel, r-cran-foreach, r-cran-testthat Filename: pool/dists/focal/main/r-cran-alignlv_0.1.0.0-1.ca2004.1_all.deb Size: 90472 MD5sum: 64a4d4aec3b176fe18a0d800ac25628d SHA1: 1833c0426052e4f16d7abe2c2d67457c45e030d8 SHA256: 72a520f6274250101822d3db0c68884fc70ff417ff821262ecee688665a08211 SHA512: 7b81313db0f5037b48cbed44699da741cfec0f74e428736e253e1f283b7ad6dd7fc57e68417c12b2f4a451a831243fe5c789bb7cde30505d3153a5258d007dca Homepage: https://cran.r-project.org/package=AlignLV Description: CRAN Package 'AlignLV' (Multiple Group Item Response Theory Alignment Helpers for'lavaan' and 'mirt') Allows for multiple group item response theory alignment a la 'Mplus' to be applied to lists of single-group models estimated in 'lavaan' or 'mirt'. Allows item sets that are overlapping but not identical, facilitating alignment in secondary data analysis where not all items may be shared across assessments. Package: r-cran-alkahest Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1324 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-markdown, r-cran-matrix, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-alkahest_1.3.0-1.ca2004.1_all.deb Size: 1059200 MD5sum: 2407c201d6d48d820e1a5f2dc16afcde SHA1: 873784ed53d86d2e20bb24f1de10b2621305e37a SHA256: 44f33af6524eb37a298aab55f7fc602d3e3d2858c2c4d54e4fff10f7f3129aa4 SHA512: 65ee7efbe2db03f46caa2196e7deb54ddf1b9b369bc8f9ba978e762b07442250c209487ab081592cd53af32b4cce37a14f6c8bf9acef2ef9a8b1170a7e5dcdea Homepage: https://cran.r-project.org/package=alkahest Description: CRAN Package 'alkahest' (Pre-Processing XY Data from Experimental Methods) A lightweight, dependency-free toolbox for pre-processing XY data from experimental methods (i.e. any signal that can be measured along a continuous variable). This package provides methods for baseline estimation and correction, smoothing, normalization, integration and peaks detection. Baseline correction methods includes polynomial fitting as described in Lieber and Mahadevan-Jansen (2003) , Rolling Ball algorithm after Kneen and Annegarn (1996) , SNIP algorithm after Ryan et al. (1988) , 4S Peak Filling after Liland (2015) and more. Package: r-cran-allcontributors Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1526 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-clipr, r-cran-curl, r-cran-gert, r-cran-gh, r-cran-gitcreds, r-cran-magrittr Suggests: r-cran-httptest2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-allcontributors_0.2.2-1.ca2004.1_all.deb Size: 464632 MD5sum: bec3161e94513d727522df463db55a20 SHA1: 0edf19edae0b98516bebc082e1808378108ecafb SHA256: 490107fe01b570dbd4147e4e2311487a341a5e45810bbd8318c3a7b31305d0cb SHA512: c3a31b36d15ee15058d377d8e0a34fa2d31ce06cb2b69735f802eceac0f8d849d39a9007114b70936644f4b684cf61c700a6e97146a89f575a3d73675d5f7a4d Homepage: https://cran.r-project.org/package=allcontributors Description: CRAN Package 'allcontributors' (Acknowledge all Contributors to a Project) Acknowledge all contributors to a project via a single function call. The function appends to a 'README' or other specified file(s) a table with names of all individuals who contributed via code or repository issues. The package also includes several additional functions to extract and quantify contributions to any repository. Package: r-cran-allehap Architecture: all Version: 0.9.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 662 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-abind Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-allehap_0.9.9-1.ca2004.1_all.deb Size: 582200 MD5sum: 891c51c8397466d71cb92e5d27933a48 SHA1: 63bdf7e4072650a4bc03cb0e150632a052c33187 SHA256: 260126f3c14e062049dfe32bededbe04ec4f5a9077726f2b0c7b829d9cd28441 SHA512: 4d20df05a76a3003034277ce5dbcf00c46d63197d6d03077c3a198b22b8cab2da5db2db14aed2fd62f924513c2c122aedaad00cd7ef776d84a54a143a21eec73 Homepage: https://cran.r-project.org/package=alleHap Description: CRAN Package 'alleHap' (Allele Imputation and Haplotype Reconstruction from PedigreeDatabases) Tools to simulate alphanumeric alleles, impute genetic missing data and reconstruct non-recombinant haplotypes from pedigree databases in a deterministic way. Allelic simulations can be implemented taking into account many factors (such as number of families, markers, alleles per marker, probability and proportion of missing genotypes, recombination rate, etc). Genotype imputation can be used with simulated datasets or real databases (previously loaded in .ped format). Haplotype reconstruction can be carried out even with missing data, since the program firstly imputes each family genotype (without a reference panel), to later reconstruct the corresponding haplotypes for each family member. All this considering that each individual (due to meiosis) should unequivocally have two alleles per marker (one inherited from each parent) and thus imputation and reconstruction results can be deterministically calculated. Package: r-cran-allelematch Architecture: all Version: 2.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dynamictreecut Filename: pool/dists/focal/main/r-cran-allelematch_2.5.4-1.ca2004.1_all.deb Size: 212164 MD5sum: baaae6310021cf6f929ef7e84219b785 SHA1: 112189cfa128f72ad7e56b537a9904ed7c521490 SHA256: 5ca6a7fc79139d3603e64364a89ce4c566d27045341c053e58feb75a79190067 SHA512: e0bcf3c5f1d83a1bea93aeb9850423753d2fdff6e00725d0e1fb552f2985912444ae2b991cf89180b79f86f0bc55034962290a0b5780c9467af413d96f6dc7b4 Homepage: https://cran.r-project.org/package=allelematch Description: CRAN Package 'allelematch' (Identifying Unique Multilocus Genotypes where Genotyping Errorand Missing Data may be Present) Tools for the identification of unique of multilocus genotypes when both genotyping error and missing data may be present; targeted for use with large datasets and databases containing multiple samples of each individual (a common situation in conservation genetics, particularly in non-invasive wildlife sampling applications). Functions explicitly incorporate missing data and can tolerate allele mismatches created by genotyping error. If you use this package, please cite the original publication in Molecular Ecology Resources (Galpern et al., 2012), the details for which can be generated using citation('allelematch'). For a complete vignette, please access via the Data S1 Supplementary documentation and tutorials (PDF) located at . Package: r-cran-alleleretain Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 385 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-pedigree Filename: pool/dists/focal/main/r-cran-alleleretain_2.0.2-1.ca2004.1_all.deb Size: 353764 MD5sum: bb4ae67f37abc9f455445656e000f477 SHA1: c39371598f9296eb5687855d384684840ed2e3ac SHA256: 93dec4250f9008d422de5244d4f39c9d1d9dc0375cd5a81e85c2c632a8f92002 SHA512: ef1d34ac54a6a182d64a5e67789fb17976776cfca72530b496e527546438e46639c1e8af9594530d00e9a59ed129a48176c2cdde87c411ba7fa4e234ae25d2dc Homepage: https://cran.r-project.org/package=AlleleRetain Description: CRAN Package 'AlleleRetain' (Allele Retention, Inbreeding, and Demography) Simulate the effect of management or demography on allele retention and inbreeding accumulation in bottlenecked populations of animals with overlapping generations. Package: r-cran-alleleshift Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 689 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-vegan, r-cran-biodiversityr, r-cran-adegenet Suggests: r-cran-poppr, r-cran-mgcv, r-cran-dplyr, r-cran-ggplot2, r-cran-ggally, r-cran-ggforce, r-cran-ggrepel, r-cran-ggsci, r-cran-gggibbous, r-cran-gganimate, r-cran-patchwork Filename: pool/dists/focal/main/r-cran-alleleshift_1.1-2-1.ca2004.1_all.deb Size: 571616 MD5sum: 4150823d61b12eef5cd61090b85d170c SHA1: 0edbfb54ccd02d705c36959f5ff2b7d1caff525e SHA256: 0025d1d798480f92d4c631581dcb292e40c9cd07dcb65a6d43c257bee111392a SHA512: 0d821fe984ed87ad5851f63c607f46a24018d2a0cb834f3ea2064433e2425f802ddfd7d25149042036abcf3aabd5344e2069df26ef10d50f93f1eaad663ab0ba Homepage: https://cran.r-project.org/package=AlleleShift Description: CRAN Package 'AlleleShift' (Predict and Visualize Population-Level Changes in AlleleFrequencies in Response to Climate Change) Methods () are provided of calibrating and predicting shifts in allele frequencies through redundancy analysis ('vegan::rda()') and generalized additive models ('mgcv::gam()'). Visualization functions for predicted changes in allele frequencies include 'shift.dot.ggplot()', 'shift.pie.ggplot()', 'shift.moon.ggplot()', 'shift.waffle.ggplot()' and 'shift.surf.ggplot()' that are made with input data sets that are prepared by helper functions for each visualization method. Examples in the documentation show how to prepare animated climate change graphics through a time series with the 'gganimate' package. Function 'amova.rda()' shows how Analysis of Molecular Variance can be directly conducted with the results from redundancy analysis. Package: r-cran-allestimates Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 403 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-broom, r-cran-ggplot2, r-cran-survival, r-cran-tidyr, r-cran-stringr, r-cran-dplyr Suggests: r-cran-spelling, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-allestimates_0.2.3-1.ca2004.1_all.deb Size: 270420 MD5sum: 81eef4be947da8f0a42114837f530098 SHA1: 9419bb18fe9887b134ae81dd70daac6886a08f7e SHA256: 6f935936d06d912828784e605e81b8e556770233084c54645f9db6c6f05ecc47 SHA512: 556f1f3d627e2ceb165a6572a8fde5beaf32edde8d2f3b401ebbc0b238d6c020ba38d06d9e27a128921acf497c3ed5ee133050e8b7e8e14f66876cdeb0939f33 Homepage: https://cran.r-project.org/package=allestimates Description: CRAN Package 'allestimates' (Effect Estimates from All Models) Estimates and plots effect estimates from models with all possible combinations of a list of variables. It can be used for assessing treatment effects in clinical trials or risk factors in bio-medical and epidemiological research. Like Stata command 'confall' (Wang Z (2007) ), 'allestimates' calculates and stores all effect estimates, and plots them against p values or Akaike information criterion (AIC) values. It currently has functions for linear regression: all_lm(), logistic and Poisson regression: all_glm(), and Cox proportional hazards regression: all_cox(). Package: r-cran-allhomes Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-htmltab, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-allhomes_0.3.0-1.ca2004.1_all.deb Size: 68540 MD5sum: 786308137a74cc5361d03f7035e414e5 SHA1: f96bd5ea9165882524a04d1c830be11f6d8226af SHA256: 06bc641a9e838ab03397ea29a407e762ac0065e73413ce50c1cf8fbba76801cb SHA512: 33c4a55fe90bdcb44eb3485f3798955ea7e032e5fc79cbaf352698196648a4e656d07b1bde014e1f9e689e76d52b58baef0b79c76ca076b9c3cf83d1a2b44efb Homepage: https://cran.r-project.org/package=allhomes Description: CRAN Package 'allhomes' (Extract Past Sales Data from Allhomes.com.au) Extract past sales data for specific suburb(s) and year(s) from the Australian property website . 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In total eight metrics will be calculated for particular actual and predicted series. Helps to describe a Statistical model's performance in predicting a data. Also helps to compare various models' performance. The metrics are Root Mean Squared Error (RMSE), Relative Root Mean Squared Error (RRMSE), Mean absolute Error (MAE), Mean absolute percentage error (MAPE), Mean Absolute Scaled Error (MASE), Nash-Sutcliffe Efficiency (NSE), Willmott’s Index (WI), and Legates and McCabe Index (LME). Among them, first five are expected to be lesser whereas, the last three are greater the better. More details can be found from Garai and Paul (2023) and Garai et al. (2024) . 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Increase interoperability with the Observational Health Data Science and Informatics ('OHDSI') tool stack by decreasing reliance of 'All of Us' tools and allowing for cohort creation via 'Atlas'. Improve reproducible and transparent research using 'All of Us'. Package: r-cran-allometric Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 652 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-units, r-cran-refmanager, r-cran-magrittr, r-cran-purrr, r-cran-isocodes, r-cran-tidyr, r-cran-progress, r-cran-vctrs, r-cran-openssl, r-cran-curl, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-allometric_2.3.0-1.ca2004.1_all.deb Size: 495456 MD5sum: 12d4e0a01578630162129b9a53fb8b07 SHA1: 314a92dd6027d9d3c32ccf8eab76b88e06fe39f8 SHA256: 34fba6ef5d0d5101915b47cf9de114b4cf8ce53950bc0226cda11c1467195c4d SHA512: 93a05b4ec56384d9622e00ca2fb9a8b8b12b66aa728273975fd1938430c24cc00e7f70b8487fc323a107c48f2db602c44ad999f778411c21c6e06a6320820de8 Homepage: https://cran.r-project.org/package=allometric Description: CRAN Package 'allometric' (Structured Allometric Models for Trees) Access allometric models used in forest resource analysis, such as volume equations, taper equations, biomass models, among many others. Users are able to efficiently find and select allometric models suitable for their project area and use them in analysis. Additionally, 'allometric' provides a structured framework for adding new models to an open-source models repository. Package: r-cran-allomr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-allomr_0.3.0-1.ca2004.1_all.deb Size: 15084 MD5sum: 78c97e86d7dfa6abfd29a08f65c9888f SHA1: bd6d1219be31d7473e0c7340fb9d47c477e331ec SHA256: e3e778778da1f461d27d272a006db8afeb860ebd67ba1cc55af68a3e29406f12 SHA512: 20be954b0717b784329d43297ac6befa4413446893fe8047d35b6ed561dfdbdec14e6f2e030166987cdc3c4c0fefa2b95a10b9793d1bdb279232a42fcb1820d8 Homepage: https://cran.r-project.org/package=allomr Description: CRAN Package 'allomr' (Removing Allometric Effects of Body Size in MorphologicalAnalysis) Implementation of the technique of Lleonart et al. (2000) to scale body measurements that exhibit an allometric growth. This procedure is a theoretical generalization of the technique used by Thorpe (1975) and Thorpe (1976) . Package: r-cran-allpossiblespellings Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-allpossiblespellings_1.1-1.ca2004.1_all.deb Size: 24008 MD5sum: 1b8cd88b89cd450a40aa650af0871349 SHA1: 0963d7d8f17446b3628cd2a1225342d1b3c76227 SHA256: 7999beb5dc3ae6a5f5a7a56189915d548d89eb4f934fb23bf61f0299208c4a6f SHA512: 64eac762c879865b3ccc38ef2e1e18af3578bdf02ba0cce183000fc1990689b931d072da57d9aa1045bd9b87607abc35eeaf7eef3960e3a2ff3fd5d1f34a63ea Homepage: https://cran.r-project.org/package=AllPossibleSpellings Description: CRAN Package 'AllPossibleSpellings' (Computes all of a word's possible spellings) Contains functions possSpells.fnc and batch.possSpells.fnc. Package: r-cran-allspice Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4372 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-allspice_1.0.7-1.ca2004.1_all.deb Size: 1491460 MD5sum: 6cc7e3a97c1d4cc5e14ea5f5dd8268c4 SHA1: b783b2eed70c1053fe6d7720a98204821ac0cb23 SHA256: e5054d4d0c377e1a292135afc6a50848f91035e9d33646f258d5cb1349f40c04 SHA512: 1c7c4de3d50335171d7b6aaeaa72eaaa29ff4c7a8370b1af4f691b56a385312da987f3e7cb1e200fe1a45e3fb7bc37869c5990bd3ff0de54d1f7bcb5342dbc4a Homepage: https://cran.r-project.org/package=Allspice Description: CRAN Package 'Allspice' (RNA-Seq Profile Classifier) We developed a lightweight machine learning tool for RNA profiling of acute lymphoblastic leukemia (ALL), however, it can be used for any problem where multiple classes need to be identified from multi-dimensional data. The methodology is described in Makinen V-P, Rehn J, Breen J, Yeung D, White DL (2022) Multi-cohort transcriptomic subtyping of B-cell acute lymphoblastic leukemia, International Journal of Molecular Sciences 23:4574, . The classifier contains optimized mean profiles of the classes (centroids) as observed in the training data, and new samples are matched to these centroids using the shortest Euclidean distance. Centroids derived from a dataset of 1,598 ALL patients are included, but users can train the models with their own data as well. The output includes both numerical and visual presentations of the classification results. Samples with mixed features from multiple classes or atypical values are also identified. Package: r-cran-allspicer Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-readr, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-allspicer_0.1.9-1.ca2004.1_all.deb Size: 43480 MD5sum: bcde9bb7435bdad8804c21a7c2de0ba9 SHA1: 8aee16678e5930410bfea6c8db68e4c4cf20ea38 SHA256: 88bf0e1c2eaad9bf24089ebc68f36dc0820a90fc255a9f42ee2fbaf9b289fab3 SHA512: cb19fd9c3754e336e06c7a660bce0487d7701eda7269f35591061de1171f3f70a0b3c00eeb0ba652895bccf07662eda0a9874a140d0e31ed0eb1502ca0c48487 Homepage: https://cran.r-project.org/package=ALLSPICER Description: CRAN Package 'ALLSPICER' (ALLelic Spectrum of Pleiotropy Informed Correlated Effects) Provides statistical tools to analyze heterogeneous effects of rare variants within genes that are associated with multiple traits. 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Package: r-cran-alone Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-forcats Filename: pool/dists/focal/main/r-cran-alone_0.6-1.ca2004.1_all.deb Size: 53052 MD5sum: 36fc6573275e2f1767c43742fcba33a8 SHA1: 2fc3d586acd12b172a0195e81e48c51e8aaf633a SHA256: fe3ccd68289a2df0ff32d503186da68864bb9d3d880deb9f6d58d7bc1306a0cb SHA512: 65fae25728c19431da6090529cf57e16987be081037301aeab97cbc519dc995f26336a1a82f021e85fa1b287ecf8cc77997880cd462bf350aafe80f8df5a88ab Homepage: https://cran.r-project.org/package=alone Description: CRAN Package 'alone' (Datasets from the Survival TV Series Alone) A collection of datasets on the Alone survival TV series in tidy format. Included in the package are 4 datasets detailing the survivors, their loadouts, episode details and season information. 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Package: r-cran-aloom Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-glmnet, r-cran-randomforest Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-aloom_0.1.1-1.ca2004.1_all.deb Size: 16624 MD5sum: 914717d8d91c121e125a1072991f785b SHA1: 30b205bfde7ff432537188b294a970a2921d2a26 SHA256: cc67afb011db8f8c2eacf365512f7a0c5b4f3cbddf8e092bc8896cde00d78dcf SHA512: fb37dc839466d315632de0b44152a990871ea08ae6edcb5b98c4aaa176646c57e5e6d38625858e90ddba4d478cb2c5eb7c89e24d05d1e98f6138169385af9f4e Homepage: https://cran.r-project.org/package=aloom Description: CRAN Package 'aloom' (All Leave-One-Out Models) Creates all leave-one-out models and produces predictions for test samples. 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(ISBN-10: 0071122214, ISBN-13: 978-0071122214) that do not exist in R, are gathered in this package. The whole book will be covered in the next versions. Package: r-cran-altadata Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-altadata_0.1.1-1.ca2004.1_all.deb Size: 38444 MD5sum: 71948248fca9d6667c3024f114288dfc SHA1: 5e4c4e6258047c08c9c3025acc894e086d7b4a06 SHA256: a7c8391df5df089b84fb5a839c03f79739eee40c06e4af8ce723fff595f666ad SHA512: 0b631ec233ecaa3459944524c1f153b59240f0c548fd4b7096c6ed4a720fa5a9a3546d57c362964ca55946fd9ecc1ececb1ce2a18a43fc3251e934ce69113881 Homepage: https://cran.r-project.org/package=altadata Description: CRAN Package 'altadata' (API Wrapper for Altadata.io) Functions for interacting directly with the 'ALTADATA' API. 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Package: r-cran-altfuelr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2485 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-purrr, r-cran-lubridate, r-cran-dplyr, r-cran-magrittr, r-cran-stringr Filename: pool/dists/focal/main/r-cran-altfuelr_0.1.0-1.ca2004.1_all.deb Size: 2462912 MD5sum: 36c531a18fa89f418a348aa6535f7aa0 SHA1: 524696d1faafa570c13c5e4136193b0a9d49fb7b SHA256: 5d872f2e9f9afb410b0d38227d5645f32d127e695dde3bd8e6e40ff22c934ff8 SHA512: 3c01e4cd32f0ebe312a4c5f33bc37be8e1d0aca7e0169c2fff15bd526bf004b3a28c93ffff08ab737fdc64cacbcbdba311c056e62509e23387a0538bc2dc5cbb Homepage: https://cran.r-project.org/package=altfuelr Description: CRAN Package 'altfuelr' (Provides an Interface to the NREL Alternate Fuels Locator) Provides a number of functions to access the National Energy Research Laboratory Alternate Fuel Locator API . 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Package: r-cran-altmeta Architecture: all Version: 4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 592 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rjags, r-cran-coda, r-cran-lme4, r-cran-matrix, r-cran-metafor Filename: pool/dists/focal/main/r-cran-altmeta_4.2-1.ca2004.1_all.deb Size: 542932 MD5sum: d310d8268be840a728da435cb25f891f SHA1: fa6a04928b734dbf08b8207c513738954de9fa69 SHA256: c0f771123781abe9a049fff438aa482cd11de8eb4168410ac82197a758e051a3 SHA512: 5f006723253546cb8917d96fb71310f8593413a6515d5a4d67f3dae5a9fa284ee4247671fd5e356c59ebf9fffd9bb35450d845c7a155e38152891075db9c4683 Homepage: https://cran.r-project.org/package=altmeta Description: CRAN Package 'altmeta' (Alternative Meta-Analysis Methods) Provides alternative statistical methods for meta-analysis, including: - bivariate generalized linear mixed models for synthesizing odds ratios, relative risks, and risk differences (Chu et al., 2012 ) - heterogeneity tests and measures and penalization methods that are robust to outliers (Lin et al., 2017 ; Wang et al., 2022 ); - measures, tests, and visualization tools for publication bias or small-study effects (Lin and Chu, 2018 ; Lin, 2019 ; Lin, 2020 ; Shi et al., 2020 ); - meta-analysis of combining standardized mean differences and odds ratios (Jing et al., 2023 ); - meta-analysis of diagnostic tests for synthesizing sensitivities, specificities, etc. (Reitsma et al., 2005 ; Chu and Cole, 2006 ); - meta-analysis methods for synthesizing proportions (Lin and Chu, 2020 ); - models for multivariate meta-analysis, measures of inconsistency degrees of freedom in Bayesian network meta-analysis, and predictive P-score (Lin and Chu, 2018 ; Lin, 2020 ; Rosenberger et al., 2021 ). Package: r-cran-altopt Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cubature, r-cran-lattice Filename: pool/dists/focal/main/r-cran-altopt_0.1.2-1.ca2004.1_all.deb Size: 110004 MD5sum: f851f513cebf53e2f28dbf5fafad2a4f SHA1: 99014cc8be352b7a8e27302a525d9420a152e712 SHA256: 3be8c636964a1c5796462d8863b4a9cde7959e884855fef61e143525889fdbeb SHA512: d1d54459fefaa0ab27ac527b0cfd0f986d15c86518df527e8734c9f8d1c343a2970a301d869813a3150d822f1452810f5882c970b4a4c69552a2bf227f1cf1e6 Homepage: https://cran.r-project.org/package=ALTopt Description: CRAN Package 'ALTopt' (Optimal Experimental Designs for Accelerated Life Testing) Creates the optimal (D, U and I) designs for the accelerated life testing with right censoring or interval censoring. It uses generalized linear model (GLM) approach to derive the asymptotic variance-covariance matrix of regression coefficients. The failure time distribution is assumed to follow Weibull distribution with a known shape parameter and log-linear link functions are used to model the relationship between failure time parameters and stress variables. The acceleration model may have multiple stress factors, although most ALTs involve only two or less stress factors. ALTopt package also provides several plotting functions including contour plot, Fraction of Use Space (FUS) plot and Variance Dispersion graphs of Use Space (VDUS) plot. For more details, see Seo and Pan (2015) . 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The package contains functions for downloading raw data files from web URLs (download_data()), processing the raw data files into clean spatial objects (process_covariates()), and extracting values from the spatial data objects at point and polygon locations (calculate_covariates()). These functions call a series of source-specific functions which are tailored to each data sources/datasets particular URL structure, data format, and spatial/temporal resolution. The functions are tested, versioned, and open source and open access. For sum_edc() method details, see Messier, Akita, and Serre (2012) . 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P-values and fold-change are combined to obtain a global significance on each metabolite. Produces a volcano plot summarising the relevant results from meta-analysis. Vote-counting reports for metabolites. And explore plot to detect discrepancies between studies at a first glance. Methodology is described in the Llambrich et al. (2021) . 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Provides a novel algorithm for solving the sparse principal component analysis problem which provides advantages over existing methods in terms of efficiency and convergence guarantees. Chen, S., Ma, S., Xue, L., & Zou, H. (2020) . Zou, H., Hastie, T., & Tibshirani, R. (2006) . Zou, H., & Xue, L. (2018) . 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The basic model includes regression terms, the covariance structure of the social relations model (Warner, Kenny and Stoto (1979) , Wong (1982) ), and multiplicative factor models (Hoff(2009) ). Several different link functions accommodate different relational data structures, including binary/network data, normal relational data, zero-inflated positive outcomes using a tobit model, ordinal relational data and data from fixed-rank nomination schemes. Several of these link functions are discussed in Hoff, Fosdick, Volfovsky and Stovel (2013) . Development of this software was supported in part by NIH grant R01HD067509. Package: r-cran-americancallopt Architecture: all Version: 0.95-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-americancallopt_0.95-1.ca2004.1_all.deb Size: 44864 MD5sum: ab6c03a5d5ef01214f687c1e3f13f838 SHA1: e197f746e1fa791963dc2e0f3e8d85afb41ca57c SHA256: 8d8940e720abe5ef30077c4972b7502736dbe63ad2489d5540db3da3fde16e02 SHA512: 4114a76d5882d22344a909df8365a0592a7de79b24581cf5128e4d93b26830089bc6745f2ba7b9f49938f5dc5c9c04e4cf763d135b50bd49e24c6aa4aa5a7ef8 Homepage: https://cran.r-project.org/package=AmericanCallOpt Description: CRAN Package 'AmericanCallOpt' (This package includes pricing function for selected Americancall options with underlying assets that generate payouts) This package includes a set of pricing functions for American call options. The following cases are covered: Pricing of an American call using the standard binomial approximation; Hedge parameters for an American call with a standard binomial tree; Binomial pricing of an American call with continuous payout from the underlying asset; Binomial pricing of an American call with an underlying stock that pays proportional dividends in discrete time; Pricing of an American call on futures using a binomial approximation; Pricing of a currency futures American call using a binomial approximation; Pricing of a perpetual American call. The user should kindly notice that this material is for educational purposes only. The codes are not optimized for computational efficiency as they are meant to represent standard cases of analytical and numerical solution. 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Further calculates the Simultaneous Selection Index for Yield and Stability from the computed stability parameters. See the vignette for complete list of citations for the methods implemented. 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Package: r-cran-ampd Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ampd_0.2-1.ca2004.1_all.deb Size: 16612 MD5sum: ddb8167e408975e331203f5648e695d4 SHA1: cc49be2ee9126a507440cb648fe9a42f2cccec82 SHA256: 7b7489aee62d54967107bc72a41ad656a31a3be55b9fe85109e677c10ecb118d SHA512: 0ac84ca018bb348a31aa711e360b2d0de979737a7429d58e12f4d0d40c48d941a7cef507939cad196873f9bd4271b9bb9030a055e3953fb2643ff6debb4a6672 Homepage: https://cran.r-project.org/package=ampd Description: CRAN Package 'ampd' (An Algorithm for Automatic Peak Detection in Noisy Periodic andQuasi-Periodic Signals) A method for automatic detection of peaks in noisy periodic and quasi-periodic signals. This method, called automatic multiscale-based peak detection (AMPD), is based on the calculation and analysis of the local maxima scalogram, a matrix comprising the scale-dependent occurrences of local maxima. For further information see . Package: r-cran-ampgram Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biogram, r-cran-devtools, r-cran-pbapply, r-cran-ranger, r-cran-shiny, r-cran-stringi Suggests: r-cran-dt, r-cran-ggplot2, r-cran-pander, r-cran-rmarkdown, r-cran-shinythemes, r-cran-spelling Filename: pool/dists/focal/main/r-cran-ampgram_1.0-1.ca2004.1_all.deb Size: 85072 MD5sum: 308f8bdaf26bb21ce6fba5e50be59f06 SHA1: 60315f5f745f3433fbac75b98462a8e6d2f70fac SHA256: fa0c622b493e6ac12e7b399b4e12d7cfaa85b4e26d9038b3509408facfc4969f SHA512: d99cdd74a31d7d7b6f5796a718afc3dc34f64221a6e0e5e39eef5d48d1cff37dcd23a4f53b257973d17469088bcf4857bc93b46b631e7e5b99b458483ad56684 Homepage: https://cran.r-project.org/package=AmpGram Description: CRAN Package 'AmpGram' (Prediction of Antimicrobial Peptides) Predicts antimicrobial peptides using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI. The AmpGram model is too large for CRAN and it has to be downloaded separately from the repository: . Package: r-cran-ample Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3941 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-shiny, r-cran-markdown, r-cran-rcolorbrewer, r-cran-r6, r-cran-scales, r-cran-shinyjs, r-cran-ggplot2, r-cran-shinyscreenshot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bookdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ample_1.0.2-1.ca2004.1_all.deb Size: 1504480 MD5sum: af450c1b01ba8a14bc45f8613ef90ea9 SHA1: cc0ec76edc8ef8813598e76e3fbf624ac75b9899 SHA256: 24af30c164fbe7587473e53e1e79fbf81626dbee0582a01d333f28dfe6c8f98a SHA512: f4e3419a9b8ad86a148d24561ecefd927c38f95558593ea3c6ad9627723ccee0e2e98883ffe67ebabeb59da229e05b1d86cb5a49cd070c6cae717ec5607e373d Homepage: https://cran.r-project.org/package=AMPLE Description: CRAN Package 'AMPLE' (Shiny Apps to Support Capacity Building on Harvest Control Rules) Three Shiny apps are provided that introduce Harvest Control Rules (HCR) for fisheries management. 'Introduction to HCRs' provides a simple overview to how HCRs work. Users are able to select their own HCR and step through its performance, year by year. Biological variability and estimation uncertainty are introduced. 'Measuring performance' builds on the previous app and introduces the idea of using performance indicators to measure HCR performance. 'Comparing performance' allows multiple HCRs to be created and tested, and their performance compared so that the preferred HCR can be selected. Package: r-cran-ampliconduo Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 586 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-xtable Filename: pool/dists/focal/main/r-cran-ampliconduo_1.1.1-1.ca2004.1_all.deb Size: 563116 MD5sum: 571e43dd32cfc69942df0ace35b59e3a SHA1: d5e9879c155bbdb249d6db03cada80b425df92d1 SHA256: ecc144959026b098405a898d51e7e4d8e04a22294028f4d1c57b39c58bd7f6a5 SHA512: 1561e28009061b85d0a8c7da41a6ca5876b32931c632e41f2802a0cbfd15b8f36ac0d8631f780c08dec228b0b5dfd8d40bf7911520092ad8369acffce3444bb0 Homepage: https://cran.r-project.org/package=AmpliconDuo Description: CRAN Package 'AmpliconDuo' (Statistical Analysis of Amplicon Data of the Same Sample toIdentify Artefacts) Increasingly powerful techniques for high-throughput sequencing open the possibility to comprehensively characterize microbial communities, including rare species. However, a still unresolved issue are the substantial error rates in the experimental process generating these sequences. To overcome these limitations we propose an approach, where each sample is split and the same amplification and sequencing protocol is applied to both halves. This procedure should allow to detect likely PCR and sequencing artifacts, and true rare species by comparison of the results of both parts. The AmpliconDuo package, whereas amplicon duo from here on refers to the two amplicon data sets of a split sample, is intended to help interpret the obtained read frequency distribution across split samples, and to filter the false positive reads. Package: r-cran-amr Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4987 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-cleaner, r-cran-cli, r-cran-crayon, r-cran-curl, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-openxlsx, r-cran-parallelly, r-cran-pillar, r-cran-progress, r-cran-readxl, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-rvest, r-cran-skimr, r-cran-testthat, r-cran-tibble, r-cran-tidymodels, r-cran-tidyselect, r-cran-tinytest, r-cran-vctrs, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-amr_3.0.0-1.ca2004.1_all.deb Size: 4787604 MD5sum: 2cf0703149e1aeceddb3527f72fdaa42 SHA1: 6300b8b10284028366f8792a5ef05e7d8878afd5 SHA256: 63b839f4cfabdede8727ed49df429a2430e41396c418dd7df794cac02a745ef5 SHA512: 204ea748b7e33adc4de5a2285738d89033912132a951b69dd53cef158a766fdad929b75a10116818361c50ff31fcfeaa8df4f6da86221c29581073be9bdb39d4 Homepage: https://cran.r-project.org/package=AMR Description: CRAN Package 'AMR' (Antimicrobial Resistance Data Analysis) Functions to simplify and standardise antimicrobial resistance (AMR) data analysis and to work with microbial and antimicrobial properties by using evidence-based methods, as described in . Package: r-cran-amregtest Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-allelematch, r-cran-digest, r-cran-remotes, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-amregtest_1.0.3-1.ca2004.1_all.deb Size: 128720 MD5sum: 84e1c8992a26f7167720fd75f2c2c79e SHA1: 49b14dbf3580f308209bc67b6b43ee769ca32d54 SHA256: 7f1eeed6242114c5fcc4caad1f629f4ef16b2639050b694f769b45e97f2b9554 SHA512: e20b4c5cb4b7e54dbe653be292fff5d72641dcfb1a9028a40514b2beb717fae5ee78984ce45f82a76d8b1b76442ffba63ba36d121372e18c9defbc9b7f57feac Homepage: https://cran.r-project.org/package=amregtest Description: CRAN Package 'amregtest' (Runs Allelematch Regression Tests) Automates regression testing of package 'allelematch'. Over 2500 tests covers all functions in 'allelematch', reproduces the examples from the documentation and includes negative tests. The implementation is based on 'testthat'. Package: r-cran-amscorer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-amscorer_0.1.0-1.ca2004.1_all.deb Size: 68936 MD5sum: 20e34ec5e4cf92b64e326038f6b23734 SHA1: 07b9b62d0c7f42211b137e42f5f2326bf60ea5ec SHA256: 889b2402dd9fa6b202c8ac1adfe799a6f9be1bcd7a155a83d14a899397ad1362 SHA512: 6a0128f852f07c7c6b64a72b66f828f2a4fd59b51f41b7bac1292a679253ac66f18290cb33dde834f7ae1c16e43d701b50ffcaad62b21990e4cbb520b07dfc7f Homepage: https://cran.r-project.org/package=amscorer Description: CRAN Package 'amscorer' (Clinical Scores Calculator for Healthcare) Provides functions to compute various clinical scores used in healthcare. These include the Charlson Comorbidity Index (CCI), predicting 10-year survival in patients with multiple comorbidities; the EPICES score, an individual indicator of precariousness considering its multidimensional nature; the MELD score for chronic liver disease severity; the Alternative Fistula Risk Score (a-FRS) for postoperative pancreatic fistula risk; and the Distal Pancreatectomy Fistula Risk Score (D-FRS) for risk following distal pancreatectomy. For detailed methodology, refer to Charlson et al. (1987) , Sass et al. (2006) , Kamath et al. (2001) , Kim et al. (2008) Kim et al. (2021) , Mungroop et al. (2019) , and de Pastena et al. (2023) .. Package: r-cran-amt Architecture: all Version: 0.2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4811 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-checkmate, r-cran-circular, r-cran-ctmm, r-cran-data.table, r-cran-dplyr, r-cran-fitdistrplus, r-cran-fnn, r-cran-kernsmooth, r-cran-lubridate, r-cran-mass, r-cran-purrr, r-cran-rdpack, r-cran-rlang, r-cran-sf, r-cran-sfheaders, r-cran-survival, r-cran-terra, r-cran-tibble, r-cran-tidyr Suggests: r-cran-adehabitatlt, r-cran-broom, r-cran-ggplot2, r-cran-ggraph, r-cran-geosphere, r-cran-knitr, r-cran-leaflet, r-cran-movehmm, r-cran-rmarkdown, r-cran-sessioninfo, r-cran-suncalc, r-cran-tidygraph, r-cran-tinytest, r-cran-units Filename: pool/dists/focal/main/r-cran-amt_0.2.2.0-1.ca2004.1_all.deb Size: 3523344 MD5sum: 8b4b01f7cd83b5a6647c3cdc33d3f4b4 SHA1: b0003c4347fb7849d0344592da3a774657e6c811 SHA256: 42189f3535fd7eead2ec2c4cfa8e3ca0bc154a523b496d1dafeaf5ac1132b7fc SHA512: 9224e4d4dac7bd3193e79fcd846aafe49179dac30caeab321765aab75035f0bcf14acf3631baba4da4744fdf54f3f786c77547c5472c382b7029a5763d49bd3a Homepage: https://cran.r-project.org/package=amt Description: CRAN Package 'amt' (Animal Movement Tools) Manage and analyze animal movement data. The functionality of 'amt' includes methods to calculate home ranges, track statistics (e.g. step lengths, speed, or turning angles), prepare data for fitting habitat selection analyses, and simulation of space-use from fitted step-selection functions. Package: r-cran-amvenndiagram5 Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1628 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-htmlwidgets, r-cran-partitions, r-cran-venn Suggests: r-cran-shiny Filename: pool/dists/focal/main/r-cran-amvenndiagram5_1.0.0-1.ca2004.1_all.deb Size: 1105364 MD5sum: 50179dc6f74ebe361c78ac8e37f3212d SHA1: b5453d1739e9099192c209c23807cf8a1bc733a9 SHA256: c234717b43cc2779630177fbfb9969aa558c28344348f8611f714f8ad0ae7ef4 SHA512: bad50def8cbd7da86083038f3fecdb598d199041c8e5272a0a3158f3926c154d160314dde4e07622d825144f4fe8c4fb181ca2ed296e86e8f3ce436ff0d1610f Homepage: https://cran.r-project.org/package=amVennDiagram5 Description: CRAN Package 'amVennDiagram5' (Interactive Venn Diagrams) Creates interactive Venn diagrams using the 'amCharts5' library for 'JavaScript'. They can be used directly from the R console, from 'RStudio', in 'shiny' applications, and in 'rmarkdown' documents. Package: r-cran-amylogram Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 852 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biogram, r-cran-ranger, r-cran-seqinr, r-cran-shiny Filename: pool/dists/focal/main/r-cran-amylogram_1.1-1.ca2004.1_all.deb Size: 654724 MD5sum: 75e3de047ac747b9ad42a3a94fe6f588 SHA1: 958c81e8febb5be6145a2876b5f22688095bb852 SHA256: 66f7f28711dd86a0e702c0c79e35c42365c24a3401ed440109dbc3b38e66ac16 SHA512: cccfa9894098aeaa8202b634a1864f6a17bb8839ae62f8b32e85a79b108e82f6ab73e11de4c0d62fe43a3aa93710bc269c61d60c201183df7bc18328ee034235 Homepage: https://cran.r-project.org/package=AmyloGram Description: CRAN Package 'AmyloGram' (Prediction of Amyloid Proteins) Predicts amyloid proteins using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI. Package: r-cran-anabel Architecture: all Version: 3.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3407 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-kableextra, r-cran-minpack.lm, r-cran-openxlsx, r-cran-progress, r-cran-purrr, r-cran-qpdf, r-cran-reshape2, r-cran-rlang, r-cran-tidyr Suggests: r-cran-htmltools, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-anabel_3.0.2-1.ca2004.1_all.deb Size: 774108 MD5sum: ecabac00e3d20e450fac4f978defc7ec SHA1: 387cf9694bf56cf871cd1ee744f46e720051f346 SHA256: 52cf3ac2dd8bccca124953251f6d1335b85f24187b42bfe04f65927121974dad SHA512: 225334da176e6cb4ec6220cc20d9f71cc925fefea418197792ed37370885062360176982e2f597470600bbcc0359db282548fc9b61bf615edf27a65b80b17f3d Homepage: https://cran.r-project.org/package=anabel Description: CRAN Package 'anabel' (Analysis of Binding Events + l) A free software for a fast and easy analysis of 1:1 molecular interaction studies. This package is suitable for a high-throughput data analysis. Both the online app and the package are completely open source. You provide a table of sensogram, tell 'anabel' which method to use, and it takes care of all fitting details. The first two releases of 'anabel' were created and implemented as in (, ). Package: r-cran-anaconda Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 275 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ape, r-bioc-deseq2, r-cran-ggplot2, r-cran-ggrepel, r-cran-pheatmap, r-cran-lookup, r-cran-plyr, r-cran-data.table, r-cran-rafalib, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-anaconda_0.1.5-1.ca2004.1_all.deb Size: 173612 MD5sum: 5e270070a145b2aeb6c4960310bd903a SHA1: 459048ddca9789953c4a4bcdea7d5f5e347b1638 SHA256: 75d879329900925b0940e665a0930a3164781d62bb269ce5e6c8ebb7b2f2bf37 SHA512: 12a85856e70663b952f7625f9a70339db707241c199f2fdf09365f52d45043347d16b0920702792695c23f019b1ea4861549e564deeb6161eb3dd7f53100cf65 Homepage: https://cran.r-project.org/package=Anaconda Description: CRAN Package 'Anaconda' (Targeted Differential and Global Enrichment Analysis ofTaxonomic Rank by Shared Asvs) Targeted differential and global enrichment analysis of taxonomic rank by shared ASVs (Amplicon Sequence Variant), for high-throughput eDNA sequencing of fungi, bacteria, and metazoan. Actually works in two steps: I) Targeted differential analysis from QIIME2 data and II) Global analysis by Taxon Mann-Whitney U test analysis from targeted analysis (I) (I) Estimate variance-mean dependence in count/abundance ASVs data from high-throughput sequencing assays and test for differential represented ASVs based on a model using the negative binomial distribution. (II) NCBITaxon_MWU uses continuous measure of significance (such as fold-change or -log(p-value)) to identify NCBITaxon that are significantly enriches with either up- or down-represented ASVs. If the measure is binary (0 or 1) the script will perform a typical 'NCBITaxon enrichment' analysis based Fisher's exact test: it will show NCBITaxon over-represented among the ASVs that have 1 as their measure. On the plot, different fonts are used to indicate significance and color indicates enrichment with either up (red) or down (blue) regulated ASVs. No colors are shown for binary measure analysis. The tree on the plot is hierarchical clustering of NCBITaxon based on shared ASVs. Categories with no branch length between them are subsets of each other. The fraction next to the category name indicates the fraction of 'good' ASVs in it; 'good' ASVs are the ones exceeding the arbitrary absValue cutoff (option in taxon_mwuPlot()). For Fisher's based test, specify absValue=0.5. This value does not affect statistics and is used for plotting only. The original idea was for genes differential expression analysis from Wright et al (2015) ; adapted here for taxonomic analysis. The 'Anaconda' package makes it possible to carry out these analyses by automatically creating several graphs and tables and storing them in specially created subfolders. You will need your QIIME2 pipeline output for each kingdom (eg; Fungi and/or Bacteria and/or Metazoan): i) taxonomy.tsv, ii) taxonomy_RepSeq.tsv, iii) ASV.tsv and iv) SampleSheet_comparison.txt (the latter being created by you). Package: r-cran-anacor Architecture: all Version: 1.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 464 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-car, r-cran-colorspace, r-cran-fda Filename: pool/dists/focal/main/r-cran-anacor_1.1-5-1.ca2004.1_all.deb Size: 338708 MD5sum: b0845f762043352cd1064783b60504aa SHA1: a9afa9af89b89539cbb2fd732513875000163e55 SHA256: c5128c6aeafa5ef2f4516e64a916900e33747b74e794f2680c5334fc375b96b3 SHA512: 17c9180005c691a98f92f6617ac9bb42ec9b009826143de0326668f734efd2566dfb2c4615cc47f22d4e19b934ceb3e8209c7a726dde512f16b712ec669fcd0e Homepage: https://cran.r-project.org/package=anacor Description: CRAN Package 'anacor' (Simple and Canonical Correspondence Analysis) Performs simple and canonical CA (covariates on rows/columns) on a two-way frequency table (with missings) by means of SVD. Different scaling methods (standard, centroid, Benzecri, Goodman) as well as various plots including confidence ellipsoids are provided. Package: r-cran-analitica Architecture: all Version: 1.8.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 316 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-ggridges, r-cran-patchwork, r-cran-moments, r-cran-magrittr, r-cran-rlang, r-cran-tidyselect, r-cran-multcompview Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-analitica_1.8.5-1.ca2004.1_all.deb Size: 234324 MD5sum: f46a1fe48c15d79cdb21d3410f1b94af SHA1: 444a0c979dc3e88a68ab4f36df093e085721ee26 SHA256: c9b1b09e116f02f9e5ddf31b37be656f2b6709d8770fd78a923e3fef3176d85c SHA512: 4fe53a4e7f5a1a058272693dc194e2ecd053516ee1e125834a018b85469c77d846435dd2776572d35201fa0090f4f8edecbe56ffba34207690058f914eeb99c2 Homepage: https://cran.r-project.org/package=Analitica Description: CRAN Package 'Analitica' (Exploratory Data Analysis, Group Comparison Tools, and OtherProcedures) Provides a comprehensive set of tools for descriptive statistics, graphical data exploration, outlier detection, homoscedasticity testing, and multiple comparison procedures. Includes manual implementations of Levene's test, Bartlett's test, and the Fligner-Killeen test, as well as post hoc comparison methods such as Tukey, Scheffé, Games-Howell, Brunner-Munzel, and others. This version introduces two new procedures: the Jonckheere-Terpstra trend test and the Jarque-Bera test with Glinskiy's (2024) correction. Designed for use in teaching, applied statistical analysis, and reproducible research. 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(2) Tools to plot the shape of the dominance hierarchy and estimate the uncertainty of a given data set. Package: r-cran-anim.plots Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1084 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-animation Suggests: r-cran-maps, r-cran-knitr, r-cran-mapdata, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-anim.plots_0.2.3-1.ca2004.1_all.deb Size: 621044 MD5sum: 21da1b08aaaeda4e9243612750b6faad SHA1: f4c928b9871e1749a3a233222eeba9b9b9fc3d72 SHA256: 065b02bea12de2170d60bf9c5dc30c347d717e1dc0164beabd28fc2114e6af47 SHA512: 4ae9cd8a6a52a3fb9cf8bc9f4a521ac5a7b3bf5c825e58a398ad8b3c12c9194f461f6164c1c99499e2fef4be1b501998f4b6b7d60481d2f90dd3f43e7ca18b7d Homepage: https://cran.r-project.org/package=anim.plots Description: CRAN Package 'anim.plots' (Simple Animated Plots for R) Simple animated versions of basic R plots, using the 'animation' package. 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Package: r-cran-animalhabitatnetwork Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-animalhabitatnetwork_0.1.0-1.ca2004.1_all.deb Size: 36932 MD5sum: 52b165cd505bf8b2af84cde09b9fc0bd SHA1: 0c407b7d218aa320cdb46a344f769cbefa09bc91 SHA256: fa7ed379e9a811f6de770022b638389d5766bbe2b2b6dc013720a8b2d03b3248 SHA512: 700d89095c5873e2e5299982c73b5205b59e794b49156f460de1178c5c828359913685271a5877b378de98ab1afadf2388add49f0fd933070c29add24fee0806 Homepage: https://cran.r-project.org/package=AnimalHabitatNetwork Description: CRAN Package 'AnimalHabitatNetwork' (Networks Characterising the Physical Configurations of AnimalHabitats) Functions for generating and visualising networks for characterising the physical attributes and spatial organisations of habitat components (i.e. habitat physical configurations). 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The 2018 Journal of Computational and Graphical Statistics paper, describes the concepts implemented. 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Cruz Rambaud et al. (2017) . Cruz Rambaud et al. (2015) . 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The ANOCVA allows us to compare the clustering structure of multiple groups simultaneously and also to identify features that contribute to the differential clustering. 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However, it is based on a total statistic that can be decomposed in an additive fashion into interaction effects, main effects, simple effects, contrast effects, etc., mimicking precisely the logic of ANOVA. We call this set of tools 'ANOFA' (Analysis of Frequency data) to highlight its similarities with ANOVA. This framework also renders plots of frequencies along with confidence intervals. Finally, effect sizes and planning statistical power are easily done under this framework. The ANOFA is a tool that assesses the significance of effects instead of the significance of parameters; as such, it is more intuitive to most researchers than alternative approaches based on generalized linear models. See Laurencelle and Cousineau (2023) . Package: r-cran-anoint Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 340 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-mass, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-anoint_1.5-1.ca2004.1_all.deb Size: 260044 MD5sum: 3d4f7e26d042e196eb5cf686613b0ca9 SHA1: ec9c42de08465dd44f889ec1d4d85f09fabe3f24 SHA256: a53018990bdd2cb3f6863ad0cc38b84a3ec968faa0acf7b7b510da295023ee5b SHA512: 4521860c7aad00923f755494ee9a436793b79870043d60bf03eb8ccc24a528d3913f116722325ebc3ed92636a61910642f2c2d35d4304b3dec4f3740c93c2c38 Homepage: https://cran.r-project.org/package=anoint Description: CRAN Package 'anoint' (Analysis of Interactions) The tools in this package are intended to help researchers assess multiple treatment-covariate interactions with data from a parallel-group randomized controlled clinical trial. The methods implemented in the package were proposed in Kovalchik, Varadhan and Weiss (2013) . Package: r-cran-anom Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 310 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-mcpan, r-cran-multcomp, r-cran-nparcomp, r-cran-simcomp Suggests: r-cran-knitr, r-cran-lme4, r-cran-nlme, r-cran-sandwich Filename: pool/dists/focal/main/r-cran-anom_0.5-1.ca2004.1_all.deb Size: 250028 MD5sum: 857bf5235383355c605c8302d00c108d SHA1: 710d29485e664236daf44c5be4603e2e3263704c SHA256: 76f81ce142c9a0327472349118bf02271bf95c5703efecc2b0c7ce8915a132a6 SHA512: 4066c2aa0d64f35b346f72cfd7546a8d0c08864b5eb04ec3935b91e20215ae071a04f6ab336ec719ffef1126d6a981d8684624ed9e71c2809d4f2301ddd3800e Homepage: https://cran.r-project.org/package=ANOM Description: CRAN Package 'ANOM' (Analysis of Means) Analysis of means (ANOM) as used in technometrical computing. The package takes results from multiple comparisons with the grand mean (obtained with 'multcomp', 'SimComp', 'nparcomp', or 'MCPAN') or corresponding simultaneous confidence intervals as input and produces ANOM decision charts that illustrate which group means deviate significantly from the grand mean. 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The main functions are time_decompose(), anomalize(), and time_recompose(). When combined, it's quite simple to decompose time series, detect anomalies, and create bands separating the "normal" data from the anomalous data at scale (i.e. for multiple time series). Time series decomposition is used to remove trend and seasonal components via the time_decompose() function and methods include seasonal decomposition of time series by Loess ("stl") and seasonal decomposition by piecewise medians ("twitter"). The anomalize() function implements two methods for anomaly detection of residuals including using an inner quartile range ("iqr") and generalized extreme studentized deviation ("gesd"). These methods are based on those used in the 'forecast' package and the Twitter 'AnomalyDetection' package. Refer to the associated functions for specific references for these methods. 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Different computations of distances between time series are provided. 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The 'ANOPA' package can analyze proportions obtained from up to four factors. The factors can be within-subject or between-subject or a mix of within- and between-subject. The main, omnibus analysis can be followed by additive decompositions into interaction effects, main effects, simple effects, contrast effects, etc., mimicking precisely the logic of ANOVA. For that reason, we call this set of tools 'ANOPA' (Analysis of Proportion using Anscombe transform) to highlight its similarities with ANOVA. The 'ANOPA' framework also allows plots of proportions easy to obtain along with confidence intervals. Finally, effect sizes and planning statistical power are easily done under this framework. Only particularity, the 'ANOPA' computes F statistics which have an infinite degree of freedom on the denominator. See Laurencelle and Cousineau (2023) . 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Runtime examples are provided in the package function as well as at . 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Runtime examples are provided in the package function as well as at . 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This package provides functions allowing virulence to be estimated by maximum likelihood techniques. The approach is based on the analysis of relative survival comparing survival in matching cohorts of infected vs. uninfected hosts (Agnew 2019) . Package: r-cran-anscombiser Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-datasaurus, r-cran-gganimate, r-cran-ggplot2, r-cran-maps, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-anscombiser_1.1.0-1.ca2004.1_all.deb Size: 193080 MD5sum: 0d3bea2d54a2bd5fd59406577af03df4 SHA1: 2d4adb4f0114aaa2e10567669f2bf0bc1617fdba SHA256: 990d73f3c223f96c857e58fad3cf1dd8ea7e10109a42f5febf4aac653e2b23db SHA512: 78bbf09dfe2032c36fba6e6c4a0e439c7690abfe906d6cca5fa961308cfcc7347907ef2a932a8936e61f3819809021eac654ba167ee54f9a57edee00f513cdfa Homepage: https://cran.r-project.org/package=anscombiser Description: CRAN Package 'anscombiser' (Create Datasets with Identical Summary Statistics) Anscombe's quartet are a set of four two-variable datasets that have several common summary statistics but which have very different joint distributions. 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Package: r-cran-ansm5 Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 606 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ansm5_1.1.1-1.ca2004.1_all.deb Size: 558072 MD5sum: a1c90de0db77834f6c076f05ff51d755 SHA1: 6415745dfa8ac2bcbbd3d669b952b74a5408ccb2 SHA256: 22db7e25af1e1c1aea3eb6f40987c679887d075f12fa54c547be9789f777f30f SHA512: b32c32c6def461c61156b4ea8c8f934ed21ddc30a16625139fd005d6cbfa59afcd507e675c7a6b69f0d5b846d6f85c30125bd4bb03035529dcd31b1a8f896479 Homepage: https://cran.r-project.org/package=ANSM5 Description: CRAN Package 'ANSM5' (Functions and Data for the Book "Applied NonparametricStatistical Methods", 5th Edition) Functions and data to accompany the 5th edition of the book "Applied Nonparametric Statistical Methods" (4th edition: Sprent & Smeeton, 2024, ISBN:158488701X), the revisions from the 4th edition including a move from describing the output from a miscellany of statistical software packages to using R. While the output from many of the functions can also be obtained using a range of other R functions, this package provides functions in a unified setting and give output using both p-values and confidence intervals, exemplifying the book's approach of treating p-values as a guide to statistical importance and not an end product in their own right. Please note that in creating the ANSM5 package we do not claim to have produced software which is necessarily the most computationally efficient nor the most comprehensive. 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'AntAngioCOOL' exploits five descriptor types of a peptide of interest to do prediction including: pseudo amino acid composition, k-mer composition, k-mer composition (reduced alphabet), physico-chemical profile and atomic profile. According to the obtained results, 'AntAngioCOOL' reached to a satisfactory performance in anti-angiogenic peptide prediction on a benchmark non-redundant independent test dataset. 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Here, we present 'AntibodyForests', a software to investigate and quantify inter- and intra-antibody repertoire evolution. Package: r-cran-antibodytiters Architecture: all Version: 0.1.24-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 269 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-openxlsx, r-cran-desctools Filename: pool/dists/focal/main/r-cran-antibodytiters_0.1.24-1.ca2004.1_all.deb Size: 219456 MD5sum: 3717a4a5feecf8815f4b1d9f53095303 SHA1: 13b20db1b721967d649b3ddb6b8816b8209a0cf7 SHA256: 96eb707a126e3f60420338b1fe3a3d2c1e9ef303b369eeaa987a51ee002b533b SHA512: e5456957ba3e8f88f2cb5d1ac82e8c9bac47a7a800036c82d2c45aabdcdff84ef25db259abb8e18b200a0258c4e0d4ed05c39df35ef7b3bc1be698d65ba71ac2 Homepage: https://cran.r-project.org/package=AntibodyTiters Description: CRAN Package 'AntibodyTiters' (Antibody Titer Analysis of Vaccinated Patients) Visualization of antibody titer scores is valuable for examination of vaccination effects. 'AntibodyTiters' visualizes antibody titers of all or selected patients. This package also produces empty excel files in a specified format, in which users can fill in experimental data for visualization. Excel files with toy data can also be produced, so that users can see how it is visualized before obtaining real data. The data should contain titer scores at pre-vaccination, after-1st shot, after-2nd shot, and at least one additional sampling points. Patients with missing values can be included. The first two sampling points (pre-vaccination and after-1st shot) will be plotted discretely, whereas those following will be plotted on a continuous time scale that starts from the day of second shot. Half-life of titer can also be calculated for each pair of sampling points. 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These functions should be considered as complements to more sophisticated methods such as generalized estimating equations (GEE) or generalized linear mixed effect models (GLMM). aods3 is an S3 re-implementation of the deprecated S4 package aod. 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The method was developed with honey bees in order to detect the Age at Onset of Foraging (AOF), but can be used for the detection of other ontogenetic shifts in other central-place foraging insects. 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Package: r-cran-aopdata Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 655 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-curl, r-cran-data.table, r-cran-sf Suggests: r-cran-covr, r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-scales, r-cran-testthat, r-cran-units Filename: pool/dists/focal/main/r-cran-aopdata_1.1.1-1.ca2004.1_all.deb Size: 393852 MD5sum: 0868a28c7e4251b8542901f235579b36 SHA1: bea1e5beca2d476df44cab4ce56b5d1f0c8678d9 SHA256: 470cc15489dd4c9ca0b099368e572fe90997d7edb4747ed0262e3a037d63923e SHA512: 5d206cc38d32efeb21eb506b9adf65f6e9f5f8d7bc09ee2033b8f0b5692fac64f9ae798f8bcc70a7a57692435364eb2a73aeb6119d3282e11dc4814201f6d411 Homepage: https://cran.r-project.org/package=aopdata Description: CRAN Package 'aopdata' (Data from the 'Access to Opportunities Project (AOP)') Download data from the 'Access to Opportunities Project (AOP)'. 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Package: r-cran-aoptbdtvc Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lpsolve, r-cran-mass Filename: pool/dists/focal/main/r-cran-aoptbdtvc_0.0.3-1.ca2004.1_all.deb Size: 87912 MD5sum: 5b58cfb8124b94c891677f429f4a4597 SHA1: a6f1a6a8d92a82becaf90a87932e9bc194f145eb SHA256: e328fd100f1f2911281587335d23971dbdc15fb62f0cf89f603789eb89fc00d9 SHA512: 238bc2b821d7ff5795b507cdd854c5c823616509c30279ff66d0a6d7df09f890bb1b1375cefaf6ef4f11686bca339a07dfeebaf2cb67e70584edd70be565accc Homepage: https://cran.r-project.org/package=Aoptbdtvc Description: CRAN Package 'Aoptbdtvc' (A-Optimal Block Designs for Comparing Test Treatments withControls) A collection of functions to construct A-optimal block designs for comparing test treatments with one or more control(s). Mainly A-optimal balanced treatment incomplete block designs, weighted A-optimal balanced treatment incomplete block designs, A-optimal group divisible treatment designs and A-optimal balanced bipartite block designs can be constructed using the package. The designs are constructed using algorithms based on linear integer programming. To the best of our knowledge, these facilities to construct A-optimal block designs for comparing test treatments with one or more controls are not available in the existing R packages. For more details on designs for tests versus control(s) comparisons, please see Hedayat, A. S. and Majumdar, D. (1984) A-Optimal Incomplete Block Designs for Control-Test Treatment Comparisons, Technometrics, 26, 363-370 and Mandal, B. N. , Gupta, V. K., Parsad, Rajender. (2017) Balanced treatment incomplete block designs through integer programming. Communications in Statistics - Theory and Methods 46(8), 3728-3737. Package: r-cran-aoristic Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-openxlsx, r-cran-ggplot2, r-cran-lubridate, r-cran-plyr, r-cran-scales, r-cran-tidyr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-aoristic_1.1.1-1.ca2004.1_all.deb Size: 124600 MD5sum: 80d8472725ed71eef97f2f39b63b0c7e SHA1: ce5cedee331e5653f2529231ee3fb3a8ab6ef631 SHA256: 74a62ff6a1067f82af7b4b8451ca500af02078fb98a2b830eb9dae3cfbffae92 SHA512: 5f8b6ce39990da35844c85f37b78a7273c57fb9fb41801a6af6bc6aa88619c1f13cb4d73b67f839405be4767fb5a2216d4c646272dfc52b94683e7743c807855 Homepage: https://cran.r-project.org/package=aoristic Description: CRAN Package 'aoristic' (Generates Aoristic Probability Distributions) It can sometimes be difficult to ascertain when some events (such as property crime) occur because the victim is not present when the crime happens. As a result, police databases often record a 'start' (or 'from') date and time, and an 'end' (or 'to') date and time. The time span between these date/times can be minutes, hours, or sometimes days, hence the term 'Aoristic'. Aoristic is one of the past tenses in Greek and represents an uncertain occurrence in time. For events with a location describes with either a latitude/longitude, or X,Y coordinate pair, and a start and end date/time, this package generates an aoristic data frame with aoristic weighted probability values for each hour of the week, for each observation. The coordinates are not necessary for the program to calculate aoristic weights; however, they are part of this package because a spatial component has been integral to aoristic analysis from the start. Dummy coordinates can be introduced if the user only has temporal data. Outputs include an aoristic data frame, as well as summary graphs and displays. For more information see: Ratcliffe, JH (2002) Aoristic signatures and the temporal analysis of high volume crime patterns, Journal of Quantitative Criminology. 18 (1): 23-43. Note: This package replaces an original 'aoristic' package (version 0.6) by George Kikuchi that has been discontinued with his permission. Package: r-cran-aos Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-htmltools Suggests: r-cran-shiny Filename: pool/dists/focal/main/r-cran-aos_0.1.0-1.ca2004.1_all.deb Size: 66304 MD5sum: f926dba874f1917b01bf234fe07ab6b9 SHA1: 9734cf6b5ac6b48dd5ab195f9180310a54f1b083 SHA256: c9cbf2ee3e3ba5b322ba8f303aafc634e4e34990d71d0b238ec4a2fec4d75e0d SHA512: aa6343f1c0c4d38acd22bc6116128f97854984510362a28fc03530fa68ead1b67d1709398ad4051dc9a1b834d43f8821f57fe46d48ac511e7e218ccd66721b1e Homepage: https://cran.r-project.org/package=aos Description: CRAN Package 'aos' (Animate on Scroll Library for 'shiny') Trigger animation effects on scroll on any HTML element of 'shiny' and 'rmarkdown', such as any text or plot, thanks to the 'AOS' Animate On Scroll jQuery library. 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For more details see - Koleck TA, Dreisbach C, Zhang C, Grayson S, Lor M, Deng Z, Conway A, Higgins PDR, Bakken S (2024) . 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References: Burdick & Graybill (1992, ISBN-13: 978-0824786441); Weerahandi (1995) ; Lin & Liao (2008) . 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Package: r-cran-apatables Architecture: all Version: 2.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 342 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car, r-cran-broom, r-cran-dplyr, r-cran-boot, r-cran-tibble, r-cran-mbess Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-apatables_2.0.8-1.ca2004.1_all.deb Size: 310700 MD5sum: b5613eab1951a81a9aaca217b37dd7a3 SHA1: 144e53e6bbd27a55a31aa516d56f48bfc18c1e5f SHA256: 2550de4a2c3c5e30d010f1284176d339d09f89eb7d335c52af244b3f01a4a687 SHA512: 6c76709f8c08fce18555b034d2fb43d99d0a7b6c7867b26cda8356ffcceb4bc8f594162be3725419e77a6fef4136a87493269aeffd8706e0c037c37392e0ce3f Homepage: https://cran.r-project.org/package=apaTables Description: CRAN Package 'apaTables' (Create American Psychological Association (APA) Style Tables) A common task faced by researchers is the creation of APA style (i.e., American Psychological Association style) tables from statistical output. In R a large number of function calls are often needed to obtain all of the desired information for a single APA style table. As well, the process of manually creating APA style tables in a word processor is prone to transcription errors. This package creates Word files (.doc files) containing APA style tables for several types of analyses. Using this package minimizes transcription errors and reduces the number commands needed by the user. 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Package: r-cran-apc Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3447 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lattice, r-cran-plyr, r-cran-reshape, r-cran-plm, r-cran-survey, r-cran-lmtest, r-cran-car, r-cran-aer, r-cran-islr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-apc_2.0.1-1.ca2004.1_all.deb Size: 2869896 MD5sum: e9042b9ad078c1dd3415a23246b5ac47 SHA1: 14b2a97fcb136cd81a8cae0dbbfc66e8e9f06ed3 SHA256: 39682e82c14ee47f43e1d480980c77efff35577c88ca7bcbcca7e55520c8225d SHA512: 3428b541731ff129a0cc5fdfb333d4fd02a5cc478b7ee33f8296fa5b4addc9d6b173242b162ab0aca3f83537688ace23f695ed58f9b55101202c5612497c2c6f Homepage: https://cran.r-project.org/package=apc Description: CRAN Package 'apc' (Age-Period-Cohort Analysis) Functions for age-period-cohort analysis. Aggregate data can be organised in matrices indexed by age-cohort, age-period or cohort-period. The data can include dose and response or just doses. The statistical model is a generalized linear model (GLM) allowing for 3,2,1 or 0 of the age-period-cohort factors. Individual-level data should have a row for each individual and columns for each of age, period, and cohort. The statistical model for repeated cross-section is a generalized linear model. The statistical model for panel data is ordinary least squares. The canonical parametrisation of Kuang, Nielsen and Nielsen (2008) is used. Thus, the analysis does not rely on ad hoc identification. Package: r-cran-apcalign Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4513 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readr, r-cran-purrr, r-cran-dplyr, r-cran-stringr, r-cran-stringi, r-cran-stringdist, r-cran-crayon, r-cran-httr, r-cran-jsonlite, r-cran-curl, r-cran-arrow, r-cran-rlang Suggests: r-cran-janitor, r-cran-tidyr, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-here, r-cran-testthat Filename: pool/dists/focal/main/r-cran-apcalign_1.1.3-1.ca2004.1_all.deb Size: 3543896 MD5sum: 1771d60eff03dae5b3acb6217c598b8f SHA1: cccbf49d9814f61e96f841f2d26c41225813bdb1 SHA256: 86ef59c4b702cdb8a90c1797b0265c0b8bff6526d9702fa9f4eabdc42f886673 SHA512: 5dd1bf7e2b0c71e3663aa5915d495196e8226da2641584dd6fd163f050ccd7e4310f69118e5e1fe311f30f7d2764d1f4935005d23e634819b972562b48088f32 Homepage: https://cran.r-project.org/package=APCalign Description: CRAN Package 'APCalign' (Resolving Plant Taxon Names Using the Australian Plant Census) The process of resolving taxon names is necessary when working with biodiversity data. 'APCalign' uses the Australian Plant Census (APC) and the Australian Plant Name Index (APNI) to align and update plant taxon names to current, accepted standards. 'APCalign' also supplies information about the established status of plant taxa across different states/territories. Package: r-cran-apcanalysis Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-apcanalysis_1.0-1.ca2004.1_all.deb Size: 50904 MD5sum: 9bce8dfaf8fab4c9fbfae95023cea64d SHA1: 2b3c07623119cc1e30c73425139c3eebab2aa8dd SHA256: 294f0b518d7be85507f16e5f868fc6cd645e47abaa40dae17aa09234bbddbb92 SHA512: 63ebccdac930ca2b193468b0ef7bc04c4df18ab2d3f532f1aa11148fb0d9e100332ffdd8b1c85289f876dd87628b5cf3d2c4773d2ac0fc259804d14c59efb838 Homepage: https://cran.r-project.org/package=APCanalysis Description: CRAN Package 'APCanalysis' (Analysis of Unreplicated Orthogonal Experiments using AllPossible Comparisons) Analysis of data from unreplicated orthogonal experiments such as 2-level factorial and fractional factorial designs and Plackett-Burman designs using the all possible comparisons (APC) methodology developed by Miller (2005) . Package: r-cran-apci Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1753 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survey, r-cran-magrittr, r-cran-dplyr, r-cran-ggplot2, r-cran-data.table, r-cran-ggpubr, r-cran-stringr, r-cran-gee Filename: pool/dists/focal/main/r-cran-apci_1.0.8-1.ca2004.1_all.deb Size: 1703632 MD5sum: 7afe7412512107a3acabd753d386de22 SHA1: 4697d77b091733ecaf6592fe21d69f0600c99a44 SHA256: 2862bf5a51f8e5a744b3231ed775a4f495a8ddf1ba697d3dbe037e7d4578ec7f SHA512: 07f2bb9bc67896f2735dc4263358802c8c80a57abe849aa808141a308a256e502ff477d3258970f74a129089072d991d41678057ff82735977830a2d54b2ecd6 Homepage: https://cran.r-project.org/package=APCI Description: CRAN Package 'APCI' (A New Age-Period-Cohort Model for Describing and InvestigatingInter-Cohort Differences and Life Course Dynamics) It implemented Age-Period-Interaction Model (APC-I Model) proposed in the paper of Liying Luo and James S. Hodges in 2019. A new age-period-cohort model for describing and investigating inter-cohort differences and life course dynamics. Package: r-cran-apcoa Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vegan, r-cran-randomcolor, r-cran-ape, r-cran-car, r-cran-cluster Filename: pool/dists/focal/main/r-cran-apcoa_1.3-1.ca2004.1_all.deb Size: 29208 MD5sum: 1197a111e8f5f17014461bf2489f10ed SHA1: f7faa805ac0e3b54ddd57bc2c7566c8fa87cbb5c SHA256: 68e0b285ffec7d09d53dfd252c37307f5c59a0579333bf02d3e495ca86722aa4 SHA512: 44c52bbd094ec93c0aeae56e62779ed85733ec08df7054454035aac7a385e42e4e574f314399e89e3aa3faea58d6d1e0cb409f418e74499ff95392290ea229ea Homepage: https://cran.r-project.org/package=aPCoA Description: CRAN Package 'aPCoA' (Covariate Adjusted PCoA Plot) In fields such as ecology, microbiology, and genomics, non-Euclidean distances are widely applied to describe pairwise dissimilarity between samples. Given these pairwise distances, principal coordinates analysis (PCoA) is commonly used to construct a visualization of the data. However, confounding covariates can make patterns related to the scientific question of interest difficult to observe. We provide 'aPCoA' as an easy-to-use tool to improve data visualization in this context, enabling enhanced presentation of the effects of interest. Details are described in Yushu Shi, Liangliang Zhang, Kim-Anh Do, Christine Peterson and Robert Jenq (2020) Bioinformatics, Volume 36, Issue 13, 4099-4101. Package: r-cran-apctools Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6016 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggpubr, r-cran-checkmate, r-cran-knitr, r-cran-ggplot2, r-cran-colorspace, r-cran-dplyr, r-cran-mgcv, r-cran-scales, r-cran-tidyr, r-cran-stringr Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-apctools_1.0.8-1.ca2004.1_all.deb Size: 4072140 MD5sum: 596b10149451924f6c51e7c05062650c SHA1: 358eec3a099b5643f053ba7e3afd47f653317d87 SHA256: 20b198c87fb60e8dd240e5662a403354e7d0defadbbb28a92c440e088dfc2a60 SHA512: ca21e55c9fbdeb98ba9d3ae5ed65e74199c6848706466fab58ed9f999dc6a036dc2f14565e58ad3742a9c72eff134cffeced7ceba54b375c47bd9ea43164d898 Homepage: https://cran.r-project.org/package=APCtools Description: CRAN Package 'APCtools' (Routines for Descriptive and Model-Based APC Analysis) Age-Period-Cohort (APC) analyses are used to differentiate relevant drivers for long-term developments. The 'APCtools' package offers visualization techniques and general routines to simplify the workflow of an APC analysis. Sophisticated functions are available both for descriptive and regression model-based analyses. For the former, we use density (or ridgeline) matrices and (hexagonally binned) heatmaps as innovative visualization techniques building on the concept of Lexis diagrams. Model-based analyses build on the separation of the temporal dimensions based on generalized additive models, where a tensor product interaction surface (usually between age and period) is utilized to represent the third dimension (usually cohort) on its diagonal. Such tensor product surfaces can also be estimated while accounting for further covariates in the regression model. See Weigert et al. (2021) for methodological details. 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This reduces the redundancy of the overlapping pathways and helps to notice the most important biological themes in the data (Kerseviciute and Gordevicius (2023) ). Package: r-cran-apercu Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pls Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-apercu_0.2.5-1.ca2004.1_all.deb Size: 27400 MD5sum: 3a427ea4ffb59315d2657ce1ebf55ce8 SHA1: 575492ff0f1bc65eb56d378fd961d5099d7adcb1 SHA256: a1b4cd8e3263042704dadf6f04e7f4dc780f2c6a6d998205a684f424e8f8dbcc SHA512: c6ed2bbc22ee689c876fa9f514de4e0be38f31441aa4e32b4c17715099221b9861c68d20d2270adb140c602ad894031b6590ecf02a6d0e9f137fbcbe2b83f75e Homepage: https://cran.r-project.org/package=apercu Description: CRAN Package 'apercu' (Quick Look at your Data) The goal is to print an "aperçu", a short view of a vector, a matrix, a data.frame, a list or an array. 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Package: r-cran-api2lm Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 410 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-api2lm_0.2-1.ca2004.1_all.deb Size: 283840 MD5sum: 546dbcdde9325da9f975e8fac860e857 SHA1: 0b5342b7d687b311b0119ccc7dcc3761ec219761 SHA256: 2a08e4fa6f08ac59adb8621f4c8c1ffff4aeb90f7df389ff2a3baf54211d0eab SHA512: a8486912cb19896993f15b8dd7a4ca1c9deb1d1acf53d32c3e1db71fc480b522e863e76ff0124cd89836ea08db7c14158adc3fb17622662c48247e97bb0c2c99 Homepage: https://cran.r-project.org/package=api2lm Description: CRAN Package 'api2lm' (Functions and Data Sets for the Book "A Progressive Introductionto Linear Models") Simplifies aspects of linear regression analysis, particularly simultaneous inference. 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See . Package: r-cran-aplore3 Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 513 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-mass, r-cran-vcdextra, r-cran-nnet, r-cran-survival, r-cran-proc Filename: pool/dists/focal/main/r-cran-aplore3_0.9-1.ca2004.1_all.deb Size: 450260 MD5sum: 31b2738f9f3e69c446bfcac230733a5e SHA1: 3830e3c0fbd29a2a034ad3847854b243137760e9 SHA256: 44e4d550673c08ee7b50446023bd51764ed1bd48f84066c4428e3b2734170ccf SHA512: f4b1deb31e400e97109d1aa977e307732914ce9d1ddcc5de950d5406d4c4fe0c828fb5dbedf4219c3bb50b18c92e25e9bbb5327bdd1e516ec2261c1782989f27 Homepage: https://cran.r-project.org/package=aplore3 Description: CRAN Package 'aplore3' (Datasets from Hosmer, Lemeshow and Sturdivant, "Applied LogisticRegression" (3rd Ed., 2013)) An unofficial companion to "Applied Logistic Regression" by D.W. Hosmer, S. Lemeshow and R.X. Sturdivant (3rd ed., 2013) containing the dataset used in the book. Package: r-cran-aplot Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggfun, r-cran-ggplot2, r-cran-ggplotify, r-cran-patchwork, r-cran-magrittr, r-cran-yulab.utils Suggests: r-bioc-ggtree Filename: pool/dists/focal/main/r-cran-aplot_0.2.7-1.ca2004.1_all.deb Size: 103020 MD5sum: 5cfedefa311a9fdcd20e973af9dac6cf SHA1: f919d9bbf9c2db714e2ff55403bcde32f85ce5f5 SHA256: 54c7879977a40d204d2cd1e7d1cef898928c4f7f979b76d370800b7a5aff126b SHA512: 0da961e2ff56d2ac8c4b4d371f33b930e9d5d5c2db118dd3e6cc707a725d9ae9afe85f00cac6fd7eaefde9f9312c80f1b4f50803e126be18972bcf254c585ce2 Homepage: https://cran.r-project.org/package=aplot Description: CRAN Package 'aplot' (Decorate a 'ggplot' with Associated Information) For many times, we are not just aligning plots as what 'cowplot' and 'patchwork' did. Users would like to align associated information that requires axes to be exactly matched in subplots, e.g. hierarchical clustering with a heatmap. Inspired by the 'Method 2' in 'ggtree' (G Yu (2018) ), 'aplot' provides utilities to aligns associated subplots to a main plot at different sides (left, right, top and bottom) with axes exactly matched. Package: r-cran-aplotextra Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-aplot, r-cran-dplyr, r-cran-forcats, r-cran-ggfun, r-cran-ggplot2, r-bioc-maftools, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-ggstar, r-cran-yulab.utils Suggests: r-bioc-ggtree, r-cran-data.table, r-cran-rcolorbrewer, r-cran-r.utils Filename: pool/dists/focal/main/r-cran-aplotextra_0.0.4-1.ca2004.1_all.deb Size: 69636 MD5sum: 394e08f4b045370c0e4aa21bddc584d4 SHA1: f5e881682b759bfd11db53deff3e14805788a24c SHA256: 66ed0603df3f66b80955266a364ff88b1d2616eab4eec3537b7b1f8bc0eef577 SHA512: df00fc5c72aeec86ac3d44623b5489321dc91507f7aeb4da4c2d9367dabe6eb44d36c9bd73af1c8d9bb437b86394657a587a895c5796f85435f0a885d436dd69 Homepage: https://cran.r-project.org/package=aplotExtra Description: CRAN Package 'aplotExtra' (Creating Composite Plots using 'aplot') Many complex plots are actually composite plots, such as 'oncoplot', 'funkyheatmap', 'upsetplot', etc. We can produce subplots using 'ggplot2' and combine them to create composite plots using 'aplot'. 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Package: r-cran-apm Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 811 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-ggh4x, r-cran-ggrepel, r-cran-mass, r-cran-sandwich, r-cran-pbapply, r-cran-fwb, r-cran-chk Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-apm_0.1.1-1.ca2004.1_all.deb Size: 497996 MD5sum: 6ef720d6d153f102eab4f87bc168a4cb SHA1: 634f583b0f8c71fc2321a3937a8706bb4802233c SHA256: a9ed11efb969d602a31ab4e0dcfe16e1fc18aced9f3431389de6fa4794d8d9c4 SHA512: 7c7dc1f8bde6d816b179ea2e57b3dc2a03b4c98a6e0b0f175ce8ce0062b59c11a8c087251bad0bf43cf6170b4aab2b7f8319d4062f442979efdada723c24ee37 Homepage: https://cran.r-project.org/package=apm Description: CRAN Package 'apm' (Averaged Prediction Models) In panel data settings, specifies set of candidate models, fits them to data from pre-treatment validation periods, and selects model as average over candidate models, weighting each by posterior probability of being most robust given its differential average prediction errors in pre-treatment validation periods. Subsequent estimation and inference of causal effect's bounds accounts for both model and sampling uncertainty, and calculates the robustness changepoint value at which bounds go from excluding to including 0. The package also includes a range of diagnostic plots, such as those illustrating models' differential average prediction errors and the posterior distribution of which model is most robust. 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For more information, please see Deng X (2021). ; H2O.ai (Oct. 2016). R Interface for H2O, R package version 3.10.0.8. ; Zhang W (2016). . 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Package: r-cran-aprof Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-testthat Filename: pool/dists/focal/main/r-cran-aprof_0.4.1-1.ca2004.1_all.deb Size: 58244 MD5sum: 95e3849213a72af1b251277029c86a41 SHA1: 366420b511bcb7d02237a507b066fac95e685797 SHA256: 387aec5dc70aeeb0a08ec20109ca767e48f36c9824c35a857286b20c716dcea5 SHA512: 5acbb13cf3d0b5af6d316916f97e8ecdea89ad34a3580cb895a709c74141a799d3704a8dffd22d6a30aa18d69d507678f118755bd27191dc344a7246d1b73687 Homepage: https://cran.r-project.org/package=aprof Description: CRAN Package 'aprof' (Amdahl's Profiler, Directed Optimization Made Easy) Assists the evaluation of whether and where to focus code optimization, using Amdahl's law and visual aids based on line profiling. Amdahl's profiler organizes profiling output files (including memory profiling) in a visually appealing way. It is meant to help to balance development vs. execution time by helping to identify the most promising sections of code to optimize and projecting potential gains. The package is an addition to R's standard profiling tools and is not a wrapper for them. Package: r-cran-apsimbatch Architecture: all Version: 0.1.0.2374-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-apsimbatch_0.1.0.2374-1.ca2004.1_all.deb Size: 38092 MD5sum: 23151fdfb9fc62788795db3a267c0190 SHA1: 1136db2d4064a210bb9dcaebc546a0303b41a349 SHA256: fb7636a737c9267b9fdec2375f17beb69b71ab2d6d3efe6cc87f5acaa6b36f50 SHA512: 5b71f0b750f0f7c81b0246d6b0f19dbf552faeb573775c048c0ac0e7d522adb3d6a4cdfc5bfa44498eba6885ee1525c12f89e3e802d8565399e4f696b6190429 Homepage: https://cran.r-project.org/package=APSIMBatch Description: CRAN Package 'APSIMBatch' (Analysis the output of Apsim software) Run APSIM in Batch mode Package: r-cran-apsimx Architecture: all Version: 2.8.235-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7043 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dbi, r-cran-jsonlite, r-cran-knitr, r-cran-rsqlite, r-cran-xml2 Suggests: r-cran-bayesiantools, r-cran-chirps, r-cran-daymetr, r-cran-future, r-cran-ggplot2, r-cran-gsodr, r-cran-listviewer, r-cran-maps, r-cran-metrica, r-cran-mvtnorm, r-cran-nasapower, r-cran-nloptr, r-cran-parallelly, r-cran-reactr, r-cran-rmarkdown, r-cran-sensitivity, r-cran-soildb, r-cran-sp, r-cran-spdata, r-cran-sf, r-cran-ucminf Filename: pool/dists/focal/main/r-cran-apsimx_2.8.235-1.ca2004.1_all.deb Size: 1476108 MD5sum: 3c223bfa3b84adf39522d54ef6567791 SHA1: 633c5bf49f640247a6985d831a151b731b22d0b1 SHA256: 93bbf760e353ade23af77427d2e37bc224fe86b58aac1778e95bcdeaf535548d SHA512: b10dd71743cce5ace8f7e22596906c23c74306f98c79e8ebf5140ece781a32cb5f266e486a85b47cb291faab22f395d7a45615c8c8d9b91b8f7e0f2365c9fc55 Homepage: https://cran.r-project.org/package=apsimx Description: CRAN Package 'apsimx' (Inspect, Read, Edit and Run 'APSIM' "Next Generation" and'APSIM' Classic) The functions in this package inspect, read, edit and run files for 'APSIM' "Next Generation" ('JSON') and 'APSIM' "Classic" ('XML'). The files with an 'apsim' extension correspond to 'APSIM' Classic (7.x) - Windows only - and the ones with an 'apsimx' extension correspond to 'APSIM' "Next Generation". For more information about 'APSIM' see () and for 'APSIM' next generation (). Package: r-cran-apt Architecture: all Version: 4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-erer, r-cran-car, r-cran-urca Filename: pool/dists/focal/main/r-cran-apt_4.0-1.ca2004.1_all.deb Size: 92308 MD5sum: a22bbca4646f2c2e6387807176f29d49 SHA1: 82c4cad33c0933ee38ae00fe64db385e80ae06ed SHA256: 3c27317d9a00cbb1eef5168df07dac86fe8c59a5115a2dabfdeeca5cb1ce4d8c SHA512: bfcf554e6968f24d08f0573254d73d41ab9dd0dab7e52d79105c36adc60247892dc16c6c4f268fd460a88b1a1664e0f07b2d39b8dfb71189312bed2dc94a9448 Homepage: https://cran.r-project.org/package=apt Description: CRAN Package 'apt' (Asymmetric Price Transmission) The transmission between two time-series prices is assessed. It contains several functions for linear and nonlinear threshold co-integration, and furthermore, symmetric and asymmetric error correction models. Package: r-cran-apticalc Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-shiny, r-cran-ggplot2 Suggests: r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-apticalc_0.1.0-1.ca2004.1_all.deb Size: 28380 MD5sum: 9126293ed27ad7808dfdbe421bbbe965 SHA1: 5bb7743ad7f6d9244bf6e1e44b029336e93f0e8b SHA256: 1a7b0129dea4b6c0c6f6f706ecf28403abdf1dff67e4e92173b792fe7ae3a4dd SHA512: cea813b1f4e81b74086be36abba35451244724530f6da6758d6b3627bd733180b696d9d9bf54163a455a3cffd8432b104319c39f74d71a6944049c233e4977ae Homepage: https://cran.r-project.org/package=APTIcalc Description: CRAN Package 'APTIcalc' (Air Pollution Tolerance Index (APTI) Calculator) It calculates the Air Pollution Tolerance Index (APTI) of plant species using biochemical parameters such as chlorophyll content, leaf extract pH, relative water content, and ascorbic acid content. It helps in identifying tolerant species for greenbelt development and pollution mitigation studies. It includes a 'shiny' app for interactive APTI calculation and visualisation. For method details see, Sahu et al. (2020).. Package: r-cran-aptools Architecture: all Version: 6.8.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-cmprsk Filename: pool/dists/focal/main/r-cran-aptools_6.8.8-1.ca2004.1_all.deb Size: 75156 MD5sum: beb2d9c3b30ae4eed04cbfe011017e34 SHA1: 849e3fe8660c5b68456c7a4261e0d3bd2f1fdac8 SHA256: 7dd9c7766b0886c112d3fb269f32beec91406a94e41a56b6cd4bc0939b0352fa SHA512: 3000231a30469c68c3115480d58e3854972b1cb6a0ca96b4b537990ed8a9ac27627207e5226c37c97d94d7fc699b7d1ad67bc3e4191b9612ec82daae6c2bd7d3 Homepage: https://cran.r-project.org/package=APtools Description: CRAN Package 'APtools' (Average Positive Predictive Values (AP) for Binary Outcomes andCensored Event Times) We provide tools to estimate two prediction accuracy metrics, the average positive predictive values (AP) as well as the well-known AUC (the area under the receiver operator characteristic curve) for risk scores. The outcome of interest is either binary or censored event time. Note that for censored event time, our functions' estimates, the AP and the AUC, are time-dependent for pre-specified time interval(s). A function that compares the APs of two risk scores/markers is also included. Optional outputs include positive predictive values and true positive fractions at the specified marker cut-off values, and a plot of the time-dependent AP versus time (available for event time data). Package: r-cran-aptreeshape Architecture: all Version: 1.5-0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 359 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-quantreg, r-cran-cubature, r-cran-coda, r-cran-pbapply Filename: pool/dists/focal/main/r-cran-aptreeshape_1.5-0.1-1.ca2004.1_all.deb Size: 317248 MD5sum: aa27d65170549e9196e17bcd1560779e SHA1: 1fff39c4d7514832558784317bf57acc0579263d SHA256: cfd26f3e91c585f5b16eb91b9519edc4ffe7e0a9919cf834d47d61475ec2daea SHA512: 5ccaaf0f3986d2fbe43f09fe97e4b95b4762e3f7c554878b1d88963b983d6362d58fafb8d4fdfe2633d89a655bd667fc506b16985b96c0575e17a1668704ab9f Homepage: https://cran.r-project.org/package=apTreeshape Description: CRAN Package 'apTreeshape' (Analyses of Phylogenetic Treeshape) Simulation and analysis of phylogenetic tree topologies using statistical indices. It is a companion library of the 'ape' package. It provides additional functions for reading, plotting, manipulating phylogenetic trees. It also offers convenient web-access to public databases, and enables testing null models of macroevolution using corrected test statistics. Trees of class "phylo" (from 'ape' package) can be converted easily. Implements methods described in Bortolussi et al. (2005) and Maliet et al. (2017) . Package: r-cran-apyramid Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1081 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-tidyselect, r-cran-rlang, r-cran-forcats, r-cran-dplyr, r-cran-scales, r-cran-glue Suggests: r-cran-testthat, r-cran-survey, r-cran-srvyr, r-cran-vdiffr, r-cran-covr, r-cran-outbreaks, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-apyramid_0.1.3-1.ca2004.1_all.deb Size: 798020 MD5sum: 1a1451fc185f97b9d81493fef3fd2102 SHA1: 7c4307ced7423d72ff9a944a9663fdffeaf83027 SHA256: 59bb5d20ef51a1d30baf41f1da9892ffda9434d5eb2ad61e09c5a6b8e02e94c4 SHA512: df7aefd8e0622bcff420ad62185ced39db2e4f8aefb12976607af754596684dc0467e8a5c4167a94a63e77014cd149e8dc6a4d03a2160d0a5ec9d4e11bdcc205 Homepage: https://cran.r-project.org/package=apyramid Description: CRAN Package 'apyramid' (Visualize Population Pyramids Aggregated by Age) Provides a quick method for visualizing non-aggregated line-list or aggregated census data stratified by age and one or two categorical variables (e.g. gender and health status) with any number of values. It returns a 'ggplot' object, allowing the user to further customize the output. This package is part of the 'R4Epis' project . Package: r-cran-aqeval Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1034 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openair, r-cran-dplyr, r-cran-loa, r-cran-ggplot2, r-cran-strucchange, r-cran-segmented, r-cran-mgcv, r-cran-tidyr, r-cran-lubridate, r-cran-purrr, r-cran-ggtext, r-cran-data.table Filename: pool/dists/focal/main/r-cran-aqeval_0.6.0-1.ca2004.1_all.deb Size: 854764 MD5sum: 5ead73eae7895e865ba7e6215d3216bd SHA1: cd6b567cc92b517f8c792d1eebb0f3ea5ba0b646 SHA256: 877dd8281d4364ec0cb33e30992756cc9b4a34976dff9a875e39113ae6bcb2f5 SHA512: b10fb950622fd1b05faf387f328c36111032d85c77109f3baee409288160ef0972ee23a9c9f70c3a337ee42c2ca39d0849b34ebcf405dd5d8a30a91e69f3d594 Homepage: https://cran.r-project.org/package=AQEval Description: CRAN Package 'AQEval' (Air Quality Evaluation) Developed for use by those tasked with the routine detection, characterisation and quantification of discrete changes in air quality time-series, such as identifying the impacts of air quality policy interventions. The main functions use signal isolation then break-point/segment (BP/S) methods based on 'strucchange' and 'segmented' methods to detect and quantify change events (Ropkins & Tate, 2021, ). Package: r-cran-aqfig Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-geor Suggests: r-cran-maps Filename: pool/dists/focal/main/r-cran-aqfig_0.9-1.ca2004.1_all.deb Size: 52596 MD5sum: 5a66ddc2f0371b46c49ece1c82e47c8d SHA1: daa70f4994bc5ebd9fab6949a98c3fad73164419 SHA256: d5f521f0f0830ada37fabf0ba9c1a87144c0afc8af0d142117dfb63f91eca0ae SHA512: 3f63c36a42c0c56d7af1a718735b67ad52626fcd43d340bc4d1c978ce30ad868534626585190616a0c63d889baa113696001f26544104e03617391a05f84caf0 Homepage: https://cran.r-project.org/package=aqfig Description: CRAN Package 'aqfig' (Display Air Quality Model Output and Monitoring Data) Display air quality model output and monitoring data using scatterplots, grids, and legends. Package: r-cran-aqlschemes Architecture: all Version: 1.7-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 408 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-aqlschemes_1.7-2-1.ca2004.1_all.deb Size: 353776 MD5sum: b5cc17e0322849eed40a30a3e15a171a SHA1: 11283fbbb15cd434563b291b3bad080ecade9c92 SHA256: 94c9dc5fdfffef2d7e24bce252afd8be310ac3f3d714e0468e530fc5d6d0d8dd SHA512: bdad1e511c2a247512e516188133be1abd5d6157e577aedae75a50c5b9d6031c253c2bd4a6a0f05c5cd35ad2bb8ef7eb2b4a24f641f2bf2ae6a2ff859a9f0a42 Homepage: https://cran.r-project.org/package=AQLSchemes Description: CRAN Package 'AQLSchemes' (Retrieving Acceptance Sampling Schemes) Functions are included for recalling AQL (Acceptable Quality Level or Acceptance Quality Level) Based single, double, and multiple attribute sampling plans from the Military Standard (MIL-STD-105E) - American National Standards Institute/American Society for Quality (ANSI/ASQ Z1.4) tables and for retrieving variable sampling plans from Military Standard (MIL-STD-414) - American National Standards Institute/American Society for Quality (ANSI/ASQ Z1.9) tables. The sources for these tables are listed in the URL: field. Also included are functions for computing the OC (Operating Characteristic) and ASN (Average Sample Number) coordinates for the attribute plans it recalls, and functions for computing the estimated proportion nonconforming and the maximum allowable proportion nonconforming for variable sampling plans. The MIL-STD AQL Sampling schemes were the most used and copied set of standards in the world. They are intended to be used for sampling a stream of lots, and were used in contract agreements between supplier and customer companies. When the US military dropped support of MIL-STD 105E and 414, The American National Standards Institute (ANSI) and the International Standards Organization (ISO) adopted the standard with few changes or no changes to the central tables. This package is useful because its computer implementation of these tables duplicates that available in other commercial software and subscription online calculators. Package: r-cran-aqp Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5158 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice, r-cran-cluster, r-cran-stringr, r-cran-data.table, r-cran-farver, r-cran-digest, r-cran-colorspace, r-cran-ape Suggests: r-cran-mvtnorm, r-cran-soildb, r-cran-sp, r-cran-sf, r-cran-latticeextra, r-cran-tactile, r-cran-compositions, r-cran-markovchain, r-cran-xtable, r-cran-testthat, r-cran-gmedian, r-cran-hmisc, r-cran-tibble, r-cran-rcolorbrewer, r-cran-scales, r-cran-mpspline2, r-cran-soiltexture, r-cran-gower, r-cran-knitr, r-cran-rmarkdown, r-cran-dendextend Filename: pool/dists/focal/main/r-cran-aqp_2.2-1.ca2004.1_all.deb Size: 4158100 MD5sum: ad8bbf4e34a124632826524a15d4386a SHA1: a0241273d703ba62f22fac8299acd0045ce7d6db SHA256: f33357efd81b43aed49a1a6a85baf5e50957168381bf558be4799c5dda5b6c54 SHA512: d145bc516dee519a1a0742f76fb84002b2ac7e1b22a9f4776b98835c0a6b8cea054b2a7b18357ba24a54b3bfc2a2fd093a476fa66ad14ef775de1f0777326113 Homepage: https://cran.r-project.org/package=aqp Description: CRAN Package 'aqp' (Algorithms for Quantitative Pedology) The Algorithms for Quantitative Pedology (AQP) project was started in 2009 to organize a loosely-related set of concepts and source code on the topic of soil profile visualization, aggregation, and classification into this package (aqp). Over the past 8 years, the project has grown into a suite of related R packages that enhance and simplify the quantitative analysis of soil profile data. Central to the AQP project is a new vocabulary of specialized functions and data structures that can accommodate the inherent complexity of soil profile information; freeing the scientist to focus on ideas rather than boilerplate data processing tasks . These functions and data structures have been extensively tested and documented, applied to projects involving hundreds of thousands of soil profiles, and deeply integrated into widely used tools such as SoilWeb . Components of the AQP project (aqp, soilDB, sharpshootR, soilReports packages) serve an important role in routine data analysis within the USDA-NRCS Soil Science Division. The AQP suite of R packages offer a convenient platform for bridging the gap between pedometric theory and practice. Package: r-cran-aquaanalytix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-aquaanalytix_0.1.0-1.ca2004.1_all.deb Size: 34620 MD5sum: 547d0972542386c36f178e130bdb0086 SHA1: 108c3da038b023db6e6726deb55e8c7a7deca445 SHA256: 378a120f0b0a7d7230a7a5509331cc3c442175886ab8ca9a3123e1e4f60b1158 SHA512: 72b793b2ad740ddab691226e7a5db7552c361bb2298d6e3aa907e54777269af61ce235b23d60cbe629e2d911a606a6c7eb67d8ff79901ea9d07cffd325681ae5 Homepage: https://cran.r-project.org/package=AquaAnalytix Description: CRAN Package 'AquaAnalytix' (Water Quality Analysis) A varied array of mathematical derivations from various titrimetric and colorimetric methods for analyzing water quality parameters were condensed and integrated for the better physicochemical analysis. It is indispensable for managing any aquatic ecosystem, including aquaculture facilities. By substituting titrant and spectrophotometric absorbance readings, accurate determination of the concentrations of critical parameters such as Dissolved Oxygen, Free Carbon Dioxide, Total Alkalinity, Water Hardness, Hydrogen Sulfide, Total Ammonia Nitrogen, Nitrite, Nitrate, Chlorinity, Salinity, Inorganic Phosphate, and Transparency can be facilitated APHA(2017,ISBN:9780875532875). Package: r-cran-aquabeher Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4220 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-lubridate, r-cran-magrittr, r-cran-rlang, r-cran-sp, r-cran-terra, r-cran-zoo Suggests: r-cran-ggplot2, r-cran-ggrepel, r-cran-knitr, r-cran-learnr, r-cran-prettydoc, r-cran-rmarkdown, r-cran-scales, r-cran-stringr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-aquabeher_1.4.0-1.ca2004.1_all.deb Size: 3224808 MD5sum: 4569a255b9cf46a8c040c62cf21ae167 SHA1: 5b26bdef64bd4e8a144d9c02894fbb70fa436c00 SHA256: 934c371eb1b67562bc6e839c4530918d9c6b77abde7d2b8de51cd5873d1bce16 SHA512: 638734f1c6940db60c278f93a24038e79eda0c8195aa3d6b4be1cd1f4ed17aaf2cd70c27dc508da0c906df119c18dd7eb42f1b04f1cc1e25ae286a6d9d0c8d5a Homepage: https://cran.r-project.org/package=AquaBEHER Description: CRAN Package 'AquaBEHER' (Estimation and Prediction of Wet Season Calendar and Soil WaterBalance for Agriculture) Computes and integrates daily potential evapotranspiration (PET) and a soil water balance model. It allows users to estimate and predict the wet season calendar, including onset, cessation, and duration, based on an agroclimatic approach for a specified period. This functionality helps in managing agricultural water resources more effectively. For detailed methodologies, users can refer to Allen et al. (1998, ISBN:92-5-104219-5); Allen (2005, ISBN:9780784408056); Doorenbos and Pruitt (1975, ISBN:9251002797); Guo et al. (2016) ; Hargreaves and Samani (1985) ; Priestley and Taylor (1972) . Package: r-cran-aquabpsim Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matlib, r-cran-mass, r-cran-pedigree, r-cran-readxl Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-aquabpsim_0.0.1-1.ca2004.1_all.deb Size: 149792 MD5sum: 2bccbe1846ed338db868d96a7539483d SHA1: 36be54471fb52138aaf1233aca4d5efcb3da10ce SHA256: e8e6823862e92be02c85df1af4c3c1451b1998794163139b9be6ec32943570da SHA512: d63dde85bed64ce409bec8eeb6e5e82457a5f6b2729ef6dc65ba4555cd4685c942f6e9308a5e1246551123c16618e6ebabe49b5cc5ef3a26f0dc1614ecb0de26 Homepage: https://cran.r-project.org/package=AquaBPsim Description: CRAN Package 'AquaBPsim' (Aquaculture Breeding Program Simulation) Breeding programs can be simulated with this package. The functions are written to simulate production and reproduction systems encountered in aquaculture and are easy to combine with custom functions. Simulating breeding programs is useful to predict the expected genetic gain, rate of inbreeding and the effect of changes in the breeding program. AquaBPsim does not simulate genome wide-markers and QTLs, but it simulates estimated breeding values as values correlated to the true breeding values. The correlation equals the accuracy, which can be provided or calculated using deterministic formulas. For genomic selection, the accuracy can be calculate using the formula of Deatwyler et al. (2010) . Without genomic selection, accuracy can be calculated with the selection index method (Mrode, 2014. ISBN:978-1-84593-981-6). Package: r-cran-aquadtree Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4768 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sp, r-cran-dplyr Suggests: r-cran-sf, r-cran-knitr, r-cran-devtools, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-aquadtree_1.0.4-1.ca2004.1_all.deb Size: 4677316 MD5sum: 5bfbd8fbb4779b4d53352e5c5d18a560 SHA1: 4c2c4c9c2566eb3cfbb2ec4dd23fced750915880 SHA256: bb40b5cceeb30859df8d6267a8b8fc57fb1d3eab0d246b69c3c97ec26218e7d0 SHA512: 92accfedfcb4971a15b3f897e57a5bad93c500d47d374264d6ebb2a8b8c46f78a201d644718acaad82c2827261ca64ac52bf7df23592e4a045e64f413d018796 Homepage: https://cran.r-project.org/package=AQuadtree Description: CRAN Package 'AQuadtree' (Confidentiality of Spatial Point Data) Provides an automatic aggregation tool to manage point data privacy, intended to be helpful for the production of official spatial data and for researchers. The package pursues the data accuracy at the smallest possible areas preventing individual information disclosure. The methodology, based on hierarchical geographic data structures performs aggregation and local suppression of point data to ensure privacy as described in Lagonigro, R., Oller, R., Martori J.C. (2017) . The data structures are created following the guidelines for grid datasets from the European Forum for Geography and Statistics. Package: r-cran-aquaenv Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1219 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-minpack.lm Suggests: r-cran-desolve Filename: pool/dists/focal/main/r-cran-aquaenv_1.0-4-1.ca2004.1_all.deb Size: 996764 MD5sum: 1d56c4f2899f3124cc376ce1fc0b1874 SHA1: 5778516e92e975ed18317168146bcc6808ad0af5 SHA256: b2f7a6a91bb6609ef1160dba9650e34bd6aa4bcdd84bd6573fa1063169755cc3 SHA512: 96301e4f9b3d2574314732937758fc93740dea1f4332910101db309700ab3994dba00176964c26dce28a54707e935c596b8b82bb4e5a58ae161c911d10f785a9 Homepage: https://cran.r-project.org/package=AquaEnv Description: CRAN Package 'AquaEnv' (Integrated Development Toolbox for Aquatic Chemical ModelGeneration) Toolbox for the experimental aquatic chemist, focused on acidification and CO2 air-water exchange. It contains all elements to model the pH, the related CO2 air-water exchange, and aquatic acid-base chemistry for an arbitrary marine, estuarine or freshwater system. It contains a suite of tools for sensitivity analysis, visualisation, modelling of chemical batches, and can be used to build dynamic models of aquatic systems. As from version 1.0-4, it also contains functions to calculate the buffer factors. Package: r-cran-aquality Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-aquality_1.4-1.ca2004.1_all.deb Size: 122648 MD5sum: f9c7b1bdd697ef07da85e46eb19f5742 SHA1: e672c0de912ac3f8e8c4ffba5edc7637efea9483 SHA256: 65161beb64b0b0cc31852761dc4912687351997d07c3de60a6ed6b430a58bab1 SHA512: 343466fb55ea4df1021215545028170dc1ad29d7f32e97972f578091676bdd43ab5a2ece6ac83792f813c7a89a9b7994d47cf83a72b58a2700c02579f0d7261d Homepage: https://cran.r-project.org/package=AQuality Description: CRAN Package 'AQuality' (Water and Measurements Quality) The functions proposed in this package allows to evaluate the process of measurement of the chemical components of water numerically or graphically. TSSS(), ICHS and datacheck() functions are useful to control the quality of measurements of chemical components of a sample of water. If one or more measurements include an error, the generated graph will indicate it with a position of the point that represents the sample outside the confidence interval. The function CI() allows to evaluate the possibility of contamination of a water sample after being obtained. Validation() is a function that allows to calculate the quality parameters of a technique for the measurement of a chemical component. Package: r-cran-aquaticlifehistory Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 457 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-plyr, r-cran-mass, r-cran-readr, r-cran-broom, r-cran-mumin, r-cran-magrittr, r-cran-rlist, r-cran-minpack.lm, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-aquaticlifehistory_1.0.5-1.ca2004.1_all.deb Size: 252660 MD5sum: 81e264b8b71b0753eebee581c026cca1 SHA1: 377e4df096f96d098608c61d108aa15fbee86f13 SHA256: 88844df0dba87a237292994471796a3750596c857ebb51e557beaf88b29cb7a8 SHA512: 541f9d316701cc8a437bd549ae635db267fbc84ebaace3ae9b37015e79ffe54f294badf20269861a89c36d3caa530a6e55bb8d18d1655f5235b8bf43cd4a3152 Homepage: https://cran.r-project.org/package=AquaticLifeHistory Description: CRAN Package 'AquaticLifeHistory' (Life History Analysis Tools) Estimate aquatic species life history using robust techniques. This package supports users undertaking two types of analysis: 1) Growth from length-at-age data, and 2) maturity analyses for length and/or age data. Maturity analyses are performed using generalised linear model approaches incorporating either a binomial or quasibinomial distribution. Growth modelling is performed using the multimodel approach presented by Smart et al. (2016) "Multimodel approaches in shark and ray growth studies: strengths, weaknesses and the future" . Package: r-cran-aquodom Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble, r-cran-httr, r-cran-memoise, r-cran-cachem, r-cran-magrittr, r-cran-dplyr, r-cran-stringr, r-cran-lubridate, r-cran-readr, r-cran-glue, r-cran-rlang, r-cran-openxlsx Suggests: r-cran-testthat, r-cran-readxl Filename: pool/dists/focal/main/r-cran-aquodom_0.1.1-1.ca2004.1_all.deb Size: 32668 MD5sum: 119800a4056f84a69b290fbf80fbb7a3 SHA1: 54531db7638a036a96502ce98509ef3be8a7828d SHA256: 3606ccdef48f6f79471768656a358b99d35f9461380c15588b0660b8b78cfb07 SHA512: 6385ceff13bb1cafe37c5e23e0b745f5911713cef7c380fc7f6627c568c6a08a85fe92f106ac85a0deb87d2b9ed1ca2342b7371c13ddb9dc6df70011a2b63188 Homepage: https://cran.r-project.org/package=aquodom Description: CRAN Package 'aquodom' (Access to Aquo domaintables from R (Dutch)) The Aquo Standard is the Dutch Standard for the exchange of data in water management. With *aquodom* (short for aquo domaintables) it is easy to exploit the API () to download domaintables of the Aquo Standard and use them in R. Package: r-cran-ar.matrix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 490 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-sparsemvn, r-cran-sp Suggests: r-cran-ggplot2, r-cran-leaflet Filename: pool/dists/focal/main/r-cran-ar.matrix_0.1.0-1.ca2004.1_all.deb Size: 451284 MD5sum: 784a5c73894505c51857add485db111c SHA1: 8a042a79f1cb69173d2ead82c3b29d865f4f2eb3 SHA256: 4b664eb55348bc96cbebc309b14c8e0a54f85bf9a3f617ed792143ff682bac63 SHA512: 27e09766ace3e479f45443d2f7700c8911cfcf0fec7f03710ef3a10664b897c2ba83bef7cb2faedfa05685357bc894ac1bf4f198990e61f646f6615f7e0d2def Homepage: https://cran.r-project.org/package=ar.matrix Description: CRAN Package 'ar.matrix' (Simulate Auto Regressive Data from Precision Matricies) Using sparse precision matricies and Choleski factorization simulates data that is auto-regressive. Package: r-cran-ar Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-distrib Filename: pool/dists/focal/main/r-cran-ar_1.1-1.ca2004.1_all.deb Size: 26096 MD5sum: 0441126a5d4f48f3c9fb619266a039da SHA1: df5cecca61f67f4bc321bbeab23ccee3d0f8307e SHA256: 738118e4b637a18f6f7777af91e4b638b51805452d356db72d242556f65e06b1 SHA512: d543c32055a4d3eb7d033d5f5b52efed17c28b6ba17a2a3c794993f6f3caaaac5a2a035d5f00e4354c6de1772e7f2266e8b0e389820fb295834eb2511f82331b Homepage: https://cran.r-project.org/package=AR Description: CRAN Package 'AR' (Another Look at the Acceptance-Rejection Method) In mathematics, 'rejection sampling' is a basic technique used to generate observations from a distribution. It is also commonly called 'the Acceptance-Rejection method' or 'Accept-Reject algorithm' and is a type of Monte Carlo method. 'Acceptance-Rejection method' is based on the observation that to sample a random variable one can perform a uniformly random sampling of the 2D cartesian graph, and keep the samples in the region under the graph of its density function. Package 'AR' is able to generate/simulate random data from a probability density function by Acceptance-Rejection method. Moreover, this package is a useful teaching resource for graphical presentation of Acceptance-Rejection method. From the practical point of view, the user needs to calculate a constant in Acceptance-Rejection method, which package 'AR' is able to compute this constant by optimization tools. Several numerical examples are provided to illustrate the graphical presentation for the Acceptance-Rejection Method. Package: r-cran-arabic2kansuji Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-purrr, r-cran-stringr Filename: pool/dists/focal/main/r-cran-arabic2kansuji_0.1.3-1.ca2004.1_all.deb Size: 20540 MD5sum: 66982c6b0307bd8680383e4e8fd299fd SHA1: 298e6e72fba10799fd66f578c82315830496996a SHA256: a688da2aa4f42c466f19ff96be0bfe1e320251337fa86a80dfe59c5a5de0531d SHA512: f1842e9ef060e3b48d6e080a646237e8f462c8bb14cba111d4161cf06bd4c87ab0b812e84ddf4f68a76c476a7bfacb3a98df72c5092d3dc86039dc11fdfd614d Homepage: https://cran.r-project.org/package=arabic2kansuji Description: CRAN Package 'arabic2kansuji' (Convert Arabic Numerals to Kansuji) Simple functions to convert given Arabic numerals to Kansuji numerical figures that represent numbers written in Chinese characters. Package: r-cran-arabicstemr Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-arabicstemr_1.3-1.ca2004.1_all.deb Size: 77944 MD5sum: 6d4369f8d5dd00fecffe256dc1acec5f SHA1: 730be012b7bfc0f3274c7e90dd2a5bdbdbf70cfc SHA256: f69b183fbffdcab1a75194a38bd06f1a85d7c470cbb3ab4104dc7a92693300fd SHA512: ac9295fead5af492fb576326c92722ca097ac4f97a7961c1190b40f244bdbb26eafafe8c6715f184645cf5f9ed99e619d6e5042502ac663266d188eab9bb9129 Homepage: https://cran.r-project.org/package=arabicStemR Description: CRAN Package 'arabicStemR' (Arabic Stemmer for Text Analysis) Allows users to stem Arabic texts for text analysis. Package: r-cran-arakno Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ape, r-cran-httr, r-cran-jsonlite, r-cran-phytools, r-cran-rgbif, r-cran-rworldmap, r-cran-rworldxtra Filename: pool/dists/focal/main/r-cran-arakno_1.3.0-1.ca2004.1_all.deb Size: 139532 MD5sum: ec503164d2614af98a9ffdb2d5a0a345 SHA1: 41d0d5fcdc52ab1efac3c196efc457eac8608acf SHA256: 88747541ea5e59191f04624f8e27439a396d9361640e9a82857e0ff61c619402 SHA512: 62c9bac92d45f44d1294f69b7d7f2e36502dc22d8714fb38b40e195e67e985fa120ccc139c3e28cdcd00b9a704432365cba1a60eefdc88d7d9492fefb5fe6c96 Homepage: https://cran.r-project.org/package=arakno Description: CRAN Package 'arakno' (ARAchnid KNowledge Online) Allows the user to connect with the World Spider Catalogue (WSC; ) and the World Spider Trait (WST; ) databases. Also performs several basic functions such as checking names validity, retrieving coordinate data from the Global Biodiversity Information Facility (GBIF; ), and mapping. Package: r-cran-ararredux Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 467 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ararredux_1.0-1.ca2004.1_all.deb Size: 270128 MD5sum: 013c0c2801df28f9650bd8d03f702266 SHA1: f11fe735c6a76c80759c98e1da9dfbdf0eca6928 SHA256: 6d6a8d1c243ddcb0225f20ff8c12ce2827b2aca78b9c9750f6238af1fb4ee2f6 SHA512: addf6e11c8b56853db3c98e3bf901ee72a3ea3cd9274581ed5777afab417cef4045e5fba1d13434f03fdf9429e52b23bab620e59258021b5d5af0530c167c1b1 Homepage: https://cran.r-project.org/package=ArArRedux Description: CRAN Package 'ArArRedux' (Rigorous Data Reduction and Error Propagation of Ar40 / Ar39Data) Processes noble gas mass spectrometer data to determine the isotopic composition of argon (comprised of Ar36, Ar37, Ar38, Ar39 and Ar40) released from neutron-irradiated potassium-bearing minerals. Then uses these compositions to calculate precise and accurate geochronological ages for multiple samples as well as the covariances between them. Error propagation is done in matrix form, which jointly treats all samples and all isotopes simultaneously at every step of the data reduction process. Includes methods for regression of the time-resolved mass spectrometer signals to t=0 ('time zero') for both single- and multi-collector instruments, blank correction, mass fractionation correction, detector intercalibration, decay corrections, interference corrections, interpolation of the irradiation parameter between neutron fluence monitors, and (weighted mean) age calculation. All operations are performed on the logs of the ratios between the different argon isotopes so as to properly treat them as 'compositional data', sensu Aitchison [1986, The Statistics of Compositional Data, Chapman and Hall]. Package: r-cran-arc Architecture: all Version: 1.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 285 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arules, r-cran-r.utils, r-cran-discretization, r-cran-matrix Suggests: r-cran-qcba Filename: pool/dists/focal/main/r-cran-arc_1.4.2-1.ca2004.1_all.deb Size: 228484 MD5sum: 76eb609ec27f3f28c697c157d67b24d9 SHA1: cabda45be3dad258cfec4d05c5d57421d2718531 SHA256: b6a42966d1d02354e56e3d49b4ac2f867a4ccdbea1f1ee99063c47ec7f731fa4 SHA512: 3f4ea872f541d11d3f41e09474656ce789680726eb7776dcf836a615c3a7900db5948afc46324f8b78c7a0f894f96f3e4936a94b27fc8e717eb5c1ec0337544a Homepage: https://cran.r-project.org/package=arc Description: CRAN Package 'arc' (Association Rule Classification) Implements the Classification-based on Association Rules (CBA) algorithm for association rule classification. The package, also described in Hahsler et al. (2019) , contains several convenience methods that allow to automatically set CBA parameters (minimum confidence, minimum support) and it also natively handles numeric attributes by integrating a pre-discretization step. The rule generation phase is handled by the 'arules' package. To further decrease the size of the CBA models produced by the 'arc' package, postprocessing by the 'qCBA' package is suggested. Package: r-cran-arcgeocoder Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 666 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-jsonlite Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-testthat, r-cran-tibble, r-cran-tidygeocoder Filename: pool/dists/focal/main/r-cran-arcgeocoder_0.2.1-1.ca2004.1_all.deb Size: 542196 MD5sum: 37eca880f17a1aa357df5587e4e11df2 SHA1: 0ac4b8d6ddcf3c511b6b6063621217c9184fffd0 SHA256: db25659677b04599ca11e2089f69f9f89b6e72cbc3b740aed67b8b12b7870c66 SHA512: 958f69a47f25f174047fc1aab425e13a941ab0005cd94ff89d7ed2d95f25ab77862ccd271b0514048ac2418d9bc88202e0215e4b44a7bd1311ef222640e478d0 Homepage: https://cran.r-project.org/package=arcgeocoder Description: CRAN Package 'arcgeocoder' (Geocoding with the 'ArcGIS' REST API Service) Lite interface for finding locations of addresses or businesses around the world using the 'ArcGIS' REST API service . Address text can be converted to location candidates and a location can be converted into an address. No API key required. Package: r-cran-arcgis Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arcgisgeocode, r-cran-arcgislayers, r-cran-arcgisplaces, r-cran-arcgisutils, r-cran-cli, r-cran-httr2 Suggests: r-cran-arcpbf, r-cran-calcite, r-cran-testthat Filename: pool/dists/focal/main/r-cran-arcgis_0.2.0-1.ca2004.1_all.deb Size: 15064 MD5sum: 9984188c3db3315d62e82f53aa068b10 SHA1: 20fe922818a8990ffcc94394bb336b5f8c122c11 SHA256: 2fb4130303f7fd349c2c50c8ef842703864a2566db9617f1cebb1366b6e0b077 SHA512: 79b138ca2ed7fdd622a239f58fd84c0099dcae9769d0f6745b492dfdb1dc1e151398691b16e305015dd32f6cc83f51bb7e216278e5a3729733d2e17e545a1dc8 Homepage: https://cran.r-project.org/package=arcgis Description: CRAN Package 'arcgis' (ArcGIS Location Services Meta-Package) Provides easy installation and loading of core ArcGIS location services packages 'arcgislayers', 'arcgisutils', 'arcgisgeocode', and 'arcgisplaces'. Enabling developers to interact with spatial data and services from 'ArcGIS Online', 'ArcGIS Enterprise', and 'ArcGIS Platform'. Learn more about the 'arcgis' meta-package at . Package: r-cran-arcgislayers Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1161 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arcgisutils, r-cran-arcpbf, r-cran-cli, r-cran-httr2, r-cran-jsonify, r-cran-lifecycle, r-cran-rcppsimdjson, r-cran-rlang, r-cran-sf, r-cran-terra Suggests: r-cran-dbplyr, r-cran-dplyr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyselect, r-cran-vctrs Filename: pool/dists/focal/main/r-cran-arcgislayers_0.4.0-1.ca2004.1_all.deb Size: 1087148 MD5sum: a79023a590c128245e3a588d1bf0b843 SHA1: 9d9ad2757d7ff21aaa939fd104642f079c1303cb SHA256: 36d12964155526bf3f15fc219c55730c56029e373342ceab2694ce7f933a31d6 SHA512: d7c228bec3ff6e6ac313cdb471557f976c2d1160432a0df2d4d9bae4cb0ec4efc17ac4a5b348baba73b357b2dc04225621b2c2413e4f626271f2e7b97ab0521a Homepage: https://cran.r-project.org/package=arcgislayers Description: CRAN Package 'arcgislayers' (An Interface to ArcGIS Data Services) Enables users of 'ArcGIS Enterprise', 'ArcGIS Online', or 'ArcGIS Platform' to read, write, publish, or manage vector and raster data via ArcGIS location services REST API endpoints . Package: r-cran-archaeochron Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 811 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-rjags, r-cran-archaeophases, r-cran-bchron Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-archaeochron_0.1-1.ca2004.1_all.deb Size: 576484 MD5sum: 9b0fbd890f12bf9a88e5164937e0c2b3 SHA1: 5399aaf42a44b66a8afb082613c56cf58c738ce6 SHA256: c54de8b73f6b6b823f1b2c10e20d348d3d29a3f987078e75f2857ec18c9544d3 SHA512: 62b23d6ea17960e73aaa0be5a92c04f3da0308c6ff8e8ed8eb9579770f4a377a803eb1a144eecbc2caa834ae0c56d99c91bead0d1cb8dd3e47b37e4696753871 Homepage: https://cran.r-project.org/package=ArchaeoChron Description: CRAN Package 'ArchaeoChron' (Bayesian Modeling of Archaeological Chronologies) Provides a list of functions for the Bayesian modeling of archaeological chronologies. The Bayesian models are implemented in 'JAGS' ('JAGS' stands for Just Another Gibbs Sampler. It is a program for the analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation. See and "JAGS Version 4.3.0 user manual", Martin Plummer (2017) .). The inputs are measurements with their associated standard deviations and the study period. The output is the MCMC sample of the posterior distribution of the event date with or without radiocarbon calibration. Package: r-cran-archaeophases.dataset Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3488 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-archaeophases.dataset_0.2.0-1.ca2004.1_all.deb Size: 3399784 MD5sum: 8bc490c38eb1497289a3363a22d170c0 SHA1: 5157e7fad2fc1a991840d41eb33314c03aaca695 SHA256: 5f85b31936f0cc0f3a358409cd0e2208b3f7a21e033be5c2add2694363a973f9 SHA512: 95b14b73f8a728a648c5dcd6355643a16ceffad5af687d0e4bd150cd2c41396149444d5708a1d02c5fe79f8037beec66ef2653da93c4e2830ae89ed6b2688b04 Homepage: https://cran.r-project.org/package=ArchaeoPhases.dataset Description: CRAN Package 'ArchaeoPhases.dataset' (Data Sets for 'ArchaeoPhases' Vignettes) Provides the data sets used to build the 'ArchaeoPhases' vignettes. The data sets were formerly distributed with 'ArchaeoPhases', however they exceed current CRAN policy for package size. Package: r-cran-archaeophases Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2860 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arkhe, r-cran-aion Suggests: r-cran-coda, r-cran-knitr, r-cran-rmarkdown, r-cran-rsvg, r-cran-svglite, r-cran-tinysnapshot, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-archaeophases_2.0-1.ca2004.1_all.deb Size: 1624088 MD5sum: 90b27ccfbd6ceca35761a5d0bbf3ec62 SHA1: ff2c35014ac6b1b6a6e19f250a0fdfbc9a74ff19 SHA256: f4a1926ba4dc4941a42e8907104c047921f06429a08845f061bb652483c51540 SHA512: 35e1c753f44c0535a2c96678fe35e89ea6edf7aad3f66abc483a0019d9cc0ec73f2435d31bfe96498c77319af586776119a251f1716cd93e635aad10aba90b54 Homepage: https://cran.r-project.org/package=ArchaeoPhases Description: CRAN Package 'ArchaeoPhases' (Post-Processing of Markov Chain Monte Carlo Simulations forChronological Modelling) Statistical analysis of archaeological dates and groups of dates. This package allows to post-process Markov Chain Monte Carlo (MCMC) simulations from 'ChronoModel' , 'Oxcal' or 'BCal' . It provides functions for the study of rhythms of the long term from the posterior distribution of a series of dates (tempo and activity plot). It also allows the estimation and visualization of time ranges from the posterior distribution of groups of dates (e.g. duration, transition and hiatus between successive phases) as described in Philippe and Vibet (2020) . Package: r-cran-archdata Architecture: all Version: 1.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 195 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-ca, r-cran-circular, r-cran-plotrix, r-cran-mass, r-cran-spatstat Filename: pool/dists/focal/main/r-cran-archdata_1.2-1-1.ca2004.1_all.deb Size: 155452 MD5sum: 4a9b9ed00577f94b8a55de30dedc79ef SHA1: 3864639cec4e71c171bd134afb04c7a7d251f4ce SHA256: 60600eb8159b3c35a6473626164b4658df1590198d16c8b87425b49a4ba765ad SHA512: b7f02772ffcbb48f61ba6471566958ea047f035fa6cc10fef574266d407c9e56a825515d812be7a24216f2c273fa4f592ca3d47414f64493638177fe07c632b6 Homepage: https://cran.r-project.org/package=archdata Description: CRAN Package 'archdata' (Example Datasets from Archaeological Research) The archdata package provides several types of data that are typically used in archaeological research. It provides all of the data sets used in "Quantitative Methods in Archaeology Using R" by David L Carlson, one of the Cambridge Manuals in Archaeology. Package: r-cran-archeofrag.gui Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 659 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-archeofrag, r-cran-dendextend, r-cran-doparallel, r-cran-dorng, r-cran-dt, r-cran-foreach, r-cran-ggplot2, r-cran-igraph, r-cran-shiny, r-cran-shinythemes Suggests: r-bioc-rbgl Filename: pool/dists/focal/main/r-cran-archeofrag.gui_1.1.0-1.ca2004.1_all.deb Size: 412172 MD5sum: 612af301fe7916f1247813f0d9d1a34a SHA1: ea465f88c92d4298afb9d8dd7307559e754ac678 SHA256: 4e0ffc8a249a5c1bf4db3d5edf766890c4a09e9291705d6c68727d8960510ae7 SHA512: c0d10d33a632f2c97a2a28d6c9046153061669beda826c30f8e18f845d40db89e600dfb0c97a767d9ac13b8ba35b203c20ec8474beeb1f31cd71b3f5e92e2e2e Homepage: https://cran.r-project.org/package=archeofrag.gui Description: CRAN Package 'archeofrag.gui' (Spatial Analysis in Archaeology from Refitting Fragments (GUI)) A 'Shiny' application to access the functionalities and datasets of the 'archeofrag' package for spatial analysis in archaeology from refitting data. Quick and seamless exploration of archaeological refitting datasets, focusing on physical refits only. Features include: built-in documentation and convenient workflow, plot generation and exports, exploration of spatial units merging solutions, simulation of archaeological site formation processes, support for parallel computing, R code generation to re-execute simulations and ensure reproducibility, code generation for the 'openMOLE' model exploration software. A demonstration of the app is available at . Package: r-cran-archeofrag Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 731 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph Suggests: r-bioc-rbgl, r-cran-knitr, r-cran-covr, r-cran-rmarkdown, r-cran-markdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-archeofrag_1.2.0-1.ca2004.1_all.deb Size: 545404 MD5sum: 9896b49088f27e0c65f22b6f9c5bbf9a SHA1: 51654b88efa3e52b759b387f15ada050726b2367 SHA256: 0d54d05936b911264de67052decbe55fcbf20911d7d3e939bee1b04219aae995 SHA512: 00ed961f38de7befde8b195f5b0a0188dc56c64ad2f93beb1bd7eb583cea216b6b85378e01472a7cce20ff18092b06e7c311b5494918803a133b9fd61c9c946c Homepage: https://cran.r-project.org/package=archeofrag Description: CRAN Package 'archeofrag' (Spatial Analysis in Archaeology from Refitting Fragments) Methods to analyse spatial units in archaeology from the relationships between refitting fragmented objects scattered in these units (e.g. stratigraphic layers). Graphs are used to model archaeological observations. The package is mainly based on the 'igraph' package for graph analysis. Functions can: 1) create, manipulate, and simulate fragmentation graphs, 2) measure the cohesion and admixture of archaeological spatial units, and 3) characterise the topology of a specific set of refitting relationships. Empirical datasets are provided as examples. Documentation about 'archeofrag' is provided by the vignette included in this package, by the accompanying scientific papers: Plutniak (2021, Journal of Archaeological Science, ) and Plutniak (2022, Journal of Open Source Software, ). This package is complemented by a companion GUI application available at . Package: r-cran-archeoviz Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 668 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-plotly, r-cran-mgcv, r-cran-geometry, r-cran-reshape2, r-cran-svglite, r-cran-htmlwidgets, r-cran-shiny, r-cran-shinythemes, r-cran-knitr Suggests: r-cran-covr, r-cran-seahors, r-cran-rmarkdown, r-cran-markdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-archeoviz_1.4.1-1.ca2004.1_all.deb Size: 321324 MD5sum: d7f95aca11ad4f730f7503bd20c8978e SHA1: 8db4dac2bd0cf9711d02a48b84466831efde32f2 SHA256: 5870e5ecc02fae43a00296fad85dc12c4e297ed96080ae31eb7383b06c8e23dc SHA512: f8068c1279a006c596870447893578dea5cf4263a22acb10b585e0018ab6c74f33bc42db503a8206c23421e783692b943a4fb7e2ef9b5c03e51835b60c3a9294 Homepage: https://cran.r-project.org/package=archeoViz Description: CRAN Package 'archeoViz' (Visualisation, Exploration, and Web Communication ofArchaeological Spatial Data) An R 'Shiny' application for visual and statistical exploration and web communication of archaeological spatial data, either remains or sites. It offers interactive 3D and 2D visualisations (cross sections and maps of remains, timeline of the work made in a site) which can be exported in SVG and HTML formats. It performs simple spatial statistics (convex hull, regression surfaces, 2D kernel density estimation) and allows exporting data to other online applications for more complex methods. 'archeoViz' can be used offline locally or deployed on a server, either with interactive input of data or with a static data set. Example is provided at . Package: r-cran-archetypal Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4115 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-geometry, r-cran-inflection, r-cran-doparallel, r-cran-lpsolve, r-cran-plot3d, r-cran-entropy Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-archetypal_1.3.1-1.ca2004.1_all.deb Size: 3920452 MD5sum: 8dd925c5b82adc0ee0b1e58a43263d01 SHA1: 438d8691038970291def148b47784299a6b8e88a SHA256: 914d9211a8f0976cebf84e5d2baca8596d8e34fa8c0b74ceb90c19b28e69e114 SHA512: a78a8d620433b82fcdd67d5add7de9dac136aaa4ecee0d825e270197b5669d67dcc7559a85e9955a6b71da120055cc9db8a598c1a109c757ed5de5587d5ae80f Homepage: https://cran.r-project.org/package=archetypal Description: CRAN Package 'archetypal' (Finds the Archetypal Analysis of a Data Frame) Performs archetypal analysis by using Principal Convex Hull Analysis under a full control of all algorithmic parameters. It contains a set of functions for determining the initial solution, the optimal algorithmic parameters and the optimal number of archetypes. Post run tools are also available for the assessment of the derived solution. Morup, M., Hansen, LK (2012) . Hochbaum, DS, Shmoys, DB (1985) . Eddy, WF (1977) . Barber, CB, Dobkin, DP, Huhdanpaa, HT (1996) . Christopoulos, DT (2016) . Falk, A., Becker, A., Dohmen, T., Enke, B., Huffman, D., Sunde, U. (2018), . Christopoulos, DT (2015) . Murari, A., Peluso, E., Cianfrani, Gaudio, F., Lungaroni, M., (2019), . Package: r-cran-archetyper Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1149 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-here, r-cran-knitr, r-cran-log4r, r-cran-config, r-cran-tidyverse, r-cran-rmarkdown, r-cran-skimr, r-cran-stringr, r-cran-snakecase, r-cran-testthat, r-cran-bannercommenter, r-cran-feather, r-cran-readr, r-cran-ps Suggests: r-cran-rcurl, r-cran-mass, r-cran-broom, r-cran-caret, r-cran-covr, r-cran-gtsummary, r-cran-performance, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-archetyper_0.1.0-1.ca2004.1_all.deb Size: 1046776 MD5sum: 65622b7ef84bdf82358ae1dfe247b3a7 SHA1: e30d1df18f2c8ae1ee296e1e5d454d1461ea890c SHA256: 4868fbbfb7c665ac3eb68ef436c7207dbe06d6e158dcac1c052a02b94760876a SHA512: a6639b79636d526c6cc033c4007653ae3ec8e3c056aea891bf8cf9edad9a359c0e0eb41ba8b2fff3b8e4a5f49ccf09bd074636bbcd86ebc97cedd03a41a47644 Homepage: https://cran.r-project.org/package=archetyper Description: CRAN Package 'archetyper' (An Archetype for Data Mining and Data Science Projects) A project template to support the data science workflow. Package: r-cran-archetypes Architecture: all Version: 2.2-0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1415 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-modeltools, r-cran-nnls Suggests: r-cran-mass, r-cran-vcd, r-cran-mlbench, r-cran-ggplot2, r-cran-tsp, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-archetypes_2.2-0.2-1.ca2004.1_all.deb Size: 1194156 MD5sum: a9e3c571b1acf1dbb4d915eb93c16748 SHA1: d21b5b27d9de780e21f60c61bb9706b9d8047acd SHA256: b61238517d81f45eab62ef13e543ffa2e90353a20dea1cb8318a490513a01097 SHA512: 839b8e11fc36911fd56286f2a8b8fdefeb96c162e7b0c7263cb5835840b8015ccea26a6a9059ab1aa14035858e068ec5e88975a6a31e9a5eb87e511076e1b332 Homepage: https://cran.r-project.org/package=archetypes Description: CRAN Package 'archetypes' (Archetypal Analysis) The main function archetypes implements a framework for archetypal analysis supporting arbitrary problem solving mechanisms for the different conceptual parts of the algorithm. Package: r-cran-archi Architecture: all Version: 2.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4694 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-plyr, r-cran-rgl, r-cran-lidr, r-cran-fnn, r-cran-dicekriging, r-cran-stringr, r-cran-progress, r-cran-gtools, r-cran-rfast, r-cran-voxr, r-cran-fastcluster, r-cran-pracma, r-cran-pkgcond, r-cran-r.matlab, r-cran-svmisc, r-cran-circular Filename: pool/dists/focal/main/r-cran-archi_2.1.3-1.ca2004.1_all.deb Size: 2653924 MD5sum: 4c8d6ab3e8bf9bb9a4f6ef591588c1c7 SHA1: 97d84df3e82dca7496552056019f53971fbf0929 SHA256: 77cc74ecc9f9edced75d95a9d7f89bedd6322e6bfe9144d46d238969d50a17eb SHA512: 1a66ae6ced2c09117f6834df4767a88261a4c270cec9d691dbb31401ad8bd34e3be37b4c69cbd07185c5d7dabb484eaff7f38a389e2c022ce4fb7c1d7e16772e Homepage: https://cran.r-project.org/package=aRchi Description: CRAN Package 'aRchi' (Quantitative Structural Model ('QSM') Treatment for TreeArchitecture) Provides a set of tools to make quantitative structural model of trees (i.e the so-called 'QSM') from LiDAR point cloud, to manipulate and visualize the QSMs as well as to compute metrics from them. It can be used in various context of forest ecology (i.e biomass estimation) and tree architecture (i.e architectural metrics), see Martin-Ducup et al. (2020) . The package is based on a new S4 class called 'aRchi'. Package: r-cran-archidart Architecture: all Version: 3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2060 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools, r-cran-xml, r-cran-geometry, r-cran-sp Suggests: r-cran-rgl, r-cran-tda Filename: pool/dists/focal/main/r-cran-archidart_3.4-1.ca2004.1_all.deb Size: 1675692 MD5sum: f8fd106d2c99a8fc015ffdc14e124393 SHA1: ba115852da3ed0c37fd5b6edb08c2a9277213cc4 SHA256: facf4b7e33e0e05065c824840febbcd5b64d915f18c4975a779127aa3de8226e SHA512: 4b3369bf712e41ccba1df1d4d5070dfd52dd99d4989335f9aa5bf54593fdb750b02122b0220df3cfc8d0d9bac7f23937f45c6e721d2d39383d8ea74eb02697a0 Homepage: https://cran.r-project.org/package=archiDART Description: CRAN Package 'archiDART' (Plant Root System Architecture Analysis Using DART and RSMLFiles) Analysis of complex plant root system architectures (RSA) using the output files created by Data Analysis of Root Tracings (DART), an open-access software dedicated to the study of plant root architecture and development across time series (Le Bot et al (2010) "DART: a software to analyse root system architecture and development from captured images", Plant and Soil, ), and RSA data encoded with the Root System Markup Language (RSML) (Lobet et al (2015) "Root System Markup Language: toward a unified root architecture description language", Plant Physiology, ). More information can be found in Delory et al (2016) "archiDART: an R package for the automated computation of plant root architectural traits", Plant and Soil, . Package: r-cran-archissur Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-gpcsign, r-cran-dicekriging, r-cran-kriginv, r-cran-future.apply, r-cran-truncatednormal, r-cran-randtoolbox, r-cran-rgenoud Suggests: r-cran-future, r-cran-dicedesign, r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-archissur_0.0.1-1.ca2004.1_all.deb Size: 89580 MD5sum: fd742dc63ec866e42318cf55167cae57 SHA1: d99679c874a2d1f913980bef09cd9c3df9c09332 SHA256: bafec0bbb9423281bec595b9b31529a9a87328e4a22cf4b3f4cebea2f061f53b SHA512: 8f70027953276c2694dcdcbbbda1332ce866298941c70e382ee7070a7936b5738bbc35660a470ba38ad27056651852a438b4a8d6cdeacf9ed19ee41351e22a05 Homepage: https://cran.r-project.org/package=ARCHISSUR Description: CRAN Package 'ARCHISSUR' (Active Recovery of a Constrained and Hidden Set by StepwiseUncertainty Reduction Strategy) Stepwise Uncertainty Reduction criterion and algorithm for sequentially learning a Gaussian Process Classifier as described in Menz et al. (2025). Package: r-cran-archiveretriever Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 349 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-anytime, r-cran-dplyr, r-cran-ggplot2, r-cran-gridextra, r-cran-httr, r-cran-jsonlite, r-cran-lubridate, r-cran-rvest, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-vcr, r-cran-testthat, r-cran-webmockr Filename: pool/dists/focal/main/r-cran-archiveretriever_0.4.0-1.ca2004.1_all.deb Size: 283016 MD5sum: 9c454d846702d7fc9ba889fe240c48c7 SHA1: 2d1049b246e3b5f4d8abea685e0a0c87101459e9 SHA256: a87cd048e465e83522b601915db2aa124dc8d3c2673586a99a0b46acc0c7875c SHA512: b696c6def267ba324df5dcfd34eda6304f7eb9c1c74e2786ef20954a6cbf1c3fba83b048fb3332e95eb4a8d13dd4f31be12cbfb176c26983ebcb713c9d86108a Homepage: https://cran.r-project.org/package=archiveRetriever Description: CRAN Package 'archiveRetriever' (Retrieve Archived Web Pages from the 'Internet Archive') Scraping content from archived web pages stored in the 'Internet Archive' () using a systematic workflow. Get an overview of the mementos available from the respective homepage, retrieve the Urls and links of the page and finally scrape the content. The final output is stored in tibbles, which can be then easily used for further analysis. Package: r-cran-archivist.github Architecture: all Version: 0.2.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1767 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-archivist, r-cran-httr, r-cran-git2r, r-cran-jsonlite, r-cran-digest Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-archivist.github_0.2.6-1.ca2004.1_all.deb Size: 975092 MD5sum: a01ca5e6c17d98e5ca1868d1827662eb SHA1: f4fa804a37e661874bddb0e970780bf2926ea210 SHA256: 155ca1af8e076a84fb45671328ac93f0ff21e28930c9501d603464595071225e SHA512: 48732b0de78e91a874d64de16b9833b8eadf11b1f17021c3570b0fc020e841cee8c040085e7c06b9c34c6c9d3869b291b75d0f35a6572a4ce84c06487a2a562b Homepage: https://cran.r-project.org/package=archivist.github Description: CRAN Package 'archivist.github' (Tools for Archiving, Managing and Sharing R Objects via GitHub) The extension of the 'archivist' package integrating the archivist with GitHub via GitHub API, 'git2r' packages and 'httr' package. 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Artifacts like: subsets, data aggregates, plots, statistical models, different versions of data sets and different versions of results. The more projects we work with the more artifacts are produced and the harder it is to manage these artifacts. Archivist helps to store and manage artifacts created in R. Archivist allows you to store selected artifacts as a binary files together with their metadata and relations. Archivist allows to share artifacts with others, either through shared folder or github. Archivist allows to look for already created artifacts by using it's class, name, date of the creation or other properties. Makes it easy to restore such artifacts. Archivist allows to check if new artifact is the exact copy that was produced some time ago. That might be useful either for testing or caching. Package: r-cran-arco Architecture: all Version: 0.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-glmnet, r-cran-boot Filename: pool/dists/focal/main/r-cran-arco_0.3-1-1.ca2004.1_all.deb Size: 92040 MD5sum: 8c919464f1e217180e26e2abaf98fc63 SHA1: 0f051f2935243bb5e10fbcfd1ebcededb3864020 SHA256: 3aa50a3122b6e40945fdef60f7d413691e24fef5a38fd683161c4f8dc8e08654 SHA512: 4c17d0059974b9cc6737d3ace6243c2a2b5916490a1f066f3c941d57e85f06f592a5d1b985e75d365f0d79d82be425e8d01af8a55a3ed5638b7b16d83765114d Homepage: https://cran.r-project.org/package=ArCo Description: CRAN Package 'ArCo' (Artificial Counterfactual Package) Set of functions to analyse and estimate Artificial Counterfactual models from Carvalho, Masini and Medeiros (2016) . Package: r-cran-arcpullr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4317 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-httr, r-cran-jsonlite, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-rlang, r-cran-raster, r-cran-terra, r-cran-purrr, r-cran-dt Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rvest, r-cran-xml2, r-cran-stringr, r-cran-cowplot, r-cran-magick Filename: pool/dists/focal/main/r-cran-arcpullr_0.3.0-1.ca2004.1_all.deb Size: 1614936 MD5sum: 429a81617cf81275c3cee20b4098ee53 SHA1: d160f9157aeb618e9de4d62800f73ae85d83f846 SHA256: c13de25bc0d30ecb7ea2fc55bda006581b00deacef33081d02ae1b8e4341a86d SHA512: 6b9dda00b7ff6138fe97b83c33aad24f7de32c1fa90f1b5faa0561c9acd9e67f25641acec835ac7d55abcc92270bd5c9380986300cd7d6b87a8c244af6db4673 Homepage: https://cran.r-project.org/package=arcpullr Description: CRAN Package 'arcpullr' (Pull Data from an 'ArcGIS REST' API) Functions to efficiently query 'ArcGIS REST' APIs . 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Provides various tools for installing and configuring a 'Conda' environment for accessing 'ArcGIS' geoprocessing functions. Helper functions for manipulating and converting 'ArcGIS' objects from R are also provided. Package: r-cran-arctools Architecture: all Version: 1.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2802 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-lubridate, r-cran-runstats Suggests: r-cran-testthat, r-cran-data.table, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-arctools_1.1.6-1.ca2004.1_all.deb Size: 442828 MD5sum: e656170e76e582b2dc2e3543fdc23c99 SHA1: 982c7c6daaaa22c753c3518f4860caf8e891906a SHA256: ae3516c8c8f29db17180f64e6afa4578f204c0db140bce04c93a0bdb016776be SHA512: b8d42709d4f24de588c34c0b5d10bf2cc037f02a67c56d1f862c0edefa1f5aafba9d364faff26aa554cb7270c661d0ab19724d8aae9edc5f384790c0234e98be Homepage: https://cran.r-project.org/package=arctools Description: CRAN Package 'arctools' (Processing and Physical Activity Summaries of Minute LevelActivity Data) Provides functions to process minute level actigraphy-measured activity counts data and extract commonly used physical activity volume and fragmentation metrics. Package: r-cran-ardec Architecture: all Version: 2.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 446 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ardec_2.1-1-1.ca2004.1_all.deb Size: 407996 MD5sum: 34b26f13a0f1fee4d8c52cfc344e17a3 SHA1: b59c571dab1cdab9a0a6213adb67eee68bbd0ecc SHA256: 9b41ea847b84e1f846e51172dc2d9163e4c030db7836e99bf4479d47bbf6c0e9 SHA512: f6de37ca89c100104a68938d44fcbc9987265b19c3d9716a52149d10aff6b951f709618a0e464f06135ee02fc5b0d5e97e2e20006e300ac7aa00dbaaa4019d79 Homepage: https://cran.r-project.org/package=ArDec Description: CRAN Package 'ArDec' (Time Series Autoregressive-Based Decomposition) Autoregressive-based decomposition of a time series based on the approach in West (1997). Particular cases include the extraction of trend and seasonal components. Package: r-cran-ardeco Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 242 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-ghql, r-cran-jsonlite, r-cran-stringr, r-cran-dplyr, r-cran-arrow, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-httptest2 Filename: pool/dists/focal/main/r-cran-ardeco_2.2.2-1.ca2004.1_all.deb Size: 72552 MD5sum: cf5b8a64842ae9c22f08b2f7b54f8c53 SHA1: 9d5ee7c9dbf7d0b9539c5e9f846d7d8589320cd2 SHA256: 879e18c035e4921a942d22bafde3267966cb9f2b08ffb8ba60f1c38306ad999f SHA512: 14c814c2cb16a00ccc4fc272fc5be9ada84f7182c8f3e886438c673aa7093042e476f1b21a79d78a1436c330ede22f627758b4656370e8b36a096403a6edaabf Homepage: https://cran.r-project.org/package=ARDECO Description: CRAN Package 'ARDECO' (Annual Regional Database of the European Commission (ARDECO)) A set of functions to access the 'ARDECO' (Annual Regional Database of the European Commission) data directly from the official ARDECO public repository through the exploitation of the 'ARDECO' APIs. The APIs are completely transparent to the user and the provided functions provide a direct access to the 'ARDECO' data. The 'ARDECO' database is a collection of variables related to demography, employment, labour market, domestic product, capital formation. Each variable can be exposed in one or more units of measure as well as refers to total values plus additional dimensions like economic sectors, gender, age classes. Data can be also aggregated at country level according to the tercet classes as defined by EUROSTAT. The description of the 'ARDECO' database can be found at the following URL . Package: r-cran-ardl.nardl Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 334 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-gets, r-cran-plyr, r-cran-dplyr, r-cran-rlist, r-cran-nardl, r-cran-car, r-cran-lmtest, r-cran-texreg, r-cran-stringr, r-cran-tseries, r-cran-sandwich, r-cran-purrr, r-cran-tidyselect Suggests: r-cran-dynamac Filename: pool/dists/focal/main/r-cran-ardl.nardl_1.3.0-1.ca2004.1_all.deb Size: 301392 MD5sum: 61720ce6566e39cc9d1623f49cbe8d05 SHA1: 514d51f822c937bcf759e31c21db9558155c99a0 SHA256: 62490bc050c6008ce122f8b38fd532f60b174d46362b0742860dc944e1da2493 SHA512: 3a6d357e2ead230836bc0b36b78d90c47b8434273244ad14a0b8d9c6b150f08ecad15782e9b942884272030e59008bd44c1fb55b572ded45e13c83030bcd98e7 Homepage: https://cran.r-project.org/package=ardl.nardl Description: CRAN Package 'ardl.nardl' (Linear and Nonlinear Autoregressive Distributed Lag Models:General-to-Specific Approach) Estimate the linear and nonlinear autoregressive distributed lag (ARDL & NARDL) models and the corresponding error correction models, and test for longrun and short-run asymmetric. The general-to-specific approach is also available in estimating the ARDL and NARDL models. The Pesaran, Shin & Smith (2001) () bounds test for level relationships is also provided. The 'ardl.nardl' package also performs short-run and longrun symmetric restrictions available at Shin et al. (2014) and their corresponding tests. Package: r-cran-ardl Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 649 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-aod, r-cran-dplyr, r-cran-dynlm, r-cran-gridextra, r-cran-ggplot2, r-cran-lmtest, r-cran-msm, r-cran-stringr, r-cran-zoo Suggests: r-cran-strucchange, r-cran-tseries, r-cran-qpcr, r-cran-sandwich, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ardl_0.2.4-1.ca2004.1_all.deb Size: 585448 MD5sum: d2fc4c90a1a2094166595295bbc9eb28 SHA1: 4dcf846f19589e7118d69253f2adf6fb6c68f11f SHA256: 66a1ef4164c93e299442e1b48a728e0d3b005cf96108d66fde05082f84265cab SHA512: 487c0b58ed17f58fe3d0eade2c7dc0094eeb373f76fee27b68b9859fb2ee27de1bd6d90c372bf848306ed65428d605db7d758c6dee55f02e2a8226324eb741ed Homepage: https://cran.r-project.org/package=ARDL Description: CRAN Package 'ARDL' (ARDL, ECM and Bounds-Test for Cointegration) Creates complex autoregressive distributed lag (ARDL) models and constructs the underlying unrestricted and restricted error correction model (ECM) automatically, just by providing the order. It also performs the bounds-test for cointegration as described in Pesaran et al. (2001) and provides the multipliers and the cointegrating equation. The validity and the accuracy of this package have been verified by successfully replicating the results of Pesaran et al. (2001) in Natsiopoulos and Tzeremes (2022) . Package: r-cran-ards Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 514 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-dplyr, r-cran-tidyr, r-cran-tibble, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ards_0.1.1-1.ca2004.1_all.deb Size: 288436 MD5sum: d08596766d4db0bdc39bc5d87e67f41d SHA1: 70c9ce96cc778e613f8e2876edcde21da8938ad5 SHA256: bc8d87ad328ae89c6fd9b798973b35fc9982144a969678534869c89b26cc11e3 SHA512: 9f407be926a6469dda4737b1ebacee3d12f181c14277c42ff5647125c37e51f6d432a344401a888cffa6cf0d67a2d45e4e33de4631d7d7f3d752262faec29164 Homepage: https://cran.r-project.org/package=ards Description: CRAN Package 'ards' (Creates Analysis Results Datasets) Contains functions to help create an Analysis Results Dataset. The dataset follows industry recommended structure. The dataset can be created in multiple passes, using different data frames as input. Analysis Results Datasets are used in the pharmaceutical and biotech industries to capture analysis in a common tabular data structure. Package: r-cran-areabiplot Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nipals Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-areabiplot_1.0.0-1.ca2004.1_all.deb Size: 21916 MD5sum: 23ef247cb2c2b2e481fc3590660fa475 SHA1: 3146d4397a9a7e765383eec06ad8dd50856991b3 SHA256: 0362050a0ac5e402969ddfdea7754146a59e63a2df593f0cc0f674c964280bd9 SHA512: 36d1ec3d9c1a06445586d24fb1a6626418c06f3cb58190031cc78d50eaa0d1c0836defdeb3e93982d6c599240659e696f3a8676644f12337154dc096f45cead9 Homepage: https://cran.r-project.org/package=areabiplot Description: CRAN Package 'areabiplot' (Area Biplot) Considering an (n x m) data matrix X, this package is based on the method proposed by Gower, Groener, and Velden (2010) , and utilize the resulting matrices from the extended version of the NIPALS decomposition to determine n triangles whose areas are used to visually estimate the elements of a specific column of X. After a 90-degree rotation of the sample points, the triangles are drawn regarding the following points: 1.the origin of the axes; 2.the sample points; 3. the vector endpoint representing some variable. Package: r-cran-areal Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1941 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-purrr, r-cran-rlang, r-cran-sf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-areal_0.1.8-1.ca2004.1_all.deb Size: 1429096 MD5sum: a299640814ea7f12ef6897637f94e9ac SHA1: 27533e9b549701521687d8dcf6490e96fe5b84d4 SHA256: 39bf20c4fd4565fc995cc9405335eadeff8e789a01b334e7b3fd79bdd31b9aa9 SHA512: 83c075540ece7291652ebb69cdc462254b20e633567c97aba3d020e975d8a02bd46ce8020a3d9452534287c8de24d31df049f8137f0d8443f512397ce9dfa3f8 Homepage: https://cran.r-project.org/package=areal Description: CRAN Package 'areal' (Areal Weighted Interpolation) A pipeable, transparent implementation of areal weighted interpolation with support for interpolating multiple variables in a single function call. These tools provide a full-featured workflow for validation and estimation that fits into both modern data management (e.g. tidyverse) and spatial data (e.g. sf) frameworks. 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For applications that surpass the spatial, temporal or thematic scope of any single data source, data must be integrated from several heterogeneous sources. Inconsistent concepts, definitions, or messy data tables make this a tedious and error-prone process. 'arealDB' tackles those problems and helps the user to integrate a harmonised databases of areal data. Read the paper at Ehrmann, Seppelt & Meyer (2020) . 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Merging a linear time series model like the autoregressive moving average (ARMA) model with a nonlinear neural network model such as the Long Short-Term Memory (LSTM) model can be used as a hybrid model for more accurate modeling purposes. Both the autoregressive integrated moving average (ARIMA) and autoregressive fractionally integrated moving average (ARFIMA) models can be implemented. Details can be found in Box et al. (2015, ISBN: 978-1-118-67502-1) and Hochreiter and Schmidhuber (1997) . 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Inacio de Carvalho, V., and Rodriguez-Alvarez, M. X. (2018) . NOTE: We have created a new package, 'ROCnReg', with more functionalities. It also implements all the methods included in 'AROC'. We, therefore, recommend using 'ROCnReg' ('AROC' will no longer be maintained). 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Package: r-cran-arplmec Architecture: all Version: 2.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-numderiv, r-cran-mass, r-cran-mnormt, r-cran-expm, r-cran-relliptical, r-cran-truncatednormal, r-cran-laplacesdemon Filename: pool/dists/focal/main/r-cran-arplmec_2.4.1-1.ca2004.1_all.deb Size: 238192 MD5sum: 67c86d188ab7997ee57f7fa7493ab15e SHA1: 39a600a187c0cdb5bbb0e712d9119ab8dfd5e220 SHA256: 2bf3edd93a712b16215eca2a09ddd8d2cd0b951cc92e146f1a250ec9c270c7a6 SHA512: 4c7dd0bf1db331787c3afb85befd7af36f5d1961d1f16873b491539926ba51fa7636dfd6b6197524e1e137073b567309323ad9b75a2bb958d704da3d74c8a5f0 Homepage: https://cran.r-project.org/package=ARpLMEC Description: CRAN Package 'ARpLMEC' (Censored Mixed-Effects Models with Different CorrelationStructures) Left, right or interval censored mixed-effects linear model with autoregressive errors of order p or DEC correlation structure using the type-EM algorithm. 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Package: r-cran-art Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car Filename: pool/dists/focal/main/r-cran-art_1.0-1.ca2004.1_all.deb Size: 25796 MD5sum: 1448c96b982bc0e35b56d1a36e1baac7 SHA1: a0cf8526d7a5468f901e12a9ba6a410ab9789267 SHA256: 4bf34a1b44625f290b32bcb5bac3d685ba58abbb4db24619c5e703344e63970c SHA512: c43a26bd555dfa1b6a3770d650e610703362be43e2f2813d46f9be98b5464dd1ac642f3398ecefa51b933d462daa156e4424aba64326ebac8d5a62e7c4134f0e Homepage: https://cran.r-project.org/package=ART Description: CRAN Package 'ART' (Aligned Rank Transform for Nonparametric Factorial Analysis) An implementation of the Aligned Rank Transform technique for factorial analysis (see references below for details) including models with missing terms (unsaturated factorial models). The function first computes a separate aligned ranked response variable for each effect of the user-specified model, and then runs a classic ANOVA on each of the aligned ranked responses. For further details, see Higgins, J. J. and Tashtoush, S. (1994). An aligned rank transform test for interaction. Nonlinear World 1 (2), pp. 201-211. Wobbrock, J.O., Findlater, L., Gergle, D. and Higgins,J.J. (2011). The Aligned Rank Transform for nonparametric factorial analyses using only ANOVA procedures. Proceedings of the ACM Conference on Human Factors in Computing Systems (CHI '11). New York: ACM Press, pp. 143-146. . Package: r-cran-artfima Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ltsa, r-cran-gsl Filename: pool/dists/focal/main/r-cran-artfima_1.5-1.ca2004.1_all.deb Size: 138768 MD5sum: 45dffe208054fe494675d493171c3b79 SHA1: 05d1399b5d9995493799e581f62501072ced1e70 SHA256: 6e2f67fa8994c6f837d2fd49836521b3c0d53d12fd668b937d17f4a0cd67eb23 SHA512: 22c9384e90b66359eb2f6f65a3388284beb99f46610958003d8420e7f9c329e17ea90cd4088fd8987f44597b35d1e1d61d9236327bf249ad92f1b22993d5a42b Homepage: https://cran.r-project.org/package=artfima Description: CRAN Package 'artfima' (ARTFIMA Model Estimation) Fit and simulate ARTFIMA. Theoretical autocovariance function and spectral density function for stationary ARTFIMA. Package: r-cran-arthistory Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 296 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-ggplot2, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-arthistory_0.1.0-1.ca2004.1_all.deb Size: 259880 MD5sum: 7fa58cc962976425b499796b738246f8 SHA1: 3ba4c1287bdf3254974b1ac0575b0a9ddd9aeaa1 SHA256: dc76df7e0805b7564719e634a3a1d709bb475e12bf29a20ad26b007da6971c14 SHA512: d8db986cef1cefaf37b59841e9d078db3ff46d3b71f32aa792b80d395efdd580c914c35a012c07a77aed1bd6731e4ade6ec43ee5792e45a08a20ae894aa81dbe Homepage: https://cran.r-project.org/package=arthistory Description: CRAN Package 'arthistory' (Art History Textbook Data) Data from Gardner and Janson art history textbooks about both the artists featured in these books as well as their works. See Helen Gardner ("Art through the ages; an introduction to its history and significance," 1926, . Helen Gardner, revised by Horst de la Croix and Richard G. Tansey ("Gardner’s Art through the ages," 1980, ISBN: 0155037587). Fred S. Kleiner ("Gardner’s art through the ages: a global history," 2020, ISBN: 9781337630702). Horst de la Croix and Richard G. Tansey ("Gardner's art through the ages," 1986, ISBN: 0155037633). Helen Gardner ("Art through the ages; an introduction to its history and significance," 1936, ). Helen Gardner ("Art through the ages," 1948, ). Helen Gardner, revised under the editorship of Sumner M. Crosby ("Art through the ages," 1959, ). Helen Gardner, revised by Horst de la Croix and Richard G. Tansey ("Gardner’s Art through the ages," 1975, ISBN: 0155037560). Fred S. Kleiner ("Gardner’s Art through the ages: a global history," 2013, ISBN: 9780495915423. Fred S. Kleiner, Christin J. Mamiya, Richard G. Tansey ("Gardner’s art through the ages," 2001, ISBN: 0155083155). Fred S. Kleiner ("Gardner’s Art through the ages: a global history," 2016, ISBN: 9781285837840). Fred S. Kleiner, Christin J. Mamiya ("Gardner’s art through the ages," 2005, ISBN: 0534640958). Helen Gardner, revised by Horst de la Croix and Richard G. Tansey ("Gardner’s Art through the ages," 1970, ISBN: 0155037528). Helen Gardner, Richard G. Tansey, Fred S. Kleiner ("Gardner’s Art through the ages," 1996, ISBN: 0155011413). Helen Gardner, Horst de la Croix, Richard G. Tansey, Diane Kirkpatrick ("Gardner’s Art through the ages," 1991, ISBN: 0155037692). Helen Gardner, Fred S. Kleiner ("Gardner’s Art through the ages: a global history," 2009, ISBN: 9780495093077). Davies, Penelope J.E., Walter B. Denny, Frima Fox Hofrichter, Joseph F. Jacobs, Ann S. Roberts, David L. Simon ("Janson’s history of art: the western tradition," 2007, ISBN: 0131934554). Davies, Penelope J.E., Walter B. Denny, Frima Fox Hofrichter, Joseph F. Jacobs, Ann S. Roberts, David L. Simon ("Janson’s history of art: the western tradition," 2011, ISBN: 9780205685172). H. W. Janson, Anthony F. Janson ("History of Art," 2001, ISBN: 0810934469). H. W. Janson, revised and expanded by Anthony F. Janson ("History of art," 1986, ISBN: 013389388). H. W. Janson, Dora Jane Janson ("History of art: a survey of the major visual arts from the dawn of history to present day," 1977, ISBN: 0810910527). H. W. Janson, Dora Jane Janson ("History of art: a survey of the major visual arts from the dawn of history to present day," 1969, ). H. W. Janson, Dora Jane Janson ("History of art: a survey of the major visual arts from the dawn of history to present day," 1963, ). H. W. Janson, revised and expanded by Anthony F. Janson ("History of art," 1991, ISBN: 0810934019). H. W. Janson, revised and expanded by Anthony F. Janson ("History of art," 1995, ISBN: 0810934213). 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Package: r-cran-asciiruler Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-asciiruler_0.2-1.ca2004.1_all.deb Size: 39356 MD5sum: 723dbcdaf45f28a9155f6bfa2090231c SHA1: 6c83aa64f9ea6c0ac1be54c835af01c3ed61841f SHA256: e248ca070dfda2f1e256f6885af3156496cd0d488bfc4367b7a42b1045759b5a SHA512: 8256726668e52c096091ec66174d733e9989b964a893c459fbd7c759a9ccb8be2c21635e5fe1bcdc751a76ebb11c730dc769da38c684f2ee983e664067372236 Homepage: https://cran.r-project.org/package=asciiruler Description: CRAN Package 'asciiruler' (Render an ASCII Ruler) An ASCII ruler is for measuring text and is especially useful for sequence analysis. Included in this package are methods to create ASCII rulers and associated GenBank sequence blocks, multi-column text displays that make it easy for viewers to locate nucleotides by position. Package: r-cran-asciisetupreader Architecture: all Version: 2.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4557 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-haven, r-cran-readr, r-cran-vroom, r-cran-stringr, r-cran-zoo, r-cran-shiny, r-cran-miniui, r-cran-rstudioapi Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-asciisetupreader_2.5.2-1.ca2004.1_all.deb Size: 3408048 MD5sum: b4b56c6d89621afd0405f7898bcfab1a SHA1: 43717347d04b601bf9a1ed755ca42c673ed7ff51 SHA256: a4c98fd7aebc25f981054e11cc50f99049ea5d6f280e0a9eb6dfdc09ec5fd788 SHA512: 1e72e9ebef0b7b683fe73033683dc256568a868a558918e76758f1c2f5f60dfe61f82ef96237b6de141d8a659af36f3f8db2ddd3345d4410d954364eb1c31792 Homepage: https://cran.r-project.org/package=asciiSetupReader Description: CRAN Package 'asciiSetupReader' (Reads Fixed-Width ASCII Data Files (.txt or .dat) that HaveAccompanying Setup Files (.sps or .sas)) Lets you open a fixed-width ASCII file (.txt or .dat) that has an accompanying setup file (.sps or .sas). These file combinations are sometimes referred to as .txt+.sps, .txt+.sas, .dat+.sps, or .dat+.sas. This will only run in a txt-sps or txt-sas pair in which the setup file contains instructions to open that text file. It will NOT open other text files, .sav, .sas, or .por data files. Fixed-width ASCII files with setup files are common in older (pre-2000) government data. Package: r-cran-ascotracer Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2284 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-lubridate, r-cran-lutz, r-cran-circular, r-cran-purrr, r-cran-sf, r-cran-terra Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ascotracer_0.0.1-1.ca2004.1_all.deb Size: 567664 MD5sum: a946f2b287ceb45229dc919af865e55b SHA1: e0a77e0c178783a49657a2e0c627563b38b9f6ed SHA256: a5576c1a71827fee9f8f906f6ec09ce0480c97d30e6c6fa8c7a8555e965f8150 SHA512: 672a92058d199e43b5d35a502da97db4836c470adcc9fea864bd778b90bfc79a275ba5f14acd907cde3583df93194819b745fe1ee6c150ae8cd73d9779850c77 Homepage: https://cran.r-project.org/package=ascotraceR Description: CRAN Package 'ascotraceR' (Simulate the Spread of Ascochyta Blight in Chickpea) A spatiotemporal model that simulates the spread of Ascochyta blight in chickpea fields based on location-specific weather conditions. This model is adapted from a model developed by Diggle et al. (2002) for simulating the spread of anthracnose in a lupin field. Package: r-cran-asd Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-asd_2.2-1.ca2004.1_all.deb Size: 119648 MD5sum: 4df8792d692c178a0eef0f3facd74226 SHA1: 8c18c1c07e243bc3d83dd2445079218c7e2f5487 SHA256: 44f3b3f7ded6c27b1fab880ade114db40bb89902a945a0f82daea89806ec7178 SHA512: 8476001b46d321598e694b606b35a90eefb61c5d8bf4e7d67bbf4021cbf7d6439e036cb548c792f1920353fed1084ffce18f1f7f9009fc0eef4b8f2cdc7e9668 Homepage: https://cran.r-project.org/package=asd Description: CRAN Package 'asd' (Simulations for Adaptive Seamless Designs) Package runs simulations for adaptive seamless designs with and without early outcomes for treatment selection and subpopulation type designs. Package: r-cran-asdreader Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-asdreader_0.1-3-1.ca2004.1_all.deb Size: 62368 MD5sum: 4618ab67fae309d8703f00c6e6fd11e8 SHA1: 39b358a3f803eb8739a7941e236c706136ed0356 SHA256: 4b53ac333974bbafe795726b846d6a68089d3c8fad003d5b29720644b0498f0f SHA512: 3f3b48f5f5948d7ead4d4e55136678a8e182274726249b44f3d26ca752e3e1344b62756b04726ebdcb6d4860016e7616bee6affc4c143e5966aeab7b3bb105ac Homepage: https://cran.r-project.org/package=asdreader Description: CRAN Package 'asdreader' (Reading ASD Binary Files in R) A simple driver that reads binary data created by the ASD Inc. portable spectrometer instruments, such as the FieldSpec (for more information, see ). Spectral data can be extracted from the ASD files as raw (DN), white reference, radiance, or reflectance. Additionally, the metadata information contained in the ASD file header can also be accessed. Package: r-cran-asgs.foyer Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2664 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sp Suggests: r-cran-testthat, r-cran-spdep, r-cran-codetools Filename: pool/dists/focal/main/r-cran-asgs.foyer_0.3.3-1.ca2004.1_all.deb Size: 2567504 MD5sum: ef0540ad1d9a9a03f2cb325e7dd09245 SHA1: 050f07dc69dd6f62336fbd5d5e8c6003be262c3c SHA256: 328332a1008232df8b948c1e51663a34acbdeea94fa5871861c6765eda5c1d74 SHA512: 4331a76605e15e5d3bb609f54ab0732f288edbb495a85f0ba00a7c3c5ce89140cd749ab438af1a15eb7eb167ba57c16a16d54ae9e51c99ec7d078a8dbcb4450a Homepage: https://cran.r-project.org/package=ASGS.foyer Description: CRAN Package 'ASGS.foyer' (Interface to the Australian Statistical Geography Standard) The Australian Statistical Geography Standard ('ASGS') is a set of shapefiles by the Australian Bureau of Statistics. This package provides an interface to those shapefiles, as well as methods for converting coordinates to shapefiles. Package: r-cran-ashapesampler Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2497 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pracma, r-cran-alphahull, r-cran-alphashape3d, r-cran-truncnorm, r-cran-rvcg, r-cran-tda, r-cran-doparallel, r-cran-foreach, r-cran-dplyr Suggests: r-cran-knitr, r-cran-testthat, r-cran-rgl, r-cran-ggplot2, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ashapesampler_1.0.0-1.ca2004.1_all.deb Size: 764748 MD5sum: a3ccc70d3b0cc5309e50eb85301be507 SHA1: 92700c38301ecdf236c9650a6bdc58b1fddcca23 SHA256: 724c0dcc0eb8fa35b010c0b51f18ea4e288ba9b317827cb636c4ba5b38380b1f SHA512: 0a47c8d15f72b56d3611b201bb913dea8e12dd9a604532981c17c05eb7188837f6c682fa3aabed73d7ed05c44d053f7054fc4ade9cc7873ec807644292e9401d Homepage: https://cran.r-project.org/package=ashapesampler Description: CRAN Package 'ashapesampler' (Generating Alpha Shapes) Understanding morphological variation is an important task in many applications. Recent studies in computational biology have focused on developing computational tools for the task of sub-image selection which aims at identifying structural features that best describe the variation between classes of shapes. A major part in assessing the utility of these approaches is to demonstrate their performance on both simulated and real datasets. However, when creating a model for shape statistics, real data can be difficult to access and the sample sizes for these data are often small due to them being expensive to collect. Meanwhile, the landscape of current shape simulation methods has been mostly limited to approaches that use black-box inference---making it difficult to systematically assess the power and calibration of sub-image models. In this R package, we introduce the alpha-shape sampler: a probabilistic framework for simulating realistic 2D and 3D shapes based on probability distributions which can be learned from real data or explicitly stated by the user. The 'ashapesampler' package supports two mechanisms for sampling shapes in two and three dimensions. The first, empirically sampling based on an existing data set, was highlighted in the original main text of the paper. The second, probabilistic sampling from a known distribution, is the computational implementation of the theory derived in that paper. Work based on Winn-Nunez et al. (2024) . Package: r-cran-asht Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-exact2x2, r-cran-exactci, r-cran-bpcp, r-cran-coin, r-cran-perm, r-cran-ssanv Suggests: r-cran-bootstrap Filename: pool/dists/focal/main/r-cran-asht_1.0.1-1.ca2004.1_all.deb Size: 258680 MD5sum: b046f81c76c336e6033190fd97609adb SHA1: 9988811ab8f97e701b5d52ed18584d9e13439a23 SHA256: e52b8517a309054adf0bac029a077d2befb2fb3b75efa9f139b4038dc7a13f37 SHA512: 2bab07f90f62b4c170fdf3f66590fc5c11b162d28c00fb2d8458062b6f48a246d3c048fd76b376f13a572465913888f395ab5aa0b6fc4cfd6e35cd0efa1d066b Homepage: https://cran.r-project.org/package=asht Description: CRAN Package 'asht' (Applied Statistical Hypothesis Tests) Gives some hypothesis test functions (sign test, median and other quantile tests, Wilcoxon signed rank test, coefficient of variation test, test of normal variance, test on weighted sums of Poisson [see Fay and Kim ], sample size for t-tests with different variances and non-equal n per arm, Behrens-Fisher test, nonparametric ABC intervals, Wilcoxon-Mann-Whitney test [with effect estimates and confidence intervals, see Fay and Malinovsky ], two-sample melding tests [see Fay, Proschan, and Brittain ], one-way ANOVA allowing var.equal=FALSE [see Brown and Forsythe, 1974, Biometrics]), prevalence confidence intervals that adjust for sensitivity and specificity [see Lang and Reiczigel, 2014 ] or Bayer, Fay, and Graubard, 2023 ). The focus is on hypothesis tests that have compatible confidence intervals, but some functions only have confidence intervals (e.g., prevSeSp). Package: r-cran-asioheaders Architecture: all Version: 1.30.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5320 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-asioheaders_1.30.2-1-1.ca2004.1_all.deb Size: 412920 MD5sum: 302a13515a277658a07a492e1d698678 SHA1: fa9de8d85bbfe0a8da3511abcebea733c6c10435 SHA256: e87cf91fbe64d066fd3d1aa9cb99a5585dfad7e92a60baa948861274ec8ca390 SHA512: 7998313950f5fbb404b5654e642a6b2aa8edcc35317e0ab71d4fc29d27b5052c7ed04271b9749ab911fbed089bc90f0e4af9ce15cb2c961209d13f9a175de80b Homepage: https://cran.r-project.org/package=AsioHeaders Description: CRAN Package 'AsioHeaders' ('Asio' C++ Header Files) 'Asio' is a cross-platform C++ library for network and low-level I/O programming that provides developers with a consistent asynchronous model using a modern C++ approach. It is also included in Boost but requires linking when used with Boost. Standalone it can be used header-only (provided a recent compiler). 'Asio' is written and maintained by Christopher M. Kohlhoff, and released under the 'Boost Software License', Version 1.0. Package: r-cran-asip Architecture: all Version: 0.4.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 252 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-rgdal, r-cran-stringr Filename: pool/dists/focal/main/r-cran-asip_0.4.9-1.ca2004.1_all.deb Size: 202408 MD5sum: 7cb9fa347bdae8d83806b40d4341ddb8 SHA1: 0b39954f6f86a8a67292cf98dded57dd5c1047b8 SHA256: 9f142a9d6a96aaef982c462dcb826cd7404bc606943af2acf0401eb1c02af059 SHA512: abeb91c6093e98b903910d84bd8283427571f5c0a83c51a69f46b8ebb45f19b0cd4457c043374dc706621740276ed2721ce12156803418947ea66c2cbb1d2c4a Homepage: https://cran.r-project.org/package=ASIP Description: CRAN Package 'ASIP' (Automated Satellite Image Processing) Efficiently perform complex satellite image processes automatically with minimum inputs. Functions are providing more control on the user to specify how the function needs to be executed by offering more customization options and facilitate more functionalities. The functions are designed to identify the type of input satellite images and perform accordingly. Also, some functions are giving options to perform multiple satellite data (even from different types) in single run. Package currently supports satellite images from most widely used Landsat 4,5,7 and 8 and Sentinel-2 MSI data. The primary applications of this package are given below. 1. Conversion of optical bands to top of atmosphere reflectance. 2. Conversion of thermal bands to corresponding temperature images. 3. Derive application oriented products directly from source satellite image bands. 4. Compute user defined equation and produce corresponding image product. 5. Other basic tools for satellite image processing. REFERENCES. i. Chander and Markham (2003) . ii. Roy et.al, (2014) . iii. Abrams (2000) . Package: r-cran-askgpt Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3536 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-callr, r-cran-dplyr, r-cran-glue, r-cran-rlang, r-cran-httr2, r-cran-rappdirs, r-cran-jsonlite Suggests: r-cran-covr, r-cran-knitr, r-cran-miniui, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-shiny, r-cran-shinycssloaders, r-cran-spelling, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-askgpt_0.1.3-1.ca2004.1_all.deb Size: 2416872 MD5sum: 10c4e3ecb88b3aff3574ef4c76f5e7af SHA1: 905f0f0b76196144d3e6ffb9d43b34401cda2044 SHA256: 1241be72280da341b10595cebea70290343cdb76cad84a700d7dcc781ba641c3 SHA512: 1fbc648d3d146e65b021a2d03263c7989c5fd74254423251d9b5ba5fbc00bf4e798edfca0533014a622a420db58c32ba03a727af5c0dc60b6166d67b7f64e5b9 Homepage: https://cran.r-project.org/package=askgpt Description: CRAN Package 'askgpt' (Asking GPT About R Stuff) A chat package connecting to API endpoints by 'OpenAI' () to answer questions (about R). 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(2016) . Package: r-cran-asm Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fdrtool, r-cran-pracma, r-cran-iso, r-cran-mass, r-cran-quantreg Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-asm_0.2.4-1.ca2004.1_all.deb Size: 70952 MD5sum: 89d43a292695902c7220e69285c38694 SHA1: b2b67ec498f0095e44d8f8d6697e77c0e035862b SHA256: 6b7f475a8089474e65e4a9e53e5b68e0135602fcc42c2c108d86cec8b313277f SHA512: b192f93f6ad5ff590c0d5378e57a6c16142ddf44d09ae2ed772a173d277275ed99e9494802922005c81f1d56ed0cd8ab799cf4385c51853330de3f728e434eee Homepage: https://cran.r-project.org/package=asm Description: CRAN Package 'asm' (Optimal Convex M-Estimation for Linear Regression via AntitonicScore Matching) Performs linear regression with respect to a data-driven convex loss function that is chosen to minimize the asymptotic covariance of the resulting M-estimator. The convex loss function is estimated in 5 steps: (1) form an initial OLS (ordinary least squares) or LAD (least absolute deviation) estimate of the regression coefficients; (2) use the resulting residuals to obtain a kernel estimator of the error density; (3) estimate the score function of the errors by differentiating the logarithm of the kernel density estimate; (4) compute the L2 projection of the estimated score function onto the set of decreasing functions; (5) take a negative antiderivative of the projected score function estimate. Newton's method (with Hessian modification) is then used to minimize the convex empirical risk function. Further details of the method are given in Feng et al. (2024) . Package: r-cran-asmbook Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 169 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda, r-cran-lattice, r-cran-mass, r-cran-tmb Suggests: r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-asmbook_1.0.2-1.ca2004.1_all.deb Size: 126268 MD5sum: 852af044f98d24384833a1281b0be2d6 SHA1: 721841c41a447df13dd0125e8e618ad1fcc6735b SHA256: b282dddb9925bd7759c23dcbacd2c9dae20c37996efb9fce0675a2899c5bc708 SHA512: 889d400e711afd6bff50c11ca9da625465f724d4b5802cf97677a7e87ce55c42c5e0216ad2255d8bdd3a3ae6547fcef985c1cfc2fd5b732bc6d275692390d82a Homepage: https://cran.r-project.org/package=ASMbook Description: CRAN Package 'ASMbook' (Functions for the Book "Applied Statistical Modeling forEcologists") Provides functions to accompany the book "Applied Statistical Modeling for Ecologists" by Marc Kéry and Kenneth F. Kellner (2024, ISBN: 9780443137150). Included are functions for simulating and customizing the datasets used for the example models in each chapter, summarizing output from model fitting engines, and running custom Markov Chain Monte Carlo. Package: r-cran-asml Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-ggplot2, r-cran-dplyr, r-cran-purrr, r-cran-tibble, r-cran-tidyr, r-cran-reshape2, r-cran-polychrome, r-cran-scales, r-cran-rlang Suggests: r-cran-snow Filename: pool/dists/focal/main/r-cran-asml_1.0.0-1.ca2004.1_all.deb Size: 184036 MD5sum: 3f385c23ec391abc1ce1d778fe4029e8 SHA1: 298c9e9fdb7ca9d2e149adc0d8b399be2524fa5c SHA256: 6d745a70a681bdfa8c23a42d188bc2402e52d6f4ba74992221469491c3b2fadc SHA512: 15045f68fcd28247e3e0c6e3a63a0609b364189124ae4ca404ae95004868e3400325ee912b1ddf245c84fe935196c39de317b4b7afc4643367abce4db5c4db68 Homepage: https://cran.r-project.org/package=ASML Description: CRAN Package 'ASML' (Algorithm Portfolio Selection with Machine Learning) A wrapper for machine learning (ML) methods to select among a portfolio of algorithms based on the value of a key performance indicator (KPI). A number of features is used to adjust a model to predict the value of the KPI for each algorithm, then, for a new value of the features the KPI is estimated and the algorithm with the best one is chosen. To learn it can use the regression methods in 'caret' package or a custom function defined by the user. Several graphics available to analyze the results obtained. This library has been used in Ghaddar et al. (2023) ). Package: r-cran-asnipe Architecture: all Version: 1.1.17-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 463 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-matrix Suggests: r-cran-ape, r-cran-raster, r-cran-sna Filename: pool/dists/focal/main/r-cran-asnipe_1.1.17-1.ca2004.1_all.deb Size: 441092 MD5sum: 44edff8e10c307295c96fa43fe75b345 SHA1: 951851a357b0fd667858ec4e6e7088d2c42666c5 SHA256: 682f66859ed8bcfae3f8cbadcd5e57be18fd2a74d8c9325ef1a8445f507090dd SHA512: ac4fe64eb45cddc930e861f3c2a59ce3764303aaa172089d3a746e33059344f5ea1ca06cf1b1484cd6435fbfe329874c8dd512aefe2285ed21ba5cf775308603 Homepage: https://cran.r-project.org/package=asnipe Description: CRAN Package 'asnipe' (Animal Social Network Inference and Permutations for Ecologists) Implements several tools that are used in animal social network analysis, as described in Whitehead (2007) Analyzing Animal Societies and Farine & Whitehead (2015) . In particular, this package provides the tools to infer groups and generate networks from observation data, perform permutation tests on the data, calculate lagged association rates, and performed multiple regression analysis on social network data. Package: r-cran-aspace Architecture: all Version: 4.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-splancs, r-cran-hmisc Filename: pool/dists/focal/main/r-cran-aspace_4.1.2-1.ca2004.1_all.deb Size: 122500 MD5sum: be3acef66738fb48a433257f985548de SHA1: 54c7b98bec9d8b4ae9990eefc8bc01f1d0a28716 SHA256: 103c23baa636cd0004f333e4ef1d1089c29266a25d2ad5cd65c79e0779dca393 SHA512: f217ee0dd7cce6b8b8561d477109cdc58ff28eb99fc00abe2a8f116fdb79cca7ab4c45d96acb35b9703db61dcee4765ce50505a55c365f9873c1570f1a8b807d Homepage: https://cran.r-project.org/package=aspace Description: CRAN Package 'aspace' (Functions for Estimating Centrographic Statistics) A collection of functions for computing centrographic statistics (e.g., standard distance, standard deviation ellipse, standard deviation box) for observations taken at point locations. Separate plotting functions have been developed for each measure. Users interested in writing results to ESRI shapefiles can do so by using results from 'aspace' functions as inputs to the convert.to.shapefile() and write.shapefile() functions in the 'shapefiles' library. We intend to provide 'terra' integration for geographic data in a future release. The 'aspace' package was originally conceived to aid in the analysis of spatial patterns of travel behaviour (see Buliung and Remmel 2008 ). Package: r-cran-aspc Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-energy Filename: pool/dists/focal/main/r-cran-aspc_0.1.2-1.ca2004.1_all.deb Size: 27780 MD5sum: a134e39564352bef79456f8545b5711f SHA1: 4e2ffd56d378ad95f92963d4ba3303f552c986fd SHA256: de248de3e0caa3ff452873bbc815ee2d09ba6ca94184beb0500193991a716eac SHA512: 8aec6f22c68488349b48e0fa67ca55c3f3da155df7a7f094fc50637afa1b482e146c09730ef0670aaa3d8c884c973d4e79b6fc491c9afe046b17d88ceab6dccc Homepage: https://cran.r-project.org/package=aSPC Description: CRAN Package 'aSPC' (An Adaptive Sum of Powered Correlation Test (aSPC) for GlobalAssociation Between Two Random Vectors) The aSPC test is designed to test global association between two groups of variables potentially with moderate to high dimension (e.g. in hundreds). The aSPC is particularly useful when the association signals between two groups of variables are sparse. Package: r-cran-aspect Architecture: all Version: 1.0-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-sem, r-cran-polycor Filename: pool/dists/focal/main/r-cran-aspect_1.0-7-1.ca2004.1_all.deb Size: 93968 MD5sum: b9cbe8b35e3a1702bd0764c2858309ca SHA1: 895955d8d89915148d76ab8db3df9c85311b1cdc SHA256: 31bd117cd3c3c484a2c1cb586785166157985b6fce90af42bc1786bc0d1e18e2 SHA512: 05821c28a5b53a3d3aaac65506a63957f8c6795c5fb63e4491a1acfa92ba900efb85c32d3a887f2943cd6dcc6eb673aae25e806c113fe2b5d4de29b08dbcfb60 Homepage: https://cran.r-project.org/package=aspect Description: CRAN Package 'aspect' (A General Framework for Multivariate Analysis with OptimalScaling) Contains various functions for optimal scaling. One function performs optimal scaling by maximizing an aspect (i.e. a target function such as the sum of eigenvalues, sum of squared correlations, squared multiple correlations, etc.) of the corresponding correlation matrix. Another function performs implements the LINEALS approach for optimal scaling by minimization of an aspect based on pairwise correlations and correlation ratios. The resulting correlation matrix and category scores can be used for further multivariate methods such as structural equation models. Package: r-cran-aspi Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-aspi_0.2.0-1.ca2004.1_all.deb Size: 74436 MD5sum: 64902d0c08a63852c5a4fd8c6281bcde SHA1: 43b365e284b4fcbb5b524fabf9e2bda749b5142b SHA256: 7038bebbcd01aefb494fc49173b1fb446b4dda9ae0558e8a54a73d13dc2d8329 SHA512: 6053422dce1e7c66a0f0f1d0881b8989f52a9c32ffcb973506ee0898ff8316df892954a8c590e934388cbd49a2e740022b81bdd19eb690e451651d506752833c Homepage: https://cran.r-project.org/package=aspi Description: CRAN Package 'aspi' (Analysis of Symmetry of Parasitic Infections) Tools for the analysis and visualization of bilateral asymmetry in parasitic infections. Package: r-cran-aspu Architecture: all Version: 1.50-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 873 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gee, r-cran-mass, r-cran-mvtnorm, r-cran-fields, r-cran-matrixstats Suggests: r-cran-rmarkdown, r-cran-markdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-aspu_1.50-1.ca2004.1_all.deb Size: 743868 MD5sum: 3f79a7470d9390e655415ab5863ab159 SHA1: d4fbc8cbbdab4aa4458bd44ecfbfea17bf90502e SHA256: 56160261c070f41d6ba2836bc36d371f2d5bbb11e5731bc8e9072d756b104d50 SHA512: c158be8b46cbbdf70ccf771a6a8123f7adcd5491ae1d587ce8555b06c4581702cf9c1043d391343fc03400000f94e5d2700de12881c4e8d5a0a1dc48c4f3922c Homepage: https://cran.r-project.org/package=aSPU Description: CRAN Package 'aSPU' (Adaptive Sum of Powered Score Test) R codes for the (adaptive) Sum of Powered Score ('SPU' and 'aSPU') tests, inverse variance weighted Sum of Powered score ('SPUw' and 'aSPUw') tests and gene-based and some pathway based association tests (Pathway based Sum of Powered Score tests ('SPUpath'), adaptive 'SPUpath' ('aSPUpath') test, 'GEEaSPU' test for multiple traits - single 'SNP' (single nucleotide polymorphism) association in generalized estimation equations, 'MTaSPUs' test for multiple traits - single 'SNP' association with Genome Wide Association Studies ('GWAS') summary statistics, Gene-based Association Test that uses an extended 'Simes' procedure ('GATES'), Hybrid Set-based Test ('HYST') and extended version of 'GATES' test for pathway-based association testing ('GATES-Simes'). ). The tests can be used with genetic and other data sets with covariates. The response variable is binary or quantitative. Summary; (1) Single trait-'SNP' set association with individual-level data ('aSPU', 'aSPUw', 'aSPUr'), (2) Single trait-'SNP' set association with summary statistics ('aSPUs'), (3) Single trait-pathway association with individual-level data ('aSPUpath'), (4) Single trait-pathway association with summary statistics ('aSPUsPath'), (5) Multiple traits-single 'SNP' association with individual-level data ('GEEaSPU'), (6) Multiple traits- single 'SNP' association with summary statistics ('MTaSPUs'), (7) Multiple traits-'SNP' set association with summary statistics('MTaSPUsSet'), (8) Multiple traits-pathway association with summary statistics('MTaSPUsSetPath'). Package: r-cran-asremlplus Architecture: all Version: 4.4.49-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3262 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dae, r-cran-devtools, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-ggplot2, r-cran-nloptr, r-cran-qqplotr, r-cran-rcolorbrewer, r-cran-reshape2, r-cran-rlang, r-cran-sticky, r-cran-stringr, r-cran-trycatchlog Suggests: r-cran-emmeans, r-cran-lattice, r-cran-lmertest, r-cran-pbkrtest, r-cran-r.rsp, r-cran-testthat, r-cran-tictoc Filename: pool/dists/focal/main/r-cran-asremlplus_4.4.49-1.ca2004.1_all.deb Size: 3125640 MD5sum: 6176dea7cbb67815e6efb89c267ff36d SHA1: 172512f4e13e35f10fe8a50a39b511c83c6a69c8 SHA256: da72d524e9dd26cfdc57cb4d347e9c4c692234a5ebe78656ed4dd6127898292e SHA512: 075600fed60593d6f647ff5641b0e8865965e58744bf477959b796dd58162297278dacb281fd8e8288900a11fb75e621580f50752c29bba3395643eceddb25ef Homepage: https://cran.r-project.org/package=asremlPlus Description: CRAN Package 'asremlPlus' (Augments 'ASReml-R' in Fitting Mixed Models and PackagesGenerally in Exploring Prediction Differences) Assists in automating the selection of terms to include in mixed models when 'asreml' is used to fit the models. Procedures are available for choosing models that conform to the hierarchy or marginality principle, for fitting and choosing between two-dimensional spatial models using correlation, natural cubic smoothing spline and P-spline models. A history of the fitting of a sequence of models is kept in a data frame. Also used to compute functions and contrasts of, to investigate differences between and to plot predictions obtained using any model fitting function. The content falls into the following natural groupings: (i) Data, (ii) Model modification functions, (iii) Model selection and description functions, (iv) Model diagnostics and simulation functions, (v) Prediction production and presentation functions, (vi) Response transformation functions, (vii) Object manipulation functions, and (viii) Miscellaneous functions (for further details see 'asremlPlus-package' in help). The 'asreml' package provides a computationally efficient algorithm for fitting a wide range of linear mixed models using Residual Maximum Likelihood. It is a commercial package and a license for it can be purchased from 'VSNi' as 'asreml-R', who will supply a zip file for local installation/updating (see ). It is not needed for functions that are methods for 'alldiffs' and 'data.frame' objects. The package 'asremPlus' can also be installed from . Package: r-cran-asrgenomics Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4889 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-aghmatrix, r-cran-cowplot, r-cran-crayon, r-cran-data.table, r-cran-ellipse, r-cran-factoextra, r-cran-ggplot2, r-cran-matrix, r-cran-scattermore, r-cran-superheat Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-v8, r-cran-testthat Filename: pool/dists/focal/main/r-cran-asrgenomics_1.1.4-1.ca2004.1_all.deb Size: 4772140 MD5sum: 18b7011ee175846dc9284c537319e0a8 SHA1: abcce81c5557d1921f7aecc61723770494f14af5 SHA256: 301a7ffb9985f1777018e475bdcc1d5e52b88b602ece49b02cfd6d4c75cd0252 SHA512: a1047cc8050cce25c072a18db6aa5cdac97b8ddce119b02660c17698d68b56cb1ba6c74cda4d689d457dbed373f25e3bbcdfe1b8ef3092ec7508adea0bc0ab23 Homepage: https://cran.r-project.org/package=ASRgenomics Description: CRAN Package 'ASRgenomics' (Complementary Genomic Functions) Presents a series of molecular and genetic routines in the R environment with the aim of assisting in analytical pipelines before and after the use of 'asreml' or another library to perform analyses such as Genomic Selection or Genome-Wide Association Analyses. Methods and examples are described in Gezan, Oliveira, Galli, and Murray (2022) . Package: r-cran-assemblerr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 909 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-rlang, r-cran-magrittr, r-cran-glue, r-cran-vctrs, r-cran-cli, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-withr, r-cran-markdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-assemblerr_0.1.1-1.ca2004.1_all.deb Size: 707388 MD5sum: 89dcf5c84f7fe7776c176e61ed77f90d SHA1: b70dec3b73f1f6c63f3ce5e707b86856ac6f863c SHA256: 76ddb408e89d4c10ca6c77880fad042438677fbe9e5efae503aae8886039bc7b SHA512: 3d436f3d58b28b7651600efa4c84afc6526e25f41224b89d1615a4df8fbbdf95255831e0bbeaf820f131baf8e30210f3aa9b02040c73883d5ed3ec26fdae7483 Homepage: https://cran.r-project.org/package=assemblerr Description: CRAN Package 'assemblerr' (Assembly of Pharmacometric Models) Construct pharmacometric nonlinear mixed effect models by combining predefined model components and automatically generate model code for NONMEM. Models are created by combining parameter and observation models, algebraic relationships, compartments, and flows. Pharmacokinetic models can be assembled from the higher-order components: absorption, distribution, and elimination. The generated code is optimized for performance by recognizing, for example, linear differential equations or differential equations with an analytic solution. Package: r-cran-assert Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 42 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-assert_1.0.1-1.ca2004.1_all.deb Size: 11308 MD5sum: feeb9d7540a75e419fead7f519028623 SHA1: 2e532bc219bdb1cc954d6292bf7f6a2d5caf9083 SHA256: 93a43741286ea292b1a55ef973fdd0b61968c78863a43c13e4920011baeff071 SHA512: 3e68ae9832c8f3d6d38956859f598d1bfda840ba5af7d1e040d844976b606ddd951e6de9592fbda5b4854bc1ad26057387c70194dfea323039b66f97fad3e7e4 Homepage: https://cran.r-project.org/package=assert Description: CRAN Package 'assert' (Validate Function Arguments) Lightweight validation tool for checking function arguments and validating data analysis scripts. This is an alternative to stopifnot() from the 'base' package and to assert_that() from the 'assertthat' package. It provides more informative error messages and facilitates debugging. Package: r-cran-assertable Architecture: all Version: 0.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-assertable_0.2.8-1.ca2004.1_all.deb Size: 56884 MD5sum: 8b61846eb7c88cdd8fbb5f21b8b821d2 SHA1: 6eba1bfba1cc9a0a952192d339f89018eb9d16be SHA256: b50295898a1de68f5b0dbbd8dd5b477f60cb7060d1f81c00cd667aeb79b6be5c SHA512: 3c50e544fe76a94d7cd33e6e41bc609f06e0d2bcb23d1d74c8c074ce44da3b75a03bd0b0e61c68cfc4531cef0b8b6701355c2ab933cc5b2f9db44db53e3ba1d3 Homepage: https://cran.r-project.org/package=assertable Description: CRAN Package 'assertable' (Verbose Assertions for Tabular Data (Data.frames andData.tables)) Simple, flexible, assertions on data.frame or data.table objects with verbose output for vetting. While other assertion packages apply towards more general use-cases, assertable is tailored towards tabular data. It includes functions to check variable names and values, whether the dataset contains all combinations of a given set of unique identifiers, and whether it is a certain length. In addition, assertable includes utility functions to check the existence of target files and to efficiently import multiple tabular data files into one data.table. Package: r-cran-asserthe Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 309 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-ggplot2, r-cran-dplyr, r-cran-visnetwork, r-cran-covr, r-cran-htmltools, r-cran-officer, r-cran-flextable, r-cran-knitr, r-cran-shiny, r-cran-shinyjs, r-cran-rstudioapi, r-cran-roxygen2, r-cran-waiter, r-cran-igraph, r-cran-httr Suggests: r-cran-testthat, r-cran-colourpicker, r-cran-clipr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-asserthe_1.0.0-1.ca2004.1_all.deb Size: 188236 MD5sum: aa6161de84774b4c8ac0452aa1e88f48 SHA1: 875f84c43e3d100ee0f3273d40783146223013ce SHA256: ab954df7c6ec43deeb7270487c1926e9c5d9a860c2d3855b2123434a734b06e7 SHA512: 31099797066360e7955650508389b1e65d35d02db043af7701c2c6877753f1a685fe054facf8edc6d24ae1d264a6302aaccab89d0b586883ffcc13e8649e9c15 Homepage: https://cran.r-project.org/package=assertHE Description: CRAN Package 'assertHE' (Visualisation and Verification of Health Economic DecisionModels) Designed to help health economic modellers when building and reviewing models. 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Package: r-cran-assertions Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 651 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-rlang Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-shiny, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-assertions_0.2.0-1.ca2004.1_all.deb Size: 486912 MD5sum: 26ca698b1643cf1eb650ee30363f4af7 SHA1: a03a81c17f5c315f4d2f7cb740195557d8fae20b SHA256: 99c519b99116af1a4e24d9a4185d0f7095532af7c6c89306acab98fd002bb24c SHA512: 59e9f0371a677d30cb0988a64e1e431a1a7c082ff028667140d524dcd0d1ebebf59f56acffc39075b413b2608180456cb3b1b19c167a09538683d06d2b96e79f Homepage: https://cran.r-project.org/package=assertions Description: CRAN Package 'assertions' (Simple Assertions for Beautiful and Customisable Error Messages) Provides simple assertions with sensible defaults and customisable error messages. It offers convenient assertion call wrappers and a general assert function that can handle any condition. Default error messages are user friendly and easily customized with inline code evaluation and styling powered by the 'cli' package. 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Includes facilities for design, exploration and analysis of such trials. An implementation of the initial DEFUSE-3 trial is also provided as a vignette. Package: r-cran-assocafc Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 834 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-compquadform Filename: pool/dists/focal/main/r-cran-assocafc_1.0.2-1.ca2004.1_all.deb Size: 118264 MD5sum: ec8b559a4d5e0e952f394e9e53ce4c66 SHA1: a6c6467e9d76b5d315ba377da4f24cee0995e65e SHA256: 7fcbe357a8df6d54eaaa011788062c32aa17434192920db7552d582dde5aa861 SHA512: d363358948703bbc86995c566d9777ddacb899e3912359e0b0cbcab6859446e2565574767c286ac060ee0d64a37d84dd82dc9408ce0350bb4ea30998c3915819 Homepage: https://cran.r-project.org/package=AssocAFC Description: CRAN Package 'AssocAFC' (Allele Frequency Comparison) When doing association analysis one does not always have the genotypes for the control population. In such cases it may be necessary to fall back on frequency based tests using well known sources for the frequencies in the control population, for instance, from the 1000 Genomes Project. The Allele Frequency Comparison ('AssocAFC') package performs multiple rare variant association analyses in both population and family-based GWAS (Genome-Wide Association Study) designs. It includes three score tests that are based on the difference of the sum of allele frequencies between cases and controls. Two of these tests, Wcorrected() and Wqls(), are collapsing-based tests and suffer from having protective and risk variants. The third test, afcSKAT(), is a score test that overcomes the mix of SNP (Single-Nucleotide Polymorphism) effect directions. For more details see Saad M and Wijsman EM (2017) . 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Helper functions provide suggested versions of both and support visualization and the computation of summary statistics on final binnings. For a complete description of the functionality and algorithm, see Salahub and Oldford (2023) . 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Runtime examples are provided in the package function as well as at . 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To cite this package in publications use: Lin Wang, Wei Zhang, and Qizhai Li. AssocTests: An R Package for Genetic Association Studies. Journal of Statistical Software. 2020; 94(5): 1-26. 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Package: r-cran-astrodatr Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3463 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-astrodatr_0.1-1.ca2004.1_all.deb Size: 3299732 MD5sum: 8172a643a2405bb574f3043284b8381b SHA1: 95b46e62936d787f7fec9f41829efe0932cda1f4 SHA256: 7ff3807bbf263298fe95486709a4bb298cd50f767ba2508723673b74ab426dc8 SHA512: 75eead0e0df29290bf0d6dfa67f2c0a03c86c1281c8caabb8ec9874863fbb1307b05c5aade0cf40547aa095812eda67b2e317a1f08d921ef81220460a22b6fac Homepage: https://cran.r-project.org/package=astrodatR Description: CRAN Package 'astrodatR' (Astronomical Data) A collection of 19 datasets from contemporary astronomical research. They are described the textbook `Modern Statistical Methods for Astronomy with R Applications' by Eric D. Feigelson and G. Jogesh Babu (Cambridge University Press, 2012, Appendix C) or on the website of Penn State's Center for Astrostatistics (http://astrostatistics.psu.edu/datasets). These datasets can be used to exercise methodology involving: density estimation; heteroscedastic measurement errors; contingency tables; two-sample hypothesis tests; spatial point processes; nonlinear regression; mixture models; censoring and truncation; multivariate analysis; classification and clustering; inhomogeneous Poisson processes; periodic and stochastic time series analysis. Package: r-cran-astrofns Architecture: all Version: 4.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-astrofns_4.2-1-1.ca2004.1_all.deb Size: 68916 MD5sum: df755c9a96c08bbf3f42788df0453d7a SHA1: dd76d1e7743fa60ddefd5ef0572ecc411440f4ee SHA256: ea215170a961b81c0ed67585abf8367b0b7e7ca9c0372e1afe03ee611ac55459 SHA512: 80caefa7fb1c06857b4c61fdcd93c81a521cdb8355d280cc686a1ccb6158b2b5a035eef0b6d1d44e4be82a152c322301109e1b0842a8f5166aa58228fe1a832b Homepage: https://cran.r-project.org/package=astroFns Description: CRAN Package 'astroFns' (Astronomy: Time and Position Functions, Misc. Utilities) Miscellaneous astronomy functions, utilities, and data. Package: r-cran-astrolibr Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 622 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-astrolibr_0.1-1.ca2004.1_all.deb Size: 570572 MD5sum: f59371e8d573013a74704ed007c95d9c SHA1: ba6bc90f38d668d700485f9ea97700b72e9bbc34 SHA256: 327e81363789f876bd7418aea1da566328abd2c0fe935d2c6d41a772e0d03e66 SHA512: 2e5a4a11cc73445580cf76d76fa00f53208d38d9479286d823c14f66b6d6e952bbdee4e555a9ffddd2162d456219994008e415bf85cd7115bff3a431450ce3ec Homepage: https://cran.r-project.org/package=astrolibR Description: CRAN Package 'astrolibR' (Astronomy Users Library) Several dozen low-level utilities and codes from the Interactive Data Language (IDL) Astronomy Users Library (http://idlastro.gsfc.nasa.gov) are implemented in R. They treat: time, coordinate and proper motion transformations; terrestrial precession and nutation, atmospheric refraction and aberration, barycentric corrections, and related effects; utilities for astrometry, photometry, and spectroscopy; and utilities for planetary, stellar, Galactic, and extragalactic science. Package: r-cran-astsa Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1343 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-astsa_2.2-1.ca2004.1_all.deb Size: 1298128 MD5sum: fc8ae882601822dd22f8d2a265bc3fe6 SHA1: a30a68873853aad5d400d716532fb8ceaf2aa9d5 SHA256: 669f88887df225504da86f9cc05a509ea30bd3757fff749b796adcdf16d61863 SHA512: 707c132fb9e4fd606241da247151d213ad924de92c69c59feecb17f7e8f6041abfc3db13fa786c713274d5192e09b50d960366018d1959a5cc985a69abe5e4a6 Homepage: https://cran.r-project.org/package=astsa Description: CRAN Package 'astsa' (Applied Statistical Time Series Analysis) Contains data sets and scripts for analyzing time series in both the frequency and time domains including state space modeling as well as supporting the texts Time Series Analysis and Its Applications: With R Examples (5th ed), by R.H. Shumway and D.S. Stoffer. Springer Texts in Statistics, 2025, , and Time Series: A Data Analysis Approach Using R. Chapman-Hall, 2019, . Package: r-cran-asus Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-wavethresh Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-asus_1.5.0-1.ca2004.1_all.deb Size: 60648 MD5sum: 20ec3f18ca9518edc623ae8bcd8bb2cf SHA1: d0b69c4f1b2f52fc30f328cd77d2b91a43a90545 SHA256: 9339f13c25cceae227a0cb14971180c529d871134c129be1222b587a7246aa38 SHA512: 02945531131675e82b4b9cd9d295d8ecf599b054692c551c1dc9e98df0c4964dc000a1f6a5185fa577ca506884315d29e591decd2b1bd0456df7cef1923f8bf0 Homepage: https://cran.r-project.org/package=asus Description: CRAN Package 'asus' (Adaptive SURE Thresholding Using Side Information) Provides the ASUS procedure for estimating a high dimensional sparse parameter in the presence of auxiliary data that encode side information on sparsity. It is a robust data combination procedure in the sense that even when pooling non-informative auxiliary data ASUS would be at least as efficient as competing soft thresholding based methods that do not use auxiliary data. For more information, please see the paper Adaptive Sparse Estimation with Side Information by Banerjee, Mukherjee and Sun (JASA 2020). Package: r-cran-asvpc Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plyr Suggests: r-cran-hmisc Filename: pool/dists/focal/main/r-cran-asvpc_1.0.2-1.ca2004.1_all.deb Size: 112004 MD5sum: 4132959e41a9bf1339eb04febd3d453f SHA1: df9230c0f90364344819dd707a90685f36e63948 SHA256: 96c3febcc1deb92d5d665b3bb473fce370aa72226fcd2282cfd5492aa413bdff SHA512: 30219af1e28fffa570d03f1344309b23a0d70370d63433e02be6f4d1752279113c9216ed9e043de7c82c1543a9df9541dcbd53c6c83b6dfffc505dbeeea9d48d Homepage: https://cran.r-project.org/package=asVPC Description: CRAN Package 'asVPC' (Average Shifted Visual Predictive Checks) The visual predictive checks are well-known method to validate the nonlinear mixed effect model, especially in pharmacometrics area. The average shifted visual predictive checks are the newly developed method of Visual predictive checks combined with the idea of the average shifted histogram. Package: r-cran-asyk Architecture: all Version: 1.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-asyk_1.5.6-1.ca2004.1_all.deb Size: 32032 MD5sum: f41fcd9bc479794c5a16a702f913ea7d SHA1: fd08531b6dbbf821d0739b4c1b477e636de113d4 SHA256: fa30786b9f828a1174be9123adc71311b67fa71fb1b8a7cbd31a2428cf4bfbd2 SHA512: 1542cfe16db8c95c01ad282cd2afb5767a75479f994e9fc3386f01c46640a17d03f754bf79615556b653255b3ea967fee0eba2eb7005b06ee6e7592b771e299e Homepage: https://cran.r-project.org/package=AsyK Description: CRAN Package 'AsyK' (Kernel Density Estimation) A collection of functions related to density estimation by using Chen's (2000) idea. Mean Squared Errors (MSE) are calculated for estimated curves. For this purpose, R functions allow the distribution to be Gamma, Exponential or Weibull. For details see Chen (2000), Scaillet (2004) and Khan and Akbar. Package: r-cran-asylum Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4453 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-asylum_1.1.2-1.ca2004.1_all.deb Size: 3858832 MD5sum: 83a43a8b3e08da15bf45c268857c8308 SHA1: 787a02ab8ebdefa61b7bb6ec3046d3973ef08f79 SHA256: f69052cf7d58bc35728822c6f0de18f2262567c27c0dd49b0f3f33357ed3e34d SHA512: faf9bc7285a7ccf0349fa756ffbe0983b2f52993398edfdf7224c6b9f6283f4a20156927233bc5c6328d4af733fd82939883bd656e0d227cbd9dc5047ce970f1 Homepage: https://cran.r-project.org/package=asylum Description: CRAN Package 'asylum' (Data on Asylum and Resettlement for the UK) Data on Asylum and Resettlement for the UK, provided by the Home Office . Package: r-cran-asymld Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-haplo.stats, r-cran-fields Filename: pool/dists/focal/main/r-cran-asymld_0.1-1.ca2004.1_all.deb Size: 51228 MD5sum: 42082d43f5f3ff88a819362ec9ab3ec3 SHA1: c48d2a8227e92d906a6a133d1fde14f6766a235a SHA256: 79077eddaf8df3dc5e5c4c24c4fdc1d28ad4e950d654e5a0c5fc3e7c1138c1af SHA512: 9e4ecc1eff9ad21fc39bf7b706593f0affdee0ba2e0bbda8dea8d0eb0a5aef16bb68cde71aad5087594ef9832796161d021ab9320604986ed84d5237918ffcf4 Homepage: https://cran.r-project.org/package=asymLD Description: CRAN Package 'asymLD' (Asymmetric Linkage Disequilibrium (ALD) for Polymorphic GeneticData) Computes asymmetric LD measures (ALD) for multi-allelic genetic data. These measures are identical to the correlation measure (r) for bi-allelic data. Package: r-cran-asymmetricsords Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-asymmetricsords_1.0.0-1.ca2004.1_all.deb Size: 151536 MD5sum: 8563970024fa2578198c5423cadbd45b SHA1: 2ec1fb239696906cf91b7fbdec7d07280ab2759b SHA256: b054fe6331b9d1e6355b5f93257f1f56a7415d0b02a15afbfe16b92231afe1dd SHA512: 7c3b0f77edf345bd01a35060f87a5d758b9f1db9b1305d3aac61d3cca01ed541ab1858f18abd097425f877f33eb880c81dbfe1b063d6444a7c303983b0261048 Homepage: https://cran.r-project.org/package=AsymmetricSORDs Description: CRAN Package 'AsymmetricSORDs' (Asymmetric Second Order Rotatable Designs (AsymmetricSORDs)) Response surface designs (RSDs) are widely used for Response Surface Methodology (RSM) based optimization studies, which aid in exploring the relationship between a group of explanatory variables and one or more response variable(s) (G.E.P. Box and K.B. Wilson (1951), "On the experimental attainment of optimum conditions" ; M. Hemavathi, Shashi Shekhar, Eldho Varghese, Seema Jaggi, Bikas Sinha & Nripes Kumar Mandal (2022) ."Theoretical developments in response surface designs: an informative review and further thoughts".). Second order rotatable designs are the most prominent and popular class of designs used for process and product optimization trials but it is suitable for situations when all the number of levels for each factor is the same. In many practical situations, RSDs with asymmetric levels (J.S. Mehta and M.N. Das (1968). "Asymmetric rotatable designs and orthogonal transformations" ; M. Hemavathi, Eldho Varghese, Shashi Shekhar & Seema Jaggi (2020) . "Sequential asymmetric third order rotatable designs (SATORDs)" .) are more suitable as these designs explore more regions in the design space.This package contains functions named Asords() ,CCD_coded(), CCD_original(), SORD_coded() and SORD_original() for generating asymmetric/symmetric RSDs along with the randomized layout. It also contains another function named Pred.var() for generating the variance of predicted response as well as the moment matrix based on a second order model. Package: r-cran-asymmetry.measures Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sn, r-cran-skewt, r-cran-gamlss.dist Filename: pool/dists/focal/main/r-cran-asymmetry.measures_0.2-1.ca2004.1_all.deb Size: 140048 MD5sum: 84da508042e7ffd0071e9226d474c2d6 SHA1: 70c4cb98f0045b47fbc34ef8d8a45572f7ba13f7 SHA256: 88e471e4762f091ec39ec44968a8f9fb6d06bc7a489bf5c19b3880c47c188034 SHA512: 5b58564c74ee92e26ffd5c4a28058a0dd6cd64cf2424e26483b4e7b6b017f06fc4136627db5d35823c70b27f5c3ceb95b03f2b82feadb10c6368af76c41633ab Homepage: https://cran.r-project.org/package=asymmetry.measures Description: CRAN Package 'asymmetry.measures' (Asymmetry Measures for Probability Density Functions) Provides functions and examples for the weak and strong density asymmetry measures in the articles: "A measure of asymmetry", Patil, Patil and Bagkavos (2012) and "A measure of asymmetry based on a new necessary and sufficient condition for symmetry", Patil, Bagkavos and Wood (2014) . The measures provided here are useful for quantifying the asymmetry of the shape of a density of a random variable. The package facilitates implementation of the measures which are applicable in a variety of fields including e.g. probability theory, statistics and economics. Package: r-cran-asymmetry Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 289 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gplots, r-cran-smacof Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-asymmetry_2.0.4-1.ca2004.1_all.deb Size: 163920 MD5sum: dfaea336e1b2c07258efa8afd364c3b0 SHA1: 89e744b63ba31b13f833403650dc34eba110150a SHA256: b40e158019dcc705a48a784bdf7d2ba5da9b7e471534c0c37e3a5b2411cda18f SHA512: d62bfce7390b45c52a56b828d2837830b422fe58bb97dbc0273c425aaa98a5713730fab48c4932574ada410153690bde34fd610d2ecde7f2bce588c36f00f285 Homepage: https://cran.r-project.org/package=asymmetry Description: CRAN Package 'asymmetry' (Multidimensional Scaling of Asymmetric Proximities) Multidimensional scaling models and methods for the visualization and analysis of asymmetric proximity data . An asymmetric data matrix has the same number of rows and columns, and these rows and columns refer to the same set of objects. At least some elements in the upper-triangle are different from the corresponding elements in the lower triangle. An example of an asymmetric matrix is a student migration table, where the rows correspond to the countries of origin of the students and the columns to the destination countries. This package provides algorithms for three multidimensional scaling models. These are the slide-vector model , a scaling model with unique dimensions and the asymscal model for asymmetric multidimensional scaling. Furthermore, a heat map for skew-symmetric data, and the decomposition of asymmetry are provided for the exploratory analysis of asymmetric tables. Package: r-cran-asympdiag Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli Suggests: r-cran-glmmtmb, r-cran-lme4, r-cran-mass, r-cran-matrix, r-cran-rlang, r-cran-sandwich, r-cran-survival, r-cran-testthat, r-cran-vctrs, r-cran-withr Filename: pool/dists/focal/main/r-cran-asympdiag_0.3.1-1.ca2004.1_all.deb Size: 104360 MD5sum: a0a20d9c12c4c1e0a63db15f55c31bda SHA1: 97c087a99f51d669d5d436077fb47e799780cd84 SHA256: 5658b9959c0caaa0b9edb0a53f99b8ccd696c8866d7cb352c185d05f3544009d SHA512: 1cdd0be189ce7c632517d9b2a75444c5975b5c8d0fd394e3f8f891511ba008733ebe631f34196a439e99690990283a5b6623d059cbbed33349a2266d99c62a63 Homepage: https://cran.r-project.org/package=asympDiag Description: CRAN Package 'asympDiag' (Diagnostic Tools for Asymptotic Theory) Leveraging Monte Carlo simulations, this package provides tools for diagnosing regression models. It implements a parametric bootstrap framework to compute statistics, generates diagnostic envelopes to assess goodness-of-fit, and evaluates type I error control for Wald tests. By simulating data under the assumption that the model is true, it helps to identify model mis-specifications and enhances the reliability of the model inferences. Package: r-cran-asymptest Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 377 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-asymptest_0.1.4-1.ca2004.1_all.deb Size: 347976 MD5sum: e29d86f6a15aeac9b2eab45590c7fe2f SHA1: d84c23bdfbef1ccdafbbec15eab9a0a26e65dcbf SHA256: 7e5083868465a155fd4e778743e8b995ef576b6e92cada1dc0d23b92514b5d7d SHA512: 7fc259ae5246ce4655f862afe45634d1754395aa03e5530a236040f947f29ab7554f24fe72b1025f4eea5acfab35236509808fdd2d1ae4e8d72258018e463e49 Homepage: https://cran.r-project.org/package=asympTest Description: CRAN Package 'asympTest' (A Simple R Package for Classical Parametric Statistical Testsand Confidence Intervals in Large Samples) One and two sample mean and variance tests (differences and ratios) are considered. The test statistics are all expressed in the same form as the Student t-test, which facilitates their presentation in the classroom. This contribution also fills the gap of a robust (to non-normality) alternative to the chi-square single variance test for large samples, since no such procedure is implemented in standard statistical software. Package: r-cran-asymptor Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 284 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-covr, r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-asymptor_1.1.0-1.ca2004.1_all.deb Size: 133236 MD5sum: e36de09694b10d65465bbb0ad8a2ba6e SHA1: 7eefbb536f3da505b91e36526afc02f8c92c3e7a SHA256: 35202233118ae285cf52339eda9a09b1cf25bb88d6792e52283c435984d76e19 SHA512: 1d20f9bb1515ed55fcc08431a5a044a5c13da312925de3c97eed49451d29dd1403b62d061c2f415200de0ac56e03fb0bc999d7fccb8e91a38a208ef799d3300e Homepage: https://cran.r-project.org/package=asymptor Description: CRAN Package 'asymptor' (Estimate Asymptomatic Cases via Capture/Recapture Methods) Estimate the lower and upper bound of asymptomatic cases in an epidemic using the capture/recapture methods from Böhning et al. (2020) and Rocchetti et al. (2020) . Note there is currently some discussion about the validity of the methods implemented in this package. You should read carefully the original articles, alongside this answer from Li et al. (2022) before using this package in your project. 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Package: r-cran-atq Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 650 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-zoo, r-cran-ggplot2, r-cran-gridextra, r-cran-rlang, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-cli, r-cran-fansi, r-cran-farver, r-cran-utf8, r-cran-devtools, r-cran-testthat Filename: pool/dists/focal/main/r-cran-atq_0.2.3-1.ca2004.1_all.deb Size: 459904 MD5sum: 9cd87ef69bceab3809883b5ae58b901c SHA1: d12bf6258d4a079f2f114ef8f18d348780e9f753 SHA256: 0c515136ce717b83d960d6bdde3663c1d2b81be16d33255cfd8e3e0704d4a15d SHA512: 9d58ae58c97b5bbf4fba0a6c03c19deb47134b32bec1702753ef298632ff48ae65b0ffe571b95b021ae6d302f9306673d7ce3fafdb687a7ace415929b2e5d4c4 Homepage: https://cran.r-project.org/package=ATQ Description: CRAN Package 'ATQ' (Alert Time Quality - Evaluating Timely Epidemic Metrics) Provides tools for evaluating timely epidemic detection models within school absenteeism-based surveillance systems. 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These density forecasts are then be used to produce coherent forecasts for any downside risk measure, e.g., value-at-risk, expected shortfall, downside entropy. Initially introduced by Adrian et al. (2019) to reveal the vulnerability of economic growth to financial conditions, the aR approach is currently extensively used by international financial institutions to provide Value-at-Risk (VaR) type forecasts for GDP growth (Growth-at-Risk) or inflation (Inflation-at-Risk). This package provides methods for estimating these models. Datasets for the US and the Eurozone are available to allow testing of the Adrian et al. (2019) model. This package constitutes a useful toolbox (data and functions) for private practitioners, scholars as well as policymakers. 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Direct access to plot-based data on vegetation and soils across Australia, including physical sample barcode numbers. Simple function calls extract the data and merge them into species occurrence matrices for downstream analysis, or calculate things like basal area and fractional cover. TERN AusPlots is a national field plot-based ecosystem surveillance monitoring method and dataset for Australia. The data have been collected across a national network of plots and transects by the Terrestrial Ecosystem Research Network (TERN - ), an Australian Government NCRIS-enabled project, and its Ecosystem Surveillance platform (). Package: r-cran-australianpoliticians Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-readr, r-cran-purrr, r-cran-tibble Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-australianpoliticians_0.1.0-1.ca2004.1_all.deb Size: 60736 MD5sum: 5d2bcd4e60a82ae246b574f26c6790ad SHA1: 2ce52740b404547ab1500f25361f109ab23945dc SHA256: 0a249dae1733dbefbfbeda5e39c4a60f273e2ab5045c2bf0162094db296d218f SHA512: 8b78b8dea6572f44359b0910725f965f6e8e027a0d2f18ba9f92fc69978292fc7daf290d606d8bf98f25ed6b93b6e9e6d29b7063cf31026e7cf5073430549b19 Homepage: https://cran.r-project.org/package=AustralianPoliticians Description: CRAN Package 'AustralianPoliticians' (Provides Datasets About Australian Politicians) Provides access to biographical and political data about Australian federal politicians who served between 1901 and 2021. This enhances how reproducible research is that uses this data. Package: r-cran-autests Architecture: all Version: 0.99-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-logistf Suggests: r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-autests_0.99-1.ca2004.1_all.deb Size: 57636 MD5sum: 2b82db6215095ca81f6a4e28df65cb66 SHA1: 59e1b7239b431381a664959c1518fa19b93dea9e SHA256: 4df8ed637349bf80258a66bc887b6faf24094db09cbf56faa90661c32c21b91c SHA512: 230c07abe0e16908d745762f7c5638b15d19276e4a44ccb499135ef3124e79fb3822a3a6212a72349363aa6240be37eaa106a08276b489809abec266b4983bf2 Homepage: https://cran.r-project.org/package=AUtests Description: CRAN Package 'AUtests' (Approximate Unconditional and Permutation Tests) Performs approximate unconditional and permutation testing for 2x2 contingency tables. Motivated by testing for disease association with rare genetic variants in case-control studies. When variants are extremely rare, these tests give better control of Type I error than standard tests. Package: r-cran-auth0 Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 429 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-httr, r-cran-shiny, r-cran-yaml, r-cran-shinyjs Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-auth0_0.2.3-1.ca2004.1_all.deb Size: 317728 MD5sum: e93b17c10839f50f90496e198c587f51 SHA1: 8a240e8db08a4b133eb738a403ef05c9e0ac993a SHA256: 7b8c8acdc8be44e30fb0fbf017248803c7579a5bd476d38f7c8852a578e4a516 SHA512: 33d155105265399005dd261c7e9e8ba06e4b133118a93352e04a2437113cac973fbc5b5d93702ea56477962399bc5506882bdc1605158b1e28b152b25947ffb2 Homepage: https://cran.r-project.org/package=auth0 Description: CRAN Package 'auth0' (Authentication in Shiny with Auth0) Uses Auth0 API (see for more information) to use a simple authentication system. It provides tools to log in and out a shiny application using social networks or a list of e-mails. Package: r-cran-authoritative Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-stringi Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-authoritative_0.2.0-1.ca2004.1_all.deb Size: 71792 MD5sum: 05b1713c8f6da2d63ba017e551ad3e2f SHA1: 774d609137de27e9b22f720c03fb57da95e695cd SHA256: 9c8d4813ce3ebed18d5ae6f1d98d6ba61849ac1b6b1b9ae443a430459df841dc SHA512: 6aced9af15a00acfc5c39ba9b41c9469b328773077b2d3b3b83cffb158fa7a8b2e1fe3a38eafc79fb1387d3d2fb49ddd00f97cfb39df2177de50a1c22ea7b772 Homepage: https://cran.r-project.org/package=authoritative Description: CRAN Package 'authoritative' (Parse and Deduplicate Author Names) Utilities to parse authors fields from DESCRIPTION files and general purpose functions to deduplicate names in database, beyond the specific case of R package authors. Package: r-cran-auto.pca Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-psych, r-cran-plyr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-auto.pca_0.3-1.ca2004.1_all.deb Size: 15180 MD5sum: 1ff4a14529bbfd8994aec8b2103e5f84 SHA1: 73da611ea6a6ceab943a560654a11b74bbe34280 SHA256: 8d25ee470424c49677a696ea00091981f3e71cfcf29b6a8bb526dc9522a36540 SHA512: 0c2addd52539f4566fe607cb4c662da35cd94fbd235fcdf9e1384ec3417f71eb33babc6212c9ec7e40661fa16fbd0ce19fac3349bb5ba167f3dba14b3f274f4b Homepage: https://cran.r-project.org/package=auto.pca Description: CRAN Package 'auto.pca' (Automatic Variable Reduction Using Principal Component Analysis) PCA done by eigenvalue decomposition of a data correlation matrix, here it automatically determines the number of factors by eigenvalue greater than 1 and it gives the uncorrelated variables based on the rotated component scores, Such that in each principal component variable which has the high variance are selected. It will be useful for non-statisticians in selection of variables. For more information, see the web page. Package: r-cran-autoads Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-forecast, r-cran-ggplot2, r-cran-rlang Filename: pool/dists/focal/main/r-cran-autoads_0.1.0-1.ca2004.1_all.deb Size: 36300 MD5sum: 223f3a65cf455c360912bd653f85c876 SHA1: 00a6a4c83fa0794ba3ba1d7dfaeeb82dae507e5d SHA256: 4b4cbb8154cbd3de23213dd33c86ccc9738e2ba2f9892b09e0244f6e52597d54 SHA512: 29b169c2a9e5969f842fc09169109cf7dcab489dbcfed4dbc17500ffed277cadc15a248c3c88ab3ad46a22596c14456f36562ceffda11fa59589c0b214bdb222 Homepage: https://cran.r-project.org/package=AutoAds Description: CRAN Package 'AutoAds' (Advertisement Metrics Calculation) Calculations of the most common metrics of automated advertisement and plotting of them with trend and forecast. Calculations and description of metrics is taken from different RTB platforms support documentation. Plotting and forecasting is based on packages 'forecast', described in Rob J Hyndman and George Athanasopoulos (2021) "Forecasting: Principles and Practice" and Rob J Hyndman et al "Documentation for 'forecast'" (2003) , and 'ggplot2', described in Hadley Wickham et al "Documentation for 'ggplot2'" (2015) , and Hadley Wickham, Danielle Navarro, and Thomas Lin Pedersen (2015) "ggplot2: Elegant Graphics for Data Analysis" . Package: r-cran-autobagging Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2042 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-xgboost, r-cran-e1071, r-cran-rpart, r-cran-abind, r-cran-caret, r-cran-mass, r-cran-entropy, r-cran-lsr, r-cran-corelearn, r-cran-infotheo, r-cran-minerva, r-cran-party Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-autobagging_0.1.0-1.ca2004.1_all.deb Size: 1963116 MD5sum: b63e51b0defd5a21a2e13f9c14444c3f SHA1: c6f9dfe8646914163a37a15c2c6af21f0911d903 SHA256: e768f19c0467b2f44e0a8b7597fd66b3afdd11735ce58d67a5574d397f303123 SHA512: 40fbffe4f2df9eb8daf46a59a289875981bc1a288e30212e4f20b1cc8e55963aab6deb07a2509c2ec0f8959265d6f9c640e985617c2ec1ea0bbc7d95f1f71370 Homepage: https://cran.r-project.org/package=autoBagging Description: CRAN Package 'autoBagging' (Learning to Rank Bagging Workflows with Metalearning) A framework for automated machine learning. Concretely, the focus is on the optimisation of bagging workflows. A bagging workflows is composed by three phases: (i) generation: which and how many predictive models to learn; (ii) pruning: after learning a set of models, the worst ones are cut off from the ensemble; and (iii) integration: how the models are combined for predicting a new observation. autoBagging optimises these processes by combining metalearning and a learning to rank approach to learn from metadata. It automatically ranks 63 bagging workflows by exploiting past performance and dataset characterization. A complete description of the method can be found in: Pinto, F., Cerqueira, V., Soares, C., Mendes-Moreira, J. (2017): "autoBagging: Learning to Rank Bagging Workflows with Metalearning" arXiv preprint arXiv:1706.09367. Package: r-cran-autocogs Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 885 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-checkmate, r-cran-diptest, r-cran-dplyr, r-cran-ggplot2, r-cran-hexbin, r-cran-mass, r-cran-mclust, r-cran-moments, r-cran-progress, r-cran-tibble Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-autocogs_0.1.5-1.ca2004.1_all.deb Size: 819348 MD5sum: fda2fd5102222ff871ac0f5eb4d03026 SHA1: 4f933bb92a1be0d0ca90f5b105ef4799ccc62ecb SHA256: 62dd00afff1c920c61f3f099e885a25d2c63fec9a6881d697a4db68e52493fed SHA512: 0657623c970c7f9ee6afe49ed0c058bb99ccec86e2233f605d0f5b3cbf59b37b1391dca12e9fbb09c219638c7734b3c233cb2cf3fdb29e1bbc8fce84b2a4951c Homepage: https://cran.r-project.org/package=autocogs Description: CRAN Package 'autocogs' (Automatic Cognostic Summaries) Automatically calculates cognostic groups for plot objects and list column plot objects. Results are returned in a nested data frame. Package: r-cran-autocovariateselection Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 584 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-autocovariateselection_1.0.0-1.ca2004.1_all.deb Size: 558632 MD5sum: 74d59dfb1097c32eaa5d3e762358b9ae SHA1: cadf492138b068be887630296f9d55607a47c65f SHA256: f13636b0011abe5521b6b923c49ab6c68fdc58bdc4a0a19e90b3314322310a04 SHA512: 40652200ed5af4945b733f0b30a75661b9ad564109507e3b723d669c20d0127ebdd1693413a421562a1c400f243084d55b0ddb78104907e42e450642eff8fd1c Homepage: https://cran.r-project.org/package=autoCovariateSelection Description: CRAN Package 'autoCovariateSelection' (Automated Covariate Selection Using HDPS Algorithm) Contains functions to implement automated covariate selection using methods described in the high-dimensional propensity score (HDPS) algorithm by Schneeweiss et.al. Covariate adjustment in real-world-observational-data (RWD) is important for for estimating adjusted outcomes and this can be done by using methods such as, but not limited to, propensity score matching, propensity score weighting and regression analysis. While these methods strive to statistically adjust for confounding, the major challenge is in selecting the potential covariates that can bias the outcomes comparison estimates in observational RWD (Real-World-Data). This is where the utility of automated covariate selection comes in. The functions in this package help to implement the three major steps of automated covariate selection as described by Schneeweiss et. al elsewhere. These three functions, in order of the steps required to execute automated covariate selection are, get_candidate_covariates(), get_recurrence_covariates() and get_prioritised_covariates(). In addition to these functions, a sample real-world-data from publicly available de-identified medical claims data is also available for running examples and also for further exploration. The original article where the algorithm is described by Schneeweiss et.al. (2009) . Package: r-cran-autodb Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3622 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-rlang, r-cran-spelling, r-cran-diagrammer, r-cran-testthat, r-cran-r.utils, r-cran-hedgehog, r-cran-tibble, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-autodb_3.0.0-1.ca2004.1_all.deb Size: 1180860 MD5sum: 07f2bd5c6654c7ec2d2b348282c422db SHA1: 706e6445edde26c368dda7d607bc24487809e90a SHA256: c7c56bf86f21430143fb7f33ce12a837614c7f70998f3ba2c6687e06865e3096 SHA512: 123dc32757e6e334781f21b27489e74156607c888c23bee9ecc3e9a507b5c6c474ef080504e49070d047f67386163e2ede23f78f9cc9b2ef68663e977a03f475 Homepage: https://cran.r-project.org/package=autodb Description: CRAN Package 'autodb' (Automatic Database Normalisation for Data Frames) Automatic normalisation of a data frame to third normal form, with the intention of easing the process of data cleaning. (Usage to design your actual database for you is not advised.) Originally inspired by the 'AutoNormalize' library for 'Python' by 'Alteryx' (), with various changes and improvements. Automatic discovery of functional or approximate dependencies, normalisation based on those, and plotting of the resulting "database" via 'Graphviz', with options to exclude some attributes at discovery time, or remove discovered dependencies at normalisation time. Package: r-cran-autodeskr Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3508 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-shiny Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-autodeskr_0.1.5-1.ca2004.1_all.deb Size: 2359928 MD5sum: 3adb21afb32c736ff7f54ae572ee9331 SHA1: 32ecc6194e77170cf689e69e60ef69b641dc9664 SHA256: a21eeb672be1bff8b336ebaf5ef085bba3dd189a10a54076b39f2731f57fdce4 SHA512: 082d800dfd5f6f6bd3ed5a1b2d89612ea09d2cca37093f089c35abe0e7370a926e15c859006f884bdb10078b000d5a5cae17f2c0f50048b2a34348500134ba96 Homepage: https://cran.r-project.org/package=AutoDeskR Description: CRAN Package 'AutoDeskR' (An Interface to the 'AutoDesk' 'API' Platform) An interface to the 'AutoDesk' 'API' Platform including the Authentication 'API' for obtaining authentication to the 'AutoDesk' Forge Platform, Data Management 'API' for managing data across the platform's cloud services, Design Automation 'API' for performing automated tasks on design files in the cloud, Model Derivative 'API' for translating design files into different formats, sending them to the viewer app, and extracting design data, and Viewer for rendering 2D and 3D models. Package: r-cran-autoencoder Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3913 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-autoencoder_1.1-1.ca2004.1_all.deb Size: 3975068 MD5sum: 761bf885ba1b55ecc577de558e16f09b SHA1: 476c8cea8828e2bb6f884617dff55269b6d9bdb2 SHA256: 1d2b7c51b93517690b3269a72e46f89aa8de0293c89cbbc9eb9e8eccd3dc2317 SHA512: 21b4d3ccf2e923df76b58230549be2fee4293e6c910c34ca64815e8b6d6884e6a53bd99f0a01159265ff4cf64e5aee894629526e5d08ce9c506b31e429adf9f9 Homepage: https://cran.r-project.org/package=autoencoder Description: CRAN Package 'autoencoder' (Sparse Autoencoder for Automatic Learning of RepresentativeFeatures from Unlabeled Data) Implementation of the sparse autoencoder in R environment, following the notes of Andrew Ng (http://www.stanford.edu/class/archive/cs/cs294a/cs294a.1104/sparseAutoencoder.pdf). The features learned by the hidden layer of the autoencoder (through unsupervised learning of unlabeled data) can be used in constructing deep belief neural networks. Package: r-cran-autoensemble Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 286 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-h2o, r-cran-h2otools, r-cran-curl Filename: pool/dists/focal/main/r-cran-autoensemble_0.3-1.ca2004.1_all.deb Size: 256792 MD5sum: 1910678655113d904fab836e9e0f0679 SHA1: 27c273535e3f3e447153d46706532d0a5684c288 SHA256: 10ba4040e33dd518c9b051cd113a4c5002833d5b27ebc005ea0681620788bea5 SHA512: 39471cc2cda2852fe6abe93bbe236ef84785479ecfb53ce85466b03d74846a1697cb1f0701bd4afe4c82450490fec0f931bbdf925303a58fc879619dca53233d Homepage: https://cran.r-project.org/package=autoEnsemble Description: CRAN Package 'autoEnsemble' (Automated Stacked Ensemble Classifier for Severe Class Imbalance) A stacking solution for modeling imbalanced and severely skewed data. It automates the process of building homogeneous or heterogeneous stacked ensemble models by selecting "best" models according to different criteria. In doing so, it strategically searches for and selects diverse, high-performing base-learners to construct ensemble models optimized for skewed data. This package is particularly useful for addressing class imbalance in datasets, ensuring robust and effective model outcomes through advanced ensemble strategies which aim to stabilize the model, reduce its overfitting, and further improve its generalizability. Package: r-cran-autofc Architecture: all Version: 0.2.0.1002-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 286 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-irrcac, r-cran-lavaan, r-cran-mass, r-cran-simdesign, r-cran-thurstonianirt, r-cran-mplusautomation, r-cran-glue, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-autofc_0.2.0.1002-1.ca2004.1_all.deb Size: 153232 MD5sum: f91a072c5e91deb67bc276893299b17d SHA1: 7f3b0489350861250c8e630da48c52a7fd586dc4 SHA256: cae527461cc79ac7efbe39b77ba2343bb341a65dac68fbcc4b97ceb07b92f00f SHA512: 4c264aad9bf36ddce453b6d627198a227382b23cc7a5c34bab247bf09caf6b7824d07fe241bda47edd8249e8bc91c1abfd947b95e4d2d8651c3bf0a6484bfae5 Homepage: https://cran.r-project.org/package=autoFC Description: CRAN Package 'autoFC' (Automatic Construction of Forced-Choice Tests) Forced-choice (FC) response has gained increasing popularity and interest for its resistance to faking when well-designed (Cao & Drasgow, 2019 ). To established well-designed FC scales, typically each item within a block should measure different trait and have similar level of social desirability (Zhang et al., 2020 ). Recent study also suggests the importance of high inter-item agreement of social desirability between items within a block (Pavlov et al., 2021 ). In addition to this, FC developers may also need to maximize factor loading differences (Brown & Maydeu-Olivares, 2011 ) or minimize item location differences (Cao & Drasgow, 2019 ) depending on scoring models. Decision of which items should be assigned to the same block, termed item pairing, is thus critical to the quality of an FC test. This pairing process is essentially an optimization process which is currently carried out manually. However, given that we often need to simultaneously meet multiple objectives, manual pairing becomes impractical or even not feasible once the number of latent traits and/or number of items per trait are relatively large. To address these problems, autoFC is developed as a practical tool for facilitating the automatic construction of FC tests (Li et al., 2022 ), essentially exempting users from the burden of manual item pairing and reducing the computational costs and biases induced by simple ranking methods. Given characteristics of each item (and item responses), FC measures can be constructed either automatically based on user-defined pairing criteria and weights, or based on exact specifications of each block (i.e., blueprint; see Li et al., 2024 ). Users can also generate simulated responses based on the Thurstonian Item Response Theory model (Brown & Maydeu-Olivares, 2011 ) and predict trait scores of simulated/actual respondents based on an estimated model. Package: r-cran-autogam Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-mgcv, r-cran-purrr, r-cran-rlang, r-cran-staccuracy, r-cran-stringr, r-cran-univariateml Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-autogam_0.1.0-1.ca2004.1_all.deb Size: 113196 MD5sum: e96feef8edf79dbb9605174e126e9677 SHA1: 2299464c365e63a1a2452d4f5fd227787449289e SHA256: 530549ab1b19789d23986a588afd63f5af41ce48632b951f40b302c306da8248 SHA512: 33f2d58878bab9d9d483d39b6f61d102e42b2c3741c3529fb2aa7e65ab3211252725176573bb737d98faa0b2c51023ed76e97b7680577133ebcfd9df1e95d446 Homepage: https://cran.r-project.org/package=autogam Description: CRAN Package 'autogam' (Automate the Creation of Generalized Additive Models (GAMs)) This wrapper package for 'mgcv' makes it easier to create high-performing Generalized Additive Models (GAMs). With its central function autogam(), by entering just a dataset and the name of the outcome column as inputs, 'AutoGAM' tries to automate the procedure of configuring a highly accurate GAM which performs at reasonably high speed, even for large datasets. Package: r-cran-autogo Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6014 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readr, r-cran-dplyr, r-cran-ape, r-bioc-complexheatmap, r-bioc-deseq2, r-cran-dichromat, r-cran-ggplot2, r-cran-ggrepel, r-bioc-gsva, r-cran-imgur, r-cran-msigdbr, r-cran-openxlsx, r-cran-purrr, r-cran-rcolorbrewer, r-cran-reshape2, r-cran-stringr, r-bioc-summarizedexperiment, r-cran-textshape, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rlang, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-autogo_1.0.1-1.ca2004.1_all.deb Size: 4489268 MD5sum: 6b1739b83c680c99cb1bdb9bbef50ed1 SHA1: 667b0a74304822b2d053492e1f08ee8e69a16342 SHA256: 68650ec70b6da710cfc2a3f453473c566fb8ab4b952c9aaa4e1000d0978f89f6 SHA512: 96dac49f578bcc7b53a32f14c9782747d944272e24132387bd250d40a806eec13346fd1bed9ebc0680b40aafc0241780d463bba13bfbd79f77bf620efbe99b15 Homepage: https://cran.r-project.org/package=autoGO Description: CRAN Package 'autoGO' (Auto-GO: Reproducible, Robust and High Quality OntologyEnrichment Visualizations) Auto-GO is a framework that enables automated, high quality Gene Ontology enrichment analysis visualizations. It also features a handy wrapper for Differential Expression analysis around the 'DESeq2' package described in Love et al. (2014) . The whole framework is structured in different, independent functions, in order to let the user decide which steps of the analysis to perform and which plot to produce. Package: r-cran-autoharp Architecture: all Version: 0.0.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 473 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-stringr, r-cran-rlang, r-cran-tibble, r-cran-knitr, r-cran-rmarkdown, r-cran-pryr, r-cran-shiny, r-cran-lintr, r-cran-igraph Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-autoharp_0.0.12-1.ca2004.1_all.deb Size: 387532 MD5sum: 4470b62778821bf70b07a467d776b424 SHA1: 82feb48e95d8395ee2ef9e3391d8dcba1d305177 SHA256: 164b2ab6be3dcd110242993c72c740dde45f6976a0f9f4adc628e70d84dd4146 SHA512: e44c2b2f25c97e5eb89d99c624206e2299abbae46ab84f2cdd585299a22c3521a5c2336be05941be01e35979d294c78969c0f04e7b1dbfa2ac64eaa6f89e1433 Homepage: https://cran.r-project.org/package=autoharp Description: CRAN Package 'autoharp' (Semi-Automatic Grading of R and Rmd Scripts) A customisable set of tools for assessing and grading R or R-markdown scripts from students. It allows for checking correctness of code output, runtime statistics and static code analysis. The latter feature is made possible by representing R expressions using a tree structure. Package: r-cran-autohrf Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2898 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cowplot, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-ggplot2, r-cran-gtools, r-cran-lubridate, r-cran-magrittr, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-autohrf_1.1.3-1.ca2004.1_all.deb Size: 1899064 MD5sum: 16c35abd13bb278f1210bc6d901e8b22 SHA1: 0298307375e0ef9c83d9ac44ffcdad5cc14e6f9e SHA256: b086420a30d63e239faa2287dea14b6fdb6b4f53cde89388734974b6c26200f2 SHA512: 496d446a8690a7d8f26d47ea58c28521eeaf9e9d6239de352d27179be6539e36d624d4953d746a99137d74c782c37848d364bb64befbbc964671d23314d37ef6 Homepage: https://cran.r-project.org/package=autohrf Description: CRAN Package 'autohrf' (Automated Generation of Data-Informed GLM Models in Task-BasedfMRI Data Analysis) Analysis of task-related functional magnetic resonance imaging (fMRI) activity at the level of individual participants is commonly based on general linear modelling (GLM) that allows us to estimate to what extent the blood oxygenation level dependent (BOLD) signal can be explained by task response predictors specified in the GLM model. The predictors are constructed by convolving the hypothesised timecourse of neural activity with an assumed hemodynamic response function (HRF). To get valid and precise estimates of task response, it is important to construct a model of neural activity that best matches actual neuronal activity. The construction of models is most often driven by predefined assumptions on the components of brain activity and their duration based on the task design and specific aims of the study. However, our assumptions about the onset and duration of component processes might be wrong and can also differ across brain regions. This can result in inappropriate or suboptimal models, bad fitting of the model to the actual data and invalid estimations of brain activity. Here we present an approach in which theoretically driven models of task response are used to define constraints based on which the final model is derived computationally using the actual data. Specifically, we developed 'autohrf' — a package for the 'R' programming language that allows for data-driven estimation of HRF models. The package uses genetic algorithms to efficiently search for models that fit the underlying data well. The package uses automated parameter search to find the onset and duration of task predictors which result in the highest fitness of the resulting GLM based on the fMRI signal under predefined restrictions. We evaluate the usefulness of the 'autohrf' package on publicly available datasets of task-related fMRI activity. Our results suggest that by using 'autohrf' users can find better task related brain activity models in a quick and efficient manner. Package: r-cran-autoimage Architecture: all Version: 2.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2740 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-colorspace, r-cran-fields, r-cran-mapproj, r-cran-ggplot2, r-cran-maps, r-cran-mba Suggests: r-cran-abind, r-cran-testthat, r-cran-spatstat.geom, r-cran-gear, r-cran-broom, r-cran-gridextra, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-autoimage_2.2.3-1.ca2004.1_all.deb Size: 2182748 MD5sum: 835992cf48793ece2ca5360538235e22 SHA1: a912091605ff353c125f236cb4bf5209fe808948 SHA256: e6db8ce2e692326fd38e571f1d793859582549f8216f829308e23f5454cfdf53 SHA512: af70b56628f1ae1ce93ee92fc1f8ea506a6fb1650ae2f3723771f7dd490cb6ff20d279917fa49f5dc7bf3e7badcc04f7808ea2e8caebf42a4a052509e67d6f8b Homepage: https://cran.r-project.org/package=autoimage Description: CRAN Package 'autoimage' (Multiple Heat Maps for Projected Coordinates) Functions for displaying multiple images or scatterplots with a color scale, i.e., heat maps, possibly with projected coordinates. The package relies on the base graphics system, so graphics are rendered rapidly. Package: r-cran-autoimport Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 539 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-desc, r-cran-diffviewer, r-cran-digest, r-cran-dplyr, r-cran-fs, r-cran-glue, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-shiny, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-callr, r-cran-covr, r-cran-devtools, r-cran-knitr, r-cran-pkgload, r-cran-rstudioapi, r-cran-testthat, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-autoimport_0.1.1-1.ca2004.1_all.deb Size: 229956 MD5sum: 49bfccccfbde35b6935e25f9466c4e00 SHA1: e523c844da802380a8c9d86481c32b8c70759186 SHA256: 767448d3dfa9c4be1236d3762cc6598ec5952dd47a1c319382bd27c239ed4741 SHA512: ef967844446aed97b1dcaacf6339e27b7287e8dca5b79b5b6adf7aa01d88fdfe3533e5a50806c25c5d7a1c5d1e6125866e4b9f93fe03fe67abc6966cffe883fc Homepage: https://cran.r-project.org/package=autoimport Description: CRAN Package 'autoimport' (Automatic Generation of @importFrom Tags) A toolbox to read all R files inside a package and automatically generate @importFrom 'roxygen2' tags in the right place. Includes a 'shiny' application to review the changes before applying them. Package: r-cran-autokeras Architecture: all Version: 1.0.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-keras, r-cran-reticulate Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-autokeras_1.0.12-1.ca2004.1_all.deb Size: 62204 MD5sum: 9f1871a8e4c0674d6aac95a11eea5534 SHA1: 361399bf2c6f83005adec76d3e81c4b61f89f639 SHA256: 4ddb732353166bc9db11bfea6ce6010acb6f199dc75d0c1eebda47530667763b SHA512: 449df86a38c716f1103d94e04372f9ea917c3a33716193240260a8f56af2b56a0fb611efe697bc29c0db3f3148dcbfa8d7215db28c6faab882739abb151a6f5f Homepage: https://cran.r-project.org/package=autokeras Description: CRAN Package 'autokeras' (R Interface to 'AutoKeras') R Interface to 'AutoKeras' . 'AutoKeras' is an open source software library for Automated Machine Learning (AutoML). The ultimate goal of AutoML is to provide easily accessible deep learning tools to domain experts with limited data science or machine learning background. 'AutoKeras' provides functions to automatically search for architecture and hyperparameters of deep learning models. Package: r-cran-automagic Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-formatr, r-cran-knitr, r-cran-magrittr, r-cran-purrr, r-cran-remotes, r-cran-yaml Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-automagic_0.5.1-1.ca2004.1_all.deb Size: 30300 MD5sum: 636cd7bb7d0489d1980dbac6d3f4299f SHA1: 4d6094ae5e8f3007b99a4eb967f90e9f9bc422db SHA256: e8cc619026e675053a087758f48a7e77214a2486767112854e98073bb9a26510 SHA512: 8d1e8200f946c5bcf75b76aecb512530b4fddef8ffceb12adcf1566073e68e6fbf4f5c68accf202c0832b73a6442827cfe7986559be688f7ccacd2b32741358e Homepage: https://cran.r-project.org/package=automagic Description: CRAN Package 'automagic' (Automagically Document and Install Packages Necessary to Run RCode) Parse R code in a given directory for R packages and attempt to install them from CRAN or GitHub. Optionally use a dependencies file for tighter control over which package versions to install. Package: r-cran-automap Architecture: all Version: 1.1-16-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gstat, r-cran-lattice, r-cran-reshape, r-cran-ggplot2, r-cran-sp, r-cran-sf, r-cran-stars Filename: pool/dists/focal/main/r-cran-automap_1.1-16-1.ca2004.1_all.deb Size: 90348 MD5sum: 9aed38d0d33e61377dcbffc0eb1a0977 SHA1: 5412b6e5afd33b458d93089e598fc26d85df06a8 SHA256: f903bfe5808d2374d80ed18be121a9c7c566961aa2c4525e0d54f20c140265a3 SHA512: dcc8351f07f84319404cbb7754e7b4d13b44f1ce4b244ec1d4e4e22c9790224e4df3aa93ab93decb70c094915003415e2d540a2382353c3a31a6150a379ee922 Homepage: https://cran.r-project.org/package=automap Description: CRAN Package 'automap' (Automatic Interpolation Package) An automatic interpolation is done by automatically estimating the variogram and then calling gstat. An overview is given by Hiemstra et al (2008) . Package: r-cran-automatedtests Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1842 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-r6, r-cran-nnet, r-cran-nortest, r-cran-desctools Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-automatedtests_0.1.2-1.ca2004.1_all.deb Size: 1184556 MD5sum: 5ede3761691ebaecd352c963ad93d379 SHA1: 217ad4817fa5a0c2c9e269175a9207b89aca1c73 SHA256: 415b8e0c813adb40d80a1a366fed36ff72cdd30bab0a5807c93a7b2c55bce6e7 SHA512: 30df98413e9113587d87221cf5e2e1b81a416211691c185958a5a59eddb777fc525bab8a628d559fb18965ce12dc3ba19037140b9fca1ceacf6df8c0b412a90d Homepage: https://cran.r-project.org/package=automatedtests Description: CRAN Package 'automatedtests' (Automating Choosing Statistical Tests) Automatically selects and runs the most appropriate statistical test for your data, returning clear, easy-to-read results. Ideal for all experience levels. Package: r-cran-automfa Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 300 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-abind, r-cran-mass, r-cran-matrix, r-cran-rfast, r-cran-expm, r-cran-rdpack, r-cran-pracma, r-cran-usethis Filename: pool/dists/focal/main/r-cran-automfa_1.0.0-1.ca2004.1_all.deb Size: 268212 MD5sum: 89558ee486730ec7f743344bbb47423c SHA1: 02d0077ab30b8d713bcdab3c49ea44b63c2945d3 SHA256: 9c273aa79af30cd546309704f43fd1af6c93edc0e4e1ec098f1eaf2d16c81a08 SHA512: edb559182a113cea362eb915222b05ad056816fee2ac21fd52f3a78e4866904ce97b24dabc9c79461f778211299fb96597af3b9737d3483a0efd2593cb10f41d Homepage: https://cran.r-project.org/package=autoMFA Description: CRAN Package 'autoMFA' (Algorithms for Automatically Fitting MFA Models) Provides methods for fitting the Mixture of Factor Analyzers (MFA) model automatically. The MFA model is a mixture model where each sub-population is assumed to follow the Factor Analysis model. The Factor Analysis (FA) model is a latent variable model which assumes that observations are normally distributed, but imposes constraints on their covariance matrix. The MFA model contains two hyperparameters; g (the number of components in the mixture) and q (the number of factors in each component Factor Analysis model). Usually, the Expectation-Maximisation algorithm would be used to fit the MFA model, but this requires g and q to be known. This package treats g and q as unknowns and provides several methods which infer these values with as little input from the user as possible. Package: r-cran-automl Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 467 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-automl_1.3.2-1.ca2004.1_all.deb Size: 420056 MD5sum: 8e9082126d5bfd66c22260ec22d5de4b SHA1: 1a8e8d70e010146ec689df857976157d995e5458 SHA256: 5bca659de85a0b8c3a05ff9becc54e4e5192572151e572c399acafe2697d758c SHA512: 8bea89f18efe4a66985e193f4f281ec1d0c8d404593269c8379df6c9ebe92aa2fc15e9dda22012203bbf7988de72895bf14cab441a182d4e7cca1b308f700d79 Homepage: https://cran.r-project.org/package=automl Description: CRAN Package 'automl' (Deep Learning with Metaheuristic) Fits from simple regression to highly customizable deep neural networks either with gradient descent or metaheuristic, using automatic hyper parameters tuning and custom cost function. A mix inspired by the common tricks on Deep Learning and Particle Swarm Optimization. Package: r-cran-automrp Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 704 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rlang, r-cran-dplyr, r-cran-lme4, r-cran-gbm, r-cran-e1071, r-cran-tibble, r-cran-glmmlasso, r-cran-ebmaforecast, r-cran-foreach, r-cran-doparallel, r-cran-dorng, r-cran-ggplot2, r-cran-knitr, r-cran-tidyr, r-cran-purrr, r-cran-forcats, r-cran-vglmer, r-cran-stringr Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-automrp_1.0.6-1.ca2004.1_all.deb Size: 667200 MD5sum: d2c26ca453c0d2d611c448b256a314ba SHA1: ad6c54d8a9f795dbee8cc429049d2f454e31e2e3 SHA256: 0279067b192d23d5ace905dfebb6da1cf792aa830b031023e698165fcf490636 SHA512: 62be411cd888781ac4084043faa89de90e55ce740352302501598d7f1da0a0d59ac2734723196597174ecab3f739c1e88c366c20c86d40a73976d5f91ec39227 Homepage: https://cran.r-project.org/package=autoMrP Description: CRAN Package 'autoMrP' (Improving MrP with Ensemble Learning) A tool that improves the prediction performance of multilevel regression with post-stratification (MrP) by combining a number of machine learning methods. For information on the method, please refer to Broniecki, Wüest, Leemann (2020) ''Improving Multilevel Regression with Post-Stratification Through Machine Learning (autoMrP)'' in the 'Journal of Politics'. Final pre-print version: . Package: r-cran-autonewsmd Architecture: all Version: 0.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-magrittr, r-cran-quarto, r-cran-r6 Suggests: r-cran-git2r, r-cran-lintr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-autonewsmd_0.0.9-1.ca2004.1_all.deb Size: 76984 MD5sum: fe287453eb3df5ebf0c9c53efd81b897 SHA1: 87b8ed08ce5631466a07134ab85225dd12f67fd7 SHA256: 64d5031616f54decc0a14b1aff4afc9da25ddefaeb6ce2f93240fa8d0510cf14 SHA512: 0fd1e6b0699fe2f0ed4d0510392a9882d9e0fa5061c7861916638b1a49870804bc278d46cb1b9d4d10b66e993ff09db7b7cd51fddc97b7adfd3bf65eaabc22a9 Homepage: https://cran.r-project.org/package=autonewsmd Description: CRAN Package 'autonewsmd' (Auto-Generate Changelog using Conventional Commits) Automatically generate a changelog file (NEWS.md / CHANGELOG.md) from the git history using conventional commit messages (). Package: r-cran-autopipe Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 195 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-org.hs.eg.db, r-bioc-clusterprofiler, r-cran-msigdbr Filename: pool/dists/focal/main/r-cran-autopipe_0.1.6-1.ca2004.1_all.deb Size: 156936 MD5sum: 586f2c4a6312ff18d6332ef66e38db9f SHA1: 73939218d3e65cf5916774f12755ca5c57e0b486 SHA256: d4c14edded019d9da2046e9b648fd5daced95bb4941cbb1d26c28cb476c5a06f SHA512: 2e247c365e66b096d7ba692ec808944128e5a9fb8941c03ad314e9d78f11cd38717013e89ffa141b87078ecc91ebf68314c4be7c026100585d017886ff00e8af Homepage: https://cran.r-project.org/package=AutoPipe Description: CRAN Package 'AutoPipe' (Automated Transcriptome Classifier Pipeline: ComprehensiveTranscriptome Analysis) An unsupervised fully-automated pipeline for transcriptome analysis or a supervised option to identify characteristic genes from predefined subclasses. We rely on the 'pamr' clustering algorithm to cluster the Data and then draw a heatmap of the clusters with the most significant genes and the least significant genes according to the 'pamr' algorithm. This way we get easy to grasp heatmaps that show us for each cluster which are the clusters most defining genes. Package: r-cran-autoplotly Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plotly, r-cran-ggfortify Suggests: r-cran-testthat, r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-autoplotly_0.1.4-1.ca2004.1_all.deb Size: 25312 MD5sum: e88b9fcca3b812343b385b71e6373928 SHA1: 7c183f9d64e1dc6d8ac230a9ef485b1cabe8ca2a SHA256: 1b0506494fcf2d4fae056a6e72ea60890ea2d8a41278386b6d7f1609d40c5c40 SHA512: dd513efa325f3112f685e9a8ffaa744030f44f2910ef033e1d59937a60edfaba32553d0f0d3b73d7adf74af04d3013963a3bd21a626c229f3252ce9020d54d6a Homepage: https://cran.r-project.org/package=autoplotly Description: CRAN Package 'autoplotly' (Automatic Generation of Interactive Visualizations forStatistical Results) Functionalities to automatically generate interactive visualizations for statistical results supported by 'ggfortify', such as time series, PCA, clustering and survival analysis, with 'plotly.js' and 'ggplot2' style. The generated visualizations can also be easily extended using 'ggplot2' and 'plotly' syntax while staying interactive. Package: r-cran-autoplotprotein Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-plyr, r-cran-plotrix, r-cran-seqinr, r-cran-ade4 Filename: pool/dists/focal/main/r-cran-autoplotprotein_1.1-1.ca2004.1_all.deb Size: 82876 MD5sum: b30156846e9326eddec830fea4537b1b SHA1: ee6213e56d68808a9d967cd04108b1187b057fd9 SHA256: 62308b7b1130d114093f236690af2a95e57435375f757e3fffd10a880387eb22 SHA512: 1b0a8c36ff788d5719a898739377e8ca6c4b477eb04059fb5f028709123131d5c3f57fafc05b1fe60358007cd1611928c1f2e250c0cee61723ec9609b7bab286 Homepage: https://cran.r-project.org/package=Autoplotprotein Description: CRAN Package 'Autoplotprotein' (Development of Visualization Tools for Protein Sequence) The image of the amino acid transform on the protein level is drawn, and the automatic routing of the functional elements such as the domain and the mutation site is completed. Package: r-cran-autoplots Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4028 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-combinat, r-cran-data.table, r-cran-dplyr, r-cran-e1071, r-cran-echarts4r, r-cran-lubridate, r-cran-nortest, r-cran-quanteda, r-cran-quanteda.textstats, r-cran-scales Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-autoplots_1.0.0-1.ca2004.1_all.deb Size: 3794204 MD5sum: 867b9e2360188fff4a6ff77509ffb310 SHA1: c8520c779ffeb672c1c064163e2cfd89cdfe5ba0 SHA256: 662177d767474243ee38cd7274e61fc036a577923dc8cfd82c73b3ddb058c7dc SHA512: b404bbc6da754ccd53b744631a42e7f4b00eb40f4a9786be172c02620551cc794d745b386c381d979992e3221dd1f793b1a54a9fbecb68bc1d1846f3e3e0afd8 Homepage: https://cran.r-project.org/package=AutoPlots Description: CRAN Package 'AutoPlots' (Creating Echarts Visualizations as Easy as Possible) Create beautiful and interactive visualizations in a single function call. The 'data.table' package is utilized to perform the data wrangling necessary to prepare your data for the plot types you wish to build, along with allowing fast processing for big data. There are two broad classes of plots available: standard plots and machine learning evaluation plots. There are lots of parameters available in each plot type function for customizing the plots (such as faceting) and data wrangling (such as variable transformations and aggregation). Package: r-cran-autoreg Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3664 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-moonbook, r-cran-nortest, r-cran-dplyr, r-cran-crayon, r-cran-stringr, r-cran-tidyr, r-cran-purrr, r-cran-survival, r-cran-mice, r-cran-officer, r-cran-flextable, r-cran-rlang, r-cran-patchwork, r-cran-ggplot2, r-cran-boot, r-cran-broom, r-cran-tidycmprsk, r-cran-scales, r-cran-maxstat, r-cran-pammtools Suggests: r-cran-knitr, r-cran-finalfit, r-cran-lme4, r-cran-th.data, r-cran-rmarkdown, r-cran-survminer, r-cran-asaur, r-cran-cmprsk, r-cran-paireddata Filename: pool/dists/focal/main/r-cran-autoreg_0.3.3-1.ca2004.1_all.deb Size: 2430340 MD5sum: 6df37ce16308f009c8bd784c1d3a8c28 SHA1: 90a98f56956e05f7ae63f6f0f87081cf6899403b SHA256: d9ecad9da38ba5ad3f9895f44491b7c35b321fe98f659adf7fe53c64b9d9a44c SHA512: d2c797e16edc9cff6ad8e0221ba15d744989877da6bf3315aa517b972379a83c9353bd0fc0bae75c2c6bc9cef4695eb8a025bf89a3354c660e76358ff36455af Homepage: https://cran.r-project.org/package=autoReg Description: CRAN Package 'autoReg' (Automatic Linear and Logistic Regression and Survival Analysis) Make summary tables for descriptive statistics and select explanatory variables automatically in various regression models. Support linear models, generalized linear models and cox-proportional hazard models. Generate publication-ready tables summarizing result of regression analysis and plots. The tables and plots can be exported in "HTML", "pdf('LaTex')", "docx('MS Word')" and "pptx('MS Powerpoint')" documents. Package: r-cran-autoregressionmde Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-autoregressionmde_1.0-1.ca2004.1_all.deb Size: 18552 MD5sum: 6089a79ddbf5ca4c6f8333b98b34e35a SHA1: 458bbf50e7a17ba6577cc8b99290581cb1144e0a SHA256: 9b8dd11971d51291e296c84f7ff63be58aed485cae9ea9e302a1af52794542a7 SHA512: 91dba61fd8ebd555eba4837f28e33818935dfb79e8d7ed693155026add869c751f81d6537dc4ac1069f07b5fcb4783e7c19a7941e796b521007fd20a55c7e4bd Homepage: https://cran.r-project.org/package=AutoregressionMDE Description: CRAN Package 'AutoregressionMDE' (Minimum Distance Estimation in Autoregressive Model) Consider autoregressive model of order p where the distribution function of innovation is unknown, but innovations are independent and symmetrically distributed. The package contains a function named ARMDE which takes X (vector of n observations) and p (order of the model) as input argument and returns minimum distance estimator of the parameters in the model. Package: r-cran-autoscore Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2521 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-tableone, r-cran-proc, r-cran-randomforest, r-cran-ggplot2, r-cran-knitr, r-cran-hmisc, r-cran-car, r-cran-coxed, r-cran-dplyr, r-cran-ordinal, r-cran-survival, r-cran-tidyr, r-cran-plotly, r-cran-magrittr, r-cran-randomforestsrc, r-cran-rlang, r-cran-survauc, r-cran-survminer Suggests: r-cran-rpart, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-autoscore_1.0.0-1.ca2004.1_all.deb Size: 1946696 MD5sum: 144d63d9979c5cd99d5094e39e331fcc SHA1: 1b2777e40e84d051ec4e20eb2e042fcd53b9a8e6 SHA256: 86a2f2620641fa5165dce999cc13054acda260aaf93ab6613f8e5bfd80c274b6 SHA512: e1e2a08f0ee37fbe02e212b2a22ed70c831efe0035fee1808ca3ca171ad81832ae820c6357a98c9b24a42748416468aeffe671ac9f0ad20c66d9df19d75fab4f Homepage: https://cran.r-project.org/package=AutoScore Description: CRAN Package 'AutoScore' (An Interpretable Machine Learning-Based Automatic Clinical ScoreGenerator) A novel interpretable machine learning-based framework to automate the development of a clinical scoring model for predefined outcomes. Our novel framework consists of six modules: variable ranking with machine learning, variable transformation, score derivation, model selection, domain knowledge-based score fine-tuning, and performance evaluation.The The original AutoScore structure is described in the research paper. A full tutorial can be found here. Users or clinicians could seamlessly generate parsimonious sparse-score risk models (i.e., risk scores), which can be easily implemented and validated in clinical practice. We hope to see its application in various medical case studies. Package: r-cran-autoscorecard Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1379 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-infotheo, r-cran-rocr, r-cran-rpart, r-cran-discretization, r-cran-corrplot, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-autoscorecard_0.3.0-1.ca2004.1_all.deb Size: 695980 MD5sum: 79fd0592e07f841211cb46bbeffbda75 SHA1: cab4bba73bf6fdd0264afca2af2a3e79466d1641 SHA256: 7d1dfda8ea1d09f664287e5b1cf4ebade55349eaa90fa0d8a08e5f5cd0fff19d SHA512: 5a73c0d5eb52bea2b094221f2aeab61c5c53b61cebd09533b32c18b9d699f3171b68dcaf77db5e3f9eba1ac5a389f69b6e45b801f527138582ed6da50ccf4e65 Homepage: https://cran.r-project.org/package=autoScorecard Description: CRAN Package 'autoScorecard' (Fully Automatic Generation of Scorecards) Provides an efficient suite of R tools for scorecard modeling, analysis, and visualization. Including equal frequency binning, equidistant binning, K-means binning, chi-square binning, decision tree binning, data screening, manual parameter modeling, fully automatic generation of scorecards, etc. This package is designed to make scorecard development easier and faster. References include: 1. . 2. Dong-feng Li(Peking University),Class PPT. 3. . 4. . Package: r-cran-autosearch Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 166 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-zoo, r-cran-lgarch Filename: pool/dists/focal/main/r-cran-autosearch_1.5-1.ca2004.1_all.deb Size: 138264 MD5sum: 3adb6335d9c0a6dad15486569a2d8167 SHA1: a37aa3c8e79337570cc69ef7fca2691c6960bfef SHA256: 471580f440ec425eb0f16e3fbae77e941e6fb8f2aa90264298ce3fac3434d594 SHA512: aacfe1c09f25bf154765585f51a711f0791c6e7395eb98f5564cc2b6169aef0518ac285ca5212963c8347113532223996947d4cbfa5e05f729e58ed98ba3548f Homepage: https://cran.r-project.org/package=AutoSEARCH Description: CRAN Package 'AutoSEARCH' (General-to-Specific (GETS) Modelling) General-to-Specific (GETS) modelling of the mean and variance of a regression. NOTE: The package has been succeeded by gets, also available on the CRAN, which is more user-friendly, faster and easier to extend. Users are therefore encouraged to consider gets instead. Package: r-cran-autoseed Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1560 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-autoseed_0.1.0-1.ca2004.1_all.deb Size: 1550320 MD5sum: ac3716b3f49c772b21e9f4794c0bce43 SHA1: c150ae5c6de02cca224f5e81b0bc0f0f29312410 SHA256: 0a9eb14f4ffd8dce397d8680a4f174fa8007dd41422d8635e8d305aaa7e8bed0 SHA512: 4c67d25802c2179c33d3755b86ef9d9799f98c6d60be8a58faa4be50e7d47c7ce45e800ce0e58009b7fa899234122c700d5916114f861c844e9352ff143e8da9 Homepage: https://cran.r-project.org/package=Autoseed Description: CRAN Package 'Autoseed' (Retrieve Disease-Related Genes from Public Sources) For researchers to quickly and comprehensively acquire disease genes, so as to understand the mechanism of disease, we developed this program to acquire disease-related genes. The data is integrated from three public databases. The three databases are 'eDGAR', 'DrugBank' and 'MalaCards'. The 'eDGAR' is a comprehensive database, containing data on the relationship between disease and genes. 'DrugBank' contains information on 13443 drugs and 5157 targets. 'MalaCards' integrates human disease information, including disease-related genes. Package: r-cran-autoshiny Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny Suggests: r-cran-roxygen2, r-cran-magrittr, r-cran-webshot Filename: pool/dists/focal/main/r-cran-autoshiny_0.0.3-1.ca2004.1_all.deb Size: 40240 MD5sum: 9e2de02d69546b0b9d471c0abdd8ee37 SHA1: 5cc8bb725ae32a7625479da12d0a439ede3d0b9d SHA256: e5ee5eaac8463994e5432b51223d563d911f1272f937c2e7e26fac8e75dbbb60 SHA512: 582c833800f7a91561d79acf3516272ee6ee5eb0a434c25eda62f6b37ab20900bedafb74430f5f73475b086166ce82cc1fd4412bd3f9b753df48d830bee0b5d8 Homepage: https://cran.r-project.org/package=autoshiny Description: CRAN Package 'autoshiny' (Automatic Transformation of an 'R' Function into a 'shiny' App) Static code compilation of a 'shiny' app given an R function (into 'ui.R' and 'server.R' files or into a 'shiny' app object). See examples at . Package: r-cran-autoslider.core Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5217 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-assertthat, r-cran-checkmate, r-cran-cli, r-cran-dplyr, r-cran-flextable, r-cran-forcats, r-cran-ggplot2, r-cran-ggpubr, r-cran-gridextra, r-cran-gtsummary, r-cran-officer, r-cran-rlang, r-cran-rlistings, r-cran-rtables, r-cran-rvg, r-cran-stringr, r-cran-survival, r-cran-tern, r-cran-tidyr, r-cran-yaml Suggests: r-cran-devtools, r-cran-ellmer, r-cran-filters, r-cran-formatters, r-cran-glue, r-cran-htmltools, r-cran-httr, r-cran-knitr, r-cran-lubridate, r-cran-mime, r-cran-nestcolor, r-cran-purrr, r-cran-r.utils, r-cran-reticulate, r-cran-rmarkdown, r-cran-rsvg, r-cran-styler, r-cran-svglite, r-cran-testthat, r-cran-tmb, r-cran-withr Filename: pool/dists/focal/main/r-cran-autoslider.core_0.2.5-1.ca2004.1_all.deb Size: 2315216 MD5sum: 0fc23aa9dd7fab9cdeefe7cdfb7defa4 SHA1: a455d8496812d8b15d10c27bcbd52ed99c8b9592 SHA256: 1cd247de0fbd0754a9649f4f32c936128a1c533f8250d67d27aead4ffe235ea9 SHA512: 362272c1e2b0670b9336f12aaa67335b78947b1dc8ffde8b2aaffe9bfbe0292bbc450035f49f164011fd3a747dd1162c7721d3e67a4c3eeadbc60c61c7b2abcf Homepage: https://cran.r-project.org/package=autoslider.core Description: CRAN Package 'autoslider.core' (Slide Automation for Tables, Listings and Figures) The normal process of creating clinical study slides is that a statistician manually type in the numbers from outputs and a separate statistician to double check the typed in numbers. This process is time consuming, resource intensive, and error prone. Automatic slide generation is a solution to address these issues. It reduces the amount of work and the required time when creating slides, and reduces the risk of errors from manually typing or copying numbers from the output to slides. It also helps users to avoid unnecessary stress when creating large amounts of slide decks in a short time window. Package: r-cran-autostats Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 543 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-stringr, r-cran-tidyselect, r-cran-purrr, r-cran-janitor, r-cran-tibble, r-cran-rlang, r-cran-rlist, r-cran-broom, r-cran-magrittr, r-cran-ggeasy, r-cran-ggplot2, r-cran-jtools, r-cran-gtools, r-cran-ggthemes, r-cran-patchwork, r-cran-tidyr, r-cran-xgboost, r-cran-parsnip, r-cran-recipes, r-cran-rsample, r-cran-tune, r-cran-workflows, r-cran-framecleaner, r-cran-presenter, r-cran-yardstick, r-cran-dials, r-cran-party, r-cran-data.table, r-cran-nnet, r-cran-recosystem, r-cran-ckmeans.1d.dp, r-cran-broom.mixed, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-forcats, r-cran-doparallel, r-cran-hardhat, r-cran-flextable, r-cran-glmnet, r-cran-ggstance, r-cran-matrix, r-cran-bbmisc, r-cran-readr, r-cran-lubridate, r-cran-ranger, r-cran-xicor Filename: pool/dists/focal/main/r-cran-autostats_0.4.1-1.ca2004.1_all.deb Size: 334420 MD5sum: ab91b1d9b14640ddaf952813ba7cc106 SHA1: d0b9f547ab7f0ea865ab5be0096664ee52f5a4cd SHA256: 62865dd1dfac02db375140661b969738d2ba4e8710d1af6592d726c27340fd4b SHA512: 42cdb7dd247ba9ce8d92fb79f17b7465f3b4c6539b723ee3b2ae6a3976ca50add24301d3f196a6321f156819411b1930a65649597e0b62f59449fd1ffe1e9988 Homepage: https://cran.r-project.org/package=autostats Description: CRAN Package 'autostats' (Auto Stats) Automatically do statistical exploration. Create formulas using 'tidyselect' syntax, and then determine cross-validated model accuracy and variable contributions using 'glm' and 'xgboost'. Contains additional helper functions to create and modify formulas. Has a flagship function to quickly determine relationships between categorical and continuous variables in the data set. Package: r-cran-autostepwiseglm Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-formula.tools Filename: pool/dists/focal/main/r-cran-autostepwiseglm_0.2.0-1.ca2004.1_all.deb Size: 28336 MD5sum: 693aed146c53c043384c896ab2a7b41f SHA1: d7b2b1fdcf122099b722706004a72f5a6de618dd SHA256: 1068e38a07eaa50c7ece5a8a8d4fd0790031755c3e8ca56460501534c2a4db20 SHA512: f634016e55ef4b8ba15ecfe20c128d295d1bbae50ff21e38b2f06fdef48b9c67081bc1a814dd2fe9c9fef5224baeb2af57c0658cdb000e804dbada93e2fe9852 Homepage: https://cran.r-project.org/package=AutoStepwiseGLM Description: CRAN Package 'AutoStepwiseGLM' (Builds Stepwise GLMs via Train and Test Approach) Randomly splits data into testing and training sets. Then, uses stepwise selection to fit numerous multiple regression models on the training data, and tests them on the test data. Returned for each model are plots comparing model Akaike Information Criterion (AIC), Pearson correlation coefficient (r) between the predicted and actual values, Mean Absolute Error (MAE), and R-Squared among the models. Each model is ranked relative to the other models by the model evaluation metrics (i.e., AIC, r, MAE, and R-Squared) and the model with the best mean ranking among the model evaluation metrics is returned. Model evaluation metric weights for AIC, r, MAE, and R-Squared are taken in as arguments as aic_wt, r_wt, mae_wt, and r_squ_wt, respectively. They are equally weighted as default but may be adjusted relative to each other if the user prefers one or more metrics to the others, Field, A. (2013, ISBN:978-1-4462-4918-5). 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Koopman, Siem Jan and Marius Ooms (2012) "Forecasting Economic Time Series Using Unobserved Components Time Series Models" . Kim, Chang-Jin and Charles R. Nelson (1999) "State-Space Models with Regime Switching: Classical and Gibbs-Sampling Approaches with Applications" . 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Please read Feng et al. (2016) for more details of the method. 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Package: r-cran-aws.signature Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-digest, r-cran-base64enc Suggests: r-cran-testthat, r-cran-aws.ec2metadata Filename: pool/dists/focal/main/r-cran-aws.signature_0.6.0-1.ca2004.1_all.deb Size: 77372 MD5sum: 8e5ffd6ab34b776b909de465cea01bbc SHA1: 5057ddd15ce3003953fdda3f74e8f46b9fdc1151 SHA256: 71765b7fac433ebbf011d08895ec564c18f315596214221de0f0ab3f5f8f4b84 SHA512: e25e0a028f6ae881d47c8f9d510831bae0418496d00db681c9662fbffc6ace9169875a0a3c505274838870b47c4e873e01dfbf3caee26ffd18dc8d27ce55ed33 Homepage: https://cran.r-project.org/package=aws.signature Description: CRAN Package 'aws.signature' (Amazon Web Services Request Signatures) Generates version 2 and version 4 request signatures for Amazon Web Services ('AWS') Application Programming Interfaces ('APIs') and provides a mechanism for retrieving credentials from environment variables, 'AWS' credentials files, and 'EC2' instance metadata. For use on 'EC2' instances, users will need to install the suggested package 'aws.ec2metadata' . Package: r-cran-aws.transcribe Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-aws.signature Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-aws.transcribe_0.1.3-1.ca2004.1_all.deb Size: 27852 MD5sum: d93767dac9c6d98a47bf9a83dd115849 SHA1: d95b06c828fd39dff2fcb5425e7351cc2966b330 SHA256: ae3bec604b71753cf5133af1b4796de722de25a692ff6cb19b6206ad8b141715 SHA512: d3f4cce4395f923b06055991aab21763e623396eea16dadd59b2ed03fef2bcd190828979ddeaf02cc8e12eb2e731f8592f993b4938aa0147d7b5e4efde89b3a6 Homepage: https://cran.r-project.org/package=aws.transcribe Description: CRAN Package 'aws.transcribe' (Client for 'AWS Transcribe') Client for 'AWS Transcribe' , a cloud transcription service that can convert an audio media file in English and other languages into a text transcript. Package: r-cran-aws.translate Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-aws.signature Filename: pool/dists/focal/main/r-cran-aws.translate_0.1.4-1.ca2004.1_all.deb Size: 19128 MD5sum: 9cdfd310cae5e598382ebe6492d04bb2 SHA1: a9dd3efab81b63a36462b22fef112a1283ce4137 SHA256: b0e7f81ed8001a7a27a91b1a44e767ecbe1ebb7dbdc4824a56209d7021c384b0 SHA512: 9f34d69535cac158b7e47201f439f2fc9bef34be5506808327bff24d5a6d4d35d7547c74dff1c3f8aa941501a7a0ed8b7317a017d8b0ef1ac9d44ddc8e889f5d Homepage: https://cran.r-project.org/package=aws.translate Description: CRAN Package 'aws.translate' (Client for 'AWS Translate') A client for 'AWS Translate' , a machine translation service that will convert a text input in one language into a text output in another language. Package: r-cran-aws.wrfsmn Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 388 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aws.s3, r-cran-lubridate, r-cran-terra, r-cran-dplyr, r-cran-ggplot2, r-cran-hydrogof, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-aws.wrfsmn_0.0.5-1.ca2004.1_all.deb Size: 128036 MD5sum: 5e4b84b61acd8bfa3ed8affdb05003c3 SHA1: 1e8ce61e383965a518c2e2d65cc05dde5e3cdd25 SHA256: 4d295b4c5790f7279fead6282c9b00541d7927d06618a695168331a93b5fbe2f SHA512: c03d57344551e1066792c863cdf0867d78e7b1d5f2de3d3931f379e9b00c07901b071f20ae64c7999e9e4ff9f3ebe985ff6fad3bebe2039e2940f26835f02e04 Homepage: https://cran.r-project.org/package=aws.wrfsmn Description: CRAN Package 'aws.wrfsmn' (Data Processing of SMN Hi-Res Weather Forecast from 'AWS') Exploration of Weather Research & Forecasting ('WRF') Model data of Servicio Meteorologico Nacional (SMN) from Amazon Web Services () cloud. The package provides the possibility of data downloading, processing and correction methods. It also has map management and series exploration of available meteorological variables of 'WRF' forecast. Package: r-cran-axisandallies Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-axisandallies_0.1.1-1.ca2004.1_all.deb Size: 38736 MD5sum: 3816b76b408c1fa42a5b890645adc963 SHA1: c496b7ae783c3f0238ef96d820357f34210afad3 SHA256: 3959fb321d6a193052e4b81db2777fd5bcadee7f682efc474f544307ae78e676 SHA512: 9859b94432afaffefbcf46aae4e88f389fb89a22dfc639e2dac66b278946344890fc972a7e7be2e0a05f945f7b85c8dfdffb98f1b15084074be2eeda57c6726c Homepage: https://cran.r-project.org/package=axisandallies Description: CRAN Package 'axisandallies' (Axis and Allies Spring) Simulates battles in the board game Axis and Allies Spring 1942, and calculates your probability of winning a battle. This speeds the game up significantly. Package: r-cran-aziad Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-extradistr, r-cran-foreach, r-cran-doparallel, r-cran-qrm, r-cran-corpcor, r-cran-envstats Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-aziad_0.0.3-1.ca2004.1_all.deb Size: 214628 MD5sum: 57f5264f0c37b6aaf42d346c22bafe93 SHA1: 02cadfcb391b04c7fc0138893c6ac0e0c2d57406 SHA256: 7b0829ec98bc3f466bd7e22d4da825af3242074ef789c65bfdbb4a57694b1196 SHA512: 0542124e456ce7b13807c65b0f154a570d13fb63270c4155107e1df8f42f2575577b6c34f30019ff63f4eaaa5006092e290587a8ef246e41bd72dba40650d4be Homepage: https://cran.r-project.org/package=AZIAD Description: CRAN Package 'AZIAD' (Analyzing Zero-Inflated and Zero-Altered Data) Description: Computes maximum likelihood estimates of general, zero-inflated, and zero-altered models for discrete and continuous distributions. It also performs Kolmogorov-Smirnov (KS) tests and likelihood ratio tests for general, zero-inflated, and zero-altered data. Additionally, it obtains the inverse of the Fisher information matrix and confidence intervals for the parameters of general, zero-inflated, and zero-altered models. The package simulates random deviates from zero-inflated or hurdle models to obtain maximum likelihood estimates. Based on the work of Aldirawi et al. (2022) and Dousti Mousavi et al. (2023) . Package: r-cran-aziztest Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-aziztest_0.2.1-1.ca2004.1_all.deb Size: 51340 MD5sum: 8a891a3779590ce5002d25e33e5882d2 SHA1: a7146511e005903305d7e00d89e0118ae0a6043d SHA256: 9bedcf2db0590c9eb15e6d3f7553b6d3fc3faee736cbd5b83eb2950e790f8369 SHA512: 832ca970df1c3d36b87971f3764c77cbf24431ab6004dba63eee6884020948a9fb1292bde1aad6ef96a5a2e49f5cf56ca0c0e746426444d079ec1e7de5138e69 Homepage: https://cran.r-project.org/package=aziztest Description: CRAN Package 'aziztest' (Novel Statistical Test for Aberration Enrichment) Testing for heterogeneous effects in a case-control setting. The aim here to discover an association that is beyond a mean difference between all cases and all controls. Instead, the signal of interest here is present in only a proportion of the cases. This test should be more powerful than a t-test or Wilcoxon test in this heterogeneous setting. Please cite the corresponding paper: Mezlini et al. (2020) . Package: r-cran-azlogr Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-catools, r-cran-digest, r-cran-httr, r-cran-jsonlite, r-cran-logger Suggests: r-cran-covr, r-cran-knitr, r-cran-mockery, r-cran-pkgdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-azlogr_0.0.6-1.ca2004.1_all.deb Size: 51184 MD5sum: 60f0a317864aca460f9d84a5e061ee2c SHA1: 45cd2f1e6f0b46d92f5af1d9a9f3d444ad535f2e SHA256: b36468e36347fa740b3cc6197f51b66e276839cd48658a9e043a4cf3b2e1a55c SHA512: 0f1c50e63e78455fcf231161fb731130e7cf1e1071dfd8a0b51e0d2f09c6979e3588a9dfee12ceb7628f0ee2318a46f2ad98d4dc0b8ec389c91d554a253ce4b1 Homepage: https://cran.r-project.org/package=azlogr Description: CRAN Package 'azlogr' (Logging in 'R' and Post to 'Azure Log Analytics' Workspace) It extends the functionality of 'logger' package. Additional logging metadata can be configured to be collected. Logging messages are displayed on console and optionally they are sent to 'Azure Log Analytics' workspace in real-time. Package: r-cran-azureappinsights Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1334 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-rlang, r-cran-assertthat, r-cran-jsonlite, r-cran-lubridate Suggests: r-cran-testthat, r-cran-here Filename: pool/dists/focal/main/r-cran-azureappinsights_0.3.1-1.ca2004.1_all.deb Size: 294560 MD5sum: 5b73f0bab3e00b0498b90a7bcffd0e94 SHA1: c1d11163747e48522cef261d28c6312365bdf09e SHA256: 37e8d69dcb9d2ec54cb7985f87721297d4313bcc0c6354c607507a88c168211f SHA512: b23ea08d13d5a051cc72c0853389a5024af28b67c01d8452c2ccdb01be91ea3c7912651b35051b6f9fbba5b6ba662ae4dfa46c94ff3d04fa938f323433a87a4c Homepage: https://cran.r-project.org/package=AzureAppInsights Description: CRAN Package 'AzureAppInsights' (Include Azure Application Insights in Shiny Apps) Imports Azure Application Insights for web pages into Shiny apps via Microsoft's JavaScript snippet. Allows app developers to submit page tracking and submit events. Package: r-cran-azureauth Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 599 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-openssl, r-cran-jsonlite, r-cran-jose, r-cran-r6, r-cran-rappdirs Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-httpuv, r-cran-shiny, r-cran-shinyjs, r-cran-azurermr, r-cran-azuregraph Filename: pool/dists/focal/main/r-cran-azureauth_1.3.3-1.ca2004.1_all.deb Size: 421312 MD5sum: 97a16cfb907ae0d71a8d77ee382597c5 SHA1: 7b217bb19c78b05a9611e52f8958221bdc4f38f4 SHA256: c640bcb736fc40bc4bc61264f22402a26cd39e89325409fa4930a2a8ba59f4e5 SHA512: 0bb29849d9e9b77514aefb200ea7039eaac8b41254bff874f3057026c4028a5c57223365861e4f1cb0eb8eb578851710dc4b0646c2bb9bdce8d840c316ca9377 Homepage: https://cran.r-project.org/package=AzureAuth Description: CRAN Package 'AzureAuth' (Authentication Services for Azure Active Directory) Provides Azure Active Directory (AAD) authentication functionality for R users of Microsoft's 'Azure' cloud . Use this package to obtain 'OAuth' 2.0 tokens for services including Azure Resource Manager, Azure Storage and others. It supports both AAD v1.0 and v2.0, as well as multiple authentication methods, including device code and resource owner grant. Tokens are cached in a user-specific directory obtained using the 'rappdirs' package. The interface is based on the 'OAuth' framework in the 'httr' package, but customised and streamlined for Azure. Part of the 'AzureR' family of packages. Package: r-cran-azurecognitive Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-azureauth, r-cran-azurermr, r-cran-jsonlite, r-cran-httr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-azurecognitive_1.0.2-1.ca2004.1_all.deb Size: 146176 MD5sum: e23ce3b447c9e7145f9610fb9bc9e450 SHA1: fa6b2ed626a0ca6819ebc65689c609e979fe41e7 SHA256: aa6eb0b8fda0db7901dd4de425e3d2078e4ecfe58fcb2e928d5130666a9e12da SHA512: 89b33719aaed83c9758bfd8ab7a90977b9fc4ef5dd9cf9631fd326f19aafa88a9e4027e584c42215aaa10f53d52c4d7f804b821139c164e71e0047087898f55d Homepage: https://cran.r-project.org/package=AzureCognitive Description: CRAN Package 'AzureCognitive' (Interface to Azure Cognitive Services) An interface to Azure Cognitive Services . Both an 'Azure Resource Manager' interface, for deploying Cognitive Services resources, and a client framework are supplied. While 'AzureCognitive' can be called by the end-user, it is meant to provide a foundation for other packages that will support specific services, like Computer Vision, Custom Vision, language translation, and so on. Part of the 'AzureR' family of packages. Package: r-cran-azurecontainers Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 706 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-azurermr, r-cran-azuregraph, r-cran-openssl, r-cran-httr, r-cran-r6, r-cran-processx Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-uuid, r-cran-mass, r-cran-bcrypt, r-cran-randomforest, r-cran-plumber, r-cran-restrserve, r-cran-azurekeyvault Filename: pool/dists/focal/main/r-cran-azurecontainers_1.3.3-1.ca2004.1_all.deb Size: 478412 MD5sum: bc03d0a6b092bcc7db7533f485678f2b SHA1: afff89ed11fe376db66b206d65814bb793ba6ce4 SHA256: fec50b7ae93b93cb7a56448bd0237edaf66b03fa365c51501d91d858d9c94011 SHA512: 7b4387468ba4a1fd27887e327f9520ece6d371c9a381e67e52e713307de813360d49e2072be501d360e9e13947f5697a6525e354ba72379def3dc711b8386ed7 Homepage: https://cran.r-project.org/package=AzureContainers Description: CRAN Package 'AzureContainers' (Interface to 'Container Instances', 'Docker Registry' and'Kubernetes' in 'Azure') An interface to container functionality in Microsoft's 'Azure' cloud: . Manage 'Azure Container Instance' (ACI), 'Azure Container Registry' (ACR) and 'Azure Kubernetes Service' (AKS) resources, push and pull images, and deploy services. On the client side, lightweight shells to the 'docker', 'docker-compose', 'kubectl' and 'helm' commandline tools are provided. Part of the 'AzureR' family of packages. Package: r-cran-azurecosmosr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 304 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-azurermr, r-cran-curl, r-cran-openssl, r-cran-jsonlite, r-cran-httr, r-cran-uuid, r-cran-vctrs Suggests: r-cran-azuretablestor, r-cran-mongolite, r-cran-dbi, r-cran-odbc, r-cran-dplyr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-azurecosmosr_1.0.0-1.ca2004.1_all.deb Size: 220740 MD5sum: 601a3b0aad209e5066606cb6317b1d8a SHA1: 96f17991df259412a04fbf1784cd19001ddd38d6 SHA256: 58883e2cb9116737f002ce6e2aa1b6008971d0d202d9569ff3bc0b6886a6952c SHA512: 3836a0b895e303d0a94290388d1614beb3670262a95fd64ddd7eff939cf52bdc29be434d3a78c43e0627b8598f253e5e4bce4f17b75e389cbfd5d4b8df13c97d Homepage: https://cran.r-project.org/package=AzureCosmosR Description: CRAN Package 'AzureCosmosR' (Interface to the 'Azure Cosmos DB' 'NoSQL' Database Service) An interface to 'Azure CosmosDB': . On the admin side, 'AzureCosmosR' provides functionality to create and manage 'Cosmos DB' instances in Microsoft's 'Azure' cloud. On the client side, it provides an interface to the 'Cosmos DB' SQL API, letting the user store and query documents and attachments in 'Cosmos DB'. Part of the 'AzureR' family of packages. Package: r-cran-azuregraph Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 710 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-azureauth, r-cran-httr, r-cran-jsonlite, r-cran-openssl, r-cran-curl, r-cran-r6 Suggests: r-cran-azurermr, r-cran-vctrs, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-azuregraph_1.3.4-1.ca2004.1_all.deb Size: 522372 MD5sum: fee4b529c6a534ccef40e85f38469cb9 SHA1: cfc267d89a4e8e68f74253f8894ef4287022e6e4 SHA256: 9eac2e659621c6a9cb25d68ebbab50f105391ef2fcd956d5bbbccb85ac06895d SHA512: f8f33e54e6e0774ffc1a5dddde84d76fac5509d6a3105952477b96cba6e025ab8de1c0e6ba9ce2a14fef026ba181ed4eb0196621c5ec5799faef4fe88bab1691 Homepage: https://cran.r-project.org/package=AzureGraph Description: CRAN Package 'AzureGraph' (Simple Interface to 'Microsoft Graph') A simple interface to the 'Microsoft Graph' API . 'Graph' is a comprehensive framework for accessing data in various online Microsoft services. This package was originally intended to provide an R interface only to the 'Azure Active Directory' part, with a view to supporting interoperability of R and 'Azure': users, groups, registered apps and service principals. However it has since been expanded into a more general tool for interacting with Graph. Part of the 'AzureR' family of packages. Package: r-cran-azurekeyvault Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 622 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-httr, r-cran-jsonlite, r-cran-openssl, r-cran-jose, r-cran-azurermr, r-cran-azuregraph, r-cran-azureauth Suggests: r-cran-azurestor, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-azurekeyvault_1.0.6-1.ca2004.1_all.deb Size: 495676 MD5sum: d07ceb1c2504e185dbfea183a780e900 SHA1: 90b4d82de2b316d0c873ea081e62a5a9d02e9853 SHA256: 8654039d707a969e9e33bd9c9d644c654cc5d766e70443a38c25759d5ac426bc SHA512: 92d605f28692679ac50b3fe58bb49b71b76e7a2c1d1984e4cf9173222e491451a65426027f9561ec68c2114139cddd51197abf845158e7e4bb83c66f9aa684a2 Homepage: https://cran.r-project.org/package=AzureKeyVault Description: CRAN Package 'AzureKeyVault' (Key and Secret Management in 'Azure') Manage keys, certificates, secrets, and storage accounts in Microsoft's 'Key Vault' service: . Provides facilities to store and retrieve secrets, use keys to encrypt, decrypt, sign and verify data, and manage certificates. Integrates with the 'AzureAuth' package to enable authentication with a certificate, and with the 'openssl' package for importing and exporting cryptographic objects. Part of the 'AzureR' family of packages. Package: r-cran-azurekusto Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 716 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rlang, r-cran-httr, r-cran-jsonlite, r-cran-r6, r-cran-openssl, r-cran-azureauth, r-cran-azurermr, r-cran-tibble, r-cran-dplyr, r-cran-tidyr, r-cran-tidyselect, r-cran-dbi Suggests: r-cran-bit64, r-cran-knitr, r-cran-testthat, r-cran-azuregraph, r-cran-azurestor, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-azurekusto_1.1.3-1.ca2004.1_all.deb Size: 568440 MD5sum: ad5c3434bbe7c76f9adff47c2e2a1427 SHA1: 5eb296de000a00cccc25081cf169f5f09751a11a SHA256: d641824c799844cf8063841753e21a2bef5280b7523b6a014565e5a9e7564440 SHA512: 91928d0de721229f1fb0fa6d1aeb157f446face24b4e8f23055463bdeaae60a1c7a498866e3d7e4c95a1a78e55ff6342932b68be4bf477ee87587dc878a54564 Homepage: https://cran.r-project.org/package=AzureKusto Description: CRAN Package 'AzureKusto' (Interface to 'Kusto'/'Azure Data Explorer') An interface to 'Azure Data Explorer', also known as 'Kusto', a fast, distributed data exploration service from Microsoft: . Includes 'DBI' and 'dplyr' interfaces, with the latter modelled after the 'dbplyr' package, whereby queries are translated from R into the native 'KQL' query language and executed lazily. On the admin side, the package extends the object framework provided by 'AzureRMR' to support creation and deletion of databases, and management of database principals. Part of the 'AzureR' family of packages. Package: r-cran-azuremlsdk Architecture: all Version: 1.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 920 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reticulate, r-cran-plyr, r-cran-dt, r-cran-htmltools, r-cran-servr, r-cran-shiny, r-cran-shinycssloaders Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-dplyr, r-cran-jsonlite, r-cran-foreach, r-cran-iterators Filename: pool/dists/focal/main/r-cran-azuremlsdk_1.10.0-1.ca2004.1_all.deb Size: 487200 MD5sum: a35628ae16fd1062f067ee1960c49447 SHA1: 74ecc4de095d71645d94e0853c8927dc304c66e2 SHA256: ed47c1d7bc57e46d0b659073d9f4dd5387302f2f90485242739fca0ac931a3b6 SHA512: 93a2a4eef9bc9a5a9dd128e7907fedf6dae2d3460a9b532bae41189eb49bc39612cba4b1265d7970e4b861f8fee82aea60f269094ecb0c111cd25eb583e893a9 Homepage: https://cran.r-project.org/package=azuremlsdk Description: CRAN Package 'azuremlsdk' (Interface to the 'Azure Machine Learning' 'SDK') Interface to the 'Azure Machine Learning' Software Development Kit ('SDK'). Data scientists can use the 'SDK' to train, deploy, automate, and manage machine learning models on the 'Azure Machine Learning' service. To learn more about 'Azure Machine Learning' visit the website: . Package: r-cran-azureqstor Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 223 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-azurermr, r-cran-azurestor, r-cran-openssl, r-cran-httr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-azureqstor_1.0.2-1.ca2004.1_all.deb Size: 160268 MD5sum: f2843ef23474f558c922ea8225200ebb SHA1: a5667e5d0b0205b1786c993e5a40cd17e5279d19 SHA256: acb5554b1188340b48398a21311f21bd93b921b69e0de75aef862e16f7474710 SHA512: 287999a601f0dd46bcc489ae0629d559aeef3a1c2a4477f4b62e050a300f1741dc871d5fdfa79ff679e2fbdfa1776ec9ef8711b8a87066eac1e61e643d750b09 Homepage: https://cran.r-project.org/package=AzureQstor Description: CRAN Package 'AzureQstor' (Interface to 'Azure Queue Storage') An interface to 'Azure Queue Storage'. This is a cloud service for storing large numbers of messages, for example from automated sensors, that can be accessed remotely via authenticated calls using HTTP or HTTPS. Queue storage is often used to create a backlog of work to process asynchronously. Part of the 'AzureR' family of packages. Package: r-cran-azurermr Architecture: all Version: 2.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 680 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-azuregraph, r-cran-azureauth, r-cran-httr, r-cran-jsonlite, r-cran-r6, r-cran-uuid Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-httpuv, r-cran-azurestor Filename: pool/dists/focal/main/r-cran-azurermr_2.4.4-1.ca2004.1_all.deb Size: 453396 MD5sum: aff429cf52d32ec293bdfa1a1378d9e2 SHA1: 4a1b52e8d9e9b79976819b45306e283eb3e2cb1f SHA256: b69d60ae8e43e2d023a5fac22e15511d8d389a1acacf556f7d5ad3b9713e1366 SHA512: f94a1f70431ff9f690e02d9e5bbc3b9ebe5c88b30840798482b14e5034004cee190ddeac03ee702b5f0d1594fab623944559bbe83ba3a215f448029d996d3acc Homepage: https://cran.r-project.org/package=AzureRMR Description: CRAN Package 'AzureRMR' (Interface to 'Azure Resource Manager') A lightweight but powerful R interface to the 'Azure Resource Manager' REST API. The package exposes a comprehensive class framework and related tools for creating, updating and deleting 'Azure' resource groups, resources and templates. While 'AzureRMR' can be used to manage any 'Azure' service, it can also be extended by other packages to provide extra functionality for specific services. Part of the 'AzureR' family of packages. Package: r-cran-azurestor Architecture: all Version: 3.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 639 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-r6, r-cran-httr, r-cran-mime, r-cran-openssl, r-cran-xml2, r-cran-vctrs, r-cran-azurermr Suggests: r-cran-azureauth, r-cran-readr, r-cran-knitr, r-cran-rmarkdown, r-cran-jsonlite, r-cran-testthat, r-cran-processx, r-cran-uuid Filename: pool/dists/focal/main/r-cran-azurestor_3.7.0-1.ca2004.1_all.deb Size: 460588 MD5sum: 816ada441bd9fd1d928cc74fd04b1a93 SHA1: 3a9276bb2893796606205fc8797c9109c28b08cc SHA256: 9b6a5bfe5ecc7d2d4f5e5a719771326e195880781509d36d1d6782a46c924a71 SHA512: c00b0c753de1b3c869a11eed4861ace048c356a24d539fd7a8dd500ad513c7d59a42af0ee089ae479c001cc7015e2af4bd54d5fe9813dc699169c56b140104b5 Homepage: https://cran.r-project.org/package=AzureStor Description: CRAN Package 'AzureStor' (Storage Management in 'Azure') Manage storage in Microsoft's 'Azure' cloud: . On the admin side, 'AzureStor' includes features to create, modify and delete storage accounts. On the client side, it includes an interface to blob storage, file storage, and 'Azure Data Lake Storage Gen2': upload and download files and blobs; list containers and files/blobs; create containers; and so on. Authenticated access to storage is supported, via either a shared access key or a shared access signature (SAS). Part of the 'AzureR' family of packages. Package: r-cran-azuretablestor Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-azurermr, r-cran-azurestor, r-cran-jsonlite, r-cran-openssl, r-cran-httr, r-cran-uuid, r-cran-vctrs Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-azuretablestor_1.0.0-1.ca2004.1_all.deb Size: 112616 MD5sum: f7fb6c6a341ebfdcee2bd1f66556ec69 SHA1: d8402f2bc7fa90914bc829814d6e73efd05b527a SHA256: 8073d0e64af876501658c8c946d7f95434edcb6b28e5184bad84e70ac889439c SHA512: 8de3d24726a0d5071cc023d29d8eddeee2548d59db470b8bf30702f5d322e5bc8f4889109e6170f7a14517f6376418b74167ee45ed460ecd03c136c2d6a89b4e Homepage: https://cran.r-project.org/package=AzureTableStor Description: CRAN Package 'AzureTableStor' (Interface to the Table Storage Service in 'Azure') An interface to the table storage service in 'Azure': . 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Package: r-cran-azurevision Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1849 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-azurermr, r-cran-azurecognitive, r-cran-httr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-azureauth, r-cran-testthat Filename: pool/dists/focal/main/r-cran-azurevision_1.0.2-1.ca2004.1_all.deb Size: 1547592 MD5sum: 4dc9eb4b9d3a9e40ac13197c990e0917 SHA1: ca6557dc2a9e030b547b753bcaa372e50c955c8a SHA256: dc8ad9dec811892a1a6215a5c3f2da54e74db688c4b7271324cc87e17d009754 SHA512: c7cc30947c65b0bfaa88d0b4e2be2e8454bc38b2a2c064cc839cbd14d6b618ff1d070b9846b295032b3c56993698e7b80fbe9109f4c9a85364184214a232e95e Homepage: https://cran.r-project.org/package=AzureVision Description: CRAN Package 'AzureVision' (Interface to Azure Computer Vision Services) An interface to 'Azure Computer Vision' and 'Azure Custom Vision' , building on the low-level functionality provided by the 'AzureCognitive' package. These services allow users to leverage the cloud to carry out visual recognition tasks using advanced image processing models, without needing powerful hardware of their own. Part of the 'AzureR' family of packages. Package: r-cran-azurevm Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 527 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-azurermr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-azurekeyvault, r-cran-azurevmmetadata Filename: pool/dists/focal/main/r-cran-azurevm_2.2.2-1.ca2004.1_all.deb Size: 414528 MD5sum: 4933dc0321f425e5959eaa49ffb3e0d1 SHA1: 76d78e83997975aa6687d62fb44837355f0d9b63 SHA256: 6a88e6a23ebc80ba1432dc234c57385c9c760bc0abbd5e47abc58c256124824e SHA512: 8d0b41a931f404b83f07402f01060d94390ef2b0ad38aae33394ed13a5890caff47305942df8764230cbddeb979f2fdc892a76b79c32ec24359d6421756fd279 Homepage: https://cran.r-project.org/package=AzureVM Description: CRAN Package 'AzureVM' (Virtual Machines in 'Azure') Functionality for working with virtual machines (VMs) in Microsoft's 'Azure' cloud: . Includes facilities to deploy, startup, shutdown, and cleanly delete VMs and VM clusters. Deployment configurations can be highly customised, and can make use of existing resources as well as creating new ones. A selection of predefined configurations is provided to allow easy deployment of commonly used Linux and Windows images, including Data Science Virtual Machines. With a running VM, execute scripts and install optional extensions. Part of the 'AzureR' family of packages. Package: r-cran-azurevmmetadata Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-openssl, r-cran-httr Suggests: r-cran-azureauth, r-cran-azurevm Filename: pool/dists/focal/main/r-cran-azurevmmetadata_1.0.1-1.ca2004.1_all.deb Size: 91316 MD5sum: bfc8feb552d1b3c589bc823d20e7fc95 SHA1: 938e557dc4bfa0de2439cc52d3aaaf251b799e6b SHA256: 696a4a3824b29230381f927e1d3ba2be151d29e05dc2bd16e20683f1f66fc4ac SHA512: 386ad7c6f24f430f68dbbe0d723f061f3f2b6165610801e18e8a2284c3e38645e6a2e83338a5e8c90675176530815d85ec4d52e978b915ab9c2b824ddffa9666 Homepage: https://cran.r-project.org/package=AzureVMmetadata Description: CRAN Package 'AzureVMmetadata' (Interface to Azure Virtual Machine Instance Metadata) A simple interface to the instance metadata for a virtual machine running in Microsoft's 'Azure' cloud. This provides information about the VM's configuration, such as its processors, memory, networking, storage, and so on. Part of the 'AzureR' family of packages. Package: r-cran-b6e6rl Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-b6e6rl_1.1-1.ca2004.1_all.deb Size: 26088 MD5sum: 4a01f67abe8ed3e3d13d7c71901d4a25 SHA1: 7eb7c7ea264fc8b9f03697f7cddb2eb179838ff8 SHA256: 6c72ef58c23bb41a9881c300e8cb511bc797f065308004cbd9298ce9a9fcd371 SHA512: 859e4f8d4b804628f681dd4b56953d78cc366da9420e8242488a65e4cb3ccb31c339a388c4e404828d41724a9a6cca6010eb84f4e5b1550fdfbffd650d5f1332 Homepage: https://cran.r-project.org/package=b6e6rl Description: CRAN Package 'b6e6rl' (Adaptive differential evolution, b6e6rl variant) This package contains b6e6rl algorithm, adaptive differential evolution for global optimization. Package: r-cran-babar Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 412 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-babar_1.0-1.ca2004.1_all.deb Size: 363372 MD5sum: eff6555bdaba8f87e5a8a4475d2e09b8 SHA1: 05ae822df975f4848e11b215ce5f0ccfc2118000 SHA256: 031fc5e485181bee11dd35c72d3bece9fe15d31da1cb340bf97ba41036e7d288 SHA512: a464f8608a3956c40121e8e6f49525e2b52d8616e9b4a2d806692c4d71f8141aab271725498b71a1c419253d2051d061cf5526a38820e900fb998fd3c5126d00 Homepage: https://cran.r-project.org/package=babar Description: CRAN Package 'babar' (Bayesian Bacterial Growth Curve Analysis in R) Babar is designed to use nested sampling (a Bayesian analysis technique) to compare possible models for bacterial growth curves, as well as extracting parameters. 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Package: r-cran-babel Architecture: all Version: 0.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-edger Suggests: r-cran-r.rsp, r-cran-r.devices, r-cran-r.utils Filename: pool/dists/focal/main/r-cran-babel_0.3-0-1.ca2004.1_all.deb Size: 208668 MD5sum: 11727c69bd460137f728a6a58d18d4e9 SHA1: 9b78ec54ca467562a9dddf0614def18a2b197475 SHA256: 149889eb0d598b7e6000f02223b41ccbc81090741fac3bbb50d99e20f06202cf SHA512: 4e526d448c7ed18214d95666bba4915cda39917d32d99cc2b4966b72704d6b15644444820ade129474cdb05bed4d37bfe602a4012f8f18d5930da7e739b75b1a Homepage: https://cran.r-project.org/package=babel Description: CRAN Package 'babel' (Ribosome Profiling Data Analysis) Included here are babel routines for identifying unusual ribosome protected fragment counts given mRNA counts. Package: r-cran-babelgene Architecture: all Version: 22.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3625 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-rlang Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-babelgene_22.9-1.ca2004.1_all.deb Size: 3651124 MD5sum: 8eb32107f247c3ce06d6fd63b9500bb4 SHA1: 9d95390248c5f4c15c2b429076f30aa866db2e90 SHA256: a29336f5df3c2a32a8b2eb9a434c9206630e819c0ef1f67769079eac9c6c3d72 SHA512: 11b48ef5aeaf4afcb95e52eb58bef39650735a9dfaf34f09e153199a7ea2d388f7822099ea8f9e118fd38cc47be231682bf6bc9807197ae8596a5db56dfd8c4b Homepage: https://cran.r-project.org/package=babelgene Description: CRAN Package 'babelgene' (Gene Orthologs for Model Organisms in a Tidy Data Format) Genomic analysis of model organisms frequently requires the use of databases based on human data or making comparisons to patient-derived resources. 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Package: r-cran-babelwhale Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 463 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-crayon, r-cran-dplyr, r-cran-fs, r-cran-dynutils, r-cran-processx, r-cran-purrr, r-cran-digest, r-cran-glue Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-babelwhale_1.2.0-1.ca2004.1_all.deb Size: 416664 MD5sum: e3c24ae3664517066620080e8f8ffb26 SHA1: 1e1144b3136252b3870cab5e18810e8ae69148f5 SHA256: 21021e9215a2e03faba3a1479069668045adbe9312ffb3f2fa2926965b37832c SHA512: 91d3f14babb6468baf711bde0f73ddb82058c6179d39b262e65d97398c7fe8afe51a571a652855f9ff9ce2c990ac9cfa84916473ac15e2172f8fd8a1466d4cfd Homepage: https://cran.r-project.org/package=babelwhale Description: CRAN Package 'babelwhale' (Talking to 'Docker' and 'Singularity' Containers) Provides a unified interface to interact with 'docker' and 'singularity' containers. 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Package: r-cran-babette Architecture: all Version: 2.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2325 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-beautier, r-cran-beastier, r-cran-mauricer, r-cran-tracerer, r-cran-phangorn, r-cran-rlang, r-cran-stringr, r-cran-xml2 Suggests: r-cran-ape, r-cran-ggplot2, r-cran-knitr, r-cran-lintr, r-cran-nltt, r-cran-rappdirs, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-babette_2.3.4-1.ca2004.1_all.deb Size: 1495932 MD5sum: 513cfda619e897c3027adf60a57048b4 SHA1: f3b330d4b1cffd17eac84f979025459a14a478eb SHA256: 0ce9d3e9a763bfdf2663bdcb7ffcb1bd0a32aaae593b4bcf515fc53fb5d95432 SHA512: aeecac6df1627e6f11880ff2822012b5c48c9b19746df8aacc02972b010b24bfb67181a99904b42ad71ef1c90883a2b8f479a663207ae4e2cce0fcd129251416 Homepage: https://cran.r-project.org/package=babette Description: CRAN Package 'babette' (Control 'BEAST2') 'BEAST2' () is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAST2' is commonly accompanied by 'BEAUti 2', 'Tracer' and 'DensiTree'. 'babette' provides for an alternative workflow of using all these tools separately. This allows doing complex Bayesian phylogenetics easily and reproducibly from 'R'. Package: r-cran-babsim.hospital Architecture: all Version: 11.8.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1273 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-spot, r-cran-checkmate, r-cran-curl, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-golem, r-cran-igraph, r-cran-lubridate, r-cran-markovchain, r-cran-padr, r-cran-rvest, r-cran-scales, r-cran-simmer, r-cran-slider, r-cran-testthat, r-cran-plyr, r-cran-xml2 Suggests: r-cran-batchtools, r-cran-knitr, r-cran-rmarkdown, r-cran-rpart, r-cran-rpart.plot, r-cran-simmer.plot, r-cran-stringr, r-cran-tidyverse, r-cran-usethis, r-cran-vctrs Filename: pool/dists/focal/main/r-cran-babsim.hospital_11.8.8-1.ca2004.1_all.deb Size: 997588 MD5sum: a29fd6b31785a3f83aa32e52e3733563 SHA1: 600b514baa2bc6a656bc8df435eb0f4f0336e28e SHA256: 38227ec50c8f37e73015b4d8d9ca5c56f23c328413a37a01eb79eb845e66cea4 SHA512: 2b56ab57fe49fc5cb38fbca9df471d3315a74896ff2d610fed06cdd5b67a7c128dd48474400e9b97d14e6a13cec545b0d6cd19196433328a3c7b0fc3edc2ac59 Homepage: https://cran.r-project.org/package=babsim.hospital Description: CRAN Package 'babsim.hospital' (Bartz & Bartz Simulation Hospital) Implements a discrete-event simulation model for a hospital resource planning problem. The project is motivated by the challenges faced by health care institutions in the current COVID-19 pandemic. It can be used by health departments to forecast demand for intensive care beds, ventilators, and staff resources. Our modelling approach is inspired by "A novel modelling technique to predict resource requirements in critical care - a case study" (Lawton and McCooe 2019) and combines two powerful technologies: (i) discrete event simulation using the 'simmer' package and (ii) model-based optimization using 'SPOT'. Ucar I, Smeets B, Azcorra A (2019) . Bartz-Beielstein T, Lasarczyk C W G, Preuss M (2005) . Lawton T, McCooe M (2019) . Package: r-cran-babynames Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5441 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-babynames_1.0.1-1.ca2004.1_all.deb Size: 5536848 MD5sum: fc2b07f9efcf96f153b3ccb7f88f7adc SHA1: 08faceab297b6dc673f440335e0a759b508810ee SHA256: 96dcb3e59227c30e1929f98ecd33989bedc78e9176e336887f03009c220dada2 SHA512: 620fa9bf7b28147a7c812742ec2d2363e3f17c87dd50e69b25bb471232a4113c2d7f394bda6a18630e274a1f45687be62ad779a1408215d91c705a18a3ec89ea Homepage: https://cran.r-project.org/package=babynames Description: CRAN Package 'babynames' (US Baby Names 1880-2017) US baby names provided by the SSA. This package contains all names used for at least 5 children of either sex. 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The package contains only names used for at least 5 children in at least one gender and sector ("Jewish", "Muslim", "Christian", "Druze" and "Other"). Data was downloaded from: . Package: r-cran-babytimer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-janitor, r-cran-lubridate, r-cran-readr, r-cran-snakecase, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-babytimer_0.1.0-1.ca2004.1_all.deb Size: 30964 MD5sum: 3241924c038399d54541c31c71fbf604 SHA1: 79406d46e8ded50789ccc093e05c6e6ff39486b0 SHA256: 8e30b8ead0f66fc202751dc38e7b8d822b29f9ac39b75a510e5d417c01a77c30 SHA512: f3d4b666157492386bd107a32da5511cb441d60b3a9a96f50a2f4fdf31374f30c145045277540fd9a73572595b66305fdc0dd8fe05f7778186fc81060462af97 Homepage: https://cran.r-project.org/package=babyTimeR Description: CRAN Package 'babyTimeR' (Parse Output from 'BabyTime' Application) 'BabyTime' is an application for tracking infant and toddler care activities like sleeping, eating, etc. This package will take the outputted .zip files and parse it into a usable list object with cleaned data. It handles malformed and incomplete data gracefully and is designed to parse one directory at a time. Package: r-cran-bacco Architecture: all Version: 2.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 385 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-emulator, r-cran-calibrator, r-cran-approximator Filename: pool/dists/focal/main/r-cran-bacco_2.1-0-1.ca2004.1_all.deb Size: 307228 MD5sum: 38486782890ee194a304810cab34d681 SHA1: 99bcab0fa588a58331ad613f1bb598160ca92a9f SHA256: 6fd6c9d93ec739c63514ae7166a1031f8d1620fc1eb043c50004448f6f7221c1 SHA512: 5a57ad5a3ae14976ecaa8bc038f742fc17baaa5c65b258ad26ab0226f114cab4c24ab2856e6bb692452d97798299484fd8b1b2da36b3bf36227d4eb8f31d7db2 Homepage: https://cran.r-project.org/package=BACCO Description: CRAN Package 'BACCO' (Bayesian Analysis of Computer Code Output (BACCO)) The BACCO bundle of packages is replaced by the BACCO package, which provides a vignette that illustrates the constituent packages (emulator, approximator, calibrator) in use. Package: r-cran-bacct Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjags, r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-bacct_1.0-1.ca2004.1_all.deb Size: 42332 MD5sum: b863e78187c049f95db4a5e55fd0d47c SHA1: 353985d46be076d49eaae012a6af14a06f9f6651 SHA256: dfbb70c0d4aa6649f85eebf84d7f77ac109ea349c02b42ac805a46a36686f408 SHA512: 1f56978e704c990c092c39d0496626e130ff956046a475cba2e38fad4e03082e971849e0bc3664730715a614b8812878543507b3e55955d3fc50db6f5a6924db Homepage: https://cran.r-project.org/package=BACCT Description: CRAN Package 'BACCT' (Bayesian Augmented Control for Clinical Trials) Implements the Bayesian Augmented Control (BAC, a.k.a. Bayesian historical data borrowing) method under clinical trial setting by calling 'Just Another Gibbs Sampler' ('JAGS') software. 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Based on likelihood ratio test, it provides comparisons for effect of one or more variables. See Kyungtaek Park (2018) for more information. Package: r-cran-ballmapper Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-scales, r-cran-networkd3, r-cran-testthat, r-cran-fields, r-cran-stringr Filename: pool/dists/focal/main/r-cran-ballmapper_0.2.0-1.ca2004.1_all.deb Size: 77148 MD5sum: e00042a390330ef6139fef268c5a1a03 SHA1: fd7067e721367c84846e01b541abcda7cb50f37a SHA256: 3a0515462e4602c700b798a5d44d4a2799c7f26d36fb894bd43f93e8cafc50c4 SHA512: 08da8669ade544d101ee6586f16cd9a5490126eacc6f8ccbf59953003dbde5f8edb3b0560df2aaabc100bc85ea5fe777b8645a26c1a8bd4c39e5b7d5aa97a4bc Homepage: https://cran.r-project.org/package=BallMapper Description: CRAN Package 'BallMapper' (The Ball Mapper Algorithm) The core algorithm is described in "Ball mapper: a shape summary for topological data analysis" by Pawel Dlotko, (2019) . Please consult the following youtube video the idea of functionality. Ball Mapper provide a topologically accurate summary of a data in a form of an abstract graph. To create it, please provide the coordinates of points (in the points array), values of a function of interest at those points (can be initialized randomly if you do not have it) and the value epsilon which is the radius of the ball in the Ball Mapper construction. It can be understood as the minimal resolution on which we use to create the model of the data. Package: r-cran-bam Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-mice Suggests: r-cran-coda, r-cran-nnet Filename: pool/dists/focal/main/r-cran-bam_1.0.3-1.ca2004.1_all.deb Size: 205212 MD5sum: a68908d5f5b30cc1abfe60b911b5a16f SHA1: 739ac55fc93e12088ed65b046b4b22f946ad3b03 SHA256: bbf160ad2495acff176890d09624c471fa7f07803e24a513634b80464d00525f SHA512: 42ae6ed14eac6b4d5959ed36c6e3bfb314eb3d888cb575e592193fd1082bb271da1e66f35cd812eff4b4f6f5c9b2c2bd711fb85954e7a792141c9615b59187dc Homepage: https://cran.r-project.org/package=BaM Description: CRAN Package 'BaM' (Functions and Datasets for "Bayesian Methods: A Social andBehavioral Sciences Approach") Functions and datasets for Jeff Gill: "Bayesian Methods: A Social and Behavioral Sciences Approach". First, Second, and Third Edition. Published by Chapman and Hall/CRC (2002, 2007, 2014) . Package: r-cran-bamboo Architecture: all Version: 0.9.25-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3892 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rscala Filename: pool/dists/focal/main/r-cran-bamboo_0.9.25-1.ca2004.1_all.deb Size: 3847212 MD5sum: a1a91ee392f7193bb49ce051c700f6eb SHA1: 5994b4fa520379cee6f458117a7a311acecdc4a5 SHA256: fe8f6b77e2959c52b908b1e4053a12152641d67705fb18bb9281fb8a1cc7feba SHA512: f310c516963a5e86013f4bc18847f21881646190a86a430b8ac0bce8c708f22d855365b4b4ea35ed47f59a5e7463d5e8673c9a25569ffab1fb8a0de79264c8cf Homepage: https://cran.r-project.org/package=bamboo Description: CRAN Package 'bamboo' (Protein Secondary Structure Prediction Using the Bamboo Method) Implementation of the Bamboo methods described in Li, Dahl, Vannucci, Joo, and Tsai (2014) . 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The actual URL of the API will depend on your company domain, and will be handled by the package automatically once you setup the config file. The API documentation can be found here . Package: r-cran-bamdit Architecture: all Version: 3.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 178 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rjags, r-cran-r2jags, r-cran-ggplot2, r-cran-ggextra, r-cran-mass, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-bamdit_3.4.4-1.ca2004.1_all.deb Size: 143100 MD5sum: c76f46901a0cff45f054742792c03195 SHA1: 1f33494d3a88f012635b7ae1a65d0180881655c6 SHA256: b24e9c81ccd3f9a809e979c26106bd4d7d2bf46b05aba77cfe77ccb49a47aceb SHA512: a2ed360b07201ee5eba6b72c1d8c9661c55b67c341238225af80715c3a1c7209f8cf05cb9847be5a4276283e98b1e242a8b6e142b4b238e5764bc51d2c9ed115 Homepage: https://cran.r-project.org/package=bamdit Description: CRAN Package 'bamdit' (Bayesian Meta-Analysis of Diagnostic Test Data) Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS). 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The degree of social influence is quantified via the network autocorrelation parameters. In case of a single network, the Bayesian methods of Dittrich, Leenders, and Mulder (2017) and Dittrich, Leenders, and Mulder (2019) are implemented using a normal, flat, or independence Jeffreys prior for the network autocorrelation. In the case of multiple networks, the Bayesian methods of Dittrich, Leenders, and Mulder (2020) are implemented using a multivariate normal prior for the network autocorrelation parameters. Flat priors are implemented for estimating the coefficients. For Bayesian testing of equality and order-constrained hypotheses, the default Bayes factor of Gu, Mulder, and Hoijtink, (2018) is used with the posterior mean and posterior covariance matrix of the NAM parameters based on flat priors as input. Package: r-cran-bandicoot Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 227 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bandicoot_1.0.0-1.ca2004.1_all.deb Size: 148088 MD5sum: b984acf256ccb98a3be2139f02063ea4 SHA1: cf5ecfaf293a468468ebcdb0b08ceb392ad055bc SHA256: 447f7d7c86a8dfb45d596c0dbe438f731dd4a51242ab43ba0707bbe50cf34abe SHA512: 0e631e39d1a142c3ade237a1c33c0d3099779c56ef11615f17184f4b2adcdb21e1d714a741290a4caaca974bbd902e675c9ee4b78381b9236334cd4223b9f77e Homepage: https://cran.r-project.org/package=bandicoot Description: CRAN Package 'bandicoot' (Light-Weight 'python'-Like Object-Oriented System) A light-weight object-oriented system with 'python'-like syntax which supports multiple inheritances and incorporates a 'python'-like method resolution order. Package: r-cran-bandit Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-boot, r-cran-gam Filename: pool/dists/focal/main/r-cran-bandit_0.5.1-1.ca2004.1_all.deb Size: 45052 MD5sum: 503fe87bef56bff967f6f8b323dfe205 SHA1: 975925f293af55b4cdb4cd9b4a04907ab56bbd3d SHA256: ac3106aa7c8bf1f1c050553a9567f6d9f785fc6209b06c3e49471368bd4a9fc4 SHA512: 69ebf3da58c33a389c5a29139bcafe6c683170992ca3defdc7e2050ba7c74e3ede37ef217a3113a0da256049df41ceb0fdd2d1b8cc67e5a7e0a01fd4fb5797e1 Homepage: https://cran.r-project.org/package=bandit Description: CRAN Package 'bandit' (Functions for Simple a/B Split Test and Multi-Armed BanditAnalysis) A set of functions for doing analysis of A/B split test data and web metrics in general. Package: r-cran-banditsci Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1638 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-mass, r-cran-mvtnorm, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-banditsci_1.0.0-1.ca2004.1_all.deb Size: 1033204 MD5sum: 3ffe6e379230af2aa2d63e792d355d6b SHA1: 2e2b42e8b74be9bd550b1f26dfcff2f860e55c9f SHA256: 4f25ee5bcd00d18bc1497f2e48c6c1db7c7867d6227f9882b288c89d6bad0bde SHA512: 7506dcb59a7f6eae95a4f5f10f8d9dfc51985725011d64d1bd4588d8367f74c3164df3306595f7f26fe61bd41e7306f1f1f2d61505cc28dde18abbc5a8a17346 Homepage: https://cran.r-project.org/package=banditsCI Description: CRAN Package 'banditsCI' (Bandit-Based Experiments and Policy Evaluation) Frequentist inference on adaptively generated data. The methods implemented are based on Zhan et al. (2021) and Hadad et al. (2021) . For illustration, several functions for simulating non-contextual and contextual adaptive experiments using Thompson sampling are also supplied. Package: r-cran-bandsfdp Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bandsfdp_1.1.0-1.ca2004.1_all.deb Size: 53532 MD5sum: bc208009c558fc4394742eb1c14ab2ea SHA1: 7d627dd32b7107c0fe70ca26e4f7fb97fb53126c SHA256: b2a0c765f88f38c7b298638a32b8a503bfff11e0b002e732d6018388b109f7c0 SHA512: c45f5ded860e3df00d28bc378e9da191a0e145c7ed5380c3959c03311032dbf1dd1836ad2863bfbf5c448cbd63b4ea35dc00576bd8cdc3bde90e9a227e319386 Homepage: https://cran.r-project.org/package=bandsfdp Description: CRAN Package 'bandsfdp' (Compute Upper Prediction Bounds on the FDP in Competition-BasedSetups) Implements functions that calculate upper prediction bounds on the false discovery proportion (FDP) in the list of discoveries returned by competition-based setups, implementing Ebadi et al. (2022) . Such setups include target-decoy competition (TDC) in computational mass spectrometry and the knockoff construction in linear regression (note this package typically uses the terminology of TDC). Included is the standardized (TDC-SB) and uniform (TDC-UB) bound on TDC's FDP, and the simultaneous standardized and uniform bands. Requires pre-computed Monte Carlo statistics available at . This data can be downloaded by running the command 'devtools::install_github("uni-Arya/fdpbandsdata")' in R and restarting R after installation. The size of this data is roughly 81Mb. Package: r-cran-banffit Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-crayon, r-cran-stringr, r-cran-fs, r-cran-lubridate, r-cran-tidyr, r-cran-fabr, r-cran-madshapr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-usethis Filename: pool/dists/focal/main/r-cran-banffit_1.0.0-1.ca2004.1_all.deb Size: 200400 MD5sum: e71db07874baf6dcff432cb68c8c5753 SHA1: 317c31c7ecf0d9e07782a0f533190aee16f5a472 SHA256: dd27c601ff6aab2c0ed8157b05c3ddd0d23bb9ca38a250b60503d0343cc72168 SHA512: 2b4aaf267d4c6ed176f87d118feb921101446374e7bf9f4317799fee0864d27d97a48c4b3f70ab4b20918f01cca059bdb659e8f46c8fffdaf328d9887df38a11 Homepage: https://cran.r-project.org/package=banffIT Description: CRAN Package 'banffIT' (Automatize Diagnosis Standardized Assignation Using the BanffClassification) Assigns standardized diagnoses using the Banff Classification (Category 1 to 6 diagnoses, including Acute and Chronic active T-cell mediated rejection as well as Active, Chronic active, and Chronic antibody mediated rejection). The main function considers a minimal dataset containing biopsies information in a specific format (described by a data dictionary), verifies its content and format (based on the data dictionary), assigns diagnoses, and creates a summary report. The package is developed on the reference guide to the Banff classification of renal allograft pathology Roufosse C, Simmonds N, Clahsen-van Groningen M, et al. A (2018) . The full description of the Banff classification is available at . Package: r-cran-bang Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 547 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayesplot, r-cran-rust Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bang_1.0.4-1.ca2004.1_all.deb Size: 306876 MD5sum: a6d08a37a3d6a84c56387c177dcfbf6c SHA1: 5fe4b23afc4b3c17a9abdca560ae2233b6f37c35 SHA256: 4c43b5b9a56fefd97d3560eda683745f6b8c9645f4242148d8da580ca480ff47 SHA512: 040e94f28f671ec4ce779c4ca8025daed1ce7fb7cc6975366c6e32406286c54b7d8ca65cabd57115cb1a57ed3785d3c1ad4000f9ec8fd33cbacc6638d736a035 Homepage: https://cran.r-project.org/package=bang Description: CRAN Package 'bang' (Bayesian Analysis, No Gibbs) Provides functions for the Bayesian analysis of some simple commonly-used models, without using Markov Chain Monte Carlo (MCMC) methods such as Gibbs sampling. The 'rust' package is used to simulate a random sample from the required posterior distribution, using the generalized ratio-of-uniforms method. See Wakefield, Gelfand and Smith (1991) for details. At the moment three conjugate hierarchical models are available: beta-binomial, gamma-Poisson and a 1-way analysis of variance (ANOVA). Package: r-cran-bangladesh Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5812 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-tmap, r-cran-sf Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-scales, r-cran-viridis Filename: pool/dists/focal/main/r-cran-bangladesh_1.0.0-1.ca2004.1_all.deb Size: 5464684 MD5sum: f459924762f876f3b071f8c4f87eab73 SHA1: 5d3be584d42be21ca4baeb823c4f031100f157cf SHA256: 8c517a1faae40f355629d6c22b1f6fa6736f4e2101276a91abea5e362463aee1 SHA512: f80c24cab11cc30e50f44ed746b570f7de8c8e0979615f64acf7b3f43064ae14908ec6cd096e38dcf61f2f480f7d4fffbfaeb68f93976a2caab7559059c28ffd Homepage: https://cran.r-project.org/package=bangladesh Description: CRAN Package 'bangladesh' (Provides Ready to Use Shapefiles for Geographical Map ofBangladesh) Usually, it is difficult to plot choropleth maps for Bangladesh in 'R'. The 'bangladesh' package provides ready-to-use shapefiles for different administrative regions of Bangladesh (e.g., Division, District, Upazila, and Union). This package helps users to draw thematic maps of administrative regions of Bangladesh easily as it comes with the 'sf' objects for the boundaries. It also provides functions allowing users to efficiently get specific area maps and center coordinates for regions. Users can also search for a specific area and calculate the centroids of those areas. Package: r-cran-bannercommenter Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 243 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-bannercommenter_1.0.0-1.ca2004.1_all.deb Size: 202612 MD5sum: 91e2dff86fae459293b9a16f864284ff SHA1: 7092e055f4f3d99bf73399f789725a732b4f9a8a SHA256: 316ea4837b4ab39efd276bddde2aacfc95e84cab080048c666a0fd5a9d199748 SHA512: 15b27a75772fe6b80eed7a49cf1a9888c6e72810d1e393ae33939b3f8eecb52fd0339e4b28efc9decf08a2409740b34f929ae0d8e4e6e3adecb0ccdcad5b0420 Homepage: https://cran.r-project.org/package=bannerCommenter Description: CRAN Package 'bannerCommenter' (Make Banner Comments with a Consistent Format) A convenience package for use while drafting code. It facilitates making stand-out comment lines decorated with bands of characters. The input text strings are converted into R comment lines, suitably formatted. These are then displayed in a console window and, if possible, automatically transferred to a clipboard ready for pasting into an R script. Designed to save time when drafting R scripts that will need to be navigated and maintained by other programmers. 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Package: r-cran-baorista Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nimble, r-cran-coda Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-baorista_0.2.1-1.ca2004.1_all.deb Size: 184832 MD5sum: be3f840787ab750615609c5702549e72 SHA1: 74494febba5576078f69f0042b597ef51612d615 SHA256: 70e9625e3f0acd130151a255c99a31afc9aa1fb38d37a58b576982eda04639bb SHA512: 0331d42bc0ad6cdd5842412eb466492010916bd46a66979faa9ab28c77f84ea77181e24b16a5fadb8996fb5387b3704b1a92c8fdc1f947f008fc2b984e5a0c12 Homepage: https://cran.r-project.org/package=baorista Description: CRAN Package 'baorista' (Bayesian Aoristic Analyses) Provides an alternative approach to aoristic analyses for archaeological datasets by fitting Bayesian parametric growth models and non-parametric random-walk Intrinsic Conditional Autoregressive (ICAR) models on time frequency data (Crema (2024)). 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A., George, E. I., & McCulloch, R. E. 2010) model fits. We construct conventional plots to analyze a model’s performance and stability as well as create new tree-based plots to analyze variable importance, interaction, and tree structure. We employ Value Suppressing Uncertainty Palettes (VSUP) to construct heatmaps that display variable importance and interactions jointly using colour scale to represent posterior uncertainty. Our visualisations are designed to work with the most popular BART R packages available, namely 'BART' Rodney Sparapani and Charles Spanbauer and Robert McCulloch 2021 , 'dbarts' (Vincent Dorie 2023) , and 'bartMachine' (Adam Kapelner and Justin Bleich 2016) . 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The package offers a workflow with functions to prepare the data set for analysis as well as to calculate and visualize several degradation metrics, including blur ratio, signal-to-noise ratio, excess attenuation and envelope correlation among others (Dabelsteen et al 1993 ). Package: r-cran-base.rms Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rms, r-cran-survival, r-cran-do Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-base.rms_1.0-1.ca2004.1_all.deb Size: 30064 MD5sum: b92a34a2fdbc51d3981a7c48967fedcc SHA1: fe405bc7bc8ec2152a1afa90a922921ba0f23b2e SHA256: add3543eb6ee2ac0ca35c5c87f2d3c58e22aca70e2cb293cf8a14a03c710285b SHA512: 7e48577b4cc2edcc8488fce917c39cbdc4f3a523e16af7133df6f0e2f106069310f82281964b6a57adfcb98c8e6a2073a71a36107107a26e3128f170615a7def Homepage: https://cran.r-project.org/package=base.rms Description: CRAN Package 'base.rms' (Convert Regression Between Base Function and 'rms' Package) We perform linear, logistic, and cox regression using the base functions lm(), glm(), and coxph() in the R software and the 'survival' package. Likewise, we can use ols(), lrm() and cph() from the 'rms' package for the same functionality. Each of these two sets of commands has a different focus. In many cases, we need to use both sets of commands in the same situation, e.g. we need to filter the full subset model using AIC, and we need to build a visualization graph for the final model. 'base.rms' package can help you to switch between the two sets of commands easily. Package: r-cran-base64 Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openssl Filename: pool/dists/focal/main/r-cran-base64_2.0.2-1.ca2004.1_all.deb Size: 59204 MD5sum: 79b28f88fb089c3a20aa7420bccebbd5 SHA1: bf962045812fb46131dee171bb8d83539a86af35 SHA256: 84137e06e285d40d090d6ef5355fed37ec7e121434410c9dcaafcae66b649599 SHA512: a11d870d5c15d9637bafc68464f1613637d4869a07030bc8fe766eb57f442ef70d6fa5463a8c20e7c795d585f551e29b1cbdff2ae8c85a15202f38f3ef31770d Homepage: https://cran.r-project.org/package=base64 Description: CRAN Package 'base64' (Base64 Encoder and Decoder) Compatibility wrapper to replace the orphaned package. New applications should use base64 encoders from 'jsonlite' or 'openssl' or 'base64enc'. 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Manipulating imputed datasets and fitting models on them. Summarizing models. Package: r-cran-basedosdados Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-purrr, r-cran-dplyr, r-cran-tibble, r-cran-httr, r-cran-cli, r-cran-magrittr, r-cran-readr, r-cran-stringr, r-cran-dotenv, r-cran-bigrquery, r-cran-glue, r-cran-rlang, r-cran-writexl, r-cran-fs, r-cran-dbplyr, r-cran-scales, r-cran-dbi, r-cran-typed Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-basedosdados_0.2.2-1.ca2004.1_all.deb Size: 72608 MD5sum: 6c8e5c6fc76316b9430e8c44ca13816c SHA1: c5e06d5b4c0069b2e62472f900b528dbfcd64b1a SHA256: 5a7e65c5d8bb4ffa1576f3c5744704b3e295af0af68c24a5479e88fc661ff194 SHA512: 01f90afea96ed7e3f026a2829b1120e94fa9676cfa714f039abf0accec866c62033a5eea29c07d13d01e0f8ebaa879466114f30100961f09d878e545acf72988 Homepage: https://cran.r-project.org/package=basedosdados Description: CRAN Package 'basedosdados' ('Base Dos Dados' R Client) An R interface to the 'Base dos Dados' API ). Authenticate your project, query our tables, save data to disk and memory, all from R. Package: r-cran-baseline Architecture: all Version: 1.3-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2263 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sparsem, r-cran-limsolve Suggests: r-cran-gwidgets2, r-cran-gwidgets2tcltk, r-cran-idpmisc, r-cran-lattice, r-cran-pls, r-cran-mass Filename: pool/dists/focal/main/r-cran-baseline_1.3-5-1.ca2004.1_all.deb Size: 2170280 MD5sum: 0ae983bf3e412ba2ee1f0d73a937a4df SHA1: f1770fc09864f4f2d71b712089d626a5c975c5a6 SHA256: 3d58d444210cf87a8d15d95ca85aaf0aa00ed51cb4fc95d97312cf6158851b0c SHA512: 137879c6421bb77d7f8566cda36b913b9a0d01c6cdfc62928d370213003b416e1df7c1c03d936447cc8b809c1e26034d4524bfe6a18062c604d6cc0e5713407b Homepage: https://cran.r-project.org/package=baseline Description: CRAN Package 'baseline' (Baseline Correction of Spectra) Collection of baseline correction algorithms, along with a framework and a Tcl/Tk enabled GUI for optimising baseline algorithm parameters. Typical use of the package is for removing background effects from spectra originating from various types of spectroscopy and spectrometry, possibly optimizing this with regard to regression or classification results. Correction methods include polynomial fitting, weighted local smoothers and many more. Package: r-cran-basemaps Architecture: all Version: 0.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-slippymath, r-cran-httr, r-cran-curl, r-cran-terra, r-cran-stars, r-cran-pbapply, r-cran-magick Suggests: r-cran-raster, r-cran-ggplot2, r-cran-png, r-cran-mapview, r-cran-mapedit, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-basemaps_0.0.8-1.ca2004.1_all.deb Size: 82008 MD5sum: 4e8790397b1c83bfe1c77d30382f05bc SHA1: 13f77c27eeabfd1b3190f50447a2a4424454a348 SHA256: 71e4563cad9a87dc2f96cdbc95abe39eba99f1ce837157759a885e710f705e80 SHA512: a4712f79ae260d44578fcc1c80a4576ddd194c009b68da2bc27c79d1733cb380eed5e82bf6e85ff195b7acb5cd9938af951a249b1aeef16b952394f814748e51 Homepage: https://cran.r-project.org/package=basemaps Description: CRAN Package 'basemaps' (Accessing Spatial Basemaps in R) A lightweight package to access spatial basemaps from open sources such as 'OpenStreetMap', 'Carto', 'Mapbox' and others in R. Package: r-cran-basemodels Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-caret, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-basemodels_1.1.0-1.ca2004.1_all.deb Size: 43104 MD5sum: ee43f1fba6d94c27eda42e615ac75c3c SHA1: b1a79e285cb013ac90de5df3d03b75d2fd410af3 SHA256: 659ac238581456dfa7de63ae0c2c6dc6299763c30ac237aa6edbfe9664180090 SHA512: b3ab7c0dfefb6882732ebf5c902b30aebf2cb9577d8693d6dab327b2d7f6af8f85d2d43959c92840aa6fbaea0be6b86296feb343f70eb964e2e01bd0218e2e7e Homepage: https://cran.r-project.org/package=basemodels Description: CRAN Package 'basemodels' (Baseline Models for Classification and Regression) Providing equivalent functions for the dummy classifier and regressor used in 'Python' 'scikit-learn' library. Our goal is to allow R users to easily identify baseline performance for their classification and regression problems. Our baseline models use no predictors, and are useful in cases of class imbalance, multiclass classification, and when users want to quickly identify how much improvement their statistical and machine learning models are over several baseline models. We use a "better" default (proportional guessing) for the dummy classifier than the 'Python' implementation ("prior", which is the most frequent class in the training set). The functions in the package can be used on their own, or introduce methods named 'dummy_regressor' or 'dummy_classifier' that can be used within the caret package pipeline. Package: r-cran-basepenguins Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-basepenguins_0.1.0-1.ca2004.1_all.deb Size: 50904 MD5sum: e89cae846f05e7e680592e7208b428cf SHA1: c943ae7a3487f479f70b3c4b6b1e09289d38a4f7 SHA256: 188f121a2a743d1c8741e98ac0db125deffc41dccad83f854e6d7af1e9b92275 SHA512: efc2b649fa59ee0002b3f67b9ea293399f5f169ae81fbe8d7283a7bd90286ab61b8a0e4b11dd648bea9f344df188b83593c4fced0f5ba9d9aea532255752ac48 Homepage: https://cran.r-project.org/package=basepenguins Description: CRAN Package 'basepenguins' (Convert Files that Use 'palmerpenguins' to Work with 'datasets') From 'R' 4.5.0, the 'datasets' package includes the penguins and penguins_raw data sets popularised in the 'palmerpenguins' package. 'basepenguins' takes files that use the 'palmerpenguins' package and converts them to work with the versions from 'datasets' ('R' >= 4.5.0). It does this by removing calls to library(palmerpenguins) and making the necessary changes to column names. Additionally, it provides helper functions to define new files paths for saving the output and a directory of example files to experiment with. Package: r-cran-baseq Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-baseq_0.1.4-1.ca2004.1_all.deb Size: 96248 MD5sum: 08ec322987416cca6ad0767c0a1e2e18 SHA1: b583106c57c1b8fefe7d5b776ab17c5f4ae12b92 SHA256: d043c256af0cfb5f77b7c6d91b2375119887acb66a98697a6861da4f724e1f06 SHA512: 2cdf613a401e578da0510f7d087129f16b4d137a976c42a0da370f449572a477ed4fc9b912a160ce085881db2ca96ce6896b522939a283bd6d3aaebe8ea36611 Homepage: https://cran.r-project.org/package=baseq Description: CRAN Package 'baseq' (Basic Sequence Processing Tool for Biological Data) Primarily created as an easy and understanding way to do basic sequences surrounding the central dogma of molecular biology. 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These set operations are available for both classical sets and fuzzy sets. Import sets from several formats or from other several data structures. 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Seeds germinate by following accumulation of thermal time in degree days/hours, quantified by multiplying the time of germination with excess of base temperature required by each seed for its germination, which follows log-normal distribution. The theoretical germination course can be obtained by regressing the rate of germination at various fractions against temperature (Garcia et al., 1982), where the fraction-wise regression lines intersect the temperature axis at base temperature and the methodology of determining optimum base temperature has been described by Ellis et al. (1987). This package helps to find the base temperature of seed germination using algorithms of Garcia et al. (1982) and Ellis et al. (1982) . 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Package: r-cran-basinet Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 449 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-igraph, r-bioc-biostrings, r-cran-rweka, r-cran-randomforest, r-cran-rmcfs, r-cran-rjava Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-basinet_0.0.5-1.ca2004.1_all.deb Size: 260452 MD5sum: 25327ab37d87e557b966cff427e725af SHA1: 5411ed3d5b0f8e32bd00b58ccae8a974b55d780c SHA256: 0a4128dd31551767f711e0fef752ce2c9fdb1f063d43eaa70c92a553380edd19 SHA512: b975336663b8846af8e2cb46977e49b5de4adff8b368b77fab5110306e8b8b10671b02cb3f29c3394ab766e26a1f4d21a8fae63b6e04ebae8d90e03dd4febb8f Homepage: https://cran.r-project.org/package=BASiNET Description: CRAN Package 'BASiNET' (Classification of RNA Sequences using Complex Network Theory) It makes the creation of networks from sequences of RNA, with this is done the abstraction of characteristics of these networks with a methodology of threshold for the purpose of making a classification between the classes of the sequences. There are four data present in the 'BASiNET' package, "sequences", "sequences2", "sequences-predict" and "sequences2-predict" with 11, 10, 11 and 11 sequences respectively. These sequences were taken from the data set used in the article (LI, Aimin; ZHANG, Junying; ZHOU, Zhongyin, 2014) , these sequences are used to run examples. The BASiNET was published on Nucleic Acids Research, (ITO, Eric; KATAHIRA, Isaque; VICENTE, Fábio; PEREIRA, Felipe; LOPES, Fabrício, 2018) . Package: r-cran-basinetentropy Architecture: all Version: 0.99.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-igraph, r-bioc-biostrings, r-cran-randomforest Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-basinetentropy_0.99.6-1.ca2004.1_all.deb Size: 151724 MD5sum: f3a33d7af510cb3a0582b7c11919c3f4 SHA1: 4b3854e6f5604d973166fc8cf4f339f94111e185 SHA256: 638f3c7048318056aae5327266cc8ae24b3bb7ba0617aa7243c8735cb897021b SHA512: 082744f749eeb1aab104dbc6106f54c5ac57cd7a0e558fdc22bcd757943e9198b1ced5a508d28a6c3dc02f219936d7265d01cf3c9aa98d09e8a3e7df96cec981 Homepage: https://cran.r-project.org/package=BASiNETEntropy Description: CRAN Package 'BASiNETEntropy' (Classification of RNA Sequences using Complex Network andInformation Theory) It makes the creation of networks from sequences of RNA, with this is done the abstraction of characteristics of these networks with a methodology of maximum entropy for the purpose of making a classification between the classes of the sequences. There are two data present in the 'BASiNET' package, "mRNA", and "ncRNA" with 10 sequences. These sequences were taken from the data set used in the article (LI, Aimin; ZHANG, Junying; ZHOU, Zhongyin, 2014) , these sequences are used to run examples. Package: r-cran-baskepro Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-baskepro_1.1.1-1.ca2004.1_all.deb Size: 21792 MD5sum: 931fe154056854272031ac468217c70f SHA1: ad3162c41aecc3965ddd9bcb08928a56bcb21135 SHA256: 776edeb30754de0d66f15e49dfaeb19b5f93b33f22ce30762ad24e8bca395c06 SHA512: a4a02cf7b064d588511ca86adffc2e98cfdea512d0ee3df32c9f684b0c04802f7a6f8e13b021af4dd455f43494216cf7eac93ba7e12ae68a7f32fba5283d11af Homepage: https://cran.r-project.org/package=BaSkePro Description: CRAN Package 'BaSkePro' (Bayesian Model to Archaeological Faunal Skeletal Profiles) Tool to perform Bayesian inference of carcass processing/transport strategy and bone attrition from archaeofaunal skeletal profiles characterized by percentages of MAU (Minimum Anatomical Units). The approach is based on a generative model for skeletal profiles that replicates the two phases of formation of any faunal assemblage: initial accumulation as a function of human transport strategies and subsequent attrition.Two parameters define this model: 1) the transport preference (alpha), which can take any value between - 1 (mostly axial contribution) and 1 (mostly appendicular contribution) following strategies constructed as a function of butchering efficiency of different anatomical elements and the results of ethnographic studies, and 2) degree of attrition (beta), which can vary between 0 (no attrition) and 10 (maximum attrition) and relates the survivorship of bone elements to their maximum bone density. Starting from uniform prior probability distribution functions of alpha and beta, a Monte Carlo Markov Chain sampling based on a random walk Metropolis-Hasting algorithm is adopted to derive the posterior probability distribution functions, which are then available for interpretation. During this process, the likelihood of obtaining the observed percentages of MAU given a pair of parameter values is estimated by the inverse of the Chi2 statistic, multiplied by the proportion of elements within a 1 percent of the observed value. See Ana B. Marin-Arroyo, David Ocio (2018).. Package: r-cran-basket Architecture: all Version: 0.10.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1236 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gensa, r-cran-foreach, r-cran-ggplot2, r-cran-tibble, r-cran-tidyr, r-cran-dplyr, r-cran-igraph, r-cran-gridextra, r-cran-itertools, r-cran-crayon, r-cran-cli, r-cran-rcolorbrewer, r-cran-tidygraph, r-cran-ggraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-basket_0.10.11-1.ca2004.1_all.deb Size: 558700 MD5sum: 17dbba6d388cd04a36df322ee88f1be1 SHA1: 3c7f078acf297318dd7f0007d06aa82b81276668 SHA256: c7f28fc69133b617f64c427405255b13a723711cd9de84174e5f7c95db9b61c9 SHA512: f7b4892d9ce9be598d861009e2cac90ad1b3c8b031e38cfe4eaf2497e3c2a34f46986a66b9f5665e989a8c58edc6bb1a2a0b968ba0378b11552996d37557b273 Homepage: https://cran.r-project.org/package=basket Description: CRAN Package 'basket' (Basket Trial Analysis) Implementation of multisource exchangeability models for Bayesian analyses of prespecified subgroups arising in the context of basket trial design and monitoring. The R 'basket' package facilitates implementation of the binary, symmetric multi-source exchangeability model (MEM) with posterior inference arising from both exact computation and Markov chain Monte Carlo sampling. Analysis output includes full posterior samples as well as posterior probabilities, highest posterior density (HPD) interval boundaries, effective sample sizes (ESS), mean and median estimations, posterior exchangeability probability matrices, and maximum a posteriori MEMs. In addition to providing "basketwise" analyses, the package includes similar calculations for "clusterwise" analyses for which subgroups are combined into meta-baskets, or clusters, using graphical clustering algorithms that treat the posterior exchangeability probabilities as edge weights. In addition plotting tools are provided to visualize basket and cluster densities as well as their exchangeability. References include Hyman, D.M., Puzanov, I., Subbiah, V., Faris, J.E., Chau, I., Blay, J.Y., Wolf, J., Raje, N.S., Diamond, E.L., Hollebecque, A. and Gervais, R (2015) ; Hobbs, B.P. and Landin, R. (2018) ; Hobbs, B.P., Kane, M.J., Hong, D.S. and Landin, R. (2018) ; and Kaizer, A.M., Koopmeiners, J.S. and Hobbs, B.P. (2017) . Package: r-cran-basketballanalyzer Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2940 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-plyr, r-cran-dplyr, r-cran-tidyr, r-cran-rlang, r-cran-magrittr, r-cran-ggrepel, r-cran-gridextra, r-cran-mass, r-cran-directlabels, r-cran-corrplot, r-cran-pbsmapping, r-cran-sp, r-cran-operators, r-cran-stringr, r-cran-ggally, r-cran-statnet.common, r-cran-readr, r-cran-gtools, r-cran-data.table, r-cran-mathjaxr Suggests: r-cran-dendextend, r-cran-ggnetwork, r-cran-ggplotify, r-cran-network Filename: pool/dists/focal/main/r-cran-basketballanalyzer_0.8.0-1.ca2004.1_all.deb Size: 2868636 MD5sum: 3ea0761729b12e8d0bf084ef5f43a7d8 SHA1: 4da38e55218aad885c8c4305f930b9a907d7537f SHA256: 44e37dfe01438b06c81c624fc7d9713f8090d44b28ca470a5f42eccaecaa2c70 SHA512: 233ca00ad9a007f58db6bd9555445fa99d7ed0a03040bba458459b0354746972842a24bdc3a197e38f5bec36b89808c41e7485a1b6acb8ad394ff8d8dbce1292 Homepage: https://cran.r-project.org/package=BasketballAnalyzeR Description: CRAN Package 'BasketballAnalyzeR' (Analysis and Visualization of Basketball Data) Contains data and code to accompany the book P. Zuccolotto and M. Manisera (2020) Basketball Data Science. Applications with R. CRC Press. ISBN 9781138600799. For more details, see the page bdsports.unibs.it/basketballanalyzer/. Package: r-cran-baskettrial Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-baskettrial_0.1.0-1.ca2004.1_all.deb Size: 46468 MD5sum: c8146a05de2a00b5cdca95b9e5114e04 SHA1: 13bdfddd2860d8310296723f84e2807c612e55b2 SHA256: 9d5a5772289080cb4daa5134820929688b2eb7f547eeb04b1b6c466efa378d3c SHA512: 719fef3186b0bf82dbfa34335a10647b38b191641fc6b9c77955486a4021626c0321b20c01a2435b7a836d1f04898133abbfa9b8307fec5220bd284ccaae3820 Homepage: https://cran.r-project.org/package=BasketTrial Description: CRAN Package 'BasketTrial' (Bayesian Basket Trial Design and Analysis) Provides tools for Bayesian basket trial design and analysis using a novel three-component local power prior framework with global borrowing control, pairwise similarity assessment and a borrowing threshold. Supports simulation-based evaluation of operating characteristics and comparison with other methods. Applicable to both equal and unequal sample size settings in early-phase oncology trials. For more details see Zhou et al. (2023) . Package: r-cran-basksim Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 234 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-arrangements, r-cran-bhmbasket, r-cran-bmabasket, r-cran-dofuture, r-cran-extradistr, r-cran-foreach, r-cran-hdinterval, r-cran-progressr Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-basksim_1.0.0-1.ca2004.1_all.deb Size: 196744 MD5sum: 766adf685162122c65f9d68b7bc39606 SHA1: 9d8b6dfafadb9052d95d579b6c4bea3c186ad8b5 SHA256: 532c35090368a331e831e51f336c580ca12a5b4242822a5df1943589cb21080d SHA512: 4954c8e830ee337f272e190217f841144db66082eaa55e7b5fc256127de68834f61e188079380740306f4e121d21653ebde16fd21a70c634778a38cc35749c4f Homepage: https://cran.r-project.org/package=basksim Description: CRAN Package 'basksim' (Simulation-Based Calculation of Basket Trial OperatingCharacteristics) Provides a unified syntax for the simulation-based comparison of different single-stage basket trial designs with a binary endpoint and equal sample sizes in all baskets. Methods include the designs by Baumann et al. (2024) , Fujikawa et al. (2020) , Berry et al. (2020) , Neuenschwander et al. (2016) and Psioda et al. (2021) . For the latter three designs, the functions are mostly wrappers for functions provided by the packages 'bhmbasket' and 'bmabasket'. Package: r-cran-bass Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1782 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-truncdist, r-cran-hypergeo Suggests: r-cran-r.rsp, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bass_1.3.1-1.ca2004.1_all.deb Size: 1738644 MD5sum: ff563b1023d08a3aef17f2679ef7f088 SHA1: 102e13c7732fe8709a1b4fe5648fb73cbca25464 SHA256: 8bcf846b8ad0662e2dda786f268b3356c31a8f8c6e4085e278872d645aace723 SHA512: 248dcb66aee50f114969603b963c7b4559f968a95534b7777f9b797619d76ac66f40b559412c8a6f3095d29b4594601bfce9114726564b160dc4480fd86c6791 Homepage: https://cran.r-project.org/package=BASS Description: CRAN Package 'BASS' (Bayesian Adaptive Spline Surfaces) Bayesian fitting and sensitivity analysis methods for adaptive spline surfaces described in . Built to handle continuous and categorical inputs as well as functional or scalar output. An extension of the methodology in Denison, Mallick and Smith (1998) . 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Functions available are related to friendly web scraping, data management and visualization. Data were obtained from , and , following the instructions of their respectives robots.txt files, when available. Box score data are available for the three leagues. Play-by-play data are also available for the Spanish league. Methods for analysis include a population pyramid, 2D plots, circular plots of players' percentiles, plots of players' monthly/yearly stats, team heatmaps, team shooting plots, team four factors plots, cross-tables with the results of regular season games, maps of nationalities, combinations of lineups, possessions-related variables, timeouts, performance by periods, personal fouls and offensive rebounds. Please see Vinue (2020) and Vinue (2024) . 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Please note that models implemented in this package are described in Roman-Palacios et al. (2021) . 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For details about the Bayesian ANOVA based on Gaussian mixtures, see Kelter (2019) . Package: r-cran-bayesarimax Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-forecast Filename: pool/dists/focal/main/r-cran-bayesarimax_0.1.1-1.ca2004.1_all.deb Size: 15848 MD5sum: 2d78f559c336f447dc4e7cd7cc7d0552 SHA1: 3757bb22810c88a05a12d28a90cc167f8b1a0415 SHA256: 003e3d1c115ec53600686399cbf12c8d5875316094b72c15f77ced71dfe77b02 SHA512: 1058870e35a2fc01a7b69e17a03bc62c4c8cf33bbf08f1a67d962d29126775b37e4eeb6ef452f4cc676aff6198f0f25f5e58ad589ad103408250d7261d4ca4b2 Homepage: https://cran.r-project.org/package=BayesARIMAX Description: CRAN Package 'BayesARIMAX' (Bayesian Estimation of ARIMAX Model) The Autoregressive Integrated Moving Average (ARIMA) model is very popular univariate time series model. 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The algorithm is described in da Cruz, A. C. and de Souza, C. P. E "A Bayesian Approach for Clustering Constant-wise Change-point Data" . Package: r-cran-bayescr Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 128 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rootsolve, r-cran-truncdist, r-cran-mvtnorm, r-cran-mnormt Filename: pool/dists/focal/main/r-cran-bayescr_2.1-1.ca2004.1_all.deb Size: 97424 MD5sum: 0b06506b8e10f2c1745a818972326c1a SHA1: a8a5fde3a2b05f4133091626550dc918ced4b245 SHA256: 5e1c611ef4046c0c236e3aee3578b93a67f071adb6e7cafef1f887b599d12a13 SHA512: b5cafb5c1c6862b7451559f5ba22532823d14872100529d8fa943086adee2766d491cb578880adf75dcd024259076da104280c659bdc4013c48c8804c0a9cc53 Homepage: https://cran.r-project.org/package=BayesCR Description: CRAN Package 'BayesCR' (Bayesian Analysis of Censored Regression Models Under ScaleMixture of Skew Normal Distributions) Propose a parametric fit for censored linear regression models based on SMSN distributions, from a Bayesian perspective. Also, generates SMSN random variables. Package: r-cran-bayesct Architecture: all Version: 0.99.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 639 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bayesdp, r-cran-dplyr, r-cran-purrr, r-cran-survival, r-cran-magrittr Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-pkgdown, r-cran-devtools, r-cran-knitr Filename: pool/dists/focal/main/r-cran-bayesct_0.99.3-1.ca2004.1_all.deb Size: 262880 MD5sum: 65dc34b1bc262583e44ae0ed60359746 SHA1: c85d5e07e577f240c7688101b7bf7faaa17049dc SHA256: cf6cdd63385cf05d6edda663e009e1f1d52af32b03c4dded1fe9b233a6fc8e57 SHA512: 2ed2e9149e1031b6f0525a2de3ca9df56352660e5a01e47d74203804f9738ea9dd12ad48460bb8c3c03cac6f4fd80f32e82082b3b4808c8726f5f86bfcba3bfe Homepage: https://cran.r-project.org/package=bayesCT Description: CRAN Package 'bayesCT' (Simulation and Analysis of Adaptive Bayesian Clinical Trials) Simulation and analysis of Bayesian adaptive clinical trials for binomial, Gaussian, and time-to-event data types, incorporates historical data and allows early stopping for futility or early success. The package uses novel and efficient Monte Carlo methods for estimating Bayesian posterior probabilities, evaluation of loss to follow up, and imputation of incomplete data. The package has the functionality for dynamically incorporating historical data into the analysis via the power prior or non-informative priors. Package: r-cran-bayesctdesign Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 344 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-eha, r-cran-ggplot2, r-cran-survival, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-bayesctdesign_0.6.1-1.ca2004.1_all.deb Size: 305140 MD5sum: 534357f79953806c5f21a843c2ea0c00 SHA1: b51a476fba3b7a83baf70402e712ff3702803636 SHA256: cd8ccb476af05769cb451ff85619e8ee43651fea8463e95a394216c0bc1abbd1 SHA512: 01d9dd33e5a4425e12322a70446274df3c18a0b715b0d096ba30dfad6430d9999929038b5fc92a03068408d3e26998df5bd5a4624d4592feaecade2739d43eca Homepage: https://cran.r-project.org/package=BayesCTDesign Description: CRAN Package 'BayesCTDesign' (Two Arm Bayesian Clinical Trial Design with and WithoutHistorical Control Data) A set of functions to help clinical trial researchers calculate power and sample size for two-arm Bayesian randomized clinical trials that do or do not incorporate historical control data. At some point during the design process, a clinical trial researcher who is designing a basic two-arm Bayesian randomized clinical trial needs to make decisions about power and sample size within the context of hypothesized treatment effects. Through simulation, the simple_sim() function will estimate power and other user specified clinical trial characteristics at user specified sample sizes given user defined scenarios about treatment effect,control group characteristics, and outcome. If the clinical trial researcher has access to historical control data, then the researcher can design a two-arm Bayesian randomized clinical trial that incorporates the historical data. In such a case, the researcher needs to work through the potential consequences of historical and randomized control differences on trial characteristics, in addition to working through issues regarding power in the context of sample size, treatment effect size, and outcome. If a researcher designs a clinical trial that will incorporate historical control data, the researcher needs the randomized controls to be from the same population as the historical controls. What if this is not the case when the designed trial is implemented? During the design phase, the researcher needs to investigate the negative effects of possible historic/randomized control differences on power, type one error, and other trial characteristics. Using this information, the researcher should design the trial to mitigate these negative effects. Through simulation, the historic_sim() function will estimate power and other user specified clinical trial characteristics at user specified sample sizes given user defined scenarios about historical and randomized control differences as well as treatment effects and outcomes. The results from historic_sim() and simple_sim() can be printed with print_table() and graphed with plot_table() methods. Outcomes considered are Gaussian, Poisson, Bernoulli, Lognormal, Weibull, and Piecewise Exponential. The methods are described in Eggleston et al. (2021) . Package: r-cran-bayescvi Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 488 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-e1071, r-cran-mclust, r-cran-ggplot2, r-cran-universalcvi Filename: pool/dists/focal/main/r-cran-bayescvi_1.0.1-1.ca2004.1_all.deb Size: 444692 MD5sum: 7a4592f954a37c7921664848a034ce61 SHA1: cece779dff07f23e1f58e8f3b08701ee1bad54d6 SHA256: 18a2cf21970fe0a7bb0e69b3981de9371dbb2457b87b37c536436002618254a5 SHA512: 7042b4b1138d3a20dcccef0ff4728c63a97820abc597c752a29c352ecd9a7ebdec8661ff06c0dccc2df6290f8b9720a6f094cd217ac6d6404e9cbc983fb7aea4 Homepage: https://cran.r-project.org/package=BayesCVI Description: CRAN Package 'BayesCVI' (Bayesian Cluster Validity Index) Algorithms for computing and generating plots with and without error bars for Bayesian cluster validity index (BCVI) (O. Preedasawakul, and N. Wiroonsri, A Bayesian Cluster Validity Index, Computational Statistics & Data Analysis, 202, 108053, 2025. ) based on several underlying cluster validity indexes (CVIs) including Calinski-Harabasz, Chou-Su-Lai, Davies-Bouldin, Dunn, Pakhira-Bandyopadhyay-Maulik, Point biserial correlation, the score function, Starczewski, and Wiroonsri indices for hard clustering, and Correlation Cluster Validity, the generalized C, HF, KWON, KWON2, Modified Pakhira-Bandyopadhyay-Maulik, Pakhira-Bandyopadhyay-Maulik, Tang, Wiroonsri-Preedasawakul, Wu-Li, and Xie-Beni indices for soft clustering. The package is compatible with K-means, fuzzy C means, EM clustering, and hierarchical clustering (single, average, and complete linkage). Though BCVI is compatible with any underlying existing CVIs, we recommend users to use either WI or WP as the underlying CVI. Package: r-cran-bayesda Architecture: all Version: 2012.04-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-bayesda_2012.04-1-1.ca2004.1_all.deb Size: 66656 MD5sum: fe0bec477a73c10dba40312753207b25 SHA1: 7d191d0212f57248af6de955c7451aafa4a0e049 SHA256: bf8fda88b75653485743908191ec0c9e72191619324a720fd7211f2fedd6dd19 SHA512: 2c6d2ec55b36d84c7a85ced6bbab624d4c9179a9c2ab08a4df2ab68035c2c48ca51bc4aac48e41471abbf8e8897c04bb21364da08355f45861fc71b95eafc555 Homepage: https://cran.r-project.org/package=BayesDA Description: CRAN Package 'BayesDA' (Functions and Datasets for the book "Bayesian Data Analysis") Functions for Bayesian Data Analysis, with datasets from the book "Bayesian data Analysis (second edition)" by Gelman, Carlin, Stern and Rubin. Not all datasets yet, hopefully completed soon. Package: r-cran-bayesdesign Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bayesdesign_0.1.1-1.ca2004.1_all.deb Size: 35204 MD5sum: b89d46f7c28bc33d8f78b8cdff66753a SHA1: fa8e3be03144103416c566be40b661a68557e886 SHA256: a0c62788d4ca89c03ad8e3cf3a5f8937117b3b991912f4b71ca6c418ce847b10 SHA512: 88dbeb30c1322dfbaffd5188bd4a12b56dd60dcd76e8c2442482b55cb909afd40d08b68495ea37b94b6eb84a079713a9b242d44e07fe8947fcf2c17c6d67c42d Homepage: https://cran.r-project.org/package=BayesDesign Description: CRAN Package 'BayesDesign' (Bayesian Single-Arm Design with Survival Endpoints) The proposed event-driven approach for Bayesian two-stage single-arm phase II trial design is a novel clinical trial design and can be regarded as an extension of the Simon’s two-stage design with the time-to-event endpoint. This design is motivated by cancer clinical trials with immunotherapy and molecularly targeted therapy, in which time-to-event endpoint is often a desired endpoint. Package: r-cran-bayesdip Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bayesdip_0.1.1-1.ca2004.1_all.deb Size: 124548 MD5sum: 04860955606dca54fdbcae784e936b4b SHA1: 60e4981388d7cb3e0295e9f5f3b4c45d6781f3ee SHA256: d671e0eb0e23e141ef422758ef66d579a2b1888291168b95ef8eb0e57b8093ad SHA512: 731562672b377172ea70d4bff0805e035cb69eee682a7216e96b28775f9ee34de63d7d3f43421ed42b551c30a46ad7d9ff477e69a2a43e6619638ad0fbbe4ea5 Homepage: https://cran.r-project.org/package=BayesDIP Description: CRAN Package 'BayesDIP' (Bayesian Decreasingly Informative Priors for Early TerminationPhase II Trials) Provide early termination phase II trial designs with a decreasingly informative prior (DIP) or a regular Bayesian prior chosen by the user. The program can determine the minimum planned sample size necessary to achieve the user-specified admissible designs. The program can also perform power and expected sample size calculations for the tests in early termination Phase II trials. See Wang C and Sabo RT (2022) ; Sabo RT (2014) . Package: r-cran-bayesdissolution Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-coda, r-cran-geor, r-cran-mcmcpack, r-cran-mnormt, r-cran-pscl, r-cran-shiny Suggests: r-cran-ggplot2, r-cran-scales Filename: pool/dists/focal/main/r-cran-bayesdissolution_0.2.1-1.ca2004.1_all.deb Size: 106360 MD5sum: d8a16184a964656559384205b4833ee7 SHA1: 051c998ae82c5182f08edaaa472fbb0f70bad82f SHA256: 4964d1ce340f694a8508dcea6c322a62a8e23abe8c91ad263599e0ac525fba77 SHA512: ed041db213a4f932ce6058ea420bef6e23a6d4b69b46c81bea75535b7a0364856d2f4300e1c149b25b787c7f518208539780febc4eec9e78a2e689bb2ace0e55 Homepage: https://cran.r-project.org/package=BayesDissolution Description: CRAN Package 'BayesDissolution' (Bayesian Models for Dissolution Testing) Fits Bayesian models (amongst others) to dissolution data sets that can be used for dissolution testing. The package was originally constructed to include only the Bayesian models outlined in Pourmohamad et al. (2022) . However, additional Bayesian and non-Bayesian models (based on bootstrapping and generalized pivotal quanties) have also been added. More models may be added over time. Package: r-cran-bayesdistreg Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-sandwich Filename: pool/dists/focal/main/r-cran-bayesdistreg_0.1.0-1.ca2004.1_all.deb Size: 85012 MD5sum: 9e6cfd00cbb50f45f23bb74480b15ff6 SHA1: ecfb03edfb7dbd225e5c2c560035e51f10d8d266 SHA256: a265b2c9b058b92caf505a89aa791e43140d92ae1319eb1e48b3311a5c025f33 SHA512: bd0949fe1b95322dc29a3ae501c58cc64d0efe4959837cfacfc61bafdbd9b5a58ef262a7a3c3dc5bae5b88a937694d4a6284c4942616734d3815bb759d4ce4db Homepage: https://cran.r-project.org/package=bayesdistreg Description: CRAN Package 'bayesdistreg' (Bayesian Distribution Regression) Implements Bayesian Distribution Regression methods. This package contains functions for three estimators (non-asymptotic, semi-asymptotic and asymptotic) and related routines for Bayesian Distribution Regression in Huang and Tsyawo (2018) which is also the recommended reference to cite for this package. The functions can be grouped into three (3) categories. The first computes the logit likelihood function and posterior densities under uniform and normal priors. The second contains Independence and Random Walk Metropolis-Hastings Markov Chain Monte Carlo (MCMC) algorithms as functions and the third category of functions are useful for semi-asymptotic and asymptotic Bayesian distribution regression inference. Package: r-cran-bayesertools Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1495 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-ggplot2, r-cran-gt, r-cran-cli, r-cran-rlang, r-cran-rstanarm, r-cran-rstanemax, r-cran-loo, r-cran-tidybayes, r-cran-posterior Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-rstan, r-cran-htmltools, r-cran-digest, r-cran-ggforce, r-cran-xgxr, r-cran-scales, r-cran-readr, r-cran-bayestestr, r-cran-patchwork, r-cran-projpred, r-cran-rsample, r-cran-yardstick Filename: pool/dists/focal/main/r-cran-bayesertools_0.2.3-1.ca2004.1_all.deb Size: 1201780 MD5sum: 816b020c284960a7d1b470c57c996302 SHA1: e73b6569f1f838a37e462104e73b33e4929e219e SHA256: b9ce5ba3f51f5e211fd1116f6a82e11a53abcc81cb92d288d57c3be2876f8ff7 SHA512: 1d862351159f42c9c25cddd3065966eccd723d585fb084c9c4f45551d532bc57a032a7c43ee5b3df28d870065af094b432de589291a4a47e5894bb3bfaab6de7 Homepage: https://cran.r-project.org/package=BayesERtools Description: CRAN Package 'BayesERtools' (Bayesian Exposure-Response Analysis Tools) Suite of tools that facilitate exposure-response analysis using Bayesian methods. The package provides a streamlined workflow for fitting types of models that are commonly used in exposure-response analysis - linear and Emax for continuous endpoints, logistic linear and logistic Emax for binary endpoints, as well as performing simulation and visualization. Learn more about the workflow at . Package: r-cran-bayesestdft Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 950 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-numderiv, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-bayesestdft_1.0.0-1.ca2004.1_all.deb Size: 875896 MD5sum: 0a2a9b63128da1aa2aedae20c4eaefd8 SHA1: c24192a24baa813bae0843264cb78d659d8bb6b3 SHA256: 873d1144241fd0170bf4b8ba1a9cd524d7dc110617cec12b29c2703263760ccd SHA512: 90898b2fcb3379cb5b6f64bbeb777647380583822528572fbc58668a884a5832db8b7bafabd85940f25d8adb6438d09a961eb51a7f66abc00aad0537f88b2430 Homepage: https://cran.r-project.org/package=bayesestdft Description: CRAN Package 'bayesestdft' (Estimating the Degrees of Freedom of the Student'st-Distribution under a Bayesian Framework) A Bayesian framework to estimate the Student's t-distribution's degrees of freedom is developed. Markov Chain Monte Carlo sampling routines are developed as in to sample from the posterior distribution of the degrees of freedom. A random walk Metropolis algorithm is used for sampling when Jeffrey's and Gamma priors are endowed upon the degrees of freedom. In addition, the Metropolis-adjusted Langevin algorithm for sampling is used under the Jeffrey's prior specification. The Log-normal prior over the degrees of freedom is posed as a viable choice with comparable performance in simulations and real-data application, against other prior choices, where an Elliptical Slice Sampler is used to sample from the concerned posterior. Package: r-cran-bayesfbhborrow Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 288 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-survival, r-cran-invgamma, r-cran-mvtnorm, r-cran-checkmate, r-cran-magrittr, r-cran-ggplot2 Suggests: r-cran-tibble, r-cran-readxl, r-cran-testthat, r-cran-rmarkdown, r-cran-ggfortify, r-cran-condsurv Filename: pool/dists/focal/main/r-cran-bayesfbhborrow_2.0.2-1.ca2004.1_all.deb Size: 248044 MD5sum: 326a43ad3ccf6e55f7effcbdd2ca4444 SHA1: 8f5787c84c1f294319272669521b334203fe96d7 SHA256: 3dc409c697edc9af5df3f168e792576c46b602cf2372c8dcd26e8c8517504427 SHA512: 76a9990e5cce8414f4bc5a8b9646b1b909e281cd82bbd62c678f0badd8449c7415298bdc1843c1a68736c767f3af04f1ce2c128130e9f594e3d7071b78604335 Homepage: https://cran.r-project.org/package=BayesFBHborrow Description: CRAN Package 'BayesFBHborrow' (Bayesian Dynamic Borrowing with Flexible Baseline HazardFunction) Allows Bayesian borrowing from a historical dataset for time-to- event data. A flexible baseline hazard function is achieved via a piecewise exponential likelihood with time varying split points and smoothing prior on the historic baseline hazards. The method is described in Scott and Lewin (2024) , and the software paper is in Axillus et al. (2024) . Package: r-cran-bayesfluxr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1175 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-juliacall Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesfluxr_0.1.3-1.ca2004.1_all.deb Size: 1062760 MD5sum: 71053717f6fcc066fc6dcdc12fe659d4 SHA1: 3a817ed2cec2e32205fa4cad5819643b9ea8f647 SHA256: 0bf0736dbe4fcea7f6a990e1720731ee88c24b297db59ed60039535888e217df SHA512: f57a960a931f3e0b9b50eeda53610a3567ba0f4d0d37eee0123a21eda6cf0c79a48e412b08719222506ced58b906d17a0accdfb53316fad3e928d0efe635b081 Homepage: https://cran.r-project.org/package=BayesFluxR Description: CRAN Package 'BayesFluxR' (Implementation of Bayesian Neural Networks) Implementation of 'BayesFlux.jl' for R; It extends the famous 'Flux.jl' machine learning library to Bayesian Neural Networks. The goal is not to have the fastest production ready library, but rather to allow more people to be able to use and research on Bayesian Neural Networks. Package: r-cran-bayesgesm Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 204 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gigrvg, r-cran-normalp, r-cran-formula Suggests: r-cran-ssym Filename: pool/dists/focal/main/r-cran-bayesgesm_1.4-1.ca2004.1_all.deb Size: 173592 MD5sum: 4ca6bc94100ad7fe8b51fd36306597a8 SHA1: 164b3878892d85f844b32c1c490c6d814101a042 SHA256: 97e0f165eb661b15b8732757fd06f0fb7538cbcfc579aa52331385ae5afb6ae3 SHA512: 72518476676048e14bd2b1c0840e5c7ce28db9be7599f67a03d63d26267e2169f39cca3e88debb25070f3cb3634914220afc86c1f8cfdf20e01c30fce6397216 Homepage: https://cran.r-project.org/package=BayesGESM Description: CRAN Package 'BayesGESM' (Bayesian Analysis of Generalized Elliptical Semi-ParametricModels and Flexible Measurement Error Models) Set of tools to perform the statistical inference based on the Bayesian approach for regression models under the assumption that independent additive errors follow normal, Student-t, slash, contaminated normal, Laplace or symmetric hyperbolic distributions, i.e., additive errors follow a scale mixtures of normal distributions. The regression models considered in this package are: (i) Generalized elliptical semi-parametric models, where both location and dispersion parameters of the response variable distribution include non-parametric additive components described by using B-splines; and (ii) Flexible measurement error models under the presence of homoscedastic and heteroscedastic random errors, which admit explanatory variables with and without measurement additive errors as well as the presence of a non-parametric components approximated by using B-splines. Package: r-cran-bayesgof Architecture: all Version: 5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 443 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-orthopolynom, r-cran-vgam, r-cran-bolstad2, r-cran-nleqslv Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bayesgof_5.2-1.ca2004.1_all.deb Size: 305272 MD5sum: 604ec534fa42d0d0920ec6999dc0a7ea SHA1: 80a322c05d3909074f0204774dcb1e75225c783a SHA256: 93382ce87923245656e4fbc542a9e7b53f20a86b321b2bb073c79ee7717c00e7 SHA512: 515fbaa4e5d291cfc81a2e5c29997d9f6fdb77819c81793ee87c2e3a91737e6b6bdae1f4e14c02c936201d8a06f0dc63eb7b13e04778a26fe8e03443c471b94b Homepage: https://cran.r-project.org/package=BayesGOF Description: CRAN Package 'BayesGOF' (Bayesian Modeling via Frequentist Goodness-of-Fit) A Bayesian data modeling scheme that performs four interconnected tasks: (i) characterizes the uncertainty of the elicited parametric prior; (ii) provides exploratory diagnostic for checking prior-data conflict; (iii) computes the final statistical prior density estimate; and (iv) executes macro- and micro-inference. Primary reference is Mukhopadhyay, S. and Fletcher, D. 2018 paper "Generalized Empirical Bayes via Frequentist Goodness of Fit" (). 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In this package, we provide a novel Bayesian framework for analyzing linear asset pricing models: simple, robust, and applicable to high-dimensional problems. For a stand-alone model, we provide functions including BayesianFM() and BayesianSDF() to deliver reliable price of risk estimates for both tradable and nontradable factors. For competing factors and possibly nonnested models, we provide functions including continuous_ss_sdf(), continuous_ss_sdf_v2(), and dirac_ss_sdf_pvalue() to analyze high-dimensional models. If you use this package, please cite the paper. We are thankful to Yunan Ding and Jingtong Zhang for their research assistance. Any errors or omissions are the responsibility of the authors. 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Package: r-cran-bayesmeanscale Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1094 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayestestr, r-cran-data.table, r-cran-magrittr, r-cran-posterior Suggests: r-cran-flextable, r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-rstanarm, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesmeanscale_0.2.1-1.ca2004.1_all.deb Size: 383768 MD5sum: 2505a86d7bb9a07d4f830a9943b8d3bd SHA1: 9e567ad8e5c1053bd1c94a291db12d71bffc5877 SHA256: 92eb2c12d6d798d6160c496a9b9e8e418088fd0f29f345bcbd121db919259a7f SHA512: 4118f8f627d5c3d6a66f1de2e186a1337be32961fc3ab4792971c5151915b60abbfd05718fca6ec657a6ef5b8cda8e81cc2691c1cfcab691a22248459e7409bb Homepage: https://cran.r-project.org/package=bayesMeanScale Description: CRAN Package 'bayesMeanScale' (Bayesian Post-Estimation on the Mean Scale) Computes Bayesian posterior distributions of predictions, marginal effects, and differences of marginal effects for various generalized linear models. 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Package: r-cran-bayesmeta Architecture: all Version: 3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4346 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-forestplot, r-cran-metafor, r-cran-mvtnorm, r-cran-numderiv Suggests: r-cran-compute.es, r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-bayesmeta_3.4-1.ca2004.1_all.deb Size: 4239820 MD5sum: 4bf177b6f9dcae803c9fc1ea42644900 SHA1: 6c9db98f366c0bcdce42f3485ab3b027f2aefac9 SHA256: 70d52998232a994c83f607835062f90d883e51cb1283df3e26db340961476560 SHA512: e99595d9a9b30be5bb7f247ed50af97db52e8fd29a9155d010fa3068cdde6d829286b4582fe701071fc56e16d24a3f74433e1e8f8f82427a0103702f0c1ea2d8 Homepage: https://cran.r-project.org/package=bayesmeta Description: CRAN Package 'bayesmeta' (Bayesian Random-Effects Meta-Analysis and Meta-Regression) A collection of functions allowing to derive the posterior distribution of the model parameters in random-effects meta-analysis or meta-regression, and providing functionality to evaluate joint and marginal posterior probability distributions, predictive distributions, shrinkage effects, posterior predictive p-values, etc.; For more details, see also Roever C (2020) , or Roever C and Friede T (2022) . 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Package: r-cran-bayesmrm Architecture: all Version: 2.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rjags, r-cran-coda, r-cran-ggplot2, r-cran-gridextra, r-cran-rgl, r-cran-shiny, r-cran-shinythemes Filename: pool/dists/focal/main/r-cran-bayesmrm_2.4.0-1.ca2004.1_all.deb Size: 90292 MD5sum: b9bbc2e71a8d9da9ad67285230d4b648 SHA1: 2a64d8b5dbb95af13735be78f754bc2d13ebe79a SHA256: adacf0468e2f2188e0b4ee92858fecac7257a1b764c5897cb436b4a815bb4aeb SHA512: 2534fdaaffab90f35515d9aaa99d01286ac8de06bf7ee3d9ed515b7dd2941ea8d272539e42f3a44969e6afbd235975823981c24b10c65db151170aaf953a1d8e Homepage: https://cran.r-project.org/package=bayesMRM Description: CRAN Package 'bayesMRM' (Bayesian Multivariate Receptor Modeling) Bayesian analysis of multivariate receptor modeling. 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Package: r-cran-bayesmsm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 381 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-coda, r-cran-doparallel, r-cran-foreach, r-cran-ggplot2, r-cran-mcmcpack, r-cran-r2jags Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesmsm_1.0.0-1.ca2004.1_all.deb Size: 208344 MD5sum: 9360f415ae5a4d559036170d824beefc SHA1: a8b02808c23a9657f230be872e3753ed2020afbe SHA256: f1ff0b952e9c87514888fe7197adaa7b4f93e8a43f4b3311d74a050150f3e1ba SHA512: 617edd3616ef3930ffd1ec0564b4dce1169bba08f3a2859218dcb25547956ba75e8131ebfaaca73abe0b522154bc75345dad9f2cc0fb8d437b03a6451671e1eb Homepage: https://cran.r-project.org/package=bayesmsm Description: CRAN Package 'bayesmsm' (Fitting Bayesian Marginal Structural Models for LongitudinalObservational Data) Implements Bayesian marginal structural models for causal effect estimation with time-varying treatment and confounding. 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First, a mixture distribution is fitted on the data using a sparse finite mixture (SFM) Markov chain Monte Carlo (MCMC) algorithm. The number of mixture components does not have to be known; the size of the mixture is estimated endogenously through the SFM approach. Second, the modes of the estimated mixture at each MCMC draw are retrieved using algorithms specifically tailored for mode detection. These estimates are then used to construct posterior probabilities for the number of modes, their locations and uncertainties, providing a powerful tool for mode inference. Package: r-cran-bayesmultmeta Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-assertthat, r-cran-rdpack Suggests: r-cran-mvmeta, r-cran-gplots, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesmultmeta_0.1.1-1.ca2004.1_all.deb Size: 90452 MD5sum: dcbb1cae323a3d0ec097da08f43dc329 SHA1: 524153d9a5fa0185b4fa409e483a778bfbcd6805 SHA256: 0eeaf3be26f903afe944f6ecf87aa1e4792a2575f81fd5f9fa55e3048bfd0ad1 SHA512: 65f7e7a8a4ddf9046e27dc699761232a95425beb0e8ddcf1679cb7f5cf5e150767479b28baae2398c9ed5b19baadef485f6265bd18a62ca483e85da81bd29d70 Homepage: https://cran.r-project.org/package=BayesMultMeta Description: CRAN Package 'BayesMultMeta' (Bayesian Multivariate Meta-Analysis) Objective Bayesian inference procedures for the parameters of the multivariate random effects model with application to multivariate meta-analysis. The posterior for the model parameters, namely the overall mean vector and the between-study covariance matrix, are assessed by constructing Markov chains based on the Metropolis-Hastings algorithms as developed in Bodnar and Bodnar (2021) (). The Metropolis-Hastings algorithm is designed under the assumption of the normal distribution and the t-distribution when the Berger and Bernardo reference prior and the Jeffreys prior are assigned to the model parameters. Convergence properties of the generated Markov chains are investigated by the rank plots and the split hat-R estimate based on the rank normalization, which are proposed in Vehtari et al. (2021) (). 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The implementation of these methods are based on the article: Cowell, RG (2005). Local Propagation in Conditional Gaussian Bayesian Networks . For details please see Yu et. al. (2020) BayesNetBP: An R Package for Probabilistic Reasoning in Bayesian Networks . The optional 'cyjShiny' package for running the Shiny app is available at . Please see the example in the documentation of 'runBayesNetApp' function for installing 'cyjShiny' package from GitHub. Package: r-cran-bayesni Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bayesni_0.1-1.ca2004.1_all.deb Size: 30400 MD5sum: 637dff3fd07181093fda5bbf8d9d4c57 SHA1: 0344275891962e4d3df66951f9bca25440c4d68b SHA256: a54fe6eb0670ab2892ae1d80c51ec8e839675984686efe397958f9999187fa5f SHA512: 2d488102d3a6bb3f33c461c1833ba461ba42574d9215fefab4da97fc181b3f3f30924bdb5f9edde4ad6299092164a0f27800e891641b2ab96956761f2e412ddf Homepage: https://cran.r-project.org/package=BayesNI Description: CRAN Package 'BayesNI' (BayesNI: Bayesian Testing Procedure for Noninferiority withBinary Endpoints) A Bayesian testing procedure for noninferiority trials with binary endpoints. The prior is constructed based on Bernstein polynomials with options for both informative and non-informative prior. The critical value of the test statistic (Bayes factor) is determined by minimizing total weighted error (TWE) criteria Package: r-cran-bayesnsgp Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 389 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nimble, r-cran-fnn, r-cran-matrix, r-cran-statmatch Filename: pool/dists/focal/main/r-cran-bayesnsgp_0.1.2-1.ca2004.1_all.deb Size: 348992 MD5sum: acfbeab40bbd66f3d7fe19e85e17cf84 SHA1: bc8243f4fd5342beb04d6a6f2be7ddae2c0512a6 SHA256: d052246b43fa642c56333e5143a519f52831cc51f5b3ea9ab24d753ebc27484f SHA512: 7610d315623380d23d40f12bfb402ae9f89e08516e3d221fbb1a4410af541aad43f27e65a8004c441eeef71059912968bb4b0c67496c61429783990ac83f1fc7 Homepage: https://cran.r-project.org/package=BayesNSGP Description: CRAN Package 'BayesNSGP' (Bayesian Analysis of Non-Stationary Gaussian Process Models) Enables off-the-shelf functionality for fully Bayesian, nonstationary Gaussian process modeling. The approach to nonstationary modeling involves a closed-form, convolution-based covariance function with spatially-varying parameters; these parameter processes can be specified either deterministically (using covariates or basis functions) or stochastically (using approximate Gaussian processes). Stationary Gaussian processes are a special case of our methodology, and we furthermore implement approximate Gaussian process inference to account for very large spatial data sets (Finley, et al (2017) ). Bayesian inference is carried out using Markov chain Monte Carlo methods via the 'nimble' package, and posterior prediction for the Gaussian process at unobserved locations is provided as a post-processing step. Package: r-cran-bayesorddesign Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ordinal, r-cran-schoolmath, r-cran-coda, r-cran-gsdesign, r-cran-superdiag, r-cran-ggplot2, r-cran-madness, r-cran-rjmcmc, r-cran-r2jags, r-cran-rjags Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesorddesign_0.1.2-1.ca2004.1_all.deb Size: 110952 MD5sum: 0e24da3c865541d33afe598ebd035a3c SHA1: 2a70f49d0e2765bd206cf7331a4a15975c7e24e8 SHA256: ecb31ec353c44db04041eb15459c3cde13c8f9726c90f45d408cd84ad7bac301 SHA512: 1bf148449da08a1d6b4289111cc5ab4eb1564c5626b4549883ebc5e0886bb6056f7f3a7fa1ac76fde3cc24fe010a6a3538390a879104e17aa3c2c247c97a8c5f Homepage: https://cran.r-project.org/package=BayesOrdDesign Description: CRAN Package 'BayesOrdDesign' (Bayesian Group Sequential Design for Ordinal Data) The proposed group-sequential trial design is based on Bayesian methods for ordinal endpoints, including three methods, the proportional-odds-model (PO)-based, non-proportional-odds-model (NPO)-based, and PO/NPO switch-model-based designs, which makes our proposed methods generic to be able to deal with various scenarios. Richard J. Barker, William A. Link (2013) . Thomas A. Murray, Ying Yuan, Peter F. Thall, Joan H. Elizondo, Wayne L.Hofstetter (2018) . Chengxue Zhong, Haitao Pan, Hongyu Miao (2021) . Package: r-cran-bayespiecehazselect Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-bayespiecehazselect_1.1.0-1.ca2004.1_all.deb Size: 87828 MD5sum: 011e747710696fb527635bf7746b0023 SHA1: 518c69bcd91640323ef98ceecf66c98c201f7186 SHA256: 67f2fe59cce41cd1fb37433ad6a2707a1e70ee18e985b3075c6fb56d54a5b98b SHA512: 0461fc4ce64021499e078f6dbabefbc0bf14bededc321c877aef102625450320cbe712caceaad85311a948bcd0829737b3da2669fd57fb64a664f12ab39536c6 Homepage: https://cran.r-project.org/package=BayesPieceHazSelect Description: CRAN Package 'BayesPieceHazSelect' (Variable Selection in a Hierarchical Bayesian Model for a HazardFunction) Fits a piecewise exponential hazard to survival data using a Hierarchical Bayesian model with an Intrinsic Conditional Autoregressive formulation for the spatial dependency in the hazard rates for each piece. This function uses Metropolis- Hastings-Green MCMC to allow the number of split points to vary and also uses Stochastic Search Variable Selection to determine what covariates drive the risk of the event. This function outputs trace plots depicting the number of split points in the hazard and the number of variables included in the hazard. The function saves all posterior quantities to the desired path. Package: r-cran-bayespiecewiseicar Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-bayespiecewiseicar_0.2.1-1.ca2004.1_all.deb Size: 37960 MD5sum: 354609942c4e7b97f6d75807d0ee4bce SHA1: 5540ab6509a677d209fcd0b4e365dd90f124f6e2 SHA256: 22250a96e24046546bf1239f22ae18568c36b7cc09f813fc071c61840b51ea08 SHA512: 63ef8f58188af0d7e342e9739a671b0b886364e24da83baad930678d57a3c957d8edc31f92b0793461a0fd97169f8f2bda790a2fdd0d3ac431c4d10be2cf6caf Homepage: https://cran.r-project.org/package=BayesPiecewiseICAR Description: CRAN Package 'BayesPiecewiseICAR' (Hierarchical Bayesian Model for a Hazard Function) Fits a piecewise exponential hazard to survival data using a Hierarchical Bayesian model with an Intrinsic Conditional Autoregressive formulation for the spatial dependency in the hazard rates for each piece. This function uses Metropolis- Hastings-Green MCMC to allow the number of split points to vary. This function outputs graphics that display the histogram of the number of split points and the trace plots of the hierarchical parameters. The function outputs a list that contains the posterior samples for the number of split points, the location of the split points, and the log hazard rates corresponding to these splits. Additionally, this outputs the posterior samples of the two hierarchical parameters, Mu and Sigma^2. Package: r-cran-bayesplay Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1459 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gginnards Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-vdiffr, r-cran-ggplot2, r-cran-patrick Filename: pool/dists/focal/main/r-cran-bayesplay_0.9.3-1.ca2004.1_all.deb Size: 897672 MD5sum: 5b40ba61a38fe3703d4d98170908886b SHA1: ecd8cf24402c586d8131d9f963a0834e7f0be851 SHA256: 472a0a56feb5e3b794d41d44e0d0d005f23291fc1c3d981825f0c8591f2f4a91 SHA512: 8a3bd8d48761e0190a5d90fde82cc73c014d16731f4dafc3d13ad195b221cf2307ebe6845ebd2fdcfc108dcaeccad6df0b1a88a995196b6ab6b1d056419f4dab Homepage: https://cran.r-project.org/package=bayesplay Description: CRAN Package 'bayesplay' (The Bayes Factor Playground) A lightweight modelling syntax for defining likelihoods and priors and for computing Bayes factors for simple one parameter models. It includes functionality for computing and plotting priors, likelihoods, and model predictions. Additional functionality is included for computing and plotting posteriors. Package: r-cran-bayesplot Architecture: all Version: 1.13.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6705 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggridges, r-cran-glue, r-cran-posterior, r-cran-reshape2, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-ggfortify, r-cran-gridextra, r-cran-hexbin, r-cran-knitr, r-cran-loo, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-rstan, r-cran-rstanarm, r-cran-rstantools, r-cran-scales, r-cran-shinystan, r-cran-survival, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-bayesplot_1.13.0-1.ca2004.1_all.deb Size: 5386500 MD5sum: e85a114878a7f163cb47897a7368ba7e SHA1: a1ee83a4e2b591f0a7186fcaab11417b13364cf7 SHA256: 7a7119464a92f34573db6255b9693043b77ab1c3ff37d356740d6763c03d83a9 SHA512: 1b9e35ee7a7c66c75490c25262b7d99672e8e32babd45e478169c867d3ef82dd901783f6d1625e067a5a74e83984e6bdb7769bfe935dac04f255130845e456c1 Homepage: https://cran.r-project.org/package=bayesplot Description: CRAN Package 'bayesplot' (Plotting for Bayesian Models) Plotting functions for posterior analysis, MCMC diagnostics, prior and posterior predictive checks, and other visualizations to support the applied Bayesian workflow advocated in Gabry, Simpson, Vehtari, Betancourt, and Gelman (2019) . The package is designed not only to provide convenient functionality for users, but also a common set of functions that can be easily used by developers working on a variety of R packages for Bayesian modeling, particularly (but not exclusively) packages interfacing with 'Stan'. Package: r-cran-bayespm Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 479 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-extradistr, r-cran-rmutil, r-cran-invgamma Filename: pool/dists/focal/main/r-cran-bayespm_0.2.0-1.ca2004.1_all.deb Size: 446992 MD5sum: 596bb7c3a75ba85eac12ce184f283474 SHA1: 32890ebc49fddbd94cfede6098c3a0f6e7d285cb SHA256: fcecda7a41dea1f81c0901a5d240eaf80f7b41e09c50e2122dae8fa3d2acca0b SHA512: c832fbf299e2e4a1e1540093668ad7850aa662606aeadfc6baa7a237fb888a9e101325ff37e9afb9a6d8a5d6158158daab8016d5ed8d5d04e423c98e04159fd7 Homepage: https://cran.r-project.org/package=bayespm Description: CRAN Package 'bayespm' (Bayesian Statistical Process Monitoring) The R-package bayespm implements Bayesian Statistical Process Control and Monitoring (SPC/M) methodology. These methods utilize available prior information and/or historical data, providing efficient online quality monitoring of a process, in terms of identifying moderate/large transient shifts (i.e., outliers) or persistent shifts of medium/small size in the process. These self-starting, sequentially updated tools can also run under complete absence of any prior information. The Predictive Control Charts (PCC) are introduced for the quality monitoring of data from any discrete or continuous distribution that is a member of the regular exponential family. The Predictive Ratio CUSUMs (PRC) are introduced for the Binomial, Poisson and Normal data (a later version of the library will cover all the remaining distributions from the regular exponential family). The PCC targets transient process shifts of typically large size (a.k.a. outliers), while PRC is focused in detecting persistent (structural) shifts that might be of medium or even small size. Apart from monitoring, both PCC and PRC provide the sequentially updated posterior inference for the monitored parameter. Bourazas K., Kiagias D. and Tsiamyrtzis P. (2022) "Predictive Control Charts (PCC): A Bayesian approach in online monitoring of short runs" , Bourazas K., Sobas F. and Tsiamyrtzis, P. 2023. "Predictive ratio CUSUM (PRC): A Bayesian approach in online change point detection of short runs" , Bourazas K., Sobas F. and Tsiamyrtzis, P. 2023. "Design and properties of the predictive ratio cusum (PRC) control charts" . Package: r-cran-bayespostest Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2224 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cardata, r-cran-catools, r-cran-coda, r-cran-dplyr, r-cran-ggplot2, r-cran-ggridges, r-cran-reshape2, r-cran-rlang, r-cran-texreg, r-cran-tidyr, r-cran-hdinterval, r-cran-rocr, r-cran-r2jags, r-cran-runjags, r-cran-rstanarm, r-cran-rjags, r-cran-mcmcpack, r-cran-r2winbugs, r-cran-brms Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rstan, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-bayespostest_0.3.2-1.ca2004.1_all.deb Size: 1777668 MD5sum: 7a9aed963ca2d51572a6cc68a049ea84 SHA1: e5be4266cc2ca9e3b7c4ffc3f2375ed65c9f2dd5 SHA256: 32ac003710913c6c4affedce1d2b949f2f61ffdf2cb88a769de72a4102e1023e SHA512: efc0bc851c1a46000251277c114698d240ec70c4fe5aca0ea8ed4e302e15b3a190c907f59b19de7123cfc0eae046d85628bae2e05652c8da6ef87579ee5de02d Homepage: https://cran.r-project.org/package=BayesPostEst Description: CRAN Package 'BayesPostEst' (Generate Postestimation Quantities for Bayesian MCMC Estimation) An implementation of functions to generate and plot postestimation quantities after estimating Bayesian regression models using Markov chain Monte Carlo (MCMC). Functionality includes the estimation of the Precision-Recall curves (see Beger, 2016 ), the implementation of the observed values method of calculating predicted probabilities by Hanmer and Kalkan (2013) , the implementation of the average value method of calculating predicted probabilities (see King, Tomz, and Wittenberg, 2000 ), and the generation and plotting of first differences to summarize typical effects across covariates (see Long 1997, ISBN:9780803973749; King, Tomz, and Wittenberg, 2000 ). This package can be used with MCMC output generated by any Bayesian estimation tool including 'JAGS', 'BUGS', 'MCMCpack', and 'Stan'. Package: r-cran-bayespref Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-lattice, r-cran-mass, r-cran-mcmcpack, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-bayespref_1.0-1.ca2004.1_all.deb Size: 70016 MD5sum: 68d59af80001b7913783fdfa52fe5165 SHA1: 9992697aa2a7f9a66156b4ac053bf401825f3d83 SHA256: 0a2a0fbc59198bb7454bf7e184de92454e2f24f100ac510525a071ab5433cd1a SHA512: 399846a5ed4f6e9441b23cde00c638fadae330fea43ca5d668516c664b9bfc27d7a6882633c7eab4ab849179a21448ee504d9123756adea8faad8238bf3485f8 Homepage: https://cran.r-project.org/package=bayespref Description: CRAN Package 'bayespref' (Hierarchical Bayesian analysis of ecological count data) This program implements a hierarchical Bayesian analysis of count data, such as preference experiments. It provides population-level and individual-level preference parameter estimates obtained via MCMC. It also allows for model comparison using Deviance Information Criterion. Package: r-cran-bayesrecon Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2706 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lpsolve Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-forecast, r-cran-glarma, r-cran-scoringrules, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesrecon_0.3.2-1.ca2004.1_all.deb Size: 1657096 MD5sum: c24e690f627f933a50b945f78ca1fa54 SHA1: d4743b84f356a932d6bec04b75ac23cc70e6492d SHA256: e2831c2b1baa28556d1c37f8232140c7ab212d9fc815daa57713978319e0a943 SHA512: 63b69aa7523baf22d1c995fb1a778bb150510878a5f7dedd6769054185bffbbe29b04a6b72625b610d6a750ab741af5f76d312fec574f219e09e54a40ac3c16b Homepage: https://cran.r-project.org/package=bayesRecon Description: CRAN Package 'bayesRecon' (Probabilistic Reconciliation via Conditioning) Provides methods for probabilistic reconciliation of hierarchical forecasts of time series. The available methods include analytical Gaussian reconciliation (Corani et al., 2021) , MCMC reconciliation of count time series (Corani et al., 2024) , Bottom-Up Importance Sampling (Zambon et al., 2024) , methods for the reconciliation of mixed hierarchies (Mix-Cond and TD-cond) (Zambon et al., 2024. The 40th Conference on Uncertainty in Artificial Intelligence, accepted). 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Provides an efficient implementation of ridge, lasso, horseshoe and horseshoe+ regression with logistic, Gaussian, Laplace, Student-t, Poisson or geometric distributed targets using the algorithms summarized in Makalic and Schmidt (2016) . 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Package: r-cran-bayesroe Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-colourpicker, r-cran-config, r-cran-ggplot2, r-cran-golem, r-cran-scales, r-cran-shiny, r-cran-shinybs Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesroe_0.2-1.ca2004.1_all.deb Size: 75500 MD5sum: 8d8aafe41a81aad92faf0e24e09d6266 SHA1: 10f7a99a577a50c295d2b79dba1e6748e1c3e65a SHA256: 3c4649d2c88840a230b0625c860c55e9b4c9efc0674b63e4da5a0ff765d03b09 SHA512: cb93a2dd495b3711e9c0803dc0eb3323c0b51ad849f14373f04960bcc2897425e5ba0143960219f851d49c173105fffbaa7497fd329ab97a4475d5f4778ec271 Homepage: https://cran.r-project.org/package=bayesROE Description: CRAN Package 'bayesROE' (Bayesian Regions of Evidence) Computation and visualization of Bayesian Regions of Evidence to systematically evaluate the sensitivity of a superiority or non-inferiority claim against any prior assumption of its assessors. Methodological details are elaborated by Hoefler and Miller (). Besides generic functions, the package also provides an intuitive 'Shiny' application, that can be run in local R environments. Package: r-cran-bayesrs Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 855 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjags, r-cran-ggplot2, r-cran-metrology, r-cran-reshape, r-cran-coda Suggests: r-cran-r.rsp, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bayesrs_0.1.3-1.ca2004.1_all.deb Size: 789080 MD5sum: 25512e776db55b9eb0e60b9959444cbf SHA1: a9f7219452ff3ab7388b7c59a27b5701f53ede15 SHA256: 7a412fa9c2c51d1a2b749a731546d5877aaa107ca5cbb40e57c6e02239279e18 SHA512: fe1d8ad6bae82d19bab5e1795542908bfad5c3f3ef6bf77f0fd26c455adc3d9ae47e39282f326aa6086176589e5258229648b99dd86ccfbe6da0cd93546751f8 Homepage: https://cran.r-project.org/package=BayesRS Description: CRAN Package 'BayesRS' (Bayes Factors for Hierarchical Linear Models with ContinuousPredictors) Runs hierarchical linear Bayesian models. Samples from the posterior distributions of model parameters in JAGS (Just Another Gibbs Sampler; Plummer, 2017, ). Computes Bayes factors for group parameters of interest with the Savage-Dickey density ratio (Wetzels, Raaijmakers, Jakab, Wagenmakers, 2009, ). Package: r-cran-bayesrules Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2290 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-janitor, r-cran-magrittr, r-cran-dplyr, r-cran-purrr, r-cran-rstanarm, r-cran-e1071, r-cran-groupdata2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bayesrules_0.0.2-1.ca2004.1_all.deb Size: 2152688 MD5sum: a31972f5c41851ba7923cd41d192d79d SHA1: 67a8a125ace98dee75f212899ec7559ed6dad76a SHA256: 235084fba381a5a7f9199546aeff9ae945a7a867b18926f2269a5009fa074ecf SHA512: 04fb63630789f2bd89329d9492ba8c651466a09b9d32d862d74148c48afc52604727b3d10d98598a2ab3e2ae9fec607a6a62e754eeee0af9ddacebaff92c3a6e Homepage: https://cran.r-project.org/package=bayesrules Description: CRAN Package 'bayesrules' (Datasets and Supplemental Functions from Bayes Rules! Book) Provides datasets and functions used for analysis and visualizations in the Bayes Rules! book (). The package contains a set of functions that summarize and plot Bayesian models from some conjugate families and another set of functions for evaluation of some Bayesian models. Package: r-cran-bayess5 Architecture: all Version: 1.41-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-snowfall, r-cran-abind, r-cran-splines2 Filename: pool/dists/focal/main/r-cran-bayess5_1.41-1.ca2004.1_all.deb Size: 158160 MD5sum: 449229446d2976dec297f458f56acbf5 SHA1: 061771526adaa0fdb0740fb055bac978e27bc99b SHA256: 0fc518c8a909c6f4f735977721b915075ac73bdea9103e1c218853d7225ba21f SHA512: 37e3b5ba220c12204e231317fd65b5f1c0b3a421e161326252cd8763cfba805aafd7774ded2887ac6454654d60697975ba1c7b2741b65c268ec2ef604681385b Homepage: https://cran.r-project.org/package=BayesS5 Description: CRAN Package 'BayesS5' (Bayesian Variable Selection Using Simplified Shotgun StochasticSearch with Screening (S5)) In p >> n settings, full posterior sampling using existing Markov chain Monte Carlo (MCMC) algorithms is highly inefficient and often not feasible from a practical perspective. To overcome this problem, we propose a scalable stochastic search algorithm that is called the Simplified Shotgun Stochastic Search (S5) and aimed at rapidly explore interesting regions of model space and finding the maximum a posteriori(MAP) model. Also, the S5 provides an approximation of posterior probability of each model (including the marginal inclusion probabilities). This algorithm is a part of an article titled "Scalable Bayesian Variable Selection Using Nonlocal Prior Densities in Ultrahigh-dimensional Settings" (2018) by Minsuk Shin, Anirban Bhattacharya, and Valen E. Johnson and "Nonlocal Functional Priors for Nonparametric Hypothesis Testing and High-dimensional Model Selection" (2020+) by Minsuk Shin and Anirban Bhattacharya. Package: r-cran-bayess Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 402 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mnormt, r-cran-gplots, r-cran-combinat Filename: pool/dists/focal/main/r-cran-bayess_1.6-1.ca2004.1_all.deb Size: 317668 MD5sum: 197843ba36eb44f45bb4c5bbda7cb54f SHA1: 9a6f270e140c9f70ae8f00a65187dacec0c02004 SHA256: 2ee723496e6811d56574d266f6ce32a7389076aab1b9aba2c9b1e86598e28675 SHA512: ebcf091ba03a466f5c637c11dbc12fc55537fb89dd5c8a90a4939e642a66fddf83b70efb525498668f72d969fc586f2e23621e4827ac56468f87680474a77234 Homepage: https://cran.r-project.org/package=bayess Description: CRAN Package 'bayess' (Bayesian Essentials with R) Allows the reenactment of the R programs used in the book Bayesian Essentials with R without further programming. R code being available as well, they can be modified by the user to conduct one's own simulations. Marin J.-M. and Robert C. P. (2014) . Package: r-cran-bayessampling Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 921 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-matrixcalc Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-teachingsampling Filename: pool/dists/focal/main/r-cran-bayessampling_1.1.0-1.ca2004.1_all.deb Size: 683672 MD5sum: ca8ddb5a2d4c4e0529731c7447a11205 SHA1: 292d1da544b5fca83af7bc475123a74f26916970 SHA256: 202c39515766b742ede598d440ca7de609806d54ed8280c8b26003d71c21fa28 SHA512: 40c233f42a8bb2018d6addcbef36ce8fed287950ba1cf383e4458f797f30c32d79a8e4c40514045e2c4ef1a11fbbb24c51411bff57dd6a410f08399263390f3e Homepage: https://cran.r-project.org/package=BayesSampling Description: CRAN Package 'BayesSampling' (Bayes Linear Estimators for Finite Population) Allows the user to apply the Bayes Linear approach to finite population with the Simple Random Sampling - BLE_SRS() - and the Stratified Simple Random Sampling design - BLE_SSRS() - (both without replacement), to the Ratio estimator (using auxiliary information) - BLE_Ratio() - and to categorical data - BLE_Categorical(). The Bayes linear estimation approach is applied to a general linear regression model for finite population prediction in BLE_Reg() and it is also possible to achieve the design based estimators using vague prior distributions. Based on Gonçalves, K.C.M, Moura, F.A.S and Migon, H.S.(2014) . Package: r-cran-bayesspec Architecture: all Version: 0.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-pscl, r-cran-trust Filename: pool/dists/focal/main/r-cran-bayesspec_0.5.3-1.ca2004.1_all.deb Size: 101620 MD5sum: 7210098ee33adacb1ffac9c679742edb SHA1: c2ac3ca399d0a9813ae9faa8b846a304be45fc85 SHA256: 64f110075f6d7d53dd402dff3cc776bddcb83bd4c0658d2c773257d40008a49e SHA512: 21f53499680647e5ba11f9adc1e7844189ea2a5efcf8822caf33fcf8a3ff41bbadfe851a9447b2f7df2298be2a6f172a3aa2e82b1e4afd883639278c0949e47e Homepage: https://cran.r-project.org/package=BayesSpec Description: CRAN Package 'BayesSpec' (Bayesian Spectral Analysis Techniques) An implementation of methods for spectral analysis using the Bayesian framework. It includes functions for modelling spectrum as well as appropriate plotting and output estimates. There is segmentation capability with RJ MCMC (Reversible Jump Markov Chain Monte Carlo). The package takes these methods predominantly from the 2012 paper "AdaptSPEC: Adaptive Spectral Estimation for Nonstationary Time Series" . Package: r-cran-bayesssm Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 230 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-dplyr, r-cran-future, r-cran-future.apply, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggplot2, r-cran-tidyr, r-cran-extradistr, r-cran-rlang Filename: pool/dists/focal/main/r-cran-bayesssm_0.5.0-1.ca2004.1_all.deb Size: 158376 MD5sum: 93c8c479896c5d26c5557781d02ff726 SHA1: 6ae1e9be5622756190c12fffdda307eee6141f7a SHA256: f19c8a799364bbf7c8bb52e61f87e180e1f04b14865c346bc810df497d10fd69 SHA512: 50bc6a9a45e3e353a1a45f392fb377195161411b5fb4116883bb3a3d580623d7275e34e69d6d9f642ead26ec0561f781e1c8f61a3028b4889fc486ecae77e2ba Homepage: https://cran.r-project.org/package=bayesSSM Description: CRAN Package 'bayesSSM' (Bayesian Methods for State Space Models) Implements methods for Bayesian analysis of State Space Models. Includes implementations of the Particle Marginal Metropolis-Hastings algorithm described in Andrieu et al. (2010) and automatic tuning inspired by Pitt et al. (2012) and J. Dahlin and T. B. Schön (2019) . Package: r-cran-bayessummarystatlm Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1214 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvnfast, r-cran-ff, r-cran-bit Filename: pool/dists/focal/main/r-cran-bayessummarystatlm_2.0-1.ca2004.1_all.deb Size: 943620 MD5sum: 3e0de647bd8bd1cbee09fee3003013f5 SHA1: feefd550c4ddb061cbabcb3281651b9d1768af7b SHA256: c17520cdc193a7839180a879509229a3c3037a3e28aa3b47bbaae98aa6d9b0d9 SHA512: 8c066362371067118d723ffa60f2cf4e7fcb4826e4dd61b7eaa8d4539735d5a27f28e128db7d2103cf46a1f9e3464758acb74cc59da485b613f4252598a18b0e Homepage: https://cran.r-project.org/package=BayesSummaryStatLM Description: CRAN Package 'BayesSummaryStatLM' (MCMC Sampling of Bayesian Linear Models via Summary Statistics) Methods for generating Markov Chain Monte Carlo (MCMC) posterior samples of Bayesian linear regression model parameters that require only summary statistics of data as input. Summary statistics are useful for systems with very limited amounts of physical memory. The package provides two functions: one function that computes summary statistics of data and one function that carries out the MCMC posterior sampling for Bayesian linear regression models where summary statistics are used as input. The function read.regress.data.ff utilizes the R package 'ff' to handle data sets that are too large to fit into a user's physical memory, by reading in data in chunks. See Miroshnikov, Savel'ev and Conlon (2015) . Package: r-cran-bayessurvival Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 576 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-ggplot2 Suggests: r-cran-simsurv, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bayessurvival_0.2.0-1.ca2004.1_all.deb Size: 334996 MD5sum: 6f6901ca269bc8e2e986fb9f47897c17 SHA1: ad08f9b16ea9850330d9c91a5b8b1ddfec5d6f96 SHA256: 11a57d6123b41b5eea02710fff472366b77f05f2a06a0cdfc38347dfe1b68b6d SHA512: d6cad1684329b6ebb8e0923bb60e39f9764b24d6e01d6933a0c19dae27b9aa483f6cf988cf7313ceeb5e2291200fd3ef39c55f84df9ead51407f5f9ed8fcd864 Homepage: https://cran.r-project.org/package=BayesSurvival Description: CRAN Package 'BayesSurvival' (Bayesian Survival Analysis for Right Censored Data) Performs unadjusted Bayesian survival analysis for right censored time-to-event data. The main function, BayesSurv(), computes the posterior mean and a credible band for the survival function and for the cumulative hazard, as well as the posterior mean for the hazard, starting from a piecewise exponential (histogram) prior with Gamma distributed heights that are either independent, or have a Markovian dependence structure. A function, PlotBayesSurv(), is provided to easily create plots of the posterior means of the hazard, cumulative hazard and survival function, with a credible band accompanying the latter two. The priors and samplers are described in more detail in Castillo and Van der Pas (2020) "Multiscale Bayesian survival analysis" . In that paper it is also shown that the credible bands for the survival function and the cumulative hazard can be considered confidence bands (under mild conditions) and thus offer reliable uncertainty quantification. Package: r-cran-bayest Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mcmcpack Suggests: r-cran-coda, r-cran-mass Filename: pool/dists/focal/main/r-cran-bayest_1.5-1.ca2004.1_all.deb Size: 36456 MD5sum: 272c63b983b624a236b841c0b007eb52 SHA1: 62a7b197a05eb6dfd7cba70751a3e8317299c2a1 SHA256: 65761a01a76f74d89de8d6800d24b000e456532ec5f9bd66768ff466f239ddc6 SHA512: f3d07d9beaa0aeb76dbde1cf7d8ef7269162010bb285614c40ff6226e5430c4b820912fdc6b309aa59137d4486e80be6b4b43c0440370bc18c850ae5aa004e74 Homepage: https://cran.r-project.org/package=bayest Description: CRAN Package 'bayest' (Effect Size Targeted Bayesian Two-Sample t-Tests via MarkovChain Monte Carlo in Gaussian Mixture Models) Provides an Markov-Chain-Monte-Carlo algorithm for Bayesian t-tests on the effect size. The underlying Gibbs sampler is based on a two-component Gaussian mixture and approximates the posterior distributions of the effect size, the difference of means and difference of standard deviations. A posterior analysis of the effect size via the region of practical equivalence is provided, too. For more details about the Gibbs sampler see Kelter (2019) . Package: r-cran-bayestestr Architecture: all Version: 0.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1520 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-insight, r-cran-datawizard Suggests: r-cran-bayesfactor, r-cran-bayesqr, r-cran-bayesplot, r-cran-betareg, r-cran-bh, r-cran-blavaan, r-cran-bridgesampling, r-cran-brms, r-cran-collapse, r-cran-curl, r-cran-effectsize, r-cran-emmeans, r-cran-gamm4, r-cran-ggdist, r-cran-ggplot2, r-cran-glmmtmb, r-cran-httr2, r-cran-kernsmooth, r-cran-knitr, r-cran-lavaan, r-cran-lme4, r-cran-logspline, r-cran-marginaleffects, r-cran-mass, r-cran-mclust, r-cran-mediation, r-cran-modelbased, r-cran-ordbetareg, r-cran-parameters, r-cran-patchwork, r-cran-performance, r-cran-posterior, r-cran-quadprog, r-cran-rcppeigen, r-cran-rmarkdown, r-cran-rstan, r-cran-rstanarm, r-cran-see, r-cran-testthat, r-cran-tweedie, r-cran-withr Filename: pool/dists/focal/main/r-cran-bayestestr_0.16.0-1.ca2004.1_all.deb Size: 1111144 MD5sum: 87ba69e4689f69e0bb2c92beedef54a1 SHA1: dcdd1ce2bb62fe80df014e49f85d8ad1a1d9eabd SHA256: f61bb47e034fc590e2d7d8915e03807e4e7076a793dfd27f0261e1b55a2abd4b SHA512: e255ff651eec58484f01bd5ea61686b9f8a13c3e995c83984ce1472210d288e2477c361ba43575721d80c1c476186c70192464ab708a27b871f4fef9190875d0 Homepage: https://cran.r-project.org/package=bayestestR Description: CRAN Package 'bayestestR' (Understand and Describe Bayesian Models and PosteriorDistributions) Provides utilities to describe posterior distributions and Bayesian models. It includes point-estimates such as Maximum A Posteriori (MAP), measures of dispersion (Highest Density Interval - HDI; Kruschke, 2015 ) and indices used for null-hypothesis testing (such as ROPE percentage, pd and Bayes factors). References: Makowski et al. (2021) . Package: r-cran-bayestools Architecture: all Version: 0.2.19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1655 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-extradistr, r-cran-mvtnorm, r-cran-coda, r-cran-bridgesampling, r-cran-ggplot2, r-cran-rdpack, r-cran-rlang Suggests: r-cran-scales, r-cran-testthat, r-cran-vdiffr, r-cran-covr, r-cran-knitr, r-cran-rstan, r-cran-rjags, r-cran-runjags, r-cran-bayesfactor, r-cran-robma, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bayestools_0.2.19-1.ca2004.1_all.deb Size: 1275984 MD5sum: 1f8e8ceda9a77aa7a088399e73b0e0ec SHA1: 9abc7ef103ff5fd48e07b39dadef93a15b17dbf3 SHA256: efe5a8e1bd5472d8bd2df7f090eac36d58ae5e449b200f15877f470b11cbf482 SHA512: 31f5cb0e609aceb3445a9d82b37c8179451c98506bdc2f8285cf47362e91287b56445feae6bf26ce61b364299b221af4255a42e7f2bea44effe58db6dd57b3d5 Homepage: https://cran.r-project.org/package=BayesTools Description: CRAN Package 'BayesTools' (Tools for Bayesian Analyses) Provides tools for conducting Bayesian analyses and Bayesian model averaging (Kass and Raftery, 1995, , Hoeting et al., 1999, ). The package contains functions for creating a wide range of prior distribution objects, mixing posterior samples from 'JAGS' and 'Stan' models, plotting posterior distributions, and etc... The tools for working with prior distribution span from visualization, generating 'JAGS' and 'bridgesampling' syntax to basic functions such as rng, quantile, and distribution functions. Package: r-cran-bayestreeprior Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-tgp, r-cran-bayestree, r-cran-bartmachine, r-cran-mass Filename: pool/dists/focal/main/r-cran-bayestreeprior_1.0.1-1.ca2004.1_all.deb Size: 57448 MD5sum: 32046d30e1fb94d936de830c663bee9c SHA1: b6226aab813d3e9c1cef6f0174be1b5eaf72f7d1 SHA256: 9720f3552f9d0920ce4d61bd557168301db3dc5554dc8aec2b305eeaa5b331a2 SHA512: 4eccf3cbc6220d2be6f2b4ac71002e0d9a05d90ff3b1ede4a094ec68bf7b1a5285ff868f1df8a856399b3b8b6be537d15fcd9a9f0ee94a80c43ef297c353d89c Homepage: https://cran.r-project.org/package=BayesTreePrior Description: CRAN Package 'BayesTreePrior' (Bayesian Tree Prior Simulation) Provides a way to simulate from the prior distribution of Bayesian trees by Chipman et al. (1998) . The prior distribution of Bayesian trees is highly dependent on the design matrix X, therefore using the suggested hyperparameters by Chipman et al. (1998) is not recommended and could lead to unexpected prior distribution. This work is part of my master thesis (expected 2016). Package: r-cran-bayestwin Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 543 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreign, r-cran-coda, r-cran-matrixstats, r-cran-rjags Filename: pool/dists/focal/main/r-cran-bayestwin_1.0-1.ca2004.1_all.deb Size: 524292 MD5sum: 0b7f6058ec9691071535e3427276e143 SHA1: f2d0d634ead5022b5ac2db0ddb43c60874ad43e1 SHA256: 7f5ff546b6905f3f11f6a5f268f986c812ca5cc81aa2b1b03fa9349f260a25ba SHA512: df300b6b07ad0d91c432fc12a03f230c513c99e10bad03f20a79645e48cdd648a8b7752c5eb8557208e283090283eea28c6daa6bf38a926524482cd029d90db4 Homepage: https://cran.r-project.org/package=BayesTwin Description: CRAN Package 'BayesTwin' (Bayesian Analysis of Item-Level Twin Data) Bayesian analysis of item-level hierarchical twin data using an integrated item response theory model. Analyses are based on Schwabe & van den Berg (2014) , Molenaar & Dolan (2014) , Schwabe, Jonker & van den Berg (2016) and Schwabe, Boomsma & van den Berg (2016) . Package: r-cran-bayesvl Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 712 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rstan, r-cran-stanheaders, r-cran-coda, r-cran-bnlearn, r-cran-ggplot2, r-cran-bayesplot, r-cran-viridis, r-cran-reshape2 Suggests: r-cran-loo Filename: pool/dists/focal/main/r-cran-bayesvl_1.0.0-1.ca2004.1_all.deb Size: 577480 MD5sum: acc21e8ae85d4b3bfaf794f199b2b443 SHA1: 5866e5f3b5a4319919e33663f4c314e77410099d SHA256: 21ead619fed02d0dc399ebee21a897d40fec70b903a98d7bce0f725b71c4b26a SHA512: 8a7023d728a797337b63fb5e7fb7c1ff258f23fa6949961052b064742ac279cdd75ba608ea46ead181cf01de604f401e3fed44697026515d8d38d9f2e009881b Homepage: https://cran.r-project.org/package=bayesvl Description: CRAN Package 'bayesvl' (Visually Learning the Graphical Structure of Bayesian Networksand Performing MCMC with 'Stan') Provides users with its associated functions for pedagogical purposes in visually learning Bayesian networks and Markov chain Monte Carlo (MCMC) computations. It enables users to: a) Create and examine the (starting) graphical structure of Bayesian networks; b) Create random Bayesian networks using a dataset with customized constraints; c) Generate Stan code for structures of Bayesian networks for sampling the data and learning parameters; d) Plot the network graphs; e) Perform Markov chain Monte Carlo computations and produce graphs for posteriors checks. The package refers to one reference item, which describes the methods and algorithms: Vuong, Quan-Hoang and La, Viet-Phuong (2019) The 'bayesvl' R package. Open Science Framework (May 18). Package: r-cran-bayesx Architecture: all Version: 0.3-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3840 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-shapefiles, r-cran-sp, r-cran-sf, r-cran-colorspace, r-cran-coda, r-cran-interp Suggests: r-cran-spdep Filename: pool/dists/focal/main/r-cran-bayesx_0.3-3-1.ca2004.1_all.deb Size: 1185164 MD5sum: 89997cef1be7b1bf75b50b925cbd62ab SHA1: f063fea80e9b2770c8fd8925f3a31e29b44e0545 SHA256: 16ceb203ea5406d525de71afb4facd9f1957b678b3824a95c5c62bcf5bfc5bdd SHA512: ec8736b47499fea7c43c99a65598c7e5b79a8c54530bbf9a6d03deef89c7fc467719503b52c10d379de2a9d215026c4e2752f7dca3d9e1efb189bc6a23c2d8f6 Homepage: https://cran.r-project.org/package=BayesX Description: CRAN Package 'BayesX' (R Utilities Accompanying the Software Package BayesX) Functions for exploring and visualising estimation results obtained with BayesX, a free software for estimating structured additive regression models (). 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Package: r-cran-bayhaz Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-coda Filename: pool/dists/focal/main/r-cran-bayhaz_0.1-3-1.ca2004.1_all.deb Size: 81732 MD5sum: bef6634a0caced2be2ae0a8994f9a259 SHA1: ad70fe01d4296ff4a92ad2665e7485a8503f693d SHA256: 88e0dfefe7dc9a4df25e7864680d62d04cdedda8faa4f1803004bd64efb5fa55 SHA512: 2299c590b4a7a6710d99c2136d5e83d09566721461a0a32403516317ee26ecf9bf2316229fa7e3ae85e31fdb186be1473c3f516d144e1eb50c12417c039b11a0 Homepage: https://cran.r-project.org/package=BayHaz Description: CRAN Package 'BayHaz' (R Functions for Bayesian Hazard Rate Estimation) A suite of R functions for Bayesian estimation of smooth hazard rates via Compound Poisson Process (CPP) and Bayesian Penalized Spline (BPS) priors. 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This package modifies and extends the 'mle' classes in the 'stats4' package. Package: r-cran-bbmm Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bbmm_3.0-1.ca2004.1_all.deb Size: 36556 MD5sum: 8b0e17a30f1bb7ed580ab0daba034ae9 SHA1: 2aec37c3e50fb9000b9a780086f17cb638cbdeb5 SHA256: 784cf2812c08aeb5d503a4c7edf0c2493cc45a8bc81167f44ad00103da253df4 SHA512: e3b5096e6360abf471c1e61eea9b06a3c021b12cd6c5e954a308b734be1be1f9d8fd2263208c821cc2ce77247f50286dcf341df3397a09a8dc5a12a555a2b243 Homepage: https://cran.r-project.org/package=BBMM Description: CRAN Package 'BBMM' (Brownian bridge movement model) The model provides an empirical estimate of a movement path using discrete location data obtained at relatively short time intervals. Package: r-cran-bbmv Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape Suggests: r-cran-coda, r-cran-geiger Filename: pool/dists/focal/main/r-cran-bbmv_2.1-1.ca2004.1_all.deb Size: 189072 MD5sum: a0bdddfaec748c16b7a9eb3dcb3ecc44 SHA1: 822cfbd2539e167d57c4fc112b1dd4d9f71a5610 SHA256: 63444b48ec719711af155780c3b1024bd8bd8eda7dd80d644f5f3f3d02511c4e SHA512: acfbaf1e247bee7cb560ac13b71b8fff0433cdad1527a851ba140e4b455610ad5e94606e6ab345562d17972e026183abbf746a2648dd7308b42553805140a590 Homepage: https://cran.r-project.org/package=BBMV Description: CRAN Package 'BBMV' (Models for Continuous Traits Evolving in MacroevolutionaryLandscapes of any Shape) Provides a set of functions to fit general macroevolutionary models for continuous traits evolving in adaptive landscapes of any shape. 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Package: r-cran-bbnet Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 829 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-igraph, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bbnet_1.1.0-1.ca2004.1_all.deb Size: 627432 MD5sum: 865f7bbe2c8690f5e8d2490af05ad752 SHA1: 5eee765d9685f28455e0bcdb9fcca3c58bdc771a SHA256: a5e5076e8742680ae5772f11e6dc4a82141b864ecab0ad9a5442ee3e5e4ea8e4 SHA512: 38d30583589b7fe77d74bae04332fe3028aaacfde36029a674be8987e1e81277757c111caef1d5b949a6f9f2833618cb2b5454d9b1124a07e87248b28e75e4cc Homepage: https://cran.r-project.org/package=bbnet Description: CRAN Package 'bbnet' (Create Simple Predictive Models on Bayesian Belief Networks) A system to build, visualise and evaluate Bayesian belief networks. The methods are described in Stafford et al. (2015) . Package: r-cran-bbo Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 238 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bbo_0.2-1.ca2004.1_all.deb Size: 188616 MD5sum: 78ee4a39f53776d18e5c053e3f9e92cf SHA1: af347c0eb7851b001bf79378a56719b5d5555da5 SHA256: a859b55b1071791d7e3021108be36dcecd0cd07d30545b883fed77cee0412f86 SHA512: 785c80013a1e908fc6df97a0e00c288670092d5cf4448810211e4f3adb1c4b3a95e91d166b3614cb21774765a416f075e4c7dba84782f74b6bbff72e92683bb7 Homepage: https://cran.r-project.org/package=bbo Description: CRAN Package 'bbo' (Biogeography-Based Optimization) This package provides an R implementation of Biogeography-Based Optimization (BBO), originally invented by Prof. Dan Simon, Cleveland State University, Ohio. This method is an application of the concept of biogeography, a study of the geographical distribution of biological organisms, to optimization problems. 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Package: r-cran-bbreg Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 414 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pbapply, r-cran-formula, r-cran-expint, r-cran-statmod Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-bbreg_2.0.2-1.ca2004.1_all.deb Size: 266932 MD5sum: ff2c380bd8bdde32090a1f2975c3194a SHA1: e100e388b09063cf57cc63de8b38830f4bb07925 SHA256: d9a635b6290512d320ad7ddb7a66f9821dd0ad250810f2d566f64351327d022c SHA512: 230ca808695182e88b32fe74972beaecf59f1e382034f02e95d0901c2e0371a753ed4f8d1a2c6f2f72a2ef56ef7ab7ee7052dbf1fd62ed141102a3c3e8135b74 Homepage: https://cran.r-project.org/package=bbreg Description: CRAN Package 'bbreg' (Bessel and Beta Regressions via Expectation-MaximizationAlgorithm for Continuous Bounded Data) Functions to fit, via Expectation-Maximization (EM) algorithm, the Bessel and Beta regressions to a data set with a bounded continuous response variable. 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Package: r-cran-bbricks Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3050 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bbricks_0.1.4-1.ca2004.1_all.deb Size: 2431560 MD5sum: 22c2f66628296d83130e454f0dfcba9b SHA1: 0003b110e75f2e7775c6c947cadfbe48e7bbef3c SHA256: 26622c4174b51b0cb124beacf8ff554faafe44f71ca92016eb181a0961fb0982 SHA512: bb8336c6f21bf4869a29b1560690e7e659788ca92d310ef24b4535f7ecb13acc3c73c68c35803c1766ec187745daecd58f19749af287311bd96a181f58192bff Homepage: https://cran.r-project.org/package=bbricks Description: CRAN Package 'bbricks' (Bayesian Methods and Graphical Model Structures for StatisticalModeling) A set of frequently used Bayesian parametric and nonparametric model structures, as well as a set of tools for common analytical tasks. Structures include linear Gaussian systems, Gaussian and Normal-Inverse-Wishart conjugate structure, Gaussian and Normal-Inverse-Gamma conjugate structure, Categorical and Dirichlet conjugate structure, Dirichlet Process on positive integers, Dirichlet Process in general, Hierarchical Dirichlet Process ... Tasks include updating posteriors, sampling from posteriors, calculating marginal likelihood, calculating posterior predictive densities, sampling from posterior predictive distributions, calculating "Maximum A Posteriori" (MAP) estimates ... See to get started. Package: r-cran-bbsbayes Architecture: all Version: 2.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4031 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-progress, r-cran-jagsui, r-cran-ggrepel, r-cran-geofacet, r-cran-ggplot2, r-cran-stringr, r-cran-dplyr, r-cran-sf, r-cran-rappdirs, r-cran-sbtools, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-bbsbayes_2.5.3-1.ca2004.1_all.deb Size: 2061916 MD5sum: fd19f637313477aba397b84f84ecf2bf SHA1: 7106d18e1b5eb8e0cd8719a1d8b8723cafc0da9e SHA256: 019521aa93be95922b717a5489ed93d22ac89fbebc76a0100db7bd742015f0fd SHA512: b566ce9c1f499e1512a7c12af8887ebbd6d06c16365d8043b2c01ce12bf71bf0113ce37237792b11a38c349002dc8835bf3c69b70ed85b897b6ef51db78277cf Homepage: https://cran.r-project.org/package=bbsBayes Description: CRAN Package 'bbsBayes' (Hierarchical Bayesian Analysis of North American BBS Data) The North American Breeding Bird Survey (BBS) is a long-running program that seeks to monitor the status and trends of the breeding birds in North America. 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See Cameron et al (2008) for application of bootstrap to cluster samples. See Aaron et al (2016) and Aaron et al (2016) for application of the blocked weighted bootstrap to estimate indicators from two-stage cluster sampled surveys. Package: r-cran-bc3net Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-c3net, r-cran-infotheo, r-cran-igraph, r-cran-matrix, r-cran-lattice Filename: pool/dists/focal/main/r-cran-bc3net_1.0.5-1.ca2004.1_all.deb Size: 150272 MD5sum: 6b263899c48fb989908e7c1ed404e40b SHA1: 2acdd19fc213c4323d13902333665fa48d7e783c SHA256: 284514ed2b8864719838d34f5137dd3d58c841006f79afcca0042f4f2163edaa SHA512: 614bf8fd8f3f1b7bb54908bf63632927e6b7f9f44f2a7f2cbf18312bd56a76d760d73e1fa34e8ed6520a9f8a01b8f389063e86fa52f791ae4c5a00374054562c Homepage: https://cran.r-project.org/package=bc3net Description: CRAN Package 'bc3net' (Gene Regulatory Network Inference with Bc3net) Implementation of the BC3NET algorithm for gene regulatory network inference (de Matos Simoes and Frank Emmert-Streib, Bagging Statistical Network Inference from Large-Scale Gene Expression Data, PLoS ONE 7(3): e33624, ). 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Package: r-cran-bcc1997 Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bcc1997_0.1.1-1.ca2004.1_all.deb Size: 16784 MD5sum: ca5de02c764b1869c19ec429bdb74572 SHA1: 4f0a84feb4171e928338e2bc9a3cc0d9d597816e SHA256: b84d392d7f6c7bcefaeab11700b9094e3d3b553e2126c72a13d49ae0bfd95c1c SHA512: 6ba3f4564ece7f3998c971faa8f4626c28792be7638e9384a6281c572437d6e10781a8eaa5afedf11c0e0d7cf180b3c1518f088a93867db42a743aadd0458557 Homepage: https://cran.r-project.org/package=BCC1997 Description: CRAN Package 'BCC1997' (Calculation of Option Prices Based on a Universal Solution) Calculates the prices of European options based on the universal solution provided by Bakshi, Cao and Chen (1997) . This solution considers stochastic volatility, stochastic interest and random jumps. Please cite their work if this package is used. 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The Beta Chart has been applied in three real studies and compared with control limits from three different schemes. The comparative analysis showed that: (i) the Beta approximation to the Binomial distribution is more appropriate for values confined within the [0, 1] interval; and (ii) the proposed charts are more sensitive to the average run length (ARL) in both in-control and out-of-control process monitoring. Overall, the Beta Charts outperform the Shewhart control charts in monitoring fraction data. For more details, see Ângelo Márcio Oliveira Sant’Anna and Carla Schwengber ten Caten (2012) . 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The package provides functions for streamlined reading of fcs files, and identification of bead clusters and analyte expression. The package eases the calculation of standard curves and the subsequent calculation of the analyte concentration. Package: r-cran-beakr Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 338 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-base64enc, r-cran-httpuv, r-cran-jsonlite, r-cran-magrittr, r-cran-mime, r-cran-stringr, r-cran-webutils Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-beakr_0.4.3-1.ca2004.1_all.deb Size: 287796 MD5sum: af5826b19943fb0acc1b2d34d7e33680 SHA1: 71523879c935ef32744eb69035ef29c2624e7578 SHA256: 3c38a8df2c8d5392e11414f2def8e2662295f913efaabfeb84b4fef7af8bf3f4 SHA512: 822081bc6da201a280abe7d848b0c7dc1198d0b7c7e4deba92e1eeefd6edc41e2dfb83746415e6c7ff53b9403c4b0b6c2ec184bbf44c930509b499ad81472d11 Homepage: https://cran.r-project.org/package=beakr Description: CRAN Package 'beakr' (A Minimalist Web Framework for R) A minimalist web framework for developing application programming interfaces in R that provides a flexible framework for handling common HTTP-requests, errors, logging, and an ability to integrate any R code as server middle-ware. Package: r-cran-beamr Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 404 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggmosaic, r-cran-ggplot2, r-cran-ggpubr, r-cran-logistf, r-cran-magrittr, r-cran-mass, r-cran-purrr, r-cran-rlist, r-cran-stringr, r-cran-survival, r-cran-survminer Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-beamr_1.1.0-1.ca2004.1_all.deb Size: 350256 MD5sum: e3bed809f42de6480d69faf03605826a SHA1: 7284843902559b3d93d1d7275553b632c17650a8 SHA256: f95c41cb9a2111bd335f17258171d0c3afb64ce812c43845e675f43ba35c54ce SHA512: 0072f60e0c6f7277608ac3ba43b90dba5f31dcb3dead167ed693726591df4978c1735a05544d17460d0f5f76db086976014bc09623d161bb131752796a57958a Homepage: https://cran.r-project.org/package=BEAMR Description: CRAN Package 'BEAMR' (Bootstrap Evaluation of Association Matrices) A bootstrap-based approach to integrate multiple forms of high dimensional genomic data with multiple clinical endpoints. This method is used to find clinically meaningful groups of genomic features, such as genes or pathways. A manuscript describing this method is in preparation. 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Package: r-cran-beans Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1409 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-beans_0.1.0-1.ca2004.1_all.deb Size: 1406172 MD5sum: 13d359f72efc76439d672b8d412207e1 SHA1: 39d3efd31d630daa359c5072ce77fad7dc59870a SHA256: b629ae60a274780ca595eb488b73d9485e74f454dac9cd601dd589ecd1f1fe54 SHA512: d9f7d71a824be8bd26ee4afc7a6be0bf23293ac29f05a24040ce2b0c6e201b6883a4ea2a4b1101fefecdc1ced9668f802a396f67fc9572d935761bf77e7aaad1 Homepage: https://cran.r-project.org/package=beans Description: CRAN Package 'beans' (Data on Dried Beans) These data contain morphological image measurements for dried beans from Koklu and Ozkan (2020) . Package: r-cran-bearishtrader Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bearishtrader_1.0.2-1.ca2004.1_all.deb Size: 186748 MD5sum: e1867537bba502a71cc80d41bddeaabd SHA1: 66142e74a04e3ddde51e3e234c4707f88d39e674 SHA256: 28ba0dac9091c7d1f2d2aa757cc4a87e82ea98c0a4d9454ba54c62366d0f32c1 SHA512: b28822c9e5fc04628fa2627990adfb3d7fe4de76f0b84515e3a81f4951f35722c5babd64ce6b309428b588b05d3ae2cff71b7f200e96b15899fdf919b252670a Homepage: https://cran.r-project.org/package=bearishTrader Description: CRAN Package 'bearishTrader' (Trading Strategies for Bearish Outlook) Stock, Options and Futures Trading Strategies for Traders and Investors with Bearish Outlook. The indicators, strategies, calculations, functions and all other discussions are for academic, research, and educational purposes only and should not be construed as investment advice and come with absolutely no Liability. Guy Cohen (“The Bible of Options Strategies (2nd ed.)”, 2015, ISBN: 9780133964028). Juan A. Serur, Juan A. Serur (“151 Trading Strategies”, 2018, ISBN: 9783030027919). Chartered Financial Analyst Institute ("Chartered Financial Analyst Program Curriculum 2020 Level I Volumes 1-6. (Vol. 5, pp. 385-453)", 2019, ISBN: 9781119593577). John C. Hull (“Options, Futures, and Other Derivatives (11th ed.)”, 2022, ISBN: 9780136939979). Package: r-cran-beast Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 333 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-beast_1.1-1.ca2004.1_all.deb Size: 307076 MD5sum: 84e861a08ca5c2f33543696ce116b06a SHA1: ee455e92250fe49fb93b7e21693105c0c29f9d3a SHA256: a9d907f8a93dd2ce6e89a9ead62fa90768ffb1f83d3acc4e9dd3ea8e4eb3d280 SHA512: fd6cdbe988919eeba6d88ff04734f9f038314cdcb3691a6bfaf14b30f87729ccb75090e85092037bb2318395c30821c69d0c506b2910374c1773309e4b36a566 Homepage: https://cran.r-project.org/package=beast Description: CRAN Package 'beast' (Bayesian Estimation of Change-Points in the Slope ofMultivariate Time-Series) Assume that a temporal process is composed of contiguous segments with differing slopes and replicated noise-corrupted time series measurements are observed. 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'BEAST2' is a command-line tool. This package provides a way to call 'BEAST2' from an 'R' function call. Package: r-cran-beastjar Architecture: all Version: 1.10.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7970 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjava Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-beastjar_1.10.6-1.ca2004.1_all.deb Size: 7238884 MD5sum: 6e077d4a5bfafa0e069a4d891841d6fa SHA1: ea5f42492f3d269d7788e6902d436c87a8886dee SHA256: 8de84d9272a7c416340bbc9197816f814c732812d21123c5bfbe73ed7f740611 SHA512: d00ecc0b745bafab48f269cbd86450203898e59d24455efed62c03f8834d1324f22aeda9962f2c6dd5979aa35d7212a2e2f886d3406ae8db06aef7bbc73c30fa Homepage: https://cran.r-project.org/package=BeastJar Description: CRAN Package 'BeastJar' (JAR Dependency for MCMC Using 'BEAST') Provides JAR to perform Markov chain Monte Carlo (MCMC) inference using the popular Bayesian Evolutionary Analysis by Sampling Trees 'BEAST' software library of Suchard et al (2018) . 'BEAST' supports auto-tuning Metropolis-Hastings, slice, Hamiltonian Monte Carlo and Sequential Monte Carlo sampling for a large variety of composable standard and phylogenetic statistical models using high performance computing. By placing the 'BEAST' JAR in this package, we offer an efficient distribution system for 'BEAST' use by other R packages using CRAN. Package: r-cran-beastt Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 566 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-cobalt, r-cran-dplyr, r-cran-generics, r-cran-ggplot2, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-distributional, r-cran-tidyr, r-cran-ggdist, r-cran-mixtools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-beastt_0.0.1-1.ca2004.1_all.deb Size: 350156 MD5sum: d52d7959890d19d2d42931dd250c949e SHA1: 7842edf2418fdf018a0e86747d1c0a63cb3f1754 SHA256: e1d9012f649c8759f5ee1663bd4c17bccb6348e37a7e0e45084461429e26d8d2 SHA512: ff6e5adab2ecdac64e853f029b0cbbd1bfc723b999b0fa33b1ecbc3034359f7e1256c56a0df30af9566ee9ff6ee79c241768a6bd926dbedb2db0124335b5e212 Homepage: https://cran.r-project.org/package=beastt Description: CRAN Package 'beastt' (Bayesian Evaluation, Analysis, and Simulation Software Tools forTrials) Bayesian dynamic borrowing with covariate adjustment via inverse probability weighting for simulations and data analyses in clinical trials. This makes it easy to use propensity score methods to balance covariate distributions between external and internal data. Package: r-cran-beautier Architecture: all Version: 2.6.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4747 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ape, r-cran-rappdirs, r-cran-purrr, r-cran-rlang, r-cran-seqinr, r-cran-stringr Suggests: r-cran-knitr, r-cran-markdown, r-cran-readr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-beautier_2.6.12-1.ca2004.1_all.deb Size: 1690868 MD5sum: feb9579db182c1b4079f794a521bb2fb SHA1: c1255f5e11e250e6f4264ff6acdf79fb3a654a0d SHA256: 6a4ce19fda18b08bbea00b5f3608d09660fb9ac1e8b7c00f0f939550853dc31c SHA512: b50336fd114eed0b9e196dccdfd63cf6c108e106ff906bb995c146b26143749792d3d690a0cefad63fc023d612ce6fd89264b9d822a22f3325ddbbd7fb3d34e1 Homepage: https://cran.r-project.org/package=beautier Description: CRAN Package 'beautier' ('BEAUti' from R) 'BEAST2' () is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAUti 2' (which is part of 'BEAST2') is a GUI tool that allows users to specify the many possible setups and generates the XML file 'BEAST2' needs to run. This package provides a way to create 'BEAST2' input files without active user input, but using R function calls instead. Package: r-cran-beaver Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-dplyr, r-cran-ellipsis, r-cran-fs, r-cran-ggplot2, r-cran-purrr, r-cran-rjags, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-yodel Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-beaver_1.0.0-1.ca2004.1_all.deb Size: 210888 MD5sum: 6210652395db6199c7c987773eec6783 SHA1: 6ce54b302417d552ddbf025c4fe09b03208275b1 SHA256: ed159894cc3ff378b65d0a03c813a063d3526a4548b59a2581cea27c529d0c88 SHA512: 723d9722e6e60a8313b20fc09b4c4550e1fcd797043da280592fb8c445b56c3b3c7580a9b4b0507c6b678608a4fbaa5c4dd6694dfdaab1e69e77097909a787b7 Homepage: https://cran.r-project.org/package=beaver Description: CRAN Package 'beaver' (Bayesian Model Averaging of Covariate Adjusted Negative-BinomialDose-Response) Dose-response modeling for negative-binomial distributed data with a variety of dose-response models. Covariate adjustment and Bayesian model averaging is supported. Functions are provided to easily obtain inference on the dose-response relationship and plot the dose-response curve. Package: r-cran-bed Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3278 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-readr, r-cran-stringr, r-cran-shiny, r-cran-dt, r-cran-miniui, r-cran-rstudioapi Suggests: r-cran-knitr, r-cran-rmarkdown, r-bioc-biomart, r-bioc-geoquery, r-cran-base64enc, r-cran-htmltools, r-cran-webshot2, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-bed_1.6.0-1.ca2004.1_all.deb Size: 1574996 MD5sum: 0daa6928589cf9aa9e09790ad32f8cf5 SHA1: f7248a11805878e92eef8a3e78f9e8e08608ca95 SHA256: 5e4908c7c6e4025305c5b10c42aad5d479b5041d200186f506d558ab337f5b38 SHA512: 68f0c1ad28ebb665c3371c2e245074c494957919f378b997b223aa47140ee7c8288234bd6c609a329f23a3abbd231534e4c69bfa22565efe299098072bb19ab7 Homepage: https://cran.r-project.org/package=BED Description: CRAN Package 'BED' (Biological Entity Dictionary (BED)) An interface for the 'Neo4j' database providing mapping between different identifiers of biological entities. This Biological Entity Dictionary (BED) has been developed to address three main challenges. The first one is related to the completeness of identifier mappings. Indeed, direct mapping information provided by the different systems are not always complete and can be enriched by mappings provided by other resources. More interestingly, direct mappings not identified by any of these resources can be indirectly inferred by using mappings to a third reference. For example, many human Ensembl gene ID are not directly mapped to any Entrez gene ID but such mappings can be inferred using respective mappings to HGNC ID. The second challenge is related to the mapping of deprecated identifiers. Indeed, entity identifiers can change from one resource release to another. The identifier history is provided by some resources, such as Ensembl or the NCBI, but it is generally not used by mapping tools. The third challenge is related to the automation of the mapping process according to the relationships between the biological entities of interest. Indeed, mapping between gene and protein ID scopes should not be done the same way than between two scopes regarding gene ID. Also, converting identifiers from different organisms should be possible using gene orthologs information. The method has been published by Godard and van Eyll (2018) . Package: r-cran-bedassle Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 268 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-matrixcalc, r-cran-emdbook Filename: pool/dists/focal/main/r-cran-bedassle_1.6.1-1.ca2004.1_all.deb Size: 233288 MD5sum: 2ea2ec4e62736b011821c3bc44c8f5ea SHA1: ca1ba7cc6e6766dc62c1ef9d18111a7405957197 SHA256: cc915d9df4f665e075d3809fde57e739c256a893ee3ac84fdffeb881344c63d3 SHA512: a75dbca81cf290f16f24aa985a96c5130cce43d08e5a383f934561a99da373d4c88e3acecba608a23ee2c1b6973f3b96aeb6e8159aedccf73d42c51fed68ecae Homepage: https://cran.r-project.org/package=BEDASSLE Description: CRAN Package 'BEDASSLE' (Quantifies Effects of Geo/Eco Distance on GeneticDifferentiation) Provides functions that allow users to quantify the relative contributions of geographic and ecological distances to empirical patterns of genetic differentiation on a landscape. Specifically, we use a custom Markov chain Monte Carlo (MCMC) algorithm, which is used to estimate the parameters of the inference model, as well as functions for performing MCMC diagnosis and assessing model adequacy. Package: r-cran-bedr Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1281 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-testthat, r-cran-venndiagram, r-cran-data.table, r-cran-r.utils, r-cran-yaml Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bedr_1.1.3-1.ca2004.1_all.deb Size: 1039728 MD5sum: e32a648fc1a14ba96a3b968ccb1a454d SHA1: a416308f61244fa9ec59cb4f548f1adf5b4f2960 SHA256: 14c569d9d4f3a1d377e27fafacb13b406e712f3fc40a87fa070d36f3a9054c9b SHA512: 911a99711564c3ed6a236a8a0ab21598a5c1c2b4b04d02a13160a2208831e9af650ed4ee362769f923032d868a07e45cacbe77fd65023d7dab55ad0cd7fd453f Homepage: https://cran.r-project.org/package=bedr Description: CRAN Package 'bedr' (Genomic Region Processing using Tools Such as 'BEDTools','BEDOPS' and 'Tabix') Genomic regions processing using open-source command line tools such as 'BEDTools', 'BEDOPS' and 'Tabix'. These tools offer scalable and efficient utilities to perform genome arithmetic e.g indexing, formatting and merging. bedr API enhances access to these tools as well as offers additional utilities for genomic regions processing. Package: r-cran-beebdc Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3297 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-circlize, r-cran-coordinatecleaner, r-cran-cowplot, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-ggspatial, r-cran-here, r-cran-igraph, r-cran-lubridate, r-cran-mgsub, r-cran-openxlsx, r-cran-paletteer, r-cran-readr, r-cran-rnaturalearth, r-cran-sf, r-cran-stringr, r-cran-tidyselect Suggests: r-cran-bdc, r-cran-biocmanager, r-cran-classint, r-bioc-complexheatmap, r-cran-countrycode, r-cran-devtools, r-cran-emld, r-cran-formatr, r-cran-galah, r-cran-htmltools, r-cran-htmlwidgets, r-cran-httr, r-cran-janitor, r-cran-knitr, r-cran-leaflet, r-cran-magrittr, r-cran-pkgdown, r-cran-plotly, r-cran-prettydoc, r-cran-purrr, r-cran-r.utils, r-cran-renv, r-cran-rgnparser, r-cran-rlang, r-cran-rmarkdown, r-cran-rmdformats, r-cran-rnaturalearthdata, r-cran-rvest, r-cran-taxadb, r-cran-terra, r-cran-testthat, r-cran-tidyr, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-beebdc_1.2.1-1.ca2004.1_all.deb Size: 2346680 MD5sum: 60b512d9041458d6b1f68fe2af798286 SHA1: ece1403774913f82c40f7f3ce0f3dcc85c6988a7 SHA256: d07a14327ca27a1e8f1ff3b9e0cd4c83f183b7c9cad8b4dbb1862fb949e030d5 SHA512: 0e372b08a9b466941c3dca448f41920ad420f99d54ec718eaf33e51f80c429233f8fc956af6ef1ff63f7ecb78d184ec0fd2744b9b551b51959e9393fade3c4ba Homepage: https://cran.r-project.org/package=BeeBDC Description: CRAN Package 'BeeBDC' (Occurrence Data Cleaning) Flags and checks occurrence data that are in Darwin Core format. 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The package supports scoring of the 27-Item Monetary Choice Questionnaire (see Kaplan et al., 2016; ), calculating k values (Mazur's simple hyperbolic and exponential) using nonlinear regression, calculating various Area Under the Curve (AUC) measures, plotting regression curves for both fit-to-group and two-stage approaches, checking for unsystematic discounting (Johnson & Bickel, 2008; ) and scoring of the minute discounting task (see Koffarnus & Bickel, 2014; ) using the Qualtrics 5-trial discounting template (see the Qualtrics Minute Discounting User Guide; ), which is also available as a .qsf file in this package. 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Package: r-cran-behaviorchange Architecture: all Version: 0.5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4033 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-biasedurn, r-cran-data.tree, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-ggplot2, r-cran-googlesheets4, r-cran-gridextra, r-cran-gtable, r-cran-knitr, r-cran-rmdpartials, r-cran-ufs, r-cran-viridis, r-cran-yum Suggests: r-cran-htmltools, r-cran-kableextra, r-cran-openxlsx, r-cran-png, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-rsvg, r-cran-webshot Filename: pool/dists/focal/main/r-cran-behaviorchange_0.5.5-1.ca2004.1_all.deb Size: 1756232 MD5sum: caaeefaf51f43e8bbe125cfd01eb5482 SHA1: 3d8065a66747c7be256415dbf27e492449fe7719 SHA256: 38919b19e1b25b4286380308b46c10bdec40102d24ae4be2099b0e597e1cd0ab SHA512: 150b66284f21fe45a627250c8d8e3d55bdd13b4ab9f40b107e3d1dee3ae74939d6bfacb11cf3e461028a1d762c834771cecacd1cd0cb49ae3d85efca9dab9ae6 Homepage: https://cran.r-project.org/package=behaviorchange Description: CRAN Package 'behaviorchange' (Tools for Behavior Change Researchers and Professionals) Contains specialised analyses and visualisation tools for behavior change science. These facilitate conducting determinant studies (for example, using confidence interval-based estimation of relevance, CIBER, or CIBERlite plots, see Crutzen, Noijen & Peters (2017) ), systematically developing, reporting, and analysing interventions (for example, using Acyclic Behavior Change Diagrams), and reporting about intervention effectiveness (for example, using the Numbers Needed for Change, see Gruijters & Peters (2017) ), and computing the required sample size (using the Meaningful Change Definition, see Gruijters & Peters (2020) ). This package is especially useful for researchers in the field of behavior change or health psychology and to behavior change professionals such as intervention developers and prevention workers. 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The functions use bioequivalence data [area under the blood concentration-time curve (AUC) and peak concentration (Cmax)] from various crossover designs commonly used in BE studies including a fully replicated, a partially replicated design, and a conventional 2x2 crossover design. They will calculate the profile likelihoods for the mean difference, total standard deviation ratio, and within subject standard deviation ratio for a test and a reference drug. A plot of a standardized profile likelihood can be generated along with the maximum likelihood estimate and likelihood intervals, which present evidence for bioequivalence. See Liping Du and Leena Choi (2015) . 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Act as a data-hacker and find Slawomir Pietraszko's credentials to the Proton server. In proton you have to solve four data-based puzzles to find the login and password. There are many ways to solve these puzzles. You may use loops, data filtering, ordering, aggregation or other tools. Only basics knowledge of R is required to play the game, yet the more functions you know, the more approaches you can try. In frequon you will help to perform statistical cryptanalytic attack on a corpus of ciphered messages. This time seven sub-tasks are pushing the bar much higher. Do you accept the challenge? In regression you will test your modeling skills in a series of eight sub-tasks. Try only if ANOVA is your close friend. It's a part of Beta and Bit project. You will find more about the Beta and Bit project at . 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Package: r-cran-bgfd Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 282 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-adequacymodel Filename: pool/dists/focal/main/r-cran-bgfd_0.1-1.ca2004.1_all.deb Size: 234688 MD5sum: ac63a1240822022a95573f8d52bc7d54 SHA1: d98a869763c28d5c24e0e4caeccc9ae8d52e62c3 SHA256: 601a03133a5b68d1c3ffabf2868db2cc759d7ac75bbc3d11c09e763e0a8b5e69 SHA512: 6ac9c618d9fb6aa3afa44c9a06732ea383bda96a0669ec35a2ae175010f52e52758a8528019b578840a3ca6c9684d3dff8260b11dc7a6e86560ef5d3f57e42d0 Homepage: https://cran.r-project.org/package=BGFD Description: CRAN Package 'BGFD' (Bell-G and Complementary Bell-G Family of Distributions) Evaluates the probability density function, cumulative distribution function, quantile function, random numbers, survival function, hazard rate function, and maximum likelihood estimates for the following distributions: Bell exponential, Bell extended exponential, Bell Weibull, Bell extended Weibull, Bell-Fisk, Bell-Lomax, Bell Burr-XII, Bell Burr-X, complementary Bell exponential, complementary Bell extended exponential, complementary Bell Weibull, complementary Bell extended Weibull, complementary Bell-Fisk, complementary Bell-Lomax, complementary Bell Burr-XII and complementary Bell Burr-X distribution. Related work includes: a) Fayomi A., Tahir M. H., Algarni A., Imran M. and Jamal F. (2022). "A new useful exponential model with applications to quality control and actuarial data". Computational Intelligence and Neuroscience, 2022. . b) Alanzi, A. R., Imran M., Tahir M. H., Chesneau C., Jamal F. Shakoor S. and Sami, W. (2023). "Simulation analysis, properties and applications on a new Burr XII model based on the Bell-X functionalities". AIMS Mathematics, 8(3): 6970-7004. . c) Algarni A. (2022). "Group Acceptance Sampling Plan Based on New Compounded Three-Parameter Weibull Model". Axioms, 11(9): 438. . 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Package: r-cran-biascorrector Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-dt, r-cran-magrittr, r-cran-rbiascorrection, r-cran-shiny, r-cran-shinydashboard, r-cran-shinyjs Suggests: r-cran-lintr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-biascorrector_0.2.3-1.ca2004.1_all.deb Size: 167784 MD5sum: c3a63121a8d9c86715d1d9676ce88782 SHA1: 4d72af2eb996bc5dbae4dfec2f53c69763e3cf5e SHA256: 99dbd1f5d6e1ee5c2bf6fd39f4d47ba4ca676fa22f5519fda7bdaa8008626189 SHA512: 5f3ae31264c14901e42cfa2cb3864c1f434e780514422af291c194ac9ddd1b0448b91c668d37c5f76e96a235135b87294e823f58ddd6f89c4126e86541291e3d Homepage: https://cran.r-project.org/package=BiasCorrector Description: CRAN Package 'BiasCorrector' (A GUI to Correct Measurement Bias in DNA Methylation Analyses) A GUI to correct measurement bias in DNA methylation analyses. The 'BiasCorrector' package just wraps the functions implemented in the 'R' package 'rBiasCorrection' into a shiny web application in order to make them more easily accessible. Publication: Kapsner et al. (2021) . Package: r-cran-bib2df Architecture: all Version: 1.1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-stringr, r-cran-humaniformat, r-cran-httr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-bib2df_1.1.2.0-1.ca2004.1_all.deb Size: 65016 MD5sum: 9c56a08dc79ae2c532efa06edf0b1d87 SHA1: 555bed3dcfe04bc939fb16f05d9573d9155d951f SHA256: a88fc435e144d36691ed7e28a10fc9257249ffd9c517fbaa0af28276aba23ea5 SHA512: 50182e474cc6eae3ee8f4d89668907c1a288f57460c2c4404b6a53c6fe8d4859469532266630154d3d1a2bf2ab26df6f448aa6a5b62725fc3d21a94570947e8c Homepage: https://cran.r-project.org/package=bib2df Description: CRAN Package 'bib2df' (Parse a BibTeX File to a Data Frame) Parse a BibTeX file to a data.frame to make it accessible for further analysis and visualization. Package: r-cran-bibitr Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 833 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreign, r-cran-viridis, r-cran-cluster, r-cran-dendextend, r-cran-lattice, r-cran-randomcolor, r-cran-biclust Filename: pool/dists/focal/main/r-cran-bibitr_0.3.1-1.ca2004.1_all.deb Size: 448724 MD5sum: 03e85aeca1f4b1ddabcc63cdba9c4a02 SHA1: 55a91d00df9c3fa1b0539409f9d26df773c09381 SHA256: df0d756eb001a731a5266bda461c2e59e72e9af1e80933ca70261463467deea9 SHA512: 5e0e825e4d796aa4ed52fdd1429341a2c45447d7316847e24a7fc123094ff4c1261b45b287a7befbafbb8840fc00196e0e4c1d4f27d3a2570c526e9dab44f33b Homepage: https://cran.r-project.org/package=BiBitR Description: CRAN Package 'BiBitR' (R Wrapper for Java Implementation of BiBit) A simple R wrapper for the Java BiBit algorithm from "A biclustering algorithm for extracting bit-patterns from binary datasets" from Domingo et al. (2011) . An simple adaption for the BiBit algorithm which allows noise in the biclusters is also introduced as well as a function to guide the algorithm towards given (sub)patterns. Further, a workflow to derive noisy biclusters from discoverd larger column patterns is included as well. Package: r-cran-biblio Architecture: all Version: 0.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 665 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcrossref, r-cran-stringr, r-cran-yamlme Suggests: r-cran-covr, r-cran-devtools, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-biblio_0.0.10-1.ca2004.1_all.deb Size: 267840 MD5sum: 1ac7a775f54df1a421506ac5ec69fc6d SHA1: 9d4137132b9bd1fd1bef69e6b8594be7c7bf1fb2 SHA256: 90139592478fc5955460911cb688e427b7c6cf27c477a9d1e3298952523cdb62 SHA512: 9d71967eca251e8a5a3f772fddbe06e36d6f85be69e3de959ea9864d62da011887332f44550ddc40008c9312a330ca42bffeb9a9d2757dfe9dc65316ddd1941f Homepage: https://cran.r-project.org/package=biblio Description: CRAN Package 'biblio' (Interacting with BibTeX Databases) Reading and writing BibTeX files using data frames in R sessions. Package: r-cran-bibliometrix Architecture: all Version: 5.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3475 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bibliometrixdata, r-cran-dimensionsr, r-cran-dplyr, r-cran-dt, r-cran-ca, r-cran-forcats, r-cran-ggplot2, r-cran-ggrepel, r-cran-igraph, r-cran-matrix, r-cran-plotly, r-cran-openalexr, r-cran-openxlsx, r-cran-pubmedr, r-cran-purrr, r-cran-readr, r-cran-readxl, r-cran-rscopus, r-cran-shiny, r-cran-snowballc, r-cran-stringdist, r-cran-stringi, r-cran-stringr, r-cran-tidyr, r-cran-tidytext, r-cran-visnetwork Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-shinycssloaders, r-cran-wordcloud2 Filename: pool/dists/focal/main/r-cran-bibliometrix_5.0.1-1.ca2004.1_all.deb Size: 2584896 MD5sum: b7e1b4efb58793f2397971f9f73438d9 SHA1: 892f8c599a445964fab24c78f50aed48936c55d3 SHA256: f4241cda800471e2a016ef4a61db552df1087e7569bad72e1ec69122d5d21e83 SHA512: 722d0b71dbea175436103314f1aa93d26aff8acd3338b0d5ac46f28194ae919c509100dccce44b7c86cc38d5d8f5982934d212651d8b43aa940565d156416095 Homepage: https://cran.r-project.org/package=bibliometrix Description: CRAN Package 'bibliometrix' (Comprehensive Science Mapping Analysis) Tool for quantitative research in scientometrics and bibliometrics. It implements the comprehensive workflow for science mapping analysis proposed in Aria M. and Cuccurullo C. (2017) . 'bibliometrix' provides various routines for importing bibliographic data from 'SCOPUS', 'Clarivate Analytics Web of Science' (), 'Digital Science Dimensions' (), 'OpenAlex' (), 'Cochrane Library' (), 'Lens' (), and 'PubMed' () databases, performing bibliometric analysis and building networks for co-citation, coupling, scientific collaboration and co-word analysis. Package: r-cran-bibliometrixdata Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3892 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-bibliometrix Filename: pool/dists/focal/main/r-cran-bibliometrixdata_0.3.0-1.ca2004.1_all.deb Size: 3950568 MD5sum: 6a36232567bb92c506b67df3b719e7eb SHA1: 5931dd79f849364413266620a5f641a6015a756f SHA256: 6d81a5041351013a3d65a9a9cb973b47fa43edf5d44252d77dd016c6ae50493d SHA512: 4c0731e9f8be9be7a17b571085745b02da838e86fff3bb4acca223ae23fc2dca3afbc78f4684eaa2f0d50695ef8297064d6a32a481d670010d1d1e2c5d6b10a1 Homepage: https://cran.r-project.org/package=bibliometrixData Description: CRAN Package 'bibliometrixData' (Bibliometrix Example Datasets) It contains some example datasets used in 'bibliometrix'. The data are bibliographic datasets exported from the 'SCOPUS' () and 'Clarivate Analytics Web of Science' () databases. They can be used to test the different features of the package 'bibliometrix' (). Package: r-cran-biblionetwork Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-biblionetwork_0.1.0-1.ca2004.1_all.deb Size: 206780 MD5sum: 1dc6e9fc966ca48068fe01d455083752 SHA1: f317214b18a45c88598ac82150bd32f88c57ceb8 SHA256: 502a18d5a11994618fcbffb1d003e03eb737076acc964d2ac16d69c3bb752c1f SHA512: deeb1611ddf7dee3dff463b9b15cd6851a35853669c875575aed75aa709b24bbc70a6634c3a0fb79b9f6bf28cfe48bc18ca7188617030452c2e2315a95e3e6d3 Homepage: https://cran.r-project.org/package=biblionetwork Description: CRAN Package 'biblionetwork' (Create Different Types of Bibliometric Networks) Functions to find edges for bibliometric networks like bibliographic coupling network, co-citation network and co-authorship network. The weights of network edges can be calculated according to different methods, depending on the type of networks, the type of nodes, and what you want to analyse. These functions are optimized to be be used on large dataset. The package contains functions inspired by: Leydesdorff, Loet and Park, Han Woo (2017) ; Perianes-Rodriguez, Antonio, Ludo Waltman, and Nees Jan Van Eck (2016) ; Sen, Subir K. and Shymal K. Gan (1983) ; Shen, Si, Zhu, Danhao, Rousseau, Ronald, Su, Xinning and Wang, Dongbo (2019) ; Zhao, Dangzhi and Strotmann, Andreas (2008) . Package: r-cran-bibliorefer Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 904 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bibliorefer_0.1.1-1.ca2004.1_all.deb Size: 255072 MD5sum: 3962d0fae2ec35e529c692458576d603 SHA1: 30d50fe2b87b6ce772a753736b29f3fc1be3dde9 SHA256: dd2b404801ef1a4b87fb1b5800f3fba724ff8a4cd1e99a3530a9a6e9c59c2766 SHA512: d70dda04568da108f009549c8b8ea245da43d5aeb30502ff5b2fa0ac6da0c5f64372a4de765185139c95614bf9010caf7db489dcf8041d52f9c4e186bb08200e Homepage: https://cran.r-project.org/package=bibliorefer Description: CRAN Package 'bibliorefer' (Generator of Main Scientific References) Generates a list, with a size defined by the user, containing the main scientific references and the frequency distribution of authors and journals in the list obtained. The database is a dataframe with academic production metadata made available by bibliographic collections such as Scopus, Web of Science, etc. The temporal evolution of scientific production on a given topic is presented and ordered lists of articles are constructed by number of citations and of authors and journals by level of productivity. Massimo Aria, Corrado Cuccurullo. (2017) . Caibo Zhou, Wenyan Song. (2021) . Package: r-cran-biblioverlap Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 612 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggvenndiagram, r-cran-magrittr, r-cran-matrix, r-cran-rlang, r-cran-shiny, r-cran-stringdist, r-cran-upsetr, r-cran-uuid Suggests: r-cran-dt, r-cran-testthat Filename: pool/dists/focal/main/r-cran-biblioverlap_1.0.2-1.ca2004.1_all.deb Size: 529128 MD5sum: 2f5df0db44dd888a4cbfadca329e041b SHA1: 96681432742409e510a850f1a3545dccb49c2c88 SHA256: e468946230335c4708bc1b33832c2dbb35e3c3b67dcb108d4a03211975ac41c9 SHA512: 40d8c7fb3d89e1b667356165b835a28d32fedd080f71737fa93e72f5ed7e37a0256aeda534f208cc9b48f3b1f5dd0bd6c43489ea7349fecdd86e55be4ebc4eb7 Homepage: https://cran.r-project.org/package=biblioverlap Description: CRAN Package 'biblioverlap' (Document-Level Matching Between Bibliographic Datasets) Identifies and visualizes document overlap in any number of bibliographic datasets. This package implements the identification of overlapping documents through the exact match of a unique identifier (e.g. Digital Object Identifier - DOI) and, for records where the identifier is absent, through a score calculated from a set of fields commonly found in bibliographic datasets (Title, Source, Authors and Publication Year). Additionally, it provides functions to visualize the results of the document matching through a Venn diagram and/or UpSet plot, as well as a summary of the matching procedure. Package: r-cran-bibplots Architecture: all Version: 0.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bibplots_0.0.8-1.ca2004.1_all.deb Size: 73980 MD5sum: 282e6edeff0edfce2c8ae6ff6cfeb97e SHA1: 84cf0f8360e69774391491962fb5c4ee8bcff783 SHA256: 6f4124b05ea7f86ee43cd1f7e72082ab136be04574928ade8a36ad3ea42fe88b SHA512: c92a0c63d70a9603fdedc891209c9bdbaf64b87c9a3268c20e7662b329c2da068053ba806314d762c4d6066dec8968f7c3687d41a9e0c696f84b5ff44c4f4b24 Homepage: https://cran.r-project.org/package=BibPlots Description: CRAN Package 'BibPlots' (Plot Functions for Use in Bibliometrics) Currently, the package provides several functions for plotting and analyzing bibliometric data (JIF, Journal Impact Factor, and paper percentile values), beamplots with citations and percentiles, and three plot functions to visualize the result of a reference publication year spectroscopy (RPYS) analysis performed in the free software 'CRExplorer' (see ). Further extension to more plot variants is planned. Package: r-cran-bibs Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gigrvg Filename: pool/dists/focal/main/r-cran-bibs_1.1.1-1.ca2004.1_all.deb Size: 74484 MD5sum: f60c7a8b35595e81b59ab8ad55a5edb6 SHA1: 2f43814bc59774bf7b71d583f8a122b86dcae008 SHA256: 1bd4b639ced23e884a6010e93a1cb26ef3ceba262403437a134b8439f0703b8b SHA512: 5fa45105b6ae08f654e992dfc33fb430f8c630dd518c945e2d930db9d7cdc36ba9e6e33347aac5cd0c88b09403a2cd298603c9e9f0fc8fa0265bba0468d51523 Homepage: https://cran.r-project.org/package=bibs Description: CRAN Package 'bibs' (Bayesian Inference for the Birnbaum-Saunders Distribution) Developed for the following tasks. 1- Simulating and computing the maximum likelihood estimator for the Birnbaum-Saunders (BS) distribution, 2- Computing the Bayesian estimator for the parameters of the BS distribution based on reference prior proposed by Xu and Tang (2010) and conjugate prior. 3- Computing the Bayesian estimator for the BS distribution based on conjugate prior. 4- Computing the Bayesian estimator for the BS distribution based on Jeffrey prior given by Achcar (1993) 5- Computing the Bayesian estimator for the BS distribution under progressive type-II censoring scheme. Package: r-cran-bibtex Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 182 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-backports Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bibtex_0.5.1-1.ca2004.1_all.deb Size: 68592 MD5sum: a3760d4b983dda2598c08981ea349581 SHA1: bb5956008fc3eaa299bec304c50b632047eb662f SHA256: 0e0199a428547d06e544844529171b8f5f32707c90129153e72025464c080c44 SHA512: 9dcdfbee4879381277b2884911e924bf08325819b5bbd61df1b9c30f71188b98bf7e8b0ab23aeda02cf993e078ea71cfba06135524ec06747a1dca448691204e Homepage: https://cran.r-project.org/package=bibtex Description: CRAN Package 'bibtex' (Bibtex Parser) Utility to parse a bibtex file. Package: r-cran-bicausality Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 187 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-igraph Filename: pool/dists/focal/main/r-cran-bicausality_0.1.4-1.ca2004.1_all.deb Size: 135804 MD5sum: 166a9cd69b5ce7a0d2566c6780e4afeb SHA1: 410d8ba0ab9dd89358929a05a1c70c52dedb71de SHA256: 3992e5ccaa1984622b868b63c1c035a790c694624d18ad671b19771c76b9799d SHA512: 4f6d11f3ffeedb9d7b2549e1f10bb24d913d8ebfe0503e2b9287a1a5c63095539cf8bda8d54d35e91cf1f674f90681bd8b1c7a2d259f5b32bbc3330ad2c159c3 Homepage: https://cran.r-project.org/package=BiCausality Description: CRAN Package 'BiCausality' (Binary Causality Inference Framework) A framework to infer causality on binary data using techniques in frequent pattern mining and estimation statistics. Given a set of individual vectors S={x} where x(i) is a realization value of binary variable i, the framework infers empirical causal relations of binary variables i,j from S in a form of causal graph G=(V,E) where V is a set of nodes representing binary variables and there is an edge from i to j in E if the variable i causes j. The framework determines dependency among variables as well as analyzing confounding factors before deciding whether i causes j. The publication of this package is at Chainarong Amornbunchornvej, Navaporn Surasvadi, Anon Plangprasopchok, and Suttipong Thajchayapong (2023) . Package: r-cran-biclustermd Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 537 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-tidyr, r-cran-biclust, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-magrittr, r-cran-nycflights13, r-cran-phyclust Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-biclustermd_0.2.3-1.ca2004.1_all.deb Size: 367684 MD5sum: 73ccabe96d766c5ba08bc227adacc7ba SHA1: 9c9d2467d41716fef1b2d18f9929355c12063d3f SHA256: 4bb9bb9e45e9850613e4e5822c1bd6961b8f8068efc6b923a9763eabb193a85a SHA512: f3dae097036b0aa973c1e2bc1a9bd642b863d730fa653e48c31cff93c31eaffd9031f8ec0ca3273aac8cc985a9065b651ce260ee4a11b217bac0ba75ce878dd8 Homepage: https://cran.r-project.org/package=biclustermd Description: CRAN Package 'biclustermd' (Biclustering with Missing Data) Biclustering is a statistical learning technique that simultaneously partitions and clusters rows and columns of a data matrix. Since the solution space of biclustering is in infeasible to completely search with current computational mechanisms, this package uses a greedy heuristic. The algorithm featured in this package is, to the best our knowledge, the first biclustering algorithm to work on data with missing values. Li, J., Reisner, J., Pham, H., Olafsson, S., and Vardeman, S. (2020) Biclustering with Missing Data. Information Sciences, 510, 304–316. Package: r-cran-bicorn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bicorn_0.1.0-1.ca2004.1_all.deb Size: 74972 MD5sum: caeabe3f0664ad0593eae56dc05ede05 SHA1: 2611d58818393686ac6f3bb0faa13d330087a556 SHA256: 95dd185e4ba961634d9140a00d2cd2505df068173b77e29a1ee04397fb9b6403 SHA512: 533c911fde858960627f680d118b5f2db70d514447d51f71c0771f409b511281d95f41cb3b08fab05606aef9d762d78ee50f23591abc5d1925a7ada831921ed0 Homepage: https://cran.r-project.org/package=BICORN Description: CRAN Package 'BICORN' (Integrative Inference of De Novo Cis-Regulatory Modules) Prior transcription factor binding knowledge and target gene expression data are integrated in a Bayesian framework for functional cis-regulatory module inference. Using Gibbs sampling, we iteratively estimate transcription factor associations for each gene, regulation strength for each binding event and the hidden activity for each transcription factor. Package: r-cran-bidask Architecture: all Version: 2.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2213 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table Suggests: r-cran-xts, r-cran-zoo, r-cran-dplyr, r-cran-crypto2, r-cran-quantmod, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bidask_2.1.4-1.ca2004.1_all.deb Size: 1143916 MD5sum: 24c2dabb8f865f7e6cfe9695850165bb SHA1: 984a2b61d58d7b8a9ff26d113e0487cd8c3f11ba SHA256: a5c0933b087ef27a1b7db1da99fe664827386d168dbb4cca653002783bb0aef3 SHA512: 18a9c2c3b415608b6c8fddbde42e7e6c4e76e092802942f8143df23d92c8a48b8b481b263ef88e6f3621a25822ee6a3e0767a0bc76cdd416c90ae2e38454ddab Homepage: https://cran.r-project.org/package=bidask Description: CRAN Package 'bidask' (Efficient Estimation of Bid-Ask Spreads from Open, High, Low,and Close Prices) Implements the efficient estimator of bid-ask spreads from open, high, low, and close prices described in Ardia, Guidotti, & Kroencke (JFE, 2024) . It also provides an implementation of the estimators described in Roll (JF, 1984) , Corwin & Schultz (JF, 2012) , and Abdi & Ranaldo (RFS, 2017) . Package: r-cran-bidimregression Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 204 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-bidimregression_2.0.1-1.ca2004.1_all.deb Size: 127952 MD5sum: 263866960cf9c1d0dfa388fa0f72b9de SHA1: ce73eb7e1a65cafadd8dedee5f49ee8af5020cc2 SHA256: 04a68e1b5b3bec626c9f8850a4ec77126d41375255629b151fe5a80ff21ca195 SHA512: 29f960628e694eee36585ce017d143422cc88b292bd7d3587a63b7cf75a1ac5576d5c65fed154c84451b4af693a8fe69ae802c30fbd0bfc0710e4140dbf5f2b4 Homepage: https://cran.r-project.org/package=BiDimRegression Description: CRAN Package 'BiDimRegression' (Calculates the Bidimensional Regression Between Two 2DConfigurations) Calculates the bidimensional regression between two 2D configurations following the approach by Tobler (1965). 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(2016) . Provides query functions to extract and check the 'BIDS' entity information (such as subject, session, task, etc.) from the file paths and suffixes according to the specification. The package is developed and used in the reproducible analysis and visualization of intracranial electroencephalography, or 'RAVE', see Magnotti, J. F., Wang, Z., and Beauchamp, M. S. (2020) ; see 'citation("bidsr")' for details and attributions. 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This package is an R version of the 'Excel' based 'Bifactor Indices Calculator' (Dueber, 2017) with added convenience features for directly utilizing output from several programs that can fit confirmatory factor analysis or item response models. Package: r-cran-bifurcatingr Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1439 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fmultivar Suggests: r-cran-igraph, r-cran-mass, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bifurcatingr_2.1.0-1.ca2004.1_all.deb Size: 853236 MD5sum: 8ce046d4fb43ce23bea05ffc2178b808 SHA1: 5150a683e035c85143c28eb0819b7fa608273a05 SHA256: 8c3003fba335e74b974a3f7551f2143278a86d24edcfd1e0ca39132a3084431b SHA512: e8878560d07055726aa0680850cbbd9e8f1a9b0d90be349f352e1b602ff621da61d222a2344fb4e70909fdd76770299bc0f892531f843743b5d75932942c1bd5 Homepage: https://cran.r-project.org/package=bifurcatingr Description: CRAN Package 'bifurcatingr' (Bifurcating Autoregressive Models) Estimation of bifurcating autoregressive models of any order, p, BAR(p) as well as several types of bias correction for the least squares estimators of the autoregressive parameters as described in Zhou and Basawa (2005) and Elbayoumi and Mostafa (2020) . 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Handle chess data and chess aggregated data, count figure moves statistics, create player profile, plot winning chances, browse openings. Set of functions of R API to communicate with UCI-protocol based chess engines. 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Performs association tests at multiple levels of polymorphism (haplotype, locus and HLA amino-acids) as described in Pappas DJ, Marin W, Hollenbach JA, Mack SJ (2016) . Combines rare variants to a common class to account for sparse cells in tables as described by Hollenbach JA, Mack SJ, Thomson G, Gourraud PA (2012) . 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Package: r-cran-bigdm Architecture: all Version: 0.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4933 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-crayon, r-cran-doparallel, r-cran-fastdummies, r-cran-foreach, r-cran-future, r-cran-future.apply, r-cran-geos, r-cran-mass, r-cran-matrix, r-cran-parallelly, r-cran-rcolorbrewer, r-cran-rdpack, r-cran-sf, r-cran-spatialreg, r-cran-spdep, r-cran-rlist Suggests: r-cran-bookdown, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tmap Filename: pool/dists/focal/main/r-cran-bigdm_0.5.6-1.ca2004.1_all.deb Size: 5004720 MD5sum: 3089760efbbc4c6bfca08848a16555fa SHA1: 4205e7e998df48137de0e81076e702be684442c9 SHA256: 6514450423fc4eef14408606bf4522c6b73c8d933b46dd8a6baed9e004b343b5 SHA512: 4dbf108a6ededb8d6d68200601606ef7a1d67960a5a4d0445ccaff5d4af1d2aea965de13a327cd1ccb087b4babd591ae33900c9e6b90556c4cedacb88807e9b6 Homepage: https://cran.r-project.org/package=bigDM Description: CRAN Package 'bigDM' (Scalable Bayesian Disease Mapping Models for High-DimensionalData) Implements several spatial and spatio-temporal scalable disease mapping models for high-dimensional count data using the INLA technique for approximate Bayesian inference in latent Gaussian models (Orozco-Acosta et al., 2021 ; Orozco-Acosta et al., 2023 and Vicente et al., 2023 ). The creation and develpment of this package has been supported by Project MTM2017-82553-R (AEI/FEDER, UE) and Project PID2020-113125RB-I00/MCIN/AEI/10.13039/501100011033. It has also been partially funded by the Public University of Navarra (project PJUPNA2001). Package: r-cran-bigl Architecture: all Version: 1.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4797 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-mass, r-cran-minpack.lm, r-cran-numderiv, r-cran-progress, r-cran-plotly, r-cran-robustbase, r-cran-scales, r-cran-nleqslv, r-cran-data.table, r-cran-lifecycle, r-cran-htmlwidgets, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-shiny, r-cran-dt Filename: pool/dists/focal/main/r-cran-bigl_1.9.3-1.ca2004.1_all.deb Size: 1400620 MD5sum: a675b8ecfc0ebe099653bb2342e5f28c SHA1: 0e870c720a2dc9f76f9d78daa16b71968efaaebe SHA256: 1a82d1f3557d20286e5c2dc05f9b88f26d0c9a15f65cd8b841a401c34f9cab42 SHA512: 8f78e963685407e7da305e856908cb117b109ff0ccd5d487586191f753a366c87ebe8eb96de8ee273c1810aa0b53c0335ca121614673dfdd2c3246ad16037d72 Homepage: https://cran.r-project.org/package=BIGL Description: CRAN Package 'BIGL' (Biochemically Intuitive Generalized Loewe Model) Response surface methods for drug synergy analysis. Available methods include generalized and classical Loewe formulations as well as Highest Single Agent methodology. Response surfaces can be plotted in an interactive 3-D plot and formal statistical tests for presence of synergistic effects are available. Implemented methods and tests are described in the article "BIGL: Biochemically Intuitive Generalized Loewe null model for prediction of the expected combined effect compatible with partial agonism and antagonism" by Koen Van der Borght, Annelies Tourny, Rytis Bagdziunas, Olivier Thas, Maxim Nazarov, Heather Turner, Bie Verbist & Hugo Ceulemans (2017) . Package: r-cran-bigleaf Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1128 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-robustbase, r-cran-solartime Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bigleaf_0.8.2-1.ca2004.1_all.deb Size: 1026920 MD5sum: fbedeb0abd5df09aca33260bdb6dadd8 SHA1: 3abbb93d8614668f6c364fd2d7e22fc8562452a8 SHA256: 5660319bd4e9e936c6fd91befc6bc6fbfa8294a989c2264e00d5aa8cb29ba562 SHA512: ad9d0c71d6d6546c419a3fe8efee863ec5fc66b1534262f0d984433055d3ef98e05caee57c5c7898884c52c95fa5885df5dee38e5e3f588d4484724632770e55 Homepage: https://cran.r-project.org/package=bigleaf Description: CRAN Package 'bigleaf' (Physical and Physiological Ecosystem Properties from EddyCovariance Data) Calculation of physical (e.g. aerodynamic conductance, surface temperature), and physiological (e.g. canopy conductance, water-use efficiency) ecosystem properties from eddy covariance data and accompanying meteorological measurements. Calculations assume the land surface to behave like a 'big-leaf' and return bulk ecosystem/canopy variables. Package: r-cran-bigmatch Architecture: all Version: 0.6.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 240 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rcbalance, r-cran-liqueuer, r-cran-plyr, r-cran-mvnfast Suggests: r-cran-optmatch Filename: pool/dists/focal/main/r-cran-bigmatch_0.6.4-1.ca2004.1_all.deb Size: 209148 MD5sum: 5c28ea739ee214753efafe04b83f97d9 SHA1: 3785aafbb82fd45a364765f8a89637935bb490e5 SHA256: de79b1cfb9c9eb22eac522696cabac2766e5a8df376fddabac956ada3c721cc3 SHA512: d2b5e507692fd87b17c0a7b1c6c1f796da6d2e7ffd2f28d1153f09f48d8e5d763021bce342bcaf2f6116868ee2aa4fcce92a96c90923ab7a096439d75f85afa1 Homepage: https://cran.r-project.org/package=bigmatch Description: CRAN Package 'bigmatch' (Making Optimal Matching Size-Scalable Using Optimal Calipers) Implements optimal matching with near-fine balance in large observational studies with the use of optimal calipers to get a sparse network. The caliper is optimal in the sense that it is as small as possible such that a matching exists. The main functions in the 'bigmatch' package are optcal() to find the optimal caliper, optconstant() to find the optimal number of nearest neighbors, and nfmatch() to find a near-fine balance match with a caliper and a restriction on the number of nearest neighbors. Yu, R., Silber, J. H., and Rosenbaum, P. R. (2020). . Package: r-cran-bigmds Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pracma, r-cran-svd, r-cran-corpcor Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bigmds_3.0.0-1.ca2004.1_all.deb Size: 68948 MD5sum: df930ed502dfd60ef6e2a7c0ec40a149 SHA1: 0a355eea5cd4c481e8fb80bd9c7ff58a5e970678 SHA256: f93e501fd7c92b9641865a88c1854b89ceed9f5697bb900b697d70cd07dae01b SHA512: c383579942701f64033072b3dff0631682b32ad65306948916c21d77435c93384f76d56d99eabb789ad32ec761888c5aa7525a11f885d730be7688e86102ed7f Homepage: https://cran.r-project.org/package=bigmds Description: CRAN Package 'bigmds' (Multidimensional Scaling for Big Data) MDS is a statistic tool for reduction of dimensionality, using as input a distance matrix of dimensions n × n. When n is large, classical algorithms suffer from computational problems and MDS configuration can not be obtained. With this package, we address these problems by means of six algorithms, being two of them original proposals: - Landmark MDS proposed by De Silva V. and JB. Tenenbaum (2004). - Interpolation MDS proposed by Delicado P. and C. Pachón-García (2021) (original proposal). - Reduced MDS proposed by Paradis E (2018). - Pivot MDS proposed by Brandes U. and C. Pich (2007) - Divide-and-conquer MDS proposed by Delicado P. and C. Pachón-García (2021) (original proposal). - Fast MDS, proposed by Yang, T., J. Liu, L. McMillan and W. Wang (2006). Package: r-cran-bigmemory.sri Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bigmemory.sri_0.1.8-1.ca2004.1_all.deb Size: 12352 MD5sum: 26ded90b00c9d7bfd908ed6445351b76 SHA1: 743ffc600c09b5a16f1ed7ea4fd5cadcf7389450 SHA256: 6daa9109cc7f93012f67f7e75d3d956ba692d94610821d93632593703ad9df00 SHA512: cee3d955adbd6164bffb435b3fd22deb10eb89e49013c630cabead47547d0ee70dd851e0dd3f838f8e1389c8598a414b0223d9fc46d3eb91613ac3e449bbaf5c Homepage: https://cran.r-project.org/package=bigmemory.sri Description: CRAN Package 'bigmemory.sri' (A Shared Resource Interface for Bigmemory Project Packages) A shared resource interface for the bigmemory and synchronicity packages. Package: r-cran-bigparallelr Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach, r-cran-bigassertr, r-cran-doparallel, r-cran-flock, r-cran-parallelly, r-cran-rhpcblasctl Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-bigparallelr_0.3.2-1.ca2004.1_all.deb Size: 41772 MD5sum: cbecd872bf613b58c35a63d0b8826d59 SHA1: 60a414b58ff98c950a4034b518cab6387b445d16 SHA256: 873abf45d748bdc15735a33ef9f142254b77377c1d40d12ea8a7d03d52a71994 SHA512: 22cc1bdccd16309c422f335713c4e5cd30b038408c40f8ae661f41285b4560bef8042df9b86a74a56649fa928679fa93df1225ee5fc1410755e9a9977fe45038 Homepage: https://cran.r-project.org/package=bigparallelr Description: CRAN Package 'bigparallelr' (Easy Parallel Tools) Utility functions for easy parallelism in R. Include some reexports from other packages, utility functions for splitting and parallelizing over blocks, and choosing and setting the number of cores used. Package: r-cran-bigqueryr Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-googleauthr, r-cran-googlecloudstorager, r-cran-jsonlite, r-cran-httr, r-cran-assertthat Suggests: r-cran-shiny, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-data.table, r-cran-purrr Filename: pool/dists/focal/main/r-cran-bigqueryr_0.5.0-1.ca2004.1_all.deb Size: 152180 MD5sum: 0791a21158e8083098881911cd6a5127 SHA1: 167e9dd8daa3600c20d6b6678303e7b5015279e3 SHA256: 09d368c181b653dd67fc9442572b836cf56d118bfda6614c87f3e02a063f474b SHA512: c40ac0cb2facfb8080af078bb0282a08139b14fa233bf0d6ef6e45b7b51fab0777c910b10e0cbede05444829a56ed92fb020686ecaba919d611a9e4881a14779 Homepage: https://cran.r-project.org/package=bigQueryR Description: CRAN Package 'bigQueryR' (Interface with Google BigQuery with Shiny Compatibility) Interface with 'Google BigQuery', see for more information. 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Package: r-cran-bigr Architecture: all Version: 0.5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2783 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-rdpack, r-cran-readr, r-cran-reshape2, r-cran-tidyr, r-cran-vcfr, r-bioc-rsamtools, r-bioc-biostrings, r-bioc-pwalign, r-cran-janitor, r-cran-quadprog, r-cran-tibble Suggests: r-cran-covr, r-cran-spelling, r-cran-rmdformats, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bigr_0.5.5-1.ca2004.1_all.deb Size: 1230176 MD5sum: 9a5b16a7028e1edfdd47f6ff9599a9eb SHA1: c2d237764a114210c3f450208d8ee5b79a8e078d SHA256: dbbdc0b83b77a19b8fd98be07a46845263e48b1b35c96691221c5c8b42b37c50 SHA512: 5e08446c6b5dfa64ff446bb58c71ac15584eb43fad90a7645ca5a6529a67d93475e18610e79502cec0a24c090cfe76b1b638dbe5bbe8276e71997cb3710a40f3 Homepage: https://cran.r-project.org/package=BIGr Description: CRAN Package 'BIGr' (Breeding Insight Genomics Functions for Polyploid and DiploidSpecies) Functions developed within Breeding Insight to analyze diploid and polyploid breeding and genetic data. 'BIGr' provides the ability to filter variant call format (VCF) files, extract single nucleotide polymorphisms (SNPs) from diversity arrays technology missing allele discovery count (DArT MADC) files, and manipulate genotype data for both diploid and polyploid species. It also serves as the core dependency for the 'BIGapp' 'Shiny' app, which provides a user-friendly interface for performing routine genotype analysis tasks such as dosage calling, filtering, principal component analysis (PCA), genome-wide association studies (GWAS), and genomic prediction. For more details about the included 'breedTools' functions, see Funkhouser et al. (2017) , and the 'updog' output format, see Gerard et al. (2018) . Package: r-cran-bigsimr Architecture: all Version: 0.12.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-juliacall Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bigsimr_0.12.0-1.ca2004.1_all.deb Size: 22072 MD5sum: d5068dae40fc8de6053fe67e22ee8d19 SHA1: a8926c76792b054bbd3f6471717ba738d7e70262 SHA256: 3a9e2919264967effaf0541f7ad7e8bd42b065c6ea29854a72426fc344ccedcd SHA512: 850561e13e9ae5fdbb1a6193b89be1b4329335eb346e68043eecff5346ea578c9c4fd7e357c7164e27570b6c903c5aadd6d54522082280ad8969ce488338fef4 Homepage: https://cran.r-project.org/package=bigsimr Description: CRAN Package 'bigsimr' (Fast Generation of High-Dimensional Random Vectors) Simulate multivariate data with arbitrary marginal distributions. 'bigsimr' is a package for simulating high-dimensional multivariate data with a target correlation and arbitrary marginal distributions via Gaussian copula. It utilizes the Julia package 'Bigsimr.jl' for its core routines. Package: r-cran-bigstep Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bigmemory, r-cran-magrittr, r-cran-matrixstats, r-cran-r.utils, r-cran-rcppeigen, r-cran-speedglm Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bigstep_1.1.2-1.ca2004.1_all.deb Size: 86656 MD5sum: 1a52c7e68eab21b63a0eac554545e77b SHA1: 59b67023d232ba049684917506cd603103609d7c SHA256: fad8c64283a51a94fab79764d170590c50ab62f73f06fa78e3162ffa3241ce49 SHA512: a4b1f563c344c3471023173aada9091f9a331ed0413cbeca15fe212dba30ba35c6777d63821f113e95a9f4a3cf3b07275bd2b59fe44fb2b50f43f4ba2b042b7a Homepage: https://cran.r-project.org/package=bigstep Description: CRAN Package 'bigstep' (Stepwise Selection for Large Data Sets) Selecting linear and generalized linear models for large data sets using modified stepwise procedure and modern selection criteria (like modifications of Bayesian Information Criterion). Selection can be performed on data which exceed RAM capacity. Bogdan et al., (2004) . Package: r-cran-bikeshare14 Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3508 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-data.table Filename: pool/dists/focal/main/r-cran-bikeshare14_0.1.4-1.ca2004.1_all.deb Size: 3561616 MD5sum: ad39cf2df041643f68020092979a7e7a SHA1: d4aa92bc60a8c268e937258c0b555a71f9265658 SHA256: 4e911d7bbe9098ad265e9a9de9edc634231814d6400f49eb4c19923922a805a6 SHA512: d72c4f02a6d2156f00df75acd5e736e7c1b4782d4ce693ad221f047afbfabb33ce98951ddb9669f2c4cfac0a4fa9b362f8f518864b514f3c3327132591cda7b7 Homepage: https://cran.r-project.org/package=bikeshare14 Description: CRAN Package 'bikeshare14' (Bay Area Bike Share Trips in 2014) Anonymised Bay Area bike share trip data for the year 2014. Also contains additional metadata on stations and weather. Package: r-cran-bikm1 Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 544 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools, r-cran-ade4, r-cran-pracma, r-cran-ggplot2, r-cran-reshape2, r-cran-lpsolve Filename: pool/dists/focal/main/r-cran-bikm1_1.1.0-1.ca2004.1_all.deb Size: 442320 MD5sum: 333acf6b62dddd068770b5139948d22d SHA1: 5404251e6b738b04136cfb0efe75ed6f6b327e7a SHA256: 5add2fbd729ea5e309a39f08ff340a7026904eda14e0051c9eee1edd67f2be88 SHA512: 7f82a55a96a4d5b9497fb122611e9665dd5cad1e062807540564e77da5d2061819fca8cbe7d7c6d6bdba332174d127308e9b6bb206f9c21fdc8b7bea8a88019c Homepage: https://cran.r-project.org/package=bikm1 Description: CRAN Package 'bikm1' (Co-Clustering Adjusted Rand Index and Bikm1 Procedure forContingency and Binary Data-Sets) Co-clustering of the rows and columns of a contingency or binary matrix, or double binary matrices and model selection for the number of row and column clusters. Three models are considered: the Poisson latent block model for contingency matrix, the binary latent block model for binary matrix and a new model we develop: the multiple latent block model for double binary matrices. A new procedure named bikm1 is implemented to investigate more efficiently the grid of numbers of clusters. Then, the studied model selection criteria are the integrated completed likelihood (ICL) and the Bayesian integrated likelihood (BIC). Finally, the co-clustering adjusted Rand index (CARI) to measure agreement between co-clustering partitions is implemented. Robert Valerie, Vasseur Yann, Brault Vincent (2021) . Package: r-cran-billboard Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2663 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-dplyr Filename: pool/dists/focal/main/r-cran-billboard_0.1.0-1.ca2004.1_all.deb Size: 2676036 MD5sum: caba3f53bc09457d5e6ffdbad933d64c SHA1: 34b8ca00eb47f6fc64a5c844c753e78397e8e6ee SHA256: 0a1b1c756884ac5c0dcbe32f79a32f61f04d41b79fa53df381bdec9e8f3d9087 SHA512: d32c6b07e1ce70588a178358e14b07b2448b9ade97f26ea958d893ebada1549b46bb0e2414dd38228896e9ec3f2474ac6e05b696e2c92c62d432b0f077d85207 Homepage: https://cran.r-project.org/package=billboard Description: CRAN Package 'billboard' (Contains Data of Billboard Hot 100 Songs) Contains data sets regarding songs on the Billboard Hot 100 list from 1960 to 2016. The data sets include the ranks for the given year, musical features of a lot of the songs and lyrics for several of the songs as well. 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Chart types include line charts, scatterplots, bar/lollipop charts, histogram/density plots, pie/donut charts and gauge charts. All charts are interactive, and a proxy method is implemented to smoothly update a chart without rendering it again in 'shiny' apps. Package: r-cran-bimets Architecture: all Version: 4.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4330 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-xts, r-cran-zoo Filename: pool/dists/focal/main/r-cran-bimets_4.0.4-1.ca2004.1_all.deb Size: 3329968 MD5sum: 16cfc1e56677aaa6b091ed4e2f762a5d SHA1: 7eed01a99327ddb359d09fa2aa9dbb4c52379c0c SHA256: 6f0b8402c36f3defa9549fc4deb9fbad4fe66247b377e291532930c576d45e70 SHA512: 01c01f8d09f6b0c6709eae85cd7531e8b07d919febacdc5b19157fb2d4a1e91a03aeda66d89fa20be34cacd7f8d90005465d21bfea4718c0d45458ac22de3370 Homepage: https://cran.r-project.org/package=bimets Description: CRAN Package 'bimets' (Time Series and Econometric Modeling) Time series analysis, (dis)aggregation and manipulation, e.g. time series extension, merge, projection, lag, lead, delta, moving and cumulative average and product, selection by index, date and year-period, conversion to daily, monthly, quarterly, (semi)annually. Simultaneous equation models definition, estimation, simulation and forecasting with coefficient restrictions, error autocorrelation, exogenization, add-factors, impact and interim multipliers analysis, conditional equation evaluation, rational expectations, endogenous targeting and model renormalization, structural stability, stochastic simulation and forecast, optimal control. Package: r-cran-bimixt Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-proc Filename: pool/dists/focal/main/r-cran-bimixt_1.0-1.ca2004.1_all.deb Size: 156636 MD5sum: 13af7c2b974edc99735f373cdcba7472 SHA1: 702d85b2548fce0027b64b4a31c833b8033ea680 SHA256: f43b7320779f07f0c7de30860f75c0908e2e5a0c5f69c17621c4c08157040594 SHA512: 3eaf88dc94919e68ef34a029dc3edaeb531cdbdc71725bfeccb49f38b5fec35e38d74977f46b2dc1103e4d7bb6053443f475812f01efde56fa4d452ca39afc05 Homepage: https://cran.r-project.org/package=bimixt Description: CRAN Package 'bimixt' (Estimates Mixture Models for Case-Control Data) Estimates non-Gaussian mixture models of case-control data. The four types of models supported are binormal, two component constrained, two component unconstrained, and four component. The most general model is the four component model, under which both cases and controls are distributed according to a mixture of two unimodal distributions. In the four component model, the two component distributions of the control mixture may be distinct from the two components of the case mixture distribution. In the two component unconstrained model, the components of the control and case mixtures are the same; however the mixture probabilities may differ for cases and controls. In the two component constrained model, all controls are distributed according to one of the two components while cases follow a mixture distribution of the two components. In the binormal model, cases and controls are distributed according to distinct unimodal distributions. These models assume that Box-Cox transformed case and control data with a common lambda parameter are distributed according to Gaussian mixture distributions. Model parameters are estimated using the expectation-maximization (EM) algorithm. Likelihood ratio test comparison of nested models can be performed using the lr.test function. AUC and PAUC values can be computed for the model-based and empirical ROC curves using the auc and pauc functions, respectively. The model-based and empirical ROC curves can be graphed using the roc.plot function. Finally, the model-based density estimates can be visualized by plotting a model object created with the bimixt.model function. Package: r-cran-bimodalindex Architecture: all Version: 1.1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 317 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-oompabase, r-cran-mclust Suggests: r-cran-oompadata Filename: pool/dists/focal/main/r-cran-bimodalindex_1.1.11-1.ca2004.1_all.deb Size: 229512 MD5sum: 042ac829de92d8a6db409a11c7e1604a SHA1: f4eb8e42a81d902b0efffccdb247288fc0e17444 SHA256: dcd21ccc3d74a4c23a59f8d68f3d445c141ff78302cbe3b528a4a66a1bd34528 SHA512: c2db2ca0ccd78c47caba08575649917935b389d263adb399a94cb26d154a3b2e773a95a706658b4662bbf5c8f06a7625887d23fd72c4f777a291ccd091e25b93 Homepage: https://cran.r-project.org/package=BimodalIndex Description: CRAN Package 'BimodalIndex' (The Bimodality Index) Defines the functions used to compute the bimodal index as defined by Wang et al. (2009) , . Package: r-cran-binancer Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-httr, r-cran-digest, r-cran-snakecase, r-cran-logger, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-binancer_1.2.0-1.ca2004.1_all.deb Size: 90548 MD5sum: 09095ced9cc46a2d00668788c8cdd88b SHA1: 5bb37ad56741dacc455a90f457513b73dea5bdd1 SHA256: 95ee8ff98fd28a8052f6322a13048d675de4b208ddd6fc0ed8299e1bbfa91aeb SHA512: e21d2c6dab58e632a6843ed9bc6428c1ef3cc0d050a77a200f55fdf7e6be100867b521fa4de4377e5e51b482d474f63d54a1cc5c64a06b8d57f7e0ecc0f73a51 Homepage: https://cran.r-project.org/package=binancer Description: CRAN Package 'binancer' (API Client to 'Binance') R client to the 'Binance' Public Rest API for data collection on cryptocurrencies, portfolio management and trading: . Package: r-cran-binarybalancedcut Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-binarybalancedcut_0.2-1.ca2004.1_all.deb Size: 14364 MD5sum: ad3ac4ca07276095a488e930d3691e11 SHA1: 95b9ad775ae37e95330b1588819f90d3976bfabc SHA256: 2f4e9b30d97838bede44682653f6c4dbc953a1f463327fb7be9a98fbc7475f04 SHA512: 3b3c98965706cf0e72844926d0783891448e0d527b587e3f8ecddbdad26ce2182ff9249aac1c85d5ab3f4b7b448fb14fa17a02f5dcb2a0122d9a0d089a206915 Homepage: https://cran.r-project.org/package=BinarybalancedCut Description: CRAN Package 'BinarybalancedCut' (Threshold Cut Point of Probability for a Binary Classifier Model) Allows to view the optimal probability cut-off point at which the Sensitivity and Specificity meets and its a best way to minimize both Type-1 and Type-2 error for a binary Classifier in determining the Probability threshold. Package: r-cran-binaryemvs Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-binaryemvs_0.1-1.ca2004.1_all.deb Size: 32100 MD5sum: 57eec07ce84528cbc673a36eb2cda814 SHA1: c6dddaab83f5f51c434f89f76bc856100aa824f7 SHA256: 1d4bd9b161b7f34430afb9fe82f3ada63fddb91cf6179c26b39f21336e598d1c SHA512: fdde0776d03fc2758ecebb16c9e280db4ff0c34f9d8bbadadc2734195035f801e6ff09b990ffeee395e388affcf8cb381513992ed34b2881a944a6ecac13b2bb Homepage: https://cran.r-project.org/package=BinaryEMVS Description: CRAN Package 'BinaryEMVS' (Variable Selection for Binary Data Using the EM Algorithm) Implements variable selection for high dimensional datasets with a binary response variable using the EM algorithm. Both probit and logit models are supported. Also included is a useful function to generate high dimensional data with correlated variables. Package: r-cran-binaryeppm Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 485 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-formula, r-cran-expm, r-cran-numderiv, r-cran-lmtest Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-binaryeppm_3.0-1.ca2004.1_all.deb Size: 432024 MD5sum: b0262a9b834e4e96d7086ea780bee092 SHA1: deef7f48aac363e582164b3a996e55605cae1906 SHA256: 29d5b8f035501d13f404d4068e9d74a5040d5ec8e78db5510f4dc2ddb98341b0 SHA512: cb9339bcadbc544ed2eeeb78404b0c8e144c12f77ebce261073f2d284a602c3f63cfa5a81084572556bf09231859e847c7d4d463193ecb2877c73073791da454 Homepage: https://cran.r-project.org/package=BinaryEPPM Description: CRAN Package 'BinaryEPPM' (Mean and Scale-Factor Modeling of Under- And Over-DispersedBinary Data) Under- and over-dispersed binary data are modeled using an extended Poisson process model (EPPM) appropriate for binary data. A feature of the model is that the under-dispersion relative to the binomial distribution only needs to be greater than zero, but the over-dispersion is restricted compared to other distributional models such as the beta and correlated binomials. Because of this, the examples focus on under-dispersed data and how, in combination with the beta or correlated distributions, flexible models can be fitted to data displaying both under- and over-dispersion. Using Generalized Linear Model (GLM) terminology, the functions utilize linear predictors for the probability of success and scale-factor with various link functions for p, and log link for scale-factor, to fit a variety of models relevant to areas such as bioassay. Details of the EPPM are in Faddy and Smith (2012) and Smith and Faddy (2019) . Package: r-cran-binarylogic Architecture: all Version: 0.3.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-binarylogic_0.3.9-1.ca2004.1_all.deb Size: 76784 MD5sum: 09f6b4d1780011dc9ce486dc82d8514d SHA1: 7c0bdf09c0bfdcba62714eba11424fdaf7dfa42a SHA256: fc7789332ba2eedc06335ea7e0f6340aecbecf08db76c00d5d9165230cd336f2 SHA512: be220cdbba76ddfbc0b5917ffa485b993154c32e41942832e90e37c33dcc993fe2397a9edaaf9640f7ebf6d68491956742c1ba943d66f81ec255386b148897d7 Homepage: https://cran.r-project.org/package=binaryLogic Description: CRAN Package 'binaryLogic' (Binary Logic) Provides the binary S3 class. The instance of binary is used to convert a decimal number (Base10) to a binary number (Base2). The Class provides some features e.G. shift(), rotate(), summary(). Based on logical vectors. Package: r-cran-binaryrl Architecture: all Version: 0.8.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 672 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-future, r-cran-dofuture, r-cran-foreach, r-cran-dorng, r-cran-progressr Suggests: r-cran-gensa, r-cran-ga, r-cran-deoptim, r-cran-pso, r-cran-mlrmbo, r-cran-mlr, r-cran-paramhelpers, r-cran-smoof, r-cran-lhs, r-cran-dicekriging, r-cran-rgenoud, r-cran-cmaes, r-cran-nloptr Filename: pool/dists/focal/main/r-cran-binaryrl_0.8.9-1.ca2004.1_all.deb Size: 634660 MD5sum: cf76e918ec864d5ab3863302d1dbf64a SHA1: b05722e6d03050dd088b2e0a77b02e252a09cdc4 SHA256: 1392aa368bec1a51b244f6fc65afab42554dbdb5e2c8c43d76c2bbbc5846d780 SHA512: a3c6b5e160be991e98e06bb1dd30ca58d463e4c07d5cf49e9432649af1ca5e6d68bc17f1b441e06daca9eab05fcec50f81c5b7536c25c4d7ff8989e48bdcf616 Homepage: https://cran.r-project.org/package=binaryRL Description: CRAN Package 'binaryRL' (Reinforcement Learning Tools for Two-Alternative Forced ChoiceTasks) Tools for building reinforcement learning (RL) models specifically tailored for Two-Alternative Forced Choice (TAFC) tasks, commonly employed in psychological research. These models build upon the foundational principles of model-free reinforcement learning detailed in Sutton and Barto (1998) . The package allows for the intuitive definition of RL models using simple if-else statements. Our approach to constructing and evaluating these computational models is informed by the guidelines proposed in Wilson & Collins (2019) . Example datasets included with the package are sourced from the work of Mason et al. (2024) . Package: r-cran-binarytimeseries Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 359 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rgdal, r-cran-dplyr, r-cran-ggnewscale, r-cran-ggplot2, r-cran-magrittr, r-cran-mice, r-cran-prettymapr, r-cran-raster, r-cran-reshape2, r-cran-terra Suggests: r-cran-knitr, r-cran-maptools, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-binarytimeseries_1.0.2-1.ca2004.1_all.deb Size: 213216 MD5sum: 321ca9d9577ba361f385f62218f3decd SHA1: d9ace3e42e1ee779b56500b4497903efa2ba90e9 SHA256: 3b8130caf8866d41eebe5c453faea8fa359d26dc79794c5754b21bb8996a6c03 SHA512: 892bda6230fcdfb16a807858ec3b99c17e8eb795d8654f76ede3fbe67e80638cbad7c7b7c04d64cc764b9654c86d79ff7fe187d5a4856bb61f97f2bbb12c3564 Homepage: https://cran.r-project.org/package=binaryTimeSeries Description: CRAN Package 'binaryTimeSeries' (Analyzes a Binary Variable During a Time Series) A procedure to create maps, pie charts, and stacked bar plots showing the trajectory of a binary variable during a time series. You provide a time series of data sets as a stack of raster files or a data frame and call the various functions in 'binaryTimeSeries' to create your desired graphics.For more information please consult: Pontius Jr, R. G. (2022). "Metrics That Make a Difference: How to Analyze Change and Error" Springer Nature Switzerland AG and Bilintoh, T.M., (2022). "Intensity Analysis to Study the Dynamics of reforestation in the Rio Doce Water Basin, Brazil". Frontiers in Remote Sensing, 3 (873341), 13. . Package: r-cran-binb Architecture: all Version: 0.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3434 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rmarkdown, r-cran-knitr, r-cran-codetools Filename: pool/dists/focal/main/r-cran-binb_0.0.7-1.ca2004.1_all.deb Size: 1802060 MD5sum: 28bc36435199a6f2b5ffc61e36341622 SHA1: 496772302049d85aede6aa2a761abc0716f99035 SHA256: 1f3b8728c81710b8515a2162fbb8271009db3416d2728869334e93696bdd9dca SHA512: b156ca45d182351fca3b3d99c1a218d3dc3dfe97a4d8e57fc5538810becaa86aff65b42a4f1f3ae64c649a14439c98e1df13b99b73124d4d2813a158dea1f4d1 Homepage: https://cran.r-project.org/package=binb Description: CRAN Package 'binb' ('binb' is not 'Beamer') A collection of 'LaTeX' styles using 'Beamer' customization for pdf-based presentation slides in 'RMarkdown'. At present it contains 'RMarkdown' adaptations of the LaTeX themes 'Metropolis' (formerly 'mtheme') theme by Matthias Vogelgesang and others (now included in 'TeXLive'), the 'IQSS' by Ista Zahn (which is included here), and the 'Monash' theme by Rob J Hyndman. Additional (free) fonts may be needed: 'Metropolis' prefers 'Fira', and 'IQSS' requires 'Libertinus'. Package: r-cran-bincor Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-bincor_0.2.0-1.ca2004.1_all.deb Size: 76180 MD5sum: 514d4cba443e7ac3debb9f1eb0e56194 SHA1: 72f327e63f4c323328067cf87c818aed00adc4c7 SHA256: dfb906851b206515c06fd2e3ca0a4a2ef9a88f577594c866df4606d72e39679d SHA512: 6d5ccef8fc9ceef87fd1c276b309433bfb7d7f214b7176e946825345d81428451e7499fbc48c0a7e45b3455d11b2b2850790beed40bcf808b24d254433ab45da Homepage: https://cran.r-project.org/package=BINCOR Description: CRAN Package 'BINCOR' (Estimate the Correlation Between Two Irregular Time Series) Estimate the correlation between two irregular time series that are not necessarily sampled on identical time points. This program is also applicable to the situation of two evenly spaced time series that are not on the same time grid. 'BINCOR' is based on a novel estimation approach proposed by Mudelsee (2010, 2014) to estimate the correlation between two climate time series with different timescales. The idea is that autocorrelation (AR1 process) allows to correlate values obtained on different time points. 'BINCOR' contains four functions: bin_cor() (the main function to build the binned time series), plot_ts() (to plot and compare the irregular and binned time series, cor_ts() (to estimate the correlation between the binned time series) and ccf_ts() (to estimate the cross-correlation between the binned time series). Package: r-cran-binda Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-entropy Suggests: r-cran-crossval Filename: pool/dists/focal/main/r-cran-binda_1.0.4-1.ca2004.1_all.deb Size: 54088 MD5sum: 6930c3b3ce7910971586f801ae68fdec SHA1: 8617965be7ee698762de507a0c6f1e747fe82c13 SHA256: 3f50f06272d225e6bb97b5ef0dc7b04236e86c4bf9dd3e1409f57d38e8e24409 SHA512: b89fbc57d8edde8dac906fea2b98eacb4553c5577a29591ea74354ad5ec81bcbf43cf37746c5b69fae91237b0ae6f8e03a8f243c616ea50bb7f8799a21ddb8c9 Homepage: https://cran.r-project.org/package=binda Description: CRAN Package 'binda' (Multi-Class Discriminant Analysis using Binary Predictors) Implements functions for multi-class discriminant analysis using binary predictors, for corresponding variable selection, and for dichotomizing continuous data. Package: r-cran-bindata Architecture: all Version: 0.9-22-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 386 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-e1071, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-bindata_0.9-22-1.ca2004.1_all.deb Size: 248600 MD5sum: ddd4fce3d5b2f1308a4990df7b7f3083 SHA1: d2ed7d44d7d5bf924a94c88023f95ee38dfd7132 SHA256: 12fca18e73cd2fc58c136d972e134247edad4fb471f879fc1663edd9f552fbfd SHA512: 9393e9865acbf2bca9017c66fdd5efc9c4d9f8564d7f7f9565d6b733f43632969dd24f578692f11ecfd0b8cb7e48068d3277314c06e81c453cfec910b64ccfdd Homepage: https://cran.r-project.org/package=bindata Description: CRAN Package 'bindata' (Generation of Artificial Binary Data) Generation of correlated artificial binary data. Package: r-cran-bindr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bindr_0.1.2-1.ca2004.1_all.deb Size: 16696 MD5sum: 66f728dc77a8ec0e1edd83a30a4d24b8 SHA1: 4e3a1521c67c77a27639cc08e1abf310905221b0 SHA256: f039960b57c469493864bff38441f483ac4d3a781ecc6abbc6437b9c4d60686f SHA512: abefbac71e9aa5e3a8c7f7ca555b9d7290425532e0797c742835070b66d0ad1752e88c8cb56e83c7daff52c4171e250fc2ce97aa9f5f2fe8ba4535c80b297b97 Homepage: https://cran.r-project.org/package=bindr Description: CRAN Package 'bindr' (Parametrized Active Bindings) Provides a simple interface for creating active bindings where the bound function accepts additional arguments. Package: r-cran-binequality Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2486 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gamlss, r-cran-gamlss.cens, r-cran-gamlss.dist, r-cran-survival, r-cran-ineq Filename: pool/dists/focal/main/r-cran-binequality_1.0.4-1.ca2004.1_all.deb Size: 2510808 MD5sum: de44315f12ed598cf1a4cc933494d1d0 SHA1: 5792c78d8840166a2e4c9d7aa1480a578609296e SHA256: 1eaa0d9e5a141a23fe5386ce3c98e5a258a14b72f46f20dc5647c49a83435f55 SHA512: f6ff4301ab3288507b21a69ba37618148dc9a383458e5bf464d18608ac38f5ab3a6e688c67640f5a79afa6aefd3d45c972b53519e37f63a9d54004dfe540fbe4 Homepage: https://cran.r-project.org/package=binequality Description: CRAN Package 'binequality' (Methods for Analyzing Binned Income Data) Methods for model selection, model averaging, and calculating metrics, such as the Gini, Theil, Mean Log Deviation, etc, on binned income data where the topmost bin is right-censored. We provide both a non-parametric method, termed the bounded midpoint estimator (BME), which assigns cases to their bin midpoints; except for the censored bins, where cases are assigned to an income estimated by fitting a Pareto distribution. Because the usual Pareto estimate can be inaccurate or undefined, especially in small samples, we implement a bounded Pareto estimate that yields much better results. We also provide a parametric approach, which fits distributions from the generalized beta (GB) family. Because some GB distributions can have poor fit or undefined estimates, we fit 10 GB-family distributions and use multimodel inference to obtain definite estimates from the best-fitting distributions. We also provide binned income data from all United States of America school districts, counties, and states. Package: r-cran-binford Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 406 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr Filename: pool/dists/focal/main/r-cran-binford_0.1.0-1.ca2004.1_all.deb Size: 379672 MD5sum: a7c53e0ec55fad7a82b4b014ffbcd917 SHA1: 97bb8699c187c13bb8d91427cd41d5f29f382fcc SHA256: c50c1c1c9e4c124e0036b54b512646d223847bef021464cfbe2e8e475bee834a SHA512: 2ffa40ba300c8bb6afcba640ffe0627c382b60edd2b25a3749e6c3987263394ccd9ef8ac96e2bddf9646138f765dc50db5cd3e72e41d12a0e10cf73c91c1f40d Homepage: https://cran.r-project.org/package=binford Description: CRAN Package 'binford' (Binford's Hunter-Gatherer Data) Binford's hunter-gatherer data includes more than 200 variables coding aspects of hunter-gatherer subsistence, mobility, and social organization for 339 ethnographically documented groups of hunter-gatherers. 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High performance communications systems typically have inherent noise sources and other performance limitations that need to be estimated. Measurements made at high signal to noise ratios typically result in zero errors due to limitation in available measurement time. Package includes theoretical performance functions for common modulation schemes (Proakis, "Digital Communications" (1995, )), polarization shifted QPSK (Agrell & Karlsson (2009, )), and utility functions to work with the performance functions. 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It consolidates replicate sample pairs, outputs summary statistics, and produces hierarchical clustering trees and nMDS plots. This package was developed from the publication available here: . The GUI version of this package is available on the R Shiny online server at: or it is accessible via GitHub by typing: shiny::runGitHub("BinMat", "clarkevansteenderen") into the console in R. Two real-world datasets accompany the package: an AFLP dataset of Bunias orientalis samples from Tewes et. al. (2017) , and an ISSR dataset of Nymphaea specimens from Reid et. al. (2021) . The authors of these publications are thanked for allowing the use of their data. Package: r-cran-binmto Architecture: all Version: 0.0-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-binmto_0.0-7-1.ca2004.1_all.deb Size: 77288 MD5sum: 285b80620a5bb045b55f236f59592399 SHA1: b05b302fe7ba121b4cfb2163d06a36be2b94c8bc SHA256: aeb6f813a36aa6332e549721762e9d345aa0d7b1b3eb18caba6dae0de61e7c51 SHA512: 6ab9b2199644397f5b83ffac46da2e8aabb60294ce909f59fb43fc1837607c2e68c146468310466303b1a477c014faebf21f9671ee3e875c1d1f2c76bdbbff6f Homepage: https://cran.r-project.org/package=binMto Description: CRAN Package 'binMto' (Many-to-One Comparisons of Proportions) Asymptotic simultaneous confidence intervals for comparison of many treatments with one control, for the difference of binomial proportions, allows for Dunnett-like-adjustment, Bonferroni or unadjusted intervals. 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(2019) . Users can encode information in data frames, and compose BioCompute Objects from the domains defined by the standard. A checksum validator and a JSON schema validator are provided. This package also supports exporting BioCompute Objects as JSON, PDF, HTML, or 'Word' documents, and exporting to cloud-based platforms. 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Package: r-cran-biodiversityr Architecture: all Version: 2.17-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2775 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-vegan, r-cran-rcmdr, r-cran-ggplot2 Suggests: r-cran-vegan3d, r-cran-rgl, r-cran-permute, r-cran-lattice, r-cran-mass, r-cran-mgcv, r-cran-cluster, r-cran-car, r-cran-rodbc, r-cran-rpart, r-cran-effects, r-cran-multcomp, r-cran-ellipse, r-cran-sp, r-cran-splancs, r-cran-spatial, r-cran-nnet, r-cran-dismo, r-cran-raster, r-cran-terra, r-cran-maxlike, r-cran-gbm, r-cran-randomforest, r-cran-gam, r-cran-earth, r-cran-mda, r-cran-kernlab, r-cran-e1071, r-cran-glmnet, r-cran-bootstrap, r-cran-presenceabsence, r-cran-geosphere, r-cran-enmeval, r-cran-red, r-cran-igraph, r-cran-rlof, r-cran-maxnet, r-cran-party, r-cran-readxl, r-cran-colorspace, r-cran-dplyr, r-cran-rlang, r-cran-sf, r-cran-blockcv, r-cran-envirem, r-cran-concaveman, r-cran-pvclust Filename: pool/dists/focal/main/r-cran-biodiversityr_2.17-2-1.ca2004.1_all.deb Size: 1669068 MD5sum: 39a66b48215b45b2aec049174cb671e3 SHA1: 3f88278d7c4d1b3fa985be038f492b1e5d349440 SHA256: c7cf1a9d6a6793d6d033151eee9a04c4c416d001b0af0ed8cd6af12923b6fd3b SHA512: 945d85b1240baaf69748fe6574ccd2585852037cd6ad2f55947b4ddfdc81c24b6d5611cdd5563b81016a1d8d5652074ac30a6648aabb20200c9fc0b01e98f89e Homepage: https://cran.r-project.org/package=BiodiversityR Description: CRAN Package 'BiodiversityR' (Package for Community Ecology and Suitability Analysis) Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package. 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Package: r-cran-biodry Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlme, r-cran-ecodist Filename: pool/dists/focal/main/r-cran-biodry_0.9.1-1.ca2004.1_all.deb Size: 164152 MD5sum: 259de7fd59e0076a333e00b9f66a6028 SHA1: 1c26f5fb33e60fc5f03e2417f5b982d5e002f732 SHA256: 0d2572a450615268d7eeb03e9a0225a4d6b53c5c4827fcb87d2d093e2a585321 SHA512: 51e6b1f454079412787e6c404cca53a442fb89e83a7bd6b5129eff509306e6711e709629a98e54285ddee5489ab9486c9cb8292ceb0cabbf832d132b8a85504a Homepage: https://cran.r-project.org/package=BIOdry Description: CRAN Package 'BIOdry' (Multilevel Modeling of Dendroclimatical Fluctuations) Multilevel ecological data series (MEDS) are sequences of observations ordered according to temporal/spatial hierarchies that are defined by sample designs, with sample variability confined to ecological factors. Dendroclimatic MEDS of tree rings and climate are modeled into normalized fluctuations of tree growth and aridity. Modeled fluctuations (model frames) are compared with Mantel correlograms on multiple levels defined by sample design. Package implementation can be understood by running examples in modelFrame(), and muleMan() functions. 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It is able to screen out key/driving features (metabolites, microbes, and pathway functions) by an integrated importance score (IIS),combining sub-scores derived from difference, correlation, abundance, and network analysis. It is able to identify microbe-function-metabolite chains and to rank association pairs within specific functions. 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In particular, the derivatives, the curvature, the radius of curvature, the arc length, and the surface area are proposed. The goal of this method is to interpret in detail the diversity profiles and obtain an ordering between different ecological communities on the basis of diversity. In contrast to the typical indices of diversity, the proposed method is able to capture the multidimensional aspect of biodiversity, because it takes into account both the evenness and the richness of the species present in an ecological community. 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Raw laboratory measurements for diverse methods (volumetric, manometric, gravimetric, gas density) can be processed to calculate BMP. Theoretical maximum BMP or methane or biogas yield can be predicted from various measures of substrate composition. Molar mass and calculated oxygen demand (COD') can be determined from a chemical formula. Measured gas volume can be corrected for water vapor and to standard (or user-defined) temperature and pressure. Gas quantity can be converted between volume, mass, and moles. A function for planning BMP experiments can consider multiple constraints in suggesting substrate or inoculum quantities, and check for problems. Inoculum and substrate mass can be determined for planning BMP experiments. Finally, a set of first-order models can be fit to measured methane production rate or cumulative yield in order to extract estimates of ultimate yield and kinetic constants. See Hafner et al. (2018) for details. OBA is a web application that provides access to some of the package functionality: . The Standard BMP Methods website documents the calculations in detail: . Package: r-cran-biogeo Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2636 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-stringr, r-cran-maptools, r-cran-vegan, r-cran-sp Suggests: r-cran-dismo Filename: pool/dists/focal/main/r-cran-biogeo_1.0-1.ca2004.1_all.deb Size: 2510140 MD5sum: 0de9f9a408849a543403147d6085dd62 SHA1: 00866acc99c3d96db7a845430f1956f4887de2ae SHA256: 943916506e0ea8922dc12e93b0344ddab58b013df2ba3d9c89f07fbb0848635b SHA512: acd3b2e1b5e1c9db13e472b3a16093d180352fbb70e122d3fc55f6ab528705ddda489eabcf81c03dd869e15eb0e825f0259c8dc89591a3c72cd09f8999b0268d Homepage: https://cran.r-project.org/package=biogeo Description: CRAN Package 'biogeo' (Point Data Quality Assessment and Coordinate Conversion) Functions for error detection and correction in point data quality datasets that are used in species distribution modelling. Includes functions for parsing and converting coordinates into decimal degrees from various formats. Package: r-cran-biogeom Architecture: all Version: 1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1577 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-spatstat.geom Filename: pool/dists/focal/main/r-cran-biogeom_1.4.3-1.ca2004.1_all.deb Size: 1564920 MD5sum: af4fc16b9185d98c1c5ea0df28aa025f SHA1: bddfa263857f67ba36eaa21e4e3af0546be4a3b4 SHA256: e2e080c2ae23c5231fdc34c996d30bcaef6f404244adb965b0012ad30f3150ec SHA512: 799e3bc1ca2bf7d5a5f785f7b646538408cc380f7da4407da207687594db1af8d890f61fcfbe759fbcdf17ed06d712358b56939fb3ef148b44b58be1161886da Homepage: https://cran.r-project.org/package=biogeom Description: CRAN Package 'biogeom' (Biological Geometries) Is used to simulate and fit biological geometries. 'biogeom' incorporates several novel universal parametric equations that can generate the profiles of bird eggs, flowers, linear and lanceolate leaves, seeds, starfish, and tree-rings (Gielis (2003) ; Shi et al. (2020) ), three growth-rate curves representing the ontogenetic growth trajectories of animals and plants against time, and the axially symmetrical and integral forms of all these functions (Shi et al. (2017) ; Shi et al. (2021) ). The optimization method proposed by Nelder and Mead (1965) was used to estimate model parameters. 'biogeom' includes several real data sets of the boundary coordinates of natural shapes, including avian eggs, fruit, lanceolate and ovate leaves, tree rings, seeds, and sea stars,and can be potentially applied to other natural shapes. 'biogeom' can quantify the conspecific or interspecific similarity of natural outlines, and provides information with important ecological and evolutionary implications for the growth and form of living organisms. 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The original algorithm is an extension of the k-nearest neighbors method proposed by Bertsimas et al. (2017) () using a bi-objective approach. A brief description of the method can be found in Cubillos (2021) (). The 'biokNN' package provides an R implementation of the method for datasets with continuous variables (e.g. employee productivity, student grades) and a categorical class variable (e.g. department, school). Given an incomplete dataset with such structure, this package produces complete datasets using both single and multiple imputation, including visualization tools to better understand the pattern of the missing values. Package: r-cran-biolink Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rentrez, r-cran-xml2, r-cran-dbi, r-cran-rmysql, r-cran-glue, r-cran-memoise Suggests: r-cran-testthat, r-cran-lintr, r-cran-httr, r-cran-covr Filename: pool/dists/focal/main/r-cran-biolink_0.1.8-1.ca2004.1_all.deb Size: 72368 MD5sum: 313c89ec123cec3de051925552692204 SHA1: 104f954670a913f264478f4c6776ac5c405a3bae SHA256: 727f691491b8f8756e865ffe00c8af4db010df89f5136bdf24dc874fcf657229 SHA512: 9117ea4115cbb86ae0bb2a3c53107ad3a7d7460b39de7d9b428de2003d1f004a6b6d7821fab43060e2ba563c101a6dc6f4c7327f464f5aa95c298992e6ed2feb Homepage: https://cran.r-project.org/package=biolink Description: CRAN Package 'biolink' (Create Hyperlinks to Biological Databases and Resources) Generate urls and hyperlinks to commonly used biological databases and resources based on standard identifiers. This is primarily useful when writing dynamic reports that reference things like gene symbols in text or tables, allowing you to, for example, convert gene identifiers to hyperlinks pointing to their entry in the 'NCBI' Gene database. Currently supports 'NCBI' Gene, 'PubMed', Gene Ontology, 'KEGG', CRAN and Bioconductor. Package: r-cran-biolinv Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 420 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-fields, r-cran-spatstat.geom, r-cran-spatstat.core, r-cran-spatstat, r-cran-sp, r-cran-classint Filename: pool/dists/focal/main/r-cran-biolinv_0.1-3-1.ca2004.1_all.deb Size: 389908 MD5sum: 69226e1b022dbf813b87c489100273ba SHA1: 75d4564052c61a64f2ba795655d8dd7a613d9c4e SHA256: e4ca401996380e61e7f9a12f981e11a4a8328824288ce63cac1dcac61b6ace51 SHA512: aa4a6702247a6fffbd4527ba7415ebc3a18ad0c5dfd3edf400256f027dd534cb2f36fa8946a22a312bcafe6c1c496cc210c56ae49ba4615e07fa8b90ec1957c8 Homepage: https://cran.r-project.org/package=Biolinv Description: CRAN Package 'Biolinv' (Modelling and Forecasting Biological Invasions) Analysing and forecasting biological invasions time series with a stochastic approach that accounts for human-aided dispersal, habitat suitability and provides estimates confidence level. Package: r-cran-biologicalactivityindices Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-biologicalactivityindices_0.1.0-1.ca2004.1_all.deb Size: 12032 MD5sum: 10d6bd35bb9c3b298ccae1f8786b7ab1 SHA1: 817297406080baf7f9f11af7f963689680f45a4e SHA256: 6ec9a89ac096b7e0002b3af88b097447ecf8a11b2865ccb293b1ed8ceff69422 SHA512: 23b77408a6d6638c1e3f5038a911918969800bc33418a566c7fed07b66fd3b77d6e100c655688aa6ca8184a341a1febc1794717c011fe6514aeefb5fa550b51e Homepage: https://cran.r-project.org/package=biologicalActivityIndices Description: CRAN Package 'biologicalActivityIndices' (Biological Activity Indices) Ecological alteration of degraded lands can improve their sustainability by addition of large amount of biomass to soil resulting in improved soil health. Soil biological parameters (such as carbon, nitrogen and phosphorus cycling enzyme activity) are reactive to minute variations in soils [Ghosh et al. (2021) ]. Hence, biological activity index combining Urease, Alkaline Phosphatase, Dehydrogenase (DHA) & Beta-Glucosidase activity will assist in detecting early changes in restored land use systems [Patidar et al. (2023) ]. This package helps to calculate Biological Activity Index (BAI) based on vectors of Land Use System/treatment and control/reference Land Use System containing four values of Urease, Alkaline Phosphatase, DHA & Beta-Glucosidase. (DHA), urease (URE), fluorescein diacetate hydrolysis (FDA) and alkaline phosphatase (ALP) activities are measured in soil samples using triphenyl tetrazolium chloride, urea, fluorescein diacetate and p-nitro phenyl-phosphate as substrates, respectively. Package: r-cran-biom.utils Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-rjsonio, r-cran-mgraster Filename: pool/dists/focal/main/r-cran-biom.utils_0.9-1.ca2004.1_all.deb Size: 110240 MD5sum: d853ac1b3861c752f3737dd0e713f13d SHA1: c93baad1a6283c333a863262c8508ac2020aa593 SHA256: e2b8899b837bf777f73753f15bce60a5f2189f8b184db34546ad0e157b00bc5a SHA512: a2cdd406e3f22183905d657bb99cf2bbfd605fdfaf18cf7f165bd7099c03d27c6648cc4014c4b0ecf4ce6d57e142076166ea29696530e3f8534ea1f8b110e8e2 Homepage: https://cran.r-project.org/package=BIOM.utils Description: CRAN Package 'BIOM.utils' (Utilities for the BIOM (Biological Observation Matrix) Format) Provides utilities to facilitate import, export and computation with the BIOM (Biological Observation Matrix) format (http://biom-format.org). 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As such, explainable machine learning can offer biological insight in addition to personalized risk scoring.In this process, a feature space of biological pathways will be generated, and the feature space can also be subsequently analyzed using WGCNA (Described in Horvath and Zhang (2005) and Langfelder and Horvath (2008) ) methods. Package: r-cran-biomark Architecture: all Version: 0.4.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1030 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pls, r-cran-glmnet, r-cran-mass, r-cran-st Filename: pool/dists/focal/main/r-cran-biomark_0.4.5-1.ca2004.1_all.deb Size: 1015204 MD5sum: 659958b67aba91fe53a096c497b4ef74 SHA1: fdb31c4e53b36f48b11ac51e744af49763bb4bf5 SHA256: 85c85da924098951129dd149c1325fe8f3abdff979941dceb635827825b75858 SHA512: 163c04fac0e01f1d3841337bac844f56aa2e052c22689835f8dc18526d05251f18a0faf5c2fe78f612dff773dc6b28c83f1cc5a781abbb3b7878c7351ecc47ab Homepage: https://cran.r-project.org/package=BioMark Description: CRAN Package 'BioMark' (Find Biomarkers in Two-Class Discrimination Problems) Variable selection methods are provided for several classification methods: the lasso/elastic net, PCLDA, PLSDA, and several t-tests. 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These functions allow to (1) retrieve and correct taxonomy, (2) estimate wood density and its uncertainty, (3) build height-diameter models, (4) manage tree and plot coordinates, (5) estimate above-ground biomass/carbon at stand level with associated uncertainty. To cite ‘BIOMASS’, please use citation(‘BIOMASS’). For more information, see Réjou-Méchain et al. (2017) . Package: r-cran-biometrics Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2641 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice, r-cran-ggplot2, r-cran-datana Suggests: r-cran-foreign, r-cran-gdata, r-cran-car, r-cran-agricolae, r-cran-multcomp Filename: pool/dists/focal/main/r-cran-biometrics_1.0.1-1.ca2004.1_all.deb Size: 1687408 MD5sum: f5984fd42cf47a6d495436cecbd452a2 SHA1: 7ca756084168931225874b55cfbcb1b54531c4aa SHA256: cf9dbd84c3f511653061319dec10ad0c341073b31cd9d3f0c138766e6de42039 SHA512: 83293837f5bc8e98a1986b27ff1f145dc332b7f2e8d7629d462603827073b039fd6622aff8f7473091b56885be5c0b3d313a14a59aa231dc78e8fe2d9f689349 Homepage: https://cran.r-project.org/package=biometrics Description: CRAN Package 'biometrics' (Functions and Datasets for Forest Biometrics and Modelling) A system of functions and data aiming to apply quantitative analyses to forest ecology, silviculture and decision-support systems. 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Package: r-cran-biometryassist Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 346 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-agricolae, r-cran-askpass, r-cran-cowplot, r-cran-curl, r-cran-emmeans, r-cran-ggplot2, r-cran-lattice, r-cran-multcompview, r-cran-pracma, r-cran-rlang, r-cran-scales, r-cran-stringi, r-cran-xml2 Suggests: r-cran-covr, r-cran-crayon, r-cran-knitr, r-cran-mockery, r-cran-openxlsx, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-withr Filename: pool/dists/focal/main/r-cran-biometryassist_1.3.0-1.ca2004.1_all.deb Size: 276292 MD5sum: 6aad46ecd5a08f39e24f706f636c5968 SHA1: 75ead8a32a3617983522583b6b87fdc62eabf9dc SHA256: 3a8e2bac118f406a56916af210682a86842ea10f3b6ae8716bce4a35edbf6556 SHA512: f6a6f0bdabeec08071682396d7735d3012c7912a38a3b1754e944f20dbf68e363972414934852dcf7ef201867af3512c81c16278a91efbf3791f61619382477f Homepage: https://cran.r-project.org/package=biometryassist Description: CRAN Package 'biometryassist' (Functions to Assist Design and Analysis of Agronomic Experiments) Provides functions to aid in the design and analysis of agronomic and agricultural experiments through easy access to documentation and helper functions, especially for users who are learning these concepts. While not required for most functionality, this package enhances the `asreml` package which provides a computationally efficient algorithm for fitting mixed models using Residual Maximum Likelihood. It is a commercial package that can be purchased as 'asreml-R' from 'VSNi' , who will supply a zip file for local installation/updating (see ). Package: r-cran-biomod2 Architecture: all Version: 4.2-6-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2730 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-terra, r-cran-sp, r-cran-reshape, r-cran-reshape2, r-cran-abind, r-cran-foreach, r-cran-ggplot2, r-cran-gbm, r-cran-rpart, r-cran-mass, r-cran-proc, r-cran-presenceabsence, r-cran-dplyr Suggests: r-cran-hmisc, r-cran-gam, r-cran-mgcv, r-cran-earth, r-cran-maxnet, r-cran-mda, r-cran-nnet, r-cran-randomforest, r-cran-xgboost, r-cran-car, r-cran-caret, r-cran-dismo, r-cran-enmeval, r-cran-doparallel, r-cran-raster, r-cran-ggpubr, r-cran-testthat, r-cran-knitr, r-cran-markdown, r-cran-tidyterra, r-cran-ggtext Filename: pool/dists/focal/main/r-cran-biomod2_4.2-6-2-1.ca2004.1_all.deb Size: 1911200 MD5sum: 7c4c1aeaba6c50eda4073d5f3262c7c1 SHA1: 006b3e38fd021f8fceecff9d19b4aef9d7853454 SHA256: 59c0b1c7d83a2e675bf554b0c86f579bae94193fe851d05423e8b304d8abcd6d SHA512: 25173d541a997feeffe824d6f3ceee473a9246c920117924093268b0c7777e418e5d80cef30842a2efda68ab1c7ba7b106d09253722782c9a91ca863ebee0292 Homepage: https://cran.r-project.org/package=biomod2 Description: CRAN Package 'biomod2' (Ensemble Platform for Species Distribution Modeling) Functions for species distribution modeling, calibration and evaluation, ensemble of models, ensemble forecasting and visualization. The package permits to run consistently up to 10 single models on a presence/absences (resp presences/pseudo-absences) dataset and to combine them in ensemble models and ensemble projections. Some bench of other evaluation and visualization tools are also available within the package. Package: r-cran-bionetdata Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3273 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bionetdata_1.1-1.ca2004.1_all.deb Size: 3315352 MD5sum: fe24e3436b4a3b7671c049b4412f93e7 SHA1: ddadedb557c080be961cbf20fb6df40d708f5c1a SHA256: 4c724b1369f106431419300e4f96b4ac7a650e07fa2a2d02d0113d570d7d2fe9 SHA512: da48395eb39e7c053d0fa6e97edf365c9fd5c212f33311e9607a9527cd42d971cc4404d2c442b32d94e858557714ac8cff284f0c33ac3bc70010fe93025ffae7 Homepage: https://cran.r-project.org/package=bionetdata Description: CRAN Package 'bionetdata' (Biological and Chemical Data Networks) Data Package that includes several examples of chemical and biological data networks, i.e. data graph structured. Package: r-cran-biooed Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 334 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fme, r-cran-bioinactivation, r-cran-dplyr, r-cran-ggplot2, r-bioc-meigor, r-cran-rlang Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-biooed_0.2.1-1.ca2004.1_all.deb Size: 179088 MD5sum: 4da809737e83815a303b055c0fdc5c73 SHA1: 14d18aadfde4f41f677d4e01db5185e02e20fb3c SHA256: 75e427a71beca8ddffcbe8e27cbc09edd5efe5f1950d046c792c537db3b5cb49 SHA512: 22d2b66bbea6afa9c4cfd107f204d4a460cd6972882d6ef490cabe757290556674acecad79b4570d36b1289178ff4dac8c1eacc4b18c5e1b3cf963c3cd19cf69 Homepage: https://cran.r-project.org/package=bioOED Description: CRAN Package 'bioOED' (Sensitivity Analysis and Optimum Experiment Design for MicrobialInactivation) Extends the bioinactivation package with functions for Sensitivity Analysis and Optimum Experiment Design. Package: r-cran-biopeak Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 461 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-dbscan, r-cran-factoextra, r-cran-gplots, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-biopeak_1.0-1.ca2004.1_all.deb Size: 388180 MD5sum: 0782f163f802b9664742bef9e0f17f9a SHA1: 96836fc4c94210baf93a491a39cd02dca158e0b0 SHA256: 00335f90f7e0fcb7b663fe99169b2e3cfab9730738d20caedf291f0301c4ce16 SHA512: c0a384cdc33977307ce8751e6c858c74c92f210f9a23ef0244cd3a7e1a491eaf3a570a8894750151580d241f58946a870e9f3ce342c4017247095907aebbc144 Homepage: https://cran.r-project.org/package=Biopeak Description: CRAN Package 'Biopeak' (Identification of Impulse-Like Gene Expression Changes in ShortGenomic Series Data) Enables the user to systematically identify and visualize impulse-like gene expression changes within short genomic series experiments. In order to detect such activation peaks, the gene expression is treated as a signal that propagates along an experimental axis (time, temperature or other series conditions). Peaks are selected by exhaustive identification of local maximums and subsequent filtering based on a range of controllable parameters. Moreover, the 'Biopeak' package provides a series of data exploration tools including: expression profile plots, correlation heat maps and clustering functionalities. Package: r-cran-biopet Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-proc, r-cran-vgam Filename: pool/dists/focal/main/r-cran-biopet_0.2.2-1.ca2004.1_all.deb Size: 77884 MD5sum: 00c30b19e63c3851fc08e2c24ca9568c SHA1: 74d366297b0c00941f866d78b3e57e18f2abb98e SHA256: 051ca951a6018f540f3dc4622eae1c4b977300c23ada725d0aa990b69170e7b4 SHA512: 0c2b25b4d0bea08bdd2371bb8c5ae2bd14e98dc383a5df4174f76aa92ef746e7f7b39ac62dfbc3439dd12c8c28bdb208c55f7779f62676bf23e5a8cade80c488 Homepage: https://cran.r-project.org/package=BioPET Description: CRAN Package 'BioPET' (Biomarker Prognostic Enrichment Tool) Prognostic Enrichment is a clinical trial strategy of evaluating an intervention in a patient population with a higher rate of the unwanted event than the broader patient population (R. Temple (2010) ). 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Package: r-cran-biopetsurv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-ggplot2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-biopetsurv_0.1.0-1.ca2004.1_all.deb Size: 111584 MD5sum: d2429e0315a8cef5baf6cfa7fd774fe9 SHA1: 696f0767238f0074155334afce8042f79324f6e8 SHA256: 91436ed5787a5711f51c9672b015152d5a00d7f40ce0ba7f533fcfdc7c733154 SHA512: 684600492c99b0ef4a505c1c8dd0c85a68c3e29375c637167b30f674a9d1a2a66a497948f7b0f862ce51b9de16b0f2d471c1d71a4a9658faa6079506f84fcea5 Homepage: https://cran.r-project.org/package=BioPETsurv Description: CRAN Package 'BioPETsurv' (Biomarker Prognostic Enrichment Tool for Time-to-Event Trial) Prognostic Enrichment is a strategy of enriching a clinical trial for testing an intervention intended to prevent or delay an unwanted clinical event. A prognostically enriched trial enrolls only patients who are more likely to experience the unwanted clinical event than the broader patient population (R. Temple (2010) ). By testing the intervention in an enriched study population, the trial may be adequately powered with a smaller sample size, which can have both practical and ethical advantages. This package provides tools to evaluate biomarkers for prognostic enrichment of clinical trials with survival/time-to-event outcomes. Package: r-cran-biopixr Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5358 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-imager, r-cran-magick, r-cran-data.table, r-cran-cluster Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-doparallel, r-cran-kohonen, r-cran-imagerextra, r-cran-gpareto, r-cran-foreach Filename: pool/dists/focal/main/r-cran-biopixr_1.2.0-1.ca2004.1_all.deb Size: 4044240 MD5sum: 299a6017bd11f21dc15dec0e1b7f0434 SHA1: b86949d5c1c21510e23fa9a81f249b33eadc579e SHA256: 633c017358e9323b95c9e7afecf8804f02b6415e30790967ab24c2f3d8bbb48d SHA512: 85b47bfdcbdf765dcb7bc79883724132885ac6922fabc31618a46dd91cb0177771c94daafb0254c9ea6291fdcd82d79c89dd6e1436c877e4cacf9f2c836fd3e1 Homepage: https://cran.r-project.org/package=biopixR Description: CRAN Package 'biopixR' (Extracting Insights from Biological Images) Combines the 'magick' and 'imager' packages to streamline image analysis, focusing on feature extraction and quantification from biological images, especially microparticles. By providing high throughput pipelines and clustering capabilities, 'biopixR' facilitates efficient insight generation for researchers (Schneider J. et al. (2019) ). 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For further details, see Liu et al. (2024) . Package: r-cran-bioprobability Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bioprobability_1.0-1.ca2004.1_all.deb Size: 34388 MD5sum: 5b427951d93fe254284a7a872ef6094c SHA1: e48c7c1d544bbb0f1d242e5582448287f5b12f88 SHA256: 9b5a332e03bd5c220d298f735d7e252ea74226bfe0f7982a7068cf3b5ba42651 SHA512: 53eaa45f4154fca681d5e355c1dc9539736d3c09be10dc878d04dd9d911e63191faceddfb06de3b9459ac3bcefd501ddd0c073188b6fd83da200a67b3e813ed0 Homepage: https://cran.r-project.org/package=BioProbability Description: CRAN Package 'BioProbability' (Probability in Biostatistics) Several tools for analyzing diagnostic tests and 2x2 contingency tables are provided. In particular, positive and negative predictive values for a diagnostic tests can be calculated from prevalence, sensitivity and specificity values. 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See Dokter, A. M. et al. (2018) "bioRad: biological analysis and visualization of weather radar data" for a software paper describing package and methodologies. 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Package: r-cran-bios2cor Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1402 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bio3d, r-cran-circular, r-cran-bigmemory, r-cran-igraph Filename: pool/dists/focal/main/r-cran-bios2cor_2.2.2-1.ca2004.1_all.deb Size: 694792 MD5sum: 7e8aa7aa41ac68a3a6e20832612dfb7a SHA1: 1aa853eee94e241149ab431a7f1429be7ac1d21a SHA256: 711b6e9648aff2dc03305686bec789ce4d0ada479df9d81515ef105b4c099a78 SHA512: 02eaf997470f1af8f482d5e17df60c4cfa4f865dc14a61e2c3431dc7bed9eceffa2576cf312ddb9f28a84ac226fec39fc3b66424f0155d336f56d88a587cc051 Homepage: https://cran.r-project.org/package=Bios2cor Description: CRAN Package 'Bios2cor' (From Biological Sequences and Simulations to CorrelationAnalysis) Utilities for computation and analysis of correlation/covariation in multiple sequence alignments and in side chain motions during molecular dynamics simulations. Features include the computation of correlation/covariation scores using a variety of scoring functions between either sequence positions in alignments or side chain dihedral angles in molecular dynamics simulations and utilities to analyze the correlation/covariation matrix through a variety of tools including network representation and principal components analysis. In addition, several utility functions are based on the R graphical environment to provide friendly tools for help in data interpretation. Examples of sequence covariation analysis are provided in: (1) Pele J, Moreau M, Abdi H, Rodien P, Castel H, Chabbert M (2014) and (2) Taddese B, Deniaud M, Garnier A, Tiss A, Guissouma H, Abdi H, Henrion D, Chabbert M (2018) . An example of side chain correlated motion analysis is provided in: Taddese B, Garnier A, Abdi H, Henrion D, Chabbert M (2020) . This work was supported by the French National Research Agency (Grant number: ANR-11-BSV2-026) and by GENCI (Grant number: 100567). 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Implements S3 infrastructure to work with biological sequences as described in Keck (2020) . Provides a collection of functions to perform biological conversion among classes (transcription, translation) and basic operations on sequences (detection, selection and replacement based on positions or patterns). The package also provides functions to import and export sequences from and to other package formats. 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Package: r-cran-biosnr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 287 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-pracma, r-cran-scales Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-biosnr_1.0-1.ca2004.1_all.deb Size: 123624 MD5sum: 7987c6f3efd7ad8da6f7acbc53519daa SHA1: 21898db825c6ab1a3cff6672d083227cb42e9883 SHA256: bc488f9abf57d0eaf901542e9c5fb15a79c77d8a59347a289ecf71c516407ca5 SHA512: 5984d22b175fd4b9f7cdb7bfa772da77d20ee114c91f21a267c30b098b370006d5e638aacf51f77948db75b65189e32909821198b93b9e275689c9c6bea321ca Homepage: https://cran.r-project.org/package=bioSNR Description: CRAN Package 'bioSNR' (Bioacoustic Basic Operations with Decibels and the Passive SonarEquation) A beginners toolbox to help those in ecology who want to deepen their understanding or utilize Bioacoustics in their work. 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The tutorials include text, videos, interactive coding exercises and multiple choice quizzes. The package also includes 19 datasets which are used in the tutorials. Package: r-cran-biostatr Architecture: all Version: 4.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-biostatr_4.0.1-1.ca2004.1_all.deb Size: 82104 MD5sum: df21624774147839e5160c60cad0f89f SHA1: 9250f25cb3861baa584bdf6aecb37da4b5b077f6 SHA256: 16e8173fabc206b9d32a3a08210a7c5c5282ee3dd1954adeb001643646b19a6a SHA512: 3f428ff714bd1d928039b2df448b24fee3b875349515a0bc8d08fa78582a05a8f5af5b2e45803a0fef91b7aa4b6d58a0a270841393816ea1337b434aed8eec19 Homepage: https://cran.r-project.org/package=BioStatR Description: CRAN Package 'BioStatR' (Initiation à La Statistique Avec R) Datasets and functions for the book "Initiation à la Statistique avec R", F. Bertrand and M. 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The methods implemented in this package are based on the works: Connor (1987) Fleiss, Levin, & Paik (2013, ISBN:978-1-118-62561-3) Levin & Chen (1999) McNemar (1947) . 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Package: r-cran-birankr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-birankr_1.0.1-1.ca2004.1_all.deb Size: 66028 MD5sum: 634ad9c93c7f70c4ca8828376288e5d3 SHA1: 5efe4c2841e4a62e24156510f6aca8df1418fbac SHA256: 4f9451ef3418e5f621569015a93e4eb34209c21a5352c53580100a8c505133ca SHA512: 9b6e5ce1366757ebfbfdb507c71d81b9f47af032771d7b666ba8354a957cbfc4ef2261fc94c21c4b66b2b973ed153584b8ac61044e5dbf903248490c916e3956 Homepage: https://cran.r-project.org/package=birankr Description: CRAN Package 'birankr' (Ranking Nodes in Bipartite and Weighted Networks) Highly efficient functions for estimating various rank (centrality) measures of nodes in bipartite graphs (two-mode networks). Includes methods for estimating HITS, CoHITS, BGRM, and BiRank with implementation primarily inspired by He et al. (2016) . Also provides easy-to-use tools for efficiently estimating PageRank in one-mode graphs, incorporating or removing edge-weights during rank estimation, projecting two-mode graphs to one-mode, and for converting edgelists and matrices to sparseMatrix format. Best of all, the package's rank estimators can work directly with common formats of network data including edgelists (class data.frame, data.table, or tbl_df) and adjacency matrices (class matrix or dgCMatrix). Package: r-cran-birdnetr Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 685 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate Suggests: r-cran-arrow, r-cran-curl, r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-birdnetr_0.3.2-1.ca2004.1_all.deb Size: 574168 MD5sum: 969bd98982e5003d9de21b76dd3fc30f SHA1: 969df8eb43bde2ac2bb63dc57af459e05da770fa SHA256: edfaf62a043a900a0ca94278e2b12f043479c3d21b2ded6cad9c3fa22645a2da SHA512: c395e2a5c282278b6116b1f04eee869b19296c950d1a0a90cc26093915868d0345bc7944b67bf56cff1d600099023854aa2d51d360e2c97fe5faf0d4c5295ca8 Homepage: https://cran.r-project.org/package=birdnetR Description: CRAN Package 'birdnetR' (Deep Learning for Automated (Bird) Sound Identification) Use 'BirdNET', a state-of-the-art deep learning classifier, to automatically identify (bird) sounds. Analyze bioacoustic datasets without any computer science background using a pre-trained model or a custom trained classifier. Predict bird species occurrence based on location and week of the year. Kahl, S., Wood, C. M., Eibl, M., & Klinck, H. (2021) . Package: r-cran-birdring Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1231 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-geosphere, r-cran-ks, r-cran-lazydata, r-cran-raster Filename: pool/dists/focal/main/r-cran-birdring_1.6-1.ca2004.1_all.deb Size: 587748 MD5sum: 6d7211b36f1d4c29bd3d10fc753990a6 SHA1: 1b1dcfb4d132c4b211878cc4e78ad1108e79032c SHA256: ec2948221825b9f27bfe9d0e3ebe7fa9df07c58f494affeaebdd49932365c6b4 SHA512: 6f570e080beb236fe9aa0b42c23f83b3e979e64de18e9071b9ebb59f2d732635343da98a85bdbc6a4814da9b4144449fd327cca7cbb4475475691dfecb8ef201 Homepage: https://cran.r-project.org/package=birdring Description: CRAN Package 'birdring' (Methods to Analyse Ring Re-Encounter Data) R functions to read EURING data and analyse re-encounter data of birds marked by metal rings. For a tutorial, go to . Package: r-cran-birdscanr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 890 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dbi, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-suntools, r-cran-modi, r-cran-reshape2, r-cran-rodbc, r-cran-rpostgresql, r-cran-rlang, r-cran-rstudioapi, r-cran-sp, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-birdscanr_0.3.0-1.ca2004.1_all.deb Size: 695176 MD5sum: 88e27ad61c6ecb41cc1ebb9111d79e59 SHA1: 0345bbb4a087a75ba4f3392a38f0cdea67626b13 SHA256: d1b4cb99c3682ae78838264e83383789c3a89360aad66053624e8b4480372bbc SHA512: 8fca67cd3c64811ba40312db466e1d20d3235429926f383139a79204cb14840a649a859910dc9cabf1b1ea4dab8ae4b91d917f02bc720126d16c95dcb6bae062 Homepage: https://cran.r-project.org/package=birdscanR Description: CRAN Package 'birdscanR' (Migration Traffic Rate Calculation Package for 'Birdscan MR1'Radars) Extract data from 'Birdscan MR1' 'SQL' vertical-looking radar databases, filter, and process them to Migration Traffic Rates (#objects per hour and km) or density (#objects per km3) of, for example birds, and insects. Object classifications in the 'Birdscan MR1' databases are based on the dataset of Haest et al. (2021) ). Migration Traffic Rates and densities can be calculated separately for different height bins (with a height resolution of choice) as well as over time periods of choice (e.g., 1/2 hour, 1 hour, 1 day, day/night, the full time period of observation, and anything in between). Two plotting functions are also included to explore the data in the 'SQL' databases and the resulting Migration Traffic Rate results. For details on the Migration Traffic Rate calculation procedures, see Schmid et al. (2019) . Package: r-cran-birk Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-birk_2.1.2-1.ca2004.1_all.deb Size: 46172 MD5sum: 73cb85b1e09d86224d6c2708547cf61c SHA1: 606f0cca288a054209c7bb80137355f84b04b4fc SHA256: 41f04dfbad90be73c45e30b8265637b7490ad4305debe2b899f544993f513916 SHA512: c547d6e693ff69fac239930d8085f7ed93dfbeafc66e64de0aea82f5ebbd3c2ba703de81a4441c38f5c55747c0c3ac7a7c63cb9a8cbacda03d7ff5ae6fea6ba0 Homepage: https://cran.r-project.org/package=birk Description: CRAN Package 'birk' (MA Birk's Functions) Collection of tools to make R more convenient. Includes tools to summarize data using statistics not available with base R and manipulate objects for analyses. Package: r-cran-birtr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-birtr_1.0.0-1.ca2004.1_all.deb Size: 56072 MD5sum: fafe270adf2f5ddb4ffea057c61f5338 SHA1: 269ad2e2dc907ea1ab4d1b523dde5360ad2569f9 SHA256: 29a4c5384f903a185683091395647618ad17800077ae8b042ed8ed7e6ac2b009 SHA512: d30a3515f59341fb35629f482f4f4a1c9461d6c2b0b3331041987710c11e3af8ee2b33e931200c1a737e09bc49da56589408a7fb44817e3ae9ee091c33010b57 Homepage: https://cran.r-project.org/package=birtr Description: CRAN Package 'birtr' (The R Package for "The Basics of Item Response Theory Using R") R functions for "The Basics of Item Response Theory Using R" by Frank B. Baker and Seock-Ho Kim (Springer, 2017, ISBN-13: 978-3-319-54204-1) including iccplot(), icccal(), icc(), iccfit(), groupinv(), tcc(), ability(), tif(), and rasch(). For example, iccplot() plots an item characteristic curve under the two-parameter logistic model. Package: r-cran-bis Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-readr, r-cran-rvest, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-zoo Filename: pool/dists/focal/main/r-cran-bis_0.4-1.ca2004.1_all.deb Size: 23420 MD5sum: c5796e440d06d9d4e7fa1155e6704178 SHA1: 4e08f5662672d5ecf5765560a51d564ed69fb9cd SHA256: 5a4f7a23da62c7cf13267d0717cb18a6aff936b6c589287f69ba1f9e0fd68a16 SHA512: f03fe23f9b5af52576dd3f558e304a8c507ceb5515b382829dd28835ef08c1a2235cb533249f5d0cdf7cfc1c9fd8eb0b35e459f5248dc1d5b3feeba5b45d179f Homepage: https://cran.r-project.org/package=BIS Description: CRAN Package 'BIS' (Programmatic Access to Bank for International Settlements Data) Provides an interface to data provided by the Bank for International Settlements , allowing for programmatic retrieval of a large quantity of (central) banking data. Package: r-cran-biscale Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4142 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-classint, r-cran-ggplot2 Suggests: r-cran-covr, r-cran-cowplot, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-testthat Filename: pool/dists/focal/main/r-cran-biscale_1.0.0-1.ca2004.1_all.deb Size: 2529852 MD5sum: df311a41b5e9e4b69877434034736fc8 SHA1: 31dd4c082fde83be7c003c0356e5de71d98921f9 SHA256: 6f78481a5928286c6ae5ced88701c5a3f80d494d9279a607b35df084f6775fa9 SHA512: 8979e4da7866c5ebc638658104cf8d18dd0aca505b018a188e549e4cb369a3a75f9d49110107ec8affa301e07a0e32f1120dbcdc82168bb888f2e182c5968141 Homepage: https://cran.r-project.org/package=biscale Description: CRAN Package 'biscale' (Tools and Palettes for Bivariate Thematic Mapping) Provides a 'ggplot2' centric approach to bivariate mapping. This is a technique that maps two quantities simultaneously rather than the single value that most thematic maps display. The package provides a suite of tools for calculating breaks using multiple different approaches, a selection of palettes appropriate for bivariate mapping and scale functions for 'ggplot2' calls that adds those palettes to maps. Tools for creating bivariate legends are also included. Package: r-cran-bisdata Architecture: all Version: 0.2-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-zoo Filename: pool/dists/focal/main/r-cran-bisdata_0.2-3-1.ca2004.1_all.deb Size: 21608 MD5sum: b9fe5fbec20ab8b1d7a8dbe4d8ddfcf3 SHA1: 3fc364b3ba3c0c0f972c8aa1b3916953ffa1ec72 SHA256: b7dad77bc348ba5c89bc15ec9ab1d9065965d5c2e672f68077905a364ce2550c SHA512: 594355f2f192679de8a8099c3d34bedf25e2e526427a2b5cbb03fd929ca85925cb24719b86ad0141c36828c2cb065c47ffe7561482c83777da8e1397a565894e Homepage: https://cran.r-project.org/package=BISdata Description: CRAN Package 'BISdata' (Download Data from the Bank for International Settlements (BIS)) Functions for downloading data from the Bank for International Settlements (BIS; ) in Basel. Supported are only full datasets in (typically) CSV format. The package is lightweight and without dependencies; suggested packages are used only if data is to be transformed into particular data structures, for instance into 'zoo' objects. Downloaded data can optionally be cached, to avoid repeated downloads of the same files. Package: r-cran-bisect Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 668 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr, r-cran-sirt, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-bisect_0.9.0-1.ca2004.1_all.deb Size: 562492 MD5sum: 9c4f857344a96588e8af414f0e90979d SHA1: 065fbc29935c1166ddf0eba6adfd9d42d77f2291 SHA256: 1ddf645a0e8725bbd5900bc9b98cddb1f86d558498077945342e2c7a9650bce1 SHA512: f1ca6511551aa093c03ce4e64a992bca7a2772158c75648409c19bbdb8d84932a3d7a0a797f406cd7118280b193941887e3e184795b98f3d62edeae49d2524cb Homepage: https://cran.r-project.org/package=bisect Description: CRAN Package 'bisect' (Estimating Cell Type Composition from Methylation SequencingData) An implementation of Bisect, a method for inferring cell type composition of samples based on methylation sequencing data (Whole Genome Bisulfite Sequencing and Reduced Representation Sequencing). The method is specifically tailored for sequencing data, and therefore works better than methods developed for methylation arrays. It contains a supervised mode that requires a reference (the methylation probabilities in the pure cell types), and a semi-supervised mode, that requires cell counts for a subset of the samples, but does not require a reference. Package: r-cran-bisectr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-devtools Filename: pool/dists/focal/main/r-cran-bisectr_0.1.0-1.ca2004.1_all.deb Size: 24804 MD5sum: ea5184987874d949195673da3bb641aa SHA1: e441ceecba778bc2e59b2a48522ac19c7eb30a71 SHA256: 49a480a7ac4cc7260b130df25b5543253282a3d24074f9b0381a0d04055e6a65 SHA512: 7d97c0e887e2e6de360c43b81a92b702944600c70018ef15f88db95d715f8c63463bf169c05c87353e8542f51f13fc404b270ace5d2403d287fef75c8fe58be4 Homepage: https://cran.r-project.org/package=bisectr Description: CRAN Package 'bisectr' (Tools to find bad commits with git bisect) Tools to find bad commits with git bisect. See https://github.com/wch/bisectr for examples and test script templates. Package: r-cran-bisep Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 404 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-annotationdbi, r-cran-mclust, r-bioc-go.db, r-bioc-org.hs.eg.db, r-bioc-gosemsim Filename: pool/dists/focal/main/r-cran-bisep_2.3-1.ca2004.1_all.deb Size: 324600 MD5sum: bc2f1404dc5c2b8b8a9526039c41a44d SHA1: 9c135b3985c2b93c5e92428f5a207b3893e76c2d SHA256: ad98a1a409f4248deddc39acec7abb77532d7abde19c3f1310bd920aa99569db SHA512: e8397aa82e833dee1b83009249e0eb66ed03258e5381e2e74be6d734bc85a4720e276aac2a3e65ff371dac0057d03677b163efd20056f6de6018d4dafb433c3f Homepage: https://cran.r-project.org/package=BiSEp Description: CRAN Package 'BiSEp' (Toolkit to Identify Candidate Synthetic Lethality) Enables the user to infer potential synthetic lethal relationships by analysing relationships between bimodally distributed gene pairs in big gene expression datasets. Enables the user to visualise these candidate synthetic lethal relationships. Package: r-cran-bisg Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-wru, r-cran-dplyr, r-cran-rlang, r-cran-stringr, r-cran-tidycensus, r-cran-tigris Suggests: r-cran-eicompare, r-cran-eiexpand Filename: pool/dists/focal/main/r-cran-bisg_0.1.0-1.ca2004.1_all.deb Size: 43612 MD5sum: 6ba0c62f4eb205c0ee96c285da25bb2b SHA1: be21e2331642dd6cdeee96a2a0b1bd9434a23385 SHA256: 03962a075528321cacef57e31a51fa73653cae3571625715271f295cd504fb27 SHA512: b51cc368c1403c8c91e8cf04655d68a2908f8799a2daeb4b74d59b050ee23f1f9138c06bfcbdeaa7ca272ee6e4679fc2cedd77a7496081a1de32b2501cc3ae54 Homepage: https://cran.r-project.org/package=bisg Description: CRAN Package 'bisg' (Performs Bayesian Improved Surname Geocoding) Performs Bayesian Improved Surname Geocoding (BISG) analysis to obtain probabilistic estimates of race based on surname and geolocation. This package can be used in tandem with the 'eiCompare' package. Methods implemented in this package are described in Decter-Frain, A., Sachdeva, P., Collingwood, L., Burke, J., Murayama, H., Barreto, M., … Zingher, J. (2022). "Comparing Methods for Estimating Demographics in Racially Polarized Voting Analyses" . Package: r-cran-bispdep Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spdata, r-cran-sf, r-cran-spdep, r-cran-spatialreg, r-cran-combinat, r-cran-boot, r-cran-ggplot2, r-cran-sp, r-cran-rcolorbrewer Suggests: r-cran-spam Filename: pool/dists/focal/main/r-cran-bispdep_1.0-2-1.ca2004.1_all.deb Size: 183664 MD5sum: e72bfd8a2c8611caac850bfede7e4f03 SHA1: e7939acd8b81ab34c5ec8e10cfb18af73b7a3ad7 SHA256: 36552fd35d998a61cb3dfad98328e76706b83963e32ce9df1efdf96fdc290385 SHA512: ef2ecd8491d4262621ca44308fb40ef013e6999a747878d0be0ecbbc9485989ee45a8b9eeb66e83ae14fa1b90b376bd35effe0ed76e6550cdd8562389dd5fb75 Homepage: https://cran.r-project.org/package=bispdep Description: CRAN Package 'bispdep' (Statistical Tools for Bivariate Spatial Dependence Analysis) A collection of functions to test spatial autocorrelation between variables, including Moran I, Geary C and Getis G together with scatter plots, functions for mapping and identifying clusters and outliers, functions associated with the moments of the previous statistics that will allow testing whether there is bivariate spatial autocorrelation, and a function that allows identifying (visualizing neighbours) on the map, the neighbors of any region once the scheme of the spatial weights matrix has been established. Package: r-cran-bisquerna Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 163 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biobase, r-cran-limsolve Suggests: r-cran-seurat, r-cran-plyr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bisquerna_1.0.5-1.ca2004.1_all.deb Size: 97784 MD5sum: 2ec250dd749157b634d0fc2ce23b02a4 SHA1: 875931bd6ff08f98e75a5e4a4af0d937c21bf9bc SHA256: 09a68f65843dccd5c3cbe7b5b8a116456fade033b23dad76bd0d1b624e9ad339 SHA512: 4c8aeed28efbcf306c3855b2db9287d645ef1e1bcda68521ffcb20769a1751a4074692ff90124ea4b305dc1057aa31759d4f97d9c08ae56f2d8c299e3447d63c Homepage: https://cran.r-project.org/package=BisqueRNA Description: CRAN Package 'BisqueRNA' (Decomposition of Bulk Expression with Single-Cell Sequencing) Provides tools to accurately estimate cell type abundances from heterogeneous bulk expression. A reference-based method utilizes single-cell information to generate a signature matrix and transformation of bulk expression for accurate regression based estimates. A marker-based method utilizes known cell-specific marker genes to measure relative abundances across samples. For more details, see Jew and Alvarez et al (2019) . Package: r-cran-bisrna Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-bioc-ihw, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bisrna_0.2.2-1.ca2004.1_all.deb Size: 52756 MD5sum: bd16ad1054a1e50b1f97d263f605e1a5 SHA1: 49bce0610c204d1a7b064a979ed17bca252aa501 SHA256: b92667fd7650041f4a27b25f18443edd981953f41e6394ae8a485e40c736d5ba SHA512: 1d6fad38d8716a6b7e1819ff5f3568981889701466a95e039ee836f446a9656a6e6674d8f06f93a1657691070f9af211503bf25c202fb3320aa906fa6bf35ea7 Homepage: https://cran.r-project.org/package=BisRNA Description: CRAN Package 'BisRNA' (Analysis of RNA Cytosine-5 Methylation) Bisulfite-treated RNA non-conversion in a set of samples is analysed as follows : each sample's non-conversion distribution is identified to a Poisson distribution. P-values adjusted for multiple testing are calculated in each sample. Combined non-conversion P-values and standard errors are calculated on the intersection of the set of samples. For further details, see C Legrand, F Tuorto, M Hartmann, R Liebers, D Jakob, M Helm and F Lyko (2017) . Package: r-cran-bite Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 391 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-mass, r-cran-phytools, r-cran-coda, r-cran-sm, r-cran-vioplot, r-cran-xml2 Suggests: r-cran-mvmorph Filename: pool/dists/focal/main/r-cran-bite_0.3-1.ca2004.1_all.deb Size: 362308 MD5sum: d78d730f79a84e42aee1b747c889af9d SHA1: 117dd4130f0a172be1b9dbe3ac237ff96693ec64 SHA256: d6e2fc2b37878c2868dd62d95a1a278bd7d66229de7d822f3694eb81c5c75d68 SHA512: 81600e6e76877f665c40b1165406bdf51817ff241599a854d4fdbfaa5152d8da52ce229a4f025663c6aec5bdf85580ac63ada9725badaeac00055c1fcbdf30b3 Homepage: https://cran.r-project.org/package=bite Description: CRAN Package 'bite' (Bayesian Integrative Models of Trait Evolution) Contains the JIVE (joint inter and intra-specific model of variance evolution) model and other Bayesian models aimed at understanding trait evolution. The goal of the package is to join phylogenetic comparative models (PCM) that tend to integrate various type of data (individual observations, environmental data, fossil data) into a hierarchical Bayesian framework. It contains various PCMs as well as functions to join those models into a hierarchical Bayesian framework in a flexible and user friendly way. It contains various Markov chain Monte-Carlo (MCMC) algorithms, methods for model comparison and many plotting function for pre- and post-processing data visualization. Finally, this package integrates functions allowing bridges between 'R' and the 'BEAST2' implementations of PCMs. Kostikova A, Silvestro D, Pearman PB, Salamin N (2016) . Gaboriau T, Mendes FK, Joly S, Silvestro D, Salamin N (in prep). 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Package: r-cran-bivpois Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rfast Suggests: r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-bivpois_1.1-1.ca2004.1_all.deb Size: 55812 MD5sum: 5b65f8418f936c86196cde5b00ef4078 SHA1: 51a13da93da9dffec3a971e44fd999da15d2063f SHA256: bf4a5e587d86b33c1b8b8a80983835898339a970c08ba5dc05a08f156e56f80f SHA512: 236dd74132b0ee36c097480b4935c4457e6a7b71b14607cb89d4744d8ca82020979fa585ffb58b1d334863ad7fe2be728dded1d108bad17301f68975cf7672be Homepage: https://cran.r-project.org/package=bivpois Description: CRAN Package 'bivpois' (Bivariate Poisson Distribution) Maximum likelihood estimation, random values generation, density computation and other functions for the bivariate Poisson distribution. References include: Kawamura K. (1984). "Direct calculation of maximum likelihood estimator for the bivariate Poisson distribution". Kodai Mathematical Journal, 7(2): 211--221. . Kocherlakota S. and Kocherlakota K. (1992). "Bivariate discrete distributions". CRC Press. . Karlis D. and Ntzoufras I. (2003). "Analysis of sports data by using bivariate Poisson models". Journal of the Royal Statistical Society: Series D (The Statistician), 52(3): 381--393. . 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The Ordinary Least Square regressions (OLSv and OLSh), the Deming Regression (DR), and the (Correlated)-Bivariate Least Square regressions (BLS and CBLS) can be used with unreplicated or replicated data. The BLS() and CBLS() are the two main functions to estimate a regression line, while XY.plot() and MD.plot() are the two main graphical functions to display, respectively an (X,Y) plot or (M,D) plot with the BLS or CBLS results. Four hyperbolic statistical intervals are provided: the Confidence Interval (CI), the Confidence Bands (CB), the Prediction Interval and the Generalized prediction Interval. Assuming no proportional bias, the (M,D) plot (Band-Altman plot) may be simplified by calculating univariate tolerance intervals (beta-expectation (type I) or beta-gamma content (type II)). Major updates from last version 1.0.0 are: title shortened, include the new functions BLS.fit() and CBLS.fit() as shortcut of the, respectively, functions BLS() and CBLS(). References: B.G. Francq, B. Govaerts (2016) , B.G. Francq, B. Govaerts (2014) , B.G. Francq, B. Govaerts (2014) , B.G. Francq (2013), PhD Thesis, UCLouvain, Errors-in-variables regressions to assess equivalence in method comparison studies, . 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The method is described in the paper Perrot-Dockès et al. (2019) . 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It supports multiple ANN implementations via 'rnndescent', 'RcppHNSW', 'RcppAnnoy', and 'mlpack' packages, and provides integration with the 'reclin2' package. The package generates shingles from character strings and similarity vectors for record comparison, and includes evaluation metrics for assessing blocking performance including false positive rate (FPR) and false negative rate (FNR) estimates. For details see: Papadakis et al. (2020) , Steorts et al. (2014) , Dasylva and Goussanou (2021) , Dasylva and Goussanou (2022) . Package: r-cran-blocklength Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 905 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tseries Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-blocklength_0.2.2-1.ca2004.1_all.deb Size: 122472 MD5sum: 2b976e096968f7dc672162df244c4faa SHA1: 286311064206132a29bc71f66ceec50962d35761 SHA256: 5473cd15110b2bc0fa739460dc10ea9b4121620fdb12bb96c3139ad2e717f745 SHA512: 22b8a6a7529bfdab9c2adaacd1189c440dc18021a3be058d0a7e1667be8e846097b10707e1b2bd88524d8f06bd317e9c74726cd6263a7354ab53767257c601ac Homepage: https://cran.r-project.org/package=blocklength Description: CRAN Package 'blocklength' (Select an Optimal Block-Length to Bootstrap Dependent Data(Block Bootstrap)) A set of functions to select the optimal block-length for a dependent bootstrap (block-bootstrap). Includes the Hall, Horowitz, and Jing (1995) subsampling-based cross-validation method, the Politis and White (2004) Spectral Density Plug-in method, including the Patton, Politis, and White (2009) correction, and the Lahiri, Furukawa, and Lee (2007) nonparametric plug-in method, with a corresponding set of S3 plot methods. Package: r-cran-blockmatrix Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-blockmatrix_1.0-1.ca2004.1_all.deb Size: 64100 MD5sum: fc46c0df2c30e9ee2fdc5f6fccfb8064 SHA1: ca3cc24ff99ae3b59f8e1cdca8caad85f36403b8 SHA256: e68ae93978524d94006aacd923fa0394fdb49bb74946deebaa38d897e24d1d54 SHA512: 66705d2eaf53ba8fa78d8008f5f31590a5dccdd9d1e02fd76f60a9e41e9449e1e1bb13eb3bcd5907e2d7859fdddc2e51665efbfb0588702a3c1a5ae8ce2c6ff9 Homepage: https://cran.r-project.org/package=blockmatrix Description: CRAN Package 'blockmatrix' (blockmatrix: Tools to solve algebraic systems with partitionedmatrices) Some elementary matrix algebra tools are implemented to manage block matrices or partitioned matrix, i.e. "matrix of matrices" (http://en.wikipedia.org/wiki/Block_matrix). The block matrix is here defined as a new S3 object. In this package, some methods for "matrix" object are rewritten for "blockmatrix" object. New methods are implemented. This package was created to solve equation systems with block matrices for the analysis of environmental vector time series . Bugs/comments/questions/collaboration of any kind are warmly welcomed. Package: r-cran-blockmessage Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-blockmessage_1.0-1.ca2004.1_all.deb Size: 17004 MD5sum: 6dc69a0e55977a772f101556133b4946 SHA1: a90aaa279969e5886f1a76ec491abf0995f2e886 SHA256: 3ae60fe48848ee87f290887e4e3f2c460eaf6a54f94ba18a41806f61fcade483 SHA512: cc449b956ad893677826e2b12b1d6519fb3828b49801df6b4a45a7c25be6b3ff227cf19a22090e46a947d959248c572b4e589cf9ffbb587283b2169b04aa4a24 Homepage: https://cran.r-project.org/package=BlockMessage Description: CRAN Package 'BlockMessage' (Creates strings that show a text message in 8 by 8 block letters) Creates strings that show a text message in 8 by 8 block letters Package: r-cran-blockmissingdata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-glmnet, r-cran-glmnetcr, r-cran-mass, r-cran-matrix, r-cran-pryr Filename: pool/dists/focal/main/r-cran-blockmissingdata_0.1.0-1.ca2004.1_all.deb Size: 79976 MD5sum: 6bfcc1ce611d08b8741cb2bce89b0d24 SHA1: 91ee633db7529ef1d7403b170d992d46d2c877b6 SHA256: df4805ff3c6a5c4a13aa45182ce2f633b4fc9533075ca4fd984391df29b254c5 SHA512: f88a9c705eb547aee9d0eacf6ee00a5da943f347b56cb74c862a05df902a3721556ba6bb28288191dbc108273d78f3525e72684950a7ac20272505a9b05b5e40 Homepage: https://cran.r-project.org/package=BlockMissingData Description: CRAN Package 'BlockMissingData' (Integrating Multi-Source Block-Wise Missing Data in ModelSelection) Model selection method with multiple block-wise imputation for block-wise missing data; see Xue, F., and Qu, A. (2021) . Package: r-cran-blockmodelinggui Architecture: all Version: 1.8.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 213 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-blockmodeling, r-cran-shiny, r-cran-dt, r-cran-htmlwidgets, r-cran-igraph, r-cran-intergraph, r-cran-network, r-cran-shinybusy, r-cran-shinyjs, r-cran-shinythemes, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-blockmodelinggui_1.8.4-1.ca2004.1_all.deb Size: 45236 MD5sum: 16aa4952675ec43777b9d8c04e13d203 SHA1: 621bc0cee3ee3b19f38c4c4c6bc4e3289516b760 SHA256: d93a9774979c3aca3dbf3eecd4ab08aa6435a113c5396c9f388a4700b207d02d SHA512: f496aa95d351656489856326dcb1c9e36cd7e42c6fae580c955564f5a670a8a405d70ebe42108db1add0d1cfa6beb2fb04c821481853651b67a3054904e14e9e Homepage: https://cran.r-project.org/package=BlockmodelingGUI Description: CRAN Package 'BlockmodelingGUI' (GUI for the Generalised Blockmodeling of Valued Networks) This app provides some useful tools for Offering an accessible GUI for generalised blockmodeling of single-relation, one-mode networks. The user can execute blockmodeling without having to write a line code by using the app's visual helps. Moreover, there are several ways to visualisations networks and their partitions. Finally, the results can be exported as if they were produced by writing code. The development of this package is financially supported by the Slovenian Research Agency (www.arrs.gov.si) within the research project J5-2557 (Comparison and evaluation of different approaches to blockmodeling dynamic networks by simulations with application to Slovenian co-authorship networks). Package: r-cran-blockr.core Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10911 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-shiny, r-cran-dt, r-cran-bslib, r-cran-bsicons, r-cran-jsonlite, r-cran-vctrs, r-cran-generics, r-cran-rlang, r-cran-htmltools, r-cran-shinyfiles Suggests: r-cran-testthat, r-cran-memuse, r-cran-withr, r-cran-shinytest2, r-cran-roxy.shinylive, r-cran-knitr, r-cran-rmarkdown, r-cran-quarto, r-cran-scoutbar Filename: pool/dists/focal/main/r-cran-blockr.core_0.1.0-1.ca2004.1_all.deb Size: 1241840 MD5sum: f359675a136c1c781ae55ea45eab22fd SHA1: b9f1c5b6b2b44d0fd3cd56b658a2faca0f72ed4d SHA256: b87cf302825faca545dbf187544a1ca25c712b5797b1c83af45ed0e67e13f7a0 SHA512: 7b65d3238bb21db9747b0f7601b38cd6e2ac3fa37bb44e52099f35b18d6815cfb3117f9a0a78f8896efac86010a77982ba4bf26a34a6f8f0b0d9019de1adcc6a Homepage: https://cran.r-project.org/package=blockr.core Description: CRAN Package 'blockr.core' (Graphical Web-Framework for Data Manipulation and Visualization) A framework for data manipulation and visualization using a web-based point and click user interface where analysis pipelines are decomposed into re-usable and parameterizable blocks. Package: r-cran-blockrand Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-blockrand_1.5-1.ca2004.1_all.deb Size: 33508 MD5sum: 7cfdfc2d659b32363f185a31e9be7505 SHA1: 0943fad443068223e9ed77acae6316cbcd00e68f SHA256: 5727e2e22f794d815d80a3fedf49201343ec80f95232830bb553effd99646e4e SHA512: 3e27e1770125ef6cc2a4ffdb526c15b8a516f4221c6337fc68a8727e4cdbef3efc3a146b0a31ffc79189680a1d1d0b2f812f3b40f6e24f4064429a775c56b9fc Homepage: https://cran.r-project.org/package=blockrand Description: CRAN Package 'blockrand' (Randomization for Block Random Clinical Trials) Create randomizations for block random clinical trials. Can also produce a pdf file of randomization cards. Package: r-cran-blocksdesign Architecture: all Version: 4.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 548 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-polynomf Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-blocksdesign_4.9-1.ca2004.1_all.deb Size: 487176 MD5sum: 58aebcc0976d412394c9cc9a4826f9c1 SHA1: c46248b0a34007bb3021f468a303ab3f43d385da SHA256: 27a9770aac593f9de9bc2b36213ccc7304554730865e1767d66624951308ae46 SHA512: 5db0df7e2cbc13377a49f4794ed354da4f255b3d8b2fef5e7f3c4edfc0f3f462d72c9e71a01569b7e2825a36c3c459a5907c56ef848661bb6ae1b6800bd5bd05 Homepage: https://cran.r-project.org/package=blocksdesign Description: CRAN Package 'blocksdesign' (Nested and Crossed Block Designs for Factorial and UnstructuredTreatment Sets) Constructs treatment and block designs for linear treatment models with crossed or nested block factors. The treatment design can be any feasible linear model and the block design can be any feasible combination of crossed or nested block factors. The block design is a sum of one or more block factors and the block design is optimized sequentially with the levels of each successive block factor optimized conditional on all previously optimized block factors. D-optimality is used throughout except for square or rectangular lattice block designs which are constructed algebraically using mutually orthogonal Latin squares. Crossed block designs with interaction effects are optimized using a weighting scheme which allows for differential weighting of first and second-order block effects. Outputs include a table showing the allocation of treatments to blocks and tables showing the achieved D-efficiency factors for each block and treatment design. Edmondson, R.N. Multi-level Block Designs for Comparative Experiments. JABES 25, 500–522 (2020) . 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Package: r-cran-blrm Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 163 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-boot, r-cran-rjags, r-cran-mvtnorm, r-cran-openxlsx, r-cran-reshape2, r-cran-shiny Filename: pool/dists/focal/main/r-cran-blrm_1.0-2-1.ca2004.1_all.deb Size: 137392 MD5sum: 9c69ed1b1e6127bd8695e02a4f924a69 SHA1: 91a5dde195f9626314132cb9d9af02e19a560dde SHA256: 89bdf68f7b47a8ee2dc9544493c87b77a54cd7f5195d00bce5f58a8c8dd26fd4 SHA512: 0e22546e2f2da01fcb3adfe50403c4a4bd58e63539e15f32db5a86346955cc6b0a02d60829fe6c91eaee73196bb73c733e72b85a4febaebebf73660f53571161 Homepage: https://cran.r-project.org/package=blrm Description: CRAN Package 'blrm' (Dose Escalation Design in Phase I Oncology Trial Using BayesianLogistic Regression Modeling) Design dose escalation using Bayesian logistic regression modeling in Phase I oncology trial. Package: r-cran-blrpm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6 Filename: pool/dists/focal/main/r-cran-blrpm_1.0-1.ca2004.1_all.deb Size: 95388 MD5sum: 9e58f7d6d89f21b3fb2ab0dd4954af9f SHA1: d78d2749627e218a857941a4bc5fad615d636dc3 SHA256: fb8bf3ccd80cff4788df9449a6da240fbea0ef98897a59494c54cd0c18b8f1a1 SHA512: 5a95c00282b3f39bdc1d3536ded4c1d86f4e2ff08f765583c1568f331ec360a2ff2d3f0ab79dbc5229e8eb3e9929278a405774750d56dd358da4552a5a87deb9 Homepage: https://cran.r-project.org/package=BLRPM Description: CRAN Package 'BLRPM' (Stochastic Rainfall Generator Bartlett-Lewis Rectangular PulseModel) Due to a limited availability of observed high-resolution precipitation records with adequate length, simulations with stochastic precipitation models are used to generate series for subsequent studies [e.g. Khaliq and Cunmae, 1996, , Vandenberghe et al., 2011, ]. This package contains an R implementation of the original Bartlett-Lewis rectangular pulse model (BLRPM), developed by Rodriguez-Iturbe et al. (1987) . It contains a function for simulating a precipitation time series based on storms and cells generated by the model with given or estimated model parameters. Additionally BLRPM parameters can be estimated from a given or simulated precipitation time series. The model simulations can be plotted in a three-layer plot including an overview of generated storms and cells by the model (which can also be plotted individually), a continuous step-function and a discrete precipitation time series at a chosen aggregation level. 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Runtime examples are provided in the package function as well as at . 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Package: r-cran-bmconcor Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4227 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bmconcor_2.0.0-1.ca2004.1_all.deb Size: 594124 MD5sum: 768d71340e2091bed56289a2c7b1ce4c SHA1: 3b6d8ce2b1acb4fb9768a29fccbced05f8f9385a SHA256: 7ab6ac0dd76adeb5226fb9da3a467a9388194430bbb2e52e059d0b038f564631 SHA512: 5fed3903ae3e81ad6affe2c40a55387f5f0306d78a5369f735aa4c466bcc55b08ed376b28bc8ee727eda1cefb4379ebc9ab83a668f8f184c60387044a4acbae7 Homepage: https://cran.r-project.org/package=BMconcor Description: CRAN Package 'BMconcor' (CONCOR for Structural- And Regular-Equivalence Blockmodeling) The four functions svdcp() ('cp' for column partitioned), svdbip() or svdbip2() ('bip' for bipartitioned), and svdbips() ('s' for a simultaneous optimization of a set of 'r' solutions), correspond to a singular value decomposition (SVD) by blocks notion, by supposing each block depending on relative subspaces, rather than on two whole spaces as usual SVD does. The other functions, based on this notion, are relative to two column partitioned data matrices x and y defining two sets of subsets x_i and y_j of variables and amount to estimate a link between x_i and y_j for the pair (x_i, y_j) relatively to the links associated to all the other pairs. These methods were first presented in: Lafosse R. & Hanafi M.,(1997) and Hanafi M. & Lafosse, R. (2001) . Package: r-cran-bmem Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1053 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-amelia, r-cran-mass, r-cran-snowfall, r-cran-lavaan, r-cran-sem Filename: pool/dists/focal/main/r-cran-bmem_2.1-1.ca2004.1_all.deb Size: 950544 MD5sum: 64cfc80cb96a44a7b146c0b3bc94dc76 SHA1: b856372533673c649d79cce43cd20342041ae0b1 SHA256: de102d408a2c7110dc8ae5cd03819b9c6736af41980059e8960c5edf6db9bab0 SHA512: 2282eddbd45e3e2bf02af8cd66bdc07e748691318632ca90f48e3f099d98321ab4c4edd7a2600c8882ef0e36ce3d202bc6b7cf0e1189d26dc2ada6b8a80d7024 Homepage: https://cran.r-project.org/package=bmem Description: CRAN Package 'bmem' (Mediation Analysis with Missing Data Using Bootstrap) Four methods for mediation analysis with missing data: Listwise deletion, Pairwise deletion, Multiple imputation, and Two Stage Maximum Likelihood algorithm. For MI and TS-ML, auxiliary variables can be included. 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Package: r-cran-bmet Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-bmet_0.1.0-1.ca2004.1_all.deb Size: 22776 MD5sum: 67b2169fc1e2723ddb9533bab74c4116 SHA1: c548c9ca90ad85570cd3761fc11069b8d66a96ee SHA256: 06f459de0a143358d4c8d80ca08eba1644ca75137276a64f2eff9124f25c48e5 SHA512: bfe1fdf3408b5cdfd96186f1b91e8f035dc1634ba3be1d2e64200ed6edb6a3d33021e46091afc512e5430e7e370f3d2806bd24eec8b6ba834aaee938a2b46b5b Homepage: https://cran.r-project.org/package=bmet Description: CRAN Package 'bmet' (Bayesian Multigroup Equivalence Testing) Calculates the necessary quantities to perform Bayesian multigroup equivalence testing. Currently the package includes the Bayesian models and equivalence criteria outlined in Pourmohamad and Lee (2023) , but more models and equivalence testing features may be added over time. Package: r-cran-bmk Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-plyr, r-cran-functional Filename: pool/dists/focal/main/r-cran-bmk_1.0-1.ca2004.1_all.deb Size: 172136 MD5sum: ec78b814330120e81dafcacec846bee3 SHA1: f019932267d5b7fed3a17097cf34fe5ff08d160a SHA256: dd2b7f93dfb6c6037bcadbdb6ec5a5c9b515272086d5ccd08cda18ebae4fc390 SHA512: 967f1bba8d4b0f69a8eabcdeaca07b785d3789c21b5ade42587fff71dd462101920001f8fa837194d53d10b27e6baa1b6d72bbeed3426ab934e03c90bb47e175 Homepage: https://cran.r-project.org/package=bmk Description: CRAN Package 'bmk' (MCMC diagnostics package) MCMC diagnostic package that contains tools to diagnose convergence as well as to evaluate sensitivity studies, Includes summary functions which output mean, median, 95percentCI, Gelman & Rubin diagnostics and the Hellinger distance based diagnostics, Also contains functions to determine when an MCMC chain has converged via Hellinger distance, A function is also provided to compare outputs from identically dimensioned chains for determining sensitivy to prior distribution assumptions Package: r-cran-bmm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1065 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-brms, r-cran-crayon, r-cran-dplyr, r-cran-fs, r-cran-glue, r-cran-magrittr, r-cran-matrixstats, r-cran-tidyr, r-cran-withr Suggests: r-cran-bookdown, r-cran-cowplot, r-cran-fansi, r-cran-ggplot2, r-cran-ggthemes, r-cran-knitr, r-cran-mixtur, r-cran-remotes, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat, r-cran-tidybayes, r-cran-usethis, r-cran-waldo Filename: pool/dists/focal/main/r-cran-bmm_1.0.1-1.ca2004.1_all.deb Size: 937088 MD5sum: 38d29440515882b2202ab94a867a7d1e SHA1: 01554187218f76c9b235d78a07f4c8fa9fdc4a7b SHA256: 90d5df49eb9412b46c512768b85027e734b414adb57342c01d4709d95775ac4f SHA512: 0aa170ff6a61b68062f1a480218e3b37539010eee8b39339b2d46d5ee4f293dab7e3f6762ea4bb70fc1f65419b3e6efbe5054c797d1840f015d176ced57371d8 Homepage: https://cran.r-project.org/package=bmm Description: CRAN Package 'bmm' (Easy and Accessible Bayesian Measurement Models Using 'brms') Fit computational and measurement models using full Bayesian inference. The package provides a simple and accessible interface by translating complex domain-specific models into 'brms' syntax, a powerful and flexible framework for fitting Bayesian regression models using 'Stan'. The package is designed so that users can easily apply state-of-the-art models in various research fields, and so that researchers can use it as a new model development framework. References: Frischkorn and Popov (2023) . Package: r-cran-bmmix Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-bmmix_0.1-2-1.ca2004.1_all.deb Size: 29076 MD5sum: 7f754630b98a39f2e59269ae6c27c673 SHA1: ac3e725256243bf9d72ab56e293f6dfb12acef36 SHA256: 2c582596593cda01895d3fa7b66887041664c7d9b95ea9d5e7fdca85d16cd048 SHA512: 3be72ab183587f56295f5f3ccb78947e9ddd03d1dc2eda3336ae475ad7cf4cb993b42e8ae003c1303f1fcffd7c4b2ff14119633f5862fa23cf184dbdae372e75 Homepage: https://cran.r-project.org/package=bmmix Description: CRAN Package 'bmmix' (Bayesian multinomial mixture) Bayesian multinomial mixture model Package: r-cran-bmp Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 373 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-pixmap, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bmp_0.3-1.ca2004.1_all.deb Size: 97068 MD5sum: c6a2f23cba6c40cbfa4d7ce033d50fe5 SHA1: 26f388d28bb187a34b818e2006151346ce80cf26 SHA256: f757d70ea68d1bff5e7272d8f88360dc41df891a462084094e7ad616d95f7eb1 SHA512: ba97b69b6cf7c329b3bcea4a1b4593dbe0642e179c528af92d2c838736cefc0cf494ece6caf4535a63bd43f7e46e3f580afa55417b112c8fd4b1c411a69f1b7d Homepage: https://cran.r-project.org/package=bmp Description: CRAN Package 'bmp' (Read Windows Bitmap (BMP) Images) Reads Windows BMP format images. Currently limited to 8 bit greyscale images and 24,32 bit (A)RGB images. Pure R implementation without external dependencies. Package: r-cran-bmrbr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-rvest Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bmrbr_0.2.0-1.ca2004.1_all.deb Size: 22216 MD5sum: d69744055dd85d8bff994f0727698239 SHA1: ed87a001514cbbbf4b84b6c23ac8fccb0d83a81b SHA256: 138ac63e3a2aca57e7d7f5c74bbf49c16dd86af2e360ea647195e9165bc495be SHA512: 7bb6eee4f8da5ac95f643f8bd10700206a449169a30124e3f03cb032dfca3a3bc4adcc8053a3f77ad642279e14478afb8f0ed378e7264d512284b28fabd14691 Homepage: https://cran.r-project.org/package=BMRBr Description: CRAN Package 'BMRBr' ('BMRB' File Downloader) Nuclear magnetic resonance (NMR) is a highly versatile analytical technique for studying molecular configuration, conformation, and dynamics, especially those of biomacromolecules such as proteins. Biological Magnetic Resonance Data Bank ('BMRB') is a repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules. Currently, 'BMRB' offers an R package 'RBMRB' to fetch data, however, it doesn't easily offer individual data file downloading and storing in a local directory. When using 'RBMRB', the data will stored as an R object, which fundamentally hinders the NMR researches to access the rich information from raw data, for example, the metadata. Here, 'BMRBr' File Downloader ('BMRBr') offers a more fundamental, low level downloader, which will download original deposited .str format file. This type of file contains information such as entry title, authors, citation, protein sequences, and so on. Many factors affect NMR experiment outputs, such as temperature, resonance sensitivity and etc., approximately 40% of the entries in the 'BMRB' have chemical shift accuracy problems [1,2] Unfortunately, current reference correction methods are heavily dependent on the availability of assigned protein chemical shifts or protein structure. This is my current research project is going to solve, which will be included in the future release of the package. The current version of the package is sufficient and robust enough for downloading individual 'BMRB' data file from the 'BMRB' database . The functionalities of this package includes but not limited: * To simplifies NMR researches by combine data downloading and results analysis together. * To allows NMR data reaches a broader audience that could utilize more than just chemical shifts but also metadata. * To offer reference corrected data for entries without assignment or structure information (future release). Reference: [1] E.L. Ulrich, H. Akutsu, J.F. Doreleijers, Y. Harano, Y.E. Ioannidis, J. Lin, et al., BioMagResBank, Nucl. Acids Res. 36 (2008) D402–8. . [2] L. Wang, H.R. Eghbalnia, A. Bahrami, J.L. Markley, Linear analysis of carbon-13 chemical shift differences and its application to the detection and correction of errors in referencing and spin system identifications, J. Biomol. NMR. 32 (2005) 13–22. . Package: r-cran-bmrmm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fields, r-cran-logofgamma, r-cran-mcmcpack, r-cran-multicool, r-cran-pracma Filename: pool/dists/focal/main/r-cran-bmrmm_1.0.1-1.ca2004.1_all.deb Size: 236076 MD5sum: 4def03dcd9c423edd2b576f1f92e2fb7 SHA1: 5b5ceba2408fd92826c5fb7f2f7cb5477c307ff2 SHA256: 126ad3529f5649ee55f3938b3f8365a6fc40b9ef4eca678cb719f0db9d4405ab SHA512: 07a481920018df728127af7902b11061862498082ee957b3da2c38592f686398e6436a15fdaaed9416810ca976e55fcc164709ac4f2b1fd33f124c926d35ccb2 Homepage: https://cran.r-project.org/package=BMRMM Description: CRAN Package 'BMRMM' (An Implementation of the Bayesian Markov (Renewal) Mixed Models) The Bayesian Markov renewal mixed models take sequentially observed categorical data with continuous duration times, being either state duration or inter-state duration. These models comprehensively analyze the stochastic dynamics of both state transitions and duration times under the influence of multiple exogenous factors and random individual effect. The default setting flexibly models the transition probabilities using Dirichlet mixtures and the duration times using gamma mixtures. It also provides the flexibility of modeling the categorical sequences using Bayesian Markov mixed models alone, either ignoring the duration times altogether or dividing duration time into multiples of an additional category in the sequence by a user-specific unit. The package allows extensive inference of the state transition probabilities and the duration times as well as relevant plots and graphs. It also includes a synthetic data set to demonstrate the desired format of input data set and the utility of various functions. Methods for Bayesian Markov renewal mixed models are as described in: Abhra Sarkar et al., (2018) and Yutong Wu et al., (2022) . Package: r-cran-bmrsr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 289 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-xml2, r-cran-stringr, r-cran-tibble, r-cran-readr, r-cran-purrr, r-cran-dplyr, r-cran-rlang Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tidyr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bmrsr_1.0.3-1.ca2004.1_all.deb Size: 184700 MD5sum: 86388a852a758a39e90ae88b5d068420 SHA1: 15a54e569511b8fc51e5b6ab59c5cc928ad57cec SHA256: 3a272b302a9369527079d5e0fccbace92ae12ff1a2bd6dbad21cbea1a966cd3d SHA512: 09dd1f78b0e66652767cc9d7d1b1da7243293f68928bcf1ce6d4cb274f9e90fdb0e37a386d826b566265c2a5ff4ca102ae41f95e49f91cb4b2484c6fe1a83281 Homepage: https://cran.r-project.org/package=BMRSr Description: CRAN Package 'BMRSr' (Wrapper Functions to the 'BMRS API') A set of wrapper functions to better interact with the 'Balancing Mechanism Reporting System API' (). Package: r-cran-bms Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3099 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bms_0.3.5-1.ca2004.1_all.deb Size: 2910736 MD5sum: 931d19297a67c287e08d0a888439969c SHA1: 6f13763e4f3ea2bd2d10a3a4151c2f9563653bec SHA256: 2f0c724815ea15fce466121e69e87f8278360fb2d8b17b6b0abb85e50f963fbc SHA512: 686ee418f124186bd3b0356a0432f77394015ae2e62702c21679ceb1a5a42308e0542d02d55c154eb639fec0f6dd34a337f3d20f32e4ffa6315ee91fdcf0da5f Homepage: https://cran.r-project.org/package=BMS Description: CRAN Package 'BMS' (Bayesian Model Averaging Library) Bayesian Model Averaging for linear models with a wide choice of (customizable) priors. Built-in priors include coefficient priors (fixed, hyper-g and empirical priors), 5 kinds of model priors, moreover model sampling by enumeration or various MCMC approaches. Post-processing functions allow for inferring posterior inclusion and model probabilities, various moments, coefficient and predictive densities. Plotting functions available for posterior model size, MCMC convergence, predictive and coefficient densities, best models representation, BMA comparison. Also includes Bayesian normal-conjugate linear model with Zellner's g prior, and assorted methods. Package: r-cran-bmscstan Architecture: all Version: 1.2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 593 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rstan, r-cran-ggplot2, r-cran-bayesplot, r-cran-loo, r-cran-logspline, r-cran-laplacesdemon Suggests: r-cran-reshape2, r-cran-gridextra, r-cran-bridgesampling, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-bmscstan_1.2.1.0-1.ca2004.1_all.deb Size: 301380 MD5sum: ced9801a1060bfd4edf5c40b9b51d310 SHA1: d15ebe510ddba36149215129061f34bf5088a029 SHA256: 8d7c40e1a707cdb0e0e538c8a16ae8e5e6adc9da54de184fdaf92cbc8168ef10 SHA512: 337fc3fecd5fb39be01b8fd42ca4758b7435f4e0098d7e6577eb46ad3a9e245de5d96c93f073e5a041297c249c7d47af151fca71f2b1f377b27823bc3efefdc5 Homepage: https://cran.r-project.org/package=bmscstan Description: CRAN Package 'bmscstan' (Bayesian Multilevel Single Case Models using 'Stan') Analyse single case analyses against a control group. Its purpose is to provide a flexible, with good power and low first type error approach that can manage at the same time controls' and patient's data. The use of Bayesian statistics allows to test both the alternative and null hypothesis. Scandola, M., & Romano, D. (2020, August 3). Scandola, M., & Romano, D. (2021). . Package: r-cran-bmt Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 366 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-partitions, r-cran-fitdistrplus Filename: pool/dists/focal/main/r-cran-bmt_0.1.3-1.ca2004.1_all.deb Size: 329596 MD5sum: 9de55c11dd7f34c9de82040dfac16139 SHA1: 44cd6be45c652a845a31e2c9e8c52d7d6c316966 SHA256: 7a5a9f2b37a97ecd98b8ff8c0a618f53d09092ffb5efbf15b472dd3ea4bb2984 SHA512: 2d48ad7b69a65e4068be175bfc9a0da7eddb83ce675f204323b1e5c0f3f547ba5ff2689a9ccbf67ebe1ddf086145dd7bf2774a6d711984f8c9a0e0afc63cd000 Homepage: https://cran.r-project.org/package=BMT Description: CRAN Package 'BMT' (The BMT Distribution) Density, distribution, quantile function, random number generation for the BMT (Bezier-Montenegro-Torres) distribution. Torres-Jimenez C.J. and Montenegro-Diaz A.M. (2017) . Moments, descriptive measures and parameter conversion for different parameterizations of the BMT distribution. Fit of the BMT distribution to non-censored data by maximum likelihood, moment matching, quantile matching, maximum goodness-of-fit, also known as minimum distance, maximum product of spacing, also called maximum spacing, and minimum quantile distance, which can also be called maximum quantile goodness-of-fit. Fit of univariate distributions for non-censored data using maximum product of spacing estimation and minimum quantile distance estimation is also included. Package: r-cran-bmtar Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 567 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-brobdingnag, r-cran-mass, r-cran-mcmcpack, r-cran-expm, r-cran-ks, r-cran-mvtnorm, r-cran-doparallel, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-bmtar_0.1.1-1.ca2004.1_all.deb Size: 533668 MD5sum: 6f8345784780daf24462bd89f600b927 SHA1: c9fb6de2adbcb5343fc0275266c404353f25e0c3 SHA256: fd0cb72a507a049dce3cea014922bc3395ae5d6ee2e4ae183e167bd06dc00883 SHA512: 9cf265da39447ea603c748ad1f0f99c7bd4cab48d64da0ea98deedcab74d2185ebba2c13e53f916be55e88424b1fa5cacbb651dfaadb71866d66ed266e6cd9b1 Homepage: https://cran.r-project.org/package=BMTAR Description: CRAN Package 'BMTAR' (Bayesian Approach for MTAR Models with Missing Data) Implements parameter estimation using a Bayesian approach for Multivariate Threshold Autoregressive (MTAR) models with missing data using Markov Chain Monte Carlo methods. Performs the simulation of MTAR processes (mtarsim()), estimation of matrix parameters and the threshold values (mtarns()), identification of the autoregressive orders using Bayesian variable selection (mtarstr()), identification of the number of regimes using Metropolised Carlin and Chib (mtarnumreg()) and estimate missing data, coefficients and covariance matrices conditional on the autoregressive orders, the threshold values and the number of regimes (mtarmissing()). Calderon and Nieto (2017) . Package: r-cran-bnclustomics Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 350 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-bidag, r-cran-mclust, r-cran-clue, r-bioc-rbgl, r-bioc-graph, r-cran-grbase, r-cran-rcolorbrewer, r-cran-plotrix Filename: pool/dists/focal/main/r-cran-bnclustomics_1.1.1-1.ca2004.1_all.deb Size: 320312 MD5sum: 3e7143b60c9ca6890a9de6fdbbca6e9e SHA1: 544ca3269bbf939b45a1ff334ddf54964cd940ed SHA256: c70dd9bb12fd32fd5705c8b67507ecc03cdee561f7325eab0e2bf1817d158228 SHA512: 32398ff94c0f0b5fcbde124b5794d4de2e1f671074974408e57574823c57e6e4f41d773ce22d41685664f737bd62935c68173ab2b60d06d771fee2cea4ff2466 Homepage: https://cran.r-project.org/package=bnClustOmics Description: CRAN Package 'bnClustOmics' (Bayesian Network-Based Clustering of Multi-Omics Data) Unsupervised Bayesian network-based clustering of multi-omics data. Both binary and continuous data types are allowed as inputs. The package serves a dual purpose: it clusters (patient) samples and learns the multi-omics networks that characterize discovered clusters. Prior network knowledge (e.g., public interaction databases) can be included via blacklisting and penalization matrices. For clustering, the EM algorithm is employed. For structure search at the M-step, the Bayesian approach is used. The output includes membership assignments of samples, cluster-specific MAP networks, and posterior probabilities of all edges in the discovered networks. In addition to likelihood, AIC and BIC scores are returned. They can be used for choosing the number of clusters. References: P. Suter et al. (2021) , J. Kuipers and P. Suter and G. Moffa (2022) , J. Kuipers et al. (2018) . Package: r-cran-bndatagenerator Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-bnlearn Filename: pool/dists/focal/main/r-cran-bndatagenerator_1.0-1.ca2004.1_all.deb Size: 53728 MD5sum: 9144cdbb60c7f54163af9f7d4ef21cf2 SHA1: 0189418ec56f5d01797f844e34233e4bcf69e817 SHA256: 372bb7d99631d0010153514e1a9622a47d51b056ac1ec6490ec37cdd0c9a0792 SHA512: 3d275567880f5b6983b8dc13ca6d4e45e49663e9ea62f3b18770888644ef98bb5831289e2a2cea5d5944d9847900229055d99a3e2ac2b032ca28930b26594f42 Homepage: https://cran.r-project.org/package=BNDataGenerator Description: CRAN Package 'BNDataGenerator' (Data Generator based on Bayesian Network Model) Data generator based on Bayesian network model Package: r-cran-bndesr Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-janitor, r-cran-lubridate, r-cran-rcurl, r-cran-readr, r-cran-readxl, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bndesr_1.0.4-1.ca2004.1_all.deb Size: 40456 MD5sum: 4f5f2b83d340f3b1656bc51ba4930477 SHA1: ef24c302db258260300410f8589b9d9254b011be SHA256: 1b01da376410916b43b620df5b2d9b4d3b3d06df1f75eabe610a4e3e4c7110be SHA512: 6219d9164d838be1b1903a761ef33695060c49774b0b1eadb4cfdf012466a1bda191d2cc7f0fbdb0eba35abc8d54e8155864672aa03543e5c24d35501c0aa662 Homepage: https://cran.r-project.org/package=bndesr Description: CRAN Package 'bndesr' (Access Data from the Brazilian Development Bank (BNDES)) Allows access to data on BNDES disbursements and contracts since 1995. The package makes it easy to import data from the bank into R.. Package: r-cran-bndovb Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 649 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-np, r-cran-pracma, r-cran-mass, r-cran-dplyr, r-cran-factormodel, r-cran-nnet Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bndovb_1.1-1.ca2004.1_all.deb Size: 603848 MD5sum: dd66522b6966a57afd986cb30783ec28 SHA1: 3c72c5dfb014d99ad634bd63072bc079011b2890 SHA256: c9cd4231e530ae0e2eb674266b6e892cc8a9f0aead861071202260a5a6773b20 SHA512: e2528b49638f6dd7e2c7a0ce072a4ad23bb1b16d0087ed567cc818d78748f661af9037c83dd44769c7aee50a46ca6cc7a1d26fff7c00a99edeefcc6c31405d24 Homepage: https://cran.r-project.org/package=bndovb Description: CRAN Package 'bndovb' (Bounding Omitted Variable Bias Using Auxiliary Data) Functions to implement a Hwang(2021) estimator, which bounds an omitted variable bias using auxiliary data. 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Able to handle binomial, normal and multinomial arm-level data. Can handle multi-arm trials and includes methods to incorporate covariate and baseline risk effects. Includes standard diagnostics and visualization tools to evaluate the results. 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It includes methods to perform parameter variations via a variety of co-variation schemes, to compute sensitivity functions and to quantify the dissimilarity of two Bayesian networks via distances and divergences. It further includes diagnostic methods to assess the goodness of fit of a Bayesian networks to data, including global, node and parent-child monitors. Reference: M. Leonelli, R. Ramanathan, R.L. Wilkerson (2022) . 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The package supports modeling complex relationships while providing rigorous uncertainty quantification via posterior distributions. With features like user chosen priors, clear predictions, and support for regression, binary, and multi-class classification, it is well-suited for applications in clinical trials, finance, and other fields requiring robust Bayesian inference and decision-making. References: Neal(1996) . 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Package: r-cran-bnpa Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bnlearn, r-cran-fastdummies, r-cran-lavaan, r-bioc-rgraphviz, r-cran-semplot, r-cran-xlsx Filename: pool/dists/focal/main/r-cran-bnpa_0.3.0-1.ca2004.1_all.deb Size: 127332 MD5sum: c05960938c057c136c50b999e1679a76 SHA1: 105dd00b4891a09820d7dfcf62421e2c66bc30fd SHA256: 10984fcc57d8f78c19ad441b20b46472b9e7d1a60b0e1b259d9e5a1f98331c82 SHA512: a16c6cb0f60b9338506c8631d799f62d7abd67dd57d4d95b9f43113d3afc0631333da9b15d80d0fb9ef395e28da80dc7fd99eea1d2f1528d16306c579d1dea31 Homepage: https://cran.r-project.org/package=bnpa Description: CRAN Package 'bnpa' (Bayesian Networks & Path Analysis) This project aims to enable the method of Path Analysis to infer causalities from data. For this we propose a hybrid approach, which uses Bayesian network structure learning algorithms from data to create the input file for creation of a PA model. The process is performed in a semi-automatic way by our intermediate algorithm, allowing novice researchers to create and evaluate their own PA models from a data set. The references used for this project are: Koller, D., & Friedman, N. (2009). Probabilistic graphical models: principles and techniques. MIT press. . Nagarajan, R., Scutari, M., & Lèbre, S. (2013). Bayesian networks in r. Springer, 122, 125-127. Scutari, M., & Denis, J. B. . Scutari M (2010). Bayesian networks: with examples in R. Chapman and Hall/CRC. . Rosseel, Y. (2012). lavaan: An R Package for Structural Equation Modeling. Journal of Statistical Software, 48(2), 1 - 36. . 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A novel pathway enrichment analysis package based on Bayesian network to investigate the topology features of the pathways. firstly, 187 kyoto encyclopedia of genes and genomes (KEGG) human non-metabolic pathways which their cycles were eliminated by biological approach, enter in analysis as Bayesian network structures. The constructed Bayesian network were optimized by the Least Absolute Shrinkage Selector Operator (lasso) and the parameters were learned based on gene expression data. Finally, the impacted pathways were enriched by Fisher’s Exact Test on significant parameters. 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Body composition is a term that describes the relative proportions of fat, bone, and muscle mass in the human body. Following the collection of skinfold measurements, regression analysis (a statistical procedure used to predict a dependent variable based on one or more independent or predictor variables) is used to estimate total percent body fat in humans. . 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Functionality requires installing the data packages 'adiposerefdata' and 'musclerefdata'. For more information on the underlying research, please visit our website which also includes a graphical interface. The models and underlying data are described in Marquardt JP et al.(planned publication 2025; reserved doi 10.1097/RLI.0000000000001104), "Subcutaneous and Visceral adipose tissue Reference Values from Framingham Heart Study Thoracic and Abdominal CT", *Investigative Radiology* and Tonnesen PE et al. (2023), "Muscle Reference Values from Thoracic and Abdominal CT for Sarcopenia Assessment [column] The Framingham Heart Study", *Investigative Radiology*, . 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CFA Institute ("CFA Program Curriculum 2020 Level I Volumes 1-6. (Vol. 5, pp. 107-151, pp. 237-299)", 2019, ISBN: 9781119593577). Barbara S. Petitt ("Fixed Income Analysis", 2019, ISBN: 9781119628132). Frank J. Fabozzi ("Handbook of Finance: Financial Markets and Instruments", 2008, ISBN: 9780470078143). Frank J. Fabozzi ("Fixed Income Analysis", 2007, ISBN: 9780470052211). 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Depending on the presence of moderators, this Monte Carlo based test can be implemented in the random- or mixed-effects model. This package uses rma() function from the R package 'metafor' to obtain parameter estimates and likelihoods, so installation of R package 'metafor' is required. This approach refers to the studies of Anscombe (1956) , Haldane (1940) , Hedges (1981) , Hedges & Olkin (1985, ISBN:978-0123363800), Silagy, Lancaster, Stead, Mant, & Fowler (2004) , Viechtbauer (2010) , and Zuckerman (1994, ISBN:978-0521432009). 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Package: r-cran-boot Architecture: all Version: 1.3-31-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 760 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-mass, r-cran-survival Filename: pool/dists/focal/main/r-cran-boot_1.3-31-1.ca2004.1_all.deb Size: 620324 MD5sum: 3554a40fa5ed4d839e8da9398440df20 SHA1: dce9ee9e86eba4904933fdfacc939160ccea0276 SHA256: 0d7b7f464435cc485a446446f6a6e54a7e34f715f7eec6ae5609cdbbd44478c4 SHA512: 94b74d989a242e1f9bd8f7ba13352917be7ef4a88bfd0e8379cdef5e30b0545528b5718e7024484458e8cc2a48adee10fcf7c8f33a411e29b3ec6c072129a003 Homepage: https://cran.r-project.org/package=boot Description: CRAN Package 'boot' (Bootstrap Functions (Originally by Angelo Canty for S)) Functions and datasets for bootstrapping from the book "Bootstrap Methods and Their Application" by A. C. Davison and D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S. Package: r-cran-bootcluster Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 227 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cluster, r-cran-mclust, r-cran-flexclust, r-cran-fpc, r-cran-plyr, r-cran-dplyr, r-cran-doparallel, r-cran-foreach, r-cran-igraph, r-cran-ggplot2, r-cran-gridextra, r-cran-intergraph, r-cran-ggally, r-cran-network, r-cran-kernlab, r-cran-sna, r-cran-progress Filename: pool/dists/focal/main/r-cran-bootcluster_0.4.2-1.ca2004.1_all.deb Size: 195640 MD5sum: 72a18b5b19aa6c2295048c11ed7b3197 SHA1: 82d2229c0aad0bdf6eeeb755ca4582e41bfe1562 SHA256: 541c4a1492ffd34053e00470d7046ded92d29e32e5256ea23526c7c308364e03 SHA512: 178b3ade2058ce888dc2c115cdebe1988fc41d178a46d849f10008657a99528e3343a5be2e7da3236a36e52803abcce3b6b4fd6c48373d23a8b143a984e284c1 Homepage: https://cran.r-project.org/package=bootcluster Description: CRAN Package 'bootcluster' (Bootstrapping Estimates of Clustering Stability) Implementation of the bootstrapping approach for the estimation of clustering stability and its application in estimating the number of clusters, as introduced by Yu et al (2016). Implementation of the non-parametric bootstrap approach to assessing the stability of module detection in a graph, the extension for the selection of a parameter set that defines a graph from data in a way that optimizes stability and the corresponding visualization functions, as introduced by Tian et al (2021) . Implemented out-of-bag stability estimation function and k-select Smin-based k-selection function as introduced by Liu et al (2022) . Implemented ensemble clustering method based-on k-means clustering method, spectral clustering method and hierarchical clustering method. Package: r-cran-bootcomb Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-hdinterval Filename: pool/dists/focal/main/r-cran-bootcomb_1.1.2-1.ca2004.1_all.deb Size: 99396 MD5sum: 4ffcaa7e0fe437adf15407253e2aeafd SHA1: ffb57dbd9d2b1cf29de1a8dd56bdbf9230d47bb4 SHA256: 43ae09c3cdeb5536f1f236e9561a4ba42b703990bf48b13ca584ff872a67440e SHA512: 607fd0d14f20d0d408b4103264e6e4624694286f2e237af2ad9b8aa431912749f4cced7bba84f9a80438bff336e18e75f0593696657e83aa5a61ad98c44ffe03 Homepage: https://cran.r-project.org/package=bootComb Description: CRAN Package 'bootComb' (Combine Parameter Estimates via Parametric Bootstrap) Propagate uncertainty from several estimates when combining these estimates via a function. This is done by using the parametric bootstrap to simulate values from the distribution of each estimate to build up an empirical distribution of the combined parameter. Finally either the percentile method is used or the highest density interval is chosen to derive a confidence interval for the combined parameter with the desired coverage. Gaussian copulas are used for when parameters are assumed to be dependent / correlated. References: Davison and Hinkley (1997,ISBN:0-521-57471-4) for the parametric bootstrap and percentile method, Gelman et al. (2014,ISBN:978-1-4398-4095-5) for the highest density interval, Stockdale et al. (2020) for an example of combining conditional prevalences. Package: r-cran-bootes Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bootes_1.3.1-1.ca2004.1_all.deb Size: 55420 MD5sum: c725a14d2b0e5ef7c64c6963096ce7ed SHA1: efeef13652860f55c4beec7d81542ed118ef39b4 SHA256: a8dfb54b2fb538651b95ef36761ed66c183c34587319739790844bc49cf40974 SHA512: 7d5b9db6a77062fbdbaf005bdeffe4e94a3811e6815a608b129829898b7bd29f22f25b2ac2b056ce95d8090ad3c52cdb283da2f1f53facba2c40280718d37b91 Homepage: https://cran.r-project.org/package=bootES Description: CRAN Package 'bootES' (Bootstrap Confidence Intervals on Effect Sizes) Calculate robust measures of effect sizes using the bootstrap. Package: r-cran-bootf2 Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1574 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-minpack.lm, r-cran-mass, r-cran-readxl Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bootf2_0.4.1-1.ca2004.1_all.deb Size: 1066484 MD5sum: d4e5443436bef5539a1ca2e79d66bb41 SHA1: 9baf7362158a5bff32ce421ea76063371ca9cb72 SHA256: d0ee9270b9db81e4b4180a3d91bf14ae9467772b3b193c80cd70a8908e2465d0 SHA512: 48db4b49b980411fa91715f110a9c7284a70bb4f39c0805080739f0b89dca7fac83a0200e5d360c3a2f0e66266674fddacd1ead2d45f35214b9da65933924541 Homepage: https://cran.r-project.org/package=bootf2 Description: CRAN Package 'bootf2' (Simulation and Comparison of Dissolution Profiles) Compare dissolution profiles with confidence interval of similarity factor f2 using bootstrap methodology as described in the literature, such as Efron and Tibshirani (1993, ISBN:9780412042317), Davison and Hinkley (1997, ISBN:9780521573917), and Shah et al. (1998) . The package can also be used to simulate dissolution profiles based on mathematical modelling and multivariate normal distribution. 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It allows to perform rigorous statistical tests to check if a chosen model family is correct based on the marked empirical process. The implemented algorithms are described in (Dikta and Scheer (2021) ) and can be applied to generalized linear models without any further implementation effort. As far as certain linearity conditions are fulfilled the resampling scheme are also applicable beyond generalized linear models. This is reflected in the software architecture which allows to reuse the resampling scheme by implementing only certain interfaces for models that are not supported natively by the package. 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It is particularly useful when the sensitivity or specificity in the sample is 100%. Note that this does not perform the test on nested models--for that, see 'epicalc::lrtest'. 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Package: r-cran-bootstrapqtl Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrixeqtl, r-cran-foreach, r-cran-data.table Suggests: r-cran-domc, r-cran-doparallel, r-bioc-qvalue, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bootstrapqtl_1.0.5-1.ca2004.1_all.deb Size: 48848 MD5sum: 81cb9bcc731372515246e491fb3e3ac3 SHA1: f22f6b815a69678e136cac0ad8e21bb1297cafe5 SHA256: 96b87c6ffc095e749220e5ad528e04f9df9735ce83dee002351cd015efde7bad SHA512: 0b7c9f9ac96fabfffb4ecc3f32763675b822f44ba1595ef807d8fa85a40ed708c859140ebc5c2c0866d59fd08ed1d4e1be264ee039a5df8c410bb049aafb6410 Homepage: https://cran.r-project.org/package=BootstrapQTL Description: CRAN Package 'BootstrapQTL' (Bootstrap cis-QTL Method that Corrects for the Winner's Curse) Identifies genome-related molecular traits with significant evidence of genetic regulation and performs a bootstrap procedure to correct estimated effect sizes for over-estimation present in cis-QTL mapping studies (The "Winner's Curse"), described in Huang QQ *et al.* 2018 . Package: r-cran-bootsurv Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 617 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-bootsurv_0.0.1-1.ca2004.1_all.deb Size: 565716 MD5sum: ffbb1486243d4988f88f2ee604bd99f8 SHA1: 286f6d40ea2a150877cce8e382f28430df9f55c0 SHA256: 904e048593938dd15002ca0f0da7a35cf8e8efb766d00cc3c0e11b1ec66eeb6c SHA512: 5da85675fe82b5ad01e4a0a667390f5a1a42ece0c7bd49953ef97fa92f0dbf560db32c48b0954916f9e808c79c671e37bef107402dc5ae8e97a623ea9a70615b Homepage: https://cran.r-project.org/package=bootsurv Description: CRAN Package 'bootsurv' (Bootstrap Methods for Complete Survey Data) Bootstrap resampling methods have been widely studied in the context of survey data. This package implements various bootstrap resampling techniques tailored for survey data, with a focus on stratified simple random sampling and stratified two-stage cluster sampling. It provides tools for precise and consistent bootstrap variance estimation for population totals, means, and quartiles. Additionally, it enables easy generation of bootstrap samples for in-depth analysis. Package: r-cran-bootsvd Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ff Filename: pool/dists/focal/main/r-cran-bootsvd_1.2-1.ca2004.1_all.deb Size: 149144 MD5sum: 5aa178cda06d7a092e911773da82b87b SHA1: d7caacfca1d0ce72f72967095b022991dc6018d7 SHA256: e1f92a7adb355140405a576ffac31b25b702437f0458c5f9e1927c87117c1ddf SHA512: b51bee7f338ea33d5d8ad9437d17ba5bc8dc2006cbfceb3ae856ce8ee0b7a36bf7c92a87ba9724024adba47d5ff0e5584841281f4fa87f793923b0ad748f9a7e Homepage: https://cran.r-project.org/package=bootSVD Description: CRAN Package 'bootSVD' (Fast, Exact Bootstrap Principal Component Analysis for HighDimensional Data) Implements fast, exact bootstrap Principal Component Analysis and Singular Value Decompositions for high dimensional data, as described in (see also ). For data matrices that are too large to operate on in memory, users can input objects with class 'ff' (see the 'ff' package), where the actual data is stored on disk. In response, this package will implement a block matrix algebra procedure for calculating the principal components (PCs) and bootstrap PCs. Depending on options set by the user, the 'parallel' package can be used to parallelize the calculation of the bootstrap PCs. 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In another domain, the nonparametric bootstrap test with pooled resampling (nbpr) methods, as outlined in Dwivedi, Mallawaarachchi, and Alvarado (2017) , is optimal for comparing paired or unpaired means in non-normal data, especially for small sample size studies. However, many researchers are unfamiliar with these methods. The 'bootwar' package bridges this gap by enabling users to grasp the concepts of nbpr via Boot War, a variation of the card game War designed for small samples. The package provides functions like score_keeper() and play_round() to streamline gameplay and scoring. Once a predetermined number of rounds concludes, users can employ the analyze_game() function to derive game results. This function leverages the 'npboottprm' package's nonparboot() to report nbpr results and, for comparative analysis, also reports results from the 'stats' package's t.test() function. Additionally, 'bootwar' features an interactive 'shiny' web application, bootwar(). This offers a user-centric interface to experience Boot War, enhancing understanding of nbpr methods across various distributions, sample sizes, number of bootstrap resamples, and confidence intervals. 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The package also provides an optional method of using the graphical user interface (GUI) R package 'tcltk' to ensure that it is user friendly. Package: r-cran-bor Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bor_0.1.0-1.ca2004.1_all.deb Size: 21296 MD5sum: d72bb8d9e94536632e6a0e161bd50bde SHA1: cdf1e6ee57b654cb75b5f5ce28b4a15c3a5d2cf3 SHA256: 1728bc074a4e9ed8a1f61b84436d8eb326ebb35b0d06f61879f405c765170425 SHA512: 0be45a36e413064dccd5eaf2add4534b76b0b0478e28e185b304e5a8c824453c2220d76f7dc5aa279d114550efcbc53e456edeed133248b9fa2c1a4e741514e6 Homepage: https://cran.r-project.org/package=bor Description: CRAN Package 'bor' (Transforming Behavioral Observation Records into Data Matrices) Transforms focal observations' data, where different types of social interactions can be recorded by multiple observers, into asymmetric data matrices. 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Package: r-cran-boruta Architecture: all Version: 8.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 502 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ranger Suggests: r-cran-mlbench, r-cran-rferns, r-cran-randomforest, r-cran-testthat, r-cran-xgboost, r-cran-survival Filename: pool/dists/focal/main/r-cran-boruta_8.0.0-1.ca2004.1_all.deb Size: 433260 MD5sum: a76038013b20d0126dfeebceccc02a37 SHA1: 2883c1e5651331200cfc260cef23a90bbf195eac SHA256: 5fc6ae20b940ae30493d8ec35d0ff5fd8bf98861567a9582a0b4774303a3060e SHA512: 67b28ab1c5379780e6fa2ff302ee8a55aa6a99e00e1df93e9b6f9572d7b58083f42693f891cc604be5d22283af0257a7a4094025bdcfa9277eef8310a57da2a6 Homepage: https://cran.r-project.org/package=Boruta Description: CRAN Package 'Boruta' (Wrapper Algorithm for All Relevant Feature Selection) An all relevant feature selection wrapper algorithm. 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The main contribution is the use a bilevel optimization problem to select the variables in the training problem that minimize the error in the validation set. Preprint available: [Valcarcel, L. V., San Jose-Eneriz, E., Cendoya, X., Rubio, A., Agirre, X., Prosper, F., & Planes, F. J. (2020). "BOSO: a novel feature selection algorithm for linear regression with high-dimensional data." bioRxiv. ]. In order to run the vignette, it is recommended to install the 'bestsubset' package, using the following command: devtools::install_github(repo="ryantibs/best-subset", subdir="bestsubset"). If you do not have gurobi, run devtools::install_github(repo="lvalcarcel/best-subset", subdir="bestsubset"). Moreover, to install cplexAPI you can check . 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Package: r-cran-bossr Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mvtnorm, r-cran-survival Filename: pool/dists/focal/main/r-cran-bossr_1.0.4-1.ca2004.1_all.deb Size: 25468 MD5sum: 265e96f68cf156f5ba486c6b6eb1f18d SHA1: c22f5147950d4e52158751be89ceb76e0f237cd1 SHA256: e7e60d25294e56ad564b0244dfceb86dfc0da184bed92d6f3efafe92ced88bb0 SHA512: 3e1c1796649c254c7c81b713e151ff197d7bdde18c325fdad61e3165419e0b8ebe7d0b020287b25eefcf03503c97ec2d08d792ebfba221435ab9374055200e1d Homepage: https://cran.r-project.org/package=bossR Description: CRAN Package 'bossR' (Biomarker Optimal Segmentation System) The Biomarker Optimal Segmentation System R package, 'bossR', is designed for precision medicine, helping to identify individual traits using biomarkers. It focuses on determining the most effective cutoff value for a continuous biomarker, which is crucial for categorizing patients into two groups with distinctly different clinical outcomes. The package simultaneously finds the optimal cutoff from given candidate values and tests its significance. Simulation studies demonstrate that 'bossR' offers statistical power and false positive control non-inferior to the permutation approach (considered the gold standard in this field), while being hundreds of times faster. Package: r-cran-botor Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate, r-cran-checkmate, r-cran-logger, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-covr, r-cran-digest Filename: pool/dists/focal/main/r-cran-botor_0.4.1-1.ca2004.1_all.deb Size: 140136 MD5sum: cbdcf12098ee7a6ded6417c1067716f4 SHA1: b8caf59f3d054a78fe98c796879c0f919b9834cf SHA256: 21b1f9e002ced375244969edb2814172e7883f1024a6c41d1ce04d3ebbaac187 SHA512: db48e0ec9ed01b7e3bd7bd1038b558996ce870cfe112b372c40c17b80e2567760d4a10f6e0c814d8e1b3cad3b7407ba64c742eac779310f976666041739c8a7f Homepage: https://cran.r-project.org/package=botor Description: CRAN Package 'botor' ('AWS Python SDK' ('boto3') for R) Fork-safe, raw access to the 'Amazon Web Services' ('AWS') 'SDK' via the 'boto3' 'Python' module, and convenient helper functions to query the 'Simple Storage Service' ('S3') and 'Key Management Service' ('KMS'), partial support for 'IAM', the 'Systems Manager Parameter Store' and 'Secrets Manager'. Package: r-cran-boundarystats Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 293 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-terra, r-cran-pdqr, r-cran-ggplot2, r-cran-tibble, r-cran-dplyr, r-cran-magrittr, r-cran-igraph, r-cran-fields, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-boundarystats_2.2.0-1.ca2004.1_all.deb Size: 187960 MD5sum: 6610046c34d4f15b5c1fdb990fe014bf SHA1: f02622f93fa72e206443d9398d4add6b22a04bda SHA256: 5c6f6901ed67424fd54bb604e72516f14e57a0d2e141678b069a89de873e121f SHA512: a664df21918ce4923c326b6e5ac6fe3e57cf87788f21f6dc840cef0ef2cde6e0b728d355d6f66d91cdd9aa4346da90d64a6f3ad8ba629b5f7caa54ef98dc6424 Homepage: https://cran.r-project.org/package=BoundaryStats Description: CRAN Package 'BoundaryStats' (Boundary Overlap Statistics) Analysis workflow for finding geographic boundaries of ecological or landscape traits and comparing the placement of geographic boundaries of two traits. If data are trait values, trait data are transformed to boundary intensities based on approximate first derivatives across latitude and longitude. The package includes functions to create custom null models based on the input data. The boundary statistics are described in: Fortin, Drapeau, and Jacquez (1996) . Package: r-cran-boundedgeworth Architecture: all Version: 0.1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-expint, r-cran-mathjaxr Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-boundedgeworth_0.1.2.1-1.ca2004.1_all.deb Size: 81032 MD5sum: 7b402c11f832e9ec6048da0d42952c43 SHA1: 4f1cebc814969581ff77c97064ad39981adb64a5 SHA256: d280bf5a3b5e363862a79fd41d88e03df9204e5264fd0350358e99b1742ba57f SHA512: 1f5789f5e632dfab92ab11f79f62eca40c3655e37c1c7e5a0761595136f6a99479b5883e567a0a6d48f06b51bc8d4f510ed6b4794cd71d258b9039a349ef2cbd Homepage: https://cran.r-project.org/package=BoundEdgeworth Description: CRAN Package 'BoundEdgeworth' (Bound on the Error of the First-Order Edgeworth Expansion) Computes uniform bounds on the distance between the cumulative distribution function of a standardized sum of random variables and its first-order Edgeworth expansion, following the article Derumigny, Girard, Guyonvarch (2021) . Package: r-cran-boundingbox Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 756 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-imager, r-cran-gplots Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-boundingbox_1.0.1-1.ca2004.1_all.deb Size: 604040 MD5sum: 8523c627cce4b784489a85172d802aff SHA1: a1dbbd5acb6d72c818b58832090366d5c778cbeb SHA256: f8329fd4809ccd41bccafa6bbdc06e93f8716fdc7b6f1d871014fc776e2291a8 SHA512: edfbce8238ad262e0db3ac489feabd8e5c19c70933d9d9ec976b8507abff13aa8714a322bee5728d3543efea349591e224bd12d805a385761453e30396aec8ba Homepage: https://cran.r-project.org/package=boundingbox Description: CRAN Package 'boundingbox' (Create a Bounding Box in an Image) Generate ground truth cases for object localization algorithms. Cycle through a list of images, select points around which to generate bounding boxes and assign classifiers. Output the coordinates, and images annotated with boxes and labels. For an example study that uses bounding boxes for image localization and classification see Ibrahim, Badr, Abdallah, and Eissa (2012) "Bounding Box Object Localization Based on Image Superpixelization" . Package: r-cran-boussinesq Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-boussinesq_1.0.6-1.ca2004.1_all.deb Size: 29032 MD5sum: c73d88c2404d3c21313e6bd62aa98385 SHA1: 2f2cb3800bbb54d9e56702f1401ede757eb269d0 SHA256: f2f9374ff360010e92fdad5f660b7bdaf5a63b20724106b1a5e06157d443cd9a SHA512: 41f02dffafcd24e10c67450ea14a421b9163233d4c3ed7ad29e11154ccf8f244b88f55c0960600dc6c9dc0e0bec56e0cdcc73842220d9942232f7b69702eca35 Homepage: https://cran.r-project.org/package=boussinesq Description: CRAN Package 'boussinesq' (Analytic Solutions for (Ground-Water) Boussinesq Equation) A collection of R functions were implemented from published and available analytic solutions for the One-Dimensional Boussinesq Equation (ground-water). 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Package: r-cran-boutliers Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-metafor, r-cran-mass Filename: pool/dists/focal/main/r-cran-boutliers_1.1-2-1.ca2004.1_all.deb Size: 61464 MD5sum: 5c6bedbd7537d70517085eda32a1eb4e SHA1: 030157ac7bf7f791c30181d5aa3114ac2622d62a SHA256: aa500144e250e4444a4caf0e4ec75179debb06ae1f9666a6c0fbacccc0e813f7 SHA512: 4a97d32b7b6c5f181cd155dec9d4b15e2cd8202840a7420d86e93c731a89b049125b14ea28c650e410e64db0984d7aec147fbf9340a767e334acc8c06d5455cc Homepage: https://cran.r-project.org/package=boutliers Description: CRAN Package 'boutliers' (Outlier Detection and Influence Diagnostics for Meta-Analysis) Computational tools for outlier detection and influence diagnostics of meta-analysis. Bootstrap distributions of the influence statistics are calculated, and the thresholds to determine outliers are explicitly provided. 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Package: r-cran-boxcoxmix Architecture: all Version: 0.46-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 463 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-statmod, r-cran-qicharts, r-cran-npmlreg Suggests: r-cran-nlme, r-cran-mdscore, r-cran-flexmix Filename: pool/dists/focal/main/r-cran-boxcoxmix_0.46-1.ca2004.1_all.deb Size: 375396 MD5sum: b391eae4ed8f6f09ba8a146871e0b976 SHA1: 3381dc0d227cd33f9231e42661fbb86846db16e0 SHA256: 3c90e5fdd8e8bde9430bf72680cfebb34f1fb344bb377097ed1f7e112f1fb990 SHA512: d77132cdd2d3023db361725f3d4cb7c120ffe89918e0a29326cd59189f1fbe0f4376df94f4575d119d92e0756b7add0595249ca4546326491fbc79459e21ce28 Homepage: https://cran.r-project.org/package=boxcoxmix Description: CRAN Package 'boxcoxmix' (Box-Cox-Type Transformations for Linear and Logistic Models withRandom Effects) Box-Cox-type transformations for linear and logistic models with random effects using non-parametric profile maximum likelihood estimation, as introduced in Almohaimeed (2018) and Almohaimeed and Einbeck (2022) . The main functions are 'optim.boxcox()' for linear models with random effects and 'boxcoxtype()' for logistic models with random effects. Package: r-cran-boxfilter Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1749 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-boxfilter_0.2-1.ca2004.1_all.deb Size: 519044 MD5sum: 0d347aa8904e28b6784e0b2b6ce57790 SHA1: 1e9af4b2becbca84c6e06b94ee35b04d6126e3e4 SHA256: 6dcf1e75def7f0710f8996107fd46f8d8aa53aaa70033c23fb42f2ef685fd5e9 SHA512: b66c9daf8e48078d73116d06d9d3f2ff9155bdc83c3c480cfc784c559485853fc51268a0b42ce4e733f1ada68e598b74627e87136a32a89c633bc4f77819109c Homepage: https://cran.r-project.org/package=boxfilter Description: CRAN Package 'boxfilter' (Filter Noisy Data) Noise filter based on determining the proportion of neighboring points. A false point will be rejected if it has only few neighbors, but accepted if the proportion of neighbors in a rectangular frame is high. The size of the rectangular frame as well as the cut-off value, i.e. of a minimum proportion of neighbor-points, may be supplied or can be calculated automatically. Originally designed for the cleaning of heart rates, but suitable for filtering any slowly-changing physiological variable.For more information see Signer (2010). 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Package: r-cran-boxplotcluster Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cluster Filename: pool/dists/focal/main/r-cran-boxplotcluster_0.3-1.ca2004.1_all.deb Size: 25464 MD5sum: 9fb550ae0d6e94c6d9735da6b871b0ce SHA1: 4858d37a38f1d37fcbbffb34e322631f416eb819 SHA256: 9a9779a00a244b1d4d00bf751f0b2aca60948403ea45e4203b2c925187e54282 SHA512: 3f4fca16f527947d200c2f5424c7ede05f61c65a04a08d75ce2f20c6d683d90a7f318f263f0fc3e77d7fe80993e50cf6b646fe86737410f7232a3dba74989cb2 Homepage: https://cran.r-project.org/package=boxplotcluster Description: CRAN Package 'boxplotcluster' (Clustering Method Based on Boxplot Statistics) Following Arroyo-Maté-Roque (2006), the function calculates the distance between rows or columns of the dataset using the generalized Minkowski metric as described by Ichino-Yaguchi (1994). 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In addition to uploading and downloading files, this package includes functions which mirror base R operations for local files, (e.g. box_load(), box_save(), box_read(), box_setwd(), etc.), as well as 'git' style functions for entire directories (e.g. box_fetch(), box_push()). 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Package: r-cran-bpa Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-plyr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bpa_0.1.1-1.ca2004.1_all.deb Size: 40420 MD5sum: dfb72f98696a74b4349d33be50375f04 SHA1: ade4f1477315fdb889e9510bbe348fdf97c8b82b SHA256: 101741321cbd445a4d97ae14d9905426538935fde390a43845d840cc9997f85f SHA512: def2895ca7f69b0642e84e96ba2e8254dd89fbee852094858f3233a3c3de4867e8a0b8c11a1fc786679a5dafbcd735e2f63e2068873af0eb3a00e4e328ded11d Homepage: https://cran.r-project.org/package=bpa Description: CRAN Package 'bpa' (Basic Pattern Analysis) Run basic pattern analyses on character sets, digits, or combined input containing both characters and numeric digits. Useful for data cleaning and for identifying columns containing multiple or nonstandard formats. Package: r-cran-bpbounds Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-shiny, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-bpbounds_0.1.6-1.ca2004.1_all.deb Size: 62804 MD5sum: bd5d97fca76ba04927fdae077b2b4fd5 SHA1: 87048c79ea498b3d33e5b96cba107fc16674024b SHA256: d6ac080fb0a161b72a7063d1f88a98de55d958d2d759da9101642a2b1529d9d4 SHA512: 9ae0f7cbb042ab358b59cfd8b285175a1b09a956e0b7c0db13954953c161d39bfb84af43f578ebb8a54f32012926fefed2b50ad59ed7b9049c3e30fb87bb7226 Homepage: https://cran.r-project.org/package=bpbounds Description: CRAN Package 'bpbounds' (Nonparametric Bounds for the Average Causal Effect Due to Balkeand Pearl and Extensions) Implementation of the nonparametric bounds for the average causal effect under an instrumental variable model by Balke and Pearl (Bounds on Treatment Effects from Studies with Imperfect Compliance, JASA, 1997, 92, 439, 1171-1176, ). The package can calculate bounds for a binary outcome, a binary treatment/phenotype, and an instrument with either 2 or 3 categories. The package implements bounds for situations where these 3 variables are measured in the same dataset (trivariate data) or where the outcome and instrument are measured in one study and the treatment/phenotype and instrument are measured in another study (bivariate data). Package: r-cran-bpca Architecture: all Version: 1.3-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 323 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-scatterplot3d, r-cran-rgl, r-cran-xtable Filename: pool/dists/focal/main/r-cran-bpca_1.3-6-1.ca2004.1_all.deb Size: 256372 MD5sum: 7594ce3c6fd9c59cc5233b153b9a91d8 SHA1: 8396bfdd07c6a386a0ba202095e2b0bbf4916b63 SHA256: 43c64d55318159ac242d164bd00cca4883ce83e6dc6489f18dd066973aec06ad SHA512: 7655d12880f0d4b8ce04e140cf8c50dd84356f6223dcd44519364a486deed843beec969515eb128ff3cf14bb82b52f74a4a3aa07f207d2049187d46a1bd266cf Homepage: https://cran.r-project.org/package=bpca Description: CRAN Package 'bpca' (Biplot of Multivariate Data Based on Principal ComponentsAnalysis) Implements biplot (2d and 3d) of multivariate data based on principal components analysis and diagnostic tools of the quality of the reduction. 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Has two-sample tests for dissimilarity (e.g., difference, ratio or odds ratio) in survival at a fixed time, and differences in medians [Fay, Proschan, and Brittain ]. Basically, the package gives exact inference methods for one- and two-sample exact inferences for Kaplan-Meier curves (e.g., generalizing Fisher's exact test to allow for right censoring), which are especially important for latter parts of the survival curve, small sample sizes or heavily censored data. Includes mid-p options. 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Package: r-cran-bplsr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1829 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda, r-cran-progress, r-cran-statmod Filename: pool/dists/focal/main/r-cran-bplsr_1.0.3-1.ca2004.1_all.deb Size: 1834788 MD5sum: e42f0f25e73a160c01a898b993cd25b0 SHA1: 48347d8f052da2d7dab7fb3203a8f500b2851505 SHA256: b43cb5af99cd78b7fed3dedd0db0a1ef320d68b40783fad5b11fd402d69960aa SHA512: ae495610f88157d3a043be2e703675d6ca73df3f90bbfebe9bd6394cfa260ca03b15b6c1a9a37a93528d2936b81bcf46f7a37b74e716d1482f87c9ae9bedecfb Homepage: https://cran.r-project.org/package=bplsr Description: CRAN Package 'bplsr' (Bayesian partial least squares regression) Fits the Bayesian partial least squares regression model introduced in Urbas et al. (2024) . Suitable for univariate and multivariate regression with high-dimensional data. Package: r-cran-bpm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-limma Filename: pool/dists/focal/main/r-cran-bpm_1.0.0-1.ca2004.1_all.deb Size: 2528692 MD5sum: 1d877a329b57a24dd06114a075b6e1af SHA1: 559572b5a0559a809b527cdaf7c1ed25d36e724d SHA256: 8c8359c91cacf555c28a80f84fed2af90701d74d26a8139314a1e66466c5f7e6 SHA512: 6303c71788d3b1a64cfe460fd6b736a19d438cbed9f1a09616ff010b1141afa956f2406e15cf9fae5ff6c291942896f9240310753455e57442b12bfa9a5fb241 Homepage: https://cran.r-project.org/package=BPM Description: CRAN Package 'BPM' (Bayesian Purity Model to Estimate Tumor Purity) Bayesian purity model to estimate tumor purity using methylation array data (DNA methylation Infinium 450K array data) without reference samples. 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Functionalities can be used to visualize and export BPMN diagrams created using the 'pm4py' and 'bupaRminer' packages. Part of the 'bupaR' ecosystem. 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Package: r-cran-bpmodel Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-extradistr, r-cran-gamlss, r-cran-gamlss.dist, r-cran-ggplot2, r-cran-deriv, r-cran-dplyr, r-cran-pracma Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bpmodel_1.1.2-1.ca2004.1_all.deb Size: 117172 MD5sum: d8c9d2e859c476acbc58b0fa9bd71b82 SHA1: 0e452062fe8033979c5dff84869528ca3a829575 SHA256: 4c522d344c94c4f9e1a0305570e647b676e28c230c10f3a9144658a6cee5b58d SHA512: 2d2cd8926cec25c28d5cbf7949e3d0c42a5f4a612667a9ee8d32106a10b360f6d0a58442a751d5c07009bc6d465985c00ab9d30741de36e21cd7f6bbd8206559 Homepage: https://cran.r-project.org/package=BPmodel Description: CRAN Package 'BPmodel' (Beta-Prime Regression Model) A new regression model for positive random variables with skewed and long tail. Package: r-cran-bpp Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 316 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bpp_1.0.6-1.ca2004.1_all.deb Size: 155816 MD5sum: bc04a79a7a839f0e8903905fa479cad3 SHA1: 41a4332ea45b8663f12d803d66ed47b1f6c5df16 SHA256: affc8f9b3999ba118ac15fedc6223042f2939ff9771acdad5f2c162652d6a790 SHA512: 27d50439315864052bdf0773edabbf391615c5aef6c586daa2a1870db69564b8560c2dae34351c7cd6eb4ddc8101e57712194315dacd3abd3b308932afe99829 Homepage: https://cran.r-project.org/package=bpp Description: CRAN Package 'bpp' (Computations Around Bayesian Predictive Power) Implements functions to update Bayesian Predictive Power Computations after not stopping a clinical trial at an interim analysis. Such an interim analysis can either be blinded or unblinded. Code is provided for Normally distributed endpoints with known variance, with a prominent example being the hazard ratio. Package: r-cran-bqror Architecture: all Version: 1.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-pracma, r-cran-gigrvg, r-cran-truncnorm, r-cran-npflow, r-cran-invgamma, r-cran-progress Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bqror_1.7.1-1.ca2004.1_all.deb Size: 285884 MD5sum: 6d2db1d175d53877f270e3b95de4d7da SHA1: 4f19a2795691ce7b71ff7dc9cb9bbae4523a81de SHA256: 16687d342bc36ac2363f9ad532c9a8af7cec2002ff71863c0e84714bb3a8a162 SHA512: 28a7242aa6aaf60a48481f6a88b171f24436c22b7e0a149a1e7341bfef34abfe8eb1c0b64b7fc1fa6ccc6821890f18875d45d9a29e1a4f3dbedba5dfdcdbaa6c Homepage: https://cran.r-project.org/package=bqror Description: CRAN Package 'bqror' (Bayesian Quantile Regression for Ordinal Models) Package provides functions for estimation and inference in Bayesian quantile regression with ordinal outcomes. An ordinal model with 3 or more outcomes (labeled OR1 model) is estimated by a combination of Gibbs sampling and Metropolis-Hastings (MH) algorithm. Whereas an ordinal model with exactly 3 outcomes (labeled OR2 model) is estimated using a Gibbs sampling algorithm. The summary output presents the posterior mean, posterior standard deviation, 95% credible intervals, and the inefficiency factors along with the two model comparison measures – logarithm of marginal likelihood and the deviance information criterion (DIC). The package also provides functions for computing the covariate effects and other functions that aids either the estimation or inference in quantile ordinal models. Rahman, M. A. (2016).“Bayesian Quantile Regression for Ordinal Models.” Bayesian Analysis, 11(1): 1-24 . Yu, K., and Moyeed, R. A. (2001). “Bayesian Quantile Regression.” Statistics and Probability Letters, 54(4): 437–447 . Koenker, R., and Bassett, G. (1978).“Regression Quantiles.” Econometrica, 46(1): 33-50 . Chib, S. (1995). “Marginal likelihood from the Gibbs output.” Journal of the American Statistical Association, 90(432):1313–1321, 1995. . Chib, S., and Jeliazkov, I. (2001). “Marginal likelihood from the Metropolis-Hastings output.” Journal of the American Statistical Association, 96(453):270–281, 2001. . Package: r-cran-bracatus Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 844 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-geojsonio, r-cran-jsonlite, r-cran-plotfunctions, r-cran-raster, r-cran-rgbif, r-cran-rnaturalearth, r-cran-sf, r-cran-sp Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bracatus_2.0.0-1.ca2004.1_all.deb Size: 756588 MD5sum: 5f10e7dc3ec53b67b2db82e885b145ef SHA1: f3ce7682ca45b88eeb99bbe6b617d8ec2490c21c SHA256: 87f137a62aae1383248c28a5ab25d0ae3cd341c728a66650815373adb97ca655 SHA512: d3d58774eea3379d0e917db70fc7a7ec0cf16348f86c299d44eb9f9216187293ca802e62c32a16d7894af595e908ca22b9732c0589fad4f787e596551c207089 Homepage: https://cran.r-project.org/package=bRacatus Description: CRAN Package 'bRacatus' (A Method to Estimate the Accuracy and Biogeographical Status ofGeoreferenced Biological Data) Automated assessment of accuracy and geographical status of georeferenced biological data. The methods rely on reference regions, namely checklists and range maps. Includes functions to obtain data from the Global Biodiversity Information Facility and from the Global Inventory of Floras and Traits . Alternatively, the user can input their own data. Furthermore, provides easy visualisation of the data and the results through the plotting functions. Especially suited for large datasets. The reference for the methodology is: Arlé et al. (under review). 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A tree is an example of a Bratteli graph. The package provides a function which generates a 'LaTeX' file that renders the given Bratteli graph. It also provides functions to compute the dimensions of the vertices, the intrinsic kernels and the intrinsic distances. Intrinsic kernels and distances were introduced by Vershik (2014) . 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The package facilitates streamlined access to meteorological data and aims to simplify analyses in agricultural and environmental contexts. 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The package is based on the class of copula survival model(s) implemented in the 'GJRM' package. 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Supporting functions to assess calibration via Bayesian and Frequentist approaches, Maximum Likelihood Estimator (MLE) recalibration, Linear in Log Odds (LLO)-adjust via any specified parameters, and visualize results are also provided. Methodological details can be found in Guthrie & Franck (2024) . 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Zonal statistics such as mean, maximum, minimum, standard deviation, and sum were computed by taking into account the data cells that intersect the boundaries of each municipality and stored in Parquet files. This procedure was carried out for all Brazilian municipalities, and for all available dates, for every indicator available in the weather products (BR-DWGD and TerraClimate projects). This package queries on-line the already calculated statistics on the Parquet files and returns easy-to-use data.frames. 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The acceptance decision uncertainty of BRDT has been quantified and the impacts of the uncertainty on related reliability assurance activities such as reliability growth (RG) and warranty services (WS) are evaluated. This package is associated with the work from the published paper "Optimal Binomial Reliability Demonstration Tests Design under Acceptance Decision Uncertainty" by Suiyao Chen et al. (2020) . 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Package: r-cran-bread Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table Filename: pool/dists/focal/main/r-cran-bread_0.4.1-1.ca2004.1_all.deb Size: 70568 MD5sum: 7d54c5824f51a0bfa954247e56145968 SHA1: 6cc491993948fa6a7afa71e8b87fc56d6eeb501e SHA256: 7fc710d6694d307fa1f1f3a190e15a20766b19623bc4e27536a45299193ee1e0 SHA512: 1c4f4e97c0247d8d7381c0d4db93f6bdf89660480d4345d8feee899f5286a14a1338b954b4ebf906eb2bb1c5503c204064d7271bc6164607f8a6fb28118e41c9 Homepage: https://cran.r-project.org/package=bread Description: CRAN Package 'bread' (Analyze Big Files Without Loading Them in Memory) A simple set of wrapper functions for data.table::fread() that allows subsetting or filtering rows and selecting columns of table-formatted files too large for the available RAM. 'b stands for 'big files'. bread makes heavy use of Unix commands like 'grep', 'sed', 'wc', 'awk' and 'cut'. They are available by default in all Unix environments. For Windows, you need to install those commands externally in order to simulate a Unix environment and make sure that the executables are in the Windows PATH variable. To my knowledge, the simplest ways are to install 'RTools', 'Git' or 'Cygwin'. If they have been correctly installed (with the expected registry entries), they should be detected on loading the package and the correct directories will be added automatically to the PATH. 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The package also allows users to quantify and visualise the level of confidence in the estimated degrees of relatedness. Package: r-cran-breakage Architecture: all Version: 1.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 185 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-imap Filename: pool/dists/focal/main/r-cran-breakage_1.1-1-1.ca2004.1_all.deb Size: 110560 MD5sum: ba5b9de7b7da319a8fe36bf4fab63030 SHA1: c711f5d301e0776b1316a7b9ab8d2f9dd1b57e21 SHA256: a0d76d5575512794d3c8ab3cd31bcb65543cec6bc0d5c4957807a7e9db3c9c79 SHA512: 47c7e6e1b82f77b88cd70f6a943915c1264acf22d7dea17c7cf7bc9be0783b337fbb70f49eedf8ce7b1ade580090685f25ef215270843fda5a9724aefa903087 Homepage: https://cran.r-project.org/package=breakage Description: CRAN Package 'breakage' (SICM pipette tip geometry estimation) Estimates geometry of SICM pipette tips by fitting a physical model to recorded breakage-current data. 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'breakaway' is the premier package for statistical analysis of microbial diversity. 'breakaway' implements the latest and greatest estimates of species richness, described in Willis and Bunge (2015) , Willis et al. (2017) , and Willis (2016) , as well as the most commonly used estimates, including the objective Bayes approach described in Barger and Bunge (2010) . 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Break Down Table shows contributions of every variable to a final prediction. Break Down Plot presents variable contributions in a concise graphical way. This package work for binary classifiers and general regression models. Package: r-cran-breakpoint Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 277 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-mass, r-cran-msm, r-cran-foreach, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-breakpoint_1.2-1.ca2004.1_all.deb Size: 230332 MD5sum: e8da5e9f9f1bbbcd9c18ba9f5d77da8c SHA1: efae5d951a03a4d532a684dfe9db54e915ffc91a SHA256: b212c2c861deaae23c5d461f97c97b5cd3af8a3b9f070a4efb474776d08cdd5d SHA512: fc21373372f39f6d1737146b761aafbd7cebb828ca80cf7b77aed858c23bdbacd58ac35ec4ef28aa4cf85019d35562dc6a2f62991263b5c5f843c4a2fbfd9be4 Homepage: https://cran.r-project.org/package=breakpoint Description: CRAN Package 'breakpoint' (An R Package for Multiple Break-Point Detection via theCross-Entropy Method) Implements the Cross-Entropy (CE) method, which is a model based stochastic optimization technique to estimate both the number and their corresponding locations of break-points in continuous and discrete measurements (Priyadarshana and Sofronov (2015), Priyadarshana and Sofronov (2012a), Priyadarshana and Sofronov (2012b)). 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Since all of the mention methods identify only one breakpoint in a series, a general function to look for N breakpoint is given. Also, the Yamamoto test for climate jump is available. Alexandersson, H. (1986) , Buishand, T. (1982) , Hurtado, S. I., Zaninelli, P. G., & Agosta, E. A. (2020) , Mann, H. B., Whitney, D. R. (1947) , Pettitt, A. N. (1979) , Ruxton, G. D., jul (2006) , Yamamoto, R., Iwashima, T., Kazadi, S. N., & Hoshiai, M. (1985) . Package: r-cran-breathtestcore Architecture: all Version: 0.8.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 656 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-dplyr, r-cran-ggfittext, r-cran-ggplot2, r-cran-broom, r-cran-mass, r-cran-multcomp, r-cran-nlme, r-cran-purrr, r-cran-readr, r-cran-readxl, r-cran-signal, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-gridextra, r-cran-qpdf, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-breathteststan, r-cran-covr Filename: pool/dists/focal/main/r-cran-breathtestcore_0.8.9-1.ca2004.1_all.deb Size: 402924 MD5sum: b6250d26896e6f0c375da83326f87aa5 SHA1: 8354bc53b369650e265f3185a0a919c9bde84257 SHA256: e44fa8c9b3295e110e2721b5759f5919190fe75b250947553c21acf16be694e8 SHA512: d2abb12e452db4b6a053bc8e417254855fb92e8cb2d6b3d93ebd5f991bae67c22c5a56646d4c75af62cc00a5f39d49ecd47ae1adf16bb085a6df4a1ef11e1433 Homepage: https://cran.r-project.org/package=breathtestcore Description: CRAN Package 'breathtestcore' (Core Functions to Read and Fit 13c Time Series from Breath Tests) Reads several formats of 13C data (IRIS/Wagner, BreathID) and CSV. Creates artificial sample data for testing. Fits Maes/Ghoos, Bluck-Coward self-correcting formula using 'nls', 'nlme'. Methods to fit breath test curves with Bayesian Stan methods are refactored to package 'breathteststan'. For a Shiny GUI, see package 'dmenne/breathtestshiny' on github. Package: r-cran-breeze Architecture: all Version: 0.4-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1854 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lubridate Suggests: r-cran-rcolorbrewer, r-cran-rgooglemaps, r-cran-xml Filename: pool/dists/focal/main/r-cran-breeze_0.4-4-1.ca2004.1_all.deb Size: 1294956 MD5sum: f2f106281b6677c9335808d8f0bc643a SHA1: fa84c8e6ecee96baa1ea538359d837302eb6bee8 SHA256: 0da7abbddebe0ef1cf4dad5b48757cb58c1fc3b16d2ed2db88f92b0754259932 SHA512: 58e6c459a742348e5b549a7f5f7b9e43442b1e4bf4cd8395478e87c0e0e66727d999dccd9543c515e3e64dce113e91fbb60c70d0fc109a5f9333ba4b83c82217 Homepage: https://cran.r-project.org/package=bReeze Description: CRAN Package 'bReeze' (Functions for Wind Resource Assessment) A collection of functions to analyse, visualize and interpret wind data and to calculate the potential energy production of wind turbines. Package: r-cran-bregr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2256 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-broom.helpers, r-cran-cli, r-cran-dplyr, r-cran-forestploter, r-cran-ggplot2, r-cran-glue, r-cran-insight, r-cran-lifecycle, r-cran-purrr, r-cran-rlang, r-cran-s7, r-cran-survival, r-cran-tibble, r-cran-vctrs Suggests: r-cran-ggnewscale, r-cran-ggstats, r-cran-ggstatsplot, r-cran-gtsummary, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-visreg Filename: pool/dists/focal/main/r-cran-bregr_1.0.0-1.ca2004.1_all.deb Size: 1123596 MD5sum: d8edd638e2692c4c9c70cb30d0d9bbf3 SHA1: 0eef85b861b47b8a407f228ad4361949261455bf SHA256: 26aa0b5acd78ac97e56d26722d1be2bb260ffb5dcf32e0a95674d21b3ec9ff9c SHA512: 895bb91c27974203a44b2215e112beba182d218f5493a60d99b73596d6e0fb7e141738b7453e572bd5be9b90a65bdac52a684c51a85ef1922f1ee30763e4d039 Homepage: https://cran.r-project.org/package=bregr Description: CRAN Package 'bregr' (Easy and Efficient Batch Processing of Regression Models) Easily process batches of univariate or multivariate regression models. Returns results in a tidy format and generates visualization plots for straightforward interpretation (Wang, Shixiang, et al. (2021) ). Package: r-cran-bretigea Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1863 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-bretigea_1.0.3-1.ca2004.1_all.deb Size: 1851820 MD5sum: 9755b51668ae7880c76dbf805842b7c9 SHA1: d69e7ed0455c5b9c054c8c4f84b4fe71a38f2f87 SHA256: 44733f26717ffe564d9e504d5024a5c68f0d0d63e7da53963cdaa7e96f929db9 SHA512: 8b11aee7643afc120dd5c869e35c0cf49cd4f91d456be0cdbc72259993173a87172a559bbf47c2f12afccfcf90db3baf0281e72602b7102bdd9ab2f42fc12824 Homepage: https://cran.r-project.org/package=BRETIGEA Description: CRAN Package 'BRETIGEA' (Brain Cell Type Specific Gene Expression Analysis) Analysis of relative cell type proportions in bulk gene expression data. Provides a well-validated set of brain cell type-specific marker genes derived from multiple types of experiments, as described in McKenzie (2018) . For brain tissue data sets, there are marker genes available for astrocytes, endothelial cells, microglia, neurons, oligodendrocytes, and oligodendrocyte precursor cells, derived from each of human, mice, and combination human/mouse data sets. However, if you have access to your own marker genes, the functions can be applied to bulk gene expression data from any tissue. Also implements multiple options for relative cell type proportion estimation using these marker genes, adapting and expanding on approaches from the 'CellCODE' R package described in Chikina (2015) . The number of cell type marker genes used in a given analysis can be increased or decreased based on your preferences and the data set. Finally, provides functions to use the estimates to adjust for variability in the relative proportion of cell types across samples prior to downstream analyses. Package: r-cran-brew Architecture: all Version: 1.0-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 494 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-brew_1.0-10-1.ca2004.1_all.deb Size: 53184 MD5sum: 841df75023ad4f70245f2f7fbd6f0122 SHA1: d46013588e50e474b3ba71d7c6ff79a9c1793b2d SHA256: 1234f57b19c1c8e6d844b8a7610a4318fed7312246919721b23b44c66694228e SHA512: 0e060bc9ca6e8c8e23cc61a8ffceb4b355354f72a231a638e926591e5a0c6303ded89b886b09d3f4f1da9d83cd7b38e64836816c9d0c815fae9ae8e118b3e4f6 Homepage: https://cran.r-project.org/package=brew Description: CRAN Package 'brew' (Templating Framework for Report Generation) Implements a templating framework for mixing text and R code for report generation. brew template syntax is similar to PHP, Ruby's erb module, Java Server Pages, and Python's psp module. Package: r-cran-brickr Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1604 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-magrittr, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-scales, r-cran-farver, r-cran-colorspace, r-cran-rgl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-gridextra, r-cran-png, r-cran-jpeg, r-cran-tibble, r-cran-raster, r-cran-stringr Filename: pool/dists/focal/main/r-cran-brickr_0.3.5-1.ca2004.1_all.deb Size: 1190160 MD5sum: 24e58265f655ed00a74e37b794506cb9 SHA1: ba89f3b22aa23364f3d26143dc7854494418ceeb SHA256: 05efbaa98dc186f243246ec14009dbb9a4c4f36c32a652161b145007dc3708d6 SHA512: 895511364c1d411d53972cf5c0193519bfc016113b4b9a9371a243910f63af1e209138e206674f37a610ea631b5ba164672871971e310eeacffa3b20cb3cdb43 Homepage: https://cran.r-project.org/package=brickr Description: CRAN Package 'brickr' (Emulate LEGO Bricks in 2D and 3D) Generate digital LEGO models using 'tidyverse' functions. Convert image files into 2D and 3D LEGO mosaics, complete with piece counts and instructions. Render 3D models using simple data frame instructions. Developed under the LEGO Group's Fair Play policy . Package: r-cran-brickset Architecture: all Version: 2025.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1182 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-piggyback Suggests: r-cran-bookdown, r-cran-dt, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-scales, r-cran-shiny Filename: pool/dists/focal/main/r-cran-brickset_2025.0.0-1.ca2004.1_all.deb Size: 1046724 MD5sum: 031a8703cb210789f553cc69d279f26b SHA1: b7c249f9b10957f25d1aff8ec6d469f3c521865c SHA256: 5a6bd014604bc3fc4cc8aec0e6e89c6688369a8660d42fbd12a63fb66e5ec254 SHA512: 2db46f890753e126783c0e4b9c1922025b16a9c0e60c08589647c26ab9f31502d4265a8d2cc866d3c2f1fae6b4c8dea226f043276c236a571aca4d9f45b8216f Homepage: https://cran.r-project.org/package=brickset Description: CRAN Package 'brickset' (Interface with the Brickset API for Getting Data About LEGO Sets) Interface with the 'Brickset' API for getting data about LEGO sets. Data sets that can be used for teaching and learning without the need of a 'Brickset' account and API key are also included. Includes all LEGO since through the end of 2023. Package: r-cran-brickster Architecture: all Version: 0.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1243 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-base64enc, r-cran-cli, r-cran-curl, r-cran-dplyr, r-cran-glue, r-cran-httr2, r-cran-ini, r-cran-jsonlite, r-cran-nanoarrow, r-cran-purrr, r-cran-rlang, r-cran-tibble Suggests: r-cran-arrow, r-cran-testthat, r-cran-huxtable, r-cran-htmltools, r-cran-knitr, r-cran-magick, r-cran-rmarkdown, r-cran-withr Filename: pool/dists/focal/main/r-cran-brickster_0.2.8-1.ca2004.1_all.deb Size: 977312 MD5sum: 6c742337283adc07a7721b8132d24c55 SHA1: 739e2853554cda28dedc59dc12e03f3b060ebfa6 SHA256: 927ee11c519452c58220c1f92004e48e0767c96cc31ad74a533c2d79ce9077d6 SHA512: d97584b6bb742db533b5594c60484ac68cd6de7feee51e671f1c0c6e207f278a874eb9138fd4b01be4b29903b728ed351e2b3f89aeafae29d8fa49ec2c2ff0d8 Homepage: https://cran.r-project.org/package=brickster Description: CRAN Package 'brickster' (R Toolkit for 'Databricks') Collection of utilities that improve using 'Databricks' from R. Primarily functions that wrap specific 'Databricks' APIs (), 'RStudio' connection pane support, quality of life functions to make 'Databricks' simpler to use. Package: r-cran-bridgedist Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-reshape2, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bridgedist_0.1.3-1.ca2004.1_all.deb Size: 78692 MD5sum: ca29d0e265dfd8be07e2e4b3cab4d22c SHA1: 85db257b1c169827c722bec7b0aef9f3a088af31 SHA256: 52ad840634717f6dd764cf90749f6ad866c3c379fd64cd47bfe71cf4a5873ea4 SHA512: dfff586e733f186e8dc01e2085a18dfe8366a117a968445a2b631dda4a4a5971e88f3736325c117e924f3369dcaa06cd1f600b8fb5682b5ec8342b2c6e46adba Homepage: https://cran.r-project.org/package=bridgedist Description: CRAN Package 'bridgedist' (An Implementation of the Bridge Distribution with Logit-Link asin Wang and Louis (2003)) An implementation of the bridge distribution with logit-link in R. In Wang and Louis (2003) , such a univariate bridge distribution was derived as the distribution of the random intercept that 'bridged' a marginal logistic regression and a conditional logistic regression. The conditional and marginal regression coefficients are a scalar multiple of each other. Such is not the case if the random intercept distribution was Gaussian. Package: r-cran-bridger2 Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 340 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-shiny, r-cran-shinydashboard, r-cran-plotly, r-cran-bsda, r-cran-outliers Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-bridger2_0.1.0-1.ca2004.1_all.deb Size: 312284 MD5sum: e502b9eefe453860c976e238b7e5af53 SHA1: 18082d3892149e8fb1db5f79b5978f49c44bd4a4 SHA256: e1d96c070d00aaa79057bf8613034d4451a76c68a77060f36783549b46df06ad SHA512: b79abf08cb0b83de5cb43e31f747d2e7a72d0ced0019f67acd5dcc31a899714ebcf7fc18d3286360a8a430f89638959a00fbb8b913c82faa37ca3cac1292d817 Homepage: https://cran.r-project.org/package=bridger2 Description: CRAN Package 'bridger2' (Genome-Wide RNA Degradation Analysis Using BRIC-Seq Data) BRIC-seq is a genome-wide approach for determining RNA stability in mammalian cells. This package provides a series of functions for performing quality check of your BRIC-seq data, calculation of RNA half-life for each transcript and comparison of RNA half-lives between two conditions. Package: r-cran-bridger Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 590 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cowplot, r-cran-dplyr, r-cran-patchwork, r-cran-tibble, r-cran-tidyr, r-cran-magrittr, r-cran-ggplot2, r-cran-ggedit, r-cran-glue, r-cran-gridextra, r-cran-kableextra, r-cran-pdftools, r-cran-scales, r-cran-stringr Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-bridger_0.1.0-1.ca2004.1_all.deb Size: 545140 MD5sum: e7a624dce3b863d16633638d8c5d372b SHA1: a1f637fc0c5bed4238d93cb5872cbfb1ff47c421 SHA256: 8da40e1008b8173749ac5d3fe1ea1c38c4c34b8638c3168d2acf3369603ac0a7 SHA512: 5a737775db3989ca53ce8f19e52e5d7208f3e8e08aba2da330670c419d784cf12fd8551a9913872d817e81391649f95373d9991c3d9fa92895e0d855f2282b2b Homepage: https://cran.r-project.org/package=bridger Description: CRAN Package 'bridger' (Bridge Hand Generator with Criteria Selector) Produce bridge hands, allowing parameters for hands to offer specific for bidding sequences. Package: r-cran-bridgesampling Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1964 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-matrix, r-cran-brobdingnag, r-cran-stringr, r-cran-coda, r-cran-scales Suggests: r-cran-testthat, r-cran-rcpp, r-cran-rcppeigen, r-cran-r2jags, r-cran-rjags, r-cran-runjags, r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp, r-cran-bayesfactor, r-cran-rstan, r-cran-rstanarm, r-cran-nimble, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-bridgesampling_1.1-2-1.ca2004.1_all.deb Size: 1455632 MD5sum: 685850d29f4e19b9930785c1da5ad0f4 SHA1: 7ba4b40e96a04786d4d4e9aa02feca76a8757d58 SHA256: 5f8d92986e8a866584b3aeaf67817dc491795fff4b958fc26e81d03cdd0e317b SHA512: 68b5ad11530f352c5ffd5170e36bc52e20377d03b93c60a531a540857940e71558a19655dee3a121e61a7f3efa2863e4e54d17e335c83bb87c48f54050b841cf Homepage: https://cran.r-project.org/package=bridgesampling Description: CRAN Package 'bridgesampling' (Bridge Sampling for Marginal Likelihoods and Bayes Factors) Provides functions for estimating marginal likelihoods, Bayes factors, posterior model probabilities, and normalizing constants in general, via different versions of bridge sampling (Meng & Wong, 1996, ). Gronau, Singmann, & Wagenmakers (2020) . Package: r-cran-bridgr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 947 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-rlang, r-cran-generics, r-cran-tsbox, r-cran-lubridate, r-cran-forecast Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bridgr_0.1.1-1.ca2004.1_all.deb Size: 877080 MD5sum: 1d971f9b062b848b9a0745dfd4cca3a0 SHA1: 5cc0d30a445c1c5436f48b89cb1c258576688f00 SHA256: dd22568d9305fea6677508722bcbbe3f70291add5154362b235365f0c0a5d2a2 SHA512: ecf5793ac4279dd4c72ef25019cc06a167d2e0a7734a75569434b6272a1883300c175d6b22fae6ecb7da3a87058c6df1fa3ba14884da974350bc902017145ff3 Homepage: https://cran.r-project.org/package=bridgr Description: CRAN Package 'bridgr' (Bridging Data Frequencies for Timely Economic Forecasts) Implements bridge models for nowcasting and forecasting macroeconomic variables by linking high-frequency indicator variables (e.g., monthly data) to low-frequency target variables (e.g., quarterly GDP). Simplifies forecasting and aggregating indicator variables to match the target frequency, enabling timely predictions ahead of official data releases. For more on bridge models, see Baffigi, A., Golinelli, R., & Parigi, G. (2004) , Burri (2023) or Schumacher (2016) . Package: r-cran-brikmeans Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-boot, r-cran-cluster, r-cran-depthtools, r-cran-splines2 Filename: pool/dists/focal/main/r-cran-brikmeans_1.0-1.ca2004.1_all.deb Size: 142168 MD5sum: 2a381fbc037be904797017e65eb35e54 SHA1: 03694e8fe513eb0b85bc7aa2f18da7e3ed4db00c SHA256: 84e19eb1e5e26f70effe4f8efeec5e4938459ae13fd955764cdb067099e468fd SHA512: 8d29ef54eda5cdfa0b5d31693658c3fecb10e0a3bdb5e3d429f89f44625ae862ff456564705866d804f9c69dab9157a294e1682a281d3ac4fc07391689fa3113 Homepage: https://cran.r-project.org/package=briKmeans Description: CRAN Package 'briKmeans' (Package for Brik, Fabrik and Fdebrik Algorithms to InitialiseKmeans) Implementation of the BRIk, FABRIk and FDEBRIk algorithms to initialise k-means. These methods are intended for the clustering of multivariate and functional data, respectively. They make use of the Modified Band Depth and bootstrap to identify appropriate initial seeds for k-means, which are proven to be better options than many techniques in the literature. Torrente and Romo (2021) It makes use of the functions kma and kma.similarity, from the archived package fdakma, by Alice Parodi et al. Package: r-cran-brinda Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-berryfunctions, r-cran-data.table, r-cran-dplyr, r-cran-hmisc, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-brinda_0.1.5-1.ca2004.1_all.deb Size: 52296 MD5sum: 45565dd4b4185fe3f11d2a58ac8ce954 SHA1: 1c47161858ecf64b20ad39aa1d1223dfc18bd6a0 SHA256: d82bb67ba2e4b90ebc8f9e444e130b3ce3579f56ca3f40a77c673ce21d9a342d SHA512: 577bb07cb2182bae45c8ad1283e109b543f3caf6b80f2ef1ec035358a8f88ab93eb6e5d1ebb31f7dd517284a88c514dad4334f1a65c8bf13b3d8a763f16abfb4 Homepage: https://cran.r-project.org/package=BRINDA Description: CRAN Package 'BRINDA' (Computation of BRINDA Adjusted Micronutrient Biomarkers forInflammation) Inflammation can affect many micronutrient biomarkers and can thus lead to incorrect diagnosis of individuals and to over- or under-estimate the prevalence of deficiency in a population. Biomarkers Reflecting Inflammation and Nutritional Determinants of Anemia (BRINDA) is a multi-agency and multi-country partnership designed to improve the interpretation of nutrient biomarkers in settings of inflammation and to generate context-specific estimates of risk factors for anemia (Suchdev (2016) ). In the past few years, BRINDA published a series of papers to provide guidance on how to adjust micronutrient biomarkers, retinol binding protein, serum retinol, serum ferritin by Namaste (2020), soluble transferrin receptor (sTfR), serum zinc, serum and Red Blood Cell (RBC) folate, and serum B-12, using inflammation markers, alpha-1-acid glycoprotein (AGP) and/or C-Reactive Protein (CRP) by Namaste (2020) , Rohner (2017) , McDonald (2020) , and Young (2020) . The BRINDA inflammation adjustment method mainly focuses on Women of Reproductive Age (WRA) and Preschool-age Children (PSC); however, the general principle of the BRINDA method might apply to other population groups. The BRINDA R package is a user-friendly all-in-one R package that uses a series of functions to implement BRINDA adjustment method, as described above. The BRINDA R package will first carry out rigorous checks and provides users guidance to correct data or input errors (if they occur) prior to inflammation adjustments. After no errors are detected, the package implements the BRINDA inflammation adjustment for up to five micronutrient biomarkers, namely retinol-binding-protein, serum retinol, serum ferritin, sTfR, and serum zinc (when appropriate), using inflammation indicators of AGP and/or CRP for various population groups. Of note, adjustment for serum and RBC folate and serum B-12 is not included in the R package, since evidence shows that no adjustment is needed for these micronutrient biomarkers in either WRA or PSC groups (Young (2020) ). Package: r-cran-brinton Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3259 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-rmarkdown, r-cran-glue, r-cran-pander, r-cran-lubridate, r-cran-tibble, r-cran-sm, r-cran-rcolorbrewer, r-cran-forcats, r-cran-ggally, r-cran-patchwork, r-cran-scales Suggests: r-cran-knitr, r-cran-mass, r-cran-hexbin, r-cran-testthat Filename: pool/dists/focal/main/r-cran-brinton_0.2.7-1.ca2004.1_all.deb Size: 2498668 MD5sum: da7106db7685ff80beb21605756fd2ac SHA1: 6178e0f6bc05d087c73c5df2209dc058e59af4e3 SHA256: a4a76964f7f60e880e17f5b3cd177ff54e6be84b342cbe028e4189e988c28f7d SHA512: f2ddaaf2dce5a629c00280e92f97327a54595a9001cbd1f81936fd63eae9174a467630b9fd8f10d7e21434b155114ea4bf29f41c8ae40c65c7a3490c0c6b5482 Homepage: https://cran.r-project.org/package=brinton Description: CRAN Package 'brinton' (A Graphical EDA Tool) An automated graphical exploratory data analysis (EDA) tool that introduces: a.) wideplot graphics for exploring the structure of a dataset through a grid of variables and graphic types. b.) longplot graphics, which present the entire catalog of available graphics for representing a particular variable using a grid of graphic types and variations on these types. c.) plotup function, which presents a particular graphic for a specific variable of a dataset. The plotup() function also makes it possible to obtain the code used to generate the graphic, meaning that the user can adjust its properties as needed. d.) matrixplot graphics that is a grid of a particular graphic showing bivariate relationships between all pairs of variables of a certain(s) type(s) in a multivariate data set. Package: r-cran-briqr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-tibble Suggests: r-cran-httptest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-briqr_0.1.0-1.ca2004.1_all.deb Size: 17508 MD5sum: a583e22baa305ea8f309b454b707132b SHA1: 20836ba18667b261f27728704f96df67df8a78a5 SHA256: 435582ba0b3419df1d6036fe8a2e01e230b06e3c93b1bf5526e0be63647c62af SHA512: b7384cbef99e895313bb4edc8cbb81cee4dedf8ad31b67e607f3d19c7662c116f90e505eb49dfc114be4a992d3c2020185a6599ff36de0e31c71ddc423c3b86a Homepage: https://cran.r-project.org/package=briqr Description: CRAN Package 'briqr' (Interface to the 'Briq' API) An interface to the 'Briq' API . 'Briq' is a tool that aims to promote employee engagement by helping employees recognize and reward each other. Employees can praise and thank one another (for achieving a company goal, for example) by giving virtual credits (known as 'briqs' or 'bqs') that can be redeemed for various rewards. The 'Briq' API lets you create, read, update and delete users, user groups, transactions and messages. This package provides functions that simplify getting the users, user groups and transactions of your organization into R. Package: r-cran-brisk Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 227 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-ellipsis, r-cran-ggplot2, r-cran-hitandrun, r-cran-purrr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-knitr, r-cran-fs, r-cran-testthat, r-cran-tibble, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-brisk_0.1.0-1.ca2004.1_all.deb Size: 149300 MD5sum: 0049b920b9725f62c83beed7d42031aa SHA1: 772883e2309574ce84be13842cbf41472e804360 SHA256: 93343a525ba1eb0b3909fb686ca6c685e677d86b8b4064a41f9d206913b4199b SHA512: 6398244ee01e2a925e3180c52bbaa2123d7f212f90e6676577685d440bfccd28e887326c4cd06d7ed1c5b2b7e4beae1b1282fb849483ef514c9fb83a2cc47440 Homepage: https://cran.r-project.org/package=brisk Description: CRAN Package 'brisk' (Bayesian Benefit Risk Analysis) Quantitative methods for benefit-risk analysis help to condense complex decisions into a univariate metric describing the overall benefit relative to risk. One approach is to use the multi-criteria decision analysis framework (MCDA), as in Mussen, Salek, and Walker (2007) . Bayesian benefit-risk analysis incorporates uncertainty through posterior distributions which are inputs to the benefit-risk framework. The brisk package provides functions to assist with Bayesian benefit-risk analyses, such as MCDA. Users input posterior samples, utility functions, weights, and the package outputs quantitative benefit-risk scores. The posterior of the benefit-risk scores for each group can be compared. Some plotting capabilities are also included. Package: r-cran-brlrmr Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-boot, r-cran-brglm, r-cran-mass, r-cran-profilemodel, r-cran-rcpp Filename: pool/dists/focal/main/r-cran-brlrmr_0.1.7-1.ca2004.1_all.deb Size: 68020 MD5sum: 32385a980cc1aa8325f9a339510af2de SHA1: 0487eb96c1f3eb4de67df8814bdf355f10dd7ff7 SHA256: b8b2e5d5b15920a11ca2b72ffdbc419c38e845a7bb88b9c12f048ff666078b70 SHA512: 79cdb5d1900e1b0527f684262d1c60064012f13105392c815ca0efe64a331c3ea3907afb3ade7317d2872a9cdfcac82ba81157c9f675259dbf19fc74c5ac9d2e Homepage: https://cran.r-project.org/package=brlrmr Description: CRAN Package 'brlrmr' (Bias Reduction with Missing Binary Response) Provides two main functions, il() and fil(). The il() function implements the EM algorithm developed by Ibrahim and Lipsitz (1996) to estimate the parameters of a logistic regression model with the missing response when the missing data mechanism is nonignorable. The fil() function implements the algorithm proposed by Maity et. al. (2017+) to reduce the bias produced by the method of Ibrahim and Lipsitz (1996) . Package: r-cran-brm Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-brm_1.1.1-1.ca2004.1_all.deb Size: 81016 MD5sum: c3bd35e5e037c29c77d029e3b499000f SHA1: 422359592e968842e7b40eee2d74ec5e1a1709d7 SHA256: b80bf8d764db7999656bb3fef44eaca55b26d98ff7bbafb67223434874a46e15 SHA512: aba0468d2cdcb65380958e7274d3e0f210c421215fc862401d90a0fdd205f9cae347118f5abcdf8debb91ed594c73efe571e39434a402ad679b4be5a72505d79 Homepage: https://cran.r-project.org/package=brm Description: CRAN Package 'brm' (Binary Regression Model) Fits novel models for the conditional relative risk, risk difference and odds ratio . Package: r-cran-brms.mmrm Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4883 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-brms, r-cran-dplyr, r-cran-ggplot2, r-cran-ggridges, r-cran-mass, r-cran-posterior, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-trialr, r-cran-zoo Suggests: r-cran-bh, r-cran-emmeans, r-cran-fst, r-cran-gt, r-cran-gtsummary, r-cran-knitr, r-cran-markdown, r-cran-mmrm, r-cran-rcpp, r-cran-rcppeigen, r-cran-rcppparallel, r-cran-rmarkdown, r-cran-rstan, r-cran-stanheaders, r-cran-testthat Filename: pool/dists/focal/main/r-cran-brms.mmrm_1.1.1-1.ca2004.1_all.deb Size: 1504180 MD5sum: e4d07b2658ee68bf40aac902a36e23c9 SHA1: ad4ab2753ad5c301147d9a149debce153c8d8b1e SHA256: c4c64cf4c68440766cbb15678b6b5c716ed556e5d91b6a4eb286b2360fb5af66 SHA512: fc80c494c5398996e0fabb21a2cb2715c7142e487351d9ff8addac4886080a9f8f91f8426fa3d1fcf37affc6ccb6aab099c6243aa2ce835162afdd9d81455564 Homepage: https://cran.r-project.org/package=brms.mmrm Description: CRAN Package 'brms.mmrm' (Bayesian MMRMs using 'brms') The mixed model for repeated measures (MMRM) is a popular model for longitudinal clinical trial data with continuous endpoints, and 'brms' is a powerful and versatile package for fitting Bayesian regression models. The 'brms.mmrm' R package leverages 'brms' to run MMRMs, and it supports a simplified interfaced to reduce difficulty and align with the best practices of the life sciences. References: Bürkner (2017) , Mallinckrodt (2008) . Package: r-cran-brms Architecture: all Version: 2.22.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8745 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcpp, r-cran-rstan, r-cran-ggplot2, r-cran-loo, r-cran-posterior, r-cran-matrix, r-cran-mgcv, r-cran-rstantools, r-cran-bayesplot, r-cran-bridgesampling, r-cran-glue, r-cran-rlang, r-cran-future, r-cran-future.apply, r-cran-matrixstats, r-cran-nleqslv, r-cran-nlme, r-cran-coda, r-cran-abind, r-cran-backports Suggests: r-cran-testthat, r-cran-emmeans, r-cran-projpred, r-cran-priorsense, r-cran-shinystan, r-cran-splines2, r-cran-rwiener, r-cran-rtdists, r-cran-extradistr, r-cran-processx, r-cran-mice, r-cran-spdep, r-cran-mnormt, r-cran-lme4, r-cran-mcmcglmm, r-cran-ape, r-cran-arm, r-cran-statmod, r-cran-digest, r-cran-diffobj, r-cran-r.rsp, r-cran-gtable, r-cran-shiny, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-brms_2.22.0-1.ca2004.1_all.deb Size: 6682412 MD5sum: 91a88e884ac12b6aababc7b5c1c6357d SHA1: 5a708083db2bf3e4daf2fe30d72df29b5219242b SHA256: 1cb1e20fa3d6861acb1b0e35aa62703cb42e6224e5cb0662664236ac0b27db57 SHA512: 13918f0cc8524e58d1d2634011df572bf3079d358fd3e7675a3464145f94cad8aa9cc2754d3d6cb7a530602c85446868e0a52ffab55e02a28692a5aacd9b0726 Homepage: https://cran.r-project.org/package=brms Description: CRAN Package 'brms' (Bayesian Regression Models using 'Stan') Fit Bayesian generalized (non-)linear multivariate multilevel models using 'Stan' for full Bayesian inference. A wide range of distributions and link functions are supported, allowing users to fit -- among others -- linear, robust linear, count data, survival, response times, ordinal, zero-inflated, hurdle, and even self-defined mixture models all in a multilevel context. Further modeling options include both theory-driven and data-driven non-linear terms, auto-correlation structures, censoring and truncation, meta-analytic standard errors, and quite a few more. In addition, all parameters of the response distribution can be predicted in order to perform distributional regression. Prior specifications are flexible and explicitly encourage users to apply prior distributions that actually reflect their prior knowledge. Models can easily be evaluated and compared using several methods assessing posterior or prior predictions. References: Bürkner (2017) ; Bürkner (2018) ; Bürkner (2021) ; Carpenter et al. (2017) . Package: r-cran-brobdingnag Architecture: all Version: 1.2-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1535 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-matrix Suggests: r-cran-cubature, r-cran-testthat Filename: pool/dists/focal/main/r-cran-brobdingnag_1.2-9-1.ca2004.1_all.deb Size: 951116 MD5sum: a5430f4d4a043ecd0e8f83beeb7bf50c SHA1: 9ccd4d7803b00891720656ab116a5866e75f9189 SHA256: b45aca5133ed30df33ddc9937da3a8a2093c88f61ab8b321e1e7ef96a163e330 SHA512: 5d0d6fc1c5a529e80898b569f6fdea4b3164972df15b94165fbc0273d02340627c3b06dd5dfcfb354a3cc73aabedae7d5af80fab0cfaad7f56031b548007a84e Homepage: https://cran.r-project.org/package=Brobdingnag Description: CRAN Package 'Brobdingnag' (Very Large Numbers in R) Very large numbers in R. Real numbers are held using their natural logarithms, plus a logical flag indicating sign. Functionality for complex numbers is also provided. The package includes a vignette that gives a step-by-step introduction to using S4 methods. Package: r-cran-brokenadaptiveridge Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cyclops, r-cran-futile.logger, r-cran-bit64 Suggests: r-cran-testthat, r-cran-survival, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-brokenadaptiveridge_1.0.0-1.ca2004.1_all.deb Size: 26948 MD5sum: 4be31508bf1d34cadc62fb7eed8dc3e3 SHA1: 65823f8d7868288cdc515a46068a2852a51c302e SHA256: b3b7c29fab79c90a1c89675aca60d940f0babddf11f00bbe0a5454590aa1744c SHA512: 4d82188c4aa6ea04f9173428982ae4ced90ec8f64f849978f86cfc0693f61050dc0eeeec7b88de201ae3051051098aac50a5428a1111293f542a31f6e9ec11e7 Homepage: https://cran.r-project.org/package=BrokenAdaptiveRidge Description: CRAN Package 'BrokenAdaptiveRidge' (Broken Adaptive Ridge Regression with Cyclops) Approximates best-subset selection (L0) regression with an iteratively adaptive Ridge (L2) penalty for large-scale models. This package uses Cyclops for an efficient implementation and the iterative method is described in Kawaguchi et al (2020) and Li et al (2021) . Package: r-cran-brokenstick Architecture: all Version: 2.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1533 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda, r-cran-dplyr, r-cran-lme4, r-cran-matrixsampling, r-cran-rlang, r-cran-tidyr Suggests: r-cran-agd, r-cran-bookdown, r-cran-ggplot2, r-cran-gridextra, r-cran-knitr, r-cran-lattice, r-cran-mass, r-cran-matrix, r-cran-mice, r-cran-mvtnorm, r-cran-plyr, r-cran-svglite, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-brokenstick_2.6.0-1.ca2004.1_all.deb Size: 1212044 MD5sum: 3a62fab1c23e1c88664096a6fe28653f SHA1: ff2f3c24c915724684383010610f603c37b1e61a SHA256: 35d6a7e45f7b61e765740ea4e20cc7cc348d85ee0128fb41dbadca1d3d9c0a7e SHA512: 8ef9273fc9077487eb14766b598f85cd65b37fb9a5aa5954dece8cfeaa6992329f83bb44bf79114d7c0a1b91b93f02205b1a9f9e8e3fdfa0e019b1608be05901 Homepage: https://cran.r-project.org/package=brokenstick Description: CRAN Package 'brokenstick' (Broken Stick Model for Irregular Longitudinal Data) Data on multiple individuals through time are often sampled at times that differ between persons. Irregular observation times can severely complicate the statistical analysis of the data. The broken stick model approximates each subject’s trajectory by one or more connected line segments. The times at which segments connect (breakpoints) are identical for all subjects and under control of the user. A well-fitting broken stick model effectively transforms individual measurements made at irregular times into regular trajectories with common observation times. Specification of the model requires three variables: time, measurement and subject. The model is a special case of the linear mixed model, with time as a linear B-spline and subject as the grouping factor. The main assumptions are: subjects are exchangeable, trajectories between consecutive breakpoints are straight, random effects follow a multivariate normal distribution, and unobserved data are missing at random. The package contains functions for fitting the broken stick model to data, for predicting curves in new data and for plotting broken stick estimates. The package supports two optimization methods, and includes options to structure the variance-covariance matrix of the random effects. The analyst may use the software to smooth growth curves by a series of connected straight lines, to align irregularly observed curves to a common time grid, to create synthetic curves at a user-specified set of breakpoints, to estimate the time-to-time correlation matrix and to predict future observations. See for additional documentation on background, methodology and applications. Package: r-cran-brolgar Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4663 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-fabletools, r-cran-ggplot2, r-cran-glue, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-tsibble, r-cran-vctrs Suggests: r-cran-gapminder, r-cran-gghighlight, r-cran-knitr, r-cran-matrix, r-cran-lme4, r-cran-modelr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tsibbledata, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-brolgar_1.0.1-1.ca2004.1_all.deb Size: 3362424 MD5sum: e47acb40f44b3858f72a5eaa677c24bb SHA1: 3ed124b505b849f59e2c2311d58022803a062302 SHA256: 4c366f94b40e781b9ee190425f525ad2c09adca385eaffedaef68a166141427b SHA512: d1e470522b316eb54277e06344631a22f90f2d103ef6bec3e29a3df8eef51c3664cb081b604fc54bd2fb6f01e6c08a49152eab8b0955e891dc3de0c0712d488a Homepage: https://cran.r-project.org/package=brolgar Description: CRAN Package 'brolgar' (Browse Over Longitudinal Data Graphically and Analytically in R) Provides a framework of tools to summarise, visualise, and explore longitudinal data. It builds upon the tidy time series data frames used in the 'tsibble' package, and is designed to integrate within the 'tidyverse', and 'tidyverts' (for time series) ecosystems. The methods implemented include calculating features for understanding longitudinal data, including calculating summary statistics such as quantiles, medians, and numeric ranges, sampling individual series, identifying individual series representative of a group, and extending the facet system in 'ggplot2' to facilitate exploration of samples of data. These methods are fully described in the paper "brolgar: An R package to Browse Over Longitudinal Data Graphically and Analytically in R", Nicholas Tierney, Dianne Cook, Tania Prvan (2020) . Package: r-cran-broom.helpers Architecture: all Version: 1.21.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 883 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-cards, r-cran-cli, r-cran-dplyr, r-cran-labelled, r-cran-lifecycle, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-betareg, r-cran-biglm, r-cran-brms, r-cran-broom.mixed, r-cran-cmprsk, r-cran-covr, r-cran-effects, r-cran-emmeans, r-cran-fixest, r-cran-forcats, r-cran-gam, r-cran-gee, r-cran-geepack, r-cran-ggplot2, r-cran-ggeffects, r-cran-ggstats, r-cran-glmmtmb, r-cran-glmtoolbox, r-cran-glue, r-cran-gt, r-cran-gtsummary, r-cran-knitr, r-cran-lavaan, r-cran-lfe, r-cran-lme4, r-cran-logitr, r-cran-marginaleffects, r-cran-margins, r-cran-mass, r-cran-mgcv, r-cran-mice, r-cran-mmrm, r-cran-multgee, r-cran-nnet, r-cran-ordinal, r-cran-parameters, r-cran-parsnip, r-cran-patchwork, r-cran-plm, r-cran-pscl, r-cran-rmarkdown, r-cran-rstanarm, r-cran-scales, r-cran-spelling, r-cran-survey, r-cran-survival, r-cran-testthat, r-cran-tidycmprsk, r-cran-vgam, r-cran-svyvgam Filename: pool/dists/focal/main/r-cran-broom.helpers_1.21.0-1.ca2004.1_all.deb Size: 571204 MD5sum: d168b146dbfc6db57230294cc3323c31 SHA1: b44c88b43e5f9611c3ae88c3a735b6a6b94b3a4e SHA256: 27a78d826ad545aa411f3fdcc4238c7a805136718581cf1da0e3345245af6c95 SHA512: 51e4f28579fabb48c18e3201cae0b0f6bc01dc7904a2cdc497041ae51e92358b9b30beb907f7eec5853b1adfb22c0e0fc9e5f38934c42dbb3e02b7a0e82d204a Homepage: https://cran.r-project.org/package=broom.helpers Description: CRAN Package 'broom.helpers' (Helpers for Model Coefficients Tibbles) Provides suite of functions to work with regression model 'broom::tidy()' tibbles. The suite includes functions to group regression model terms by variable, insert reference and header rows for categorical variables, add variable labels, and more. Package: r-cran-broom.mixed Architecture: all Version: 0.2.9.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5486 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-coda, r-cran-dplyr, r-cran-forcats, r-cran-nlme, r-cran-purrr, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-furrr Suggests: r-cran-brms, r-cran-dotwhisker, r-cran-knitr, r-cran-testthat, r-cran-gamlss, r-cran-gamlss.data, r-cran-ggplot2, r-cran-glmmadaptive, r-cran-glmmtmb, r-cran-lmertest, r-cran-lme4, r-cran-matrix, r-cran-mcmcglmm, r-cran-mediation, r-cran-mgcv, r-cran-ordinal, r-cran-pander, r-cran-pbkrtest, r-cran-posterior, r-cran-rstan, r-cran-rstanarm, r-cran-rstantools, r-cran-r2jags, r-cran-tmb, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-broom.mixed_0.2.9.6-1.ca2004.1_all.deb Size: 5305768 MD5sum: 24fb03ef3e2da72484f61ffc74776e31 SHA1: 907298ae416b33985ce062cab43fbdb5e40417ca SHA256: 3986b87ce22e49ffac2f1265e053f6c73396c1bf7ed4389b804c12865245836e SHA512: 055f9e943be658dd636f3602edb9b6e79759186c92bcfc7eea21d1f615c23c28aded6ac971543951405f45b349486e70290871d598cc5bd06a199d0ab6ea5b38 Homepage: https://cran.r-project.org/package=broom.mixed Description: CRAN Package 'broom.mixed' (Tidying Methods for Mixed Models) Convert fitted objects from various R mixed-model packages into tidy data frames along the lines of the 'broom' package. The package provides three S3 generics for each model: tidy(), which summarizes a model's statistical findings such as coefficients of a regression; augment(), which adds columns to the original data such as predictions, residuals and cluster assignments; and glance(), which provides a one-row summary of model-level statistics. Package: r-cran-broom Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2162 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-backports, r-cran-cli, r-cran-dplyr, r-cran-generics, r-cran-glue, r-cran-lifecycle, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-aer, r-cran-auc, r-cran-bbmle, r-cran-betareg, r-cran-biglm, r-cran-bingroup, r-cran-boot, r-cran-btergm, r-cran-car, r-cran-cardata, r-cran-caret, r-cran-cluster, r-cran-cmprsk, r-cran-coda, r-cran-covr, r-cran-drc, r-cran-e1071, r-cran-emmeans, r-cran-epir, r-cran-ergm, r-cran-fixest, r-cran-gam, r-cran-gee, r-cran-geepack, r-cran-ggplot2, r-cran-glmnet, r-cran-glmnetutils, r-cran-gmm, r-cran-hmisc, r-cran-irlba, r-cran-interp, r-cran-joinerml, r-cran-kendall, r-cran-knitr, r-cran-ks, r-cran-lahman, r-cran-lavaan, r-cran-leaps, r-cran-lfe, r-cran-lm.beta, r-cran-lme4, r-cran-lmodel2, r-cran-lmtest, r-cran-lsmeans, r-cran-maps, r-cran-margins, r-cran-mass, r-cran-mclust, r-cran-mediation, r-cran-metafor, r-cran-mfx, r-cran-mgcv, r-cran-mlogit, r-cran-modeldata, r-cran-modeltests, r-cran-muhaz, r-cran-multcomp, r-cran-network, r-cran-nnet, r-cran-ordinal, r-cran-plm, r-cran-polca, r-cran-psych, r-cran-quantreg, r-cran-rmarkdown, r-cran-robust, r-cran-robustbase, r-cran-rsample, r-cran-sandwich, r-cran-spdep, r-cran-spatialreg, r-cran-speedglm, r-cran-spelling, r-cran-survey, r-cran-survival, r-cran-systemfit, r-cran-testthat, r-cran-tseries, r-cran-vars, r-cran-zoo Filename: pool/dists/focal/main/r-cran-broom_1.0.8-1.ca2004.1_all.deb Size: 1776964 MD5sum: ee3be3549b751e01f8abfb8cf33792c6 SHA1: 532d82596e29027941783e7fc00733d411f5cace SHA256: a3064492ff5cdf6d5ac16ef5699c1d5fb6994ca39e507ef82ffc29ad8b2a293d SHA512: b7c1dbf57cfcddce147332ceb5cf5cdbef3b3ad5770851d278f6e4a36598c9f7ffd9a45bebc5d9c7b53c6f8903a8c0d676700a0dd0e8d93e381b54272f5880a1 Homepage: https://cran.r-project.org/package=broom Description: CRAN Package 'broom' (Convert Statistical Objects into Tidy Tibbles) Summarizes key information about statistical objects in tidy tibbles. 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The goal is to combine the functionality offered by different set of packages ('broom', 'broom.mixed', 'parameters', and 'performance') through a common syntax to return tidy dataframes containing model parameters and performance measure summaries. The 'grouped_' variants of the generics provides a convenient way to execute functions across a combination of grouping variable(s) in a dataframe. 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Package: r-cran-brsim Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cluster, r-cran-corrplot, r-cran-rcmdrmisc Filename: pool/dists/focal/main/r-cran-brsim_0.3-1.ca2004.1_all.deb Size: 27576 MD5sum: 876242ecb1c612775cfa8e3b0ad107e5 SHA1: e44fa2147414d14149bb96b16099f4c6af84233a SHA256: fa6fb97270a60a75aa12a235c3037fbaa6c7d41393a8adf9f2f3370c8fbde953 SHA512: fbcbd34b215fe9c65275cd69fc35ac3402fd7a7187e8f49d80c4836b22262e7053c4f8bbff187b36381ed26bf2ceed0719ac0f219c186fbeeebf335ad266e93f Homepage: https://cran.r-project.org/package=brsim Description: CRAN Package 'brsim' (Brainerd-Robinson Similarity Coefficient Matrix) Provides the facility to calculate the Brainerd-Robinson similarity coefficient for the rows of an input table, and to calculate the significance of each coefficient based on a permutation approach; a heatmap is produced to visually represent the similarity matrix. Optionally, hierarchical agglomerative clustering can be performed and the silhouette method is used to identify an optimal number of clusters; the results of the clustering can be optionally used to sort the heatmap. Package: r-cran-brucer Architecture: all Version: 2024.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 598 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rstudioapi, r-cran-data.table, r-cran-rio, r-cran-crayon, r-cran-plyr, r-cran-dplyr, r-cran-tidyr, r-cran-stringr, r-cran-ggplot2, r-cran-psych, r-cran-afex, r-cran-emmeans, r-cran-effectsize, r-cran-performance, r-cran-mediation, r-cran-interactions, r-cran-lavaan, r-cran-jtools, r-cran-texreg, r-cran-lmertest Suggests: r-cran-pacman, r-cran-glue, r-cran-tibble, r-cran-forcats, r-cran-haven, r-cran-foreign, r-cran-readxl, r-cran-openxlsx, r-cran-clipr, r-cran-cowplot, r-cran-ggtext, r-cran-see, r-cran-car, r-cran-lmtest, r-cran-lme4, r-cran-nnet, r-cran-vars, r-cran-phia, r-cran-mass, r-cran-mumin, r-cran-bayesfactor, r-cran-ggally, r-cran-gparotation Filename: pool/dists/focal/main/r-cran-brucer_2024.6-1.ca2004.1_all.deb Size: 544764 MD5sum: 4e6d38d87d2bf2f7542ac946b0db0663 SHA1: a617297aae38294d36911b9c66837441bce13adf SHA256: d5dc41ff05c96b35c450fcb67c64dc10a660d5df3093edfff94e021aa0f4ffe9 SHA512: 570366e9e056febd0b9d0f610516a5f65b4a8182f4c9593512e0b6b8db359fe2e3c9fbfc2d996c7323b7f0e014df22795b78725132bcab64bb41c8510bb0fda4 Homepage: https://cran.r-project.org/package=bruceR Description: CRAN Package 'bruceR' (Broadly Useful Convenient and Efficient R Functions) Broadly useful convenient and efficient R functions that bring users concise and elegant R data analyses. This package includes easy-to-use functions for (1) basic R programming (e.g., set working directory to the path of currently opened file; import/export data from/to files in any format; print tables to Microsoft Word); (2) multivariate computation (e.g., compute scale sums/means/... with reverse scoring); (3) reliability analyses and factor analyses; (4) descriptive statistics and correlation analyses; (5) t-test, multi-factor analysis of variance (ANOVA), simple-effect analysis, and post-hoc multiple comparison; (6) tidy report of statistical models (to R Console and Microsoft Word); (7) mediation and moderation analyses (PROCESS); and (8) additional toolbox for statistics and graphics. Package: r-cran-brulee Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 340 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-coro, r-cran-dplyr, r-cran-generics, r-cran-ggplot2, r-cran-glue, r-cran-hardhat, r-cran-rlang, r-cran-tibble, r-cran-torch Suggests: r-cran-covr, r-cran-modeldata, r-cran-purrr, r-cran-recipes, r-cran-spelling, r-cran-testthat, r-cran-yardstick Filename: pool/dists/focal/main/r-cran-brulee_0.5.0-1.ca2004.1_all.deb Size: 281040 MD5sum: 098dae869cf54abcc157d5936cce4e5e SHA1: e39d836a40c3567f53b27dd8fee3537405906f8c SHA256: 6ab035b42df42d4e667a1ae888417dc701e71ddf756cc8a0f70237c6ddf4d465 SHA512: 92703413303bf6a1dd12db8c1eceb9ead182812ccfa33dac378bed7d1f3728311e78f978d5bb2ba69801c0d25f80b102916188d3e49d67c2f1fd259c7b68314e Homepage: https://cran.r-project.org/package=brulee Description: CRAN Package 'brulee' (High-Level Modeling Functions with 'torch') Provides high-level modeling functions to define and train models using the 'torch' R package. Models include linear, logistic, and multinomial regression as well as multilayer perceptrons. Package: r-cran-brundle Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 559 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-diffbind, r-bioc-rsamtools, r-bioc-deseq2, r-cran-lattice Filename: pool/dists/focal/main/r-cran-brundle_1.0.9-1.ca2004.1_all.deb Size: 495996 MD5sum: 7db1bf91c611840b92731b460b7acce3 SHA1: 9fea60eee00d1032fa3c5f35c474d9b7046c1049 SHA256: 8d97a431a6f59b9fd8b15af4d23466f924d8c7a0abadbd7993b00b7170d5e663 SHA512: 011eb5261217fc2c0f4a3bcaa127e18d131a3600298f2120a35debe9d31c9cd49240d2620aa684c3109416ca51a78bf6dc25f0afef631be3375cbd40b845aacb Homepage: https://cran.r-project.org/package=Brundle Description: CRAN Package 'Brundle' (Normalisation Tools for Inter-Condition Variability of ChIP-SeqData) Inter-sample condition variability is a key challenge of normalising ChIP-seq data. 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Package: r-cran-bsims Architecture: all Version: 0.3-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2738 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-intrval, r-cran-mefa4, r-cran-mass, r-cran-deldir, r-cran-pbapply Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-detect, r-cran-shiny Filename: pool/dists/focal/main/r-cran-bsims_0.3-2-1.ca2004.1_all.deb Size: 1886408 MD5sum: ba4b95ad9c4c515c7049e8cfb449b058 SHA1: 0e3e14eaa2cc99fee957be1b0808c7f17e3bbaf7 SHA256: be9115bfadbf44aa6e104a532efdf7007ec336962de6734cba6734da27fe3d4f SHA512: ba978e7673a00d81846d5c69acf2a328b2525b14df4b7276edc5a923b62d8f0d83700807369c05662a9f705dc68f1acfe4a970cefd8362ba269d49e265f46af7 Homepage: https://cran.r-project.org/package=bSims Description: CRAN Package 'bSims' (Agent-Based Bird Point Count Simulator) A highly scientific and utterly addictive bird point count simulator to test statistical assumptions, aid survey design, and have fun while doing it (Solymos 2024 ). The simulations follow time-removal and distance sampling models based on Matsuoka et al. (2012) , Solymos et al. (2013) , and Solymos et al. (2018) , and sound attenuation experiments by Yip et al. (2017) . Package: r-cran-bsitar Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7827 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-brms, r-cran-rstan, r-cran-loo, r-cran-dplyr, r-cran-rlang, r-cran-rdpack, r-cran-insight, r-cran-data.table, r-cran-collapse, r-cran-marginaleffects, r-cran-sitar, r-cran-magrittr Suggests: r-cran-ggplot2, r-cran-bayesplot, r-cran-posterior, r-cran-testthat, r-cran-dtplyr, r-cran-checkmate, r-cran-doparallel, r-cran-foreach, r-cran-ggridges, r-cran-jtools, r-cran-fastplyr, r-cran-dofuture, r-cran-cheapr, r-cran-installr, r-cran-splines2, r-cran-tidyr, r-cran-nlme, r-cran-purrr, r-cran-future, r-cran-future.apply, r-cran-forcats, r-cran-patchwork, r-cran-tibble, r-cran-pracma, r-cran-extradistr, r-cran-bookdown, r-cran-knitr, r-cran-kableextra, r-cran-rmarkdown, r-cran-spelling, r-cran-hmisc, r-cran-r.rsp, r-cran-ggtext, r-cran-glue, r-cran-here Filename: pool/dists/focal/main/r-cran-bsitar_0.3.2-1.ca2004.1_all.deb Size: 7482620 MD5sum: 938d0fef94a5af1797c8857dd3c0d685 SHA1: 001b9d607c995d9917122a8e0feae042c205bb69 SHA256: 511356de8dc534d565d4062c1df0a74f152c01cb8ea6b8a5444565c65a6608ae SHA512: f97835b4573b25e4c91498877babe5a5df875804d4e877be7bbc031d2361ae907b313b7701add843257d024c07b5ea7fdaa2ea85b6410afb5c47d0e82df5e1c7 Homepage: https://cran.r-project.org/package=bsitar Description: CRAN Package 'bsitar' (Bayesian Super Imposition by Translation and Rotation GrowthCurve Analysis) The Super Imposition by Translation and Rotation (SITAR) model is a shape-invariant nonlinear mixed effect model that fits a natural cubic spline mean curve to the growth data and aligns individual-specific growth curves to the underlying mean curve via a set of random effects (see Cole, 2010 for details). The non-Bayesian version of the SITAR model can be fit by using the already available R package 'sitar'. While the 'sitar' package allows modelling of a single outcome only, the 'bsitar' package offers great flexibility in fitting models of varying complexities, including joint modelling of multiple outcomes such as height and weight (multivariate model). Additionally, the 'bsitar' package allows for the simultaneous analysis of an outcome separately for subgroups defined by a factor variable such as gender. This is achieved by fitting separate models for each subgroup (for example males and females for gender variable). An advantage of this approach is that posterior draws for each subgroup are part of a single model object, making it possible to compare coefficients across subgroups and test hypotheses. Since the 'bsitar' package is a front-end to the R package 'brms', it offers excellent support for post-processing of posterior draws via various functions that are directly available from the 'brms' package. In addition, the 'bsitar' package includes various customized functions that allow for the visualization of distance (increase in size with age) and velocity (change in growth rate as a function of age), as well as the estimation of growth spurt parameters such as age at peak growth velocity and peak growth velocity. Package: r-cran-bskyr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 402 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-dplyr, r-cran-fs, r-cran-httr2, r-cran-lubridate, r-cran-magick, r-cran-mime, r-cran-opengraph, r-cran-purrr, r-cran-rlang, r-cran-stringi, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-emoji, r-cran-httptest2, r-cran-jsonlite, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-bskyr_0.3.0-1.ca2004.1_all.deb Size: 331948 MD5sum: 516428e7730674124413e6f14a7efbe8 SHA1: 09569dd5fa7030730c68d5a59f76e9c8b83f1c30 SHA256: 6da7ced0798735dc7fb8977863336a452182a95522e43489519e7722b8eec797 SHA512: 68c1041f861423ddc5ee7c87b84459d85ebb1e39650aac36d145ae81f7b720938a89f0b370ca219af110836002e20d489d90dcfcaa7c37ff9e5fdbb7009ee443 Homepage: https://cran.r-project.org/package=bskyr Description: CRAN Package 'bskyr' (Interact with 'Bluesky' Social) Collect data from and make posts on 'Bluesky' Social via the Hypertext Transfer Protocol (HTTP) Application Programming Interface (API), as documented at . 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For a treatment-associated covariate to be a valid IV, it must be (a) unconfounded with the outcome and (b) have a causal effect on the outcome that is exclusively mediated by the exposure. There is no general test of the validity of these IV assumptions for any particular pre-treatment covariate. However, if different pre-treatment covariates give differing causal effect estimates when treated as IVs, then we know at least some of the covariates violate these assumptions. 'budgetIVr' exploits this fact by taking as input a minimum budget of pre-treatment covariates assumed to be valid IVs and idenfiying the set of causal effects that are consistent with the user's data and budget assumption. The following generalizations of this principle can be used in this package: (1) a vector of multiple budgets can be assigned alongside corresponding thresholds that model degrees of IV invalidity; (2) budgets and thresholds can be chosen using specialist knowledge or varied in a principled sensitivity analysis; (3) treatment effects can be nonlinear and/or depend on multiple exposures (at a computational cost). The methods in this package require only summary statistics. Confidence sets are constructed under the "no measurement error" (NOME) assumption from the Mendelian randomization literature. For further methodological details, please refer to Penn et al. (2024) . 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It enables users to efficiently read multiple sheets from Microsoft Excel and Google Sheets workbooks, as well as various CSV files from a directory. The data is returned as organized data frames, facilitating further analysis and manipulation. Ideal for handling extensive data sets or batch processing tasks, bulkreadr empowers users to manage data in bulk effortlessly, saving time and effort in data preparation workflows. Additionally, the package seamlessly works with labelled data from SPSS and Stata. Package: r-cran-bulletcp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1187 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-dplyr, r-cran-assertthat, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-bulletcp_1.0.0-1.ca2004.1_all.deb Size: 447004 MD5sum: 40729b9ff41d8da11fecea6dc899feba SHA1: 831727a6b97063515b4eb71e0f93e22caec45d5c SHA256: 57ed75ccdb5393a31f24f19b1c6d75a3e23b1a78d55d739b8e40c707de74f409 SHA512: ea68df409168c287f82664e747a5a4454ad294d823641d649fe0a77aa71b64e4cb7c71783dbf61f94fe5e0f1e77c3b7970ba2586e1afff6c817790ae44ba32c4 Homepage: https://cran.r-project.org/package=bulletcp Description: CRAN Package 'bulletcp' (Automatic Groove Identification via Bayesian ChangepointDetection) Provides functionality to automatically detect groove locations via a Bayesian changepoint detection method to be used in the data preprocessing step of forensic bullet matching algorithms. The methods in this package are based on those in Stephens (1994) . Bayesian changepoint detection will simply be an option in the function from the package 'bulletxtrctr' which identifies the groove locations. 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We provide a reading routine for x3p files (see for more information) and a host of analysis functions designed to assess the probability that two bullets were fired from the same gun barrel. Package: r-cran-bullishtrader Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-bullishtrader_1.0.1-1.ca2004.1_all.deb Size: 123600 MD5sum: e8c1b4681d259689e258eeb569f47189 SHA1: c273a8a0375602092ce5ba7350ba5cb6225739e9 SHA256: 92051cdb85a988f7b05576d7d22370619b036d2c160742efe095cbf62913da60 SHA512: 86b7793dc4f880329914d3bb04311f488533703995d54ec20ff383f010560193913ec13b9d7ffdf37c975919c6e0cc3d2bc0d5b19124cb92c52fe10cb219089e Homepage: https://cran.r-project.org/package=bullishTrader Description: CRAN Package 'bullishTrader' (Bullish Trading Strategies Through Graphs) Stock, Options and Futures Trading Strategies for Traders and Investors with Bullish Outlook are represented here through their Graphs. The graphic indicators, strategies, calculations, functions and all the discussions are for academic, research, and educational purposes only and should not be construed as investment advice and come with absolutely no Liability. Guy Cohen (“The Bible of Options Strategies (2nd ed.)”, 2015, ISBN: 9780133964028). Zura Kakushadze, Juan A. Serur (“151 Trading Strategies”, 2018, ISBN: 9783030027919). John C. Hull (“Options, Futures, and Other Derivatives (11th ed.)”, 2022, ISBN: 9780136939979). Package: r-cran-bullseye Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3582 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-cli, r-cran-rlang, r-cran-ggplot2, r-cran-labeling, r-cran-ggiraph, r-cran-dendser, r-cran-tidyr, r-cran-polycor, r-cran-colorspace Suggests: r-cran-desctools, r-cran-acepack, r-cran-energy, r-cran-linkspotter, r-cran-minerva, r-cran-scagnostics, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-correlation, r-cran-palmerpenguins, r-cran-kableextra, r-cran-openintro, r-cran-corrplot Filename: pool/dists/focal/main/r-cran-bullseye_1.0.0-1.ca2004.1_all.deb Size: 916064 MD5sum: 4f3c1319196aebabc7c7a12c67270fd5 SHA1: eb06ae57f4a26657d87e4b72251f6ad0b84acbfc SHA256: 0a612927890ccd26ad818d7b7c9482cd6c3e107eacf1206f8bf4119387068e89 SHA512: 754e1f71465723064039b443a28ffc2577b829383bad3fa658adf12494d95e3ab78605ca71e19278797f72463215ea16f738547c5fcef2377fc84be736c672ba Homepage: https://cran.r-project.org/package=bullseye Description: CRAN Package 'bullseye' (Visualising Multiple Pairwise Variable Correlations and OtherScores) We provide a tidy data structure and visualisations for multiple or grouped variable correlations, general association measures scagnostics and other pairwise scores suitable for numerical, ordinal and nominal variables. 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Package: r-cran-bullwhipgame Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny Filename: pool/dists/focal/main/r-cran-bullwhipgame_0.1.0-1.ca2004.1_all.deb Size: 72748 MD5sum: 8cc1a5d8112f94fc2371bec9496c5ffe SHA1: 4e2fcee05f6414950a9ef77cc5cb4235fe3856de SHA256: b24bdc43eff67870000f3cf45bb224041a0510726a8be353847b953b580e8f14 SHA512: 1fb4f5045cc5ded1678ae118abbfd4df2af69adc0a71ac5d06702666b6ad70126f75fdc434e3a40c9c015fc305f8a32f77d44a5be8d907c747d7edbf85d20afe Homepage: https://cran.r-project.org/package=bullwhipgame Description: CRAN Package 'bullwhipgame' (Bullwhip Effect Demo in Shiny) The bullwhipgame is an educational game that has as purpose the illustration and exploration of the bullwhip effect,i.e, the increase in demand variability along the supply chain. Marchena Marlene (2010) . 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The graphic indicators, strategies, calculations, functions and all the discussions are for academic, research, and educational purposes only and should not be construed as investment advice and come with absolutely no Liability. Guy Cohen (“The Bible of Options Strategies (2nd ed.)”, 2015, ISBN: 9780133964028). Zura Kakushadze, Juan A. Serur (“151 Trading Strategies”, 2018, ISBN: 9783030027919). John C. Hull (“Options, Futures, and Other Derivatives (11th ed.)”, 2022, ISBN: 9780136939979). 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'calendRio' provides a 'calendR()' function that serves as a drop-in replacement for the upstream version but allows for additional parameters unlocking extra functionality. Package: r-cran-calf Architecture: all Version: 1.0.17-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-calf_1.0.17-1.ca2004.1_all.deb Size: 112192 MD5sum: e20b580c65b0afbf4d4954e3597b889d SHA1: 1469bb54d1eaf8ff870affeb966b32a96809167f SHA256: a5e6f22543a456ab383f83bcda3170622eeee6aae27d7f3cfcb76d2ab21a1bc2 SHA512: 6262b1f643fe80b0e8a390fd10c38592e05f176537cc6907c439045739e0ddba3a09034580a06851fe7c25f20528a0eaebd88d32bef9482eeb513ce981e051a6 Homepage: https://cran.r-project.org/package=CALF Description: CRAN Package 'CALF' (Coarse Approximation Linear Function) Contains greedy algorithms for coarse approximation linear functions. Package: r-cran-caliberrfimpute Architecture: all Version: 1.0-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 736 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mice, r-cran-mvtnorm, r-cran-randomforest Suggests: r-cran-missforest, r-cran-rpart, r-cran-survival, r-cran-xtable, r-cran-ranger Filename: pool/dists/focal/main/r-cran-caliberrfimpute_1.0-7-1.ca2004.1_all.deb Size: 491036 MD5sum: 6f7758d77ce17cf7503cc049e5b190ea SHA1: 560c6c0d7c5a5fac3e7ec40961251e4e99537639 SHA256: 0ceff1d23de66d7d43d9a751391deea1baad6f99ea723c1d87f2598d204ccb71 SHA512: ad3f33169c4fc7996721baadfd7d507c557a1be24f76db24e86ff410e8a8e80577d4e8c20d99b86cb55aa355c3f6f0e1aa07be85ffb191d236194b48908097fb Homepage: https://cran.r-project.org/package=CALIBERrfimpute Description: CRAN Package 'CALIBERrfimpute' (Multiple Imputation Using MICE and Random Forest) Functions to impute using random forest under full conditional specifications (multivariate imputation by chained equations). 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Package: r-cran-calibmsm Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2361 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-boot, r-cran-dplyr, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggextra, r-cran-gridextra, r-cran-hmisc, r-cran-mstate, r-cran-rms, r-cran-survival, r-cran-tidyr, r-cran-vgam Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp, r-cran-testthat, r-cran-survminer, r-cran-flexsurv Filename: pool/dists/focal/main/r-cran-calibmsm_1.1.3-1.ca2004.1_all.deb Size: 1944296 MD5sum: 793942d9f0e1f2b3936ee681ee70cfaf SHA1: df1924e75cb8d6c869766debd5dc60183d312e93 SHA256: b2550fa9fd8f57f20d2dc15a459fcdc1480ed9825367663174a3c14b49aeec74 SHA512: d29b21ef7908689a20ea4f7c2ee84e40a5a3b1e26d05119d81c4ceda70165f540fe817a568a4977887abb2de5fad4d4699115f68f8b6e4f15b253d97e2a3c7a1 Homepage: https://cran.r-project.org/package=calibmsm Description: CRAN Package 'calibmsm' (Calibration Plots for the Transition Probabilities fromMultistate Models) Assess the calibration of an existing (i.e. previously developed) multistate model through calibration plots. Calibration is assessed using one of three methods. 1) Calibration methods for binary logistic regression models applied at a fixed time point in conjunction with inverse probability of censoring weights. 2) Calibration methods for multinomial logistic regression models applied at a fixed time point in conjunction with inverse probability of censoring weights. 3) Pseudo-values estimated using the Aalen-Johansen estimator of observed risk. All methods are applied in conjunction with landmarking when required. These calibration plots evaluate the calibration (in a validation cohort of interest) of the transition probabilities estimated from an existing multistate model. While package development has focused on multistate models, calibration plots can be produced for any model which utilises information post baseline to update predictions (e.g. dynamic models); competing risks models; or standard single outcome survival models, where predictions can be made at any landmark time. Please see Pate et al. (2024) and Pate et al. (2024) . Package: r-cran-calibrar Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 680 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bb, r-cran-cmaes, r-cran-deoptim, r-cran-dfoptim, r-cran-gensa, r-cran-minqa, r-cran-optimx, r-cran-foreach, r-cran-lbfgsb3c, r-cran-pso, r-cran-rgenoud, r-cran-soma, r-cran-stringr Suggests: r-cran-desolve, r-cran-ibm, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-calibrar_0.9.0-1.ca2004.1_all.deb Size: 560924 MD5sum: ec1999449c51a6a1e8d2abeacc634b3f SHA1: fc73c85921c96be54c73a431f8e2884796da24c2 SHA256: e57d056e7735c850a426dd93017f2cdc7bf14ce563b428afce8ca7b593126729 SHA512: b2680bceb20b0872c3d2d9e7cd3d462273898a7a4828a83ee8a07e682e427837a3172da4b7176488a64f08d764208915e94678287cfa7d17571fe31a46072728 Homepage: https://cran.r-project.org/package=calibrar Description: CRAN Package 'calibrar' (Automated Parameter Estimation for Complex Models) General optimisation and specific tools for the parameter estimation (i.e. calibration) of complex models, including stochastic ones. It implements generic functions that can be used for fitting any type of models, especially those with non-differentiable objective functions, with the same syntax as base::optim. It supports multiple phases estimation (sequential parameter masking), constrained optimization (bounding box restrictions) and automatic parallel computation of numerical gradients. Some common maximum likelihood estimation methods and automated construction of the objective function from simulated model outputs is provided. See for more details. Package: r-cran-calibrate Architecture: all Version: 1.7.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 460 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-calibrate_1.7.7-1.ca2004.1_all.deb Size: 351744 MD5sum: 10400b35d340481acbcafdab4811b9b7 SHA1: 756fdb31c75d939f2b97c39b51b71e362a13ea44 SHA256: fecdc7e5215052c2c1db03d09a4daef21a54c1dbe58dcc1f87540e77db15417b SHA512: 146a908615f7c089a8dbe4647ff9331d257aca088adfaa13e142e477bbbcb0d2818215ed396cdf6b259dc7a3f693441c8ac4e42d339f7d8b3c43bc332aaba0dc Homepage: https://cran.r-project.org/package=calibrate Description: CRAN Package 'calibrate' (Calibration of Scatterplot and Biplot Axes) Package for drawing calibrated scales with tick marks on (non-orthogonal) variable vectors in scatterplots and biplots. Also provides some functions for biplot creation and for multivariate analysis such as principal coordinate analysis. 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See De Cock Campo (2023) and Van Calster et al. (2016) . Package: r-cran-calibrator Architecture: all Version: 1.2-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 729 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-emulator, r-cran-mvtnorm, r-cran-cubature Filename: pool/dists/focal/main/r-cran-calibrator_1.2-8-1.ca2004.1_all.deb Size: 628904 MD5sum: 92ffbcebd04b712c5987ae65070ae7ad SHA1: 2e86a61b68daa4668f83c5294bb8f3bcf0545c3b SHA256: 8999565f41de53bf45f41bb034c1d8acf8a4cad7933c747631b87eb8199e7b49 SHA512: 3bb5541b4355a9fb2d8518379c458511c62b8635c02ddeea4c3cc5f4f0240f5ee3e5a561a74fa640b2dda114f188ebbb0f88a58bedc96791fe1ba840c2515bea Homepage: https://cran.r-project.org/package=calibrator Description: CRAN Package 'calibrator' (Bayesian Calibration of Complex Computer Codes) Performs Bayesian calibration of computer models as per Kennedy and O'Hagan 2001. The package includes routines to find the hyperparameters and parameters; see the help page for stage1() for a worked example using the toy dataset. A tutorial is provided in the calex.Rnw vignette; and a suite of especially simple one dimensional examples appears in inst/doc/one.dim/. Package: r-cran-calibratr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 277 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-proc, r-cran-reshape2, r-cran-foreach, r-cran-fitdistrplus, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-calibratr_0.1.2-1.ca2004.1_all.deb Size: 245348 MD5sum: e6db89ea872ca48c571f8baa7d18414a SHA1: 6f13e53a1771adc34ec654b2bc41e25ffaf94cee SHA256: 2e85f6684fe1795d2c1af39cc1b4c6b586c9f4257bcf92bb323e377432072a23 SHA512: ae36e164e40fe81c8350aee6ab51944ddcc33a700130a1fa766a293b08a8197baa2e92866dd9a3e4da46922fd327add7ea2431b498556fd52519ee36efb376f2 Homepage: https://cran.r-project.org/package=CalibratR Description: CRAN Package 'CalibratR' (Mapping ML Scores to Calibrated Predictions) Transforms your uncalibrated Machine Learning scores to well-calibrated prediction estimates that can be interpreted as probability estimates. The implemented BBQ (Bayes Binning in Quantiles) model is taken from Naeini (2015, ISBN:0-262-51129-0). Please cite this paper: Schwarz J and Heider D, Bioinformatics 2019, 35(14):2458-2465. Package: r-cran-calidad Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4624 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rlang, r-cran-dplyr, r-cran-purrr, r-cran-survey, r-cran-kableextra, r-cran-stringr, r-cran-haven Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-srvyr Filename: pool/dists/focal/main/r-cran-calidad_0.8.1-1.ca2004.1_all.deb Size: 4573428 MD5sum: 226a356c5956fda30965558c01dd370a SHA1: cb135730e7380f55c2812a34a04794aa80b51b7c SHA256: ff6996afe61334195107771f1fa25b5c4e2a0641b7953d186eaebb790c7dcac6 SHA512: d53d1e1b26f220d5893f65b12cbb4cc6f96c49654326a5afb0921691fb0b9d37ddb320151ca27d00ff5e1ab46e5f34cbc51306b959fb5be08317dd292124cd74 Homepage: https://cran.r-project.org/package=calidad Description: CRAN Package 'calidad' (Assesses the Quality of Estimates Made by Complex Sample Designs) Assesses the quality of estimates made by complex sample designs, following the methodology developed by the National Institute of Statistics Chile (Household Survey Standard 2020, ), (Economics Survey Standard 2024, ) and by Economic Commission for Latin America and Caribbean (2020, ), (2024, ). 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Package: r-cran-calleshotgun Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reticulate Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-calleshotgun_0.2.0-1.ca2004.1_all.deb Size: 47764 MD5sum: 2b701b4dc85476c092f8c1e517a417d5 SHA1: a9dc4ab8c56fa59224341dbe0df7f4b5183130df SHA256: eed3ddd47d0fe213b41ab7cc46fb8a7d9f357fef41864d02d2d50fec6f9a8f8c SHA512: f6c4a8c5b616d938d8fa91673f9ffd8131ae87e5254c672b3f7ba570bf92dfa9323446a18b472e038c3aabf61ed82d1992b43da5030cb775eabd7cfdc6d71321 Homepage: https://cran.r-project.org/package=CallEshotgun Description: CRAN Package 'CallEshotgun' (Providing an Interface to the e-Shotgun Algorithm for BayesianOptimization) A set of tools for the usage of the e-shotgun algorithm for Bayesian optimization. The e-shotgun was originally developed by "George De Ath, Richard M. Everson, Jonathan E. Fieldsend, and Alma A. M. Rahat. 2020. e-shotgun : e-greedy Batch Bayesian Optimisation. In Genetic and Evolutionary Computation Conference (GECCO ’20), July 8–12, 2020, Cancún, Mexico. ACM, New York, NY, USA, 9 pages." . Package: r-cran-callme Architecture: all Version: 0.1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 277 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-callme_0.1.11-1.ca2004.1_all.deb Size: 46932 MD5sum: 63b96307ce69195548b712344a3653f2 SHA1: d44f018f99dcdf9036b0a6ee55623726a6cbd495 SHA256: 8ff05d302d446c2e9388bf12d554b713baaf62b19e52e89af73458cac22404f9 SHA512: e2b8234fda103c2fa5a5f2ed6342f86457a345bf65f0af396914e3552ac3c03f7f19f48b46f0a5a107effe88baa248340cf414432c30307d6aed5d23b56cc03b Homepage: https://cran.r-project.org/package=callme Description: CRAN Package 'callme' (Easily Compile and Call Inline 'C' Functions) Compile inline 'C' code and easily call with automatically generated wrapper functions. By allowing user-defined headers and compilation flags (preprocessor, compiler and linking flags) the user can configure optimization options and linking to third party libraries. Multiple functions may be defined in a single block of code - which may be defined in a string or a path to a source file. Package: r-cran-callr Architecture: all Version: 3.7.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 590 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-processx, r-cran-r6 Suggests: r-cran-asciicast, r-cran-cli, r-cran-mockery, r-cran-ps, r-cran-rprojroot, r-cran-spelling, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-callr_3.7.6-1.ca2004.1_all.deb Size: 414208 MD5sum: 270397c58c2e690abc681bc1093e080d SHA1: 5100433797f7e29e1d20332904a38af37639bb8b SHA256: 25e66cf74cad58aa2e397d32515a7de8161fa71d813070a007cf0467295ddd2b SHA512: 67828a4c5caffa31ebd2f868f192ffea85f6d26634f187ae9d0ed0fddc08d8c28d2706f5a7c8c4530385912177cb1b532f65ea1ba4d4da0e754b70dc82875bff Homepage: https://cran.r-project.org/package=callr Description: CRAN Package 'callr' (Call R from R) It is sometimes useful to perform a computation in a separate R process, without affecting the current R process at all. This packages does exactly that. Package: r-cran-callsync Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 245 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-oce, r-cran-seewave, r-cran-signal, r-cran-stringr, r-cran-tuner, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-callsync_0.2.3-1.ca2004.1_all.deb Size: 162364 MD5sum: 88cb586603929be19fd603b09d49413f SHA1: da37c1d3eb81b6ea694d1298ba3706c9066e188c SHA256: 8749ace34f52203a7ffb3b437734b00b3337276b0fa63517383145885ce831af SHA512: 816f1471c91ecaceff3d387824cf6ee2c9359b9bae2d9e37c6ebb9f0175b00dc00749a960897e5d29617ca626d073c5176bdb3aa979f1b261c743bbb7b161f8e Homepage: https://cran.r-project.org/package=callsync Description: CRAN Package 'callsync' (Recording Synchronisation, Call Detection and Assignment, AudioAnalysis) Intended to analyse recordings from multiple microphones (e.g., backpack microphones in captive setting). It allows users to align recordings even if there is non-linear drift of several minutes between them. A call detection and assignment pipeline can be used to find vocalisations and assign them to the vocalising individuals (even if the vocalisation is picked up on multiple microphones). The tracing and measurement functions allow for detailed analysis of the vocalisations and filtering of noise. Finally, the package includes a function to run spectrographic cross correlation, which can be used to compare vocalisations. It also includes multiple other functions related to analysis of vocal behaviour. Package: r-cran-calmate Architecture: all Version: 0.13.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 312 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r.utils, r-cran-aroma.core, r-cran-mass, r-cran-r.methodss3, r-cran-r.oo, r-cran-matrixstats, r-cran-r.filesets Suggests: r-bioc-dnacopy Filename: pool/dists/focal/main/r-cran-calmate_0.13.0-1.ca2004.1_all.deb Size: 203672 MD5sum: e365c6502fddbde91819b2b71c4f3602 SHA1: fd1990f6158ec21aead4db8b879ed556ac22dc46 SHA256: a9235ae05d24e47fe177980518254093144e43c73a48ab595e2323246f595c74 SHA512: 6cc2299734415095ab499cd6b44ed1c778e47ed12ff2978e23b746543b6bbeabbb21f85a74be8f1f8d337c54928ae0f6d090dfec46470403a0621ca1d7a74126 Homepage: https://cran.r-project.org/package=calmate Description: CRAN Package 'calmate' (Improved Allele-Specific Copy Number of SNP Microarrays forDownstream Segmentation) The CalMaTe method calibrates preprocessed allele-specific copy number estimates (ASCNs) from DNA microarrays by controlling for single-nucleotide polymorphism-specific allelic crosstalk. 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Package: r-cran-calmr Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2919 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-future, r-cran-future.apply, r-cran-ga, r-cran-ggnetwork, r-cran-ggplot2, r-cran-lifecycle, r-cran-network, r-cran-patchwork, r-cran-progressr, r-cran-rlang Suggests: r-cran-diagrammer, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-calmr_0.7.0-1.ca2004.1_all.deb Size: 1609672 MD5sum: 269ed40c716f34856b864424a30135ee SHA1: c010e48212a26952a373a2ba0f9eae1a533d5b3a SHA256: d73d7df6d6b20a52fea259d60cf5de66e95a4c2abd02d49ccc9157528e4781c7 SHA512: d6c170fb134c4eda17f804d3c92615895d5c310ef8467a21f4566bc74caad2a80f745f01a0851a266f61994667eabb199bd0b3cca9fce3da6db5dc5d8f5ff33c Homepage: https://cran.r-project.org/package=calmr Description: CRAN Package 'calmr' (Canonical Associative Learning Models and their Representations) Implementations of canonical associative learning models, with tools to run experiment simulations, estimate model parameters, and compare model representations. Experiments and results are represented using S4 classes and methods. Package: r-cran-calpassapi Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-dplyr, r-cran-digest, r-cran-jsonlite, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-calpassapi_0.0.3-1.ca2004.1_all.deb Size: 35956 MD5sum: b18f78ec7bcf25b6d0546f9df8df7203 SHA1: bed09845afca37254ea658de6455e8a4249e12b1 SHA256: 88412b4d5dda70d9cfa7b0f7fae85f5a7a8433a327d40b829f30d8368c535632 SHA512: f7880d90fd1a509c32eca42f450eb8bf355df79293661a2f445734c56db91be940c9eb88a740b908b6339526a9854dc34d50461ea3767c56f143652f6193666e Homepage: https://cran.r-project.org/package=calpassapi Description: CRAN Package 'calpassapi' (R Interface to Access CalPASS API) Implements methods for querying data from CalPASS using its API. CalPASS Plus. MMAP API V1. . Package: r-cran-camcorder Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1991 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-gifski, r-cran-magick, r-cran-rsvg, r-cran-jsonlite, r-cran-rlang, r-cran-svglite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-ragg, r-cran-covr, r-cran-testthat, r-cran-patchwork, r-cran-withr, r-cran-dplyr, r-cran-systemfonts, r-cran-scales, r-cran-extrafont Filename: pool/dists/focal/main/r-cran-camcorder_0.1.0-1.ca2004.1_all.deb Size: 1419572 MD5sum: 3962ae501f9bfa577ed99ff02799bbad SHA1: 7a021eebd9bdcdad2717a7c2e40011ed018358b9 SHA256: 88b0fe797ece409ff38b3c3f67dd7752a8312d5231240c587ce419f237f46894 SHA512: d2dfc5d9135a63bb2b9a0dab799665ace310cd47a6396f554130a85b36d403dff1d4b870b627e848b9ba4ae49b0381781547c4a111f014bd883bc5496d341dd6 Homepage: https://cran.r-project.org/package=camcorder Description: CRAN Package 'camcorder' (Record Your Plot History) Record and generate a 'gif' of your 'R' sessions plots. When creating a visualization, there is inevitably iteration and refinement that occurs. Automatically save the plots made to a specified directory, previewing them as they would be saved. Then combine all plots generated into a 'gif' to show the plot refinement over time. Package: r-cran-camerondata Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1366 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-camerondata_1.0.0-1.ca2004.1_all.deb Size: 1322508 MD5sum: 9f3af453370a53e6f4f641bf59f44f5d SHA1: 58c18d5c023867f57465ca6949a1ebee690d3613 SHA256: a7b0cf72fa3c6a6715bf22e9dada7ae882bd8e02003bd0ded4bf91ffe0a805b9 SHA512: 9fe17a0586ccf5ab20e093a2aa64f0c9696b1cf476958e28e8b172dc9a904bef9f39aae552149934a54127be8976f4b8531ffa4d27f7fc45810d25b94acd22c7 Homepage: https://cran.r-project.org/package=camerondata Description: CRAN Package 'camerondata' (Datasets from "Microeconometrics: Methods and Applications" byCameron and Trivedi) Quick and easy access to datasets that let you replicate the empirical examples in Cameron and Trivedi (2005) "Microeconometrics: Methods and Applications" (ISBN: 9780521848053).The data are available as soon as you install and load the package (lazy-loading) as data frames. The documentation includes reference to chapter sections and page numbers where the datasets are used. Package: r-cran-camml Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 816 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-vam, r-cran-seurat, r-cran-mass, r-cran-matrix, r-cran-biocmanager, r-bioc-org.hs.eg.db, r-bioc-org.dr.eg.db, r-bioc-org.mm.eg.db, r-bioc-annotationdbi, r-cran-seuratobject, r-bioc-edger Suggests: r-cran-sctransform Filename: pool/dists/focal/main/r-cran-camml_1.0.0-1.ca2004.1_all.deb Size: 643420 MD5sum: 8ec372a21a43ed149a63d6031c733991 SHA1: 785add7b0ee0366495f87385a50e4e51b71f9321 SHA256: e9d8577c6ec294fa10c829137b8833c29b10433778439cbe66146dd87d545478 SHA512: 56ac67c2a8406126590a0957e679cb3a2baf02b7263b094b882c9ba4bcddac2ba51d96a57e88bc3a352f7d58de6925d65de62be1247c5a24facc3313b1d3a612 Homepage: https://cran.r-project.org/package=CAMML Description: CRAN Package 'CAMML' (Cell-Typing using Variance Adjusted Mahalanobis Distances withMulti-Labeling) Creates multi-label cell-types for single-cell RNA-sequencing data based on weighted VAM scoring of cell-type specific gene sets. Schiebout, Frost (2022) . Package: r-cran-campaignmanager Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-curl Filename: pool/dists/focal/main/r-cran-campaignmanager_0.1.0-1.ca2004.1_all.deb Size: 22168 MD5sum: 8ef0306028a12f88e5feae8c52a9715e SHA1: 73fa6a64867d0fe47302c6f810b561b56aa084da SHA256: 6d14488fe5f3735f3b658e497fffb433b4818798283f05d679f8dee4923aa4d2 SHA512: f578ba2bb53743f1ee46104414bfeb8e02c5a391b1d4db049f8d23164c5aaa1665af5399da5247a4051db78d880c0eaea64ea313f4e895668ecb1a56413109a9 Homepage: https://cran.r-project.org/package=campaignmanageR Description: CRAN Package 'campaignmanageR' (Connect to Campaign Manager via the 'Windsor.ai' API) Collect marketing data from Campaign Manager using the 'Windsor.ai' API . Package: r-cran-campfin Architecture: all Version: 1.0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 875 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-fs, r-cran-ggplot2, r-cran-glue, r-cran-httr, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-scales, r-cran-stringdist, r-cran-stringr, r-cran-tibble Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-usethis Filename: pool/dists/focal/main/r-cran-campfin_1.0.11-1.ca2004.1_all.deb Size: 714212 MD5sum: 308dc5c2a3d34c9db373d92db775430c SHA1: c1174ecf0ef0cc66811a799471eeea9cb2f8e8d9 SHA256: 1dd08a9ae88f776c3d47aa8602eadd6240443762b6b8f50f8fcad66a09dd8e24 SHA512: 731cfdc1eec1eb7d82d2e258572f6d72f9d891bd890148bf955ddb606cd795c8fbd4fdefd10012a720efc649d41ff20f691361a8dfd14cdab351a2e42a3d4c50 Homepage: https://cran.r-project.org/package=campfin Description: CRAN Package 'campfin' (Wrangle Campaign Finance Data) Explore and normalize American campaign finance data. Created by the Investigative Reporting Workshop to facilitate work on The Accountability Project, an effort to collect public data into a central, standard database that is more easily searched: . Package: r-cran-campsis Architecture: all Version: 1.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1350 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-campsismod, r-cran-assertthat, r-cran-digest, r-cran-dplyr, r-cran-furrr, r-cran-future, r-cran-ggplot2, r-cran-mass, r-cran-progressr, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-bookdown, r-cran-devtools, r-cran-gridextra, r-cran-knitr, r-cran-mrgsolve, r-cran-pkgdown, r-cran-rmarkdown, r-cran-roxygen2, r-cran-rxode2, r-cran-stringr, r-cran-testthat, r-cran-tictoc, r-cran-vdiffr, r-cran-xfun Filename: pool/dists/focal/main/r-cran-campsis_1.7.0-1.ca2004.1_all.deb Size: 921744 MD5sum: 7d3ec3af55d5380183638d8e38c5a96b SHA1: 079727e2f34ca603801c7fb5f1938d491f254092 SHA256: 096606a9c8f38e3b84e1db816b9056fcbe958a18352f63e839c7378ca3856115 SHA512: 6611e75689dfe1575c99cdefc3b112e50a7752d9bee9af5f69d7738c28c8abfb4eb6111273a412e9af349a7f89b18b9f80db39780c8730a2b10776af2075e387 Homepage: https://cran.r-project.org/package=campsis Description: CRAN Package 'campsis' (Generic PK/PD Simulation Platform CAMPSIS) A generic, easy-to-use and intuitive pharmacokinetic/pharmacodynamic (PK/PD) simulation platform based on R packages 'rxode2' and 'mrgsolve'. CAMPSIS provides an abstraction layer over the underlying processes of writing a PK/PD model, assembling a custom dataset and running a simulation. CAMPSIS has a strong dependency to the R package 'campsismod', which allows to read/write a model from/to files and adapt it further on the fly in the R environment. Package 'campsis' allows the user to assemble a dataset in an intuitive manner. Once the user’s dataset is ready, the package is in charge of preparing the simulation, calling 'rxode2' or 'mrgsolve' (at the user's choice) and returning the results, for the given model, dataset and desired simulation settings. Package: r-cran-campsismod Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1543 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-dplyr, r-cran-ggplot2, r-cran-laplacesdemon, r-cran-magrittr, r-cran-mass, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-devtools, r-cran-knitr, r-cran-pkgdown, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat, r-cran-xfun Filename: pool/dists/focal/main/r-cran-campsismod_1.2.2-1.ca2004.1_all.deb Size: 1016392 MD5sum: f06f3aeb660a7399d4264748ecd29c62 SHA1: 0da859ebd9cb4f2dd293cb569050f03a7c947db7 SHA256: db2794a1feaef255381698481fa2e1f709d6917571b454034f13b4f6ac307f1e SHA512: bee63b1043545468460cfde05cb0b8a8c1f75ab1c9d27782ddeb15bed7fa1dc26124fedd78e13b5f2bca663dae63b97e6c21746f3b0c5bb5f1b43b66138f3d7a Homepage: https://cran.r-project.org/package=campsismod Description: CRAN Package 'campsismod' (Generic Implementation of a PK/PD Model) A generic, easy-to-use and expandable implementation of a pharmacokinetic (PK) / pharmacodynamic (PD) model based on the S4 class system. This package allows the user to read/write a pharmacometric model from/to files and adapt it further on the fly in the R environment. For this purpose, this package provides an intuitive API to add, modify or delete equations, ordinary differential equations (ODE's), model parameters or compartment properties (like infusion duration or rate, bioavailability and initial values). Finally, this package also provides a useful export of the model for use with simulation packages 'rxode2' and 'mrgsolve'. This package is designed and intended to be used with package 'campsis', a PK/PD simulation platform built on top of 'rxode2' and 'mrgsolve'. Package: r-cran-camsrad Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-xml2 Suggests: r-cran-ncdf4, r-cran-roxygen2, r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-camsrad_0.3.0-1.ca2004.1_all.deb Size: 31872 MD5sum: bf86bd741222ba6217b8d7434edabebe SHA1: 980372689ef821cddc08807e49a25a4f30516188 SHA256: b82527f9a1cfda62ec38a2fd16f69ec7450e7436b5d21dc5498bca4343da0144 SHA512: 8747093b33cb486e038435c0c96c25fca302808344b37a94bb1be4d266c682f57e16237934ce3ae4c2327a2921339e00404c34473b48c414fe9c901956dd0ade Homepage: https://cran.r-project.org/package=camsRad Description: CRAN Package 'camsRad' (Client for CAMS Radiation Service) Copernicus Atmosphere Monitoring Service (CAMS) radiations service provides time series of global, direct, and diffuse irradiations on horizontal surface, and direct irradiation on normal plane for the actual weather conditions as well as for clear-sky conditions. The geographical coverage is the field-of-view of the Meteosat satellite, roughly speaking Europe, Africa, Atlantic Ocean, Middle East. The time coverage of data is from 2004-02-01 up to 2 days ago. Data are available with a time step ranging from 15 min to 1 month. For license terms and to create an account, please see . Package: r-cran-camst Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 252 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-catr, r-cran-mstr, r-cran-diagram Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-camst_0.1.6-1.ca2004.1_all.deb Size: 199968 MD5sum: a085aa4763b02f810d1656eb9db38307 SHA1: 4b677faf4725a1fc3d89be64938310978aab464c SHA256: af7e8a34e9990641b36e44f346718450466093f7b61b074b0a79e675d28011f3 SHA512: be12f53ad994df69885d2464e28db93b0b3e2fc42cb0fb08dcf662b2677ed737f978043eadfc8ac56d9b78d64955570db245814bd6c0da44bc48665b500c901b Homepage: https://cran.r-project.org/package=caMST Description: CRAN Package 'caMST' (Mixed Computerized Adaptive Multistage Testing) Provides functions to more easily analyze computerized adaptive tests. Currently, functions for computerized adaptive tests (CAT), computer adaptive multistage tests (CMT), and mixed computer adaptive multistage tests (McaMST) utilizing CAT item-level adaptation for the initial stage and traditional MST module-level adaptation for the subsequent stages have been created, and a variation of Hybrid computer adaptive MST is planned as well. For an in-depth look at CAT and MST, see Weiss & Kingsbury (1984) and Luecht & Nungester (2000) respectively. Package: r-cran-camtrapdp Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 234 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-eml, r-cran-frictionless, r-cran-memoise, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-stringr, r-cran-uuid Suggests: r-cran-jsonlite, r-cran-lubridate, r-cran-testthat, r-cran-tibble, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-camtrapdp_0.4.0-1.ca2004.1_all.deb Size: 198416 MD5sum: 60e0650795b465287095d1a66f0587f9 SHA1: 45727baefa58f79f34f39e412c9cbc6e225a49a1 SHA256: d0152dd5cceb7b0e6bc71dee3d9f45207b95d658d1f58315e4c953c9fb3412e4 SHA512: 55bb9d3d1793b12bca1200899cdfc09cdd20a75f586ff7d745f9491431dd74501bf755cc88d9f6fa36ee531a18295f33435d75a1e0ee3c74b6dbfae9e4fcdc69 Homepage: https://cran.r-project.org/package=camtrapdp Description: CRAN Package 'camtrapdp' (Read and Manipulate Camera Trap Data Packages) Read and manipulate Camera Trap Data Packages ('Camtrap DP'). 'Camtrap DP' () is a data exchange format for camera trap data. With 'camtrapdp' you can read, filter and transform data (including to Darwin Core) before further analysis in e.g. 'camtraptor' or 'camtrapR'. Package: r-cran-camtrapr Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7149 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-generics, r-cran-ggplot2, r-cran-lubridate, r-cran-secr, r-cran-sf Suggests: r-cran-abind, r-cran-coda, r-cran-dt, r-cran-knitr, r-cran-lattice, r-cran-leaflet, r-cran-magick, r-cran-mapview, r-cran-nimble, r-cran-nimbleecology, r-cran-overlap, r-cran-plotly, r-cran-reshape2, r-cran-rjags, r-cran-r.rsp, r-cran-rsqlite, r-cran-ritis, r-cran-rmarkdown, r-cran-shiny, r-cran-shinydashboard, r-cran-tesseract, r-cran-taxize, r-cran-terra, r-cran-testthat, r-cran-tibble, r-cran-units, r-cran-unmarked, r-cran-zip Filename: pool/dists/focal/main/r-cran-camtrapr_2.3.0-1.ca2004.1_all.deb Size: 3784800 MD5sum: ed1b7e1022ebf52fcf8e85d1d02291f1 SHA1: cf133a4e1c8ab7c8244cc7490fb6939a2d9e126d SHA256: ec39714167e41ea7b73f41b41e015336d8647f569fc229be434a7fc02eb4fbe1 SHA512: 7fb849689967ad3819c5a35190a3916e6f0f0e5645ea64de14ec769980228aa3ebe37e463a711b121c735faf67d0925869b26cbdb60c5fc749b477cc40c5e492 Homepage: https://cran.r-project.org/package=camtrapR Description: CRAN Package 'camtrapR' (Camera Trap Data Management and Preparation of Occupancy andSpatial Capture-Recapture Analyses) Management of and data extraction from camera trap data in wildlife studies. The package provides a workflow for storing and sorting camera trap photos (and videos), tabulates records of species and individuals, and creates detection/non-detection matrices for occupancy and spatial capture-recapture analyses with great flexibility. In addition, it can visualise species activity data and provides simple mapping functions with GIS export. Package: r-cran-canadacovid Architecture: all Version: 0.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite, r-cran-httr, r-cran-magrittr, r-cran-dplyr, r-cran-tidyselect, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-purrr, r-cran-tidyr, r-cran-lubridate Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-canadacovid_0.3.4-1.ca2004.1_all.deb Size: 62960 MD5sum: 53956bf54e95649b1c801c008e4ece07 SHA1: 56c6c14c141dc612c778ffc2d233f75872e9854d SHA256: a957be3f0b312679d64e7b6de376fbfc41937eb1acd81740651c665d146f0048 SHA512: 460ed57ba2e9367abea6654babf2d638a4e9e64fe158db5f0367f0ca19b5d03bcc6ea3b448ac9c25908ddbf0a8a41ca22c0bdbd1c06936a50473671b690739fd Homepage: https://cran.r-project.org/package=canadacovid Description: CRAN Package 'canadacovid' (API Wrapper for the Canadian COVID-19 Tracker) Provides R functions to GET data from the Canadian COVID-19 tracker API . Package: r-cran-canadamaps Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4039 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sf, r-cran-rmapshaper, r-cran-dplyr, r-cran-magrittr, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-canadamaps_0.1-1.ca2004.1_all.deb Size: 4096060 MD5sum: a8290870cf66a96d846798e9b875ec0f SHA1: 704aa4a1115b790450b14b1d95bdc93de889dac5 SHA256: 228e93321cf31fc65a5ecd74b79e3046e6c6dbe44641042966520838e3b8346b SHA512: 47324b6d063e09385e3cf429218209e3e364ed957347a494b3fa4e61b3dd575838a3ba2b65609d401f3bfd10ceb360ddd3f5271f8876c4077ce8c7ae35ce5451 Homepage: https://cran.r-project.org/package=canadamaps Description: CRAN Package 'canadamaps' (Maps of the Political and Administrative Divisions of Canada) Terrestrial maps with simplified topologies for Census Divisions, Agricultural Regions, Economic Regions, Federal Electoral Divisions and Provinces. Package: r-cran-canadianmaps Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4119 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-sp, r-cran-sf, r-cran-ggrepel, r-cran-rcolorbrewer, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-canadianmaps_2.0.0-1.ca2004.1_all.deb Size: 4179432 MD5sum: 2d57c54eb848d1aa5dd1cabc82981664 SHA1: a9b40dd79cab6bdf6369ff460123782e6ecca478 SHA256: 5a21d51321374eb1a880614ea745de2c2593da2438611ad3c434ecb356bc3931 SHA512: 077388e8cfefde68592061d40b161073433a736087cf9867c8bd031af4164d69acb7a2adf6255dc530bd889eb88453e10dca642c65582dc895a6433610a296c5 Homepage: https://cran.r-project.org/package=canadianmaps Description: CRAN Package 'canadianmaps' (Effortlessly Create Stunning Canadian Maps) Simple and seamless access to a variety of 'StatCan' shapefiles for mapping Canadian provinces, regions, forward sortation areas, census divisions, and subdivisions using the popular 'ggplot2' package. Package: r-cran-canaper Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 813 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ape, r-cran-assertr, r-cran-assertthat, r-cran-dplyr, r-cran-future.apply, r-cran-phyloregion, r-cran-progressr, r-cran-purrr, r-cran-tibble, r-cran-vegan Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-future, r-cran-tictoc, r-cran-patchwork, r-cran-testthat, r-cran-stringr, r-cran-magrittr, r-cran-covr, r-cran-picante, r-cran-withr, r-cran-fs, r-cran-readr, r-cran-usethis, r-cran-scales, r-cran-colorblindness Filename: pool/dists/focal/main/r-cran-canaper_1.0.1-1.ca2004.1_all.deb Size: 533044 MD5sum: 94579e6ac0c6d9dade57a50db5fc243d SHA1: 3dbfe3c0eb150ed95bba589ecb07b9b913d34160 SHA256: 7dfb55f11b710dcf47f2e178d1412c4ea2479692050c25aab71c724871908448 SHA512: f1eefbaffde225c7a4a49ad8c763fcb1bfd0ee2c4ec50a913b117e11e1e5ffc6ee0f62d8a1cfbe67eeed07e3fd8e31dc7ef72924707ce44efd41f742fbffb419 Homepage: https://cran.r-project.org/package=canaper Description: CRAN Package 'canaper' (Categorical Analysis of Neo- And Paleo-Endemism) Provides functions to analyze the spatial distribution of biodiversity, in particular categorical analysis of neo- and paleo-endemism (CANAPE) as described in Mishler et al (2014) . 'canaper' conducts statistical tests to determine the types of endemism that occur in a study area while accounting for the evolutionary relationships of species. Package: r-cran-cancensus Architecture: all Version: 0.5.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2040 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-digest, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-rlang Suggests: r-cran-knitr, r-cran-ggplot2, r-cran-leaflet, r-cran-mapdeck, r-cran-rmarkdown, r-cran-readr, r-cran-scales, r-cran-sp, r-cran-sf, r-cran-geojsonsf, r-cran-tidyr, r-cran-lwgeom, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-cancensus_0.5.7-1.ca2004.1_all.deb Size: 989256 MD5sum: 586c31b5baefc031b6b71814043769e7 SHA1: 8438b895ef195b6bc9cde0ab11210eb8009904af SHA256: 3bf9d83e86ff204b6745e7be62623aed1e347b2a6b8aa01a499349db685394d3 SHA512: d549466e3174210ba342467af4edb760a195fa94a64688b4dbe3e54f7f27fa09b56cc99cff70b7529208232f1cda48ceb70c3f133328e051e5a2b179e470518e Homepage: https://cran.r-project.org/package=cancensus Description: CRAN Package 'cancensus' (Access, Retrieve, and Work with Canadian Census Data andGeography) Integrated, convenient, and uniform access to Canadian Census data and geography retrieved using the 'CensusMapper' API. This package produces analysis-ready tidy data frames and spatial data in multiple formats, as well as convenience functions for working with Census variables, variable hierarchies, and region selection. API keys are freely available with free registration at . Census data and boundary geometries are reproduced and distributed on an "as is" basis with the permission of Statistics Canada (Statistics Canada 2001; 2006; 2011; 2016; 2021). Package: r-cran-cancerevolutionvisualization Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 384 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-gridextra, r-cran-gtable, r-cran-plyr, r-cran-stringr, r-cran-boutroslab.plotting.general Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-cancerevolutionvisualization_2.0.1-1.ca2004.1_all.deb Size: 268896 MD5sum: a6055720d1fafcf2c85513d8f5a8b20a SHA1: 4b1ef32e57b70fcd91d6d382bef3c47ab1328533 SHA256: 4f425ba2109ea9ea8b4e237b9491a20388a49c0a1937941f3b3d00d1f999f62e SHA512: 61de997e67ec466180a761352b142cfa46195630bd6ccc85cdf3489888564997e989381d713400fbac94f3a19516595a313272fcfe7e041dc662c14cab691f05 Homepage: https://cran.r-project.org/package=CancerEvolutionVisualization Description: CRAN Package 'CancerEvolutionVisualization' (Publication Quality Phylogenetic Tree Plots) Generates tree plots with precise branch lengths, gene annotations, and cellular prevalence. The package handles complex tree structures (angles, lengths, etc.) and can be further refined as needed by the user. Package: r-cran-cancergi Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 753 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-systemfit, r-bioc-qvalue, r-cran-survival, r-cran-reshape2, r-cran-igraph Filename: pool/dists/focal/main/r-cran-cancergi_1.0.1-1.ca2004.1_all.deb Size: 730280 MD5sum: 19d9493b9893325ef9d003c362336289 SHA1: 477498a32a81ae83fcadc7e05088b4ed20d25239 SHA256: 58e1cafc90c2f97a08e15f494412289e6c1834851ec361fa4380b806193bcb35 SHA512: 2fd2091b46b16507cf28e8886f88610dc9a4ef45f46a17f08d4afa30201ef9c78619e5d69521429cc587993ce2a660353e5c6a39113a81db21bf3feb0e639dd0 Homepage: https://cran.r-project.org/package=cancerGI Description: CRAN Package 'cancerGI' (Analyses of Cancer Gene Interaction) Functions to perform the following analyses: i) inferring epistasis from RNAi double knockdown data; ii) identifying gene pairs of multiple mutation patterns; iii) assessing association between gene pairs and survival; and iv) calculating the smallworldness of a graph (e.g., a gene interaction network). Data and analyses are described in Wang, X., Fu, A. Q., McNerney, M. and White, K. P. (2014). Widespread genetic epistasis among breast cancer genes. Nature Communications. 5 4828. . Package: r-cran-cancergram Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 262 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biogram, r-cran-devtools, r-cran-pbapply, r-cran-ranger, r-cran-shiny, r-cran-stringi, r-cran-dplyr Suggests: r-cran-dt, r-cran-ggplot2, r-cran-pander, r-cran-rmarkdown, r-cran-shinythemes, r-cran-spelling Filename: pool/dists/focal/main/r-cran-cancergram_1.0.0-1.ca2004.1_all.deb Size: 213452 MD5sum: d56542d0e3f21c079c49d151cc6aa14a SHA1: 4a86597fd4b55f830bbab5cece7141e2e0a23ac9 SHA256: 25f1cc93e1687d37fcb7bb08cda54e3debbf65eb578732cfb3f26c52b113debe SHA512: d49443c9196f4bb0b529be800437b3700882543a3011da99a6ac25507b2a96f7f958c0740e6e87c7037dd3523877caa2b108c44d0718f020e478aa139c1cb9fc Homepage: https://cran.r-project.org/package=CancerGram Description: CRAN Package 'CancerGram' (Prediction of Anticancer Peptides) Predicts anticancer peptides using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI. The CancerGram model is too large for CRAN and it has to be downloaded separately from the repository: . For more information see: Burdukiewicz et al. (2020) . Package: r-cran-cancerr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 373 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cancerr_0.1.0-1.ca2004.1_all.deb Size: 266456 MD5sum: 2e20d4acd5195d4c2027eab47d71c728 SHA1: 41c73f77416f3da894c927aab596f99fcb8fe3b5 SHA256: f3fc80ace9a8c50caf78a3d98a1cd0dc607c23e97fb9cd5124f17ae60d88057d SHA512: 03f552cebee43952d0a062f102db11e15518c0175681bfff29c26a57bb8890c9912d2be28eb9f5eb4b5d12f78347af5b27c49d75bcb7c96cae42121b5a614718 Homepage: https://cran.r-project.org/package=cancerR Description: CRAN Package 'cancerR' (Classification of Cancer Using Administrative Data) Classifies the type of cancer using routinely collected data commonly found in cancer registries from pathology reports. The package implements the International Classification of Diseases for Oncology, 3rd Edition site (topography), histology (morphology), and behaviour codes of neoplasms to classify cancer type . Classification in children utilize the International Classification of Childhood Cancer by Steliarova-Foucher et al. (2005) . Adolescent and young adult cancer classification is based on Barr et al. (2020) . Package: r-cran-cancerscreening Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 370 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-khisr, r-cran-lubridate, r-cran-magrittr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-withr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cancerscreening_1.1.1-1.ca2004.1_all.deb Size: 288420 MD5sum: 1a8ac431fee37e763e57d955d94e8c36 SHA1: 5b2b4920c3155e8ea16a2074165979330943d95f SHA256: bdadda1d9160872fdedf153689d0a5368cfda44b06acd0ff385636039671914d SHA512: b72cdc9155b97d71617189c4aaa3773db1f9074a5a382275acd73fee24430cdc53126bf8e832a3df32a48961b40bad7e87f8084e0e97b62bbc32744a0abc1149 Homepage: https://cran.r-project.org/package=cancerscreening Description: CRAN Package 'cancerscreening' (Streamline Access to Cancer Screening Data) Retrieve cancer screening data for cervical, breast and colorectal cancers from the Kenya Health Information System in a consistent way. Package: r-cran-cancertiming Architecture: all Version: 3.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-learnbayes, r-cran-gplots Suggests: r-bioc-genomicranges, r-bioc-iranges, r-bioc-s4vectors Filename: pool/dists/focal/main/r-cran-cancertiming_3.1.8-1.ca2004.1_all.deb Size: 190964 MD5sum: ed9c3dbd2dc98b27a994fadde8f69d2d SHA1: e579cbcb16e71a9621f9364189f53361573d6fbb SHA256: 9372ee8b26d62a4a45b4ecabc67cd88d21645ff91fa8ebea18ac4c08a5c59365 SHA512: 9925f5a030f633d3800704260f517a3a4923a0aa99165871e636d4c1d572fb5ad403725dc621192cd8a6dbe4b83197c9444e66654090028650746e936f9bdb7f Homepage: https://cran.r-project.org/package=cancerTiming Description: CRAN Package 'cancerTiming' (Estimation of Temporal Ordering of Cancer Abnormalities) Timing copy number changes using estimates of mutational allele frequency from resequencing of tumor samples. Package: r-cran-candisc Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 569 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-heplots, r-cran-car Suggests: r-cran-rgl, r-cran-cardata, r-cran-corrplot, r-cran-knitr, r-cran-rmarkdown, r-cran-mass, r-cran-rpart, r-cran-rpart.plot Filename: pool/dists/focal/main/r-cran-candisc_0.9.0-1.ca2004.1_all.deb Size: 410156 MD5sum: adfb1cb74881622a5eaede7fa4b7fe4f SHA1: 2dc051003153ae84286c8284c8b0c2858e8e1a15 SHA256: 15820f805f0650d8873e2277a519b3b9a6092cfeebb7b3aef7a1b7f01face645 SHA512: 8c4409a9c3837aa8a903bba1e706e8678343a5a2070cc322abc1492fd537b9a7163fdb1de84b72dc9800da2f359d3bc368e38717ada204b0c40db0c2f33522e7 Homepage: https://cran.r-project.org/package=candisc Description: CRAN Package 'candisc' (Visualizing Generalized Canonical Discriminant and CanonicalCorrelation Analysis) Functions for computing and visualizing generalized canonical discriminant analyses and canonical correlation analysis for a multivariate linear model. Traditional canonical discriminant analysis is restricted to a one-way 'MANOVA' design and is equivalent to canonical correlation analysis between a set of quantitative response variables and a set of dummy variables coded from the factor variable. The 'candisc' package generalizes this to higher-way 'MANOVA' designs for all factors in a multivariate linear model, computing canonical scores and vectors for each term. The graphic functions provide low-rank (1D, 2D, 3D) visualizations of terms in an 'mlm' via the 'plot.candisc' and 'heplot.candisc' methods. Related plots are now provided for canonical correlation analysis when all predictors are quantitative. Package: r-cran-cane Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-agricolae, r-cran-dplyr, r-cran-emmeans Filename: pool/dists/focal/main/r-cran-cane_0.1.1-1.ca2004.1_all.deb Size: 48472 MD5sum: 2f8502fe912cd2651eaab526bc05e651 SHA1: 2e05b0bec9bd876b4ed75178f3c447b49736c88b SHA256: c1e1a5c8bb8d109b72af6d0382e36daa8185f61b6f22f51f5bb8508f18c97ae2 SHA512: af8801be31382e7a9e465634c5b0e78ee11bf77caa4aa3a158c51b1434b33a6447f99188b33cdd071a463859278b563b817e69517ecafec01877f5fb31bbd3a9 Homepage: https://cran.r-project.org/package=CANE Description: CRAN Package 'CANE' (Comprehensive Groups of Experiments Analysis for NumerousEnvironments) In many cases, experiments must be repeated across multiple seasons or locations to ensure applicability of findings. A single experiment conducted in one location and season may yield limited conclusions, as results can vary under different environmental conditions. In agricultural research, treatment × location and treatment × season interactions play a crucial role. Analyzing a series of experiments across diverse conditions allows for more generalized and reliable recommendations. The 'CANE' package facilitates the pooled analysis of experiments conducted over multiple years, seasons, or locations. It is designed to assess treatment interactions with environmental factors (such as location and season) using various experimental designs. The package supports pooled analysis of variance (ANOVA) for the following designs: (1) 'PooledCRD()': completely randomized design; (2) 'PooledRBD()': randomized block design; (3) 'PooledLSD()': Latin square design; (4) 'PooledSPD()': split plot design; and (5) 'PooledStPD()': strip plot design. Each function provides the following outputs: (i) Individual ANOVA tables based on independent analysis for each location or year; (ii) Testing of homogeneity of error variances among distinct locations using Bartlett’s Chi-Square test; (iii) If Bartlett’s test is significant, 'Aitken’s' transformation, defined as the ratio of the response to the square root of the error mean square, is applied to the response variable; otherwise, the data is used as is; (iv) Combined analysis to obtain a pooled ANOVA table; (v) Multiple comparison tests, including Tukey's honestly significant difference (Tukey's HSD) test, Duncan’s multiple range test (DMRT), and the least significant difference (LSD) test, for treatment comparisons. The statistical theory and steps of analysis of these designs are available in Dean et al. (2017) and Ruíz et al. (2024). By broadening the scope of experimental conclusions, 'CANE' enables researchers to derive robust, widely applicable recommendations. This package is particularly valuable in agricultural research, where accounting for treatment × location and treatment × season interactions is essential for ensuring the validity of findings across multiple settings. Package: r-cran-canek Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3196 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fnn, r-cran-irlba, r-cran-numbers, r-cran-fpc, r-bioc-bluster, r-cran-igraph, r-cran-matrixstats Suggests: r-cran-testthat, r-cran-seurat, r-bioc-singlecellexperiment, r-bioc-summarizedexperiment, r-bioc-scater, r-bioc-batchelor, r-bioc-scran, r-cran-knitr, r-cran-rmarkdown, r-cran-patchwork, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-canek_0.2.5-1.ca2004.1_all.deb Size: 3145136 MD5sum: 3d957ef8a3dda2c28631df21d66dde3c SHA1: 6361ba2173cad557ae204385c95ceba3b544e93f SHA256: 48749d3be6634de34293534b739b13adc800f98b91191caeb37c9acca71ff081 SHA512: 569dc41c158ccbd400188cddedcca97c000ec591f3c32a68b57a589da45d9bfa1258577f60c655c4c91225c833ebf6fcfa3ed8efaea056487d7b1f7b4124dbf8 Homepage: https://cran.r-project.org/package=Canek Description: CRAN Package 'Canek' (Batch Correction of Single Cell Transcriptome Data) Non-linear/linear hybrid method for batch-effect correction that uses Mutual Nearest Neighbors (MNNs) to identify similar cells between datasets. Reference: Loza M. et al. (NAR Genomics and Bioinformatics, 2020) . Package: r-cran-canopy Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1040 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-fields, r-cran-pheatmap, r-cran-scatterplot3d Filename: pool/dists/focal/main/r-cran-canopy_1.3.0-1.ca2004.1_all.deb Size: 966980 MD5sum: 49514b9a1321c095341a59fad98aca45 SHA1: 064502afb5b260143071be8a04a37dfb54f4e23f SHA256: 4070e6e4dfd1bfe9744dd703e514240c0ce35078e59cdb4c829092299131c8ae SHA512: ed26f9f4d72728eedd3094eae9cd8ffb0fea5e1de51514883d1174bf8f12f7491c7e3a54603275b891d14ca0f04663204b41b052324081717ac44f57347f06fa Homepage: https://cran.r-project.org/package=Canopy Description: CRAN Package 'Canopy' (Accessing Intra-Tumor Heterogeneity and Tracking Longitudinaland Spatial Clonal Evolutionary History by Next-GenerationSequencing) A statistical framework and computational procedure for identifying the sub-populations within a tumor, determining the mutation profiles of each subpopulation, and inferring the tumor's phylogenetic history. The input are variant allele frequencies (VAFs) of somatic single nucleotide alterations (SNAs) along with allele-specific coverage ratios between the tumor and matched normal sample for somatic copy number alterations (CNAs). These quantities can be directly taken from the output of existing software. Canopy provides a general mathematical framework for pooling data across samples and sites to infer the underlying parameters. For SNAs that fall within CNA regions, Canopy infers their temporal ordering and resolves their phase. When there are multiple evolutionary configurations consistent with the data, Canopy outputs all configurations along with their confidence assessment. Package: r-cran-canprot Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1682 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stringi, r-cran-multcompview Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest, r-cran-chnosz Filename: pool/dists/focal/main/r-cran-canprot_2.0.0-1.ca2004.1_all.deb Size: 1044480 MD5sum: 394c3aee0a3ebfbdea06c380ca2a63df SHA1: ad1ce588a8baa04a9702e66b0d012128be3ac51b SHA256: 9ec7ecadd1106757a22c1423bff3df3327de1c2603883ea028d6a7458da66479 SHA512: 5f1bca1075e7a23882c3d430326e636d4139a2fed72128a15f8eaf2faa45a6f76477368b8d5a5e5b51a615c5eb2f2d9c0b6fd6ca29b1f25d195ad3a9c9438d2e Homepage: https://cran.r-project.org/package=canprot Description: CRAN Package 'canprot' (Chemical Analysis of Proteins) Chemical analysis of proteins based on their amino acid compositions. Amino acid compositions can be read from FASTA files and used to calculate chemical metrics including carbon oxidation state and stoichiometric hydration state, as described in Dick et al. (2020) . Other properties that can be calculated include protein length, grand average of hydropathy (GRAVY), isoelectric point (pI), molecular weight (MW), standard molal volume (V0), and metabolic costs (Akashi and Gojobori, 2002 ; Wagner, 2005 ; Zhang et al., 2018 ). A database of amino acid compositions of human proteins derived from UniProt is provided. Package: r-cran-cansim2r Architecture: all Version: 1.14.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-hmisc, r-cran-downloader Filename: pool/dists/focal/main/r-cran-cansim2r_1.14.1-1.ca2004.1_all.deb Size: 27264 MD5sum: d4ce16ff053796adc8b3811e3939b51d SHA1: 886da19bc80c34f87d853ac69111cacea4a87b06 SHA256: 9fb1755de4bdf382adff14805670d973ce371bf9b69eaf45a299297901542471 SHA512: 10885d9d6e04206c47e0be020def07023da03d86c319e13f7fe410706510c27a9b7f0a4839340ad649c220a9cd27ff39080dcff9df3b7c01e371ddaa11af9659 Homepage: https://cran.r-project.org/package=CANSIM2R Description: CRAN Package 'CANSIM2R' (Directly Extracts Complete CANSIM Data Tables) Extract CANSIM (Statistics Canada) tables and transform them into readily usable data in panel (wide) format. It can also extract more than one table at a time and produce the resulting merge by time period and geographical region. 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This package enriches the tables with metadata, deals with encoding issues, allows for bilingual English or French language data retrieval, and bundles convenience functions to make it easier to work with retrieved table data. For more efficient data access the package allows for caching data in a local database and database level filtering, data manipulation and summarizing. Package: r-cran-canvasxpress.data Architecture: all Version: 1.34.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4297 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-tibble, r-cran-tidyr, r-cran-usethis Filename: pool/dists/focal/main/r-cran-canvasxpress.data_1.34.2-1.ca2004.1_all.deb Size: 4240040 MD5sum: cf102bf09317cdacfcab6e54a9c85cd3 SHA1: 1dbd08f8a4a9346bcc642fe179de4ab5aa377e25 SHA256: 6790418a64225a6edf5510683d0d8318dfe6a0ce1b6b01161d29016c4a735e61 SHA512: e85546281bca4ee7aaef764affa3d1d7d8bd79693641d44c13c74a6db2232e4b6093bc243a2d19a599762a23272db10702df4ecf591fb9d25f29a15b31ded99c Homepage: https://cran.r-project.org/package=canvasXpress.data Description: CRAN Package 'canvasXpress.data' (Datasets for the 'canvasXpress' Package) Contains the prepared data that is needed for the 'shiny' application examples in the 'canvasXpress' package. This package also includes datasets used for automated 'testthat' tests. Scotto L, Narayan G, Nandula SV, Arias-Pulido H et al. (2008) . Davis S, Meltzer PS (2007) . 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CanvasXpress is a standalone JavaScript library for reproducible research with complete tracking of data and end-user modifications stored in a single PNG image that can be played back. See for more information. Package: r-cran-caop.raa.2024 Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7436 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-tibble, r-cran-dplyr, r-cran-readr, r-cran-stringi, r-cran-glue Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-caop.raa.2024_0.0.5-1.ca2004.1_all.deb Size: 6533764 MD5sum: 85ce73fc3bb9488dbbd5597a37b597cf SHA1: 8591f3990fd9b1cc9b828e04141bd032510b04cc SHA256: e1bd1f2ea58f36124e5f882c4d968b3d28db57eb4f50abdc45ddd886e874d5ec SHA512: 08dd630a99614577fe3905ff9d740ba27e379c9a46ae096bc967356edfb3c615b5e383e7533443cd6cda9e823d96e6fa279cc250bbaf25ca5dd795e581c886b5 Homepage: https://cran.r-project.org/package=CAOP.RAA.2024 Description: CRAN Package 'CAOP.RAA.2024' (Official Administrative Map of the Azores (CAOP 2024)) Provides the official administrative boundaries of the Azores (Região Autónoma dos Açores (RAA)) as defined in the 2024 edition of the Carta Administrativa Oficial de Portugal (CAOP), published by the Direção-Geral do Território (DGT). The package includes convenience functions to import these boundaries as 'sf' objects for spatial analysis in R. Source: . Package: r-cran-cap Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 261 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-multigroup Filename: pool/dists/focal/main/r-cran-cap_1.0-1.ca2004.1_all.deb Size: 235004 MD5sum: d4c4066ce4cdca5663987f8a204bf782 SHA1: f63620bf26ce92484d06f4c6ea0c06b12dd295cf SHA256: 3085b8f7c6aba267c8e35f9d6b1baa7e125d1cdea542b3873951d3b81d5e859d SHA512: 421905ef7b09e61abbcb88055b291dc190e8ebb314b98e4d7b93e2b461852ccabf1eba700ce3ebf6297df4655e1bef2411d3fdea143d5fd8437856f3abea2102 Homepage: https://cran.r-project.org/package=cap Description: CRAN Package 'cap' (Covariate Assisted Principal (CAP) Regression for CovarianceMatrix Outcomes) Performs Covariate Assisted Principal (CAP) Regression for covariance matrix outcomes. The method identifies the optimal projection direction which maximizes the log-likelihood function of the log-linear heteroscedastic regression model in the projection space. See Zhao et al. (2018), Covariate Assisted Principal Regression for Covariance Matrix Outcomes, for details. Package: r-cran-cape Architecture: all Version: 3.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2886 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-abind, r-cran-catools, r-cran-corpcor, r-cran-doparallel, r-cran-evd, r-cran-foreach, r-cran-here, r-cran-igraph, r-cran-matrix, r-cran-pheatmap, r-cran-pracma, r-cran-propagate, r-cran-qtl, r-cran-qtl2, r-cran-qtl2convert, r-cran-r6, r-cran-rcolorbrewer, r-cran-regress, r-cran-shape, r-cran-yaml Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cape_3.1.2-1.ca2004.1_all.deb Size: 1745892 MD5sum: e1a4c7cb8e88e1a9b60d1e88c2c2424d SHA1: 47b8a2946d00df6be22a5ece11eca03d85e03118 SHA256: 74dce47f7f38c08dc7eb6fb2005ab7a2e6b7ae48779643b5499daec008c6da6a SHA512: b109939dfb2370c8d70f2661a7ef56c790aa1af14f142aa406d58aa0f241d0d30fefac0931fc0e7e65deb811eb88dca9e8ef0f8ed82c4ad5e9499184e8ca24eb Homepage: https://cran.r-project.org/package=cape Description: CRAN Package 'cape' (Combined Analysis of Pleiotropy and Epistasis for DiversityOutbred Mice) Combined Analysis of Pleiotropy and Epistasis infers predictive networks between genetic variants and phenotypes. It can be used with standard two-parent populations as well as multi-parent populations, such as the Diversity Outbred (DO) mice, Collaborative Cross (CC) mice, or the multi-parent advanced generation intercross (MAGIC) population of Arabidopsis thaliana. It uses complementary information of pleiotropic gene variants across different phenotypes to resolve models of epistatic interactions between alleles. To do this, cape reparametrizes main effect and interaction coefficients from pairwise variant regressions into directed influence parameters. These parameters describe how alleles influence each other, in terms of suppression and enhancement, as well as how gene variants influence phenotypes. All of the final interactions are reported as directed interactions between pairs of parental alleles. For detailed descriptions of the methods used in this package please see the following references. Carter, G. W., Hays, M., Sherman, A. & Galitski, T. (2012) . Tyler, A. L., Lu, W., Hendrick, J. J., Philip, V. M. & Carter, G. W. (2013) . Package: r-cran-caper Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 930 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-mvtnorm Suggests: r-cran-xtable, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-caper_1.0.3-1.ca2004.1_all.deb Size: 790676 MD5sum: 1c20a776066b353fc85f6765fef87a85 SHA1: 501c26250ceebd57d378639ae346e0fc138b8d5f SHA256: c3b99497f02decb4f758a1246cb1b20f6df50f10505f8385b4d7004b372310c6 SHA512: 839e29a5847692ffb78171dcf14e028b1b1c5037e45bce1e4699ddd91c8802aa8c68856f4438c44e4c74e3179e41aa3073857e4a66db7254039d053afd8ab35b Homepage: https://cran.r-project.org/package=caper Description: CRAN Package 'caper' (Comparative Analyses of Phylogenetics and Evolution in R) Functions for performing phylogenetic comparative analyses. Package: r-cran-capesdata Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4180 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-capesdata_0.0.1-1.ca2004.1_all.deb Size: 4242052 MD5sum: c3b84c2ade72074095b70d6bd3d74655 SHA1: b9d72d983e1cd2d8c64c0a44cbd5599a32b8761c SHA256: 93898961aab009f0f2f68fbdd5fc97453fd5b2d48bde5bfb18b6178bcae4ab4f SHA512: 89322d4ca15cef97af3e3c9e2b12e96ac257b5dbe04614ed1780cbe3e92b8487f1cc5bb45d1ebb45d1874e48cb6ae73088aa4031fffdc0845a3b2315edc0e69b Homepage: https://cran.r-project.org/package=capesData Description: CRAN Package 'capesData' (Data on Scholarships in CAPES International Mobility Programs) Information on activities to promote scholarships in Brazil and abroad for international mobility programs, recorded in Capes' computerized payment systems. The CAPES database refers to international mobility programs for the period from 2010 to 2019 . Package: r-cran-capesr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3355 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arrow, r-cran-dplyr, r-cran-magrittr, r-cran-rlang, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-capesr_0.1.0-1.ca2004.1_all.deb Size: 1993116 MD5sum: da6460fba71dc2a400b1f05bc073e878 SHA1: e6dc9ce4368412cd6a886109abb3576c865310d7 SHA256: 841be0750f5dc1ca782f0e57ba2e020a3785e9c3b9ebc47ddbced291d0902096 SHA512: 896840fc9d376f5af5b3f6b4604959ac7dca3cb36e2f4c280396ad40e9ee0768f5388f3ab4545e37ef77f817d5ff5b906aac6d6c9612a02f60d8dd5de20a6424 Homepage: https://cran.r-project.org/package=capesR Description: CRAN Package 'capesR' (Access to CAPES Data) Provides simplified access to the data from the Catalog of Theses and Dissertations of the Brazilian Coordination for the Improvement of Higher Education Personnel (CAPES, ) for the years 1987 through 2022. 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Additional methods exist for analysis of procedural billing codes. Package: r-cran-cardata Architecture: all Version: 3.0-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2164 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-car Filename: pool/dists/focal/main/r-cran-cardata_3.0-5-1.ca2004.1_all.deb Size: 1795424 MD5sum: dc03be65cff698411a28647072e852d4 SHA1: bc17cbc6a8e6564f2af23e908a7148282365775d SHA256: 2baca2da7eeed9786771524c2146d0a25628bd9fb5578a8c2c8173e52aa23ef5 SHA512: 06a571d643d48aa9a37d688607dea0c7f2254205b601f1f5e17d0203be24e4ac0a4358c7684b7edc992048d3ce7960801dea3172c883fc4538fa41d2faa7901f Homepage: https://cran.r-project.org/package=carData Description: CRAN Package 'carData' (Companion to Applied Regression Data Sets) Datasets to Accompany J. Fox and S. Weisberg, An R Companion to Applied Regression, Third Edition, Sage (2019). Package: r-cran-cardidates Architecture: all Version: 0.4.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-pastecs, r-cran-lattice Filename: pool/dists/focal/main/r-cran-cardidates_0.4.9-1.ca2004.1_all.deb Size: 251048 MD5sum: 2f460fa577dbde68c7950a2e2f538c0c SHA1: ee97b881fb30f4076e4d50a5b3870cb3b00c13d6 SHA256: 910e607a630b4905e7be5e454c8b44eea7eb24e36cf07c67e33edf0f0370285a SHA512: 98a4105dba96239417e093c0dad993cb456efb48323dd4772941edad14f4ed6a371db3bdd950694f48e85404d74122de45ec04f46e9705afa34c5889fa3669c1 Homepage: https://cran.r-project.org/package=cardidates Description: CRAN Package 'cardidates' (Identification of Cardinal Dates in Ecological Time Series) Identification of cardinal dates (begin, time of maximum, end of mass developments) in ecological time series using fitted Weibull functions. Package: r-cran-cardinalr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1773 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-purrr Suggests: r-cran-knitr, r-cran-langevitour, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cardinalr_0.1.1-1.ca2004.1_all.deb Size: 947156 MD5sum: 53fc795fa5e85358ddc4310be1cc38d7 SHA1: 88f4523f614a51dd7f9d85ac942cdacba850adca SHA256: 4a77970d4968b449c3d08bb797d40cce49a7f4f36ecffda4a3b09b3032369b2c SHA512: e43a4f312b298ce6d700c9241cd85cd4d68f47a8ff160217df5f37a17075d11d407869fdb852f1313b9afa77429b9c45dfd016155f16db2c6c5b44c44d0cbd5b Homepage: https://cran.r-project.org/package=cardinalR Description: CRAN Package 'cardinalR' (Collection of Data Structures) A collection of simple simulation datasets designed for generating Nonlinear Dimension Reduction representations techniques such as t-distributed Stochastic Neighbor Embedding, and Uniform Manifold Approximation and Projection. 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Package: r-cran-cardiocurver Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1747 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-signal, r-cran-ggplot2, r-cran-gridextra, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cardiocurver_1.0.0-1.ca2004.1_all.deb Size: 249960 MD5sum: 9d3f8be8cd3ba647cce8e1f5202dc41f SHA1: 7485dd0ef1aa62ef4394bee4efca0d5ec2e08414 SHA256: 880dee559815356ba534d58c65070ad3ea04fe35cf175a8914695bf43761e179 SHA512: f9e3c473343cb0066c62ad2bf6e6c086d16288c197f90744c6c2065839b26fbc4ee2c3e56536cb56eb1b2c0f86bcb884041c98b0419c3e6160a0380e4b342800 Homepage: https://cran.r-project.org/package=CardioCurveR Description: CRAN Package 'CardioCurveR' (Nonlinear Modeling of R-R Interval Dynamics) Automated and robust framework for analyzing R-R interval (RRi) signals using advanced nonlinear modeling and preprocessing techniques. The package implements a dual-logistic model to capture the rapid drop and subsequent recovery of RRi during exercise, as described by Castillo-Aguilar et al. (2025) . In addition, 'CardioCurveR' includes tools for filtering RRi signals using zero-phase Butterworth low-pass filtering and for cleaning ectopic beats via adaptive outlier replacement using local regression and robust statistics. These integrated methods preserve the dynamic features of RRi signals and facilitate accurate cardiovascular monitoring and clinical research. Package: r-cran-cardiodatasets Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1059 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-testthat, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cardiodatasets_0.1.0-1.ca2004.1_all.deb Size: 537680 MD5sum: 9268affa6ac843a24ea1b352d9c783d0 SHA1: fabdf007866dbe54453195bab613a4bba1300065 SHA256: 0330833f6e793db9171ddeea6283e4c7e01de9a2fb78c639e39993f6a49396af SHA512: e50c09b6ab71cec1dd6d0998f1b2a7f75845fee6070cccc5fd2e7ad2fd49103d74dd0c5af3a9954ef6fabcebf0eed550ca8d74a3bf0682702ea88fbf6c5eb305 Homepage: https://cran.r-project.org/package=CardioDataSets Description: CRAN Package 'CardioDataSets' (A Comprehensive Collection of Cardiovascular and Heart DiseaseDatasets) Offers a diverse collection of datasets focused on cardiovascular and heart disease research, including heart failure, myocardial infarction, aortic dissection, transplant outcomes, cardiovascular risk factors, drug efficacy, and mortality trends. Designed for researchers, clinicians, epidemiologists, and data scientists, the package features clinical, epidemiological, and simulated datasets covering a wide range of conditions and treatments such as statins, anticoagulants, and beta blockers. It supports analyses related to disease progression, treatment effects, rehospitalization, and public health outcomes across various cardiovascular patient populations. Package: r-cran-cards Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 633 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-lifecycle, r-cran-rlang, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-cards_0.6.0-1.ca2004.1_all.deb Size: 567376 MD5sum: 1174fcb8427e1e73de918df98f81bf02 SHA1: 5e73d2c7c414baefd7a8be2b1147d23630a11a9c SHA256: 2d093a707d422030e0e5cc48145a893a204281959a9ac5d8af04285ec94e6b60 SHA512: cd5d862f7925c3e6695f325a7463a472d085c48bcb1e37c87bf3e385b5de7f0cb4e0f361122c113d6d0f8ea8dab73da29bc4a98d1414e2039f5b03c0719bcc22 Homepage: https://cran.r-project.org/package=cards Description: CRAN Package 'cards' (Analysis Results Data) Construct CDISC (Clinical Data Interchange Standards Consortium) compliant Analysis Results Data objects. These objects are used and re-used to construct summary tables, visualizations, and written reports. The package also exports utilities for working with these objects and creating new Analysis Results Data objects. 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The package supplements the simple ARD functions from the 'cards' package, exporting functions to put statistical results in the ARD format. These objects are used and re-used to construct summary tables, visualizations, and written reports. Package: r-cran-care1 Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-care1_1.1.0-1.ca2004.1_all.deb Size: 60672 MD5sum: 0f0f664011909dcb94513b9306600901 SHA1: 59f4ab8ac57572d1acd806ea423d55f6e176c21e SHA256: be9a05eb6925876158e0eabf3fb9667f1a435d9256edd581cb0a260a30908b43 SHA512: e8dbf6cba71f0a35afe0a9241655be395043ff2e698f74e637d45ba95320946075ebf5e9af8dc2bf39fb5150e9ad63aeae04a50ad2d9b753f538ea6993090e69 Homepage: https://cran.r-project.org/package=CARE1 Description: CRAN Package 'CARE1' (Statistical package for population size estimation incapture-recapture models) The R package CARE1, the first part of the program CARE (Capture-Recapture) in http://chao.stat.nthu.edu.tw/softwareCE.html, can be used to analyze epidemiological data via sample coverage approach (Chao et al. 2001a). Based on the input of records from several incomplete lists (or samples) of individuals, the R package CARE1 provides output of population size estimate and related statistics. Package: r-cran-care4cmodel Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 403 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-desolve, r-cran-dplyr, r-cran-tibble, r-cran-purrr, r-cran-rlang, r-cran-tidyr, r-cran-tidyselect, r-cran-ggplot2, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-care4cmodel_1.0.3-1.ca2004.1_all.deb Size: 244472 MD5sum: 1b50cb596fccbbbbcb713ca2edc23f97 SHA1: 2a5119d022b0032dfe58c84b7b63521dcbb299ab SHA256: 0c2d8008fff2727e7410c25b35772ddd567f468184c0095baf267b0ab68a439b SHA512: 4246bf577a5133ae95ee096faae56a2f03780a300a62fbc3a8360ba26ee3310fc8deb6d3bc92bb56363be4c82e0a9cf5323f7af81f1b1062f9031337d01fc7d6 Homepage: https://cran.r-project.org/package=care4cmodel Description: CRAN Package 'care4cmodel' (Carbon-Related Assessment of Silvicultural Concepts) A simulation model and accompanying functions that support assessing silvicultural concepts on the forest estate level with a focus on the CO2 uptake by wood growth and CO2 emissions by forest operations. For achieving this, a virtual forest estate area is split into the areas covered by typical phases of the silvicultural concept of interest. Given initial area shares of these phases, the dynamics of these areas is simulated. The typical carbon stocks and flows which are known for all phases are attributed post-hoc to the areas and upscaled to the estate level. CO2 emissions by forest operations are estimated based on the amounts and dimensions of the harvested timber. Probabilities of damage events are taken into account. Package: r-cran-care Architecture: all Version: 1.1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 193 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-corpcor Suggests: r-cran-crossval Filename: pool/dists/focal/main/r-cran-care_1.1.11-1.ca2004.1_all.deb Size: 153072 MD5sum: 54df8f97bc1f9e9c289b2b7d617461fe SHA1: a1e8c65aa58f7daf237164b679f7102487c5748a SHA256: 3e32bc38664b3b2a7df7fed1d0146f8dd50da9cf2ac13338e04f7ba7b1c04df8 SHA512: 479db2e7f7de539120ddc88a25e5c523391697ccb9ad7c2dfbdd8eea8b7e553ceb42e7b72a36f3d4d4905f0423edd308caffa9674e0feecbde5aa6ae1ce3fe61 Homepage: https://cran.r-project.org/package=care Description: CRAN Package 'care' (High-Dimensional Regression and CAR Score Variable Selection) Implements the regression approach of Zuber and Strimmer (2011) "High-dimensional regression and variable selection using CAR scores" SAGMB 10: 34, . CAR scores measure the correlation between the response and the Mahalanobis-decorrelated predictors. The squared CAR score is a natural measure of variable importance and provides a canonical ordering of variables. This package provides functions for estimating CAR scores, for variable selection using CAR scores, and for estimating corresponding regression coefficients. Both shrinkage as well as empirical estimators are available. Package: r-cran-carecall Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-tibble Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-spelling, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-carecall_0.1.0-1.ca2004.1_all.deb Size: 89700 MD5sum: fec20e5b7075fdbaaad990a81a83e583 SHA1: e7470defa40202f6298f4f14d1031a3e261c4637 SHA256: e663a650c5010e49c839bf1a97504a7d929147471442026af9a2151897b1907e SHA512: ea4841964cf10a7451341374203b94b93fd7bf61160713630d827eb4c0f456c3d40253d4fa3c4191a9297217cd96783479e29cdf91b9d83a6c4f5098872bdf45 Homepage: https://cran.r-project.org/package=caRecall Description: CRAN Package 'caRecall' (Government of Canada Vehicle Recalls Database API Wrapper) Provides API access to the Government of Canada Vehicle Recalls Database used by the Defect Investigations and Recalls Division for vehicles, tires, and child car seats. 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Package: r-cran-caredensity Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrixextra, r-cran-data.table, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-caredensity_0.1.0-1.ca2004.1_all.deb Size: 56600 MD5sum: 87644e2c7d5b7599057927dde414ce36 SHA1: 4f11f5ffadf7497502bd1415d20ec84b58a1f9c8 SHA256: 29fa3c4c386d06d15f5eeb167e5e68bb0dee5e0c9466364a0e0e25668066717b SHA512: 323ff23d7ab610d33a27e745433d467e8c8afc12c37aa63a5ce3d378161da1fa861c108d9c81f044238a07898973b2333a41fca31009883fc0188d70c73e8348 Homepage: https://cran.r-project.org/package=CareDensity Description: CRAN Package 'CareDensity' (Calculate the Care Density or Fragmented Care Density Given aPatient-Sharing Network) Given a patient-sharing network, calculate either the classic care density as proposed by Pollack et al. 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Package: r-cran-careless Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-psych Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-careless_1.2.2-1.ca2004.1_all.deb Size: 109836 MD5sum: c1664ed2b067b06d109bdce3ec290efc SHA1: 0b7afac893059ec587c55a0333cdce7deb142277 SHA256: 14f4f3f83a0774a35f24b1ee1c48e6780c8eed8a69fe5838b4e61092b1929cc0 SHA512: 1e327e70f59b8e35d61fffd7dc000a397a78a8a00f79128e72f48d011ea1d1312ace04116069d3c558448842b22a91534d2fc12290eadc5896acac960a8b0425 Homepage: https://cran.r-project.org/package=careless Description: CRAN Package 'careless' (Procedures for Computing Indices of Careless Responding) When taking online surveys, participants sometimes respond to items without regard to their content. 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Package: r-cran-caresid Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ca, r-cran-ggplot2, r-cran-ggrepel Filename: pool/dists/focal/main/r-cran-caresid_0.1-1.ca2004.1_all.deb Size: 23416 MD5sum: e672ee3ddd27421a4798f988a88733dc SHA1: 17181e1ebb384ce59e334b0d576810bbe7b587ca SHA256: e5dc96f9c85cf52c5dde3edb2f774b2f39b240e9f655d7e1d19b80227d403910 SHA512: 6285e0c0c8392c85018e563fb6c1236de1a4dcc00df7c6d0986cd2db6bc58771d29554d63ff828ae1a025bfde3b7c8f184ed16ef955d994d231af32de5efe70c Homepage: https://cran.r-project.org/package=caresid Description: CRAN Package 'caresid' (Correspondence Analysis Plot and Associations Visualisation) Performs a Correspondence Analysis (CA) on a contingency table and creates a scatterplot of the row and column points on the selected dimensions. Optionally, the function can add segments to the plot to visualize significant associations between row and column categories on the basis of positive (unadjusted) standardized residuals larger than a given threshold. Package: r-cran-caretensemble Architecture: all Version: 4.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3509 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-data.table, r-cran-ggplot2, r-cran-lattice, r-cran-patchwork, r-cran-pbapply, r-cran-rlang Suggests: r-cran-mass, r-cran-catools, r-cran-covr, r-cran-earth, r-cran-gbm, r-cran-glmnet, r-cran-klar, r-cran-knitr, r-cran-lintr, r-cran-mgcv, r-cran-mlbench, r-cran-nnet, r-cran-randomforest, r-cran-rmarkdown, r-cran-rhub, r-cran-rpart, r-cran-spelling, r-cran-testthat, r-cran-usethis Filename: pool/dists/focal/main/r-cran-caretensemble_4.0.1-1.ca2004.1_all.deb Size: 3277636 MD5sum: ad6243725791d0f2daa7f53268e2b9d7 SHA1: c72a33b5326e85d7999dff190733aff70f36e271 SHA256: 3169b43de3647031ba9fef557e5c99c94fd71dc766da5fbde1d8e57932f42756 SHA512: 0831fd76baced5565ab1ebb0fad825b9234095305d73ce2d2448bc354fe0bb835f99e3f109ba0cdb44211b61f4caaba0e852dacd7bd752aeab1246c71559f840 Homepage: https://cran.r-project.org/package=caretEnsemble Description: CRAN Package 'caretEnsemble' (Ensembles of Caret Models) Functions for creating ensembles of caret models: caretList() and caretStack(). caretList() is a convenience function for fitting multiple caret::train() models to the same dataset. caretStack() will make linear or non-linear combinations of these models, using a caret::train() model as a meta-model. Package: r-cran-caretforecast Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 592 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-forecast, r-cran-caret, r-cran-magrittr, r-cran-dplyr, r-cran-generics Suggests: r-cran-cubist, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-caretforecast_0.1.1-1.ca2004.1_all.deb Size: 500756 MD5sum: c06d945c81d8bd18e5c529c50df4bc5d SHA1: fd8b1e6881c732270b164ac58c7b33d9252f59ba SHA256: ca6e97886742f1a053cdfd98ee94e0444722a798372d72c35a3ee15a4c12f743 SHA512: c8d3a7dee958f5560a9e690c29f8a33954964b59fb4fc9827a1719ff69a7b4443aab441046f185ff983826e8fdd2c7e6a9e22673e4bb075d42781ca9a6f8210b Homepage: https://cran.r-project.org/package=caretForecast Description: CRAN Package 'caretForecast' (Conformal Time Series Forecasting Using State of Art MachineLearning Algorithms) Conformal time series forecasting using the caret infrastructure. It provides access to state-of-the-art machine learning models for forecasting applications. The hyperparameter of each model is selected based on time series cross-validation, and forecasting is done recursively. Package: r-cran-carfima Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-deoptim, r-cran-pracma, r-cran-truncnorm, r-cran-invgamma Filename: pool/dists/focal/main/r-cran-carfima_2.0.2-1.ca2004.1_all.deb Size: 70168 MD5sum: 6e5a4c3157fbd630df46444605a7526f SHA1: 77f8596f21803ea615315398c135911f7c0ad3de SHA256: f0d85ef6ad3b919c2cb73ff69777b2d597c12d692ba1b3573f4c5d05d5332910 SHA512: 3ec06642448b8980b9a5c4eb0943d193b3532afc19302bc94262f1d22a6b91290d7c3cc54c1a02ac0ca2a57cc4f9e86d4172f0d01a433a51138fa0aa6992e13d Homepage: https://cran.r-project.org/package=carfima Description: CRAN Package 'carfima' (Continuous-Time Fractionally Integrated ARMA Process forIrregularly Spaced Long-Memory Time Series Data) We provide a toolbox to fit a continuous-time fractionally integrated ARMA process (CARFIMA) on univariate and irregularly spaced time series data via both frequentist and Bayesian machinery. A general-order CARFIMA(p, H, q) model for p>q is specified in Tsai and Chan (2005) and it involves p+q+2 unknown model parameters, i.e., p AR parameters, q MA parameters, Hurst parameter H, and process uncertainty (standard deviation) sigma. Also, the model can account for heteroscedastic measurement errors, if the information about measurement error standard deviations is known. The package produces their maximum likelihood estimates and asymptotic uncertainties using a global optimizer called the differential evolution algorithm. It also produces posterior samples of the model parameters via Metropolis-Hastings within a Gibbs sampler equipped with adaptive Markov chain Monte Carlo. These fitting procedures, however, may produce numerical errors if p>2. The toolbox also contains a function to simulate discrete time series data from CARFIMA(p, H, q) process given the model parameters and observation times. Package: r-cran-cargo Architecture: all Version: 0.4.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 599 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-cargo_0.4.9-1.ca2004.1_all.deb Size: 253072 MD5sum: 660d4e0633ee344c3aedcb7f63b84bb7 SHA1: a8d8dc3b4c276fc99b4cd3d7c4f685ac7b9e5f8c SHA256: d1f96f2340c6490eed00981858cdb101be4c2ac2a64d8d92fb09e855585e39f3 SHA512: 40964d4a88bc67962a32f68536ef49fe12fc364e7735f94c95da4d88e892b3b9707f1538b7acf4b45c24ba070cb37977f873e9ef786bfd9399a535495b82cb80 Homepage: https://cran.r-project.org/package=cargo Description: CRAN Package 'cargo' (Develop R Packages using Rust) A framework is provided to develop R packages using 'Rust' with minimal overhead, and more wrappers are easily added. Help is provided to use 'Cargo' in a manner consistent with CRAN policies. 'Rust' code can also be embedded directly in an R script. The package is not official, affiliated with, nor endorsed by the Rust project. Package: r-cran-caribou Architecture: all Version: 1.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-caribou_1.1-1-1.ca2004.1_all.deb Size: 53100 MD5sum: fde4fcf32ed08503e5a466165a7acf87 SHA1: 3f58e1320c98184993e648a7c91b6f64b00b69d0 SHA256: 7974e64207369bb3127c75fe0151e250c5fd814b668598d727ef9ba974ba5265 SHA512: 2c1ed8cab6d622080fb0162e28969b66ff2630aac6b7f2a3908a30ae85c1240a0924e2079d19ae2d697408aca74f84bd211e7acfb0118211e5cb7cdb1cec59b8 Homepage: https://cran.r-project.org/package=caribou Description: CRAN Package 'caribou' (Estimation of Caribou Abundance Based on Radio Telemetry Data) Estimation of population size of migratory caribou herds based on large scale aggregations monitored by radio telemetry. It implements the methodology found in the article by Rivest et al. (1998) about caribou abundance estimation. It also includes a function based on the Lincoln-Petersen Index as applied to radio telemetry data by White and Garrott (1990). Package: r-cran-carletonstats Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-patchwork Suggests: r-cran-mass, r-cran-testthat Filename: pool/dists/focal/main/r-cran-carletonstats_2.2-1.ca2004.1_all.deb Size: 168208 MD5sum: 043ff4e1578991c5e8233ea06f8a7b7e SHA1: 1f34a4aa1a88b0c2cfb41e140e665c04856862ac SHA256: b399f256df90bc45cbbdfa0aeea46693518feb5afb7a1aed447ea694fb638e36 SHA512: ca6b9fef232f857c0bf92f1265c452f2f6e87cbdc767ff8aae1aac7d83da0d9697c738d739a99a184b1e44c22b7dad7ebbf9f63ca6f1700c14496b9f56f8d19b Homepage: https://cran.r-project.org/package=CarletonStats Description: CRAN Package 'CarletonStats' (Functions for Statistics Classes at Carleton College) Includes commands for bootstrapping and permutation tests, a command for created grouped bar plots, and a demo of the quantile-normal plot for data drawn from different distributions. Package: r-cran-carlit Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-carlit_1.0-1.ca2004.1_all.deb Size: 28932 MD5sum: 4ef2e2146cc9f6f16daafd4b21f7bfaf SHA1: 07b70b4923bba71100a2bf3dae47080521efe021 SHA256: e20fde496c05633c38293e8c37285d43aa13995011fa946d9b08c0e7101cb690 SHA512: 606cf3da390f1f648f4891c234f03c9693f296841af1edb3e25b33fe61fd2d76f20e0a2cee88bbacd2fd6a18ccf94f0e86f1980c47f3656b72988cc3caa006d9 Homepage: https://cran.r-project.org/package=CARLIT Description: CRAN Package 'CARLIT' (Ecological Quality Ratios Calculation and Plot) Functions to calculate and plot ecological quality ratios (EQR) as specified by Ballesteros et al. 2007. Package: r-cran-carm Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-arrangements, r-cran-dplyr, r-cran-mass Filename: pool/dists/focal/main/r-cran-carm_1.1.0-1.ca2004.1_all.deb Size: 30256 MD5sum: 7fcb116e6ba04e48dddea33903ed227f SHA1: 67020e0c102cef89644ce64c056499217509a404 SHA256: 22594c86c841e1a520e753aee7c8d139b77462083b27cc6e64abe3e88a42a76d SHA512: 5511388072a089af029e7eeb22907fa7d74d8a82d529333a9de8b342bff860c3df5cb538ba3b1f3aa8b96f7e298683b44a4b6315a0c75f8b1e9c0f27d26777cd Homepage: https://cran.r-project.org/package=CARM Description: CRAN Package 'CARM' (Covariate-Adjusted Adaptive Randomization viaMahalanobis-Distance) In randomized controlled trial (RCT), balancing covariate is often one of the most important concern. 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For instance, allows to perform multiple comparisons in diagnostic accuracy studies with co-primary endpoints sensitivity and specificity (Westphal M, Zapf A. Statistical inference for diagnostic test accuracy studies with multiple comparisons. Statistical Methods in Medical Research. 2024;0(0). ). 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It includes methods for data organization, plotting standard exploratory and analytical plots, predictions, for 100 types of models of increasing complexity, and 72 likelihood models for the data. 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Most of the methods are an implementation of "Sufficient Representation for Categorical Variables" by Johannemann, Hadad, Athey, Wager (2019) , particularly their mean, sparse principal component analysis, low rank representation, and multinomial logit encodings. 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Package: r-cran-cateselection Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cateselection_1.0-1.ca2004.1_all.deb Size: 57060 MD5sum: b00d96a55cea491faca963eb78724060 SHA1: cbb9c80e348122da684957583a404aeccc2100ee SHA256: 299848d14bf55d3a50816ba67276f57dcfa717cae44618cb1bf25b8516b99dc7 SHA512: 0aca2d1be75fde787f5b654cc707a6a76eade6b0d1321991ece60d5d5476e0432bd8fb3114e3b390c73082ba622e2f43fdfe754fa9343d5608fa3ea55fbd4dfa Homepage: https://cran.r-project.org/package=CateSelection Description: CRAN Package 'CateSelection' (Categorical Variable Selection Methods) A multi-factor dimensionality reduction based forward selection method for genetic association mapping. 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R currently supports a wide variety of tools for the analysis of categorical data. However, many functions are spread across a variety of packages with differing syntax and poor compatibility with each another. prop_test() combines the functions binom.test(), prop.test() and BinomCI() into one output. prop_power() allows for power and sample size calculations for both balanced and unbalanced designs. riskdiff() is used for calculating risk differences and matched_or() is used for calculating matched odds ratios. For further information on methods used that are not documented in other packages see Nathan Mantel and William Haenszel (1959) and Alan Agresti (2002) . 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Package: r-cran-catmap Architecture: all Version: 1.6.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-forestplot, r-cran-metafor Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-catmap_1.6.4-1.ca2004.1_all.deb Size: 56904 MD5sum: c4d27a4bd398abd65834626bf44963dc SHA1: 19fd3b6992887e3f18c17a23bedf1ccc01c4f69d SHA256: de7ed82da9f92a1e6ceea4d79fa3f594cc2cb8d334d8375819529bb96cf0aa57 SHA512: 11bc2a02d577fe84ceb7dc79740d4b9f3947b34506f27d9f87ca72e8de6e36c681bd2c2f4959f3e212dc6b2d54a4a4e008594645f5a77eff667e97991c31c6ed Homepage: https://cran.r-project.org/package=catmap Description: CRAN Package 'catmap' (Case-Control and TDT Meta-Analysis Package) Although many software tools can perform meta-analyses on genetic case-control data, none of these apply to combined case-control and family-based (TDT) studies. This package conducts fixed-effects (with inverse variance weighting) and random-effects [DerSimonian and Laird (1986) ] meta-analyses on combined genetic data. Specifically, this package implements a fixed-effects model [Kazeem and Farrall (2005) ] and a random-effects model [Nicodemus (2008) ] for combined studies. Package: r-cran-catmaply Architecture: all Version: 0.9.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 21360 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-plotly, r-cran-dplyr, r-cran-magrittr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-testthat, r-cran-viridis, r-cran-lubridate, r-cran-tidyverse, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-catmaply_0.9.5-1.ca2004.1_all.deb Size: 1400780 MD5sum: 8a7c29bab7fd2ee2fea0be7a21b4f58f SHA1: 23deededa3cd9f36c2b97ba6003c56f821f3df1f SHA256: a7e49da3f9a15d625136b71056ba9d06d7dfd2dde62ea21c4f0e33ea48fde073 SHA512: 38a85a0c28cf21e77437a7f0bef4d6244bee5fd842a1859b00fd0f1a283485c9149d2235e36a6024bbbf81f74e7455a18755abe8f5d79d8f686c9c73a10bc256 Homepage: https://cran.r-project.org/package=catmaply Description: CRAN Package 'catmaply' (Heatmap for Categorical Data using 'plotly') Methods and plotting functions for displaying categorical data on an interactive heatmap using 'plotly'. Provides functionality for strictly categorical heatmaps, heatmaps illustrating categorized continuous data and annotated heatmaps. Also, there are various options to interact with the x-axis to prevent overlapping axis labels, e.g. via simple sliders or range sliders. Besides the viewer pane, resulting plots can be saved as a standalone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app. Package: r-cran-catool Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-tibble, r-cran-rlang, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-catool_1.0.1-1.ca2004.1_all.deb Size: 81516 MD5sum: b26679d8975e40627381bf54af0e2552 SHA1: 3f8064aff034ffd006dfe5fa3cd9ecc04239ea73 SHA256: 3852d462f472550071cb3ab1a95dee4913d75a12ba2b3810d46704118f1ab2fb SHA512: 11bd3c590a0b61216f333d470d3d488d5c9246446e654a59d6d1f2cc49bcf6a792d330154ab22ee7268f66a47bfd805c5d5708746c20394cd23f77a3ee7e4429 Homepage: https://cran.r-project.org/package=catool Description: CRAN Package 'catool' (Compensation Analysis Tool for Instructor Overload Pay) Calculates equitable overload compensation for college instructors based on institutional policies, enrollment thresholds, and regular teaching load limits. 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I Barrio, I Arostegui, MX Rodriguez-Alvarez, JM Quintana (2015) . I Barrio, MX Rodriguez-Alvarez, L Meira-Machado, C Esteban, I Arostegui (2017) . Package: r-cran-catr Architecture: all Version: 3.17-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 593 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-catr_3.17-1.ca2004.1_all.deb Size: 533468 MD5sum: c5c72e34ee4c405f5fe3d6f21e4f7996 SHA1: 1292f9ec7e1769c24e7271abe0dd5bc63c50f92a SHA256: 425efd55edd1a9d79be286c328e657a5191bedfcb01fe3d1ec19cb63112f78dd SHA512: 5f9a66cc8a7f28dfd3c1feaa427b637140a01fc1bcd6bc3c72e9a09ba523f92419ea59607ce2e2b436b54151eeb6e71e226d5ca3d08927e90c41be4725d4762c Homepage: https://cran.r-project.org/package=catR Description: CRAN Package 'catR' (Generation of IRT Response Patterns under Computerized AdaptiveTesting) Provides routines for the generation of response patterns under unidimensional dichotomous and polytomous computerized adaptive testing (CAT) framework. It holds many standard functions to estimate ability, select the first item(s) to administer and optimally select the next item, as well as several stopping rules. Options to control for item exposure and content balancing are also available (Magis and Barrada (2017) ). 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The functions facilitate post-estimation of model predictions or margins, and comparisons between model predictions for assessing or probing moderation. Additional helper functions facilitate model comparisons and implements simulation-based inference for model predictions of alternative-specific outcome models. See also, Melamed and Doan (2024, ISBN: 978-1032509518). 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Package: r-cran-catseyes Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-emmeans Filename: pool/dists/focal/main/r-cran-catseyes_0.2.5-1.ca2004.1_all.deb Size: 26844 MD5sum: 492a01d1baac99b19c9c2f20d5469e12 SHA1: ca0af39b3186080a8c6f0d63ec1daf5add60801d SHA256: 528926398461240379a9bcbdf89e650fe3cb85413aa99bbfc181df8d618737c8 SHA512: 2e9e224fa20a47994227f7122b8f3dc2044e875e4d904adff2e5111339fae815a22b05603176fe088a4c48b882732b8c3ee56c7f3d18d7964a4c4165c6450398 Homepage: https://cran.r-project.org/package=catseyes Description: CRAN Package 'catseyes' (Create Catseye Plots Illustrating the Normal Distribution of theMeans) Provides the tools to produce catseye plots, principally by catseyesplot() function which calls R's standard plot() function internally, or alternatively by the catseyes() function to overlay the catseye plot onto an existing R plot window. Catseye plots illustrate the normal distribution of the mean (picture a normal bell curve reflected over its base and rotated 90 degrees), with a shaded confidence interval; they are an intuitive way of illustrating and comparing normally distributed estimates, and are arguably a superior alternative to standard confidence intervals, since they show the full distribution rather than fixed quantile bounds. The catseyesplot and catseyes functions require pre-calculated means and standard errors (or standard deviations), provided as numeric vectors; this allows the flexibility of obtaining this information from a variety of sources, such as direct calculation or prediction from a model. Catseye plots, as illustrations of the normal distribution of the means, are described in Cumming (2013 & 2014). Cumming, G. (2013). The new statistics: Why and how. Psychological Science, 27, 7-29. pmid:24220629. 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Currently, contains data sets for Huntington-Klein, Nick (2021 and 2025) "The Effect" , first and second edition, Cunningham, Scott (2021 and 2025, ISBN-13: 978-0-300-25168-5) "Causal Inference: The Mixtape", and Hernán, Miguel and James Robins (2020) "Causal Inference: What If" . 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See: Glynn, Adam N. and Kevin M. Quinn. 2010. "An Introduction to the Augmented Inverse Propensity Weighted Estimator." Political Analysis. 18: 36-56. 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(2015) . See the package documentation on GitHub to get started. Package: r-cran-causalkinetix Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fda, r-cran-cvtools, r-cran-quadprog, r-cran-randomforest, r-cran-desolve, r-cran-pspline, r-cran-glmnet, r-cran-sundialr Filename: pool/dists/focal/main/r-cran-causalkinetix_0.2.1-1.ca2004.1_all.deb Size: 128952 MD5sum: 188966cd9060646eaf7bce475219a193 SHA1: a0eb9ffbba065883635b89eddb8e59ed09040b0c SHA256: 62f1970dc9ea1b0bdf5a8a16b28180af93807d982e9114056aff9b0c43e98015 SHA512: 55b8c7486a2515464da4f37074def59b9ae4f15ad7ac93b075879695b1ade7ee02fd6c1f7eb8b78342d94132e56b49ec4c2be803828c2b6aeeff86ca84c615da Homepage: https://cran.r-project.org/package=CausalKinetiX Description: CRAN Package 'CausalKinetiX' (Learning Stable Structures in Kinetic Systems) Implementation of 'CausalKinetiX', a framework for learning stable structures in kinetic systems. Apart from the main functions CausalKinetiX() and CausalKinetiX.modelranking() it includes functions to generate data from three simulations models, which can be used to benchmark structure learning methods for linear ordinary differential equation models. A detailed description of the underlying methods as well as details on the examples are given in Pfister, Bauer and Peters (2018) . Package: r-cran-causalmbsts Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kfas, r-cran-cholwishart, r-cran-forecast, r-cran-mass, r-cran-matrix, r-cran-mixmatrix Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-causalmbsts_0.1.1-1.ca2004.1_all.deb Size: 141756 MD5sum: 72ac63fc297613693775782bdb013fc2 SHA1: f02e82411b59fce2bde78d977ac82744d13670de SHA256: d571e12f4caaafdb8ebf52cfbbcb74851c0e31a7b8eeb653f86b1e4b250180e8 SHA512: da9275ca967bdc081994083ed4efc62159db57b0bdf8a0de6b402f1b1254b3c444e110005ee529468a79f515157cd64bd096eef5f145062b132b3167275f3208 Homepage: https://cran.r-project.org/package=CausalMBSTS Description: CRAN Package 'CausalMBSTS' (MBSTS Models for Causal Inference and Forecasting) Infers the causal effect of an intervention on a multivariate response through the use of Multivariate Bayesian Structural Time Series models (MBSTS) as described in Menchetti & Bojinov (2020) . The package also includes functions for model building and forecasting. Package: r-cran-causalmetar Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1198 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-metafor, r-cran-nnet, r-cran-progress, r-cran-superlearner Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-causalmetar_0.1.3-1.ca2004.1_all.deb Size: 1184112 MD5sum: 4646482bb1b1f873f11d0ce90d129211 SHA1: 9facb0f4d5b74eb2cab0b61637fe4d3dc32a68c0 SHA256: 1d1045ebf2787b948d332b14a5c328c63a1d4dfca481256831329ce02dbe52ed SHA512: 9ece581fb18f03d2077e705eec5ceba2d024f7acd5c7c17e4794bc44ba2f30990a0cfc6e649e2e4b9d2d8010ce551295a11aab6b51f622ad4e45e6530f48f755 Homepage: https://cran.r-project.org/package=CausalMetaR Description: CRAN Package 'CausalMetaR' (Causally Interpretable Meta-Analysis) Provides robust and efficient methods for estimating causal effects in a target population using a multi-source dataset, including those of Dahabreh et al. (2019) , Robertson et al. (2021) , and Wang et al. (2024) . The multi-source data can be a collection of trials, observational studies, or a combination of both, which have the same data structure (outcome, treatment, and covariates). The target population can be based on an internal dataset or an external dataset where only covariate information is available. The causal estimands available are average treatment effects and subgroup treatment effects. See Wang et al. (2025) for a detailed guide on using the package. Package: r-cran-causalmodels Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-causaldata, r-cran-boot, r-cran-multcomp, r-cran-geepack Filename: pool/dists/focal/main/r-cran-causalmodels_0.2.1-1.ca2004.1_all.deb Size: 104320 MD5sum: ae7b206e0f55a6e2e14e7581655f562f SHA1: 4bc6184e05f7f7bdcdb68e5f2f5b71f89992d94d SHA256: e7ba03bac2f9e1dc5492fc3ffe741b89b902780b04f8338c46b7124530075a63 SHA512: 9660ea10ecc927b981f7a5a5a623bd00e1663d57fbe28705bdfa38fdc9317c5189286cc6d9302bcac05a384322e9a64200557a93ab83f2d9ddff46e56adc3951 Homepage: https://cran.r-project.org/package=CausalModels Description: CRAN Package 'CausalModels' (Causal Inference Modeling for Estimation of Causal Effects) Provides an array of statistical models common in causal inference such as standardization, IP weighting, propensity matching, outcome regression, and doubly-robust estimators. Estimates of the average treatment effects from each model are given with the standard error and a 95% Wald confidence interval (Hernan, Robins (2020) ). Package: r-cran-causaloptim Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2067 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph, r-cran-shiny, r-cran-rcdd Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-causaloptim_1.0.0-1.ca2004.1_all.deb Size: 840940 MD5sum: 715332ab67e7b854e91ad5812cad250b SHA1: 5968e40a35479b91d944d2933a234306407db3ef SHA256: 3ff5e7203cfa64a4726cc15ce45de7ac3c184004ebe8cf8f412e28aba344a601 SHA512: 034f0a9db7c8347dacd02fd14ab5b6510561e1edb98f520e3d2b84d2305dbd5cd37c4c463551a692db8a3878d73864b2a780407dd10419f4deed2567200f159b Homepage: https://cran.r-project.org/package=causaloptim Description: CRAN Package 'causaloptim' (An Interface to Specify Causal Graphs and Compute Bounds onCausal Effects) When causal quantities are not identifiable from the observed data, it still may be possible to bound these quantities using the observed data. We outline a class of problems for which the derivation of tight bounds is always a linear programming problem and can therefore, at least theoretically, be solved using a symbolic linear optimizer. We extend and generalize the approach of Balke and Pearl (1994) and we provide a user friendly graphical interface for setting up such problems via directed acyclic graphs (DAG), which only allow for problems within this class to be depicted. The user can then define linear constraints to further refine their assumptions to meet their specific problem, and then specify a causal query using a text interface. The program converts this user defined DAG, query, and constraints, and returns tight bounds. The bounds can be converted to R functions to evaluate them for specific datasets, and to latex code for publication. The methods and proofs of tightness and validity of the bounds are described in a paper by Sachs, Jonzon, Gabriel, and Sjölander (2022) . Package: r-cran-causalpaf Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1201 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-checkmate, r-cran-dagitty, r-cran-dplyr, r-cran-forestplot, r-cran-ggdag, r-cran-ggplot2, r-cran-gridextra, r-cran-magrittr, r-cran-mass, r-cran-reshape2, r-cran-rlist Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-causalpaf_1.2.5-1.ca2004.1_all.deb Size: 1145900 MD5sum: e1d10520fa0cdec5991de30cbe7b307b SHA1: 186c900b3745d4d411ca80b326fac9fa4d962386 SHA256: 4e083e9cb72c4373800c613481d9ea223bb84167ac331212f2af5ac566a0cdc0 SHA512: cf4effe882457437496e80e19d6912aa204c0ed36e980599883c819dee10cf95d9560c7da7c1d87f36094debe3ff205f8d232a20ba88eef3425cb074de354df4 Homepage: https://cran.r-project.org/package=causalPAF Description: CRAN Package 'causalPAF' (Causal Effect for Population Attributable Fractions (PAF)) Calculates population attributable fraction causal effects. The 'causalPAF' package contains a suite of functions for causal analysis calculations of population attributable fractions (PAF) given a causal diagram which apply both: Pathway-specific population attributable fractions (PS-PAFs) O’Connell and Ferguson (2022) and Sequential population attributable fractions Ferguson, O’Connell, and O’Donnell (2020) . Results are presentable in both table and plot format. Package: r-cran-causalqual Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 874 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aer, r-cran-caret, r-cran-cli, r-cran-ggplot2, r-cran-ggsci, r-cran-grf, r-cran-lmtest, r-cran-magrittr, r-cran-ocf, r-cran-rdrobust, r-cran-sandwich, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-causalqual_1.0.0-1.ca2004.1_all.deb Size: 637352 MD5sum: fc65a5dfdb8645c1240eece1f048bc0d SHA1: ece17b1f41793ba64dfda1f37e949c354c1a172f SHA256: 1c994dbe544766e295c018ad9220a117042743e5f5621974e93aaa5c2030cb09 SHA512: 4c0780f082efd9725912768f6e6b8cb97d07ac06ece7509920d4c46a0ed6cf2e1fc830f392f23d90c4b6ca5acc10bc60d39a47f1e0c75ea92b28e49014fe7540 Homepage: https://cran.r-project.org/package=causalQual Description: CRAN Package 'causalQual' (Causal Inference for Qualitative Outcomes) Implements the framework introduced in Di Francesco and Mellace (2025) , shifting the focus to well-defined and interpretable estimands that quantify how treatment affects the probability distribution over outcome categories. 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Package: r-cran-causalreg Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-causalreg_0.1.0-1.ca2004.1_all.deb Size: 36992 MD5sum: 7c86f4b7a04fea86a68625cd09a73b97 SHA1: 5b1c1674fee54f160144cb949fc3af5bb5d2b27d SHA256: e2ce2ba58a2009bcab0a45a93b65840703c676c59acdbcd59bc55b1032638358 SHA512: a01f803df385a12d513c4352f76257324ca66df49217902206aedc501e7a92e6e972d99338483a9aa6f97347d3dcb829249a337dab6861314469248d45108cb5 Homepage: https://cran.r-project.org/package=causalreg Description: CRAN Package 'causalreg' (Causal Generalized Linear Models) An implementation of methods for causal discovery in a structural causal model where the conditional distribution of the target node is described by a generalized linear model conditional on its causal parents. Package: r-cran-causalsens Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 996 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-causalsens_0.1.3-1.ca2004.1_all.deb Size: 402108 MD5sum: 8beeb0528537dd9694a588d60048ca71 SHA1: ec110fd4f01f65e0e2f161196d67832ee94769f4 SHA256: 9e95f9cae3f458841ae40d2fe82ccff85ee3189ba3cc7ce56318300a3d6cd45d SHA512: 394b51fef1751eec42e913bd00f6f79b045151f706e2954eec560fa23bdb94ada82842c6bdd679ff875a6b887cee02a23a193ead130e89b27595d9f9eeaf2d41 Homepage: https://cran.r-project.org/package=causalsens Description: CRAN Package 'causalsens' (Selection Bias Approach to Sensitivity Analysis for CausalEffects) The causalsens package provides functions to perform sensitivity analyses and to study how various assumptions about selection bias affects estimates of causal effects. 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Specifically, the package includes methods for estimating average treatment effects, direct and indirect effects in causal mediation analysis, and dynamic treatment effects. The models refer to studies of Froelich (2007) , Huber (2012) , Huber (2014) , Huber (2014) , Froelich and Huber (2017) , Hsu, Huber, Lee, and Lettry (2020) , and others. Package: r-cran-causcor Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cowplot, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-writexls Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-causcor_0.1.3-1.ca2004.1_all.deb Size: 35636 MD5sum: 26229e565a00d62dde37ffffaf4bb9bb SHA1: 1c7418fb3778fc711d178202398a75f949223f59 SHA256: f0d9f0a61a06d32829852bf6b7bc0a8377db1d1cae41017d64ba3a8b6fc3d454 SHA512: b9f90e72e0e6c729afe9f442d7d0571667799b84bcce47285973dc44fa612b7c115760f0a32a7c05cd89934413a03d6a791813d03aff5d99e47e45e0fe21cecc Homepage: https://cran.r-project.org/package=CausCor Description: CRAN Package 'CausCor' (Calculate Correlations and Estimate Causality) This tool performs pairwise correlation analysis and estimate causality. Particularly, it is useful for detecting the metabolites that would be altered by the gut bacteria. Package: r-cran-causens Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 642 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-devtools, r-cran-knitr, r-cran-pkgdown, r-cran-psweight, r-cran-rjags, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat, r-cran-usethis, r-cran-waldo Filename: pool/dists/focal/main/r-cran-causens_0.0.3-1.ca2004.1_all.deb Size: 570764 MD5sum: 14f8e6575066bfae3bc43af6112da821 SHA1: e30e110c97d628469e44913a86327af86b43a1e9 SHA256: 59be02dd9949ecc3629106db83b97308af8ca473556c97d83df767b13127244f SHA512: bc5fc5c101f54474b5c9bbe5e7b4716746c4a6f45dc3b6b3c696bc7a7a8c8dad03a13c7f09badf8b87843094c54d3d06023e3ad645c213eb5ff58ccdd96f093b Homepage: https://cran.r-project.org/package=causens Description: CRAN Package 'causens' (Perform Causal Sensitivity Analyses Using Various StatisticalMethods) While data from randomized experiments remain the gold standard for causal inference, estimation of causal estimands from observational data is possible through various confounding adjustment methods. However, the challenge of unmeasured confounding remains a concern in causal inference, where failure to account for unmeasured confounders can lead to biased estimates of causal estimands. Sensitivity analysis within the framework of causal inference can help adjust for possible unmeasured confounding. In `causens`, three main methods are implemented: adjustment via sensitivity functions (Brumback, Hernán, Haneuse, and Robins (2004) and Li, Shen, Wu, and Li (2011) ), Bayesian parametric modelling and Monte Carlo approaches (McCandless, Lawrence C and Gustafson, Paul (2017) ). Package: r-cran-cavariants Architecture: all Version: 6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggforce, r-cran-ggrepel, r-cran-gridextra, r-cran-ggplot2, r-cran-plotly Filename: pool/dists/focal/main/r-cran-cavariants_6.0-1.ca2004.1_all.deb Size: 157256 MD5sum: e1a58684e9fb795b90d62c0dfe15a609 SHA1: 6e2615e49544619309d03a12ee5c07c22507ce8b SHA256: f777a0676c655ac5be2fcbfaa0fdd269f09bc12b4b8590f36fd44f53a7735542 SHA512: 361052d0ba93683c90a03947546813dee77f7a54c7bebe1eff1d08fbe78fd726ef41195d5116ec7dade0e72d9bd0136070b0c692a2fdeba1036432c2b995efb3 Homepage: https://cran.r-project.org/package=CAvariants Description: CRAN Package 'CAvariants' (Correspondence Analysis Variants) Provides six variants of two-way correspondence analysis (ca): simple ca, singly ordered ca, doubly ordered ca, non symmetrical ca, singly ordered non symmetrical ca, and doubly ordered non symmetrical ca. Package: r-cran-cbamodel Architecture: all Version: 0.0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-cbamodel_0.0.1.2-1.ca2004.1_all.deb Size: 22500 MD5sum: 0c26f3f72e39d1167bbe8c1ce3c9cd33 SHA1: 9b6b09c69b2ea0363441e97b9d13e60a81d5fea8 SHA256: 78021e850cc46ce989f7f979d75239ec6aae7fc21c0af5b42bfe08a8143dadb9 SHA512: db6726bfd9b1872af3c873b62261b2e860826ab9634a8a713ad8c2e825dabd7e45f7eb827dc21c4586dd9bd629072bbeae100836b4da6409c59d978a5b920b8a Homepage: https://cran.r-project.org/package=CBAModel Description: CRAN Package 'CBAModel' (Stochastic 3D Structure Model for Binder-Conductive AdditivePhase) Simulation of the stochastic 3D structure model for the nanoporous binder-conductive additive phase in battery cathodes introduced in P. Gräfensteiner, M. Osenberg, A. Hilger, N. Bohn, J. R. Binder, I. Manke, V. Schmidt, M. Neumann (2024) . The model is developed for a binder-conductive additive phase of consisting of carbon black, polyvinylidene difluoride binder and graphite particles. For its stochastic 3D modeling, a three-step procedure based on methods from stochastic geometry is used. First, the graphite particles are described by a Boolean model with ellipsoidal grains. Second, the mixture of carbon black and binder is modeled by an excursion set of a Gaussian random field in the complement of the graphite particles. Third, large pore regions within the mixture of carbon black and binder are described by a Boolean model with spherical grains. Package: r-cran-cbanalysis Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cbanalysis_0.2.0-1.ca2004.1_all.deb Size: 17976 MD5sum: c30f2d03e46946ff43c7ad4deff0207e SHA1: f719f2aa93888acbaada97c9a67f463d9133e99a SHA256: 06b816d0d6c843e9a93b86e4b28d0a94a9b32851641ee23e9c9495e9cef183a3 SHA512: 2b92b250687b4fa0f334891b1a32a2cca2fac22bba087c9094eb04bce554fdca21965f403f0722bbc698b6b53153200de1f7ca782f95ea4e5d4e4f66310cdf78 Homepage: https://cran.r-project.org/package=cbanalysis Description: CRAN Package 'cbanalysis' (Coffee Break Descriptive Analysis) A set of functions that helps you to generate descriptive statistics based on the variable types. Package: r-cran-cbass Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cbass_0.1-1.ca2004.1_all.deb Size: 76092 MD5sum: 5a7e7cd0e25f8c0ac758b5f506936a8f SHA1: 75c014ce53ab75d59c12f6711c7f634616167768 SHA256: f8e00d2221086faf28973766381562766bdab49fe23463c9bbbf30080e0c4319 SHA512: c683878b2bdc81176004ca303961d1078b92cfbc69a92ea5b328b7f478b9b03d1cbf5b349364024caaab4a4aaec86b3929729e3a8a614d44202a44c24b2ccebf Homepage: https://cran.r-project.org/package=cbass Description: CRAN Package 'cbass' (Classification -- Bayesian Adaptive Smoothing Splines) Fit multiclass Classification version of Bayesian Adaptive Smoothing Splines (CBASS) to data using reversible jump MCMC. The multiclass classification problem consists of a response variable that takes on unordered categorical values with at least three levels, and a set of inputs for each response variable. The CBASS model consists of a latent multivariate probit formulation, and the means of the latent Gaussian random variables are specified using adaptive regression splines. The MCMC alternates updates of the latent Gaussian variables and the spline parameters. All the spline parameters (variables, signs, knots, number of interactions), including the number of basis functions used to model each latent mean, are inferred. Functions are provided to process inputs, initialize the chain, run the chain, and make predictions. Predictions are made on a probabilistic basis, where, for a given input, the probabilities of each categorical value are produced. See Marrs and Francom (2023) "Multiclass classification using Bayesian multivariate adaptive regression splines" Under review. 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Minimal requirements are PAM-based photosynthetic efficiency data (or data from any other continuous variable that changes with temperature, e.g. relative bleaching scores) from 4 coral samples (nubbins) subjected to 4 temperature profiles of at least 2 colonies from 1 coral species from 1 site. Please refer to the following CBASS (Coral Bleaching Automated Stress System) papers for in-depth information regarding CBASS acute thermal stress assays, experimental design considerations, and ED5/ED50/ED95 thermal parameters: Nicolas R. Evensen et al. (2023) Christian R. Voolstra et al. (2020) Christian R. Voolstra et al. (2025) . 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Generate a variety of survey designs, including random designs, full factorial designs, orthogonal designs, D-optimal designs, and Bayesian D-efficient designs as well as designs with "no choice" options and "labeled" (also known as "alternative specific") designs. Conveniently inspect the design balance and overlap, and simulate choice data for a survey design either randomly or according to a multinomial or mixed logit utility model defined by user-provided prior parameters. Conduct a power analysis for a given survey design by estimating the same model on different subsets of the data to simulate different sample sizes. Full factorial and orthogonal designs are obtained using the 'DoE.base' package (Grömping, 2018) . D-optimal designs are obtained using the 'AlgDesign' package (Wheeler, 2022) . Bayesian D-efficient designs are obtained using the 'idefix' package (Traets et al, 2020) . Choice simulation and model estimation in power analyses are handled using the 'logitr' package (Helveston, 2023) . Package: r-cran-cbda Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1399 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-superlearner, r-cran-doparallel Suggests: r-cran-knitr, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-cbda_1.0.0-1.ca2004.1_all.deb Size: 882956 MD5sum: e91a0cf5ad36e180f18f1e0b08909724 SHA1: 29c6315fd842be743904a5e007bb8d66070a894f SHA256: 207e412b90465e3a6f55f2a0ce92561bcd3f8349ac06257aa179d092652b758f SHA512: beeb7b21da7949eb265e228f205483e60c84a3811a2397c58ec5d22d368dc3848a7cdbab3bb24225ae5aa73412884195e7f3d48b23b3e646487270065178cc13 Homepage: https://cran.r-project.org/package=CBDA Description: CRAN Package 'CBDA' (Compressive Big Data Analytics) Classification performed on Big Data. 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Users can browse and query genomic data on mutations, copy number alterations and fusions, as well as data on tumor mutational burden ('TMB'), microsatellite instability status ('MSI'), 'FACETS' and select clinical data points (depending on the study). See and Gao et al., (2013) for more information on the cBioPortal web resource. 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The confounder blanket learner (CBL) uses sparse regression techniques to simultaneously perform many conditional independence tests, with complementary pairs stability selection to guarantee finite sample error control. CBL is sound and complete with respect to a so-called "lazy oracle", and works with both linear and nonlinear systems. For details, see Watson & Silva (2022) . 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This method encourages a grouping effect where strongly correlated predictors tend to be in or out of the model together. See Tutz and Ulbricht (2009) and Algamal and Lee (2015) . 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Package: r-cran-cbrt Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 632 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cbrt_0.1.1-1.ca2004.1_all.deb Size: 514092 MD5sum: 09c8d16fa4ca880b7e3e6b9e86901780 SHA1: f57b9a3f99980260781269406db1ccb906c14722 SHA256: 02751bdb9d0a420484719f6be5985c4bacf19d778d2007259d9d406a4a90b182 SHA512: 3de65c93e22d1f4a6ffdd222d063622333360b6c15ba6aa9aaafad6fdaf91e1ade9592af834b17c930ffa23b023bcfe2cd4124d3947880037443d6a667e6be33 Homepage: https://cran.r-project.org/package=CBRT Description: CRAN Package 'CBRT' (CBRT Data on Turkish Economy) The Central Bank of the Republic of Turkey (CBRT) provides one of the most comprehensive time series databases on the Turkish economy. The 'CBRT' package provides functions for accessing the CBRT's electronic data delivery system . It contains the lists of all data categories and data groups for searching the available variables (data series). As of November 3, 2024, there were 40,826 variables in the dataset. The lists of data categories and data groups can be updated by the user at any time. A specific variable, a group of variables, or all variables in a data group can be downloaded at different frequencies using a variety of aggregation methods. 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The central function calculate_price_index() offers a unified interface for running these methods on structured datasets. This package is designed to support index construction workflows for real estate and other domains where quality-adjusted price comparisons over time are essential. The development of this package was funded by Eurostat and Statistics Netherlands (CBS), and carried out by Statistics Netherlands. The HMTS method implemented here is described in Ishaak, Ouwehand and Remøy (2024) . For broader methodological context, see Eurostat (2013, ISBN:978-92-79-25984-5, ). 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Package: r-cran-cdrom Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 861 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cdrom_1.1-1.ca2004.1_all.deb Size: 263048 MD5sum: 22c01697de7a9aaef3cedce36da231e5 SHA1: f1fd5591fcc9ea7b4211834ce99fda48fb2bdd5c SHA256: c9a92195c66fd496a43aeb2972f571d71bb92400b9aa69c91db9d3942426fcd3 SHA512: 7cd6a04dd48d6ca8250c6afa2c5e89894294d9f133851618c381c2e2d29e3ed4ac9acca16cca3fafa6192655678bad5fd69499630ccb0353b55676d7578bb0b5 Homepage: https://cran.r-project.org/package=CDROM Description: CRAN Package 'CDROM' (Phylogenetically Classifies Retention Mechanisms of DuplicateGenes from Gene Expression Data) Classification is based on the recently developed phylogenetic approach by Assis and Bachtrog (2013). The method classifies the evolutionary mechanisms retaining pairs of duplicate genes (conservation, neofunctionalization, subfunctionalization, or specialization) by comparing gene expression profiles of duplicate genes in one species to those of their single- copy ancestral genes in a sister species. Package: r-cran-cds Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-limsolve, r-cran-clue, r-cran-colorspace, r-cran-copula Filename: pool/dists/focal/main/r-cran-cds_1.0.4-1.ca2004.1_all.deb Size: 168664 MD5sum: bb4e2ca94679cc7e3c31ccf08a14b0c9 SHA1: 65d07c2a1661dead99edfb25e6a768f05765ff7a SHA256: 72687218f016aac246b330a80807b10e7b5dd7729dbe330cb5a0aab021baca76 SHA512: f7c447a22dd9eec7ef233fda9e2cb75b1c5095b3a3d8f80954a65cac40cd93f8ae2969735397f36c0ecedc5e4df1f8b7e938110af49123e35f3f066b5f708771 Homepage: https://cran.r-project.org/package=cds Description: CRAN Package 'cds' (Constrained Dual Scaling for Detecting Response Styles) This is an implementation of constrained dual scaling for detecting response styles in categorical data, including utility functions. The procedure involves adding additional columns to the data matrix representing the boundaries between the rating categories. The resulting matrix is then doubled and analyzed by dual scaling. One-dimensional solutions are sought which provide optimal scores for the rating categories. These optimal scores are constrained to follow monotone quadratic splines. Clusters are introduced within which the response styles can vary. The type of response style present in a cluster can be diagnosed from the optimal scores for said cluster, and this can be used to construct an imputed version of the data set which adjusts for response styles. Package: r-cran-cdsampling Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 308 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lpsolve, r-cran-rglpk Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cdsampling_0.1.6-1.ca2004.1_all.deb Size: 134176 MD5sum: 2a9d32f4ddafbf223b81ad8f84af58c5 SHA1: 1f5818d2eebd87759cb456d209ce81b4d01222c5 SHA256: dc1dc177af069a83b388420920db1ec3b9d17543dd28e22ed06fcd4c5f39e378 SHA512: fce4a83ba398ad8d2b73431505d0a621e8502304cbe5f62aea8460ff5c5cfbc83ceaa7a9eb3c3d190f835ff174e78a4a86895c0934e3dfcbfb97ee2daf75446c Homepage: https://cran.r-project.org/package=CDsampling Description: CRAN Package 'CDsampling' (Constrained Sampling in Paid Research Studies) In the context of paid research studies and clinical trials, budget considerations and patient sampling from available populations are subject to inherent constraints. We introduce the 'CDsampling' package, which integrates optimal design theories within the framework of constrained sampling. This package offers the possibility to find both D-optimal approximate and exact allocations for samplings with or without constraints. Additionally, it provides functions to find constrained uniform sampling as a robust sampling strategy with limited model information. Our package offers functions for the computation of the Fisher information matrix under generalized linear models (including regular linear regression model) and multinomial logistic models.To demonstrate the applications, we also provide a simulated dataset and a real dataset embedded in the package. Yifei Huang, Liping Tong, and Jie Yang (2025). Package: r-cran-cdse Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 821 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-geojsonsf, r-cran-httr2, r-cran-jsonlite, r-cran-lubridate, r-cran-lutz, r-cran-sf, r-cran-terra Suggests: r-cran-maps, r-cran-tibble Filename: pool/dists/focal/main/r-cran-cdse_0.2.1-1.ca2004.1_all.deb Size: 586304 MD5sum: f2f58f79d6d04417fde797d861433796 SHA1: 67651dc8d8eb6a49479572235d8bb55c09176477 SHA256: 36b02301505c72b61931f8881a0e5ef8334469e85f86943cc27ae56b727bef4b SHA512: 2fdc22904825ebb23193b8b8588bf62a7ed8ef0106a46f8541f4bb24fc27ac76c5d2452cb2a54df82a4e2ff2a3a108536038860a797a8acdfa20655e2435dd6c Homepage: https://cran.r-project.org/package=CDSE Description: CRAN Package 'CDSE' ('Copernicus Data Space Ecosystem' API Wrapper) Provides interface to the 'Copernicus Data Space Ecosystem' API , mainly for searching the catalog of available data from Copernicus Sentinel missions and obtaining the images for just the area of interest based on selected spectral bands. The package uses the 'Sentinel Hub' REST API interface that provides access to various satellite imagery archives. It allows you to access raw satellite data, rendered images, statistical analysis, and other features. This package is in no way officially related to or endorsed by Copernicus. Package: r-cran-cdss Architecture: all Version: 0.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readods, r-cran-openxlsx Filename: pool/dists/focal/main/r-cran-cdss_0.3-0-1.ca2004.1_all.deb Size: 138700 MD5sum: 42188c98ad8a292b3c50d7b42a7a2270 SHA1: b146504a4fd9353c2006cccccfe2fdcda26cdced SHA256: 4ab94cc13f568986a59b7e3465bee990543063f992288a487d9ed96b5b4a8380 SHA512: 833aeefe659ab21c9e7fa2dcf8d89e27daa8b2d03ea906d02d3ce3d85f0a9c9d5288697c5442c852716d1f2f9ad63c5859bb90b1e2855bc0c1c16c96fd3fbf6e Homepage: https://cran.r-project.org/package=CDSS Description: CRAN Package 'CDSS' (Course-Dependent Skill Structures) Deriving skill structures from skill assignment data for courses (sets of learning objects). Package: r-cran-cdvi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cdvi_0.1.0-1.ca2004.1_all.deb Size: 11684 MD5sum: c6ab4b9f7879992d3e4ee12950b5382c SHA1: 2a78b62c0250d73bff7c8cc203866cbf750fd1d8 SHA256: 3b39bb90314366f198e3fa1e0f1fbc46b0b58fd5504c7787c03f22e4aa5c07d8 SHA512: f47aa7db2fcc92bb6efc1029fc8668b8faf2e517f226e220c1989e44d453682c30220c3662b07f0432b70a679e6fbc66ed2466b7882175ac3cef961f8398663b Homepage: https://cran.r-project.org/package=CDVI Description: CRAN Package 'CDVI' (Cuddy-Della Valle Index for Capturing the Instability in TimeSeries Data) Cuddy-Della valle index gives the degree of instability present in the data by accommodating the effect of a trend. The adjusted R squared value of the best fitted model is chosen. The index is obtained by multiplying the coefficient of variation with square root of one minus the adjusted R-squared value. This package has been developed using concept of Shankar et al. (2022). Package: r-cran-cdvinecopulaconditional Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 167 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-combinat, r-cran-vinecopula Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cdvinecopulaconditional_0.1.1-1.ca2004.1_all.deb Size: 135028 MD5sum: 01235f94ebcd1c414ca0d0f2df2c43f0 SHA1: 4aa559e2c5ff6cf881431f81d47e8a515adb6742 SHA256: 179272cd413620801a8bee44f21c12d67528b0d747bd12c4a901f6301c71d1a7 SHA512: 9a0cba891c70823124f2b9a4a2205a2a584ef6bc725ffaf743bdb5ec74dce42ccf3cf1f33926eb75bb37846183f045cd16bfa68810b5947d8bb8cfd256e7cac1 Homepage: https://cran.r-project.org/package=CDVineCopulaConditional Description: CRAN Package 'CDVineCopulaConditional' (Sampling from Conditional C- and D-Vine Copulas) Provides tools for sampling from a conditional copula density decomposed via Pair-Copula Constructions as C- or D- vine. Here, the vines which can be used for such a sampling are those which sample as first the conditioning variables (when following the sampling algorithms shown in Aas et al. (2009) ). The used sampling algorithm is presented and discussed in Bevacqua et al. (2017) , and it is a modified version of that from Aas et al. (2009) . A function is available to select the best vine (based on information criteria) among those which allow for such a conditional sampling. The package includes a function to compare scatterplot matrices and pair-dependencies of two multivariate datasets. Package: r-cran-ceas Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3954 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-lme4, r-cran-readxl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ceas_1.3.0-1.ca2004.1_all.deb Size: 2582480 MD5sum: 982f4f9927903c01c9a98feea95e320d SHA1: 18f61edb3e79e319a8901c34f246e649e18c8348 SHA256: 9338ff37e4763483cc53bb25ef8238710aa803ed98ac5b593ab59303004c2f80 SHA512: 07633271cce65bf688420a8a87bc6c1d45534e42fd6bdc66f562a00ea623f5c36e956103caaee427b6bd374ce3293b742664565fc1df3ce1b87203ee1f0056b5 Homepage: https://cran.r-project.org/package=ceas Description: CRAN Package 'ceas' (Cellular Energetics Analysis Software) Measuring cellular energetics is essential to understanding a matrix’s (e.g. cell, tissue or biofluid) metabolic state. The Agilent Seahorse machine is a common method to measure real-time cellular energetics, but existing analysis tools are highly manual or lack functionality. The Cellular Energetics Analysis Software (ceas) R package fills this analytical gap by providing modular and automated Seahorse data analysis and visualization using the methods described by Mookerjee et al. (2017) . Package: r-cran-ceda Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3331 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-limma, r-cran-mixtools, r-cran-ggplot2, r-cran-dplyr, r-cran-ggsci, r-cran-ggridges, r-cran-ggprism Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ceda_1.1.1-1.ca2004.1_all.deb Size: 3297360 MD5sum: 848983217f72ed40e9babad9d1db99ac SHA1: 931813f7bffa97e3b6693fc16f47daa2865d1356 SHA256: 850b56d8d0ece0b45b5336531f7f888a8d1790b1ea5ad3185dbbe5e1f170afb2 SHA512: 1c7a96a34478114af3b234fffe46200f7149bc551195130accf4513e099cefc8981b1881f92e06c3362ae1e8c1693520d77efd7c35e626e40aea174d5dd4aece Homepage: https://cran.r-project.org/package=CEDA Description: CRAN Package 'CEDA' (CRISPR Screen and Gene Expression Differential Analysis) Provides analytical methods for analyzing CRISPR screen data at different levels of gene expression. Multi-component normal mixture models and EM algorithms are used for modeling. Package: r-cran-cedars Architecture: all Version: 1.90-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 345 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fastmatch, r-cran-jsonlite, r-cran-mongolite, r-cran-readr, r-cran-shiny, r-cran-udpipe Filename: pool/dists/focal/main/r-cran-cedars_1.90-1.ca2004.1_all.deb Size: 295816 MD5sum: fc1bcb49b4c838039a3708ff55cf6036 SHA1: 3dbc607be0d98bb9d63e55d8d89fd89f04001f9a SHA256: 4c1fe2245dc304feebd2652fc0edb0c763d7d6c147bde8c0af837f20a1c7580c SHA512: 19adbfc9e85cf727eb982805f99de6f8a29c1f205712002deb542a82174ea63876437ad6ceb23a372c8b7954883e9ce53f1a4c88668b02bac1233119a2a64e26 Homepage: https://cran.r-project.org/package=CEDARS Description: CRAN Package 'CEDARS' (Simple and Efficient Pipeline for Electronic Health RecordAnnotation) Streamlined annotation pipeline for collection and aggregation of time-to-event data in retrospective clinical studies. 'CEDARS' aims to systematize and accelerate the review of electronic health record (EHR) corpora. It accomplishes those goals by deploying natural language processing as a tool to assist detection and characterization of clinical events by human abstractors. The online user manual presents the necessary steps to install 'CEDARS', process EHR corpora and obtain clinical event dates: . Package: r-cran-ceemdanml Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rlibeemd, r-cran-tseries, r-cran-forecast, r-cran-fgarch, r-cran-atsa, r-cran-fints, r-cran-lsts, r-cran-earth, r-cran-caret, r-cran-neuralnet, r-cran-e1071, r-cran-pso Filename: pool/dists/focal/main/r-cran-ceemdanml_0.1.0-1.ca2004.1_all.deb Size: 50212 MD5sum: a76e7c827e79ea9293c7f44b9ab08c20 SHA1: 6aba0ae47573783bc218a2068766f78f4005f409 SHA256: 21eeaee97824d59ad3a6e58e7b0c70ef7891d4190defd16b5fdd9d1bfb0d0233 SHA512: 05e9653503bbf38988630c367802a8b0dcd3f3e2885f85d4f243d50a005a74eef10d2e28697a9097184309e7f787728364dd6608a665533285ddd1f168a1eca6 Homepage: https://cran.r-project.org/package=CEEMDANML Description: CRAN Package 'CEEMDANML' (CEEMDAN Decomposition Based Hybrid Machine Learning Models) Noise in the time-series data significantly affects the accuracy of the Machine Learning (ML) models (Artificial Neural Network and Support Vector Regression are considered here). Complete Ensemble Empirical Mode Decomposition with Adaptive Noise (CEEMDAN) decomposes the time series data into sub-series and help to improve the model performance. The models can achieve higher prediction accuracy than the traditional ML models. Two models have been provided here for time series forecasting. More information may be obtained from Garai and Paul (2023) . Package: r-cran-ceg Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 339 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-graph, r-bioc-rgraphviz Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ceg_0.1.0-1.ca2004.1_all.deb Size: 244576 MD5sum: 57765847aa33f9d87fcb659929dcdcca SHA1: d600e50f476ae7e624578744b821f485bf907976 SHA256: 2fc748bf7eedc10e46260cd65cb58f3d44853ea33b26cf263005335b980c1d6a SHA512: 1571125955d753e8d17ce5bbe415e0672549bd0e32ca9ef18e0129c481aa2a1ff1c93d3a842ff989107abfcdf4550b774e75e3aa210d954def21b8ff162fa230 Homepage: https://cran.r-project.org/package=ceg Description: CRAN Package 'ceg' (Chain Event Graph) Create and learn Chain Event Graph (CEG) models using a Bayesian framework. It provides us with a Hierarchical Agglomerative algorithm to search the CEG model space. The package also includes several facilities for visualisations of the objects associated with a CEG. The CEG class can represent a range of relational data types, and supports arbitrary vertex, edge and graph attributes. A Chain Event Graph is a tree-based graphical model that provides a powerful graphical interface through which domain experts can easily translate a process into sequences of observed events using plain language. CEGs have been a useful class of graphical model especially to capture context-specific conditional independences. References: Collazo R, Gorgen C, Smith J. Chain Event Graph. CRC Press, ISBN 9781498729604, 2018 (forthcoming); and Barday LM, Collazo RA, Smith JQ, Thwaites PA, Nicholson AE. The Dynamic Chain Event Graph. Electronic Journal of Statistics, 9 (2) 2130-2169 . Package: r-cran-celestial Architecture: all Version: 1.4.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 404 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rann, r-cran-nistunits, r-cran-pracma Filename: pool/dists/focal/main/r-cran-celestial_1.4.6-1.ca2004.1_all.deb Size: 359832 MD5sum: 0fe57267351771144fb526fd22be34ba SHA1: eae3321521001ab49a9c5354e83cf768f36eed10 SHA256: 91b69b0f1b55cdac7eff15bedc3f59d076d265a06209832ffa9e28ec6fa3477e SHA512: 91ba724fd3ac74e84d8658ee10f32bfa39cc90fb44651e50e5298452da372e23f8358e8987f50b72bb3b6eb203c13f325ca7eb6b037824e7ff60bde11032278d Homepage: https://cran.r-project.org/package=celestial Description: CRAN Package 'celestial' (Collection of Common Astronomical Conversion Routines andFunctions) Contains a number of common astronomy conversion routines, particularly the HMS and degrees schemes, which can be fiddly to convert between on mass due to the textural nature of the former. It allows users to coordinate match datasets quickly. It also contains functions for various cosmological calculations. Package: r-cran-cellkey Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5008 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sdchierarchies, r-cran-data.table, r-cran-rlang, r-cran-digest, r-cran-sdctable, r-cran-ptable, r-cran-cli, r-cran-yaml Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cellkey_1.0.2-1.ca2004.1_all.deb Size: 4962060 MD5sum: 2eaff404d8eec49db8c6c03fc14a3a2c SHA1: 406043f787444f198ed924dac0d08c6e54bac0ed SHA256: a5e963a0d73d4f50b4d732c8cce62114133a10bd498bca70f4a535dcd76e6ec0 SHA512: 196c883ea949b827991dde549dc5b79cd929038b6da0ccddd6cde853bcc880f2dada8e5ed3d33b0e9477cdd6505a66cf75226366f91581ab7e2967e7ef1e331d Homepage: https://cran.r-project.org/package=cellKey Description: CRAN Package 'cellKey' (Consistent Perturbation of Statistical Frequency- And MagnitudeTables) Data from statistical agencies and other institutions often need to be protected before they can be published. This package can be used to perturb statistical tables in a consistent way. The main idea is to add - at the micro data level - a record key for each unit. Based on these keys, for any cell in a statistical table a cell key is computed as a function on the record keys contributing to a specific cell. Values that are added to the cell in order to perturb it are derived from a lookup-table that maps values of cell keys to specific perturbation values. The theoretical basis for the methods implemented can be found in Thompson, Broadfoot and Elazar (2013) which was extended and enhanced by Giessing and Tent (2019) . Package: r-cran-cellorigins Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 768 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-iterpc Filename: pool/dists/focal/main/r-cran-cellorigins_0.1.3-1.ca2004.1_all.deb Size: 316644 MD5sum: a27dcfc092d6269d1048df780d98e1b4 SHA1: 5a1e8d1a08a2b2185c34b823b47f476d8e59c8cf SHA256: 3997ab2a89116f23e8aa666b28d264e8e1ceb4326a07bed5d03b2ccdc7335fd5 SHA512: 2f398dfca87fb2ee1b0481bd7f915b3156959d42c0991567dabfb544fe53746ff596dfa0b940c4a8755910ff3680e7c4536f34df2ce162a55ba1509b4ceecb8e Homepage: https://cran.r-project.org/package=cellOrigins Description: CRAN Package 'cellOrigins' (Finds RNASeq Source Tissues Using In Situ Hybridisation Data) Finds the most likely originating tissue(s) and developmental stage(s) of tissue-specific RNA sequencing data. The package identifies both pure transcriptomes and mixtures of transcriptomes. The most likely identity is found through comparisons of the sequencing data with high-throughput in situ hybridisation patterns. Typical uses are the identification of cancer cell origins, validation of cell culture strain identities, validation of single-cell transcriptomes, and validation of identity and purity of flow-sorting and dissection sequencing products. Package: r-cran-cellpypes Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1228 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-scutils, r-cran-ggplot2, r-cran-matrix, r-cran-rlang, r-cran-viridis, r-cran-cowplot, r-cran-dplyr, r-cran-scales, r-cran-scattermore Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-seurat, r-bioc-deseq2, r-cran-rcppannoy, r-cran-tibble, r-cran-seuratobject Filename: pool/dists/focal/main/r-cran-cellpypes_0.3.0-1.ca2004.1_all.deb Size: 1069484 MD5sum: 7ae1774088cfd7574cbccec9428114d0 SHA1: 96214c428f4d7a6882acec97d82d694dfbd581b1 SHA256: 46d9bff191e5ba9337628a63b2794baf8956fa7913f0e7f4a6e011848dc068d9 SHA512: 22543cfcfc5bc53564704d92aa7455631943ec67f214309a9a8da3ae1e7081d5aa635ee9000aa956b33b8781c0562dbe87a0e5477230035844780e79a65eaa9d Homepage: https://cran.r-project.org/package=cellpypes Description: CRAN Package 'cellpypes' (Cell Type Pipes for Single-Cell RNA Sequencing Data) Annotate single-cell RNA sequencing data manually based on marker gene thresholds. Find cell type rules (gene+threshold) through exploration, use the popular piping operator '%>%' to reconstruct complex cell type hierarchies. 'cellpypes' models technical noise to find positive and negative cells for a given expression threshold and returns cell type labels or pseudobulks. Cite this package as Frauhammer (2022) and visit for tutorials and newest features. Package: r-cran-cellranger Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rematch, r-cran-tibble Suggests: r-cran-covr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cellranger_1.1.0-1.ca2004.1_all.deb Size: 100236 MD5sum: f74be7760b0aa63da8f4d637bf6c03e2 SHA1: 3a71e93c6997cca21be2ff378bae631592628810 SHA256: d36a6977688ae4927572ec1e3ce9a1ba66465aad8a3ae8e0b4fbf8c22bf9b261 SHA512: c77ff8155cf17a94f65bbc9118a46e7d3ea57826bb5c82b1eaa07ce00e98ac8c717470d95332e38a8abbd3ef0d8ef664207575c94fcb1cf19925255eeb53974c Homepage: https://cran.r-project.org/package=cellranger Description: CRAN Package 'cellranger' (Translate Spreadsheet Cell Ranges to Rows and Columns) Helper functions to work with spreadsheets and the "A1:D10" style of cell range specification. Package: r-cran-celltrackr Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4987 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ellipse, r-cran-pracma Suggests: r-cran-scatterplot3d, r-cran-fractaldim, r-cran-testthat, r-cran-wordspace, r-cran-knitr, r-cran-rmarkdown, r-cran-rspectra, r-cran-uwot, r-cran-dendextend, r-cran-ggplot2, r-cran-ggbeeswarm, r-cran-gridextra, r-cran-mvtnorm, r-cran-jsonlite, r-cran-httr, r-cran-curl Filename: pool/dists/focal/main/r-cran-celltrackr_1.2.1-1.ca2004.1_all.deb Size: 3410416 MD5sum: abda6667d1925601997f5b1cec9b38f0 SHA1: 138a5dd29be721dca9b2f96738a46f3e7a1d1ccc SHA256: 7ddb65d304be6937ef8694b78662525e5d27bb6bbbe5072b1b8a91a6d53f8360 SHA512: 1d8f9071dad07d71ee2cd7d507f796cba41477c917da9e77b830476e797c88bf97d03ff8f81c6236aa092be3bf97e74ca34112a982e853596f39c569afdb6726 Homepage: https://cran.r-project.org/package=celltrackR Description: CRAN Package 'celltrackR' (Motion Trajectory Analysis) Methods for analyzing (cell) motion in two or three dimensions. Available measures include displacement, confinement ratio, autocorrelation, straightness, turning angle, and fractal dimension. Measures can be applied to entire tracks, steps, or subtracks with varying length. While the methodology has been developed for cell trajectory analysis, it is applicable to anything that moves including animals, people, or vehicles. Some of the methodology implemented in this packages was described by: Beauchemin, Dixit, and Perelson (2007) , Beltman, Maree, and de Boer (2009) , Gneiting and Schlather (2004) , Mokhtari, Mech, Zitzmann, Hasenberg, Gunzer, and Figge (2013) , Moreau, Lemaitre, Terriac, Azar, Piel, Lennon-Dumenil, and Bousso (2012) , Textor, Peixoto, Henrickson, Sinn, von Andrian, and Westermann (2011) , Textor, Sinn, and de Boer (2013) , Textor, Henrickson, Mandl, von Andrian, Westermann, de Boer, and Beltman (2014) . Package: r-cran-cellularautomata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 338 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gganimate, r-cran-ggplot2, r-cran-patchwork, r-cran-purrr, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cellularautomata_0.1.0-1.ca2004.1_all.deb Size: 210584 MD5sum: dacc4dda4948dbf904007f6e6b0a5b7a SHA1: 807de621963e819ee5a784a9fb5d0fc07d46e5a2 SHA256: 37ed1ded9a442a44dd23526c55286027e3fe30f6150115203f5e02b41c78ac1c SHA512: 49f7d7f928fa5f479148083cbe650d297f4395aa8ad012118cf94e2caa1f51ac5c10142be0489c77664ae60edb16e08da3d3e42f1fc8ead989cd3394a1f5d5ad Homepage: https://cran.r-project.org/package=cellularautomata Description: CRAN Package 'cellularautomata' (Cellular Automata) Create cellular automata from 'Wolfram' rules. Allows the creation of 'Wolfram' style plots, as well as of animations. Easy to create multiple plots, for example the output of a rule with different initial states, or the output of many different rules from the same state. The output of a cellular automaton is given as a matrix, making it easy to try to explore the possibility of predicting its time evolution using various statistical tools available in R. Wolfram S. (2002, ISBN:1579550088) "A New Kind of Science". Package: r-cran-cellvolumedist Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-minpack.lm, r-cran-gplots Filename: pool/dists/focal/main/r-cran-cellvolumedist_1.4-1.ca2004.1_all.deb Size: 51984 MD5sum: ab3a16348e661b646a457b74ea638ecc SHA1: 8b78a0805f50090c3cf3b59fb183504feef7864d SHA256: be49f244b063df6582c3a7b0a95d8f7035e3c01bf59110eb51f7db1ad57bc4fc SHA512: 96a4825954705047ba10862b7eef81e729b385f8330f8601c2fe370d8fdbf0d6fcde88dcaf1840553eab40ec017b0305a4811f00493a08b44bfc2319f61fee5e Homepage: https://cran.r-project.org/package=cellVolumeDist Description: CRAN Package 'cellVolumeDist' (Functions to Fit Cell Volume Distributions and Thereby EstimateCell Growth Rates and Division Times) Implements a methodology for using cell volume distributions to estimate cell growth rates and division times that is described in the paper entitled, "Cell Volume Distributions Reveal Cell Growth Rates and Division Times", by Michael Halter, John T. Elliott, Joseph B. Hubbard, Alessandro Tona and Anne L. Plant, which is in press in the Journal of Theoretical Biology. In order to reproduce the analysis used to obtain Table 1 in the paper, execute the command "example(fitVolDist)". Package: r-cran-cem Architecture: all Version: 1.1.31-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 756 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-lattice, r-cran-matchit, r-cran-combinat, r-cran-randomforest, r-cran-nlme Suggests: r-cran-amelia Filename: pool/dists/focal/main/r-cran-cem_1.1.31-1.ca2004.1_all.deb Size: 678020 MD5sum: 436b16f8b18ea39ac4be2c62d09c180b SHA1: be99a230130289ef4b4ce8f6a257767fd10ad4ad SHA256: 3aee63bb1ce886ff105c9271d9d60747c80254deafd8314a5fdf01e4668aa54e SHA512: 9cb7e0fa96585828c59a8b93852eaec91663368fcac8ea1e5958ab94e583d1f6ce8894dad52e06f0003b640b2387151ba6c5706e6eadb7e7d1e117cf8bec3478 Homepage: https://cran.r-project.org/package=cem Description: CRAN Package 'cem' (Coarsened Exact Matching) Implementation of the Coarsened Exact Matching algorithm discussed along with its properties in Iacus, King, Porro (2011) ; Iacus, King, Porro (2012) and Iacus, King, Porro (2019) . Package: r-cran-cemco Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-doparallel, r-cran-nnet, r-cran-rootsolve, r-cran-foreach, r-cran-mass, r-cran-mclust, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-cemco_0.2-1.ca2004.1_all.deb Size: 50824 MD5sum: 5bfb919b3cfd0bbb560c0a4edeb9513b SHA1: 23fce744d96316d3247c1fbabbaa2b4efde18269 SHA256: cc4184aab5d1ca22e8201897a3103094a8f7a95a35da02155824714e7506a9f4 SHA512: 41c1bb1696b694ad43e530d07ac0f1c57281485743c87b9d7a1e78f1efe322e5852c9e612528d550ddce257294b601af523bc549a3a78e7c049de9539b07dee9 Homepage: https://cran.r-project.org/package=cemco Description: CRAN Package 'cemco' (Fit 'CemCO' Algorithm) 'CemCO' algorithm, a model-based (Gaussian) clustering algorithm that removes/minimizes the effects of undesirable covariates during the clustering process both in cluster centroids and in cluster covariance structures (Relvas C. & Fujita A., (2020) ). Package: r-cran-cenbar Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach, r-cran-mass, r-cran-mvtnorm, r-cran-glmnet, r-cran-survival, r-cran-cvtools Filename: pool/dists/focal/main/r-cran-cenbar_0.1.1-1.ca2004.1_all.deb Size: 43228 MD5sum: 0c8f10f8f10687b1ce9a99f55aeacdeb SHA1: 69e889c7572e19d07138173cc75d2005f94574e9 SHA256: 7db09ec858520132636278765d8afb184e54ee036d985eb489ae55e71930f1cb SHA512: c0782dab82f79d87cffee88cb5213c485d3349a955120f9f2cc1891496499b0c992c24f585fc1863d7575ccb88f729be80c00114da610f9ca210b4a9e7bb1609 Homepage: https://cran.r-project.org/package=CenBAR Description: CRAN Package 'CenBAR' (Broken Adaptive Ridge AFT Model with Censored Data) Broken adaptive ridge estimator for censored data is used to select variables and estimate their coefficients in the semi-parametric accelerated failure time model for right-censored survival data. Package: r-cran-cencrne Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2077 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cencrne_1.0.0-1.ca2004.1_all.deb Size: 2060288 MD5sum: a94acd32c9adfb751a7726b00e3d9c6d SHA1: a4bcf956c82f4cb494387d6b1589b76644cb2493 SHA256: 271120f43ad28ffde30827f9984a717ec26912ef12023516a32f84546722924a SHA512: e7e5a58fe6c59cb0f501d386ea30b1e15577f2589e4020489b49a2ff11a91fbc2fed2f65bd6595f90ef7ec6728fb60db4a065edcc4592b7d8b1c7aa0b9c437ba Homepage: https://cran.r-project.org/package=cencrne Description: CRAN Package 'cencrne' (Consistent Estimation of the Number of Communities viaRegularized Network Embedding) The network analysis plays an important role in numerous application domains including biomedicine. Estimation of the number of communities is a fundamental and critical issue in network analysis. Most existing studies assume that the number of communities is known a priori, or lack of rigorous theoretical guarantee on the estimation consistency. This method proposes a regularized network embedding model to simultaneously estimate the community structure and the number of communities in a unified formulation. The proposed model equips network embedding with a novel composite regularization term, which pushes the embedding vector towards its center and collapses similar community centers with each other. A rigorous theoretical analysis is conducted, establishing asymptotic consistency in terms of community detection and estimation of the number of communities. Reference: Ren, M., Zhang S. and Wang J. (2022). "Consistent Estimation of the Number of Communities via Regularized Network Embedding". Biometrics, . Package: r-cran-cengam Architecture: all Version: 0.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 309 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-cengam_0.5.4-1.ca2004.1_all.deb Size: 276928 MD5sum: 5f42ab9d68d45a6aa2c28b413c95a02b SHA1: d217dad345c4a5c37abb3c5bf8590e17c8c6bf66 SHA256: e2505b1cce312d86ce570d589627521c83bb3a54f347cf08ed54ee9bb4aa3327 SHA512: 6329819299046aeeabb697680b5c87acf3996ffc8bc3008692bf15aeb3c3d420f9480504044c2096ca3a53b8bdac284fd4fc6b746f5ef8200879dca8ce21cca7 Homepage: https://cran.r-project.org/package=cenGAM Description: CRAN Package 'cenGAM' (Censored Regression with Smooth Terms) Implementation of Tobit type I and type II families for censored regression using the 'mgcv' package, based on methods detailed in Woods (2016) . Package: r-cran-censable Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 529 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-rlang, r-cran-sf, r-cran-tibble, r-cran-stringr, r-cran-memoise, r-cran-purrr, r-cran-censusapi, r-cran-tinytiger Suggests: r-cran-roxygen2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-censable_0.0.5-1.ca2004.1_all.deb Size: 465832 MD5sum: 3a04673c35b12faca4a8324aeecc77e3 SHA1: c2d70b88ac6c41e875189766024b1ae91690d9b1 SHA256: a2a415d2903de02cfd23225567061acf6665d6fa9895fac91a0b9618ece51637 SHA512: e35985c78d7c4ce29ad3a4824810250bc3cb6062e130b022eb7e4bd0dea795b2cadaa4812c8ba6a0f12fe729269edf3a543e8ef5f53893b12cfb7ed6192eefe7 Homepage: https://cran.r-project.org/package=censable Description: CRAN Package 'censable' (Making Census Data More Usable) Creates a common framework for organizing, naming, and gathering population, age, race, and ethnicity data from the Census Bureau. Accesses the API . Provides tools for adding information to existing data to line up with Census data. Package: r-cran-censcov Architecture: all Version: 1.0-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-censcov_1.0-0-1.ca2004.1_all.deb Size: 49724 MD5sum: 8e39454bcc48436ac39cc1aa7cc05a2a SHA1: cedab29d70430bad83a9058a4af3bd7b94227e68 SHA256: 2e9e900f396104c77d4e2899ceb247ccd24fa072b2cbd7f277bdba18265f0ec3 SHA512: e15756bc2d0fd6e49cce06f0178e0920cfcdcfb30d12fca4978faac7bdb3b55ddbbd3abf5b637bb92a0e9d12fa9b16aff465cec0ab05669722a0658b566f0cdc Homepage: https://cran.r-project.org/package=censCov Description: CRAN Package 'censCov' (Linear Regression with a Randomly Censored Covariate) Implementations of threshold regression approaches for linear regression models with a covariate subject to random censoring, including deletion threshold regression and completion threshold regression. Reverse survival regression, which flip the role of response variable and the covariate, is also considered. Package: r-cran-censmfm Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-momtrunc, r-cran-mvtnorm, r-cran-gridextra, r-cran-ggplot2, r-cran-tlrmvnmvt Suggests: r-cran-mixsmsn Filename: pool/dists/focal/main/r-cran-censmfm_3.1-1.ca2004.1_all.deb Size: 155196 MD5sum: 13745b04611d3e385d29716647595da8 SHA1: 4b8cd5dfe57a3e73f853b21921e6b1cce4af2b40 SHA256: bae563043bec20e20c63352adecb8e80c57dcb9369485f00096fd2d4fbf4f75d SHA512: 1259607c682cc3449d157c0d1be803dc05b816c46f059d2bff1b2f5f08ea604813a84591f095aa6bb030ad7cd531ccfd469a84db841be7c9b6ee5a5d7ea24e4f Homepage: https://cran.r-project.org/package=CensMFM Description: CRAN Package 'CensMFM' (Finite Mixture of Multivariate Censored/Missing Data) It fits finite mixture models for censored or/and missing data using several multivariate distributions. Point estimation and asymptotic inference (via empirical information matrix) are offered as well as censored data generation. Pairwise scatter and contour plots can be generated. Possible multivariate distributions are the well-known normal, Student-t and skew-normal distributions. This package is an complement of Lachos, V. H., Moreno, E. J. L., Chen, K. & Cabral, C. R. B. (2017) for the multivariate skew-normal case. Package: r-cran-censo2017 Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dbi, r-cran-duckdb, r-cran-httr, r-cran-tibble, r-cran-purrr, r-cran-cli, r-cran-crayon, r-cran-rstudioapi Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-dplyr, r-cran-dbplyr, r-cran-ggplot2, r-cran-chilemapas Filename: pool/dists/focal/main/r-cran-censo2017_0.6.2-1.ca2004.1_all.deb Size: 59856 MD5sum: 1b1f6639ea4c01f37beb25e2bcf1da17 SHA1: 3679987c84ae3f63feb2fa4920d079efbcad8d85 SHA256: ab526d7388624782905bda66fd11f05814868ac2e1c15f64e600eced9f39e054 SHA512: 3b8bc7daaf9a6f719c17bd524a2ccaec279d3432a91d9bdf4d948a46b5e40603570a356e8bc16b6ee3d3ba8dd6014d86673c2da8abc49505f85021637885f328 Homepage: https://cran.r-project.org/package=censo2017 Description: CRAN Package 'censo2017' (Base de Datos de Facil Acceso del Censo 2017 de Chile (2017Chilean Census Easy Access Database)) Provee un acceso conveniente a mas de 17 millones de registros de la base de datos del Censo 2017. Los datos fueron importados desde el DVD oficial del INE usando el Convertidor REDATAM creado por Pablo De Grande. Esta paquete esta documentado intencionalmente en castellano asciificado para que funcione sin problema en diferentes plataformas. (Provides convenient access to more than 17 million records from the Chilean Census 2017 database. The datasets were imported from the official DVD provided by the Chilean National Bureau of Statistics by using the REDATAM converter created by Pablo De Grande and in addition it includes the maps accompanying these datasets.) Package: r-cran-censobr Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 529 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arrow, r-cran-checkmate, r-cran-curl, r-cran-dplyr, r-cran-duckdb, r-cran-fs, r-cran-glue Suggests: r-cran-covr, r-cran-dbi, r-cran-dbplyr, r-cran-geobr, r-cran-ggplot2, r-cran-rmarkdown, r-cran-knitr, r-cran-scales, r-cran-testthat Filename: pool/dists/focal/main/r-cran-censobr_0.4.1-1.ca2004.1_all.deb Size: 301584 MD5sum: a8951b8f33f670cad0d233f37ca85f1f SHA1: ea54b05eed162a36350360ea69107e65c0cebfd5 SHA256: a31f4a525aabb3ea22b194061d37fb8468cf7c8d561127624a512cb8cfb36ab6 SHA512: bf4451e38d134dca5d3aa3524393415e71a9586b69d0bb851246c4a50c5a1f675fc9da1815ffabfc09948f28a57ed0771a9cedc0a0e87972b8da215308c4add7 Homepage: https://cran.r-project.org/package=censobr Description: CRAN Package 'censobr' (Download Data from Brazil's Population Census) Easy access to data from Brazil's population censuses. The package provides a simple and efficient way to download and read the data sets and the documentation of all the population censuses taken in and after 1960 in the country. The package is built on top of the 'Arrow' platform , which allows users to work with larger-than-memory census data using 'dplyr' familiar functions. . Package: r-cran-censorcopula Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-copula Filename: pool/dists/focal/main/r-cran-censorcopula_2.0-1.ca2004.1_all.deb Size: 22332 MD5sum: c552687cbf8f453f29eee5e610660f49 SHA1: 547a6841882c401b1a45d05ba47c97753c39845c SHA256: dd1d0ea47ccfd5c021dcc9d3316a1cf20bb56c02119d3417b876f9cea6655e7a SHA512: a5aaae9e5d07ab3f8bf3618a8d5b76f956d52bb05781f6d37964fdbe9610db7caf7f1e455e5cd93072c28bb30c8e057e49bac5eda0166496f2cb48d0aa98a080 Homepage: https://cran.r-project.org/package=censorcopula Description: CRAN Package 'censorcopula' (Estimate Parameter of Bivariate Copula) Implement an interval censor method to break ties when using data with ties to fitting a bivariate copula. Package: r-cran-censored Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 269 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-parsnip, r-cran-survival, r-cran-cli, r-cran-dials, r-cran-dplyr, r-cran-generics, r-cran-glue, r-cran-hardhat, r-cran-lifecycle, r-cran-mboost, r-cran-prodlim, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-vctrs Suggests: r-cran-aorsf, r-cran-coin, r-cran-covr, r-cran-flexsurv, r-cran-glmnet, r-cran-ipred, r-cran-partykit, r-cran-pec, r-cran-rmarkdown, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-censored_0.3.3-1.ca2004.1_all.deb Size: 217936 MD5sum: 459901fe1062a3bb2408aa7537751fb2 SHA1: a64dc172c0e2a38f684a122e057562238c9d2704 SHA256: 881d983501b6b2b5e26ebca217ca94f63f710307d24663b655589900dfa19f45 SHA512: b6fde0d3e37bd3f3168a1eb45a388c6812a013b3ea7e654f236367082857f15ad071df9e22f881d0ea223c69d53baf770fc935a42a934dd7233de2cb48d52cf1 Homepage: https://cran.r-project.org/package=censored Description: CRAN Package 'censored' ('parsnip' Engines for Survival Models) Engines for survival models from the 'parsnip' package. These include parametric models (e.g., Jackson (2016) ), semi-parametric (e.g., Simon et al (2011) ), and tree-based models (e.g., Buehlmann and Hothorn (2007) ). Package: r-cran-censoredaids Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 471 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-mnormt, r-cran-mvtnorm, r-cran-matrixcalc Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-censoredaids_1.0.0-1.ca2004.1_all.deb Size: 441952 MD5sum: ae84941aacabff28ce63ed8cd34a9592 SHA1: e26d12335131d1492939aef093919eb7dbada921 SHA256: 85587776ba8477f83874947ddbc3a84d33093c85e4c6be5de193fba6b3609e0b SHA512: e4f8a79e1a72bb6ac661bdfdeb1b8c182038ddab50dde3cd95ac8ff177b54095a0d7baa540a373bd870ce2f8f344622c6ed1793ad7e966edf6160d0ae9e7b2dc Homepage: https://cran.r-project.org/package=censoredAIDS Description: CRAN Package 'censoredAIDS' (Estimation of Censored AI/QUAI Demand System via MaximumLikelihood Estimation (MLE)) Tools for estimating censored Almost Ideal (AI) and Quadratic Almost Ideal (QUAI) demand systems using Maximum Likelihood Estimation (MLE). It includes functions for calculating demand share equations and the truncated log-likelihood function for a system of equations, incorporating demographic variables. The package is designed to handle censored data, where some observations may be zero due to non-purchase of certain goods. Package also contains a procedure to approximate demand elasticities numerically and estimate standard errors via Delta Method. It is particularly useful for applied researchers analyzing household consumption data. Package: r-cran-censreg Architecture: all Version: 0.5-38-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 273 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-maxlik, r-cran-glmmml, r-cran-sandwich, r-cran-misctools, r-cran-plm Suggests: r-cran-aer, r-cran-lmtest Filename: pool/dists/focal/main/r-cran-censreg_0.5-38-1.ca2004.1_all.deb Size: 208840 MD5sum: 8218960a83f41bc3d9bc0a67f6ffe527 SHA1: 380078e1ec6938b5ad8dcdfea1f558516513808f SHA256: cfffad72b9c37fc2ded2856cde77c4340cd8acb852fba0f4c7e782f558a05fd0 SHA512: 758b1f30bd48633d19fc822d69d0d0f1767b0936e6caa6d82b99c2050e54d65df90635eec3744e62b05dbeb7a7cdfd6b62b3a78437192a458dd795f27f2a590b Homepage: https://cran.r-project.org/package=censReg Description: CRAN Package 'censReg' (Censored Regression (Tobit) Models) Maximum Likelihood estimation of censored regression (Tobit) models with cross-sectional and panel data. Package: r-cran-censregmod Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-censregmod_1.0-1.ca2004.1_all.deb Size: 59224 MD5sum: 2370cdf2c34d4c6372f64b14a3c35dea SHA1: c3b17a5c512d0bb1e3d449d74ed45f0a3af065b4 SHA256: 365cf51d004b598d7e3ca3528d7e815d850a2550343fc19991c7658cfa60e07b SHA512: 35f03a1bf0940f7a1214996b2975c12b9738403f9874b503cbaaae1660973188d5192ccdfeaa2ea80c4b66e88a5834e4230ea458cf35b201f4e13e758943183f Homepage: https://cran.r-project.org/package=CensRegMod Description: CRAN Package 'CensRegMod' (Fits Normal and Student-t Censored Regression Model) Fits univariate censored linear regression model under Normal or Student-t distribution Package: r-cran-censspatial Architecture: all Version: 3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 258 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-geor, r-cran-rcpp, r-cran-mvtnorm, r-cran-optimx, r-cran-tmvtnorm, r-cran-msm, r-cran-psych, r-cran-numderiv, r-cran-raster, r-cran-moments, r-cran-lattice, r-cran-tlrmvnmvt Filename: pool/dists/focal/main/r-cran-censspatial_3.6-1.ca2004.1_all.deb Size: 226340 MD5sum: 5ca534c5442b95fc221cf2b735c62ad3 SHA1: 96f29a9c4725cb1ca69b2791e1e44ed35068a6a0 SHA256: 31a840bc5b6ff7e1afeb2119eb752dcf9ea04125fd03231fe883c2d2f1763e45 SHA512: a447eb611f3310a62a9c055e66c16cf72b164867be01ea52d2dff165087ba36c478f0c2b96f7ec58f165477c5aef8047091a58011371fc279eb1421cbcf164b9 Homepage: https://cran.r-project.org/package=CensSpatial Description: CRAN Package 'CensSpatial' (Censored Spatial Models) It fits linear regression models for censored spatial data. It provides different estimation methods as the SAEM (Stochastic Approximation of Expectation Maximization) algorithm and seminaive that uses Kriging prediction to estimate the response at censored locations and predict new values at unknown locations. It also offers graphical tools for assessing the fitted model. More details can be found in Ordonez et al. (2018) . Package: r-cran-census2016 Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3576 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-ggrepel, r-cran-magrittr, r-cran-scales, r-cran-testthat, r-cran-png Filename: pool/dists/focal/main/r-cran-census2016_0.2.0-1.ca2004.1_all.deb Size: 3433324 MD5sum: f259b9c0f37a2a4e8d913044043b1ca3 SHA1: 19fb03a062d94facad2b23568698bbfdc0526bd7 SHA256: c8acfdbfffe7400ec0a00b44677d798fe4e6e9311419af4ca29bd7032e33b710 SHA512: aeec47ab688c83ab4f9476541b13ceb634bfcf72942f0634e0475c01368874d92e4ffbbe17f5fbe4a130e875e459ee957244c0f20980faf5fbcea67b8aac54e7 Homepage: https://cran.r-project.org/package=Census2016 Description: CRAN Package 'Census2016' (Data from the Australian Census 2016) Contains selected variables from the time series profiles for statistical areas level 2 from the 2006, 2011, and 2016 censuses of population and housing, Australia. 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Will return NA for code that doesn't correspond to real location. Package: r-cran-censusr Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-censusr_0.0.4-1.ca2004.1_all.deb Size: 40848 MD5sum: 4892e774a1657a91b97301cb6b2fcb86 SHA1: 785d6a3a68e3b965d750765f1ea0e89c15286e31 SHA256: 70246b92e8c24ef2ee195cd4ae89f7e3b69868ebe14d535bf4457d3f70dff7db SHA512: 9d7607306bc7eed577d5c8213352055aa1d50baee33e73cce9a83cf671b7d8c92782a390e1d342c61e7bfd19d81241df343411857fa0a028b90bb0028b0950d9 Homepage: https://cran.r-project.org/package=censusr Description: CRAN Package 'censusr' (Collect Data from the Census API) Use the US Census API to collect summary data tables for SF1 and ACS datasets at arbitrary geographies. 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You can self-define the length by inputing the "distance" parameter. For example, you can input (1 - Pearson's correlation coefficient) as "distance" so that the stronger the correlation between centre and peripheral item, the nearer they will be in this plot. Also, If you do a hypothesis test and the null hypothesis is centre and peripheral items are the same, you can input -log(P) as distance. To sum up, the stronger the correlation between centre and peripheral is, the smaller the "distance" parameter should be. Due to its high degree of freedom, it can be applied to many different circumstance. 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Package: r-cran-cepa Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3379 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph, r-bioc-rgraphviz, r-bioc-graph Filename: pool/dists/focal/main/r-cran-cepa_0.8.1-1.ca2004.1_all.deb Size: 3106448 MD5sum: 6dd2cf52120cd7cac35d190767f5055c SHA1: b0f2430f30bf45effb95293fdb73f26733e22f6d SHA256: b7041f61dc97a0908e2130487776ac53d0a43331c97da3008f2758f3795d5c30 SHA512: fbc5680aa6878960a6fce8427d9b2ff945fe4aef482f2775bb8529fdcf44fc959e202b63609e94947f212ba0a9a2c2f0da774e99f9868cac6ce330fc457fadcc Homepage: https://cran.r-project.org/package=CePa Description: CRAN Package 'CePa' (Centrality-Based Pathway Enrichment) It aims to find significant pathways through network topology information. It has several advantages compared with current pathway enrichment tools. 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The reference article for these datasets is Mayer and Zignago (2011) . Package: r-cran-ceplda Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-astsa, r-cran-mass, r-cran-class, r-cran-multitaper Filename: pool/dists/focal/main/r-cran-ceplda_1.0.0-1.ca2004.1_all.deb Size: 49712 MD5sum: f8f75aac5a65b5cf630f492b356ba88c SHA1: 0f57d1a2335bc96ba81af07695db533faba27fe2 SHA256: e8f7a0f3c8f875e6d54cc1dc66ecf4179ee8efc8bd7de8f483945f7df276c59e SHA512: eee038d4161aed5471a1ac6152f8ae6d08004adfdaceb3e8ba09e9492d1612843412a6452fd5076448b2e51252f4f266c3e18e485bfcbfeeec3b9f99d84311c7 Homepage: https://cran.r-project.org/package=CepLDA Description: CRAN Package 'CepLDA' (Discriminant Analysis of Time Series in the Presence ofWithin-Group Spectral Variability) Performs cepstral based discriminant analysis of groups of time series when there exists Variability in power spectra from time series within the same group as described in R.T. Krafty (2016) "Discriminant Analysis of Time Series in the Presence of Within-Group Spectral Variability" Journal of Time Series Analysis. Package: r-cran-cepp Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 466 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-trust, r-cran-randtoolbox Filename: pool/dists/focal/main/r-cran-cepp_1.7-1.ca2004.1_all.deb Size: 443848 MD5sum: 2277c281f8b7cb697e88eadaba1b8c46 SHA1: 8d4f31cb044c8f8c1f1b00d5e1bcd785793257b1 SHA256: 13969eb98329040e018adbf4e135fc96f58a1fbb8b79a7c1dc7001ff20ad77e4 SHA512: 322a8b4ec1ea769192ac1d32d377ad71f034689c782a3f84d48ee99921c136b8f770f42a7ea6afa7ce0bb745b66a3683c9cf05ea96fb34ee02c6035d5d83d475 Homepage: https://cran.r-project.org/package=cepp Description: CRAN Package 'cepp' (Context Driven Exploratory Projection Pursuit) Functions and Data to support Context Driven Exploratory Projection Pursuit. Package: r-cran-cepr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-purrr Filename: pool/dists/focal/main/r-cran-cepr_0.1.2-1.ca2004.1_all.deb Size: 23060 MD5sum: b61a3e33d18125dda5ea1b0b99399cf3 SHA1: d7f63896268998eb221970218b1371335bc9d815 SHA256: 5dfe3cb5b9d6c409aec6ccebb4b4a34b34ef2a91997c66a11d60ff91db0607fc SHA512: 2a44e94464f848f37d7329718c606229f3c6b53c3851c6b246886e489464ede7da946ce0dde91422b0307ddc327da6a83cbfaf7f346271d034fe5ac72d65bed4 Homepage: https://cran.r-project.org/package=cepR Description: CRAN Package 'cepR' (Busca CEPs Brasileiros) Retorna detalhes de dados de CEPs brasileiros, bairros, logradouros e tal. (Returns info of Brazilian postal codes, city names, addresses and so on.) 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For more technical information, please refer to: Hardaker, Richardson, Lien, & Schumann (2004) , and Richardson, & Outlaw (2008) . 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It generates Goodness-of-Fit plots and summary tables for selected models, allowing users to customize diagnostic outputs within the interface. The underlying R code for generating plots and tables can be extracted for use outside the interactive session. Model diagnostics can also be incorporated into an R Markdown document and rendered in various output formats. Package: r-cran-certara.modelresults Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 881 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-colourpicker, r-cran-shinyace, r-cran-shinymeta, r-cran-certara.xpose.nlme, r-cran-xpose, r-cran-dplyr, r-cran-flextable, r-cran-shinyjqui, r-cran-ggplot2, r-cran-plotly, r-cran-magrittr, r-cran-scales, r-cran-shiny, r-cran-shinyjs, r-cran-shinywidgets, r-cran-shinytree, r-cran-sortable, r-cran-tidyr, r-cran-rlang, r-cran-bslib Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-certara.rsnlme Filename: pool/dists/focal/main/r-cran-certara.modelresults_3.0.1-1.ca2004.1_all.deb Size: 789644 MD5sum: 913d4c4352da4d9eef6c162e6e1d58b5 SHA1: 6cfffccd197f65e97a8a79b004acf8be22829113 SHA256: 0fbd0c091d26e08838cf37d2bdd5176d878e07e28c93529933b45d3278c2955e SHA512: b8beea080d7c1042e63bf9afd59460a5dd0191dd69672fbef21cc1ca14ef1daf66299d18eb3cf66122c0524973fdcfdf4622f506d8bc68ded0489407c38ebae3 Homepage: https://cran.r-project.org/package=Certara.ModelResults Description: CRAN Package 'Certara.ModelResults' (Generate Diagnostics for Pharmacometric Models Using 'shiny') Utilize the 'shiny' interface to generate Goodness of Fit (GOF) plots and tables for Non-Linear Mixed Effects (NLME / NONMEM) pharmacometric models. From the interface, users can customize model diagnostics and generate the underlying R code to reproduce the diagnostic plots and tables outside of the 'shiny' session. Model diagnostics can be included in a 'rmarkdown' document and rendered to desired output format. Package: r-cran-certara.nlme8 Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1007 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xml2, r-cran-batchtools, r-cran-reshape, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-certara.nlme8_3.0.1-1.ca2004.1_all.deb Size: 481316 MD5sum: dbeba085fb49e062810125a5f621608d SHA1: ec0b25b8cf9ae5b0821cfb20c83ace938490bf2d SHA256: 5dc10da76e738e6ffda71ac5b118093cbfdcd3be7d8b2b62091830d02b490c93 SHA512: 92e3f400a0ce3dc8cf65a6a71116986c6f15c821c2585ead253c133446137c94f267947f0133207c263514c7fa9893aba1c83bec2b7b66dce332dbe00d6d9b83 Homepage: https://cran.r-project.org/package=Certara.NLME8 Description: CRAN Package 'Certara.NLME8' (Utilities for Certara's Nonlinear Mixed-Effects Modeling Engine) Perform Nonlinear Mixed-Effects (NLME) Modeling using Certara's NLME-Engine. Access the same Maximum Likelihood engines used in the Phoenix platform, including algorithms for parametric methods, individual, and pooled data analysis . The Quasi-Random Parametric Expectation-Maximization Method (QRPEM) is also supported . Execution is supported both locally or on remote machines. Remote execution includes support for Linux Sun Grid Engine (SGE), Terascale Open-source Resource and Queue Manager (TORQUE) grids, Linux and Windows multicore, and individual runs. Package: r-cran-certara.r Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-batchtools, r-cran-data.table, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-htmltools, r-cran-jsonlite, r-cran-magrittr, r-cran-plotly, r-cran-reshape, r-cran-remotes, r-cran-rlang, r-cran-shiny, r-cran-shinyjs, r-cran-shinywidgets, r-cran-shinymaterial, r-cran-shinyjqui, r-cran-sortable, r-cran-ssh, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-certara.r_1.1.0-1.ca2004.1_all.deb Size: 26240 MD5sum: c8fea51deeb17d90679cf0c939522ea6 SHA1: 8bdbebe180736ad68bc7a923fdda03e267231e33 SHA256: c2bc3fd51155dbc6034c03377945628d635ba24296dfb589838c7d7f158a1e4d SHA512: 4e26bd7ffb5ee6371eed42206d5aa231e86f15bb7e633a48c4c85d9e2937593999f4431e64344c77d227da17691c9359020131d6e4100e9133aa3a1ea32722e6 Homepage: https://cran.r-project.org/package=Certara.R Description: CRAN Package 'Certara.R' (Easily Install Pharmacometric Packages and Shiny ApplicationsDeveloped by Certara) A convenient set of wrapper functions to install pharmacometric packages and Shiny applications developed by Certara PMX and Integrated Drug Development (iDD). The functions ensure the successful installation of packages from non-standard repositories. Package: r-cran-certara.rdarwin Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 695 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-dplyr, r-cran-tidyr, r-cran-tibble, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-certara.rdarwin_1.1.1-1.ca2004.1_all.deb Size: 558536 MD5sum: b247baa2df0b49b8b3be1bf2a2a2acdf SHA1: 63d53c918282e9772fa0ea6c181f53bf216f7c1b SHA256: 3ea48b7bc9404e19bd79dd7ac795d494def86b3b6ff28a5e87b0727604281b5e SHA512: 522cd10b03336fcdc0fd5da8c2061ce883869c7e0b3bba59e53a55ecb91526492ef2caf6e6adee2dbe5ebdf58be6982743d549f9f2cbe67b4ae06a457ba2afcd Homepage: https://cran.r-project.org/package=Certara.RDarwin Description: CRAN Package 'Certara.RDarwin' (Interface for 'pyDarwin' Machine Learning Pharmacometric ModelDevelopment) Utilities that support the usage of 'pyDarwin' () for ease of setup and execution of a machine learning based pharmacometric model search with Certara's Non-Linear Mixed Effects (NLME) modeling engine. 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The Pharmacometric Modeling Language (PML) code updates in real time given changes to user inputs. Models can be executed using the 'Certara.RsNLME' package. Additional support to generate the underlying 'Certara.RsNLME' code to recreate the corresponding model in R is provided in the user interface. 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Specify engine parameters and select from different run options, including simple estimation, stepwise covariate search, bootstrapping, simulation, visual predictive check, and more. Models are executed using the 'Certara.RsNLME' package. Package: r-cran-certara.rsnlme Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2108 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xml2, r-cran-assertthat, r-cran-certara.nlme8, r-cran-data.table, r-cran-jsonlite, r-cran-ssh Suggests: r-cran-rlang, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-certara.rsnlme_3.0.1-1.ca2004.1_all.deb Size: 1359320 MD5sum: af12aeb9a0007c4d534a1ed9093bc4f6 SHA1: 47c4cf9201eb55c1c2c5562ea46504d4c2d1ac83 SHA256: 267d339838c84293143d554deaae7afe7b95ca2f15c92a3c5a9f4c8124ebd6f5 SHA512: 3a9536fe474186444aaab6094972d15a4ad54b216fe371fbca29fc2ed3930f1094a85d39f7da8dbca62fd142129b93f08c8cc6f1dac06dbc01eb9d8f148ed928 Homepage: https://cran.r-project.org/package=Certara.RsNLME Description: CRAN Package 'Certara.RsNLME' (Pharmacometric Modeling) Facilitate Pharmacokinetic (PK) and Pharmacodynamic (PD) modeling and simulation with powerful tools for Nonlinear Mixed-Effects (NLME) modeling. The package provides access to the same advanced Maximum Likelihood algorithms used by the NLME-Engine in the Phoenix platform. These tools support a range of analyses, from parametric methods to individual and pooled data analysis . Execution is supported both locally or on remote machines. 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Generate the underlying 'tidyvpc' and 'ggplot2' code directly from the user interface and download R or Rmd scripts to reproduce the VPCs in R. 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This integration enables users to utilize all 'ggplot2'-based plotting functions available in 'xpose' for thorough model diagnostics and data visualization. Additionally, the package introduces specialized plotting functions tailored for covariate model evaluation, extending the analytical capabilities beyond those offered by 'xpose' alone. 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For example around a single prediction for an interesting observation. Plots are designed to work in a model-agnostic fashion, they are working for any predictive Machine Learning model and allow for model comparisons. Ceteris Paribus Plots supplement the Break Down Plots from 'breakDown' package. 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This tool provides functions that enable a robust analysis of colony formation assay (CFA) data in presence or absence of cellular cooperation. The implemented method has been described in Brix et al. (2020). (Brix, N., Samaga, D., Hennel, R. et al. "The clonogenic assay: robustness of plating efficiency-based analysis is strongly compromised by cellular cooperation." Radiat Oncol 15, 248 (2020). ) Power regression for parameter estimation, calculation of survival fractions, uncertainty analysis and plotting functions are provided. 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The functions available in this package decompose differences in an outcome attributable to a mediating variable (or sets of mediating variables) between groups based on counterfactual (causal inference) theory. By using Monte Carlo (MC) integration (simulations based on empirical estimates from multivariable models) we provide added flexibility compared to existing (analytical) approaches, at the cost of computational power or time. The added flexibility means that we can decompose difference between groups in any outcome or and with any mediator (any variable type and distribution). See Sudharsanan & Bijlsma (2019) for more information. 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Some functions have two versions, table and raster based. 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Package: r-cran-cfmortality Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cfmortality_0.3.0-1.ca2004.1_all.deb Size: 13596 MD5sum: a8d4a6a7154e7a043d10fa8cb74d1a33 SHA1: 9eb872a015d6816d1869363545076ed46f2cad43 SHA256: da99998ccb772daa2814ff2bc6dc09c73efdf1d430e4423b9e10aa2d8ed3ade2 SHA512: a791bcc9e073b1be2916cfd1bd2add27de2745118586e231064edfdea2bdeff75e6430a532e6c1eb41616518d77b192d183818aaf183b079b124c5a4f6a86032 Homepage: https://cran.r-project.org/package=cfmortality Description: CRAN Package 'cfmortality' (Cystic Fibrosis Survival Prediction Model Based on StanojevicModel) Allows clinicians to predict survival probabilities over the next two years for cystic fibrosis patients, based on the clinical prediction models published in Stanojevic et al. (2019) . 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The ‘CFO' package accommodates diverse CFO-type designs, allowing users to tailor the approach based on factors such as dose information inclusion, handling of late-onset toxicity, and the nature of the target drug (single-drug or drug-combination). The functionalities embedded in 'CFO' package include the determination of the dose level for the next cohort, the selection of the MTD for a real trial, and the execution of single or multiple simulations to obtain operating characteristics. Moreover, these functions are equipped with early stopping and dose elimination rules to address safety considerations. Users have the flexibility to choose different distributions, thresholds, and cohort sizes among others for their specific needs. The output of the 'CFO' package can be summary statistics as well as various plots for better visualization. An interactive web application for CFO is available at the provided URL. 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Package: r-cran-cft Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1384 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-plyr, r-cran-dplyr, r-cran-osmdata, r-cran-magrittr, r-cran-tidync, r-cran-future, r-cran-furrr, r-cran-sf, r-cran-epitools, r-cran-tidyr, r-cran-rlang, r-cran-piper, r-cran-rlist Suggests: r-cran-lubridate, r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-cft_1.0.0-1.ca2004.1_all.deb Size: 231028 MD5sum: fbc4ec756d6688f953e27508b0d6d7e6 SHA1: d200b5cdd34074d8e69aa617476703f9c85120c1 SHA256: 455f81c1cadcf4edce27be02746d2c86422b0be8a094ccc8b89d6bdb64fdfa60 SHA512: e550fe5286f868d3456e5707b7edf7db51b91580181c032a6aa1e4f730863e973966a8bd653e4b1bfc278aacebb8cdf7d08e510e09f3d71ac79c126b708fbb49 Homepage: https://cran.r-project.org/package=cft Description: CRAN Package 'cft' (Climate Futures Toolbox) Developed as a collaboration between Earth lab and the North Central Climate Adaptation Science Center to help users gain insights from available climate data. Includes tools and instructions for downloading climate data via a 'USGS' API and then organizing those data for visualization and analysis that drive insight. Web interface for 'USGS' API can be found at . Package: r-cran-cftime Architecture: all Version: 1.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1742 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-r6 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ncdfcf, r-cran-testthat, r-cran-stringr Filename: pool/dists/focal/main/r-cran-cftime_1.6.2-1.ca2004.1_all.deb Size: 922760 MD5sum: b4b4bc0e1cb7f198a30fb5b85629e8c0 SHA1: bf045636b455d72327de3307edc40a23d7d1dfdd SHA256: 72640fe192ca89d71775142fc363d954c0ddbe0b0cc70eea279e0865f77d8331 SHA512: 30e039376319eb882aa719189e7357d74d491d077797bb71797aa3c6795a27b3a52724a3fef4913bc450e92004c372714427411515576114d36b3c4666a8d895 Homepage: https://cran.r-project.org/package=CFtime Description: CRAN Package 'CFtime' (Using CF-Compliant Calendars with Climate Projection Data) Support for all calendars as specified in the Climate and Forecast (CF) Metadata Conventions for climate and forecasting data. The CF Metadata Conventions is widely used for distributing files with climate observations or projections, including the Coupled Model Intercomparison Project (CMIP) data used by climate change scientists and the Intergovernmental Panel on Climate Change (IPCC). This package specifically allows the user to work with any of the CF-compliant calendars (many of which are not compliant with POSIXt). The CF time coordinate is formally defined in the CF Metadata Conventions document available at . Package: r-cran-cg Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1897 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-hmisc, r-cran-vgam, r-cran-mass, r-cran-lattice, r-cran-survival, r-cran-multcomp, r-cran-nlme, r-cran-rms Filename: pool/dists/focal/main/r-cran-cg_1.0-4-1.ca2004.1_all.deb Size: 1367864 MD5sum: 5a7090524e50d898b8774685758c330d SHA1: c85dac903d15223fab218a9a67f11681feadc377 SHA256: 38d7e9a82051cde66ea5a2eb91505a8c97df0a70ed8dc8eff0d49f63629c2f8b SHA512: 3382447e54d1db9be4ecbe4ae968046772c38b8be8240d669bc6fa6c5f4a91a5f25efc324d3486d4fe453c8adb143bb1ae6b3ad6f39c588f6967563885a6bbcd Homepage: https://cran.r-project.org/package=cg Description: CRAN Package 'cg' (Compare Groups, Analytically and Graphically) Comprehensive data analysis software, and the name "cg" stands for "compare groups." Its genesis and evolution are driven by common needs to compare administrations, conditions, etc. in medicine research and development. The current version provides comparisons of unpaired samples, i.e. a linear model with one factor of at least two levels. It also provides comparisons of two paired samples. Good data graphs, modern statistical methods, and useful displays of results are emphasized. Package: r-cran-cgaim Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 169 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-scam, r-cran-scar, r-cran-quadprog, r-cran-osqp, r-cran-limsolve, r-cran-matrix, r-cran-mass, r-cran-cgam, r-cran-mgcv, r-cran-gratia, r-cran-doparallel, r-cran-coneproj, r-cran-truncatednormal, r-cran-foreach Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cgaim_1.0.2-1.ca2004.1_all.deb Size: 138008 MD5sum: fd4c984961cf0835c9d0be777460445a SHA1: bd28dcfbf60bbdd2c5e7828a57d4e351eb42341f SHA256: 16ab992e44902f2b2135ccae3b03c17b75311499ac6382a616cd9c0ffa20b9a2 SHA512: f6413af37de04842cc52d2af38a5b461db82ecac945f72807446842c7e53dc97c5921ac2c369889e394043424719e6d4851a4ae7b881df0e563321108522150d Homepage: https://cran.r-project.org/package=cgaim Description: CRAN Package 'cgaim' (Constrained Groupwise Additive Index Models) Fits constrained groupwise additive index models and provides functions for inference and interpretation of these models. The method is described in Masselot, Chebana, Campagna, Lavigne, Ouarda, Gosselin (2022) "Constrained groupwise additive index models" . Package: r-cran-cgal4h Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 34635 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cgal4h_0.1.0-1.ca2004.1_all.deb Size: 4058188 MD5sum: db580c049d04edef88f704b6f67c486a SHA1: d5bb5e33ffe80a79e465d3866c7ab1240e157e81 SHA256: 98fc8e42c53cfa67d0925a330d6adcec1f01c836c07e3fd8f8863df57b0a7299 SHA512: 31982574b04583f52881c94fb812e6337396333f5055dfa44b6b6cfa4b807cbfa70007b6f3a85abffd448dd74b3a55d590db5f92eacc37eb003f519eeb9985d2 Homepage: https://cran.r-project.org/package=cgal4h Description: CRAN Package 'cgal4h' ('CGAL' Version 4 C++ Header Files) 'CGAL' is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. Since its version 4, 'CGAL' can be used as standalone header-only library and is available under a double GPL-3|LGPL license. . Package: r-cran-cgam Architecture: all Version: 1.27-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1133 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-coneproj, r-cran-splines2, r-cran-svdialogs, r-cran-statmod, r-cran-lme4, r-cran-matrix, r-cran-ggplot2, r-cran-dplyr, r-cran-zeallot, r-cran-rlang Suggests: r-cran-mass, r-cran-semipar, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-cgam_1.27-1.ca2004.1_all.deb Size: 1093616 MD5sum: 7a8bec34febfa6b10a9c9d6857c4a426 SHA1: a90804b53eadfc6933db47e0e3044ac22002f9e5 SHA256: e2ce7e8d5cc8934533c86c74b2e2971fc509bfb7f8101d42fc522b969ee20a04 SHA512: a762d0dc5cf979120748f335998295acabb18179c901ff59ff922c3cda03f29b4a76ddaa84b3215e117d71306371801a33534e179287b22ab52cf94b3614efe0 Homepage: https://cran.r-project.org/package=cgam Description: CRAN Package 'cgam' (Constrained Generalized Additive Model) A constrained generalized additive model is fitted by the cgam routine. Given a set of predictors, each of which may have a shape or order restrictions, the maximum likelihood estimator for the constrained generalized additive model is found using an iteratively re-weighted cone projection algorithm. The ShapeSelect routine chooses a subset of predictor variables and describes the component relationships with the response. For each predictor, the user needs only specify a set of possible shape or order restrictions. A model selection method chooses the shapes and orderings of the relationships as well as the variables. The cone information criterion (CIC) is used to select the best combination of variables and shapes. A genetic algorithm may be used when the set of possible models is large. In addition, the cgam routine implements a two-dimensional isotonic regression using warped-plane splines without additivity assumptions. It can also fit a convex or concave regression surface with triangle splines without additivity assumptions. See Liao X, Meyer MC (2019) for more details. Package: r-cran-cge Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 344 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cge_0.3.3-1.ca2004.1_all.deb Size: 278876 MD5sum: 4edce5a4d9b20be1428d86336baede76 SHA1: 142619a11eb19bef69603dbc14a682629ccdff33 SHA256: ca93e90cc3273b027a648893101216af45be789624e41261e87abc45860c13ca SHA512: 3ae00b6659ae1964909d0807067b4100b12259c8c24255e127a4592990e950b6303dc67cf936684420139501db08a09ea2b035e9fd271f95a6524dfef214e2e9 Homepage: https://cran.r-project.org/package=CGE Description: CRAN Package 'CGE' (Computing General Equilibrium) Developing general equilibrium models, computing general equilibrium and simulating economic dynamics with structural dynamic models in LI (2019, ISBN: 9787521804225) "General Equilibrium and Structural Dynamics: Perspectives of New Structural Economics. Beijing: Economic Science Press". When developing complex general equilibrium models, GE package should be used in addition to this package. Package: r-cran-cgmanalysis Architecture: all Version: 3.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 391 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-parsedate, r-cran-lubridate, r-cran-pracma, r-cran-zoo, r-cran-pastecs, r-cran-readxl, r-cran-readr, r-cran-xml, r-cran-mess, r-cran-rlang Filename: pool/dists/focal/main/r-cran-cgmanalysis_3.1.1-1.ca2004.1_all.deb Size: 205344 MD5sum: c1f1d7dff400a5b99c2d55d03addfe21 SHA1: 310757304a807da17d104f3f07950fd1bd56a7aa SHA256: c4e77728ca84018e0f9e732891aa254f6ff5f403bdb09b91870f2d4f2f6231fe SHA512: 70b0f35b48e4045a678d2a4f9abeec2e2818ed285ec7c4172c6f657698f42833e09e94ed9717b74e5e2e9904f4d1da3e0ebf0775217218977ebc34f48ca6a023 Homepage: https://cran.r-project.org/package=cgmanalysis Description: CRAN Package 'cgmanalysis' (Clean and Analyze Continuous Glucose Monitor Data) This code provides several different functions for cleaning and analyzing continuous glucose monitor data. Currently it works with 'Dexcom', 'iPro 2', 'Diasend', 'Libre', or 'Carelink' data. The cleandata() function takes a directory of CGM data files and prepares them for analysis. cgmvariables() iterates through a directory of cleaned CGM data files and produces a single spreadsheet with data for each file in either rows or columns. The column format of this spreadsheet is compatible with REDCap data upload. cgmreport() also iterates through a directory of cleaned data, and produces PDFs of individual and aggregate AGP plots. Please visit to download the new-user guide. Package: r-cran-cgmquantify Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 207 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyverse, r-cran-ggplot2, r-cran-hms, r-cran-magrittr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cgmquantify_0.1.0-1.ca2004.1_all.deb Size: 59920 MD5sum: 92b9c8f8565e654454cb5dabf8562d58 SHA1: a001986dd96c589c12aea3ac168e57d154092d33 SHA256: 69b20f5e3f12f8bc13f7c1ce0ebb0c516b659b4d43e890dcd0d59f783c0bfd9e SHA512: 6987946148a66a9fd759fdf708b4797c4acd32a21c998a1b4b09d64e9f7c8c699d9f7d088410503796e48cbd004b28a3ed86b53f61349072b53efaa10d1a65dc Homepage: https://cran.r-project.org/package=cgmquantify Description: CRAN Package 'cgmquantify' (Analyzing Glucose and Glucose Variability) Continuous glucose monitoring (CGM) systems provide real-time, dynamic glucose information by tracking interstitial glucose values throughout the day. Glycemic variability, also known as glucose variability, is an established risk factor for hypoglycemia (Kovatchev) and has been shown to be a risk factor in diabetes complications. Over 20 metrics of glycemic variability have been identified. Here, we provide functions to calculate glucose summary metrics, glucose variability metrics (as defined in clinical publications), and visualizations to visualize trends in CGM data. Cho P, Bent B, Wittmann A, et al. (2020) American Diabetes Association (2020) Kovatchev B (2019) Kovdeatchev BP (2017) Tamborlane W V., Beck RW, Bode BW, et al. (2008) Umpierrez GE, P. Kovatchev B (2018) . Package: r-cran-cgnm Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 855 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-mass, r-cran-shiny Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cgnm_0.9.1-1.ca2004.1_all.deb Size: 569648 MD5sum: 9bce31d7dcb66ba69724932e58775813 SHA1: fe77faa56c47e3c141f3a347a3b20cb5a34dc0f0 SHA256: 8bedaebd3476840ac8c28f0461f19b0f7e36f8c33f7fcd8423ea396d9f5b00b3 SHA512: d3138c57c20f6327ce26810b0509d4adf4340b2ffaf3f1ee64888bdc1c88a74d3a0ecab7de8add514cda044fa02aa0e11658ff8aac83f0181a138944eba56ba0 Homepage: https://cran.r-project.org/package=CGNM Description: CRAN Package 'CGNM' (Cluster Gauss-Newton Method) Find multiple solutions of a nonlinear least squares problem. Cluster Gauss-Newton method does not assume uniqueness of the solution of the nonlinear least squares problem and compute multiple minimizers. Please cite the following paper when this software is used in your research: Aoki et al. (2020) . Cluster Gauss–Newton method. Optimization and Engineering, 1-31. Please cite the following paper when profile likelihood plot is drawn with this software and used in your research: Aoki and Sugiyama (2024) . Cluster Gauss-Newton method for a quick approximation of profile likelihood: With application to physiologically-based pharmacokinetic models. CPT Pharmacometrics Syst Pharmacol.13(1):54-67. Package: r-cran-cgp Architecture: all Version: 2.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cgp_2.1-1-1.ca2004.1_all.deb Size: 47068 MD5sum: 5346fe4616d303ea2878c2a0466144b9 SHA1: 3be1dbedfb217af61b628df82210fe8e934f9834 SHA256: b167aadcc3b929a36e82d98673e5d9d4ca9ef26f4d4b4e6ccf8a07348750d142 SHA512: 56d048ecaf79d5c7ad528729c5dfbeb70358a034e3b285858a73f15bc10ed919a0b2f143e87d04901525b7a179e54c86e898fa514e8bd41cd44a0addbef1a9a0 Homepage: https://cran.r-project.org/package=CGP Description: CRAN Package 'CGP' (Composite Gaussian Process Models) Fit composite Gaussian process (CGP) models as described in Ba and Joseph (2012) "Composite Gaussian Process Models for Emulating Expensive Functions", Annals of Applied Statistics. The CGP model is capable of approximating complex surfaces that are not second-order stationary. Important functions in this package are CGP, print.CGP, summary.CGP, predict.CGP and plotCGP. Package: r-cran-cgpfunctions Architecture: all Version: 0.6.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2949 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bayesfactor, r-cran-desctools, r-cran-dplyr, r-cran-forcats, r-cran-ggmosaic, r-cran-ggplot2, r-cran-ggrepel, r-cran-paletteer, r-cran-partykit, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-sjstats, r-cran-stringr, r-cran-tidyr Suggests: r-cran-bsda, r-cran-ggthemes, r-cran-hrbrthemes, r-cran-janitor, r-cran-knitr, r-cran-lsr, r-cran-magrittr, r-cran-productplots, r-cran-pwr, r-cran-rmarkdown, r-cran-stringi, r-cran-tibble, r-cran-testthat, r-cran-tidyselect Filename: pool/dists/focal/main/r-cran-cgpfunctions_0.6.3-1.ca2004.1_all.deb Size: 1824576 MD5sum: 1682bb0d7b1f6a96db4293109fb4dc29 SHA1: ab5dba504cbbd3e3e1e8563c95da291d7eb34974 SHA256: 04d0529922ae4ea810ca914a087f303038f86da7748946825fcba453bcf2ad45 SHA512: 04d5e7fcf93e682e470014bf5649fa4dd6a6ab6e7606237eb9e9c49f8f6f0a954fe44cdf93e4715a87392280baf9dd1a140d4f931d500641dadb152896231804 Homepage: https://cran.r-project.org/package=CGPfunctions Description: CRAN Package 'CGPfunctions' (Powell Miscellaneous Functions for Teaching and LearningStatistics) Miscellaneous functions useful for teaching statistics as well as actually practicing the art. They typically are not new methods but rather wrappers around either base R or other packages. Package: r-cran-cgr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cgr_0.1.0-1.ca2004.1_all.deb Size: 11112 MD5sum: 6d80550d6baac8bddcea74e25422392e SHA1: 9bcf3632dad6d45852dbdf54b82bc343ed539b0e SHA256: d3b7fe1200f00f5b4e6362edd017860e3b92df9637e820bc98d0d1e6166cd7e4 SHA512: 88383b14a71152b19175687861bf35322cbdc201e485b5c5720169e778ef780c90e7e98f5101028e7ea3c020dba448cee0b1a1ed611c636780cfae0cf9f52912 Homepage: https://cran.r-project.org/package=CGR Description: CRAN Package 'CGR' (Compound Growth Rate for Capturing the Growth Rate Over thePeriod) The compound growth rate indicates the percentage change of a specific variable over a defined period. It is calculated using non-linear models, particularly the exponential model. To estimate the compound growth rates, the growth model is first converted to semilog form and then analyzed using Ordinary Least Squares (OLS) regression. This package has been developed using concept of Shankar et al. (2022). Package: r-cran-cgrcusum Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 259 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-survival Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cgrcusum_0.1.0-1.ca2004.1_all.deb Size: 218888 MD5sum: 3f63ae45833f2704c729e6d78e072e66 SHA1: 3113eed0f850a607bdd2d5fe9527b46226685d7f SHA256: 54e48dc69b7712c791d7cb6d48a98df4ef1b69a9fe7529bed89cb3c67b500e98 SHA512: 5d2f7e55b7d3904f7fa421d37ae69e6dbcfe6422920533d77a99e260dfa9e5774b11c159043689aa7f7d30ea3d819fa3617f8d37bbd99da1995fbec52368c70f Homepage: https://cran.r-project.org/package=cgrcusum Description: CRAN Package 'cgrcusum' (Continuous Time Generalized Rapid Response CUSUM) Allows users to construct the Continuous Time Generalized Rapid Response CUSUM (CGR-CUSUM), Biswas & Kalbfleisch (2008) CUSUM, Binary CUSUM and risk-adjusted funnel plot for survival data. These procedures can be used to monitor survival processes and detect problems in their quality. Package: r-cran-cgwtools Architecture: all Version: 4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-gmp Filename: pool/dists/focal/main/r-cran-cgwtools_4.1-1.ca2004.1_all.deb Size: 129072 MD5sum: 5523a96c9392f45df0a851d2e0e20a48 SHA1: 8cafdac09ce089af1934215cdeef89b78d3a74ae SHA256: a895c3201fdcedaccf55de1ab354091f96f50db9a686496d4bc403d39854c5fa SHA512: a64b75deea83f7be22554e3e1df18ca63ecabbaae5e1c2b426c50c9f647f85a17a94a8ff7d29f880e845b1a9339c335b7774c922c2d8a7a5a392f1a0bc76d7b8 Homepage: https://cran.r-project.org/package=cgwtools Description: CRAN Package 'cgwtools' (Miscellaneous Tools) Functions for performing quick observations or evaluations of data, including a variety of ways to list objects by size, class, etc. The functions 'seqle' and 'reverse.seqle' mimic the base 'rle' but can search for linear sequences. The function 'splatnd' allows the user to generate zero-argument commands without the need for 'makeActiveBinding' . Functions provided to convert from any base to any other base, and to find the n-th greatest max or n-th least min. In addition, functions which mimic Unix shell commands, including 'head', 'tail' ,'pushd' ,and 'popd'. Various other goodies included as well. Package: r-cran-ch Architecture: all Version: 0.1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-clipr, r-cran-ryacas, r-cran-magrittr, r-cran-mass, r-cran-crayon, r-cran-polynom, r-cran-pracma Suggests: r-cran-scales Filename: pool/dists/focal/main/r-cran-ch_0.1.0.2-1.ca2004.1_all.deb Size: 68376 MD5sum: 6752c817cb17f29adf6513757b001d06 SHA1: 29bea6ecd8fd6540b54f308f27ddb8fe7b0d4805 SHA256: b16555558df33e5cfbbcb88896b231d7aeae8705e6b6664754f3230da4720a6e SHA512: 0135b6e65562bdaa6f40c5b2851cd10167134d67b1219826f5c51ccfbb816e25b8027f3c0ebf8fcba88a2a4cd6864e13ac3eb35986844d113d491ae2f4d8e509 Homepage: https://cran.r-project.org/package=ch Description: CRAN Package 'ch' (About some Small Functions) The solution to some common problems is proposed, as well as a summary of some small functions. In particular, it provides a useful function for some problems in chemistry. For example, monoa(), monob() and mono() function can be used to calculate The pH of weak acid/base. The ggpng() function can save the PNG format with transparent background. The period_table() function will show the periodic table. Also the show_ruler() function will show the ruler. The show_color() function is funny and easier to show colors. I also provide the symb() function to generate multiple symbols at once. The csv2vcf() function provides an easy method to generate a file. The sym2poly() and sym2coef() function can extract coefficients from polynomials. Package: r-cran-chainbinomial Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-generics Suggests: r-cran-testthat, r-cran-numderiv, r-cran-dplyr, r-cran-tidyr, r-cran-tibble, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-chainbinomial_0.1.5-1.ca2004.1_all.deb Size: 89108 MD5sum: e7222a203b695de976e651f4da3ebde9 SHA1: c5692f6bb7b608ccf318e850ed0d6b81257d36e9 SHA256: 4c03b6b4123ae9b2ac03185146823e42c2d994a690900d924208bb936846325d SHA512: 59b43fbcdc4a68183f61233303b7f7215acaddf6298f61970272304ee8fd26e2e26bd46e59850871077bde8ae8139f9b750739bcbd2346ec8280f2858e7d1d74 Homepage: https://cran.r-project.org/package=chainbinomial Description: CRAN Package 'chainbinomial' (Chain Binomial Models for Analysis of Infectious Disease Data) Implements the chain binomial model for analysis of infectious disease data. Contains functions for calculating probabilities of the final size of infectious disease outbreaks using the method from D. Ludwig (1975) and for outbreaks that are not concluded, from Lindstrøm et al. (2024) . The package also contains methods for estimation and regression analysis of secondary attack rates. Package: r-cran-chainladder Architecture: all Version: 0.2.20-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3501 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-actuar, r-cran-lattice, r-cran-tweedie, r-cran-systemfit, r-cran-statmod, r-cran-cplm, r-cran-ggplot2, r-cran-mass Suggests: r-cran-runit, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-chainladder_0.2.20-1.ca2004.1_all.deb Size: 2175268 MD5sum: b1eb75ade9d8d53cc10bbdee4f0e5a82 SHA1: 2f215c8c02a7ad3db1dffacb04e71c2a6289f4c6 SHA256: 952676307364f1c222844cab4e4be5fc64c47ad98dba6bdb9fd304a2c67d01d4 SHA512: fedf4c9bbbabf22341fb97fe1779ba851c3ae65e00009a2aa60bbb220bc6e014b71e266852b2d93fd1c00327effc128760a0a899c59be1cc6dc956cac68acd5b Homepage: https://cran.r-project.org/package=ChainLadder Description: CRAN Package 'ChainLadder' (Statistical Methods and Models for Claims Reserving in GeneralInsurance) Various statistical methods and models which are typically used for the estimation of outstanding claims reserves in general insurance, including those to estimate the claims development result as required under Solvency II. Package: r-cran-chameleon Architecture: all Version: 0.2-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-clue, r-cran-ggplot2, r-cran-umap Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-chameleon_0.2-3-1.ca2004.1_all.deb Size: 150312 MD5sum: 410c120644c9b8af73856ce708bde3f1 SHA1: 510f58c91582cbd19b99875f3e87241e32f88345 SHA256: 1367ba02a950a8fb6155089e174a8970123d3df2a6b2a286e522bdca4c107ea9 SHA512: 14542bec1e0fb93ac965d47c564bb033441b8dab8250a1abd3530f6250d8860d68e21a99d105b77a65f2c8c1e1782db9f896f0640c9f6765bea7679ac5a5f1f0 Homepage: https://cran.r-project.org/package=chameleon Description: CRAN Package 'chameleon' (Automatic Colors for Multi-Dimensional Data) Assign distinct colors to arbitrary multi-dimensional data, considering its structure. Package: r-cran-chandwich Architecture: all Version: 1.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 357 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-numderiv Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-sandwich, r-cran-testthat Filename: pool/dists/focal/main/r-cran-chandwich_1.1.6-1.ca2004.1_all.deb Size: 240516 MD5sum: 572f930b27dd6e788d266ebd2d9f7a9e SHA1: c709e138424841ab440848c4834505d57cae4015 SHA256: df83eaefc91d58e0c6ec9ce4a6b7f34a15ca820a0f23ec1c10619a9e4cbf3dd6 SHA512: 0bb682c5e9020efe0bd65d43c0e4aa2c209c4e9df2a0ea3b0eebe05515f419abb1163df7ee11853c1576dd98df77de77d56ea3cf0e92327555a93f16ee5a9c2b Homepage: https://cran.r-project.org/package=chandwich Description: CRAN Package 'chandwich' (Chandler-Bate Sandwich Loglikelihood Adjustment) Performs adjustments of a user-supplied independence loglikelihood function using a robust sandwich estimator of the parameter covariance matrix, based on the methodology in Chandler and Bate (2007) . This can be used for cluster correlated data when interest lies in the parameters of the marginal distributions or for performing inferences that are robust to certain types of model misspecification. Functions for profiling the adjusted loglikelihoods are also provided, as are functions for calculating and plotting confidence intervals, for single model parameters, and confidence regions, for pairs of model parameters. Nested models can be compared using an adjusted likelihood ratio test. Package: r-cran-changedetection Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rdpack, r-cran-l1pack, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-changedetection_0.2.0-1.ca2004.1_all.deb Size: 78772 MD5sum: b65dd9fb40a0cb8ed720fd8cbcf194cc SHA1: c219e4b46cddfaa58d460455784cd8e3457c2c60 SHA256: 223ec91b3679e9724daa38d07a1171c6b357638ca84c64543c34e59c4b6360be SHA512: eb677560c7c38d481c3c52fe523df30f073e94a8c092b9c58034be5624c20af03a52357aff0e3f933cf35b05a82ca694d1b848f94dea15da0621483ed48ea16e Homepage: https://cran.r-project.org/package=changedetection Description: CRAN Package 'changedetection' (Nonparametric Change Detection in Multivariate LinearRelationships) Contains implementation of the Nonparametric Splitting Algorithm (NSA), which estimates a set of structural change points (change dates) within a multivariate time-wise linear regression. Additionally, it contains utility functions to estimate corresponding changing linear model, moving energy distance and a change-detection test. For more information, see Malo et. al (2019) . Package: r-cran-changepoint.geo Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 336 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-changepoint, r-cran-changepoint.np, r-cran-ggplot2, r-cran-rdpack Suggests: r-cran-testthat, r-cran-mass Filename: pool/dists/focal/main/r-cran-changepoint.geo_1.0.2-1.ca2004.1_all.deb Size: 259704 MD5sum: 8cd21bc8c215d924a464c271c8f4aa5e SHA1: bd621b7fd98bcc5a0dd567ecb76e49f5a7f4f24f SHA256: e2f2ff4ca524b5e7a0e4b7c1d5b7b3d5654543d490c162090f8d73fb1daa3fe3 SHA512: bdb7dd031530618e72d992cae3f24e5b464f4f3e0e8a086d385d22e52965a17cee0c5c8e071d550d069ec317e04837e48e5c66dcee773b0c69c60ed3abd572c5 Homepage: https://cran.r-project.org/package=changepoint.geo Description: CRAN Package 'changepoint.geo' (Geometrically Inspired Multivariate Changepoint Detection) Implements the high-dimensional changepoint detection method GeomCP and the related mappings used for changepoint detection. These methods view the changepoint problem from a geometrical viewpoint and aim to extract relevant geometrical features in order to detect changepoints. The geomcp() function should be your first point of call. References: Grundy et al. (2020) . Package: r-cran-changepoint.influence Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-changepoint, r-cran-data.table, r-cran-ggplot2, r-cran-gridextra, r-cran-reshape Suggests: r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-changepoint.influence_1.0.2-1.ca2004.1_all.deb Size: 98164 MD5sum: aad227393519a2d1f779e492ae1e194d SHA1: 1cb76df20fa3a83f00327f01d7393da9be724641 SHA256: 6838998e85fb06e6428df98bc322037d70cb24150fbd37db2a493c44838c3b80 SHA512: 7cc915336ee585b34ec83b762b205dec20430cf0ea91d719e82a795253f5d394e0fff87a517e5cee8388595bab7f777626f16b492e921782c25f7701e6e45fd1 Homepage: https://cran.r-project.org/package=changepoint.influence Description: CRAN Package 'changepoint.influence' (Package to Calculate the Influence of the Data on a ChangepointSegmentation) Allows users to input their data, segmentation and function used for the segmentation (and additional arguments) and the package calculates the influence of the data on the changepoint locations, see Wilms et al. (2022) . Currently this can only be used with the changepoint package functions to identify changes, but we plan to extend this. There are options for different types of graphics to assess the influence. Package: r-cran-changepointsvar Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-lars Filename: pool/dists/focal/main/r-cran-changepointsvar_0.1.1-1.ca2004.1_all.deb Size: 43900 MD5sum: f21b77bc43855042bc5f97854f6bb6bc SHA1: 1de920b4c9c55626485b90fe86cd329d7ea84c5f SHA256: dbf1c066fd3d30068efe65122b10620db647318bbaa2e945c4a346314452ff3c SHA512: 071baa8c9aa8ad79fbc51e495a517999957c4ecec891ed39b346a310a43221922083cdf4c26a77e57b63b27bd31bbfda2aacb303e5b18ae8c4488d8ebcc32bc7 Homepage: https://cran.r-project.org/package=changepointsVar Description: CRAN Package 'changepointsVar' (Change-Points Detections for Changes in Variance) Detection of change-points for variance of heteroscedastic Gaussian variables with piecewise constant variance function. Adelfio, G. (2012), Change-point detection for variance piecewise constant models, Communications in Statistics, Simulation and Computation, 41:4, 437-448, . Package: r-cran-changepointtesting Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 226 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-changepointtesting_1.2-1.ca2004.1_all.deb Size: 165180 MD5sum: 6b96d5231c3a618f7b55b32972418364 SHA1: 521711da4a1346f1dbb1592381868f6862c708c0 SHA256: fd896660732634823b4c152cd4a7b546c27789e8e10d18f1edb65fdf583164f8 SHA512: 0fad55c0805af6d68a2e2850586bac5a8dce5932a89bd5674a53ba708ca94f1851f6f485e9ae84b5eb06f9c492707e6847b3e5cb1e43ccc29211ad5a5bb7e6cf Homepage: https://cran.r-project.org/package=ChangepointTesting Description: CRAN Package 'ChangepointTesting' (Change Point Estimation for Clustered Signals) A multiple testing procedure for clustered alternative hypotheses. It is assumed that the p-values under the null hypotheses follow U(0,1) and that the distributions of p-values from the alternative hypotheses are stochastically smaller than U(0,1). By aggregating information, this method is more sensitive to detecting signals of low magnitude than standard methods. Additionally, sporadic small p-values appearing within a null hypotheses sequence are avoided by averaging on the neighboring p-values. Package: r-cran-changer Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-available, r-cran-devtools, r-cran-git2r Filename: pool/dists/focal/main/r-cran-changer_0.0.5-1.ca2004.1_all.deb Size: 20024 MD5sum: 4b5099619481b07d6fd6379ea0a882a8 SHA1: b8505a7cfceff9f989db8dd17e7f942fefbade72 SHA256: 3bcb9878693dbea03b0121d4c4d9e6ef6e756fb6ac0ef7e7a4ab2a8ed25a07b5 SHA512: 0bac96a4e2ef9beb25e769f7c6fbe2baad6947eb21c04469fa2e5204d39a9edf5171577c0e1b60187b4b6a8ff115d3187e06756d7644a3eb972c3167843f7480 Homepage: https://cran.r-project.org/package=changer Description: CRAN Package 'changer' (Change R Package Name) Changing the name of an existing R package is annoying but common task especially in the early stages of package development. This package (mostly) automates this task. 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For example, combining predictions from species distribution models with other maps of environmental data to characterize the proportion of a species’ range that is under protection, calculating metrics used under the International Union for Conservation of Nature (IUCN) Criteria A and B guidelines (Area of Occupancy and Extent of Occurrence), and calculating more general metrics such as taxonomic and phylogenetic diversity, as well as endemism. Also facilitates temporal comparisons among biodiversity metrics to inform efforts towards complementarity and consideration of future scenarios in conservation decisions. 'changeRangeR' also provides tools to determine the effects of modeling decisions through sensitivity tests. Package: r-cran-changes Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nls.multstart, r-cran-ggplot2, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-changes_1.0.1-1.ca2004.1_all.deb Size: 101432 MD5sum: e82597d74a949b61500389b452b23f46 SHA1: 0cd284517cda274c79c2a91d132626217f33d87d SHA256: 95711016967f1a4a54d3aa0f3a5ea7b95db5bc80e19ac9ef5fdc169aa5abed44 SHA512: f2b4c5d736e999c34962269ae6219131f394b4da14a33fdb3f094d0b2c25a499a967e0f1aac94535a6c790a17485afe0e436eb04aaf8b4f0fc78ad2510ebcb19 Homepage: https://cran.r-project.org/package=changeS Description: CRAN Package 'changeS' (S-Curve Fit for Changepoint Analysis) Estimation of changepoints using an "S-curve" approximation. Formation of confidence intervals for changepoint locations and magnitudes. Both abrupt and gradual changes can be modeled. Package: r-cran-channelattributionapp Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-channelattribution, r-cran-shiny, r-cran-data.table, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-channelattributionapp_1.3-1.ca2004.1_all.deb Size: 124732 MD5sum: 40eb3f8d1c4c307a006e3d458c5a04ec SHA1: 2267cce0a4f74e8759ee591e55f618308f1b6832 SHA256: 14b7b4fba6bd21c93e3d8cfab3c8fd8e2cdec76e0b16404f364607941d9c119e SHA512: c4b8e99437cc4b4bfa8ccf29ff6d9de5ac76b2dc6e01a28d4df01fd6b81ce2c751f7c38ff761a93224724695e2652f23d9a9d54f70e1a151c38b3518da85888b Homepage: https://cran.r-project.org/package=ChannelAttributionApp Description: CRAN Package 'ChannelAttributionApp' (Shiny Web Application for the Multichannel Attribution Problem) Shiny Web Application for the Multichannel Attribution Problem. It is a user-friendly graphical interface for package 'ChannelAttribution'. 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Package: r-cran-chaosgame Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rgl, r-cran-colorramps, r-cran-ggplot2, r-cran-gridextra, r-cran-plot3d, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-chaosgame_1.4-1.ca2004.1_all.deb Size: 91352 MD5sum: cdf33825938974502f7ede8535ec070a SHA1: 4eb7a6e5dbf505a2c77223582f3f712be57d78f1 SHA256: 37ac5d0d9598eaf3b61299cce2a556e94a676a6e832b7bde8967d37a5df30326 SHA512: f8aced80d1e18195928ac7869bca7845602e8fa818fd17ddd4ff89c7cefd4122a07fb2bc2e6123757c1c370ec12baa373d4572bf4af735774d5db55a21aa287a Homepage: https://cran.r-project.org/package=ChaosGame Description: CRAN Package 'ChaosGame' (Chaos Game) The main objective of the package is to enter a word of at least two letters based on which an Iterated Function System with Probabilities is constructed, and a two-dimensional fractal containing the chosen word infinitely often is generated via the Chaos Game. Additionally, the package allows to project the two-dimensional fractal on several three-dimensional surfaces and to transform the fractal into another fractal with uniform marginals. 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Package: r-cran-checkpoint Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-yaml, r-cran-withr, r-cran-pkgdepends Suggests: r-cran-pkgcache, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-checkpoint_1.0.2-1.ca2004.1_all.deb Size: 117108 MD5sum: a2af34bddd6cff4532a2e614c2cd7449 SHA1: 73698a6a3cd14be8b979338f80268fc71eb188f9 SHA256: c4868fe98dc32e9435e8e52579df516d04c0d047b93d7c087cf1bb802e9403bf SHA512: 1b75a4608854b7659f14c416d261c18593be9828dbbfa84c061e003507b030fbf04df737d819e2fd2b67f63381bc212b3e361a49e52abd1d3a786ee808d097e1 Homepage: https://cran.r-project.org/package=checkpoint Description: CRAN Package 'checkpoint' (Install Packages from Snapshots on the Checkpoint Server forReproducibility) The goal of checkpoint is to solve the problem of package reproducibility in R. 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Package: r-cran-cheese Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 624 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-forcats, r-cran-kableextra, r-cran-knitr, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cheese_0.1.2-1.ca2004.1_all.deb Size: 293036 MD5sum: cd72760a46d91072af49bdf9be3c7d4d SHA1: b79a7dd5113e42a33ada11778f973fa133a5ccfe SHA256: fd796377ea2200ce2f07b41c81ba33f7ce2397d17048e9db4a945a6aa701af2f SHA512: cbbe647b6356dcd7da8337e8db433ad2805eee6699bfcfddad4931f8a4213bd783be5ab4177c2ace943b01f3a31c43a5de39b04aeccdcae7b6c292aa3ce51d8f Homepage: https://cran.r-project.org/package=cheese Description: CRAN Package 'cheese' (Tools for Working with Data During Statistical Analysis) Contains tools for working with data during statistical analysis, promoting flexible, intuitive, and reproducible workflows. 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Package: r-cran-chem.databases Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2453 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-data.table, r-cran-install.load, r-cran-spelling Filename: pool/dists/focal/main/r-cran-chem.databases_1.0.0-1.ca2004.1_all.deb Size: 2476572 MD5sum: 824a242ad3386f9df59a3323364a94dd SHA1: e128775039e9abc78cfceb546d1c145aa6e90252 SHA256: 9537b28a6d3a3ab4eec9231f5bddb352d544bebab1d1c7730f774e2bd277a915 SHA512: 8e7dc17f5b9ea1bc219f064878ceb6057e983278b3082f37f8a026bc1793a6adcf548a918058fc76cacc15cb97a361f6322257c9994ea1c8dcdd95374f131256 Homepage: https://cran.r-project.org/package=chem.databases Description: CRAN Package 'chem.databases' (Collection of 3 Chemical Databases from Public Sources) Contains the Multi-Species Acute Toxicity Database (CAS & SMILES columns only) [United States (US) Department of Health and Human Services (DHHS) National Institutes of Health (NIH) National Cancer Institute (NCI), "Multi-Species Acute Toxicity Database", ] combined with the Toxic Substances Control Act (TSCA) Inventory [United States Environmental Protection Agency (US EPA), "Toxic Substances Control Act (TSCA) Chemical Substance Inventory", ] and the Agency for Toxic Substances and Disease Registry (ATSDR) Database [United States (US) Department of Health and Human Services (DHHS) Centers for Disease Control and Prevention (CDC)/Agency for Toxic Substances and Disease Registry (ATSDR), "Agency for Toxic Substances and Disease Registry (ATSDR) Database", ] in 2 data sets. One data set has a focus on the latter 2 databases and one data set focuses on the former database. Also contains the collection of chemical data from Wikipedia compiled in the US EPA CompTox Chemicals Dashboard [United States Environmental Protection Agency (US EPA) / Wikimedia Foundation, Inc. "CompTox Chemicals Dashboard v2.2.1", ]. Package: r-cran-chem16s Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4805 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-plyr, r-cran-ggplot2, r-cran-rlang, r-cran-reshape2, r-bioc-phyloseq, r-cran-canprot Suggests: r-cran-tinytest, r-cran-knitr, r-cran-patchwork, r-cran-ggpmisc, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-chem16s_1.2.0-1.ca2004.1_all.deb Size: 3436968 MD5sum: fc3aec7b2fae8cd95592e7f5b57cc1ce SHA1: 1ac99aa6802379a0e962bc2240eb4679f3e599c0 SHA256: 376d5f23b147a29d5c5e4939f299dfbacbd1186718f1e1e67d4c6abad845404e SHA512: 296b1d2182d56b4fc5d393481d8672b6b168fa30dbf137fd4f0e947c0d82765a9634c5b92da4d4da108e7671a972fe57f5bdd7d9cefc3e871cc5a575f0612c0e Homepage: https://cran.r-project.org/package=chem16S Description: CRAN Package 'chem16S' (Chemical Metrics for Microbial Communities) Combines taxonomic classifications of high-throughput 16S rRNA gene sequences with reference proteomes of archaeal and bacterial taxa to generate amino acid compositions of community reference proteomes. Calculates chemical metrics including carbon oxidation state ('Zc'), stoichiometric oxidation and hydration state ('nO2' and 'nH2O'), H/C, N/C, O/C, and S/C ratios, grand average of hydropathicity ('GRAVY'), isoelectric point ('pI'), protein length, and average molecular weight of amino acid residues. Uses precomputed reference proteomes for archaea and bacteria derived from the Genome Taxonomy Database ('GTDB'). Also includes reference proteomes derived from the NCBI Reference Sequence ('RefSeq') database and manual mapping from the 'RDP Classifier' training set to 'RefSeq' taxonomy as described by Dick and Tan (2023) . Processes taxonomic classifications in 'RDP Classifier' format or OTU tables in 'phyloseq-class' objects from the Bioconductor package 'phyloseq'. Package: r-cran-chemcal Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1078 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mass, r-cran-knitr, r-cran-testthat, r-cran-investr, r-cran-covr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-chemcal_0.2.3-1.ca2004.1_all.deb Size: 391172 MD5sum: 17fd231e60ebe5f8e3f873c7943d53ac SHA1: 4066b119813f4bf731d4e0a5a49cebe13c444653 SHA256: 9bd7bb331d72267fc60cff26da76ba33a2fd3b9a6d981ced60f8e4c3d2e80155 SHA512: 67a9bd1a6c072663e0989eaf99cd53f526f592177f4d7e8ff9c60f8330189d6ab920ba4341677ea93a3efaea4b8ee4629cf1f4e4caee3039a90314a9dcfcae99 Homepage: https://cran.r-project.org/package=chemCal Description: CRAN Package 'chemCal' (Calibration Functions for Analytical Chemistry) Simple functions for plotting linear calibration functions and estimating standard errors for measurements according to the Handbook of Chemometrics and Qualimetrics: Part A by Massart et al. (1997) There are also functions estimating the limit of detection (LOD) and limit of quantification (LOQ). The functions work on model objects from - optionally weighted - linear regression (lm) or robust linear regression ('rlm' from the 'MASS' package). 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Package: r-cran-chemist Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-xicor, r-cran-laplacesdemon Filename: pool/dists/focal/main/r-cran-chemist_0.1.5-1.ca2004.1_all.deb Size: 60936 MD5sum: 07e95d32f915a884084a56e07af85b32 SHA1: 9a7f0c12b4ec44aec2fde5cb9911b3c9440de354 SHA256: 5ff8241ca6d13b3d4ccbf307530012bda634879ff95a74772880e33ebcd117ca SHA512: 93451ed5658a9ab6075a81add8437ea7ee68c45847ba2ea69b1841a0cfeff849012539b499d0c105e9990441c7831fcf1e0c66c9bf07e26cd36a9376fb745472 Homepage: https://cran.r-project.org/package=CHEMIST Description: CRAN Package 'CHEMIST' (Causal Inference with High-Dimensional Error-Prone Covariatesand Misclassified Treatments) We aim to deal with the average treatment effect (ATE), where the data are subject to high-dimensionality and measurement error. This package primarily contains two functions, which are used to generate artificial data and estimate ATE with high-dimensional and error-prone data accommodated. Package: r-cran-chemmodlab Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 443 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernsmooth, r-cran-msqc, r-cran-class, r-cran-e1071, r-cran-elasticnet, r-cran-lars, r-cran-mass, r-cran-nnet, r-cran-proc, r-cran-randomforest, r-cran-rpart, r-cran-tree, r-cran-pls, r-cran-caret Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-chemmodlab_2.0.0-1.ca2004.1_all.deb Size: 387576 MD5sum: 27e0831792a466504cad5aac88130500 SHA1: 00908b51d0c7b2e216a198bcbe83d717c2984036 SHA256: 3e0664712697b80855d908743401a43ac325d0951e837421f54e05c86e2b5d73 SHA512: 3a89db33bcc04a48fd2253a60a1120e73e5501b91ff940ad29c6a1348c36cd32100adc5476705b126f45fddbfca77d1d55782a33252e98ed79ec7d3b1f9f5536 Homepage: https://cran.r-project.org/package=chemmodlab Description: CRAN Package 'chemmodlab' (A Cheminformatics Modeling Laboratory for Fitting and AssessingMachine Learning Models) Contains a set of methods for fitting models and methods for validating the resulting models. The statistical methodologies comprise a comprehensive collection of approaches whose validity and utility have been accepted by experts in the Cheminformatics field. As promising new methodologies emerge from the statistical and data-mining communities, they will be incorporated into the laboratory. These methods are aimed at discovering quantitative structure-activity relationships (QSARs). However, the user can directly input their own choices of descriptors and responses, so the capability for comparing models is effectively unlimited. Package: r-cran-chemodiv Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1136 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-jsonlite, r-cran-httr, r-cran-vegan, r-cran-webchem, r-bioc-fmcsr, r-bioc-chemminer, r-cran-hillr, r-cran-ape, r-cran-gunifrac, r-cran-tidygraph, r-cran-igraph, r-cran-ggraph, r-cran-ggplot2, r-cran-gridextra, r-cran-ggdendro, r-cran-tidyr, r-cran-rlang, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-chemodiv_0.3.1-1.ca2004.1_all.deb Size: 567328 MD5sum: a42828cab624e28a18520e18d9802769 SHA1: 13ac3a0186a3776186e591c5240c9e9f1c2226fe SHA256: d12bdcbabc296bed32368eabd5e45a4e0436c9d022e9bc88303203bc18f05a84 SHA512: 119892c45ac2e7b3229f5cc406ede72dc27d13fc004772542c7278137a3082ae24c299a233130f8f5e54832364801a1ed44a10166e4ae172a2726069cb9bf0c2 Homepage: https://cran.r-project.org/package=chemodiv Description: CRAN Package 'chemodiv' (Analysing Chemodiversity of Phytochemical Data) Quantify and visualise various measures of chemical diversity and dissimilarity, for phytochemical compounds and other sets of chemical composition data. Importantly, these measures can incorporate biosynthetic and/or structural properties of the chemical compounds, resulting in a more comprehensive quantification of diversity and dissimilarity. For details, see Petrén, Köllner and Junker (2023) . Package: r-cran-chemometrics Architecture: all Version: 1.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4342 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rpart, r-cran-class, r-cran-e1071, r-cran-mass, r-cran-nnet, r-cran-pcapp, r-cran-robustbase, r-cran-som, r-cran-lars, r-cran-pls, r-cran-mclust Suggests: r-cran-gclus Filename: pool/dists/focal/main/r-cran-chemometrics_1.4.4-1.ca2004.1_all.deb Size: 4057392 MD5sum: d5f9e96b039f67bdd2aa1e5e918c3257 SHA1: 0eeaed45e2455c8e82f4fc0bc9ee9b1c67a4050d SHA256: 8adef86b5bb2fe3cdadecabd4e77d32ad1e70aae933c3f7db39aebbca226fa73 SHA512: c28af1781d55247826e181d307ba90fcf2124f94708a79cc4731af326fed9d95b979d094565fc0900b3b8d42e76282a8b16ec833d1649acc631eed3607360439 Homepage: https://cran.r-project.org/package=chemometrics Description: CRAN Package 'chemometrics' (Multivariate Statistical Analysis in Chemometrics) R companion to the book "Introduction to Multivariate Statistical Analysis in Chemometrics" written by K. Varmuza and P. Filzmoser (2009). Package: r-cran-chemospec2d Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 453 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-chemospecutils, r-cran-colorspace, r-cran-readjdx, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-tinytest, r-cran-irlba, r-cran-threeway, r-cran-multiway, r-cran-matrixstats, r-cran-r.utils, r-cran-mlrmbo, r-cran-paramhelpers, r-cran-smoof, r-cran-mlr, r-cran-lhs, r-cran-rcpproll, r-cran-rmarkdown, r-cran-robustbase, r-cran-bookdown, r-cran-cmls Filename: pool/dists/focal/main/r-cran-chemospec2d_0.5.1-1.ca2004.1_all.deb Size: 384720 MD5sum: 333682ffcb744891549a751cb0138f32 SHA1: dea329b4fb4af8e822ac67a9ebe456a7d2bbba07 SHA256: 5602a81448d75a6cf07e55d985eaada28bf2d5c30e7c380796c66654329d6162 SHA512: 4a195febdf147bafaa7341f3662b7e17eb502b58b87c5cb4e5d3505f07d58f33c8e68ff586ffe946f18ff716e4eb0881efde1b673d360eea3bce81c9137c4521 Homepage: https://cran.r-project.org/package=ChemoSpec2D Description: CRAN Package 'ChemoSpec2D' (Exploratory Chemometrics for 2D Spectroscopy) A collection of functions for exploratory chemometrics of 2D spectroscopic data sets such as COSY (correlated spectroscopy) and HSQC (heteronuclear single quantum coherence) 2D NMR (nuclear magnetic resonance) spectra. 'ChemoSpec2D' deploys methods aimed primarily at classification of samples and the identification of spectral features which are important in distinguishing samples from each other. Each 2D spectrum (a matrix) is treated as the unit of observation, and thus the physical sample in the spectrometer corresponds to the sample from a statistical perspective. In addition to chemometric tools, a few tools are provided for plotting 2D spectra, but these are not intended to replace the functionality typically available on the spectrometer. 'ChemoSpec2D' takes many of its cues from 'ChemoSpec' and tries to create consistent graphical output and to be very user friendly. Package: r-cran-chemospec Architecture: all Version: 6.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2394 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-chemospecutils, r-cran-reshape2, r-cran-readjdx, r-cran-patchwork, r-cran-ggplot2, r-cran-plotly, r-cran-magrittr Suggests: r-cran-idpmisc, r-cran-knitr, r-cran-js, r-cran-nbclust, r-cran-clustercrit, r-cran-lattice, r-cran-baseline, r-cran-mclust, r-cran-pls, r-cran-r.utils, r-cran-rcolorbrewer, r-cran-seriation, r-cran-mass, r-cran-pcapp, r-cran-jsonlite, r-cran-signal, r-cran-speaq, r-cran-tinytest, r-cran-elasticnet, r-cran-irlba, r-cran-rmarkdown, r-cran-bookdown, r-cran-chemometrics, r-cran-hyperspec, r-cran-amap, r-cran-roxut Filename: pool/dists/focal/main/r-cran-chemospec_6.2.0-1.ca2004.1_all.deb Size: 2193772 MD5sum: fffeaf4a8facb0b304af51839d28fafa SHA1: 9cd5e8ffbaf5be88ac686cb006bb5346085fdb9a SHA256: 2c8b575845a5b60783594a7eb49e41729a7aca66e21f02591c63a3e3065a41e3 SHA512: afc54c2a6ccc51e0c7e548bc93d2e2505812635693bbe23e48d43d9dff37cdbd3b10fc009dc028ceff4e45f0740413d6f7fd6ed60a2d6207a6690615be375298 Homepage: https://cran.r-project.org/package=ChemoSpec Description: CRAN Package 'ChemoSpec' (Exploratory Chemometrics for Spectroscopy) A collection of functions for top-down exploratory data analysis of spectral data including nuclear magnetic resonance (NMR), infrared (IR), Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy. Includes functions for plotting and inspecting spectra, peak alignment, hierarchical cluster analysis (HCA), principal components analysis (PCA) and model-based clustering. Robust methods appropriate for this type of high-dimensional data are available. ChemoSpec is designed for structured experiments, such as metabolomics investigations, where the samples fall into treatment and control groups. Graphical output is formatted consistently for publication quality plots. ChemoSpec is intended to be very user friendly and to help you get usable results quickly. A vignette covering typical operations is available. Package: r-cran-chemospecutils Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 283 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-ggrepel, r-cran-plotly, r-cran-magrittr Suggests: r-cran-chemospec, r-cran-chemospec2d, r-cran-tinytest, r-cran-robustbase, r-cran-rcolorbrewer, r-cran-amap, r-cran-irlba, r-cran-lattice, r-cran-roxut, r-cran-patchwork, r-cran-threeway, r-cran-multiway, r-cran-mvoutlier Filename: pool/dists/focal/main/r-cran-chemospecutils_1.0.5-1.ca2004.1_all.deb Size: 233212 MD5sum: bed08cb526f823b502ab6a9276f475b4 SHA1: 51ab9c4136195d8a197d9752590efd8171316fdc SHA256: 2d25891a7369ff39de9e347287ae1716e4c2594b5064ee5550c1c081c546d513 SHA512: aff4b1ef2532335686065ed7218eb61703f5228dee7a0fa14e34578219368e128694d3f6bf415e202a48931e72d36b591f9be01db15b728a625801d217de654e Homepage: https://cran.r-project.org/package=ChemoSpecUtils Description: CRAN Package 'ChemoSpecUtils' (Functions Supporting Packages ChemoSpec and ChemoSpec2D) Functions supporting the common needs of packages 'ChemoSpec' and 'ChemoSpec2D'. Package: r-cran-chernoffdist Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gsl Filename: pool/dists/focal/main/r-cran-chernoffdist_0.1.0-1.ca2004.1_all.deb Size: 18780 MD5sum: e1e4b99e244609919acee9d58c7b6d48 SHA1: 8b1eba16bad074e8e6b099e2b2af6960baa83c0a SHA256: b6a280d0991351da9287361219f703bf972ef6a9f66d344cacd54b300a8fee76 SHA512: 278b19fb6f06f3b1393c1017555457b951e10de7b13bcf20980cffde66ae0c490460ab846bfc505c60d642e9478ca781baeb34c650c3d355afa59990c2e45e1f Homepage: https://cran.r-project.org/package=ChernoffDist Description: CRAN Package 'ChernoffDist' (Chernoff's Distribution) Computes Chernoff's distribution based on the method in Piet Groeneboom & Jon A Wellner (2001) Computing Chernoff's Distribution, Journal of Computational and Graphical Statistics, 10:2, 388-400, . 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Package: r-cran-chess2plyrs Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-chess2plyrs_0.3.0-1.ca2004.1_all.deb Size: 144580 MD5sum: f1b90d21b05f6701321b6a58f3e8e017 SHA1: a1c2014eadcaaefcbedc96f078ec200ff90662fd SHA256: faaaa7ff5e339a50b70701f560018411e80d51a496f85a4358264a40cc08f78f SHA512: 83d3d40e694f301e091bbe41dd4afe02dde7fd2b0a4988ecec9e947db6f60a6be643c0cd559c18ae096aa813e4f5c0dbf559dd18cc3f4b24c3eea88d23dd9c7d Homepage: https://cran.r-project.org/package=chess2plyrs Description: CRAN Package 'chess2plyrs' (Chess Game Creation and Tools) A chess program which allows the user to create a game, add moves, check for legal moves and game result, plot the board, take back, read and write FEN (Forsyth–Edwards Notation). 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Package: r-cran-chessgmoog Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3938 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-chessgmoog_0.1.0-1.ca2004.1_all.deb Size: 3986144 MD5sum: 939e64fde77b0863ab181104a0db01e0 SHA1: e4b187db0b8b17c6b329611224c67355cbfe59b9 SHA256: e039886ccf8f6aade0d153ea21bb58c13c90f031fda44af86ef0e3d4bfb74a38 SHA512: 9132bdc3c0584d92d25243005b05fe4db17d0ac91b7aa5dd542642ad57379fde6023487d8cdd8c1719abfac21592977dc1f77f8d7d7b7fa6ad97e5086946ba88 Homepage: https://cran.r-project.org/package=ChessGmooG Description: CRAN Package 'ChessGmooG' (FIDE Chess Players Ratings for 2015 and 2020) Datasets of the International Chess Federation's player ratings and country information analysed in the book Antony Unwin (2024, ISBN:978-0367674007) "Getting (more out of) Graphics". 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It starts with a crude model including only the outcome and exposure variables. At each of the subsequent steps, one variable which creates the largest change among the remaining variables is selected. This process is repeated until all variables have been entered into the model (Wang Z. Stata Journal 2007; 7, Number 2, pp. 183–196). Currently, the 'chest' package has functions for linear regression, logistic regression, negative binomial regression, Cox proportional hazards model and conditional logistic regression. 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Includes functions for data processing, marker position adjustment, volume calculation using convex hulls, and visualization in 2D and 3D. Barber et al. (1996) . TAMIYA Hiroyuki et al. (2021) . 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This package implements a structure to reformat the data with 'dunlin', create reporting tables using 'rtables' and 'tern' with standardized input arguments to enable quick generation of standard outputs. In addition, it also provides comprehensive data checks and script generation functionality. Package: r-cran-chff Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-chff_0.1.0-1.ca2004.1_all.deb Size: 27528 MD5sum: 0340d875ba3d912c50c4a6f7f8c68a29 SHA1: 196dc3cbd72898b91306250c2ce44c815677d55a SHA256: cb8ee01557332fbb579d07cef25bc9bdaa642a016a45899161ecebec2042cf8c SHA512: 39b5cd25fb7191b161c35ac05239a796ce5ada43dba171298b7a7fc66be593271b70900805b0a798c6679ba94e871a2c79fdc4fde65254e28968337e607aba9b Homepage: https://cran.r-project.org/package=CHFF Description: CRAN Package 'CHFF' (Closest History Flow Field Forecasting for Bivariate Time Series) The software matches the current history to the closest history in a time series to build a forecast. 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Package: r-cran-childdevdata Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1270 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-childdevdata_1.1.0-1.ca2004.1_all.deb Size: 1093316 MD5sum: 72035fcd090ce8b9a608997f8c606c7e SHA1: 18beb81c2cd1179652caf316f3d75e0889e2d9f1 SHA256: 9900d811e62349a24f0ce05c296479b00203db078e2c60e6c8e3cf38f807b1f9 SHA512: 8bf14625338a6c13fddab084ccdfe37b46faa3c62b2288c7ebf72edb1307425ad0bada2e7dff991c1ec7fb6778795605d08610176c3a0367c5dd0915f93b83dc Homepage: https://cran.r-project.org/package=childdevdata Description: CRAN Package 'childdevdata' (Child Development Data) Measuring child development starts by collecting responses to developmental milestones, such as "able to sit" or "says two words". There are many ways to combine such responses into summaries. The package bundles publicly available datasets with individual milestone data for children aged 0-5 years, with the aim of supporting the construction, evaluation, validation and interpretation of methodologies that aggregate milestone data into informative measures of child development. Package: r-cran-childesr Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dbi, r-cran-dbplyr, r-cran-dplyr, r-cran-jsonlite, r-cran-magrittr, r-cran-purrr, r-cran-rmysql Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-curl Filename: pool/dists/focal/main/r-cran-childesr_0.2.3-1.ca2004.1_all.deb Size: 72812 MD5sum: dac2b2eecbf27086e20b791dc6f63f32 SHA1: 8dcbc8a2d25ff4875509727da4f56b15d7a8e3ce SHA256: 9f97134646f1e1f64a44702ac02a31e84a5581312047e63a7d61f17401b6ec3b SHA512: 676e84d4f8646b0a8a12dafbe89f1dbd83f32eda8f1a68fd6e29c4113cf99d34c2bd8795c5d50bb5b0045ccdd18c50e6ea4fedb34c0ed59befdc3e12a3fad22d Homepage: https://cran.r-project.org/package=childesr Description: CRAN Package 'childesr' (Accessing the 'CHILDES' Database) Tools for connecting to 'CHILDES', an open repository for transcripts of parent-child interaction. 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The main function allows users to input a list of words and receive speaker-role-specific frequency counts and a summary of the dataset. The output includes Excel-formatted tables of word counts and metadata summaries such as number of speakers, transcripts, children, and token counts. Useful for researchers studying early language acquisition, corpus linguistics, and speaker role variation. The CHILDES database is maintained at . 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The identification of childfree individuals and those with other family statuses uses Neal & Neal's (2024) "A Framework for Studying Adults who Neither have Nor Want Children" ; A pre-print is available at . 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Also, references for laboratory values in children and adults are available, e.g., serum lipids, iron-related blood parameters, IGF, liver enzymes. See package documentation for full list. Package: r-cran-chilemapas Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2940 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-sf, r-cran-rmapshaper, r-cran-dplyr, r-cran-magrittr, r-cran-stringr, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-chilemapas_0.3.0-1.ca2004.1_all.deb Size: 2845592 MD5sum: 90ec13a7cd2aa929be2a69ce2ca98e99 SHA1: a148c44dc3028346808d468ae28bc90b0a456a75 SHA256: ced6ab5e7d3835794a6672a732ed93cd184dc4c763f2e664d07df66665211735 SHA512: 71dfb465dd89ebf4116eeb5ffb01bd11e0754cb764560f15c90deaca33ff7582a9cf51ed434eea7d3bdaa5e7e455870c85c6b5f4f45ee8837b0a0199c19b3a1a Homepage: https://cran.r-project.org/package=chilemapas Description: CRAN Package 'chilemapas' (Mapas de las Divisiones Politicas y Administrativas de Chile(Maps of the Political and Administrative Divisions of Chile)) Mapas terrestres con topologias simplificadas. Estos mapas no tienen precision geodesica, por lo que aplica el DFL-83 de 1979 de la Republica de Chile y se consideran referenciales sin validez legal. No se incluyen los territorios antarticos y bajo ningun evento estos mapas significan que exista una cesion u ocupacion de territorios soberanos en contra del Derecho Internacional por parte de Chile. Esta paquete esta documentado intencionalmente en castellano asciificado para que funcione sin problema en diferentes plataformas. (Terrestrial maps with simplified toplogies. These maps lack geodesic precision, therefore DFL-83 1979 of the Republic of Chile applies and are considered to have no legal validity. Antartic territories are excluded and under no event these maps mean there is a cession or occupation of sovereign territories against International Laws from Chile. This package was intentionally documented in asciified spanish to make it work without problem on different platforms.) Package: r-cran-chillmodels Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-chillr, r-cran-dplyr, r-cran-lubridate, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-chillmodels_1.0.2-1.ca2004.1_all.deb Size: 77660 MD5sum: 874ca0a3ec1316609826fc300d062c7b SHA1: 29d8fdb27f53d0a61d8527ec2168268d89b65070 SHA256: 5b1dbaf79fc0fd3bf15201d6d6c5d43df3171ac38398496eb8d4bbba0f5f5adb SHA512: 6f20ea062a983f5e55bde14f48663a32449710217eabae9eefc328fe3e3911cb4530d5c13fa86b54d79ef90300056b70b0891b6e7e3f8cc00bc2f20194212d8f Homepage: https://cran.r-project.org/package=ChillModels Description: CRAN Package 'ChillModels' (Processing Chill and Heat Models for Temperate Fruit Trees) Calculates the chilling and heat accumulation for studies of the temperate fruit trees. The models in this package are: Utah (Richardson et al., 1974, ISSN:0018-5345), Positive Chill Units - PCU (Linsley-Noaks et al., 1995, ISSN:1017-0316), GDH-A - Growing Degree Hours by Anderson et al.(1986, ISSN:0567-7572), GDH-R - Growing Degree Hours by Richardson et al.(1975, ISSN:0018-5345), North Carolina (Shaltout e Unrath, 1983, ISSN:0003-1062), Landsberg Model (Landsberg, 1974, ISSN:0305-7364), Q10 Model (Bidabe, 1967, ISSN:0031-9368), Jones Model (Jones et al., 2013 ), Low-Chill Model (Gilreath and Buchanan, 1981, ISSN:0003-1062), Model for Cherry "Sweetheart" (Guak and Nielsen, 2013 ), Model for apple "Gala" (Guak and Nielsen, 2013 ), Taiwan Model (Lu et al., 2012 ), Dynamic Model (Fishman et al., 1987, ISSN:0022-5193) adapted from the function Dynamic_Model() of the 'chillR' package (Luedeling, 2018), Unified Model (Chuine et al., 2016 ) and Heat Restriction model. Package: r-cran-chinese.misc Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 267 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jiebar, r-cran-nlp, r-cran-tm, r-cran-stringi, r-cran-slam, r-cran-matrix, r-cran-purrr Filename: pool/dists/focal/main/r-cran-chinese.misc_0.2.3-1.ca2004.1_all.deb Size: 237676 MD5sum: 538954d39ac987a25712912dfb5832ad SHA1: 68033fa2806318aaf84a12494a71c17bf4abbcd2 SHA256: bfd8267671a2471566b31777257c42edf07c73cfdff59a459ab7eeb7e9871789 SHA512: bd388de7120d703bd231d9f5010b7bed63e201d75659649806f9532e1b48818db3908571bf9565a99a75fcaf8c437fc8996b388667f061ea1d8f86fe9e6f2d41 Homepage: https://cran.r-project.org/package=chinese.misc Description: CRAN Package 'chinese.misc' (Miscellaneous Tools for Chinese Text Mining and More) Efforts are made to make Chinese text mining easier, faster, and robust to errors. Document term matrix can be generated by only one line of code; detecting encoding, segmenting and removing stop words are done automatically. Some convenient tools are also supplied. Package: r-cran-chinesenames Architecture: all Version: 2023.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 445 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-brucer, r-cran-data.table Suggests: r-cran-babynames, r-cran-car, r-cran-dplyr, r-cran-glue Filename: pool/dists/focal/main/r-cran-chinesenames_2023.8-1.ca2004.1_all.deb Size: 419508 MD5sum: 8360e331e076f745584e60c6d4581283 SHA1: 40b7666809bbaf62e10c0e84ae5a85940808aa0d SHA256: d7904e20d608a1c6891bb5ce4a018ef8a8716986dd005026157d7e68c3700568 SHA512: ab05bdd3720c88f1ebf2547e64add3e4fd907ed35f500af3022e348dcc496e71eed7ca18824e13d49e021c3de0b7c431303a5095da5ab815940566f8f7dd60e4 Homepage: https://cran.r-project.org/package=ChineseNames Description: CRAN Package 'ChineseNames' (Chinese Name Database 1930-2008) A database of Chinese surnames and Chinese given names (1930-2008). This database contains nationwide frequency statistics of 1,806 Chinese surnames and 2,614 Chinese characters used in given names, covering about 1.2 billion Han Chinese population (96.8% of the Han Chinese household-registered population born from 1930 to 2008 and still alive in 2008). This package also contains a function for computing multiple features of Chinese surnames and Chinese given names for scientific research (e.g., name uniqueness, name gender, name valence, and name warmth/competence). 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Contains functions to normalize and baseline amplification curves, to detect both the start and end of an amplification reaction, several smoothers (e.g., LOWESS, moving average, cubic splines, Savitzky-Golay), a function to detect false positive amplification reactions and a function to determine the amplification efficiency. Quantification point (Cq) methods include the first (FDM) and second approximate derivative maximum (SDM) methods (calculated by a 5-point-stencil) and the cycle threshold method. Data sets of experimental nucleic acid amplification systems ('VideoScan HCU', capillary convective PCR (ccPCR)) and commercial systems are included. Amplification curves were generated by helicase dependent amplification (HDA), ccPCR or PCR. As detection system intercalating dyes (EvaGreen, SYBR Green) and hydrolysis probes (TaqMan) were used. For more information see: Roediger et al. (2015) . 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The 'CHIRPS' data is a quasi-global (50°S – 50°N) high-resolution (0.05 arc-degrees) rainfall data set, which incorporates satellite imagery and in-situ station data to create gridded rainfall time series for trend analysis and seasonal drought monitoring. 'CHIRTS' is a quasi-global (60°S – 70°N), high-resolution data set of daily maximum and minimum temperatures. For more details on 'CHIRPS' and 'CHIRTS' data please visit its official home page . 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References include: Jolliffe I.T. (2002). Principal Component Analysis. and Mardia K.V., Kent J.T. and Bibby J.M. (1979). Multivariate Analysis. ISBN: 978-0124712522. London: Academic Press. 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Includes functions for preprocessing, alignment, peak-finding and fitting, peak-table construction, data-visualization, etc. Preprocessing and peak-table construction follow the rough formula laid out in alsace (Wehrens, R., Bloemberg, T.G., and Eilers P.H.C., 2015. . Alignment of chromatograms is available using parametric time warping (ptw) (Wehrens, R., Bloemberg, T.G., and Eilers P.H.C. 2015. ) or variable penalty dynamic time warping (VPdtw) (Clifford, D., & Stone, G. 2012. ). Peak-finding uses the algorithm by Tom O'Haver . Peaks are then fitted to a gaussian or exponential-gaussian hybrid peak shape using non-linear least squares (Lan, K. & Jorgenson, J. W. 2001. ). See the vignette for more details and suggested workflow. 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It introduces a special plot viz. the "chromosome heatmap" that, in addition to mapping elements, can visualize the data associated with chromosome elements (like gene expression) in the form of heat colors which can be highly advantageous in the scientific interpretations and research work. Because of the large size of the chromosomes, it is impractical to visualize each element on the same plot. However, the plot provides a magnified view for each of chromosome locus to render additional information and visualization specific for that location. You can map thousands of genes and can view all mappings easily. Users can investigate the detailed information about the mappings (like gene names or total genes mapped on a location) or can view the magnified single or double stranded view of the chromosome at a location showing each mapped element in sequential order. The package provide multiple features like visualizing multiple sets, chromosome heat-maps, group annotations, adding hyperlinks, and labelling. The plots can be saved as HTML documents that can be customized and shared easily. In addition, you can include them in R Markdown or in R 'Shiny' applications. 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The functions also include the ability to use different optimizer methods and calculate various model selection metrics (i.e., AIC, AICc, BIC). The ability to perform variants of the Hermans-Rasson test and Pycke test is also included as described in Landler et al. (2019) . The latest version also includes a new method to calculate circular-circular and circular-linear distance correlations. 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The package includes functions for calculation of densities and distributions, for the estimation of parameters, for plotting and more. Package: r-cran-circnntsraxial Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-psychtools, r-cran-circnntsr Filename: pool/dists/focal/main/r-cran-circnntsraxial_0.1.0-1.ca2004.1_all.deb Size: 76220 MD5sum: 04233165f53f7b7f9005ba4194c79ee6 SHA1: d6fb5831e9ba312a8fd12e13b2d02976ca76b57e SHA256: 50664f0a80131c7b9d240d50b4e6ac3ea117f171b00f3d0c18a9c42fe9e1f2a9 SHA512: 2944372e1936a1bf64dc59287afdb04d91c629b322c132ca87a0cda4f89e432dcb8b627270cb17390dcd3a77d654e80d81329c23defffa6a3d61d3d8f57f8f98 Homepage: https://cran.r-project.org/package=CircNNTSRaxial Description: CRAN Package 'CircNNTSRaxial' (Axial Data using NNTS Models) Statistical analysis of axial using distributions Nonnegative Trigonometric Sums (NNTS). The package includes functions for calculation of densities and distributions, for the estimation of parameters, and more. Fernandez-Duran, J.J. and Gregorio-Dominguez, M.M. (2025), ''Multimodal distributions for circular axial data", . 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The package includes functions for calculation of densities and distributions, for the estimation of parameters, and more. 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Fernandez-Duran, J.J. and Gregorio-Dominguez, M.M. (2025), "Multimodal Symmetric Circular Distributions Based on Nonnegative Trigonometric Sums and a Likelihood Ratio Test for Reflective Symmetry", . 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(2021). Modeling nonstationary extremes of storm severity: Comparing parametric and semiparametric inference. Environmetrics, 32(4), e2667. 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Provides various tools for preprocessing bibliographic data retrieved, e.g., from Elsevier's SciVerse Scopus, computing bibliometric impact of individuals, or modelling phenomena encountered in the social sciences. This package is deprecated, see 'agop' instead. 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'CITMIC' first constructed a weighted cell crosstalk network by integrating Cell-target interaction information, biological process data from the Gene Ontology (GO) database, and gene transcriptomic data in a specific sample, and then, it used a network propagation algorithm on the network to identify cell infiltration for the sample. Ultimately, cell infiltration in the patient dataset was obtained by normalizing the centrality scores of the cells. 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Package: r-cran-cito Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3650 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-coro, r-cran-checkmate, r-cran-torch, r-cran-gridextra, r-cran-parabar, r-cran-abind, r-cran-progress, r-cran-cli, r-cran-torchvision, r-cran-tibble, r-cran-lme4 Suggests: r-cran-spelling, r-cran-rmarkdown, r-cran-testthat, r-cran-plotly, r-cran-ggraph, r-cran-igraph, r-cran-ggplot2, r-cran-knitr Filename: pool/dists/focal/main/r-cran-cito_1.1-1.ca2004.1_all.deb Size: 2570696 MD5sum: 6d484a5bb9b1845a8e2ea98c7b09448a SHA1: bc033c79a7cbc43a8c29c8c5ab481b8e8467b69c SHA256: 0ba2c296039040e9d6efd6855af7edd63135f07cbc629d1e381fe298022ad8e8 SHA512: 5c37e550ba19ca9cbd117c14b833c47e49db50f5bbb9bb3d08b2e73f50fa6a75191c71b0383c30828aeae6ab482db88cdaca87f700fe9fa969f0ca550425557c Homepage: https://cran.r-project.org/package=cito Description: CRAN Package 'cito' (Building and Training Neural Networks) The 'cito' package provides a user-friendly interface for training and interpreting deep neural networks (DNN). 'cito' simplifies the fitting of DNNs by supporting the familiar formula syntax, hyperparameter tuning under cross-validation, and helps to detect and handle convergence problems. DNNs can be trained on CPU, GPU and MacOS GPUs. In addition, 'cito' has many downstream functionalities such as various explainable AI (xAI) metrics (e.g. variable importance, partial dependence plots, accumulated local effect plots, and effect estimates) to interpret trained DNNs. 'cito' optionally provides confidence intervals (and p-values) for all xAI metrics and predictions. At the same time, 'cito' is computationally efficient because it is based on the deep learning framework 'torch'. The 'torch' package is native to R, so no Python installation or other API is required for this package. 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All appended quantities are for the response variable, after conditioning on the model and covariates. This package has a data frame first syntax that allows for easy piping. Currently supported models include (log-) linear, (log-) linear mixed, generalized linear models, generalized linear mixed models, and accelerated failure time models. Package: r-cran-citrus Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-ggally, r-cran-clustmixtype, r-cran-treeclust, r-cran-rpart, r-cran-tibble, r-cran-rpart.plot, r-cran-stringr, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-citrus_1.0.2-1.ca2004.1_all.deb Size: 187868 MD5sum: 3b4b5f2dea0e186f2d1cf6739ed66c58 SHA1: decaca34780c782d2f2a8c81400e0e922f51a598 SHA256: 264ac1ed0723da84b4523383a823faea4780d9893f02c076f794759eecdf4de4 SHA512: 3aa0d18623b074bf1d68fdb2aed807ac3d331a96a081e32509a7ee665ea2e192cb03297cb7fb7a1e80a7c0759e18c0fef3d8dbfa9f7ad5dfad944ee21ee6c8cd Homepage: https://cran.r-project.org/package=citrus Description: CRAN Package 'citrus' (Customer Intelligence Tool for Rapid Understandable Segmentation) A tool to easily run and visualise supervised and unsupervised state of the art customer segmentation. It is built like a pipeline covering the 3 main steps in a segmentation project: pre-processing, modelling, and plotting. Users can either run the pipeline as a whole, or choose to run any one of the three individual steps. It is equipped with a supervised option (tree optimisation) and an unsupervised option (k-clustering) as default models. Package: r-cran-cityplot Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cityplot_2.0-1.ca2004.1_all.deb Size: 29256 MD5sum: bae5e4e1089fd2f6705ea10a702235a5 SHA1: 56e3ca2b3ed6657c0e233427949665b65ddb531e SHA256: f93d6af40d886e2b908dcc7aea0c7ffec360458051f36a3ce977da539600cf91 SHA512: a122b965af7e1fc71504cb7457144b439cef07d1a66a6669f7556db3f75e3c3d027bc6c4da05604b43ecd47014e08f3d299ef06fd46b9f7084b1581b56361484 Homepage: https://cran.r-project.org/package=CityPlot Description: CRAN Package 'CityPlot' (Visualization of structure and contents of a database) Input: a csv-file for each database table and a controlfile describing relations between tables. Output: An extended ER diagram Package: r-cran-citywaterbalance Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2238 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dataretrieval, r-cran-dplyr, r-cran-ecohydrology, r-cran-geoknife, r-cran-lubridate, r-cran-reshape2, r-cran-tgp, r-cran-xts, r-cran-zoo Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-citywaterbalance_0.1.0-1.ca2004.1_all.deb Size: 1096044 MD5sum: 22bbaf578c853efc9ed9a5ceedd766f4 SHA1: f9649d426cbad11a32f6f6166e1dec527b538828 SHA256: 640f6b3288d984a177f1c81745f18613b766d9a4dd8a77fa706a90a38dffc0dc SHA512: c1b494781e34abf9e8116d8506dfb2f79c3b72f978f89d0b051e543d058e7214ffa9bb730ba213c50560368ea738446dd6e9445f6b409ac9395261750def7d16 Homepage: https://cran.r-project.org/package=CityWaterBalance Description: CRAN Package 'CityWaterBalance' (Track Flows of Water Through an Urban System) Retrieves data and estimates unmeasured flows of water through the urban network. 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Package: r-cran-ciuupi2 Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-functional, r-cran-nloptr, r-cran-pracma, r-cran-precisesums, r-cran-statmod Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ciuupi2_1.0.1-1.ca2004.1_all.deb Size: 94232 MD5sum: 4e3ac2ee386a1e23515ea68655ad5af9 SHA1: 3da5466c3a046350dc76b222194fefc5ffc79ef8 SHA256: a7674d01b66ad5fd41edfd2f6afeccb4f5ab75057ce84e1516fa7e2f26a2c742 SHA512: e213bfa58b9b5b0c099c614feb518c1fe5bc5296510fb45d5401c8fc9762fefadaedf36f2684c4cc41108a8c718f1033540f5373ea70e37e69c62c1c05561f99 Homepage: https://cran.r-project.org/package=ciuupi2 Description: CRAN Package 'ciuupi2' (Kabaila and Giri (2009) Confidence Interval) Computes a confidence interval for a specified linear combination of the regression parameters in a linear regression model with iid normal errors with unknown variance when there is uncertain prior information that a distinct specified linear combination of the regression parameters takes a specified number. 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Package: r-cran-ciuupi Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nloptr, r-cran-statmod, r-cran-functional, r-cran-pracma Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ciuupi_1.2.3-1.ca2004.1_all.deb Size: 129852 MD5sum: ae25ef30eafbd3e03989f9e45b09cbae SHA1: 199d62fbbd85de66919036f11a56da63bfebdf36 SHA256: c00c3dbdb9baa03739a382176c3846a322713827bb479d81a61571cb903706d8 SHA512: ad34322068feca252ae0b86dd6ed4d11ff2ee16ff457698eeb2f605dab0bf5c936c6283a4305f71fd5bed0dc3bc06fec3fa88e5091ef2417020bff0fa2409801 Homepage: https://cran.r-project.org/package=ciuupi Description: CRAN Package 'ciuupi' (Confidence Intervals Utilizing Uncertain Prior Information) Computes a confidence interval for a specified linear combination of the regression parameters in a linear regression model with iid normal errors with known variance when there is uncertain prior information that a distinct specified linear combination of the regression parameters takes a given value. This confidence interval, found by numerical nonlinear constrained optimization, has the required minimum coverage and utilizes this uncertain prior information through desirable expected length properties. This confidence interval has the following three practical applications. Firstly, if the error variance has been accurately estimated from previous data then it may be treated as being effectively known. Secondly, for sufficiently large (dimension of the response vector) minus (dimension of regression parameter vector), greater than or equal to 30 (say), if we replace the assumed known value of the error variance by its usual estimator in the formula for the confidence interval then the resulting interval has, to a very good approximation, the same coverage probability and expected length properties as when the error variance is known. Thirdly, some more complicated models can be approximated by the linear regression model with error variance known when certain unknown parameters are replaced by estimates. This confidence interval is described in Mainzer, R. and Kabaila, P. (2019) , and is a member of the family of confidence intervals proposed by Kabaila, P. and Giri, K. (2009) . 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CIV allows for optimal instrumental variable estimation in settings with relatively few observations per category. To obtain valid inference in these challenging settings, CIV leverages a regularization assumption that implies existence of a latent categorical variable with fixed finite support achieving the same first stage fit as the observed instrument. 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Full documentation available 'here' . Package: r-cran-ciw Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-curl, r-cran-xml, r-cran-data.table Filename: pool/dists/focal/main/r-cran-ciw_0.0.2-1.ca2004.1_all.deb Size: 18312 MD5sum: 9be2d722bc3f429d54f26b7bab9944cc SHA1: 10bd19a3aee02b93eec723ae9c9c65418fef77aa SHA256: b971610fa12313fac4d40bcf85f35b49a6b4fe831cfe4e3fbda0fd1308610922 SHA512: 606369a247fb4f537c0a8a8d5e6a0f78aba9b2151e54b9e582c47707f0363686214af6d5d2463ff0cba45249b96f46b5fd0a84b6e026949ecb44bb600001fd82 Homepage: https://cran.r-project.org/package=ciw Description: CRAN Package 'ciw' (Watch the CRAN Incoming Directories) Directory reads and summaries are provided for one or more of the subdirectories of the directory, and a compact summary object is returned. The package name is a contraption of 'CRAN Incoming Watcher'. Package: r-cran-cjamp Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 843 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-optimx Suggests: r-cran-mass, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cjamp_0.1.1-1.ca2004.1_all.deb Size: 678976 MD5sum: 8cb813528c26484e02299f5d396c4abe SHA1: 92521ed67896334f65c27629d418e321c59ab1a2 SHA256: 11d4f1e6f8d01b1a3eddfc87b15a6d1fc5960f8b0c3da962cf4f4a05977f0a1d SHA512: bddfa664b3a84afa39d2b5b40404304ae29e089cc3010f6e0bcc388d0fbfe06ee82afbdd35cb01e939029255e42988c593d91143fcd907d1c438792bf2023e48 Homepage: https://cran.r-project.org/package=CJAMP Description: CRAN Package 'CJAMP' (Copula-Based Joint Analysis of Multiple Phenotypes) We provide a computationally efficient and robust implementation of the recently proposed C-JAMP (Copula-based Joint Analysis of Multiple Phenotypes) method (Konigorski et al., 2019, submitted). C-JAMP allows estimating and testing the association of one or multiple predictors on multiple outcomes in a joint model, and is implemented here with a focus on large-scale genome-wide association studies with two phenotypes. The use of copula functions allows modeling a wide range of multivariate dependencies between the phenotypes, and previous results are supporting that C-JAMP can increase the power of association studies to identify associated genetic variants in comparison to existing methods (Konigorski, Yilmaz, Pischon, 2016, ; Konigorski, Yilmaz, Bull, 2014, ). In addition to the C-JAMP functions, functions are available to generate genetic and phenotypic data, to compute the minor allele frequency (MAF) of genetic markers, and to estimate the phenotypic variance explained by genetic markers. Package: r-cran-cjar Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 947 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-httr, r-cran-magrittr, r-cran-purrr, r-cran-r6, r-cran-dplyr, r-cran-jsonlite, r-cran-glue, r-cran-jose, r-cran-tibble, r-cran-lubridate, r-cran-progress, r-cran-vctrs, r-cran-stringr, r-cran-rlang, r-cran-memoise, r-cran-openssl, r-cran-httr2 Filename: pool/dists/focal/main/r-cran-cjar_0.2.0-1.ca2004.1_all.deb Size: 831800 MD5sum: bf1653beccbf27649181dfd954b53f0b SHA1: 1060c607588174c248e667732e9610bea77c9913 SHA256: f29ca946e01cb5226fe0729d19548acb59113e410f6fa49e577edc9d733af3a8 SHA512: 53e793b4e9f048baa6cf0de0da6831c03026ee26f89a6a6bcebed373bde125be6f898797c07bb513763bafde84e0b66cf40d1955b09301a599c03c8f960661fc Homepage: https://cran.r-project.org/package=cjar Description: CRAN Package 'cjar' (R Client for 'Customer Journey Analytics' ('CJA') API) Connect and pull data from the 'CJA' API, which powers 'CJA Workspace' . The package was developed with the analyst in mind and will continue to be developed with the guiding principles of iterative, repeatable, timely analysis. New features are actively being developed and we value your feedback and contribution to the process. Package: r-cran-cjbart Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 827 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bart, r-cran-rlang, r-cran-tidyr, r-cran-ggplot2, r-cran-randomforestsrc, r-cran-rdpack Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cjbart_0.3.2-1.ca2004.1_all.deb Size: 299520 MD5sum: e317837a9edaccfc39c95ac20b1f6dc0 SHA1: 357ef121de5acb255b43a1e7a706fa7d1f51c4f6 SHA256: fef3505b04e9052aa69581562f2f815e03d58b84c2447d3119ce418875b5cf48 SHA512: d5abbac6473a8cfbceb5e1d9a336c6e9dfe91194abc3d54cbed666e8233ab2ac61144ff65a1bffea554e19deda814d62a5d4883b606e0ea43493c1c90e06945f Homepage: https://cran.r-project.org/package=cjbart Description: CRAN Package 'cjbart' (Heterogeneous Effects Analysis of Conjoint Experiments) A tool for analyzing conjoint experiments using Bayesian Additive Regression Trees ('BART'), a machine learning method developed by Chipman, George and McCulloch (2010) . This tool focuses specifically on estimating, identifying, and visualizing the heterogeneity within marginal component effects, at the observation- and individual-level. It uses a variable importance measure ('VIMP') with delete-d jackknife variance estimation, following Ishwaran and Lu (2019) , to obtain bias-corrected estimates of which variables drive heterogeneity in the predicted individual-level effects. Package: r-cran-cjive Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rootsolve, r-cran-ggplot2, r-cran-reshape2, r-cran-fields, r-cran-gplots, r-cran-psych Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cjive_0.1.0-1.ca2004.1_all.deb Size: 103820 MD5sum: bcf3e1ce267210c4e9d95d141db45712 SHA1: 4bb71c6b721c4a5243d1ffd2370e4a14e4086cfa SHA256: 1f72dfe7918474233f01e9635406c1908dea435f984289b42b0de3011422955d SHA512: 9a33fd15a9240847221bb2954388bc278ea811348f9c04fc90fc24c2de0684ecf30011b2216381904fbe627f1187b44201440763a9bb179d16db92955b5f7eea Homepage: https://cran.r-project.org/package=CJIVE Description: CRAN Package 'CJIVE' (Canonical Joint and Individual Variation Explained (CJIVE)) Joint and Individual Variation Explained (JIVE) is a method for decomposing multiple datasets obtained on the same subjects into shared structure, structure unique to each dataset, and noise. The two most common implementations are R.JIVE, an iterative approach, and AJIVE, which uses principal angle analysis. JIVE estimates subspaces but interpreting these subspaces can be challenging with AJIVE or R.JIVE. We expand upon insights into AJIVE as a canonical correlation analysis (CCA) of principal component scores. This reformulation, which we call CJIVE, 1) provides an ordering of joint components by the degree of correlation between corresponding canonical variables; 2) uses a computationally efficient permutation test for the number of joint components, which provides a p-value for each component; and 3) can be used to predict subject scores for out-of-sample observations. Please cite the following article when utilizing this package: Murden, R., Zhang, Z., Guo, Y., & Risk, B. (2022) . Package: r-cran-cjoint Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 631 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sandwich, r-cran-lmtest, r-cran-ggplot2, r-cran-survey, r-cran-matrix, r-cran-dt, r-cran-shiny, r-cran-shinyjs Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cjoint_2.1.1-1.ca2004.1_all.deb Size: 418948 MD5sum: 7677262644f99fde3e4d2076c3108920 SHA1: e6df645834f1235ab0441770e947a9ec2dbf7cdf SHA256: 5b3d719800b5719c0a860aba221f3ae15a145adb4fe519fd6769327b6f28c7bb SHA512: 6478acb1bce4b0c5b78417ca72dc8a9215eda54754176cdbce069f18fc0f068b4505fbb7c72d4f556d6bdf3bfd3350463e70a10ad64853a3363cb50bc40e7bbb Homepage: https://cran.r-project.org/package=cjoint Description: CRAN Package 'cjoint' (AMCE Estimator for Conjoint Experiments) An R implementation of the Average Marginal Component-specific Effects (AMCE) estimator presented in Hainmueller, J., Hopkins, D., and Yamamoto T. (2014) Causal Inference in Conjoint Analysis: Understanding Multi-Dimensional Choices via Stated Preference Experiments. Political Analysis 22(1):1-30. Package: r-cran-ckanr Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 525 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dbi, r-cran-crul, r-cran-jsonlite, r-cran-dplyr, r-cran-dbplyr, r-cran-magrittr Suggests: r-cran-sf, r-cran-readxl, r-cran-testthat, r-cran-xml2, r-cran-lazyeval Filename: pool/dists/focal/main/r-cran-ckanr_0.7.0-1.ca2004.1_all.deb Size: 415104 MD5sum: 08d6ff3bdd97330dd26c503576e2c654 SHA1: 889a2a179892f6ef9ef1de390cd468d81e5c2242 SHA256: 6735896f3ff88ad5033560344cdffac4a8588bf3fe9b1d7d2ce86fe47c79a9c2 SHA512: 53535d232c0847877967e9f6ac677bc1de20f8aba478ea683a16ca30abd0d733b0d931b47fbd39c12185ed8e28c70810a9ba9c9b7269d8b33d2f32fd184c8d27 Homepage: https://cran.r-project.org/package=ckanr Description: CRAN Package 'ckanr' (Client for the Comprehensive Knowledge Archive Network ('CKAN')API) Client for 'CKAN' API (). Includes interface to 'CKAN' 'APIs' for search, list, show for packages, organizations, and resources. In addition, provides an interface to the 'datastore' API. Package: r-cran-ckat Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-compquadform Filename: pool/dists/focal/main/r-cran-ckat_0.1.0-1.ca2004.1_all.deb Size: 35748 MD5sum: 02b0e21963df9834d629b01f53890942 SHA1: 6b10e9020a6e1c2dcd89c5ee8f7a1c56a7c6f154 SHA256: d227671740b9e2cf366e0701bbe86bec11228b8a98c5f07cec668749fc0eee1a SHA512: 5246f25c54da4e209389efd29fa1bb32f36c688404e92bc240d83f65028e142d3d46772af2b87ec6aa0486fdc7e9bec83484672f22c7d893c07681bbb9971a92 Homepage: https://cran.r-project.org/package=CKAT Description: CRAN Package 'CKAT' (Composite Kernel Association Test for Pharmacogenetics Studies) Composite Kernel Association Test (CKAT) is a flexible and robust kernel machine based approach to jointly test the genetic main effect and gene-treatment interaction effect for a set of single-nucleotide polymorphisms (SNPs) in pharmacogenetics (PGx) assessments embedded within randomized clinical trials. Package: r-cran-cla Architecture: all Version: 0.96-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1237 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-fgarch, r-cran-frapo, r-cran-matrix, r-cran-sfsmisc Filename: pool/dists/focal/main/r-cran-cla_0.96-3-1.ca2004.1_all.deb Size: 1196260 MD5sum: d4156bda692584628f98d3edc87d1501 SHA1: 7bdac04c28ff909788aa2f79d2804410f718ed68 SHA256: 34f0971bb8cdcba888d8dbd1079ddf6fdeb7f65d5bfdefbb88fc9fa5d6b8fa45 SHA512: 947849f3d5063e69942038412000d07d9234983b77ecb52be2a625405aacc11da0e9e2e1da9dd981d324f7fe5183cb68c6eb8763839a432fffd15bff4a64026a Homepage: https://cran.r-project.org/package=CLA Description: CRAN Package 'CLA' (Critical Line Algorithm in Pure R) Implements 'Markowitz' Critical Line Algorithm ('CLA') for classical mean-variance portfolio optimization, see Markowitz (1952) . Care has been taken for correctness in light of previous buggy implementations. Package: r-cran-claddis Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1996 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-phytools, r-cran-strap, r-cran-clipr, r-cran-geoscale, r-cran-multicool, r-cran-partitions Suggests: r-cran-rgl, r-cran-testthat Filename: pool/dists/focal/main/r-cran-claddis_0.7.0-1.ca2004.1_all.deb Size: 1357464 MD5sum: 1b7c21c0b19faee9664ed42442e30ed8 SHA1: 0d64607532ad4c9bd6ddcc217a11be38a22a537b SHA256: 952e76403b13ba8afa38d8a895ce23691794db4def63c9f177ad18dc3dab3465 SHA512: 18764401fcf22c9f370e2ed5a01271731e4a89da9890a6296b51c637eaeb69304fdd60986768abfecfd069db6ccfbb6e4319d16788509b861d89c586875383dd Homepage: https://cran.r-project.org/package=Claddis Description: CRAN Package 'Claddis' (Measuring Morphological Diversity and Evolutionary Tempo) Measures morphological diversity from discrete character data and estimates evolutionary tempo on phylogenetic trees. Imports morphological data from #NEXUS (Maddison et al. (1997) ) format with read_nexus_matrix(), and writes to both #NEXUS and TNT format (Goloboff et al. (2008) ). Main functions are test_rates(), which implements AIC and likelihood ratio tests for discrete character rates introduced across Lloyd et al. (2012) , Brusatte et al. (2014) , Close et al. (2015) , and Lloyd (2016) , and calculate_morphological_distances(), which implements multiple discrete character distance metrics from Gower (1971) , Wills (1998) , Lloyd (2016) , and Hopkins and St John (2018) . This also includes the GED correction from Lehmann et al. (2019) . Multiple functions implement morphospace plots: plot_chronophylomorphospace() implements Sakamoto and Ruta (2012) , plot_morphospace() implements Wills et al. (1994) , plot_changes_on_tree() implements Wang and Lloyd (2016) , and plot_morphospace_stack() implements Foote (1993) . Other functions include safe_taxonomic_reduction(), which implements Wilkinson (1995) , map_dollo_changes() implements the Dollo stochastic character mapping of Tarver et al. (2018) , and estimate_ancestral_states() implements the ancestral state options of Lloyd (2018) . calculate_tree_length() and reconstruct_ancestral_states() implements the generalised algorithms from Swofford and Maddison (1992; no doi). Package: r-cran-claimsproblems Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 296 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-geometry, r-cran-pracma, r-cran-rgl Filename: pool/dists/focal/main/r-cran-claimsproblems_1.0.0-1.ca2004.1_all.deb Size: 261284 MD5sum: 279c8d138d6bde7667efd584ec602e3c SHA1: 15adae3dbb853c609143c8fd9a0f797fdc0a2b3f SHA256: 4a2a3e3da9d40adfa7c834e351500f1fe125cf876b729604d3434f64d1614682 SHA512: 07d2359da5696b0d4f5cbe8f2b38e6edd1bf849685bd54082f133011321478716b458df7ac7bd54ef27799caf8c1f061d7c07eecbd80852a2bcc6bb620feb62c Homepage: https://cran.r-project.org/package=ClaimsProblems Description: CRAN Package 'ClaimsProblems' (Analysis of Conflicting Claims) The analysis of conflicting claims arises when an amount has to be divided among a set of agents with claims that exceed what is available. A rule is a way of selecting a division among the claimants. This package computes the main rules introduced in the literature from ancient times to the present. The inventory of rules covers the proportional and the adjusted proportional rules, the constrained equal awards and the constrained equal losses rules, the constrained egalitarian, the Piniles’ and the minimal overlap rules, the random arrival and the Talmud rules. Besides, the Dominguez and Thomson and the average-of-awards rules are also included. All of them can be found in the book by W. Thomson (2019), How to divide when there isn't enough. From Aristotle, the Talmud, and Maimonides to the axiomatics of resource allocation', except for the average-of-awards rule, introduced by Mirás Calvo et al. (2022), . In addition, graphical diagrams allow the user to represent, among others, the set of awards, the paths of awards, the schedules of awards of a rule, and some indexes. A good understanding of the similarities and differences between the rules is useful for better decision-making. Therefore, this package could be helpful to students, researchers, and managers alike. For a more detailed explanation of the package, see Mirás Calvo et al. (2023), . Package: r-cran-clam Architecture: all Version: 2.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 363 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rice, r-cran-data.table, r-cran-rintcal Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-utf8 Filename: pool/dists/focal/main/r-cran-clam_2.6.2-1.ca2004.1_all.deb Size: 208684 MD5sum: a35dd987be3573a3a4815525ea451e19 SHA1: 31fe942bd5c41395a1dd035001ac54517b01c6c6 SHA256: 8f60c16f822482f87f887747d2efccca242d4084b6a28702ee3004a55d9a0e87 SHA512: 5efb56d895b242494ccfecd8fb257219ca0e6af3e6584bc06acfdb5920c2ca41291de3e6dc14ea672587db9c493b9d3451fcae34605c5cc8a756ce77551662a7 Homepage: https://cran.r-project.org/package=clam Description: CRAN Package 'clam' (Classical Age-Depth Modelling of Cores from Deposits) Performs 'classical' age-depth modelling of dated sediment deposits - prior to applying more sophisticated techniques such as Bayesian age-depth modelling. Any radiocarbon dated depths are calibrated. Age-depth models are constructed by sampling repeatedly from the dated levels, each time drawing age-depth curves. Model types include linear interpolation, linear or polynomial regression, and a range of splines. See Blaauw (2010) . Package: r-cran-clampseg Architecture: all Version: 1.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1863 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-stepr, r-cran-lowpassfilter Suggests: r-cran-testthat, r-cran-r.cache, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-clampseg_1.2-0-1.ca2004.1_all.deb Size: 1627264 MD5sum: 9b4fa828e00732c6b2cb782a9d0e14f5 SHA1: 1b67f4a12b5bed7f8567d63f889e2170696d2f2a SHA256: e97cf8aa2b5ca4829f36f5ad48dd77d8019d696b5fc7f7fb5f52acb38e4b0668 SHA512: 9b2a65f66aa8e7bcb611f19cc86bfd1c1895c4ff4906bfe9eee30a08f1ea833d6b4666dc3ad7ab7e76eebd09ec9a3ec2dfa33e6d35e1ffa12d48de5d72fed50f Homepage: https://cran.r-project.org/package=clampSeg Description: CRAN Package 'clampSeg' (Idealisation of Patch Clamp Recordings) Implements the model-free multiscale idealisation approaches: Jump-Segmentation by MUltiResolution Filter (JSMURF), Hotz et al. (2013) , JUmp Local dEconvolution Segmentation filter (JULES), Pein et al. (2018) , and Heterogeneous Idealization by Local testing and DEconvolution (HILDE), Pein et al. (2021) . Further details on how to use them are given in the accompanying vignette. Package: r-cran-clamr Architecture: all Version: 2.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-clamr_2.1-3-1.ca2004.1_all.deb Size: 80976 MD5sum: 4c5f64582d4ac893f26095080cb18679 SHA1: 119ce9e02e03b93104a831fe587bcb9851218305 SHA256: 621374f7cadbf33c7d18754f70639e924c600d11f4c484ef8bcbf172ba9d6579 SHA512: 47803473ad6c17479b884ac3de375608392c58c3a5fa686bbe9029a6d7371586a9ab436bcd300b0403b3b8bf8b46b8b86ee6a9315f1b8e95bc8f5114f7a18038 Homepage: https://cran.r-project.org/package=ClamR Description: CRAN Package 'ClamR' (Time Series Modeling for Climate Change Proxies) Implementation of the Wilkinson and Ivany (2002) approach to paleoclimate analysis, applied to isotope data extracted from clams. Package: r-cran-clap Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 254 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mclust, r-cran-fnn, r-cran-dplyr, r-cran-rlang Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-clap_0.1.0-1.ca2004.1_all.deb Size: 216764 MD5sum: 56e26a58f774268ececd5db731595447 SHA1: ae33e852ab13638a8c00b3d09415bdc06ae09f1c SHA256: 3bc0422b4a32b183ba920040fcd7e6e3215db6d515ec420c39f4beb944e0c856 SHA512: eafbd4d27463ff56f1c8c5efb50d1815be56233f7e3e1b0ef8b245ab03616f258a5e8e761f3fbf0b4e58be811ce8f9ccf0e8b88983c0d43c88b4c0c199b5324f Homepage: https://cran.r-project.org/package=clap Description: CRAN Package 'clap' (Detecting Class Overlapping Regions in Multidimensional Data) The issue of overlapping regions in multidimensional data arises when different classes or clusters share similar feature representations, making it challenging to delineate distinct boundaries between them accurately. This package provides methods for detecting and visualizing these overlapping regions using partitional clustering techniques based on nearest neighbor distances. Package: r-cran-clarifai Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2599 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-curl, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clarifai_0.4.2-1.ca2004.1_all.deb Size: 1248488 MD5sum: 4cba07ecd8d67d8acb356f9f3926c7ca SHA1: 857f8adca802d0db482c881ee8395b1db77517b3 SHA256: 6f6d354f82f7569ed35b27dabfeea11d77e3d83728e5593b146ac2d5cc43d49d SHA512: b7caf4b55c0b6babb4657dbc2c2aaea88bdcbd39b45feaea76e8b539eb61cd4699b20bd6b1a5aa1c5ecc54d81af1b483e759c179606cd616a5d2725bb963b2be Homepage: https://cran.r-project.org/package=clarifai Description: CRAN Package 'clarifai' (Access to Clarifai API) Get description of images from Clarifai API. For more information, see . Clarifai uses a large deep learning cloud to come up with descriptive labels of the things in an image. It also provides how confident it is about each of the labels. 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The graphical displays include stacked plots, silhouette plots, quasi residual plots, and class maps. Implements the techniques described and illustrated in Raymaekers J., Rousseeuw P.J., Hubert M. (2021). Class maps for visualizing classification results. \emph{Technometrics}, 64(2), 151–165. \doi{10.1080/00401706.2021.1927849} (open access) and Raymaekers J., Rousseeuw P.J.(2021). Silhouettes and quasi residual plots for neural nets and tree-based classifiers. \emph{Journal of Computational and Graphical Statistics}, 31(4), 1332–1343. \doi{10.1080/10618600.2022.2050249}. Examples can be found in the vignettes: "Discriminant_analysis_examples","K_nearest_neighbors_examples", "Support_vector_machine_examples", "Rpart_examples", "Random_forest_examples", and "Neural_net_examples". 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Relying on very few dependencies, it provides smart guessing, but with user options to override anything if needed. Package: r-cran-cleanbsequences Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-pwalign, r-bioc-biostrings Filename: pool/dists/focal/main/r-cran-cleanbsequences_2.3.0-1.ca2004.1_all.deb Size: 21636 MD5sum: fd6bb61d4e485108ae3c128351e8230f SHA1: a8bedd8eec83bbe6434ebe97bf73047e15f50699 SHA256: ceb343812962180ba42bca5629c3a12d461a12281546a0f9dacafefc98d9973f SHA512: 846eab65bcd53c860cdabd08b83d8570ce21761599e33b20e3cb7c52add2a9717314c27407f406131b571f628ae5db2dd589d579220225bca64e45bcdf365eaf Homepage: https://cran.r-project.org/package=CleanBSequences Description: CRAN Package 'CleanBSequences' (Curing of Biological Sequences) Curates biological sequences massively, quickly, without errors and without internet connection. 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Package: r-cran-cleanerr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cleanerr_0.1.1-1.ca2004.1_all.deb Size: 81988 MD5sum: 55328953ec4d1a35725e47e76c9c95cf SHA1: e250cf4873dd8f164352d5525605c0f10a952b97 SHA256: e18fcc6644d24471e099b68f483694fc9d4c8966302ba938d4dcb1aac741e12d SHA512: af7cf72614833a81735a1d2bdddfebf88d2d1bc892404cdb2159aeb957634e718e978aa8c2928283e357c08cc6c3630b4e08f4a0fdc3860b0a40e419d6a93ae5 Homepage: https://cran.r-project.org/package=cleanerR Description: CRAN Package 'cleanerR' (How to Handle your Missing Data) How to deal with missing data?Based on the concept of almost functional dependencies, a method is proposed to fill missing data, as well as help you see what data is missing. 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Package: r-cran-cleangeo Architecture: all Version: 0.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sp, r-cran-sf Suggests: r-cran-testthat, r-cran-knitr, r-cran-markdown, r-cran-pbapply Filename: pool/dists/focal/main/r-cran-cleangeo_0.3-1-1.ca2004.1_all.deb Size: 68796 MD5sum: edb42ceee6504c8b43cf9afbb77bdc6c SHA1: 33b429242f8eaa08e5da80ce92ae93166b0fda88 SHA256: 08bc5d67231df7e3a8d9b51f98d0c66194f6a59587e795c862fdc753c8b76725 SHA512: 14136343d59532692095bca05aa5a1abeca2d8af598f3935e82fc7e23856dacf953d7f05978d04a575c36b263db3204a82aa4bff9194b3d37eeb4e14e6f649ca Homepage: https://cran.r-project.org/package=cleangeo Description: CRAN Package 'cleangeo' (Cleaning Geometries from Spatial Objects) Provides a set of utility tools to inspect spatial objects, facilitate handling and reporting of topology errors and geometry validity issue with sp objects. 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Many tried to teach us how to write code less dreadful, be it implicitly as B. W. Kernighan and D. M. Ritchie (1988) in 'The C Programming Language' did, be it explicitly as R.C. Martin (2008) in 'Clean Code: A Handbook of Agile Software Craftsmanship' did. So we should check our code for files too long or wide, functions with too many lines, too wide lines, too many arguments or too many levels of nesting. Note: This is not a static code analyzer like pylint or the like. Checkout instead. 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Package: r-cran-clickableimagemap Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1159 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gridextra, r-cran-ggplotify, r-cran-ggplot2, r-cran-gtable Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clickableimagemap_1.0-1.ca2004.1_all.deb Size: 425900 MD5sum: 1cdbd5d16115d6be17415611d8994628 SHA1: 0eaeb4d556a903d5e2d8217eda73662dce43c9a9 SHA256: a044a500f4fb0a2261e9dff576bae05e393faed31151148c12853c04511204c8 SHA512: bfc4208888d71a098e9310e4bca8eac6184897aa9217bb98097877e266a12c3ce6ecb0453c213ca3197deaeb24172829cc5742b363bfc95d37737974d1c7679d Homepage: https://cran.r-project.org/package=clickableImageMap Description: CRAN Package 'clickableImageMap' (Implement 'tableGrob' Object as a Clickable Image Map) Implement 'tableGrob' object as a clickable image map. The 'clickableImageMap' package is designed to be more convenient and more configurable than the edit() function. Limitations that I have encountered with edit() are cannot control (1) positioning (2) size (3) appearance and formatting of fonts In contrast, when the table is implemented as a 'tableGrob', all of these features are controllable. In particular, the 'ggplot2' grid system allows exact positioning of the table relative to other graphics etc. Package: r-cran-clickb Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-discreteweibull, r-cran-mclust, r-cran-mcmcpack Suggests: r-cran-seqhmm Filename: pool/dists/focal/main/r-cran-clickb_0.1-1.ca2004.1_all.deb Size: 36768 MD5sum: bf1a2f6db393c3962567f736f5c4742c SHA1: 7b9f139478ba78188d1eb50aeb99c881f947a464 SHA256: 6dd5af33710fe03eb272c3b05d88b2abd400259e89c419f870859c3d8c548426 SHA512: 0252bf1cc7f853028af5768f064b134e030857661263d43ec58762fb1e67979b602777c2d3cbfa1d883243d74524c453443d948ae3ee5e6fd7b3f3c988113965 Homepage: https://cran.r-project.org/package=clickb Description: CRAN Package 'clickb' (Web Data Analysis by Bayesian Mixture of Markov Models) Designed for web usage data analysis, it implements tools to process web sequences and identify web browsing profiles through sequential classification. Sequences' clusters are identified by using a model-based approach, specifically mixture of discrete time first-order Markov models for categorical web sequences. A Bayesian approach is used to estimate model parameters and identify sequences classification as proposed by Fruehwirth-Schnatter and Pamminger (2010) . Package: r-cran-clickclustcont Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools Filename: pool/dists/focal/main/r-cran-clickclustcont_0.1.7-1.ca2004.1_all.deb Size: 178220 MD5sum: 6ed13481b6a00f08ee18e63d4949098c SHA1: 7f4c952eb06b3c49dbd8bf74a157f05a58716de8 SHA256: 7e9b2dd5f01e33a302fe069c3cbb00ce1c9d5d3efacf52fcac0a32c21a7f6d15 SHA512: 06a31f126c646861502d4f5ea16fe0816a27f684133f7da7061fc3a073a16d8410a885fbec05f42f40e76cd4e26028a70f1473797dd45023a9690fa0e6ef7d2a Homepage: https://cran.r-project.org/package=ClickClustCont Description: CRAN Package 'ClickClustCont' (Mixtures of Continuous Time Markov Models) Provides an expectation maximization (EM) algorithm to fit a mixture of continuous time Markov models for use with clickstream or other sequence type data. Gallaugher, M.P.B and McNicholas, P.D. (2018) . Package: r-cran-clickhousehttp Architecture: all Version: 0.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 309 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dbi, r-cran-httr, r-cran-jsonlite, r-cran-arrow, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-stringi Filename: pool/dists/focal/main/r-cran-clickhousehttp_0.3.4-1.ca2004.1_all.deb Size: 229344 MD5sum: 8fd94f36e36074cc27238160f53b8cd9 SHA1: 706d08412c4fe55e1b93870c3e716100b7388d0c SHA256: 2c8cc1aa75dd1bb14a23688a057b7866e4e74478ef337d7bf6b6d99f759dd702 SHA512: 84d8d0021c377b715ac2fe5d84552393f799f6cd6e14daa3b5d0dbe8b8e3e8923d292df12ddf6fc64eb04f64ee276da60657e24de9286d08526ed59935540e84 Homepage: https://cran.r-project.org/package=ClickHouseHTTP Description: CRAN Package 'ClickHouseHTTP' (A Simple HTTP Database Interface to 'ClickHouse') 'ClickHouse' () is an open-source, high performance columnar OLAP (online analytical processing of queries) database management system for real-time analytics using SQL. This 'DBI' backend relies on the 'ClickHouse' HTTP interface and support HTTPS protocol. Package: r-cran-clickr Architecture: all Version: 0.9.45-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 226 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-beeswarm, r-cran-future, r-cran-future.apply, r-cran-stringdist Filename: pool/dists/focal/main/r-cran-clickr_0.9.45-1.ca2004.1_all.deb Size: 185516 MD5sum: c3d1d8d656d719f49acf87a31ce10174 SHA1: 0941981929214a2d3b689ca9c505cbf57d40fc15 SHA256: 6eff2c506ced8d5141f7ee7961b11779f8b2b282c2614c81cdbd3b6daf89cd79 SHA512: 4489e1ae4b6fda23d243488a6fe4db696e3a5e87f2c290ae95f193e37c9637ab01624891a0b8b66937e3aaccb6274d267705e81cc6def3c95620d201cd512608 Homepage: https://cran.r-project.org/package=clickR Description: CRAN Package 'clickR' (Semi-Automatic Preprocessing of Messy Data with Change Trackingfor Dataset Cleaning) Tools for assessing data quality, performing exploratory analysis, and semi-automatic preprocessing of messy data with change tracking for integral dataset cleaning. Package: r-cran-clickstream Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 397 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-igraph, r-cran-reshape2, r-cran-mass, r-cran-plyr, r-cran-rsolnp, r-cran-arules, r-cran-linprog, r-cran-ggplot2, r-cran-clickclust, r-cran-data.table Filename: pool/dists/focal/main/r-cran-clickstream_1.3.3-1.ca2004.1_all.deb Size: 317128 MD5sum: db3aa6368296273f48355023c17f51fa SHA1: 4f89bed95cf33a5552ef8b328bde1a8fc8724174 SHA256: 0390f9414f73d30dfbdc2c83f3f1519f727a1f1319d9b29427474d06fd92fb59 SHA512: 31dbd4739fd903fc1b5e896fa3186300677811bc39af507faf3af9ad84a0e2e8b40d2c6ec71a3d176d867bc37d88b5397164e9e3671e8e40e3bd1597fe767a9f Homepage: https://cran.r-project.org/package=clickstream Description: CRAN Package 'clickstream' (Analyzes Clickstreams Based on Markov Chains) A set of tools to read, analyze and write lists of click sequences on websites (i.e., clickstream). A click can be represented by a number, character or string. Clickstreams can be modeled as zero- (only computes occurrence probabilities), first- or higher-order Markov chains. Package: r-cran-clidamonger Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2900 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-clidamonger_1.3.0-1.ca2004.1_all.deb Size: 2933860 MD5sum: 85af38cb4a7a018f7801ba65a8505961 SHA1: d76762d4b8372c8584720911e2e458901e44362a SHA256: 2503b8683b482827d8418730e81a8efb218b58ea10bb40d3d5916128f1dd1b74 SHA512: 660dca595fe0ef2fd21af5e193e7b6c9390561c058e7ac54b34fbc671c600f31b7e013e52eb873ccf9e72f789e249c66b34bb2457dc405524882dfb59c83ee43 Homepage: https://cran.r-project.org/package=clidamonger Description: CRAN Package 'clidamonger' (Monthly Climate Data for Germany, Usable for Heating and CoolingCalculations) This data package contains monthly climate data in Germany, it can be used for heating and cooling calculations (external temperature, heating / cooling days, solar radiation). 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Can download climate data from 'JMA'. Package: r-cran-cliff Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ellipsis, r-cran-processx, r-cran-rlang Suggests: r-cran-withr, r-cran-crayon, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cliff_0.1.2-1.ca2004.1_all.deb Size: 19904 MD5sum: 51ec6e28ff527330fd43c74dff097f77 SHA1: 7cc3a1a3f8d3b7c23d3294b21c22b53289e290b7 SHA256: b1aee0892e90f76cc65a24f68e20743a97a33a6772fc9ccc2e2c5fc77d13dc1f SHA512: 3733df873567662e7f1849be810ae68b13264eb2beee17d61e02d0b3aaca99156a87488a6dc840d79f1d15104e9b82293637d8b295ee3ff799b4a436f1929a0c Homepage: https://cran.r-project.org/package=cliff Description: CRAN Package 'cliff' (Execute Command Line Programs Interactively) Execute command line programs and format results for interactive use. 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Collating and manipulating data from CliFlo (hence clifro) and importing into R for further analysis, exploration and visualisation is now straightforward and coherent. The user is required to have an internet connection, and a current CliFlo subscription (free) if data from stations, other than the public Reefton electronic weather station, is sought. Package: r-cran-cliftlrd Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cnltreg, r-cran-liftlrd Suggests: r-cran-fracdiff Filename: pool/dists/focal/main/r-cran-cliftlrd_0.1-2-1.ca2004.1_all.deb Size: 40808 MD5sum: d4efd835149ea0d86728ffd10dc391d9 SHA1: 9eefb657060fda8bf543e729dd2d3f36c50dcd3c SHA256: 793d6ed1cc7bfba6bc65bbff30cc0bd833d790a79f3d0ff63d23aa4b4331b504 SHA512: 7d4edb74b36aa4b4335ed63a84fb2f3a0e74f0d95b00a421c04f12be7c6fc24d94baa2d17565dc404389ba2cd939cd963ac5867d12d0ccf932f52679f1275cb9 Homepage: https://cran.r-project.org/package=CliftLRD Description: CRAN Package 'CliftLRD' (Complex-Valued Wavelet Lifting Estimators of the Hurst Exponentfor Irregularly Sampled Time Series) Implementation of Hurst exponent estimators based on complex-valued lifting wavelet energy from Knight, M. I and Nunes, M. A. (2018) . Package: r-cran-clikcorr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-clikcorr_1.0-1.ca2004.1_all.deb Size: 146644 MD5sum: c1ee5a1a9f3cfe98fbbbd44253a28cd0 SHA1: cea2ac05d0fcd5f83af22cc23210741345cc9e3e SHA256: fadf49b2f09676d1c16c55aaa15b64af1f1ca34b2541203bcf66e9f243b4a942 SHA512: 258f69ec35fd5cf5c75b3da83decb4903e4b9c0c2f3d5dce81ac19277444f9caeb312a5a3443afe60fd96164c9be401fef06b3a02224be4ac6e163c74fa43a95 Homepage: https://cran.r-project.org/package=clikcorr Description: CRAN Package 'clikcorr' (Censoring Data and Likelihood-Based Correlation Estimation) A profile likelihood based method of estimation and inference on the correlation coefficient of bivariate data with different types of censoring and missingness. Package: r-cran-climaemet Architecture: all Version: 1.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1031 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-httr2, r-cran-jsonlite, r-cran-rappdirs, r-cran-readr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-climatol, r-cran-gganimate, r-cran-jpeg, r-cran-knitr, r-cran-lifecycle, r-cran-lubridate, r-cran-mapspain, r-cran-rmarkdown, r-cran-scales, r-cran-sf, r-cran-terra, r-cran-testthat Filename: pool/dists/focal/main/r-cran-climaemet_1.4.2-1.ca2004.1_all.deb Size: 843876 MD5sum: 6b3fc7da4e3d8472a67553df9f391f1c SHA1: b12cda6774a77ead20bb53a0b487e81c591bae5e SHA256: 47246acf1bb974ac0f48e34641ce01e3a5fef42cb20a1f7f83ce2def2eabb963 SHA512: 8f3284e9ff12d7ca1f41d3f62726976054c50f82114c9d0b2f6403cd0c660d5d8e5d4cdbec8bd9bdf220c75700a8da4404bf4d2355ebd6e3f44e4c811600af58 Homepage: https://cran.r-project.org/package=climaemet Description: CRAN Package 'climaemet' (Climate AEMET Tools) Tools to download the climatic data of the Spanish Meteorological Agency (AEMET) directly from R using their API and create scientific graphs (climate charts, trend analysis of climate time series, temperature and precipitation anomalies maps, warming stripes graphics, climatograms, etc.). Package: r-cran-climarep Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3642 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-terra, r-cran-sf, r-cran-tidyterra Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-climarep_0.6-1.ca2004.1_all.deb Size: 2275968 MD5sum: ad0a035c52d5f410083d64555db7f33e SHA1: 2bdd1c09ae8f676d2ddeddda0045caf56a609e05 SHA256: 4cbae21c7aac794d796270922fb7827a66bac1a105c3538987df7be8f9575828 SHA512: fbf2888ee350df0ada9483abd81652eb89bda76a905ed510f6c3332944d71b2eb304c06473bf98d65144e4bd2633d938e5499f91fa00132941cf57e0a2e6cf35 Homepage: https://cran.r-project.org/package=ClimaRep Description: CRAN Package 'ClimaRep' (Estimating Climate Representativeness) Offers tools to estimate the climate representativeness of defined areas and quantifies and analyzes its transformation under future climate change scenarios. Approaches described in Mingarro and Lobo (2018) and Mingarro and Lobo (2022) . Package: r-cran-climate Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1314 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-archive, r-cran-curl, r-cran-data.table, r-cran-httr, r-cran-stringi, r-cran-xml Suggests: r-cran-dplyr, r-cran-knitr, r-cran-maps, r-cran-testthat, r-cran-tidyr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-climate_1.2.3-1.ca2004.1_all.deb Size: 1084768 MD5sum: 0e367d2c20dc1f0758e3b68bea694297 SHA1: 338aa836352361355bcc1f2e7e30ee66e53bccf8 SHA256: 22c9fbf8eef6fc4e1ff8d554c7b13886926a8d94ea6a91b3b70a3a9222566113 SHA512: 100e16f80fb7a04d9489af54135cd61dc248a301d38a67e6ea8f4fa80765a36f74ba11b02fbb767ad67096d7f1d18ba61a31015205682ae1285a366fed859c47 Homepage: https://cran.r-project.org/package=climate Description: CRAN Package 'climate' (Interface to Download Meteorological (and Hydrological) Datasets) Automatize downloading of meteorological and hydrological data from publicly available repositories: OGIMET (), University of Wyoming - atmospheric vertical profiling data (), Polish Institute of Meteorology and Water Management - National Research Institute (), and National Oceanic & Atmospheric Administration (NOAA). This package also allows for searching geographical coordinates for each observation and calculate distances to the nearest stations. Package: r-cran-climatestability Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 628 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-terra Suggests: r-cran-rangebuilder, r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-climatestability_0.1.4-1.ca2004.1_all.deb Size: 209316 MD5sum: 780580ab5f33f6df3edfb1254bc28e5f SHA1: 6864da8f913a65bf90f8f811008fc7e7d7325bcc SHA256: 47ff6aaac951116e22839b82c1023dd588d225d854d8c5902b170f59572898da SHA512: bf9a4517c8d3277ec048fdc58ebfe747ba38f5bdec3927f49304d7cf4c991c8732fb4c79896a230d459cecfe5bb9719be3ebb9069373e5a8e43fafd3a8688bef Homepage: https://cran.r-project.org/package=climateStability Description: CRAN Package 'climateStability' (Estimating Climate Stability from Climate Model Data) Climate stability measures are not formalized in the literature and tools for generating stability metrics from existing data are nascent. This package provides tools for calculating climate stability from raster data encapsulating climate change as a series of time slices. The methods follow Owens and Guralnick Biodiversity Informatics. Package: r-cran-climatol Architecture: all Version: 4.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2584 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-evd, r-cran-fields, r-cran-gstat, r-cran-maps, r-cran-mapdata, r-cran-ncdf4, r-cran-raster, r-cran-readxl, r-cran-rodbc, r-cran-sp Filename: pool/dists/focal/main/r-cran-climatol_4.2-0-1.ca2004.1_all.deb Size: 2329812 MD5sum: d11adefdb47906ecf8c8207277541c82 SHA1: 6f48fc01eb3d19e4913e4b006e56960d1dc08be0 SHA256: f229831d0b1d09b349fd4ab4396ef39d4f6d4f2e9dc51b34eb4a082539615cc4 SHA512: 449daee637005b4e7db1901d411981b3013b7b7401a0259b9302401a0792383ff431cd7516e5e9bdaec345cd42c6432b50d32c33886b529ae07556f03af674e5 Homepage: https://cran.r-project.org/package=climatol Description: CRAN Package 'climatol' (Climate Tools (Series Homogenization and Derived Products)) Functions for the quality control, homogenization and missing data filling of climatological series and to obtain climatological summaries and grids from the results. Also functions to display wind-roses, meteograms, Walter&Lieth diagrams, and more. Package: r-cran-climatrends Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5578 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-nasapower Suggests: r-cran-ag5tools, r-cran-chirps, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-testthat Filename: pool/dists/focal/main/r-cran-climatrends_0.5-1.ca2004.1_all.deb Size: 3780688 MD5sum: 30d43524ba631975926a6ee080f7516d SHA1: 199bc589780978923700fbcfbae76a5a4ad22ead SHA256: 7d32d1c3477efd6614808f818bc955980da8ff4e2978e8d2114897d7e9a7d32a SHA512: 528efe6c550099d5ccc2e3c6b81fcc5329c1a880705d362ea6ad24da1ec87301b3478716fbab5d8c50ce5e798590e525820cd721e64f85e4d0501fe12e864472 Homepage: https://cran.r-project.org/package=climatrends Description: CRAN Package 'climatrends' (Climate Variability Indices for Ecological Modelling) Supports analysis of trends in climate change, ecological and crop modelling. Package: r-cran-climclass Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2390 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-geosphere, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-stringr Filename: pool/dists/focal/main/r-cran-climclass_2.1.1-1.ca2004.1_all.deb Size: 2203908 MD5sum: 7a3a7db6b8e2cf804af7ab73fee0231e SHA1: faf4a248aa840edef7ba47238282bb3f67b0f55d SHA256: 3db918dbb696f7a7a77908bf86af449864e4b4ef1a639b98fe71b9173e5c7d85 SHA512: 398fcee46bd9e2c138a83f05e2d0e23444caa20b2f31fe48e2a60c44b58771b7fa15e9d4690c51c487dc90450b26d8a3841c69e2e7bd69aa756b2d6a1c4064f2 Homepage: https://cran.r-project.org/package=ClimClass Description: CRAN Package 'ClimClass' (Climate Classification According to Several Indices) Classification of climate according to Koeppen - Geiger, of aridity indices, of continentality indices, of water balance after Thornthwaite, of viticultural bioclimatic indices. Drawing climographs: Thornthwaite, Peguy, Bagnouls-Gaussen. Package: r-cran-climd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49761 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-raster, r-cran-ncdf4, r-cran-qpdf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-climd_0.1.0-1.ca2004.1_all.deb Size: 2385552 MD5sum: f026666c6ca5e0f7828f24ef93029a9b SHA1: 45894fc6e4ff2f7f9f4df30adfc8c3b5b875310b SHA256: b2e4f53abfdefdad4ce9cb0d9b222228eca06cd21c99bf0a44154c505c8dce6a SHA512: 9c8b7c59026fa220b51d61be074d56dd28fddb3187f4c5d6bf1ce541dce77c07b45ca20cedf6be2830c28bb3b37e0c537e30358313f1958577dfc772bd4689be Homepage: https://cran.r-project.org/package=CLimd Description: CRAN Package 'CLimd' (Generating Rainfall Rasters from IMD NetCDF Data) The developed function is a comprehensive tool for the analysis of India Meteorological Department (IMD) NetCDF rainfall data. Specifically designed to process high-resolution daily gridded rainfall datasets. It provides four key functions to process IMD NetCDF rainfall data and create rasters for various temporal scales, including annual, seasonal, monthly, and weekly rainfall. For method details see, Malik, A. (2019).. It supports different aggregation methods, such as sum, min, max, mean, and standard deviation. These functions are designed for spatio-temporal analysis of rainfall patterns, trend analysis,geostatistical modeling of rainfall variability, identifying rainfall anomalies and extreme events and can be an input for hydrological and agricultural models. Package: r-cran-clime Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-lpsolve Filename: pool/dists/focal/main/r-cran-clime_0.5.0-1.ca2004.1_all.deb Size: 42312 MD5sum: 2567295a18726ce55998abffa3e46201 SHA1: 3d5e434782ff16038ba739a7e0d079cf69b12bfa SHA256: 144cd3e9b6441f5507fea441e03b53201af840e3f3cab566ebf1e7a7c8aabc6c SHA512: e54fdb982123566fcb8e7d0947119b0c6479c5094381e4e5178a5f1d646978d2eed1ee72c98270c7f4dc143eb417f3b15ef06fd37f41ff8ec857ae21acf27d7e Homepage: https://cran.r-project.org/package=clime Description: CRAN Package 'clime' (Constrained L1-Minimization for Inverse (Covariance) MatrixEstimation) A robust constrained L1 minimization method for estimating a large sparse inverse covariance matrix (aka precision matrix), and recovering its support for building graphical models. The computation uses linear programming. The method was published in TT Cai, W Liu, X Luo (2011) . Package: r-cran-climenv Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2441 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-climaemet, r-cran-dismo, r-cran-dplyr, r-cran-elevatr, r-cran-exactextractr, r-cran-geodata, r-cran-glue, r-cran-plyr, r-cran-randomforest, r-cran-sf, r-cran-sp, r-cran-ternary, r-cran-terra Suggests: r-cran-covr, r-cran-fs, r-cran-knitr, r-cran-progress, r-cran-raster, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-climenv_1.0.0-1.ca2004.1_all.deb Size: 2048436 MD5sum: 0aa6a36bf6ae5f498b81de090faf55ed SHA1: 9a464b249bd8d515b6a98a2327aa5ae4f1946dc2 SHA256: 6684893c0c64fdc6eaad4e820867a1e99005be3fe87eb99c36da3e076b22def8 SHA512: f3723a4ceb379960f3a5242b948faefbd32ab32eada7fa29c647a7a33f69908dfc2c03178ee5279714068d9a9a9494c033ba8883799aaffbd62fdafa54330131 Homepage: https://cran.r-project.org/package=climenv Description: CRAN Package 'climenv' (Download, Extract and Visualise Climate and Elevation Data) Grants access to three widely recognised modelled data sets, namely Global Climate Data (WorldClim 2), Climatologies at high resolution for the earth's land surface areas (CHELSA), and National Aeronautics and Space Administration's (NASA) Shuttle Radar Topography Mission (SRTM). It handles both multi and single geospatial polygon and point data, extracts outputs that can serve as covariates in various ecological studies. Provides two common graphic options – the Walter-Lieth (1960) climate diagram and the Holdridge (1967) life zone classification scheme. Provides one new graphic scheme of our own design which incorporates aspects of both Walter-Leigh and Holdridge. Provides user-friendly access and extraction of globally recognisable data sets to enhance their usability across a broad spectrum of applications. Package: r-cran-climetrics Architecture: all Version: 1.0-15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3829 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rts, r-cran-raster, r-cran-terra, r-cran-zoo, r-cran-yaimpute, r-cran-xts Suggests: r-cran-r.rsp, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-climetrics_1.0-15-1.ca2004.1_all.deb Size: 3174528 MD5sum: ce2013900f4e48928a5a64b7792e5054 SHA1: a8fea845d5a9380d024583e8c45ff7c7907e4d06 SHA256: 257071474f3592ef35e03bd6bbcbca81e6238c85c0f02059c8b3636f4e833a79 SHA512: c9d25bc925fca6d8da8e1ff5e655a34ba816dbca2f28b5c8596e66a938067445ecc839b4f89474e77f60f10917b78757add38459997c789aa44b04d1e42b9011 Homepage: https://cran.r-project.org/package=climetrics Description: CRAN Package 'climetrics' (Climate Change Metrics) A framework that facilitates spatio-temporal analysis of climate dynamics through exploring and measuring different dimensions of climate change in space and time. Package: r-cran-climextremes Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2192 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-extremes, r-cran-boot Filename: pool/dists/focal/main/r-cran-climextremes_0.3.1-1.ca2004.1_all.deb Size: 731048 MD5sum: eb5ae01be47134b7cebbfa80804ddb55 SHA1: 4cb5772f9c4bb473ed3939db71e4db0013433bee SHA256: 1682523364b4a47009bbaef5107aab945afec4599be866b356a15a3b9f3186ee SHA512: 0154b4add2b21ab2ad895287ca2bb9ec19e608c235443d7f091c32665ae54a84f06b9d8577ea4b5fd648490f5af1aa7f450de3f81121e5680f8a59dba613e395 Homepage: https://cran.r-project.org/package=climextRemes Description: CRAN Package 'climextRemes' (Tools for Analyzing Climate Extremes) Functions for fitting GEV and POT (via point process fitting) models for extremes in climate data, providing return values, return probabilities, and return periods for stationary and nonstationary models. Also provides differences in return values and differences in log return probabilities for contrasts of covariate values. Functions for estimating risk ratios for event attribution analyses, including uncertainty. Under the hood, many of the functions use functions from 'extRemes', including for fitting the statistical models. Details are given in Paciorek, Stone, and Wehner (2018) . Package: r-cran-climind Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1696 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-spei, r-cran-chron, r-cran-weathermetrics Suggests: r-cran-mass, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-climind_0.1-3-1.ca2004.1_all.deb Size: 1617904 MD5sum: d6f1e9d77236e7d6fb81863a2c587e76 SHA1: 898080753fe849f35cb9c1ef1df0294a68036950 SHA256: 5cbd47954bbfb20e6b0e056217ecaadcf04dcb656d0191ec98229247a9cd550e SHA512: ca553fadae0fe1e4eba421034b998b66f09fd48780debafe200f69e4ded5e63c1d924f61720398972c7122d12d95770e2b4c0653dc8d3e16f40fd4842955fc86 Homepage: https://cran.r-project.org/package=ClimInd Description: CRAN Package 'ClimInd' (Climate Indices) Computes 138 standard climate indices at monthly, seasonal and annual resolution. These indices were selected, based on their direct and significant impacts on target sectors, after a thorough review of the literature in the field of extreme weather events and natural hazards. Overall, the selected indices characterize different aspects of the frequency, intensity and duration of extreme events, and are derived from a broad set of climatic variables, including surface air temperature, precipitation, relative humidity, wind speed, cloudiness, solar radiation, and snow cover. The 138 indices have been classified as follow: Temperature based indices (42), Precipitation based indices (22), Bioclimatic indices (21), Wind-based indices (5), Aridity/ continentality indices (10), Snow-based indices (13), Cloud/radiation based indices (6), Drought indices (8), Fire indices (5), Tourism indices (5). Package: r-cran-climmobtools Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1218 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-lpsolve, r-cran-matrix, r-cran-rspectra Suggests: r-cran-climatrends, r-cran-gosset, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-plackettluce, r-cran-testthat Filename: pool/dists/focal/main/r-cran-climmobtools_1.5-1.ca2004.1_all.deb Size: 600604 MD5sum: 8aa823015161402ee355099aaa7fc84d SHA1: 94c3e94be1a505fd0472d1a8d8c30730442dbfa3 SHA256: 031ffe879cde865af5284e606867f661f34c449c61a88442aa16ac2d8149a9c0 SHA512: 2141dbe24ef5863f20594b1f02eb1c8366b6a4606b3eb36f0294f08bb1ff1643853335f0e3a54e165f5b72b68980ab50c60dafeadfd1a797d23dd8ce01ff2952 Homepage: https://cran.r-project.org/package=ClimMobTools Description: CRAN Package 'ClimMobTools' (API Client for the 'ClimMob' Platform) API client for 'ClimMob', an open source software for decentralized large-N trials with the 'tricot' approach . Developed by van Etten et al. (2019) , it turns the research paradigm on its head; instead of a few researchers designing complicated trials to compare several technologies in search of the best solutions for the target environment, it enables many participants to carry out reasonably simple experiments that taken together can offer even more information. 'ClimMobTools' enables project managers to deep explore and analyse their 'ClimMob' data in R. Package: r-cran-climodr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1457 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-caret, r-cran-cast, r-cran-corrplot, r-cran-doparallel, r-cran-dplyr, r-cran-lares, r-cran-magrittr, r-cran-rlang, r-cran-stringr, r-cran-terra, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-pls, r-cran-randomforest, r-cran-sp Filename: pool/dists/focal/main/r-cran-climodr_1.0.0-1.ca2004.1_all.deb Size: 1195524 MD5sum: 7e2dd3bb1ea59d5c0bf8421e1846afd7 SHA1: 9d47f55aa16b7650cf24fc6db4aeaad68a4eb0e0 SHA256: 26f9024eb8a0d0d5ad7136fc5a4e43907e335e894b1be4496ff081d6b7234df2 SHA512: 97e4effb8556b66d956415307880487c5ae10b35cd3b5fa1d648fb9eacf847eae02a1d7380551a53a9f7c8ee64368f5fae7e7828055c4ce5703af694a3cd8eb1 Homepage: https://cran.r-project.org/package=climodr Description: CRAN Package 'climodr' (Climate Modeling with Point Data from Climate Stations) An automated and streamlined workflow for predictive climate mapping using climate station data. Works within an environment the user provides a destined path to - otherwise it's tempdir(). Quick and relatively easy creation of resilient and reproducible climate models, predictions and climate maps, shortening the usually long and complicated work of predictive modelling. For more information, please find the provided URL. Many methods in this package are new, but the main method is based on a workflow from Meyer (2019) and Meyer (2022) , however, it was generalized and adjusted in the context of this package. Package: r-cran-climprojdiags Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1411 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-multiapply, r-cran-pcict Suggests: r-cran-knitr, r-cran-testthat, r-cran-markdown, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-climprojdiags_0.3.3-1.ca2004.1_all.deb Size: 1014008 MD5sum: 62bbc2556f2fe7e71552c28fdc252a1a SHA1: 4c303badd77bb8a60d18c7f7135976d869e33f3b SHA256: 27eb9c639aa9bffe7d2f0498a2c2c2e7a4fa7ce65ae3adee10f51b9c80bdb987 SHA512: ad659c96a6747761096236431718b63da0ed3c05346004cd3e78286a109d717b80710ed51e50c4a93242ad0177f8ad17b10a06bd0b66d0c53be0f12256813dec Homepage: https://cran.r-project.org/package=ClimProjDiags Description: CRAN Package 'ClimProjDiags' (Set of Tools to Compute Various Climate Indices) Set of tools to compute metrics and indices for climate analysis. The package provides functions to compute extreme indices, evaluate the agreement between models and combine theses models into an ensemble. Multi-model time series of climate indices can be computed either after averaging the 2-D fields from different models provided they share a common grid or by combining time series computed on the model native grid. Indices can be assigned weights and/or combined to construct new indices. Package: r-cran-climwin Architecture: all Version: 1.2.31-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1659 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-matrix, r-cran-evd, r-cran-lubridate, r-cran-lme4, r-cran-mumin, r-cran-reshape, r-cran-numderiv, r-cran-rcpproll, r-cran-nlme Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-climwin_1.2.31-1.ca2004.1_all.deb Size: 1202808 MD5sum: 82b52c343b414812d433656290be65ea SHA1: 29e6e76fc1177895d25a5cebf85a2a2d8b93d48d SHA256: 475896e0601a7280436760c19811fe3300d50197cfdf2c2e6b6c61919a33149c SHA512: 10f200f31de7209fc909aafdcac5676c63c55c8e5e49b1ab003864c900a266e5cf89465cc35ce053c2a3070810f6b228345e35071f233389bcc78a152c5ce025 Homepage: https://cran.r-project.org/package=climwin Description: CRAN Package 'climwin' (Climate Window Analysis) Contains functions to detect and visualise periods of climate sensitivity (climate windows) for a given biological response. Please see van de Pol et al. (2016) and Bailey and van de Pol (2016) for details. Package: r-cran-clindatareview Architecture: all Version: 1.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5597 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bookdown, r-cran-clinutils, r-cran-crosstalk, r-cran-data.table, r-cran-ggplot2, r-cran-haven, r-cran-htmltools, r-cran-htmlwidgets, r-cran-knitr, r-cran-jsonlite, r-cran-jsonvalidate, r-cran-plotly, r-cran-plyr, r-cran-rmarkdown, r-cran-stringr, r-cran-yaml, r-cran-xml2, r-cran-xfun, r-cran-base64enc Suggests: r-cran-countrycode, r-cran-intextsummarytable, r-cran-patientprofilesvis, r-cran-testthat, r-cran-dt, r-cran-scales Filename: pool/dists/focal/main/r-cran-clindatareview_1.6.2-1.ca2004.1_all.deb Size: 1832192 MD5sum: a36bc93e364e060037bbd0762ab3ceb5 SHA1: 20151e19f96cb1e8cc3e19684237345551b70d8d SHA256: 8b3f26eb9058d077cde853307b8d1e2a33b3351ed7d65e6063fec298f1f6b93a SHA512: ac2f916ee94c9147927ddf1672ce8a29713e608a62966bc2f4aff239eb88be4d453f6574fa004f302883a630499137f4e2bb36c16f2fa18fecbd31b66db0fba1 Homepage: https://cran.r-project.org/package=clinDataReview Description: CRAN Package 'clinDataReview' (Clinical Data Review Tool) Creation of interactive tables, listings and figures ('TLFs') and associated report for exploratory analysis of data in a clinical trial, e.g. for clinical oversight activities. Interactive figures include sunburst, treemap, scatterplot, line plot and barplot of counts data. Interactive tables include table of summary statistics (as counts of adverse events, enrollment table) and listings. Possibility to compare data (summary table or listing) across two data batches/sets. A clinical data review report is created via study-specific configuration files and template 'R Markdown' reports contained in the package. Package: r-cran-clindr Architecture: all Version: 2.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2900 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rstan, r-cran-shiny, r-cran-foreach, r-cran-dosefinding, r-cran-mvtnorm, r-cran-doparallel, r-cran-ggplot2, r-cran-tidyr, r-cran-purrr, r-cran-tibble, r-cran-dplyr, r-cran-glue, r-cran-waiter Filename: pool/dists/focal/main/r-cran-clindr_2.4.1-1.ca2004.1_all.deb Size: 1919776 MD5sum: 85a6df878c7626a1e18f2685dca15582 SHA1: b63ec6bf341067053b4f9634bb40c132ed8803e3 SHA256: 8edc0500028f052e8c6f30378d12baf9aa5c4a8f4a0bbf3d2e5c419bdbc7260c SHA512: 949cd5e45ac492d9a9f384ea7e4d393e226662cae296e4f34629ff368182e2e9fdcaac2cfc1e90907f044a646765d507265fd6b917eec621b9da4150234b5081 Homepage: https://cran.r-project.org/package=clinDR Description: CRAN Package 'clinDR' (Simulation and Analysis Tools for Clinical Dose ResponseModeling) Bayesian and ML Emax model fitting, graphics and simulation for clinical dose response. The summary data from the dose response meta-analyses in Thomas, Sweeney, and Somayaji (2014) and Thomas and Roy (2016) Wu, Banerjee, Jin, Menon, Martin, and Heatherington(2017) are included in the package. The prior distributions for the Bayesian analyses default to the posterior predictive distributions derived from these references. Package: r-cran-clinicalomicsdbr Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr2, r-cran-r6, r-cran-dplyr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-clinicalomicsdbr_1.0.5-1.ca2004.1_all.deb Size: 52140 MD5sum: c4632e8db05a0263dad9d0d84551450a SHA1: 032e098b854846106ef0cab7babc69827201d104 SHA256: 679058ba1174cfe928d8453e3fcfc95e4836211dbaa75478ec9afe85c2c5e39e SHA512: c4c1c8e8c8a133cfe5f2775cfc0875a9c61d95dda34d8bd86eb8b2adf1e0d9f40b24ec18435ec3c003c2f65a78a05ce0afd2316e82fd5666bbb566c77a58b28d Homepage: https://cran.r-project.org/package=clinicalomicsdbR Description: CRAN Package 'clinicalomicsdbR' (Interface with the 'ClinicalOmicsDB' API, Allowing for Easy DataDownloading and Importing) Provides an interface to the 'ClinicalOmicsDB' API, allowing for easy data downloading and importing. 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You provide a tidy data set plus a few more metrics and this package will take care of it to make your results publication ready. Accompanying package to Claus et al. . 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You provide the input-output data and 'clptheory' does the calculations for you. Package: r-cran-clr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1497 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-lubridate, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-clr_0.1.2-1.ca2004.1_all.deb Size: 1323672 MD5sum: 3c79beb572d58266dcd3ed38144dfbfd SHA1: 6dafb742658a62cc2e2bae4139dbce1444d8d04f SHA256: 11cd9b5e09edb8579321a445feeaaca7a3b816c8292800345013dc421f5b1b87 SHA512: 1261bc29940be1f7487dbe168cb4294863d94406fea6059d6ed0cc5a22bae31b52dc2ea602db43d0abf9920ce223fc01a42a3495f107d26103cce02587225f5b Homepage: https://cran.r-project.org/package=clr Description: CRAN Package 'clr' (Curve Linear Regression via Dimension Reduction) A new methodology for linear regression with both curve response and curve regressors, which is described in Cho, Goude, Brossat and Yao (2013) and (2015) . The key idea behind this methodology is dimension reduction based on a singular value decomposition in a Hilbert space, which reduces the curve regression problem to several scalar linear regression problems. Package: r-cran-clsiep15 Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 149 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-clsiep15_0.1.0-1.ca2004.1_all.deb Size: 64892 MD5sum: 383d0699b4bdf21dd8ba9808f6bd02d6 SHA1: 6a1ea156fa4f25bdfd3c890c2108d626b7e0f303 SHA256: 42f9258e0ea459ddba82596f9453f5ab99b9b6a621e1647c8a2281f69f354afa SHA512: 3defe4b465925f5f0b552bebfe09f5e9019ebe2f2a031ae40ce794dd0cf3d9cac39e6a55c014c23f88336a0529c18eaf02a54fc8b1dd50d24c89767ad13e202d Homepage: https://cran.r-project.org/package=CLSIEP15 Description: CRAN Package 'CLSIEP15' (Clinical and Laboratory Standards Institute (CLSI) EP15-A3Calculations) Calculations of "EP15-A3 document. A manual for user verification of precision and estimation of bias" CLSI (2014, ISBN:1-56238-966-1). 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Package: r-cran-cluer Architecture: all Version: 1.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3288 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-e1071 Filename: pool/dists/focal/main/r-cran-cluer_1.4.2-1.ca2004.1_all.deb Size: 3333260 MD5sum: 6331c924a5fa7033692039d4e13ce19d SHA1: 903e2a5d873dc1ad14b9cd23ad045cfa28cd29f6 SHA256: c6482378d2847a25a04e38c7c86ec619d8eb9115e496327e1cf0c4b6361686ea SHA512: c3242be548a02899d315367ce318c48894ac6ffb4c32d9cae93f9c9c69ae3c18d30b102876624b2aa8277ba27e13886df88c2e010deb31f2665a52b804a5b011 Homepage: https://cran.r-project.org/package=ClueR Description: CRAN Package 'ClueR' (Cluster Evaluation) CLUster Evaluation (CLUE) is a computational method for identifying optimal number of clusters in a given time-course dataset clustered by cmeans or kmeans algorithms and subsequently identify key kinases or pathways from each cluster. Its implementation in R is called ClueR. See README on for more details. P Yang et al. (2015) . Package: r-cran-clugenr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4686 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mathjaxr Suggests: r-cran-crul, r-cran-devtools, r-cran-ggplot2, r-cran-knitr, r-cran-lintr, r-cran-patchwork, r-cran-prettydoc, r-cran-rgl, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clugenr_1.0.3-1.ca2004.1_all.deb Size: 2020448 MD5sum: 5fae83ec2dc4edb310f8eef1e826a48f SHA1: 30a95812bfac6a71dc2afd54cb3ba10dac07d414 SHA256: bccb3f7486dcac7e4413394ad972ff12a78a36a0e8d35fbd507e745a737dc298 SHA512: e89685203d3bc4e2187c473eb960dfcf6d73078a5fe2e3c67c3e0ec12fb1c2d55ff4bf7cc0a56d61de3ca62bf68d51a2f35b26951fdfa78c1dcaa6249a9264ea Homepage: https://cran.r-project.org/package=clugenr Description: CRAN Package 'clugenr' (Multidimensional Cluster Generation Using Support Lines) An implementation of the clugen algorithm for generating multidimensional clusters with arbitrary distributions. Each cluster is supported by a line segment, the position, orientation and length of which guide where the respective points are placed. This package is described in Fachada & de Andrade (2023) . Package: r-cran-clump Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 128 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-ggplot2, r-cran-dplyr, r-cran-nbclust, r-cran-amap, r-cran-tableone, r-cran-data.table, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-clump_0.8.1-1.ca2004.1_all.deb Size: 93804 MD5sum: c4854a6656622580177a3e695f346229 SHA1: 92fbcf6e876e2116a614aa08828711710864ca10 SHA256: 4dccb446c1cd55ec2e5d8b6f643554e9c57bd66cf89153a991c0e83bc906f439 SHA512: bcff261b4fa22bebb0b961e14abde8737e486cacace8b94d2a5c8d2581c10aa654cd25e9f7131eaec4c98adc038caa458cb7d7f478ead3e9e191c2ac76c2739b Homepage: https://cran.r-project.org/package=CluMP Description: CRAN Package 'CluMP' (Clustering of Micro Panel Data) Two-step feature-based clustering method designed for micro panel (longitudinal) data with the artificial panel data generator. See Sobisek, Stachova, Fojtik (2018) . Package: r-cran-clusboot Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-fpc, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clusboot_1.2.2-1.ca2004.1_all.deb Size: 52216 MD5sum: 3c5ef0f9cf084a7763a165d89eba740e SHA1: 9ee48eb53dc691d8b144e16d03cc037a5534c2ff SHA256: 9bd192934f86809d108cc3d0d57fa480b472ccdf417de2e67be008f316e0d049 SHA512: 699e419ff6c30435bfc28dc23ff704df4ab5a99a61048ee26953784fa5e91e9ffcd4f304ab36b6397e991c5746a6b6aa13a89833c63ac6f709ba882db0bf6a88 Homepage: https://cran.r-project.org/package=ClusBoot Description: CRAN Package 'ClusBoot' (Bootstrap a Clustering Solution to Establish the Stability ofthe Clusters) Providing a cluster allocation for n samples, either with an $n \times p$ data matrix or an $n \times n$ distance matrix, a bootstrap procedure is performed. The proportion of bootstrap replicates where a pair of samples cluster in the same cluster indicates who tightly the samples in a particular cluster clusters together. Package: r-cran-clusevol Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1932 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-plotly, r-cran-cluster, r-cran-fpc, r-cran-viridis, r-cran-clustersim, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-clusevol_1.0.0-1.ca2004.1_all.deb Size: 1936180 MD5sum: 7d358c3347cfec224ae1190b9e5e0e76 SHA1: 92339b6b826678ffd2044927914a3d0056982968 SHA256: 4d9a1356a69486da52a60384145e45629833d50a5f5b0c8d9a909da11a9c2f3c SHA512: 5154e4b19794d3298f9d2b77c28069627308d3e2707dd8b14245c797921cf934ef7cb5628408b0c2af628de40cab7f388fcee39674d127acb1304304ae61270b Homepage: https://cran.r-project.org/package=clusEvol Description: CRAN Package 'clusEvol' (A Procedure for Cluster Evolution Analytics) Cluster Evolution Analytics allows us to use exploratory what if questions in the sense that the present information of an object is plugged-in a dataset in a previous time frame so that we can explore its evolution (and of its neighbors) to the present. See the URL for the papers associated with this package, as for instance, Morales-Oñate and Morales-Oñate (2024) . Package: r-cran-clusscluster Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 298 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-venndiagram, r-cran-scales, r-cran-reshape2, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-clusscluster_0.1.0-1.ca2004.1_all.deb Size: 209460 MD5sum: 3a175778d81612ff6b39a1c172aebf24 SHA1: 472f7af26650dbe64a821d85177b998afc1f37e5 SHA256: 282588c1de790d8da6fa202dbdabddd12e3586049e7c843e48590e103bf7edbe SHA512: ceb093bb45a9a984494decf6e1a8819f07d33d910b4452d5c5f8235bc6ca9e125c50c730ed7b1dc9043f27967f19b94c461da48eaa744308f839e26ef5935a64 Homepage: https://cran.r-project.org/package=ClussCluster Description: CRAN Package 'ClussCluster' (Simultaneous Detection of Clusters and Cluster-Specific Genes inHigh-Throughput Transcriptome Data) Implements a new method 'ClussCluster' descried in Ge Jiang and Jun Li, "Simultaneous Detection of Clusters and Cluster-Specific Genes in High-throughput Transcriptome Data" (Unpublished). Simultaneously perform clustering analysis and signature gene selection on high-dimensional transcriptome data sets. To do so, 'ClussCluster' incorporates a Lasso-type regularization penalty term to the objective function of K- means so that cell-type-specific signature genes can be identified while clustering the cells. Package: r-cran-clust.bin.pair Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-clust.bin.pair_0.1.2-1.ca2004.1_all.deb Size: 34424 MD5sum: 1e2531c9cf0b32d1c161ed9eb847e64a SHA1: 06fe2e9b70ec0f598667271d3ad432ce3420079f SHA256: 9a95d1afbd872c3a61553ab605c456ea908069a86d2f7581d91c3c7929a3dc5c SHA512: 20fe5f6482873edbe855741a1ce848315dd0df1efb731447880a9676658e3527936d7934bd1a0c307036847179bbc43ab185e8bf56db4bbc67c7bc2d7fc60579 Homepage: https://cran.r-project.org/package=clust.bin.pair Description: CRAN Package 'clust.bin.pair' (Statistical Methods for Analyzing Clustered Matched Pair Data) Tests, utilities, and case studies for analyzing significance in clustered binary matched-pair data. The central function clust.bin.pair uses one of several tests to calculate a Chi-square statistic. Implemented are the tests Eliasziw (1991) , Obuchowski (1998) , Durkalski (2003) , and Yang (2010) with McNemar (1947) included for comparison. The utility functions nested.to.contingency and paired.to.contingency convert data between various useful formats. Thyroids and psychiatry are the canonical datasets from Obuchowski and Petryshen (1989) respectively. Package: r-cran-clustblock Architecture: all Version: 4.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 382 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-factominer Suggests: r-cran-clustvarlv Filename: pool/dists/focal/main/r-cran-clustblock_4.1.1-1.ca2004.1_all.deb Size: 343844 MD5sum: 0697e10c3aacd00939f6bdeadeaaf0a8 SHA1: 2b1610bdbd1789280277ea9f98eecd4ffe6a8e0f SHA256: c10c07059dc5e0fbdf1ae8cde72cead54873005d31aef534aa50f15dedf906b9 SHA512: ba2725ec4df8c968bef1fc30a8db8fc590bab392697554425c3d96ee22dfd7d00385208856e6be18192f3fa33d89c190d41a98234a7eacef421eb489226d0245 Homepage: https://cran.r-project.org/package=ClustBlock Description: CRAN Package 'ClustBlock' (Clustering of Datasets) Hierarchical and partitioning algorithms to cluster blocks of variables. The partitioning algorithm includes an option called noise cluster to set aside atypical blocks of variables. Different thresholds per cluster can be sets. The CLUSTATIS method (for quantitative blocks) (Llobell, Cariou, Vigneau, Labenne & Qannari (2020) , Llobell, Vigneau & Qannari (2019) ) and the CLUSCATA method (for Check-All-That-Apply data) (Llobell, Cariou, Vigneau, Labenne & Qannari (2019) , Llobell, Giacalone, Labenne & Qannari (2019) ) are the core of this package. The CATATIS methods allows to compute some indices and tests to control the quality of CATA data. Multivariate analysis and clustering of subjects for quantitative multiblock data, CATA, RATA, Free Sorting and JAR experiments are available. Clustering of rows in multi-block context (notably with ClusMB strategy) is also included. Package: r-cran-clustcr2 Architecture: all Version: 1.7.3.01-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 490 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-desctools, r-cran-ggplot2, r-cran-ggseqlogo, r-cran-network, r-cran-plyr, r-cran-rcolorbrewer, r-cran-stringr, r-cran-scales, r-cran-sna, r-cran-vlf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustcr2_1.7.3.01-1.ca2004.1_all.deb Size: 253504 MD5sum: c9bff621fb66083d74a06472f08490b8 SHA1: 2985f7ff40f9f7a8752c61c0a42b07a4be4957a7 SHA256: ad1f6922301d572405406b2f1a836d56c012e48c8c64defd8e8008667c009867 SHA512: ef0eb66dfba115320ee6421535d94eaa1cb4be7622e4b07567413c9ee4ea06a6a3b01e5b61b6a1cd60a4aded060eccee0b22216e645c8f2da4b420c691dd69cd Homepage: https://cran.r-project.org/package=ClusTCR2 Description: CRAN Package 'ClusTCR2' (Identifying Similar T Cell Receptor Hyper-Variable Sequenceswith 'ClusTCR2') Enhancing T cell receptor (TCR) sequence analysis, 'ClusTCR2', based on 'ClusTCR' python program, leverages Hamming distance to compare the complement-determining region three (CDR3) sequences for sequence similarity, variable gene (V gene) and length. The second step employs the Markov Cluster Algorithm to identify clusters within an undirected graph, providing a summary of amino acid motifs and matrix for generating network plots. Tailored for single-cell RNA-seq data with integrated TCR-seq information, 'ClusTCR2' is integrated into the Single Cell TCR and Expression Grouped Ontologies (STEGO) R application or 'STEGO.R'. See the two publications for more details. Sebastiaan Valkiers, Max Van Houcke, Kris Laukens, Pieter Meysman (2021) , Kerry A. Mullan, My Ha, Sebastiaan Valkiers, Nicky de Vrij, Benson Ogunjimi, Kris Laukens, Pieter Meysman (2023) . Package: r-cran-clustcurv Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4387 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-doparallel, r-cran-dorng, r-cran-foreach, r-cran-ggfortify, r-cran-ggplot2, r-cran-gmedian, r-cran-npregfast, r-cran-rcolorbrewer, r-cran-survival Suggests: r-cran-covr, r-cran-knitr, r-cran-plotly, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustcurv_2.0.2-1.ca2004.1_all.deb Size: 1019516 MD5sum: f0d0c26884ff0acb87e67ee07fba96c1 SHA1: 0aae525763c4eae8a62863a239953e7c8314dbb5 SHA256: e8976821f34820c8e544da5ae68317166a3619afb1a14ff970aca63883c6797d SHA512: d63a2ef05b246b92ec27a8b163cd545f5ac8c6546f60b226dc2ae01d1751be54f96856689076b39417494b3e7b1261f9126e3da2392355148ca557e83b12a94c Homepage: https://cran.r-project.org/package=clustcurv Description: CRAN Package 'clustcurv' (Determining Groups in Multiples Curves) A method for determining groups in multiple curves with an automatic selection of their number based on k-means or k-medians algorithms. The selection of the optimal number is provided by bootstrap methods. The methodology can be applied both in regression and survival framework. Implemented methods are: Grouping multiple survival curves described by Villanueva et al. (2018) . Package: r-cran-clustdrm Architecture: all Version: 0.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-caret, r-cran-orcme, r-cran-oriclust, r-cran-multcomp, r-cran-isogene, r-cran-dosefinding, r-cran-pheatmap, r-cran-shiny, r-cran-readr, r-cran-dt, r-cran-mcpmod, r-cran-rcolorbrewer Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustdrm_0.1-0-1.ca2004.1_all.deb Size: 422880 MD5sum: 18ac914fa14a5fbee82de8dacbee36fb SHA1: 5f2e7852b8409a54aa7b493060f68d0e503e9ea8 SHA256: 69a7b0ee8047125174397bffc64bf782cd36ca14fcf9bd59ee895b0bd040d3b6 SHA512: b94965a3cb52440060f89a259c7991460a09e76a32dbe5e7c56f99d7b90129aebbff0f049420558dd9bf811432907ebc20b4e465cd4c7bfed3fb07dd444f3a73 Homepage: https://cran.r-project.org/package=clustDRM Description: CRAN Package 'clustDRM' (Clustering Dose-Response Curves and Fitting Appropriate Modelsto Them) Functions to identify the pattern of a dose-response curve. Then fit a set of appropriate models to it according to the identified pattern, followed by model averaging to estimate the effective dose. Package: r-cran-clusteff Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-qrcm, r-cran-cluster, r-cran-fda, r-cran-ggpubr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-clusteff_0.3.1-1.ca2004.1_all.deb Size: 115772 MD5sum: ae1a54dcfadb0a6198a91c3c02b8c400 SHA1: 5f18da61399326adabde5a5df21fceb79b986cc8 SHA256: 3f0d42c6224c198b6352bd1b62264c53f8e3de3aac41db7a6fa63b46ee481cb5 SHA512: 4a365e0181ac037ac42393edfa0f803f8ff71ff9ae5236f8570da2c5429e59bffb9fea50b32f62dd5df1bdd6d57dfaee2e0070a61e9e0ef0182411bfdfeb8d21 Homepage: https://cran.r-project.org/package=clustEff Description: CRAN Package 'clustEff' (Clusters of Effects Curves in Quantile Regression Models) Clustering method to cluster both effects curves, through quantile regression coefficient modeling, and curves in functional data analysis. Sottile G. and Adelfio G. (2019) . Package: r-cran-cluster.datasets Architecture: all Version: 1.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 267 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cluster.datasets_1.0-1-1.ca2004.1_all.deb Size: 204936 MD5sum: 6010d7131639a720effd3b178222ac07 SHA1: bde03b21a7da93f2dbca2d516997b9b7b0238511 SHA256: 06d784fe71925a1ac8da7ce97eab3ceea4ce16cdd9514d9c6b3aae9ad62b54cc SHA512: 98848133ebb5cc8ac72d750f2a2babe50d80a1646897c40d4b4a0632f2a7880a03da6d52d908900897ce108177478ed93b0d98018046b147a616cef5f4c0b60e Homepage: https://cran.r-project.org/package=cluster.datasets Description: CRAN Package 'cluster.datasets' (Cluster Analysis Data Sets) A collection of data sets for teaching cluster analysis. Package: r-cran-cluster.obeu Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car, r-cran-cluster, r-cran-clvalid, r-cran-data.tree, r-cran-dendextend, r-cran-jsonlite, r-cran-mclust, r-cran-rcurl, r-cran-reshape, r-cran-reshape2, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cluster.obeu_1.2.3-1.ca2004.1_all.deb Size: 63704 MD5sum: b5c1e0f06d90330ea1e86707b03df99e SHA1: b79cf290bedbd96488bcc7d56472d7446dd47e25 SHA256: cdca196440178c09095a099f19158e070393a8f7424c95fb4bc9e0e94257770b SHA512: 2a85831db68323f4dbedc1fcca9a75ac56578c97ab9b6cdb009f8da92fb48b12715e599ce3a55f0bd15d432cf3e85843d48aec95772afce9792fd21a2231404d Homepage: https://cran.r-project.org/package=Cluster.OBeu Description: CRAN Package 'Cluster.OBeu' (Cluster Analysis 'OpenBudgets.eu') Estimate and return the needed parameters for visualisations designed for 'OpenBudgets' data. Calculate cluster analysis measures in Budget data of municipalities across Europe, according to the 'OpenBudgets' data model. It involves a set of techniques and algorithms used to find and divide the data into groups of similar observations. Also, can be used generally to extract visualisation parameters convert them to 'JSON' format and use them as input in a different graphical interface. Package: r-cran-clusterability Architecture: all Version: 0.1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-diptest Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-clusterability_0.1.1.0-1.ca2004.1_all.deb Size: 79884 MD5sum: 9e411daee8b107e19553e47a8a1cc8a9 SHA1: 946f96bdf32837ba5318868d6a2ded11cc15c0a7 SHA256: a10065ff428bcb5d26828fe4d56c147fc5c28d246d60cc68581db0f489efa077 SHA512: d62084ac13e486ef50f19fa09d0bf99f84f86d5023709fdf0f44ffdea34db2a58a620171ecf5555b734f4ffb9b6fa7a7f599d22679ed89c0b0d395c9302087a8 Homepage: https://cran.r-project.org/package=clusterability Description: CRAN Package 'clusterability' (Performs Tests for Cluster Tendency of a Data Set) Test for cluster tendency (clusterability) of a data set. The methods implemented - reducing the data set to a single dimension using principal component analysis or computing pairwise distances, and performing a multimodality test like the Dip Test or Silverman's Critical Bandwidth Test - are described in Adolfsson, Ackerman, and Brownstein (2019) . Such methods can inform whether clustering algorithms are appropriate for a data set. Package: r-cran-clusterbootstrap Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-clusterbootstrap_1.1.2-1.ca2004.1_all.deb Size: 82164 MD5sum: 21d4a405e7b159eca9570c3a8bbe4f1b SHA1: 19476eacc5aec9f2017a1066a6a973ef5dc5d7d1 SHA256: a069d2205b368582b8ad442558ab96110400dc454f211b2750b621f9e6ed1b8e SHA512: 843ffcb75c138c7864054b7bdc6118c9de1904a3dba2b897f060b2e6d2d247904f141e3dd9479ab1c557661b9b4e27484b8551dbf9476efe18710972b6418538 Homepage: https://cran.r-project.org/package=ClusterBootstrap Description: CRAN Package 'ClusterBootstrap' (Analyze Clustered Data with Generalized Linear Models using theCluster Bootstrap) Provides functionality for the analysis of clustered data using the cluster bootstrap. Package: r-cran-clustercons Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 310 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-lattice, r-cran-rcolorbrewer, r-cran-apcluster Suggests: r-cran-latticeextra Filename: pool/dists/focal/main/r-cran-clustercons_1.2-1.ca2004.1_all.deb Size: 266428 MD5sum: fc387ed62d9b4d80d201b6f1d061cc4c SHA1: b593db5a36a3e233c674e47da88e2c3e5073ecb5 SHA256: 5c9dab9e509848a5d9341acd9bf66b30c610dd6679d708d04f0802293243e7e3 SHA512: 980cff74ca582453802a0e9745a6bde108a4171cbe606f39b38f3da12f0c6d623d06978a2fe2e8d47cd05d1694078df16d5b9091ed632cf5f282ed4fe851dd15 Homepage: https://cran.r-project.org/package=clusterCons Description: CRAN Package 'clusterCons' (Consensus Clustering using Multiple Algorithms and Parameters) Functions for calculation of robustness measures for clusters and cluster membership based on generating consensus matrices from bootstrapped clustering experiments in which a random proportion of rows of the data set are used in each individual clustering. This allows the user to prioritise clusters and the members of clusters based on their consistency in this regime. The functions allow the user to select several algorithms to use in the re-sampling scheme and with any of the parameters that the algorithm would normally take. See Simpson, T. I., Armstrong, J. D. & Jarman, A. P. (2010) and Monti, S., Tamayo, P., Mesirov, J. & Golub, T. (2003) . Package: r-cran-clusteredinterference Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula, r-cran-cubature, r-cran-lme4, r-cran-numderiv, r-cran-rootsolve Suggests: r-cran-testthat, r-cran-rprojroot, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-clusteredinterference_1.0.1-1.ca2004.1_all.deb Size: 146276 MD5sum: fcd461a085aec65e40eb3620f256ea29 SHA1: d593feee8a3b72f6748ea0ddcd345dfa4358c6bd SHA256: cdb6aad9356af7f831ea87d0a1a58fa0b86a1a76663f62d2f82fa854aa49817e SHA512: ac0e5ab3d2547776062b9b39c7d2490d452544c953dd901eda4cc4260f7dd5237889d5a8943e4c4a661f7d55cf7b9f30ee4d6721572365bcc0b574bbe6c22c37 Homepage: https://cran.r-project.org/package=clusteredinterference Description: CRAN Package 'clusteredinterference' (Causal Effects from Observational Studies with ClusteredInterference) Estimating causal effects from observational studies assuming clustered (or partial) interference. These inverse probability-weighted estimators target new estimands arising from population-level treatment policies. The estimands and estimators are introduced in Barkley et al. (2017) . Package: r-cran-clusteredmutations Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1107 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-seriation Filename: pool/dists/focal/main/r-cran-clusteredmutations_1.0.1-1.ca2004.1_all.deb Size: 1013848 MD5sum: 5f29217fa8c60d7bbe3aa3069e439e9d SHA1: 0ff758e5989bf4241593a73dd98ab1f09d7a0468 SHA256: ac7238873653e7349f13829a63b309c108c0ca339525559bb08a0939797abd60 SHA512: 66a7cd57da6cfd1d0ecafaaa1991452f74ac4320543132ca0d23c226c8a0f8e270ffa4d7d3c03ad99544ed84a5bd055774727fe0b6ef04ff33a2ea01396cc862 Homepage: https://cran.r-project.org/package=ClusteredMutations Description: CRAN Package 'ClusteredMutations' (Location and Visualization of Clustered Somatic Mutations) Identification and visualization of groups of closely spaced mutations in the DNA sequence of cancer genome. The extremely mutated zones are searched in the symmetric dissimilarity matrix using the anti-Robinson matrix properties. Different data sets are obtained to describe and plot the clustered mutations information. Package: r-cran-clustergeneration Architecture: all Version: 1.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 295 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-clustergeneration_1.3.8-1.ca2004.1_all.deb Size: 266784 MD5sum: 56b34da8b5afd83b60da24f1566b555f SHA1: a79ab40908c2a060b334f7a51c0ab32d17d4d1ea SHA256: 39951f39248da23e46bac0121582b0fc2cd91f9d64069f11bd115c70b6c0047e SHA512: f17402e17b2924925b74fe64dcbf729e787c2ad983dc29095aaa2dd9831e55036247fc8ce62c4dd7850c641a7577be53fa0b7178cf8fc60dec47d1269234a0d8 Homepage: https://cran.r-project.org/package=clusterGeneration Description: CRAN Package 'clusterGeneration' (Random Cluster Generation (with Specified Degree of Separation)) We developed the clusterGeneration package to provide functions for generating random clusters, generating random covariance/correlation matrices, calculating a separation index (data and population version) for pairs of clusters or cluster distributions, and 1-D and 2-D projection plots to visualize clusters. The package also contains a function to generate random clusters based on factorial designs with factors such as degree of separation, number of clusters, number of variables, number of noisy variables. Package: r-cran-clustergenomics Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-clustergenomics_1.0-1.ca2004.1_all.deb Size: 148084 MD5sum: 63b6d67b43d2b5eab69ab45e2e286671 SHA1: 2399ea5046920bd0880c90b647b514fcc6ffff99 SHA256: 28a0de81111c4516f5bbc08f700f75e31176705d347c0ff9785344cde526a1aa SHA512: 2e2e0d2c73c762c0cc9fb8a88d4b306499d02ba1dad27114cfebe31632c93aecc6376bae9648a0abca96126a89c38fcdb5ac0b1b607b0e8e0f959b4fe265cd68 Homepage: https://cran.r-project.org/package=clusterGenomics Description: CRAN Package 'clusterGenomics' (Identifying clusters in genomics data by recursive partitioning) The Partitioning Algorithm based on Recursive Thresholding (PART) is used to recursively uncover clusters and subclusters in the data. Functionality is also available for visualization of the clustering. Package: r-cran-clustergvis Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 897 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biobase, r-cran-circlize, r-bioc-clusterprofiler, r-cran-colorramps, r-bioc-complexheatmap, r-cran-dplyr, r-cran-e1071, r-cran-factoextra, r-cran-ggplot2, r-cran-magrittr, r-cran-matrix, r-cran-purrr, r-cran-biocmanager, r-cran-reshape2, r-cran-scales, r-bioc-singlecellexperiment, r-bioc-summarizedexperiment, r-bioc-tcseq, r-cran-tibble Suggests: r-cran-igraph, r-cran-knitr, r-bioc-monocle, r-cran-pheatmap, r-cran-rmarkdown, r-cran-seurat, r-cran-wgcna Filename: pool/dists/focal/main/r-cran-clustergvis_0.1.3-1.ca2004.1_all.deb Size: 868848 MD5sum: 15d069f853f5de2d065e65a94425dc00 SHA1: 9379c64b4f84fa70156a9e895862bc089f8385b5 SHA256: d40a8920ed18c8cc9d7370a7a68e3791e6c4be9907be4f8f9449faec78b48b43 SHA512: 5c0e791c774c63d7a856aba10a03448b6644c2853f5c23a156764b195e901c88e71d1a2a175c4b458a0fa44e8764e1d52e700cbcce0ac6818d28e597af841e32 Homepage: https://cran.r-project.org/package=ClusterGVis Description: CRAN Package 'ClusterGVis' (One-Step to Cluster and Visualize Gene Expression Data) Streamlining the clustering and visualization of time-series gene expression data from RNA-Seq experiments, this tool supports fuzzy c-means and k-means clustering algorithms. It is compatible with outputs from widely-used packages such as 'Seurat', 'Monocle', and 'WGCNA', enabling seamless downstream visualization and analysis. See Lokesh Kumar and Matthias E Futschik (2007) for more details. Package: r-cran-clusterhap Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clusterhap_0.1-1.ca2004.1_all.deb Size: 46132 MD5sum: 798af509022556aa6b73408dc4f19772 SHA1: c8a8602ca2ee1e9149e0b08dbab892a3163a9594 SHA256: d412513155e44a2184d5306b734122284e6c6d30ea5336a93a887473f0a7bf86 SHA512: c86d1b5dc0ef0270705c47ed044297f50351021f6bf311e27167117d333c2e811a426675a67bf9af9e360ef377c06f90368fe5365368afc37536f7c9951d8e43 Homepage: https://cran.r-project.org/package=clusterhap Description: CRAN Package 'clusterhap' (Clustering Genotypes in Haplotypes) One haplotype is a combination of SNP (Single Nucleotide Polymorphisms) within the QTL (Quantitative Trait Loci). clusterhap groups together all individuals of a population with the same haplotype. Each group contains individual with the same allele in each SNP, whether or not missing data. Thus, clusterhap groups individuals, that to be imputed, have a non-zero probability of having the same alleles in the entire sequence of SNP's. Moreover, clusterhap calculates such probability from relative frequencies. Package: r-cran-clustering Architecture: all Version: 1.7.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 493 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-amap, r-cran-apcluster, r-cran-cluster, r-cran-clusterr, r-cran-data.table, r-cran-dplyr, r-cran-foreach, r-cran-future, r-cran-ggplot2, r-cran-gmp, r-cran-pracma, r-cran-pvclust, r-cran-shiny, r-cran-sqldf, r-cran-xtable, r-cran-toordinal Suggests: r-cran-dt, r-cran-shinyalert, r-cran-shinyfiles, r-cran-shinyjs, r-cran-shinythemes, r-cran-shinywidgets, r-cran-tidyverse, r-cran-shinycssloaders Filename: pool/dists/focal/main/r-cran-clustering_1.7.10-1.ca2004.1_all.deb Size: 387348 MD5sum: a5c70028623316b3a6cad67db13c8650 SHA1: f4dd5cb507baaaa86530ead903b6b633e7b68638 SHA256: 5f7ce13ecd77c8ee9324d14396b148a2fc3adf886f9fd72f7e7b023a6bafea39 SHA512: 5a45da63bcf590c17b4fdfef71d7c96c89433ce9295c6d68262c457880422946f873b3246ca81d33c512609cd6ebf0100a67168a92321a1b1b9f97fa41fbb3d0 Homepage: https://cran.r-project.org/package=Clustering Description: CRAN Package 'Clustering' (Techniques for Evaluating Clustering) The design of this package allows us to run different clustering packages and compare the results between them, to determine which algorithm behaves best from the data provided. See Martos, L.A.P., García-Vico, Á.M., González, P. et al.(2023) "Clustering: an R library to facilitate the analysis and comparison of cluster algorithms.", Martos, L.A.P., García-Vico, Á.M., González, P. et al. "A Multiclustering Evolutionary Hyperrectangle-Based Algorithm" and L.A.P., García-Vico, Á.M., González, P. et al. "An Evolutionary Fuzzy System for Multiclustering in Data Streaming" . Package: r-cran-clustermole Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1399 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-bioc-gseabase, r-bioc-gsva, r-cran-magrittr, r-cran-rlang, r-bioc-singscore, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustermole_1.1.1-1.ca2004.1_all.deb Size: 1380816 MD5sum: e378fafd62655a42ea23415b70c89a74 SHA1: c7666a04ab869e4c56e60977524fbb043ce94f36 SHA256: 31f962bc824284a36b911a4e49bfd1c78fb88724b851b97e2976b430e46caafb SHA512: d5519c49c5981fefa5332b6d06b9e5b93648221e8f7bd4ec5ac5f7709754bde3640f145143c6b1dfd08b22b1a4eda6bef8d2e5a60feb7d119d86677fd2352793 Homepage: https://cran.r-project.org/package=clustermole Description: CRAN Package 'clustermole' (Unbiased Single-Cell Transcriptomic Data Cell TypeIdentification) Assignment of cell type labels to single-cell RNA sequencing (scRNA-seq) clusters is often a time-consuming process that involves manual inspection of the cluster marker genes complemented with a detailed literature search. This is especially challenging when unexpected or poorly described populations are present. The clustermole R package provides methods to query thousands of human and mouse cell identity markers sourced from a variety of databases. Package: r-cran-clusternomics Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 452 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-plyr, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-mclust, r-cran-gplots, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-clusternomics_0.1.1-1.ca2004.1_all.deb Size: 306228 MD5sum: 617e723d56ab0d8d11590a7cd43be8d4 SHA1: 3527ac4bff46255a1fee08a06848dd62968657ec SHA256: b358798110d58f33c70652bcafb225ea22b6f1386e557a2eee4cc76d3896d331 SHA512: cb28fcf4e64b5231a8e63c8070695f8d81ea59358dc556d03df27a00dc3937d7bc0f9457132efc3afac698b110b1326744e4747f6d86ca551cec665b61d719f1 Homepage: https://cran.r-project.org/package=clusternomics Description: CRAN Package 'clusternomics' (Integrative Clustering for Heterogeneous Biomedical Datasets) Integrative context-dependent clustering for heterogeneous biomedical datasets. Identifies local clustering structures in related datasets, and a global clusters that exist across the datasets. Package: r-cran-clusterranktest Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-clusterranktest_1.0-1.ca2004.1_all.deb Size: 28764 MD5sum: ae3d754b4bdf1bbe288c49778a084514 SHA1: 325c4c7915f5ccc0c297f78f8981958a12a0e234 SHA256: 4c180c5041d94f1d19c647443ff8fb7805a0a8e24328ed23fa3b97e1ead15231 SHA512: 762e6130e7f98b96e9698315148fd9f1e6bbc905fbea5cfa27649b0135bbf2ac0e7d4f9a3089e186a108d42b838969d061cf1bb64d2a2da0ecd6afd32e3dc2e8 Homepage: https://cran.r-project.org/package=ClusterRankTest Description: CRAN Package 'ClusterRankTest' (Rank Tests for Clustered Data) Nonparametric rank based tests (rank-sum tests and signed-rank tests) for clustered data, especially useful for clusters having informative cluster size and intra-cluster group size. Package: r-cran-clusterrepro Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-clusterrepro_0.9-1.ca2004.1_all.deb Size: 19884 MD5sum: 4082dd0f860e9125adcce11acf2d837c SHA1: a627ca3c4f288b3ed8c2638395e71898d0b3356f SHA256: 1b3e3be02697a0e6717a0ea585c032324d05e5901b371c32ce37289bb096b63f SHA512: 73d4c5a35415446c56f4a04bab7267e35dc219c294c5e5251d036c32d3a067dbfb21ab11811de052dfebc2fd62ce52013ce357d4591efeb1cc6570a8dbbf7716 Homepage: https://cran.r-project.org/package=clusterRepro Description: CRAN Package 'clusterRepro' (Reproducibility of Gene Expression Clusters) This is a function for validating microarray clusters via reproducibility, based on the paper referenced below. Package: r-cran-clusterses Architecture: all Version: 2.6.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-aer, r-cran-formula, r-cran-plm, r-cran-sandwich, r-cran-lmtest, r-cran-mlogit, r-cran-dfidx Filename: pool/dists/focal/main/r-cran-clusterses_2.6.5-1.ca2004.1_all.deb Size: 151432 MD5sum: 5e88142bf28ed6e995e739291081abdf SHA1: eb052a756a70d73c44e169c896f0e1b243748a29 SHA256: 8c0836bcefa030b6eb48ad929864ffac4a65c5fcc58683ba3125b49f77b44b86 SHA512: 8fa525c564465b145ea15a2bd295d96e2a99f98b827555adac11c7af34f14c1198dd1fc167ec294009db66fb192f2bd7cf3ec5745f254f48afb03b3bb7694b6b Homepage: https://cran.r-project.org/package=clusterSEs Description: CRAN Package 'clusterSEs' (Calculate Cluster-Robust p-Values and Confidence Intervals) Calculate p-values and confidence intervals using cluster-adjusted t-statistics (based on Ibragimov and Muller (2010) , pairs cluster bootstrapped t-statistics, and wild cluster bootstrapped t-statistics (the latter two techniques based on Cameron, Gelbach, and Miller (2008) . Procedures are included for use with GLM, ivreg, plm (pooling or fixed effects), and mlogit models. Package: r-cran-clustertend Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-clustertend_1.7-1.ca2004.1_all.deb Size: 12748 MD5sum: 6431e119a2eb098b66f5c45c66ccddb7 SHA1: 0d1165472e3be89bd6ccffdcbaf4d1df06a2320c SHA256: 819e62d1e9868d4a8f784941269bcaddf3911b81b891267f71e421f694d82ca6 SHA512: d2310a555bc68b717fbff801ac654b765e0f4706d174fad4129fc0bd8a07b83ed27c9afc2ec01c5090e99b527d2c218360e526b794d6ff1c80a9f49d7e5167b8 Homepage: https://cran.r-project.org/package=clustertend Description: CRAN Package 'clustertend' (Check the Clustering Tendency) Calculate some statistics aiming to help analyzing the clustering tendency of given data. In the first version, Hopkins statistic is implemented. See Hopkins and Skellam (1954) . Package: r-cran-clusterv Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 814 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-cluster Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-clusterv_1.1.1-1.ca2004.1_all.deb Size: 755192 MD5sum: 08e1163c43e9a27487760d73f41e95f4 SHA1: 261bdce05319f530f6869310b6cc84125130f341 SHA256: 47da190a32e79325a4e89fdcf8d260eb91a11d17fb87bc07f915750df421d46c SHA512: 6ca69549e8cdda809341fc273ebb02434794a50b91e556e194a89651708c096ee87050960b26f5eb45ded31c543f1a7dc6fec537903abc1249aa658bde3f5cc3 Homepage: https://cran.r-project.org/package=clusterv Description: CRAN Package 'clusterv' (Assessment of Cluster Stability by Randomized Maps) The reliability of clusters is estimated using random projections. A set of stability measures is provided to assess the reliability of the clusters discovered by a generic clustering algorithm. The stability measures are taylored to high dimensional data (e.g. DNA microarray data) (Valentini, G (2005), . Package: r-cran-clustervar Architecture: all Version: 0.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1401 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fastdummies, r-cran-mass, r-cran-mvtnorm, r-cran-scales, r-cran-foreach, r-cran-doparallel, r-cran-parabar, r-cran-iterators Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustervar_0.0.8-1.ca2004.1_all.deb Size: 1389880 MD5sum: 3a42d02add531713bca12b4a0ead6153 SHA1: 9693b084c30ac242fd21a12fb22f76348e932d52 SHA256: 1e4aa50299085e36c8764ba85f5df986018bd3bd6f91edf135bed51cf77cc691 SHA512: fea550fe71ad1d47c7490fec7f3e482ec754d47a3ceed30019e5d861166177edb13e2f64c7a62a60551212af51c1e82bc0699874ae0103ed1935aa7a9e78238e Homepage: https://cran.r-project.org/package=ClusterVAR Description: CRAN Package 'ClusterVAR' (Fitting Latent Class Vector-Autoregressive (VAR) Models) Estimates latent class vector-autoregressive models via EM algorithm on time-series data for model-based clustering and classification. Includes model selection criteria for selecting the number of lags and clusters. Package: r-cran-clustgeo Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1421 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp, r-cran-spdep Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-clustgeo_2.1-1.ca2004.1_all.deb Size: 1184772 MD5sum: c81cf37633675103651e01cd4c6d6a21 SHA1: 8da95024b9497dafd3a5f7cc4ebb2435f1c133db SHA256: 07c17c273b341884bd805398191dd597aad8a3aaf7ca50bc23aec5b6e3011118 SHA512: bcd15e030a784df2a31d4193b528d29c0a3e3aba3cae0c6e2731f51f636e8260c5b594bd54134df48a0ca1b6040677c9aedd985d0ea2b7bb9d90d6e380428c17 Homepage: https://cran.r-project.org/package=ClustGeo Description: CRAN Package 'ClustGeo' (Hierarchical Clustering with Spatial Constraints) Implements a Ward-like hierarchical clustering algorithm including soft spatial/geographical constraints. Package: r-cran-clustimpute Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 766 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-clusterr, r-cran-copula, r-cran-dplyr, r-cran-magrittr, r-cran-tidyr, r-cran-ggplot2, r-cran-rlang, r-cran-knitr Suggests: r-cran-ggextra, r-cran-rmarkdown, r-cran-testthat, r-cran-hmisc, r-cran-tictoc, r-cran-spelling, r-cran-corrplot, r-cran-covr Filename: pool/dists/focal/main/r-cran-clustimpute_0.2.4-1.ca2004.1_all.deb Size: 609148 MD5sum: 83662aab00eab10ddcf58225c3821e84 SHA1: 419b2a8b3539f4543e7b3e1437a7d9c1a274fadf SHA256: ce2ac0ecab8c8f6181bf81b881fe74356e123f655ad2631480c77ce626a8ad8d SHA512: 1bd7461c74a3aed502e2272bd725be9f78aa44f79badff9525e3d76e42da203548b7121874f51c4ad5a91d798948d44b5090eea6558ca909462128dc6f440539 Homepage: https://cran.r-project.org/package=ClustImpute Description: CRAN Package 'ClustImpute' (K-Means Clustering with Build-in Missing Data Imputation) This k-means algorithm is able to cluster data with missing values and as a by-product completes the data set. The implementation can deal with missing values in multiple variables and is computationally efficient since it iteratively uses the current cluster assignment to define a plausible distribution for missing value imputation. Weights are used to shrink early random draws for missing values (i.e., draws based on the cluster assignments after few iterations) towards the global mean of each feature. This shrinkage slowly fades out after a fixed number of iterations to reflect the increasing credibility of cluster assignments. See the vignette for details. Package: r-cran-clustlearn Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-proxy, r-cran-cli Suggests: r-cran-deldir Filename: pool/dists/focal/main/r-cran-clustlearn_1.0.0-1.ca2004.1_all.deb Size: 130952 MD5sum: 686ba145883e2ccb7f38cf4c2aea397d SHA1: eba4164b236d900692bf18e4cf47cc25215ba2fe SHA256: 411fd6f9a1b0ba4d1cb203a3fa3f00b4bd12a9e0fd2264e820d64bf580626b52 SHA512: 6149b8fe9420470533c5071ccb15afe3845844a484e1ed6612f289686692723c625ef3a69abace03aeda84f0f08547c08ca2b6d80c9492d3e9a3d223b31017e4 Homepage: https://cran.r-project.org/package=clustlearn Description: CRAN Package 'clustlearn' (Learn Clustering Techniques Through Examples and Code) Clustering methods, which (if asked) can provide step-by-step explanations of the algorithms used, as described in Ezugwu et. al., (2022) ; and datasets to test them on, which highlight the strengths and weaknesses of each technique, as presented in the clustering section of 'scikit-learn' (Pedregosa et al., 2011) . Package: r-cran-clustmc Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 167 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-lifecycle, r-cran-magrittr, r-cran-procs, r-cran-psych, r-cran-usedist Suggests: r-cran-ggdendro, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustmc_0.1.1-1.ca2004.1_all.deb Size: 84768 MD5sum: cc43d401193e34c318b3d196768ad3f5 SHA1: adde813f6f7f7ad379087174cb3b8662fa9d803f SHA256: 2f3c26456ae4947b8df98a334fb40616cbfa78b8fde872d53ae1528270870d52 SHA512: b27fb716fa288c42e0179cff125e19c59d308004b2f5c1e377c38e5380d86342adcd4ee3ea9d0369f2a783434651dd6e833e9d3b05c7339e5d3092d3f8c1ca1d Homepage: https://cran.r-project.org/package=ClustMC Description: CRAN Package 'ClustMC' (Cluster-Based Multiple Comparisons) Multiple comparison techniques are typically applied following an F test from an ANOVA to decide which means are significantly different from one another. As an alternative to traditional methods, cluster analysis can be performed to group the means of different treatments into non-overlapping clusters. Treatments in different groups are considered statistically different. Several approaches have been proposed, with varying clustering methods and cut-off criteria. This package implements cluster-based multiple comparisons tests and also provides a visual representation in the form of a dendrogram. Di Rienzo, J. A., Guzman, A. W., & Casanoves, F. (2002) . Bautista, M. G., Smith, D. W., & Steiner, R. L. (1997) . Package: r-cran-clustmd Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-mclust, r-cran-reshape2, r-cran-mass, r-cran-msm, r-cran-mvtnorm, r-cran-truncnorm, r-cran-viridis Filename: pool/dists/focal/main/r-cran-clustmd_1.2.1-1.ca2004.1_all.deb Size: 169732 MD5sum: f5e791a99997d6c4a36d3fab6d895e6f SHA1: 6660d5d9a71c5c9082f704bf417b115f342f0a8c SHA256: b3684321656bd5daf9550e20f574d84da509800911de3d1c0ad0222fc1690a8f SHA512: 9edeac5cfacc667d69ac0ef585a4eca7f88420279b49cc974da251996e2b19e0be6288de02194e1bae825e5ab6da91f78df76f39603429f97464b7bb32bf4bcb Homepage: https://cran.r-project.org/package=clustMD Description: CRAN Package 'clustMD' (Model Based Clustering for Mixed Data) Model-based clustering of mixed data (i.e. data which consist of continuous, binary, ordinal or nominal variables) using a parsimonious mixture of latent Gaussian variable models. Package: r-cran-clustmixtype Architecture: all Version: 0.4-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 258 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcolorbrewer, r-cran-tibble, r-cran-combinat, r-cran-dplyr, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustmixtype_0.4-2-1.ca2004.1_all.deb Size: 222828 MD5sum: 3e0dd8c01b54d875f623cf8a8ebdbc5c SHA1: 24e550255a0229417709ff88c88a8521356f3f76 SHA256: 5615453cb703581615b29c007b04a4ac7bad6d1c27a86fa8584bcb59fd88b8d8 SHA512: af54a2a6bbfbfb299e3e7cc86e738f3e3304cf9a6185117bf1f87bfa306b5c80620012677e8ef2e1cc4316328b29cee21f802b61c02b656ee6a3527f7094b001 Homepage: https://cran.r-project.org/package=clustMixType Description: CRAN Package 'clustMixType' (k-Prototypes Clustering for Mixed Variable-Type Data) Functions to perform k-prototypes partitioning clustering for mixed variable-type data according to Z.Huang (1998): Extensions to the k-Means Algorithm for Clustering Large Data Sets with Categorical Variables, Data Mining and Knowledge Discovery 2, 283-304. Package: r-cran-clustnet Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bidag, r-cran-pcalg, r-bioc-rbgl, r-cran-clue, r-bioc-graph, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggraph, r-cran-ggpubr, r-cran-ggplot2, r-cran-reshape2, r-cran-car, r-cran-ks, r-cran-testthat Filename: pool/dists/focal/main/r-cran-clustnet_1.2.0-1.ca2004.1_all.deb Size: 178880 MD5sum: 7f6651d43e309d1206e9471455fc59b4 SHA1: 3ae9625a35392809e8bca65a0f68a5ab453a7b53 SHA256: 7ee170bb801fa9e9a7c74cc2bd56eca6f81449b32a018bde0b3ec0e1577b750e SHA512: eb7f56883cc4effb9fae9a2e78e1e407dcbd12b00ae5fb430002aaac409f50697dfe78b96890b330a828bfb970243bae0a11e6f5172f8868dd6f71d6bb3ae9ba Homepage: https://cran.r-project.org/package=clustNet Description: CRAN Package 'clustNet' (Network-Based Clustering) Network-based clustering using a Bayesian network mixture model with optional covariate adjustment. Package: r-cran-clustofvar Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pcamixdata Filename: pool/dists/focal/main/r-cran-clustofvar_1.2-1.ca2004.1_all.deb Size: 191008 MD5sum: 67c711fe39d937fc261e2156aad8a46e SHA1: cbde945e581ca67779b68b430eba0a222e0457a1 SHA256: 14e91e19ab860ec88bf0b395dce7e76e7e5f18b473dcc233c1f4d4614f2ac5d2 SHA512: c647c8eeb30fa18ac14d5074768886d3496445983696607c40a962733a764e00ef348c77526eebd415d5dc1dc8d318b11953b9aedec79a797757a94d2d342ac4 Homepage: https://cran.r-project.org/package=ClustOfVar Description: CRAN Package 'ClustOfVar' (Clustering of Variables) Cluster analysis of a set of variables. Variables can be quantitative, qualitative or a mixture of both. Package: r-cran-clustorus Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2681 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bambi, r-cran-igraph, r-cran-purrr, r-cran-ggplot2, r-cran-rlang, r-cran-cowplot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-clustorus_0.2.2-1.ca2004.1_all.deb Size: 1878896 MD5sum: 1b6c64f702073401eebc5fdd6deb3da5 SHA1: a9d508e148c7cf1032a7ed54da998402ff01c183 SHA256: 0aa154e0725c32f894da6d0d3cc8d6e8fc509f6b386426fc2bc0e4a6150fde65 SHA512: 0902103ca98a538a54f01291b707e23f27ad4c92568a93eca62ff544db6169bd3c67c5e73dcc4a6df7b3e9918b6295569ba2578c824ea199188bb431fc0c744a Homepage: https://cran.r-project.org/package=ClusTorus Description: CRAN Package 'ClusTorus' (Prediction and Clustering on the Torus by Conformal Prediction) Provides various tools of for clustering multivariate angular data on the torus. The package provides angular adaptations of usual clustering methods such as the k-means clustering, pairwise angular distances, which can be used as an input for distance-based clustering algorithms, and implements clustering based on the conformal prediction framework. Options for the conformal scores include scores based on a kernel density estimate, multivariate von Mises mixtures, and naive k-means clusters. Moreover, the package provides some basic data handling tools for angular data. Package: r-cran-clustra Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3561 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-mgcv, r-cran-mixsim Suggests: r-cran-haven, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-clustra_0.2.1-1.ca2004.1_all.deb Size: 2831588 MD5sum: 6f6eb1924fc8f6108701385eadb1001c SHA1: bd8526d8c142d8cd689eb6c4aedc97ec9e8c373d SHA256: b04986184330c4104a1738a7ddcdecb44518c5a2349b526967522759b55b0283 SHA512: 1a392f3f646e6916d9632696f7d9b6f9f5e73ff5a791a4185cd2c8baaa39754608d425ecef060ef5480111b12d41d830f7e617935f2ad76e3bc77cfd8972ffff Homepage: https://cran.r-project.org/package=clustra Description: CRAN Package 'clustra' (Clustering Longitudinal Trajectories) Clusters longitudinal trajectories over time (can be unequally spaced, unequal length time series and/or partially overlapping series) on a common time axis. Performs k-means clustering on a single continuous variable measured over time, where each mean is defined by a thin plate spline fit to all points in a cluster. Distance is MSE across trajectory points to cluster spline. Provides graphs of derived cluster splines, silhouette plots, and Adjusted Rand Index evaluations of the number of clusters. Scales well to large data with multicore parallelism available to speed computation. Package: r-cran-clustransition Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1034 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-flexclust Filename: pool/dists/focal/main/r-cran-clustransition_1.0-1.ca2004.1_all.deb Size: 966224 MD5sum: ad4e49f8c1b30b5556fdbb3d3708ccac SHA1: a93475672f0a2e24feaa0da68caff908c8a395fb SHA256: 99678b9e6bf13884300847f62acddeedb7a5b1fc02cbd1e957c640eea3640366 SHA512: 2d8a5902c197642cc72f0910d03b667dd7bb71259a5e90121ac802838c1a3f99e5f46f8443a01ba13991c049b13eb33863a7a292a590487578860ba37f1b1477 Homepage: https://cran.r-project.org/package=clusTransition Description: CRAN Package 'clusTransition' (Monitor Changes in Cluster Solutions of Dynamic Datasets) Monitor and trace changes in clustering solutions of accumulating datasets at successive time points. The clusters can adopt External and Internal transition at succeeding time points. The External transitions comprise of Survived, Merged, Split, Disappeared, and newly Emerged candidates. In contrast, Internal transition includes changes in location and cohesion of the survived clusters. The package uses MONIC framework developed by Spiliopoulou, Ntoutsi, Theodoridis, and Schult (2006) . Package: r-cran-clustrd Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 367 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-rarpack, r-cran-tibble, r-cran-corpcor, r-cran-ggally, r-cran-fpc, r-cran-cluster, r-cran-dplyr, r-cran-plyr, r-cran-ggrepel, r-cran-ca Filename: pool/dists/focal/main/r-cran-clustrd_1.4.0-1.ca2004.1_all.deb Size: 335628 MD5sum: 290e368f8f047844ebe5bb94db7d210c SHA1: 9ab1db0bb9b46751b1a1503dc8f93e789237bad4 SHA256: 69e53c8e68c0ee4345c921581fc4f2e6e8874af67bb7217bfeed4e7ea25f81a4 SHA512: 75b84925dc42de15b3c4c6e495fcd6dcc65250369d5577dbaeecad6ea2e9d8e94b61c664f51eecaef42533255c6591010fabac055e35f90c7714fb648f658f9f Homepage: https://cran.r-project.org/package=clustrd Description: CRAN Package 'clustrd' (Methods for Joint Dimension Reduction and Clustering) A class of methods that combine dimension reduction and clustering of continuous, categorical or mixed-type data (Markos, Iodice D'Enza and van de Velden 2019; ). For continuous data, the package contains implementations of factorial K-means (Vichi and Kiers 2001; ) and reduced K-means (De Soete and Carroll 1994; ); both methods that combine principal component analysis with K-means clustering. For categorical data, the package provides MCA K-means (Hwang, Dillon and Takane 2006; ), i-FCB (Iodice D'Enza and Palumbo 2013, ) and Cluster Correspondence Analysis (van de Velden, Iodice D'Enza and Palumbo 2017; ), which combine multiple correspondence analysis with K-means. For mixed-type data, it provides mixed Reduced K-means and mixed Factorial K-means (van de Velden, Iodice D'Enza and Markos 2019; ), which combine PCA for mixed-type data with K-means. Package: r-cran-clustree Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2461 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggraph, r-cran-checkmate, r-cran-igraph, r-cran-dplyr, r-cran-ggplot2, r-cran-viridis, r-cran-rlang, r-cran-tidygraph, r-cran-ggrepel Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-bioc-singlecellexperiment, r-cran-seurat, r-cran-covr, r-bioc-summarizedexperiment, r-cran-pkgdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-clustree_0.5.1-1.ca2004.1_all.deb Size: 1882948 MD5sum: 4c918edad925bb50e544c93a4e4a9a36 SHA1: a8eb6611a5d55f7fdf1233d8a1ada48aa0d406f9 SHA256: b24259d1ea6810fba363613cd50cc8733bd2f49c09ec3eb2a83642f9b59cc940 SHA512: fef91b321c24e89ed651a17c32bf0ce3af7c9058e782003e5196b02ddebefb794addce0f026929a4555a3972a4747c5914830cff23259234545b09cda7dca216 Homepage: https://cran.r-project.org/package=clustree Description: CRAN Package 'clustree' (Visualise Clusterings at Different Resolutions) Deciding what resolution to use can be a difficult question when approaching a clustering analysis. One way to approach this problem is to look at how samples move as the number of clusters increases. This package allows you to produce clustering trees, a visualisation for interrogating clusterings as resolution increases. Package: r-cran-clustringr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 488 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-stringi, r-cran-stringr, r-cran-stringdist, r-cran-igraph, r-cran-assertthat, r-cran-forcats, r-cran-rlang, r-cran-tidygraph, r-cran-ggraph, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-clustringr_1.0-1.ca2004.1_all.deb Size: 415824 MD5sum: 4d2c079e661b0c44da3325dce8e215e1 SHA1: ac35fe4e6579c3e439b7587df55cf4e6caba1dcc SHA256: ce32db2075a3500af5453b66f04f3bd9c70d4a43afe472d901436b4f49344d5d SHA512: fc26caa96c21d668206c0e400a8aa16441eb71c69218fe6aacbc20af6a69333cd8b169869a417a230a46c41446cc61b48e26a795bd980ac7abec7143828548b0 Homepage: https://cran.r-project.org/package=clustringr Description: CRAN Package 'clustringr' (Cluster Strings by Edit-Distance) Returns an edit-distance based clusterization of an input vector of strings. Each cluster will contain a set of strings w/ small mutual edit-distance (e.g., Levenshtein, optimum-sequence-alignment, Damerau-Levenshtein), as computed by stringdist::stringdist(). The set of all mutual edit-distances is then used by graph algorithms (from package 'igraph') to single out subsets of high connectivity. Package: r-cran-clustshiny Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 191 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-rmarkdown, r-cran-klar, r-cran-mass, r-cran-dplyr, r-cran-psycho, r-cran-cluster Filename: pool/dists/focal/main/r-cran-clustshiny_0.1.0-1.ca2004.1_all.deb Size: 70128 MD5sum: ff3c5b6bbda0964ed35322d1c68bfd5b SHA1: d11d6633f6e8ef717a6e70712bb01aaaeb346cd7 SHA256: 868f00392af7b066d0260f8697dd12bfc367ebb0d567f6594947b7ef7f8a1b6b SHA512: fc5e2c78fb8410467ba43556a817340be22a00334a023f8dbc41a63768ce139358b81fa89754eedd8c61dd62190206839aebecd326af3d78e4589b8472b42f83 Homepage: https://cran.r-project.org/package=CLUSTShiny Description: CRAN Package 'CLUSTShiny' (Interactive Document for Working with Cluster Analysis) An interactive document on the topic of cluster analysis using 'rmarkdown' and 'shiny' packages. Runtime examples are provided in the package function as well as at . Package: r-cran-clustsig Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-clustsig_1.1-1.ca2004.1_all.deb Size: 44344 MD5sum: 4e2d6dd27442c05873f5ebec47da6115 SHA1: ef1095e3fa16e922c709367ccb129c1fa18fa358 SHA256: 6b7eada7cd2b1ff4e6248d3db3b2b235c9bfc2138e52a9d0b861c851a389aa2c SHA512: c08a7a7423602a929a7736b7f348b982d2af7946451e131a9ffff46e30a9a2e40ee571e6a0c5b74631dda5faefc8d9ae9886203caddb47fb53ba4e183b889c09 Homepage: https://cran.r-project.org/package=clustsig Description: CRAN Package 'clustsig' (Significant Cluster Analysis) A complimentary package for use with hclust; simprof tests to see which (if any) clusters are statistically different. The null hypothesis is that there is no a priori group structure. See Clarke, K.R., Somerfield, P.J., and Gorley R.N. 2008. Testing of null hypothesis in exploratory community analyses: similarity profiles and biota-environment linkage. J. Exp. Mar. Biol. Ecol. 366, 56-69. Package: r-cran-clustvarsel Architecture: all Version: 2.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 724 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mclust, r-cran-matrix, r-cran-bma, r-cran-foreach, r-cran-iterators Suggests: r-cran-mass, r-cran-doparallel, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-clustvarsel_2.3.5-1.ca2004.1_all.deb Size: 504624 MD5sum: 955f09a8ef51c599e97e2cc1bb5983cc SHA1: a88b03fa74026ad8cb79795568648da87bd67ad5 SHA256: 7285d82c16f7aa20353360943195d56fc28106c56a9129493da0f67866d3649d SHA512: e9d429a1a924b934c2e6a51633f6b24f976f99656c347f232d92543b5b43f4250d8e244b37e551c2cc5a3f7d4013444e8d68dd0e07c5982a2f33b7546a608470 Homepage: https://cran.r-project.org/package=clustvarsel Description: CRAN Package 'clustvarsel' (Variable Selection for Gaussian Model-Based Clustering) Variable selection for Gaussian model-based clustering as implemented in the 'mclust' package. The methodology allows to find the (locally) optimal subset of variables in a data set that have group/cluster information. A greedy or headlong search can be used, either in a forward-backward or backward-forward direction, with or without sub-sampling at the hierarchical clustering stage for starting 'mclust' models. By default the algorithm uses a sequential search, but parallelisation is also available. Package: r-cran-clvalid Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 718 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-class Suggests: r-bioc-biobase, r-bioc-annotate, r-cran-rankaggreg, r-cran-kohonen, r-cran-mclust Filename: pool/dists/focal/main/r-cran-clvalid_0.7-1.ca2004.1_all.deb Size: 607672 MD5sum: 7bb104466c9698066fe6ee0253641a6e SHA1: 2244192640a9565e17697d73a2e36b2a6b0d0b12 SHA256: ce3e6083a8277957c8940e8ecd5f12588e4d0a1ecccca6cfc6ea1cf8d55fff19 SHA512: f6562d7a3a40d5d59a6b7cf0f2265f6e752eebdf22dab3b41e9bdfcebd0fa1da25da47a519446bd6c596b62f0eb261040070a1ae858eac89e83b41e3cdef7cd4 Homepage: https://cran.r-project.org/package=clValid Description: CRAN Package 'clValid' (Validation of Clustering Results) Statistical and biological validation of clustering results. This package implements Dunn Index, Silhouette, Connectivity, Stability, BHI and BSI. Further information can be found in Brock, G et al. (2008) . Package: r-cran-cmaes Architecture: all Version: 1.0-12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-runit Filename: pool/dists/focal/main/r-cran-cmaes_1.0-12-1.ca2004.1_all.deb Size: 41964 MD5sum: 149d23917d9b435d7ea182d48c751dbe SHA1: a47a896860266780f66531e56d1cf33583e53f77 SHA256: 482393c21811d433baed0e577c5b7288e63b7945b4f41167791275e58a6774e1 SHA512: b00d01145c134fc797b93934d667fcdfbd9b3ef7eed9b1814b5e154335de06bed81c46eb729336b0361e4c7288e4ca11f227bb25262e207419236c5548e305e3 Homepage: https://cran.r-project.org/package=cmaes Description: CRAN Package 'cmaes' (Covariance Matrix Adapting Evolutionary Strategy) Single objective optimization using a CMA-ES. Package: r-cran-cmaesr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-paramhelpers, r-cran-bbmisc, r-cran-checkmate, r-cran-smoof, r-cran-ggplot2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cmaesr_1.0.3-1.ca2004.1_all.deb Size: 81856 MD5sum: fabcb9fc20ffaa85db7476c464de453c SHA1: 3473b0aa6e17eefb027bc93ca01414703465325d SHA256: 5ea3ac60d1549e711292bfff5b4be144eaf2342b063e9b68e1cc0cad1566e9bc SHA512: 828651b10e30ea91d817d864617f92b92cf1054b96d593db3cc32b5dff27493a4b1817f90397f22e76521bab59f111f1377d85a9c0f614849035d6468f4024d9 Homepage: https://cran.r-project.org/package=cmaesr Description: CRAN Package 'cmaesr' (Covariance Matrix Adaptation Evolution Strategy) Pure R implementation of the Covariance Matrix Adaptation - Evolution Strategy (CMA-ES) with optional restarts (IPOP-CMA-ES). 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These metrics are fundamental in various fields, such as cluster analysis, classification, and other applications of machine learning and data mining, where assessing similarity or dissimilarity between data is crucial. The package is designed to be flexible and easily integrated into data analysis workflows, providing reliable tools for evaluating distances in multidimensional contexts. Package: r-cran-cmanalysis Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cluster, r-cran-ggplot2, r-cran-factoextra, r-cran-clue, r-cran-igraph, r-cran-stringr, r-cran-pheatmap Filename: pool/dists/focal/main/r-cran-cmanalysis_1.0.0-1.ca2004.1_all.deb Size: 104376 MD5sum: 99c7f27a26473122c15dad3bd5fdbe82 SHA1: 98e7473330eceb3908b9a0efbe34037ff8ff0fd5 SHA256: 2004a85acb2bb2f5d9906917e1436f9077d1fd4435b820f74c37c61dccc0bca8 SHA512: 44a78255c9d5afe0faed3927c61c693fd19cb444162c0b6b1f9b89925f179ae48f4194223593c254f13f049a55ea20a05e3bdd44b1211e998bb3213b516212be Homepage: https://cran.r-project.org/package=cmAnalysis Description: CRAN Package 'cmAnalysis' (Process and Visualise Concept Mapping Data) Processing and visualizing concept mapping data. Concept maps are versatile tools used across disciplines to enhance understanding, teaching, brainstorming, and information organization. The analysis of concept mapping data involves the sequential use of cluster analysis (for sorting participants and statements), multidimensional scaling (for positioning statements in a conceptual space), and visualization techniques, including point cluster maps and dendrograms. Package: r-cran-cmapviz Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1063 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-readxl, r-cran-ggplot2, r-cran-dplyr, r-cran-scales, r-cran-reshape2, r-cran-stringr Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-cmapviz_0.1.0-1.ca2004.1_all.deb Size: 136456 MD5sum: e280a8a794c1240e560975d9eb88adf4 SHA1: adc4e9d66ad1d473037855e944c1ec8774c494f2 SHA256: c9fa139ef55e35ae3ee1055b15599fa9e8d9cc2cda96c82fcb559a33373998bd SHA512: 3416dcd9a0f5fe8c68a63ad8c54f209d4f313fd3135c2d54a37fc99b871146b8c5b84a33d75ae8df7b5a2670f3275ea532f4146ee0200f0bed82ec66aca1b646 Homepage: https://cran.r-project.org/package=CMapViz Description: CRAN Package 'CMapViz' (Representation Tool For Output Of Connectivity Map (CMap)Analysis) Automatically displays graphical visualization for exported data table (permutated results) from Connectivity Map (CMap) (2006) . It allows the representation of the statistics (p-value and enrichment) according to each cell lines in the form of a bubble plot. Package: r-cran-cmars Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 490 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-earth, r-cran-rmosek, r-cran-stringr, r-cran-matrix, r-cran-auc, r-cran-ryacas0, r-cran-rocr, r-cran-mpv Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cmars_0.1.3-1.ca2004.1_all.deb Size: 438192 MD5sum: a17a857ebdcfc28c53ab7e06262ddc30 SHA1: 03819b4d0144b616817d75c08879219a0e1dc8fe SHA256: c47cc879d01528813570b706f7f643cb698e93acf3a57f0017d5935d747f4db2 SHA512: 0aeed3f17d111d337ccdf422e6bf15c54831f6442a5fb75b45d7ec3c9cb660bd7d4ab04e3af1c3aa8504cadac28f5efca70a17afe10e92367bb7b15be65f54b7 Homepage: https://cran.r-project.org/package=cmaRs Description: CRAN Package 'cmaRs' (Implementation of the Conic Multivariate Adaptive RegressionSplines in R) An implementation of 'Conic Multivariate Adaptive Regression Splines (CMARS)' in R. See Weber et al. (2011) CMARS: a new contribution to nonparametric regression with multivariate adaptive regression splines supported by continuous optimization, . It constructs models by using the terms obtained from the forward step of MARS and then estimates parameters by using 'Tikhonov' regularization and conic quadratic optimization. It is possible to construct models for prediction and binary classification. It provides performance measures for the model developed. The package needs the optimisation software 'MOSEK' to construct the models. Please follow the instructions in 'Rmosek' for the installation. Package: r-cran-cmatching Architecture: all Version: 2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matching, r-cran-lmtest, r-cran-multiwayvcov, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-cmatching_2.4-1.ca2004.1_all.deb Size: 84820 MD5sum: f7875acdcdea4d0b73070e34c8100bd3 SHA1: 3a162a88cb2a7039bbb78fb54b6d5175303378b8 SHA256: 94905b5c605a302b10de7f632057ae6cd0456452d8ee2d8a5212bd9705dae582 SHA512: e2e331ca7976b015778e5325e3ae76be729ade24f46e1766ef059b8cd5a4ab6ddde8e410c16f17933b86351b0db0d636b3f9196e95c728d458e9a4c713c4bfda Homepage: https://cran.r-project.org/package=CMatching Description: CRAN Package 'CMatching' (Matching Algorithms for Causal Inference with Clustered Data) Provides functions to perform matching algorithms for causal inference with clustered data, as described in B. Arpino and M. Cannas (2016) . 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(2015) . Provides a wide range of pre, inter, and post-processing options when working with cartridge case scan data and their associated comparisons. See the cmcR package website for more details and examples. 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Package: r-cran-cmfsurrogate Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-cmfsurrogate_1.0-1.ca2004.1_all.deb Size: 50392 MD5sum: 3ed119ccb1b1b53cb4295d63426cb4b1 SHA1: 92420432518899d90c50976583743386a0c4a3d9 SHA256: 963945b40b8859e1a07ffe7a52d145970bf5ffcc713bdfbc4e69ec0bdac9917d SHA512: 83d546e76560a87bf149aab1e7d07e2531cb60f1d862b214d4f7e00e1b075fdbe49ba2e5ac28e25a7e01ef7c3cfb002d6e6a25095897cb9a218eab886f66f221 Homepage: https://cran.r-project.org/package=CMFsurrogate Description: CRAN Package 'CMFsurrogate' (Calibrated Model Fusion Approach to Combine Surrogate Markers) Uses a calibrated model fusion approach to optimally combine multiple surrogate markers. Specifically, two initial estimates of optimal composite scores of the markers are obtained; the optimal calibrated combination of the two estimated scores is then constructed which ensures both validity of the final combined score and optimality with respect to the proportion of treatment effect explained (PTE) by the final combined score. The primary function, pte.estimate.multiple(), estimates the PTE of the identified combination of multiple surrogate markers. Details are described in Wang et al (2022) . 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Package: r-cran-cmhsu Architecture: all Version: 0.0.6.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-purrr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cmhsu_0.0.6.9-1.ca2004.1_all.deb Size: 51384 MD5sum: f70798d749f66bb5e8db1675c209842f SHA1: 0e6f999499b8cb68021ccd4a392d6a95db1d793d SHA256: 8ac244cdfad172eb4443e8bcbbaf7d7eddfcde33a4347d58d95b91df54d28cd2 SHA512: daff0b37917a39fcac2c6aa021236c02aff2c79cb082ee2e3073a7e6e87459248f741cf9613465ea7d2fb23b81750a9ac19470a344af923600c14709aac706dd Homepage: https://cran.r-project.org/package=CMHSU Description: CRAN Package 'CMHSU' (Mental Health Status, Substance Use Status and their ConcurrentStatus in North American Healthcare Administrative Databases) Patients' Mental Health (MH) status, Substance Use (SU) status, and concurrent MH/SU status in the American/Canadian Healthcare Administrative Databases can be identified. 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The files are archived in the Federated Research Data Repository (FRDR) (Rajulapati et al, 2024, ). The data set is described in Abdelmoaty et al. (2025, ). Package: r-cran-cml Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-vegan Filename: pool/dists/focal/main/r-cran-cml_0.2.2-1.ca2004.1_all.deb Size: 50144 MD5sum: e0a07f2aaa66380e4f9096066b42477d SHA1: b526361a4a412dae03abc02291b1e702d0f67b88 SHA256: 0a641db83b397d69768f3f657eac50a81015e594d11f6a04fda988fea6a78c25 SHA512: 63a2f50e6412869e254d51da7265917b804213fd9927e838df0e079895e44db73c2268f3a5942b331b6b1af73b5f579eb82f09c245edfbd6afe89798a0e1a022 Homepage: https://cran.r-project.org/package=cml Description: CRAN Package 'cml' (Conditional Manifold Learning) Finds a low-dimensional embedding of high-dimensional data, conditioning on available manifold information. 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Moreover, the ever-growing traits measured have necessitated the integration of results from different Genome-wide association study researches. Circle Manhattan Plot is the first open R package that can lay out. Genome-wide association study P-value results in both traditional rectangular patterns, QQ-plot and novel circular ones. United in only one bull's eye style plot, association results from multiple traits can be compared interactively, thereby to reveal both similarities and differences between signals. Additional functions include: highlight signals, a group of SNPs, chromosome visualization and candidate genes around SNPs. 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Contains a series of algorithms which determine the probability of failure, consequences of failure and monetary risk associated with electricity distribution companies' assets such as transformers and cables. Results are visualized in an easy-to-understand risk matrix. 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Package: r-cran-cnogpro Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2275 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-seqinr Filename: pool/dists/focal/main/r-cran-cnogpro_1.1-1.ca2004.1_all.deb Size: 233156 MD5sum: c6fb74fc8e94f0412aadef6f0847badf SHA1: ed7d87d3d61865326783df369a03cb658d8d48a8 SHA256: 2dd21815057d5b7133957f20b9a67009742dcd3a15fd70a1eb6e98031a106a76 SHA512: fb0115885604f91319976af188ae1f24842c302b14b9474085a9bc2a94fb31eb837e7c4687507ef0525845cd1cb360b7efb0c961f19190496e37f2ece060188c Homepage: https://cran.r-project.org/package=CNOGpro Description: CRAN Package 'CNOGpro' (Copy Numbers of Genes in prokaryotes) Methods for assigning copy number states and breakpoints in resequencing experiments of prokaryotic organisms. Package: r-cran-cnorm Architecture: all Version: 3.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1999 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-leaps, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-shiny, r-cran-foreign, r-cran-readxl, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cnorm_3.4.1-1.ca2004.1_all.deb Size: 1509024 MD5sum: 018d266813e794e188d062378adcb5f2 SHA1: 4a9a1d684392f973698d578360649314b9922d81 SHA256: 0cf874aaffbb118db1326ae9924370f99d9d765955bfe4f9ed85c02965801c42 SHA512: 09456f9fcac3cc2836cdfd4797b80773350fb694bd6cf5fd0ad827140b1bd412d0406b1aaa83c71abe05cf154e2e496d3d9946fda694fbaca5d168eb444f6cd0 Homepage: https://cran.r-project.org/package=cNORM Description: CRAN Package 'cNORM' (Continuous Norming) A comprehensive toolkit for generating continuous test norms in psychometrics and biometrics, and analyzing model fit. The package offers both distribution-free modeling using Taylor polynomials and parametric modeling using the beta-binomial distribution. Originally developed for achievement tests, it is applicable to a wide range of mental, physical, or other test scores dependent on continuous or discrete explanatory variables. The package provides several advantages: It minimizes deviations from representativeness in subsamples, interpolates between discrete levels of explanatory variables, and significantly reduces the required sample size compared to conventional norming per age group. cNORM enables graphical and analytical evaluation of model fit, accommodates a wide range of scales including those with negative and descending values, and even supports conventional norming. It generates norm tables including confidence intervals. It also includes methods for addressing representativeness issues through Iterative Proportional Fitting. Package: r-cran-cnprep Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4077 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mclust, r-cran-rlecuyer Filename: pool/dists/focal/main/r-cran-cnprep_2.2-1.ca2004.1_all.deb Size: 4141852 MD5sum: d50f41177c5fb278991594f0fab7a191 SHA1: 813a9379a5418eeab356b9bcdf5b05d4c58e8865 SHA256: 12477a4a466de38845cc20ec7248a4e1ec4b88c89bac666d87b9232d416a95c6 SHA512: e310c72c42562e7a37ee4e0fed15b00268b7edc52bac02d0bad625a40e94d470c3a7366847fde5d5051724ce44e8b6fbc706875bfdf635f0f7443887eafd2dd8 Homepage: https://cran.r-project.org/package=CNprep Description: CRAN Package 'CNprep' (Pre-Process DNA Copy Number (CN) Data for Detection of CN Events) DNA copy number data evaluation using both their initial form (copy number as a noisy function of genomic position) and their approximation by a piecewise-constant function (segmentation), for the purpose of identifying genomic regions where the copy number differs from the norm. Package: r-cran-cnps Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-e1071 Filename: pool/dists/focal/main/r-cran-cnps_1.0.0-1.ca2004.1_all.deb Size: 127036 MD5sum: e06ae35ff5b0ddcb80a83f8aaf37247d SHA1: 398a5ed5e9a66faaa52cbaf9ac27b5760b6ce385 SHA256: 3bdee5b133d1888207e98acac39a689673746ba28bced69fd92da0e02de09fb3 SHA512: 2f92001f544bedf1708cc7a264deb78a3abc33cb213a500ea354f79e2e72f7c9ee88c01d1c641efa573ed2233161028c0fd759b712cf43ff6cac618ddec638a3 Homepage: https://cran.r-project.org/package=CNPS Description: CRAN Package 'CNPS' (Nonparametric Statistics) We unify various nonparametric hypothesis testing problems in a framework of permutation testing, enabling hypothesis testing on multi-sample, multidimensional data and contingency tables. Most of the functions available in the R environment to implement permutation tests are single functions constructed for specific test problems; to facilitate the use of the package, the package encapsulates similar tests in a categorized manner, greatly improving ease of use. We will all provide functions for self-selected permutation scoring methods and self-selected p-value calculation methods (asymptotic, exact, and sampling). For two-sample tests, we will provide mean tests and estimate drift sizes; we will provide tests on variance; we will provide paired-sample tests; we will provide correlation coefficient tests under three measures. For multi-sample problems, we will provide both ordinary and ordered alternative test problems. For multidimensional data, we will implement multivariate means (including ordered alternatives) and multivariate pairwise tests based on four statistics; the components with significant differences are also calculated. For contingency tables, we will perform permutation chi-square test or ordered alternative. Package: r-cran-cns Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cns_0.1.0-1.ca2004.1_all.deb Size: 17752 MD5sum: 8aec9b672d342e0e86f45a7da078e026 SHA1: 99ce66de4650c2335b11192955548de73429e4ad SHA256: 7137e1863c3b8ca629a591a0b45dd734b7ca72fe71b1d57bc69764f7b77cf35a SHA512: e6fbfc741ce62111bfeadb7691cd5e29ebef8f3ff5bf5f2d2b50a913aa4df61be654b203e30ced9e2f2a9269f8b2fc4e6769211a18bc76b2ef3a7daff9d2948c Homepage: https://cran.r-project.org/package=cns Description: CRAN Package 'cns' (Color Naming System) The Color Naming System was an early grammar of color that is more user friendly than `RGB`, by Berk, Brownstone and Kaufman (1982) . 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Creates a "CNV profile curve" to represent an individual’s CNV events across a genomic region so to capture variations in CNV length and dosage. When evaluating association, the CNV profile curve is directly used as a predictor in the regression model, avoiding the need to predefine CNV loci. CNV profile regression estimates CNV effects at each genome position, making the results comparable across different studies. The penalization encourages sparsity in variable selection with a Lasso penalty and encourages effect smoothness between consecutive CNV events with a weighted fusion penalty, where the weight controls the level of smoothing between adjacent CNVs. For more details, see Si (2024) . Package: r-cran-cnvscope Architecture: all Version: 3.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6702 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-tidyr, r-cran-reshape2, r-cran-magrittr, r-cran-jointseg, r-cran-shiny, r-cran-rcurl, r-cran-foreach, r-bioc-genomicinteractions, r-cran-matrix, r-cran-openimager, r-bioc-biomart, r-cran-matrixstats, r-cran-plyr, r-cran-data.table, r-cran-dplyr, r-cran-doparallel, r-cran-stringr, r-bioc-rtracklayer, r-cran-hmisc Suggests: r-cran-knitr, r-cran-remotes, r-cran-pwr, r-bioc-complexheatmap, r-cran-rmarkdown, r-cran-hicseg, r-cran-igraph, r-cran-visnetwork, r-cran-circlize, r-cran-plotly, r-bioc-interactionset, r-bioc-genomicranges, r-bioc-genomicfeatures, r-bioc-iranges, r-cran-rslurm, r-cran-shinythemes, r-cran-shinycssloaders, r-cran-dt, r-cran-logging, r-cran-heatmaply, r-bioc-s4vectors, r-cran-biocmanager, r-cran-shinyjs, r-cran-htmltools, r-cran-htmlwidgets, r-bioc-genomeinfodb, r-cran-tibble, r-cran-smoothie Filename: pool/dists/focal/main/r-cran-cnvscope_3.7.2-1.ca2004.1_all.deb Size: 3969664 MD5sum: 4aa860e1f57bc31c10a9de083d7f8d47 SHA1: 7e5cbe3d059272fd33b646be5bd2a84cd96d4558 SHA256: c463bd6d0b07b381cd7c97f1c32e9fb17f3f84fe079e2b96b9729b526d1f2891 SHA512: 8efd62c0d6e208feb9acd0c47e6410249e81e7081c7b9ba1bd5d56afd842bdd6a7862b2cc235643007eb5f40637f573336143ffe8c70fae23509d7ca74d44099 Homepage: https://cran.r-project.org/package=CNVScope Description: CRAN Package 'CNVScope' (A Versatile Toolkit for Copy Number Variation Relationship DataAnalysis and Visualization) Provides the ability to create interaction maps, discover CNV map domains (edges), gene annotate interactions, and create interactive visualizations of these CNV interaction maps. 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A plugin for the R GUI and IDE RKWard is included. Please install RKWard from https:// rkward.kde.org to use this feature. The respective R package 'rkward' cannot be installed directly from a repository, as it is a part of RKWard. Package: r-cran-coda.plot Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda.base, r-cran-ggplot2, r-cran-ggtern Filename: pool/dists/focal/main/r-cran-coda.plot_0.1.9-1.ca2004.1_all.deb Size: 52440 MD5sum: 0d522e0563fcb58e1935cb172221325f SHA1: 045448adbc51665c8c0a6d22712ebaba7a34447c SHA256: 6dbf05548e572b7457d9a47a36e0198d67be5b4773134eb1e90b9138d049d2ce SHA512: f30d9216bfe03b756d8963158db4bab4505ae20ac3f7565b69efcd50de616ca65f53278d06aa0d1ed649ea6c65041d12c3e17bfb4a0b3928a7dc170b0bde980d Homepage: https://cran.r-project.org/package=coda.plot Description: CRAN Package 'coda.plot' (Plots for Compositional Data) Provides a collection of easy-to-use functions for creating visualizations of compositional data using 'ggplot2'. Includes support for common plotting techniques in compositional data analysis. Package: r-cran-coda4microbiome Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 403 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-corrplot, r-cran-glmnet, r-cran-plyr, r-cran-proc, r-cran-ggpubr, r-cran-ggplot2, r-bioc-complexheatmap, r-cran-circlize, r-cran-survival, r-cran-survminer Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-coda4microbiome_0.2.4-1.ca2004.1_all.deb Size: 368292 MD5sum: 656428cffda9376669c41037d95f2603 SHA1: ec7fa8eb0b31f9a60163a3e60ec02833d5c9849f SHA256: 65ddcaf63fb7044a245b0fcbd8c7d9dd8dfa876fac7c599be991f15f591b4f84 SHA512: bace9ec2e71ddda5d8934fb445ed0ef56119a569f7bb4148ef96d7ea8dcc77231e64b14d213e4b10b0d30179073c3f080f5bfe937a2cfac57fde52186c848a88 Homepage: https://cran.r-project.org/package=coda4microbiome Description: CRAN Package 'coda4microbiome' (Compositional Data Analysis for Microbiome Studies) Functions for microbiome data analysis that take into account its compositional nature. Performs variable selection through penalized regression for both, cross-sectional and longitudinal studies, and for binary and continuous outcomes. Package: r-cran-coda Architecture: all Version: 0.19-4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 364 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lattice Filename: pool/dists/focal/main/r-cran-coda_0.19-4.1-1.ca2004.1_all.deb Size: 322384 MD5sum: b279e2375a4515c93418d8ef95cbd0b9 SHA1: 24b094a9de7c191e8e84f5e464f7729febdca050 SHA256: 6a9422b9caa5fd7590b166d8f76738f458e61baf26ba919616ba9a631fb467b9 SHA512: 9e1fb5ee33f3474e6ac73627bb78c78b42fcc40f5bf0793b8a95a99043d734e385d32493bd9ded48d5ce973bf58df6ad73e17f244872018e90de4fc6c3a7963d Homepage: https://cran.r-project.org/package=coda Description: CRAN Package 'coda' (Output Analysis and Diagnostics for MCMC) Provides functions for summarizing and plotting the output from Markov Chain Monte Carlo (MCMC) simulations, as well as diagnostic tests of convergence to the equilibrium distribution of the Markov chain. Package: r-cran-codacore Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1910 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-tensorflow, r-cran-keras, r-cran-proc, r-cran-r6, r-cran-gtools Suggests: r-cran-zcompositions, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-codacore_0.0.4-1.ca2004.1_all.deb Size: 1085740 MD5sum: 6aa784be7ce652f5ddedd22122db3bbf SHA1: 1f9871ce3021941a14e7630b1572644713a3afea SHA256: 8adff8203b136050482ffbd8e0cd3126b2e58c3eb5c2f40b016becb97f98d4b8 SHA512: 92af7b4d9cd51a3cbeb36c01504b45466d6e23bc8f4507965f60c153612e036d4fd64850b2bcd3beabb6f89c17bca5b8592ca70a7365a5208305982bec3a9778 Homepage: https://cran.r-project.org/package=codacore Description: CRAN Package 'codacore' (Learning Sparse Log-Ratios for Compositional Data) In the context of high-throughput genetic data, CoDaCoRe identifies a set of sparse biomarkers that are predictive of a response variable of interest (Gordon-Rodriguez et al., 2021) . 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Package: r-cran-codaimpact Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1372 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-compositions Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-sf, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-codaimpact_0.1.0-1.ca2004.1_all.deb Size: 1112280 MD5sum: 481804c04492bcd1cf952f3e6cffbc04 SHA1: 0641a230b1f86a0abda7581169702f6ad3f39daf SHA256: 6556f9afaabdfbc4dd48d90e3d6f4ead0ca34265bfe1b711eed762fa16541f4c SHA512: f9aeed09e0879a5e9e071dc8bfc654886c0b0cbc2ad7063ccd26cedeb05be5afc76cc9a1c8a2465cf815dee120209095a5293cf42f79b2bcff97d2fd2566f656 Homepage: https://cran.r-project.org/package=CoDaImpact Description: CRAN Package 'CoDaImpact' (Interpreting CoDa Regression Models) Provides methods for interpreting CoDa (Compositional Data) regression models along the lines of "Pairwise share ratio interpretations of compositional regression models" (Dargel and Thomas-Agnan 2024) . The new methods include variation scenarios, elasticities, elasticity differences and share ratio elasticities. These tools are independent of log-ratio transformations and allow an interpretation in the original space of shares. 'CoDaImpact' is designed to be used with the 'compositions' package and its ecosystem. Package: r-cran-codalm Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-squarem, r-cran-future, r-cran-future.apply Suggests: r-cran-knitr, r-cran-gtools, r-cran-remotes, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-codalm_0.1.2-1.ca2004.1_all.deb Size: 39396 MD5sum: defdf4c21e371b4a2d64913d95d01ffd SHA1: 179155fbc14fafa947c44a8ebfc99fc57f94295a SHA256: bfaec4b4f6231e86da38d843d37b08908d45ff6444b16e438f9f6b1e9bc6c177 SHA512: 0b1f2a07cd3d6a3692a148926363d3e1d221df5f6efae3e4bf6d1842b1fa79aac4f8e9fce258a86c31d217b28ff6cf10551e9e0a99c22889ac3c010a96de543c Homepage: https://cran.r-project.org/package=codalm Description: CRAN Package 'codalm' (Transformation-Free Linear Regression for Compositional Outcomesand Predictors) Implements the expectation-maximization (EM) algorithm as described in Fiksel et al. (2021) for transformation-free linear regression for compositional outcomes and predictors. Package: r-cran-codalomic Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1115 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-xtable, r-cran-ggplot2, r-cran-reshape2, r-cran-compositions, r-cran-mass, r-cran-broom, r-cran-r2jags, r-cran-ggbiplot, r-cran-zcompositions Suggests: r-cran-testthat, r-cran-gtools, r-cran-knitr Filename: pool/dists/focal/main/r-cran-codalomic_0.1.1-1.ca2004.1_all.deb Size: 944548 MD5sum: 697fee9ab0381b6a3f60c54fb3e45c4f SHA1: 6122c2885d5004380bc97a69a8fc65d8b92215fa SHA256: 391a83879a5aac5fb348dd2978995ef8938420e22cc58b1dc69900871ebae4ff SHA512: 73df96a55253b90cd4bc88cb0c4d5c697cba3c5db982eaf04d5dcdad96eca40a82b04ac214d1bcdba6e67a70fb48ebdf8b1e11cfcee04d43ae6d489d3d60f2f3 Homepage: https://cran.r-project.org/package=CoDaLoMic Description: CRAN Package 'CoDaLoMic' (Compositional Models to Longitudinal Microbiome Data) Implementation of models to analyse compositional microbiome time series taking into account the interaction between groups of bacteria. The models implemented are described in Creus-Martí et al (2018, ISBN:978-84-09-07541-6), Creus-Martí et al (2021) and Creus-Martí et al (2022) . 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The package provides predictions (with confidence intervals) in the change (delta) in the outcome/response variable based on the multiple linear regression model and evenly spaced reallocations of the compositional values. The compositional data analysis approach implemented is outlined in Dumuid et al. (2017a) and Dumuid et al. (2017b) . 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The method is described in Mouresan, Selle and Ronnegard (2019) . Package: r-cran-code Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-desolve, r-cran-bvpsolve, r-cran-testthat Filename: pool/dists/focal/main/r-cran-code_1.1.1-1.ca2004.1_all.deb Size: 126476 MD5sum: c2abbd28be43357fe65e513379fd1901 SHA1: 452e3eae4217bfbfa5f156c338a4dd917cf388db SHA256: 06863721c674354bea860a4ab84f432e1cc27c3541998420a96ebeffee0f50c4 SHA512: f16b67c5c0826631db30b15633aeaaff92103267cdbfadbc14e971643b99a9c0cd26af8c3f3a923ae9f25fe32a8403ca7b709332391b1a391f84f0bda24c7710 Homepage: https://cran.r-project.org/package=cOde Description: CRAN Package 'cOde' (Automated C Code Generation for 'deSolve', 'bvpSolve') Generates all necessary C functions allowing the user to work with the compiled-code interface of ode() and bvptwp(). 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For surveys, compute and summarise reliabilities (internal consistencies, retest, multilevel) for psychological scales. Combine this information with metadata (such as item labels and labelled values) that is derived from R attributes. To do so, the package relies on 'rmarkdown' partials, so you can generate HTML, PDF, and Word documents. Codebooks are also available as tables (CSV, Excel, etc.) and in JSON-LD, so that search engines can find your data and index the metadata. The metadata are also available at your fingertips via RStudio Addins. 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It focuses on R scripts, but can be used on the bodies of functions. There are many facilities including the ability to summarize or get a high-level view of code, determining dependencies between variables, code improvement suggestions. Package: r-cran-codelist Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-simplermarkdown Filename: pool/dists/focal/main/r-cran-codelist_0.1.0-1.ca2004.1_all.deb Size: 106204 MD5sum: 6bcb553bd41d279fd41d2967d3eef4e1 SHA1: f012a55cad972bf1397963ed40f0416102e56ba4 SHA256: ee494d3aced4c73a84d242448a5a6da99512089d82d2dd63448da89d7a187a3f SHA512: 72e560b4a127da5749c5395c030580799f77ff3bfd4cc317bec7a20f05cf3028af26a27a75bb8e824864a1b083dcf5bdbebd81498d92ba1e00380ff00abb6c41 Homepage: https://cran.r-project.org/package=codelist Description: CRAN Package 'codelist' (Working with Code Lists) Functions for working with code lists and vectors with codes. These are an alternative for factor that keep track of both the codes and labels. Methods allow for transforming between codes and labels. Also supports hierarchical code lists. 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For a given search strategy, a candidate code list will be returned. Package: r-cran-codemeta Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 204 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-desc, r-cran-jsonlite Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-codemeta_0.1.1-1.ca2004.1_all.deb Size: 164036 MD5sum: a2c20c1ec28494f31451ef3bff038da7 SHA1: b2814a53eb44863130a365aa472689477c628f58 SHA256: 2a7db1a8308b17a2881bae6a7c84687616ddfc61c1d4c94d6b89804056e8ffa4 SHA512: 5821c54a50786015af1fc5567bebd7d99c8726d2041297b1601547ad762145e42c8f0689a3638ab977f0c0c19ae5c631e2e4d242714ee7d6ee7d5fe9ac64dcdd Homepage: https://cran.r-project.org/package=codemeta Description: CRAN Package 'codemeta' (A Smaller 'codemetar' Package) The 'Codemeta' Project defines a 'JSON-LD' format for describing software metadata, as detailed at . This package provides core utilities to generate this metadata with a minimum of dependencies. 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This package provides utilities to generate, parse, and modify 'codemeta.json' files automatically for R packages, as well as tools and examples for working with 'codemeta.json' 'JSON-LD' more generally. Package: r-cran-codename Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-tibble Filename: pool/dists/focal/main/r-cran-codename_0.5.0-1.ca2004.1_all.deb Size: 82252 MD5sum: c4a8638a27506c087600ad8f4d1f95ab SHA1: fb1b8bd2524e44abc8f7908293916f3f175613c6 SHA256: af34fd7866ca5f6698d40b5f0bf07a1912a1e4bef178f1d279d5a6d6ae436fa4 SHA512: dcab15afdc3c1129d3b4debdb91c2d4e7db4f2bbbdcb215af157757bacc6f3220d9d8a2c5ef95cc0c3c5c1ef512b75b3cf2a301e31e3143127c979c6a87153a2 Homepage: https://cran.r-project.org/package=codename Description: CRAN Package 'codename' (Generation of Code Names for Organizations, People, Projects,and Whatever Else) This creates code names that a user can consider for their organizations, their projects, themselves, people in their organizations or projects, or whatever else. 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A typical use case considers patient with medically coded data, such as codes from the International Classification of Diseases ('ICD') or the Anatomic Therapeutic Chemical ('ATC') classification system. Functions of the package relies on a triad of objects: (1) case data with unit id:s and possible dates of interest; (2) external code data for corresponding units in (1) and with optional dates of interest and; (3) a classification scheme ('classcodes' object) with regular expressions to identify and categorize relevant codes from (2). It is easy to introduce new classification schemes ('classcodes' objects) or to use default schemes included in the package. Use cases includes patient categorization based on 'comorbidity indices' such as 'Charlson', 'Elixhauser', 'RxRisk V', or the 'comorbidity-polypharmacy' score (CPS), as well as adverse events after hip and knee replacement surgery. 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For more details about 'Mistral AI API': and . For more details about 'Codestral' model: ; about 'Codestral Mamba': . Package: r-cran-codetools Architecture: all Version: 0.2-20-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-codetools_0.2-20-1.ca2004.1_all.deb Size: 90236 MD5sum: ec2cef030a3190939f7291855c324241 SHA1: f5a551c08b305157b8d26ee3852a074b175c7a29 SHA256: 81c424acb2af6ccc7ea3ae733474b8a42b72b92e74433b9ee0255d5b80e01823 SHA512: 5e011fab056d8ff79c3e8448826b671786b723f795f0eae37be0696c900ad43e97fcf452c5393052312f509797618f599505b2cddc3e8f7384eda18515bd38c9 Homepage: https://cran.r-project.org/package=codetools Description: CRAN Package 'codetools' (Code Analysis Tools for R) Code analysis tools for R. 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Checks on 'CRAN' based on information in the 'URL' field or 'BioConductor' and 'GitHub' based on constructing a URL, and verifies all paths via testing for a successful response. This can be useful when automating static code analysis based on a list of package names, and similar tasks. Package: r-cran-codexcopd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 42 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-codexcopd_0.1.0-1.ca2004.1_all.deb Size: 11152 MD5sum: 502fdb1819d065686543f506918eeb16 SHA1: 688d411d4500cebc4d5879a8843046055f9b6f71 SHA256: 1878e3c9dc317daa9d3f37625572d9016800fdd960c783ec96d1b3c0b8a48528 SHA512: a20141669d57e63d93c96ab388bd71e006b51547073397a3a531c7b380c3a56e4a670540a6b1f0681f595789c3335e91e8160e0a3ce7ff8b7c26c09abc6fa988 Homepage: https://cran.r-project.org/package=codexcopd Description: CRAN Package 'codexcopd' (The CODEX (Comorbidity, Obstruction, Dyspnea, and PreviousSevere Exacerbations) Index: Short and Medium-Term Prognosis inPatients Hospitalized for Chronic Obstructive Pulmonary Disease(COPD) Exacerbations) Predicts 3 to 12 months prognosis in Chronic Obstructive Pulmonary Disease (COPD) patients hospitalized for severe exacerbations, as described in Almagro et al. (2014) . 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Package: r-cran-codina Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 852 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-igraph, r-cran-magrittr, r-cran-plyr, r-cran-visnetwork, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-wto Filename: pool/dists/focal/main/r-cran-codina_1.1.2-1.ca2004.1_all.deb Size: 821728 MD5sum: d22c7ab20eeee2100c6a6568217c2e8a SHA1: 46c22fe877619d9483f3dbf51db53ea01ba963df SHA256: 62a5d5fd141ac728e0b80bc486bd920165eb1218dcdd16315089efff4f9d3231 SHA512: 1eea33fc8946e05fb07a93af9d1bd6b60fb0036da6d2c973a25a0700cc00751492f8f4eacaba21864b99f484a0d1ea89b57ff61ac889ae384ebe6ee0b98043d6 Homepage: https://cran.r-project.org/package=CoDiNA Description: CRAN Package 'CoDiNA' (Co-Expression Differential Network Analysis) Categorize links and nodes from multiple networks in 3 categories: Common links (alpha) specific links (gamma), and different links (beta). 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Package: r-cran-codingmatrices Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 316 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix, r-cran-fractional Suggests: r-cran-knitr, r-cran-mass, r-cran-dplyr, r-cran-car, r-cran-ggplot2, r-cran-xtable Filename: pool/dists/focal/main/r-cran-codingmatrices_0.4.0-1.ca2004.1_all.deb Size: 233392 MD5sum: cf0b0d886a2b5cd04a697f74e0a89182 SHA1: 6aa42acea58b8bc7b066ff4ebe59a0b815ee7e61 SHA256: ba3ac84cdaef2aca94fc6a709bc425d757f7b98385274e2e734074e1144a9eca SHA512: 899adfbb33c9533771d45093c80c80df691b779e34be6153411d1816fcaf1781ef23ca3bbae5cf08509eb152c3b29f187e96a190899483c387c6df7250b4335f Homepage: https://cran.r-project.org/package=codingMatrices Description: CRAN Package 'codingMatrices' (Alternative Factor Coding Matrices for Linear Model Formulae) A collection of coding functions as alternatives to the standard functions in the stats package, which have names starting with 'contr.'. Their main advantage is that they provide a consistent method for defining marginal effects in factorial models. In a simple one-way ANOVA model the intercept term is always the simple average of the class means. 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The functions implement measures that are either explicitly temporal and include the option to calculate them over multiple replicates, or spatial and include the option to calculate them over multiple time points. Functions fall into five categories: static diversity indices, temporal diversity indices, spatial diversity indices, rank abundance curves, and community stability measures. The diversity indices are temporal and spatial analogs to traditional diversity indices. Specifically, the package includes functions to calculate community richness, evenness and diversity at a given point in space and time. In addition, it contains functions to calculate species turnover, mean rank shifts, and lags in community similarity between two time points. Details of the methods are available in Hallett et al. (2016) and Avolio et al. (2019) . 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(2020) . Package: r-cran-cogmapr Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 409 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-graph, r-bioc-rgraphviz, r-cran-ggplot2, r-cran-magrittr, r-cran-dplyr, r-cran-tidyr Suggests: r-cran-testthat, r-cran-car Filename: pool/dists/focal/main/r-cran-cogmapr_0.9.3-1.ca2004.1_all.deb Size: 317052 MD5sum: 7242c6b10b96e70e4c52b34a6abeeffb SHA1: 45a0aaf8c4e6b2b0e142ae81d6db92155189aa53 SHA256: ed5344d7d8cc35de4724d08e9b9db1f3ab94006dbb32cced1a3efe511d3506c6 SHA512: b1ec31ec874833031b91d9df1cde2eae871fd678e90bdfed290758fdb46bc70afe526976515a3348b9e9320ea3c9d8a5a396e50cec812f5c3c26794995b6407c Homepage: https://cran.r-project.org/package=cogmapr Description: CRAN Package 'cogmapr' (Cognitive Mapping Tools Based on Coding of Textual Sources) Functions for building cognitive maps based on qualitative data. 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Provides multiple filter types and reproducible R code. Works standalone or with 'shinyCohortBuilder' as the GUI for interactive Shiny apps. Package: r-cran-cohortcharacteristics Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6042 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cdmconnector, r-cran-dplyr, r-cran-tidyr, r-cran-rlang, r-cran-cli, r-cran-stringr, r-cran-omopgenerics, r-cran-patientprofiles, r-cran-snakecase, r-cran-lifecycle, r-cran-purrr Suggests: r-cran-codelistgenerator, r-cran-visomopresults, r-cran-cohortconstructor, r-cran-covr, r-cran-dbi, r-cran-dbplyr, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-drugutilisation, r-cran-dt, r-cran-duckdb, r-cran-flextable, r-cran-ggplot2, r-cran-ggpubr, r-cran-glue, r-cran-gt, r-cran-here, r-cran-hmisc, r-cran-htmltools, r-cran-knitr, r-cran-odbc, r-cran-omock, r-cran-plotly, r-cran-png, r-cran-reactable, r-cran-rmarkdown, r-cran-rpostgres, r-cran-rsvg, r-cran-scales, r-cran-spelling, r-cran-testthat, r-cran-tictoc, r-cran-withr Filename: pool/dists/focal/main/r-cran-cohortcharacteristics_1.0.0-1.ca2004.1_all.deb Size: 2699184 MD5sum: 3f16807b44449f64c2fad52b37e6c7c1 SHA1: ce4869a7d453304055bad7f1e781f4a8ffc3da4e SHA256: f848f0bc3b998a993d487ab23ebc8ab4b55f0d7c4e1069c8e5f6adfc5735d41c SHA512: b3ba88f5799e76f9924ecd18792115c3efa7b585eaf648413a5f130e242444d9f43afc7561109450b534ea7c5f0003909a87cfcc86222a51f54ff26962048073 Homepage: https://cran.r-project.org/package=CohortCharacteristics Description: CRAN Package 'CohortCharacteristics' (Summarise and Visualise Characteristics of Patients in the OMOPCDM) Summarise and visualise the characteristics of patients in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model (CDM). Package: r-cran-cohortconstructor Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8273 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cdmconnector, r-cran-checkmate, r-cran-cli, r-cran-clock, r-cran-dbplyr, r-cran-dplyr, r-cran-glue, r-cran-magrittr, r-cran-omopgenerics, r-cran-patientprofiles, r-cran-purrr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-dbi, r-cran-codelistgenerator, r-cran-drugutilisation, r-cran-duckdb, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-stringr, r-cran-incidenceprevalence, r-cran-omock, r-cran-covr, r-cran-rpostgres, r-cran-odbc, r-cran-cohortcharacteristics, r-cran-ggplot2, r-cran-diagrammer, r-cran-visomopresults, r-cran-gt, r-cran-scales, r-cran-here, r-cran-ggpubr, r-cran-sqlrender, r-cran-circer, r-cran-tictoc Filename: pool/dists/focal/main/r-cran-cohortconstructor_0.4.0-1.ca2004.1_all.deb Size: 1475908 MD5sum: d5e7e484a4a333edf237a3d0b9dd6a2e SHA1: 36b5ca4cf6446e4169303c6fed792087675d6913 SHA256: e71ccb49b4955634cab1d805b383d3bc44bc92b2cfe58ac762658c72dbb83735 SHA512: 97a2179bdefa7b609ed239c7d5788e86a38d51fbb8604d51ae4372bea3825fcb7a02416e556fb05076fdc07e85861a4fb2a3eeb89d92db32a72cca281c28009b Homepage: https://cran.r-project.org/package=CohortConstructor Description: CRAN Package 'CohortConstructor' (Build and Manipulate Study Cohorts Using a Common Data Model) Create and manipulate study cohorts in data mapped to the Observational Medical Outcomes Partnership Common Data Model. Package: r-cran-cohortexplorer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 841 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-databaseconnector, r-cran-checkmate, r-cran-dplyr, r-cran-lifecycle, r-cran-parallellogger, r-cran-rlang Suggests: r-cran-rmarkdown, r-cran-testthat, r-cran-knitr, r-cran-withr Filename: pool/dists/focal/main/r-cran-cohortexplorer_0.1.0-1.ca2004.1_all.deb Size: 282572 MD5sum: 425bba3b0e75badc0ee29a2356a6987d SHA1: 42d87201b7aec87bc1ada43fa020b3609a84ff8e SHA256: 9d3b89d6ef961ed6adf6b65947b74b9e94da12bb5076a4bc811065bf8715dc8d SHA512: 2b09e4f912cb66b90eab73571103b9b72858a4724f57f8e3c41280c7d5a4c4a159ada7710eac78bd65cf1b9f25a1f7e0c453f841dd8c5d06915202eba3c025cf Homepage: https://cran.r-project.org/package=CohortExplorer Description: CRAN Package 'CohortExplorer' (Explorer of Profiles of Patients in a Cohort) This software tool is designed to extract data from a randomized subset of individuals within a cohort and make it available for exploration in a shiny application environment. It retrieves date-stamped, event-level records from one or more data sources that represent patient data in the Observational Medical Outcomes Partnership (OMOP) data model format. This tool features a user-friendly interface that enables users to efficiently explore the extracted profiles, thereby facilitating applications, such as reviewing structured profiles. Package: r-cran-cohortgenerator Architecture: all Version: 0.11.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1946 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-databaseconnector, r-cran-r6, r-cran-checkmate, r-cran-digest, r-cran-dplyr, r-cran-lubridate, r-cran-parallellogger, r-cran-readr, r-cran-rlang, r-cran-rjsonio, r-cran-jsonlite, r-cran-resultmodelmanager, r-cran-sqlrender, r-cran-stringi, r-cran-tibble Suggests: r-cran-circer, r-cran-eunomia, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr, r-cran-zip Filename: pool/dists/focal/main/r-cran-cohortgenerator_0.11.2-1.ca2004.1_all.deb Size: 1190328 MD5sum: e1fe6cde366ffe2ea7d1d9905a9aa875 SHA1: f482b2dc08ad633174d023ebaaf57c982eed16b2 SHA256: b5d5ffc2d2c69cf91d6cac313fa373797cd41e47077e50da475a7fb65abcba66 SHA512: 48c17f29d561ae400f58c362bcb38a10846b387b961b5786a4b868691d689e2d6324fe898861dc4e191c0f13b0c733e27cb599992e83c9e30f2e09a4b2f8d7d1 Homepage: https://cran.r-project.org/package=CohortGenerator Description: CRAN Package 'CohortGenerator' (Cohort Generation for the OMOP Common Data Model) Generate cohorts and subsets using an Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM) Database. Cohorts are defined using 'CIRCE' () or SQL compatible with 'SqlRender' (). Package: r-cran-cohortpathways Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-databaseconnector, r-cran-checkmate, r-cran-dplyr, r-cran-lifecycle, r-cran-rlang, r-cran-sqlrender, r-cran-tidyr Suggests: r-cran-remotes, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-cohortpathways_0.0.1-1.ca2004.1_all.deb Size: 32232 MD5sum: c799f3f66bd2e05f28a796317a1b1073 SHA1: 0d2310790b2ea78b68c49643882e55379ebcdc0d SHA256: 8646f9d19cd3cbeba7c5a4182d7cc07b43a73e4e0103466a7b607d7a240c1f10 SHA512: 8e527f66016fcdd870e4ac98bf764b56b328a810d0662f784b32172111ae783c866a4170c86e267663af4e3c4f10c5cf3e6794390f2280d1f050d1ee47743d87 Homepage: https://cran.r-project.org/package=CohortPathways Description: CRAN Package 'CohortPathways' (Create Pathways from Target to Event Cohorts) Software tool designed to compute the temporal relationship defined as pathways between any two instantiated cohorts. The cohorts are input as Target and event cohorts. 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In order to obtain approval for this combination therapy, superiority of the combination over the two active compounds and superiority of the two active compounds over placebo need to be demonstrated. A more detailed description of the design can be found in Meyer et al. and a manual in Meyer et al. . Package: r-cran-cohorts Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1317 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-dtplyr, r-cran-magrittr, r-cran-tibble, r-cran-tidyr, r-cran-zoo Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cohorts_1.0.1-1.ca2004.1_all.deb Size: 1298372 MD5sum: 5efb63e475e28438ea71f7cc101f3926 SHA1: 426c505cb8c09061a3f07ac09ed984dcd8825393 SHA256: 67b980d50186fc1019365dc6d24e4c88656c9517c6b77b85f45840baa63ab293 SHA512: b1b2431914b060102b295b7e269cb8b8e902b45b7b45c053bdd1a10b6d7a82fd09b603876d3ba4228a6bac441548239228b484989b09c6ecbed000efd7608922 Homepage: https://cran.r-project.org/package=cohorts Description: CRAN Package 'cohorts' (Cohort Analysis Made Easy) Functions to simplify the process of preparing event and transaction for cohort analysis. Package: r-cran-cohortsurvival Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2791 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-cdmconnector, r-cran-checkmate, r-cran-cli, r-cran-clock, r-cran-dbi, r-cran-dplyr, r-cran-glue, r-cran-magrittr, r-cran-omopgenerics, r-cran-patientprofiles, r-cran-purrr, r-cran-rlang, r-cran-survival, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat, r-cran-codelistgenerator, r-cran-roxygen2, r-cran-knitr, r-cran-tictoc, r-cran-rmarkdown, r-cran-ggplot2, r-cran-patchwork, r-cran-cmprsk, r-cran-duckdb, r-cran-gt, r-cran-flextable, r-cran-scales, r-cran-visomopresults Filename: pool/dists/focal/main/r-cran-cohortsurvival_1.0.2-1.ca2004.1_all.deb Size: 1673336 MD5sum: 0f4d413fa09b27769b27f1f13066fa80 SHA1: eefa4e0bdedaac33ba31c2b4b52277e0c3b1153e SHA256: 59784276c00af7cd4c5864d3868494c4acf2e05e58e3074fb751c625c88bc183 SHA512: f49c658efa6720586e5c008c0b0047bde2984440e2630cdba8e6f30363d72c334ab2a123d7631112ea9eb9964ca912ec6129a80ce8e5cb074f5302243a442256 Homepage: https://cran.r-project.org/package=CohortSurvival Description: CRAN Package 'CohortSurvival' (Estimate Survival from Common Data Model Cohorts) Estimate survival using data mapped to the Observational Medical Outcomes Partnership common data model. Survival can be estimated based on user-defined study cohorts. 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Package: r-cran-cohorttools Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-epi, r-cran-cmprsk, r-cran-ggplot2, r-cran-survival, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-rsvg, r-cran-mgcv Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-lattice, r-cran-mstate, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cohorttools_0.1.6-1.ca2004.1_all.deb Size: 59584 MD5sum: 99ebf88a5b9b3e2b9cd6a3d63e123a55 SHA1: 28320443adeafbba15e6607a0d82c40d703b4279 SHA256: 58bc83df10de36ff91c3ce6be421e6aa8953691c0b81053af92120515eee87b7 SHA512: 6d806c5249264ce8a1409e17f7a08c3aabcead0426f99aadc71ded1ea5586fdf01203d547cb311d80750aa0ddab35c1df27ce4975c16f175c354be61d768b854 Homepage: https://cran.r-project.org/package=cohorttools Description: CRAN Package 'cohorttools' (Cohort Data Analyses) Functions to make lifetables and to calculate hazard function estimate using Poisson regression model with splines. Includes function to draw simple flowchart of cohort study. Function boxesLx() makes boxes of transition rates between states. It utilizes 'Epi' package 'Lexis' data. Package: r-cran-coil Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 289 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ape, r-cran-aphid, r-cran-seqinr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-coil_1.2.4-1.ca2004.1_all.deb Size: 170944 MD5sum: 966b153c0bc36647a28f448b6ce6983e SHA1: d51f51ba7c9fd2c9723f10d53bfa1c2bc719b5dc SHA256: a748b8a55c5805f785db15c7c7fd2e799019739f22da88628a058989b42d844c SHA512: de823658e6a81b78e2d44e2b09242e7d8b1c6b164c0d5473da2b7b1b4afa7295f87190d3dc2dec294d8d2be60e906ac72ec79a982ea8accf358a265543357a46 Homepage: https://cran.r-project.org/package=coil Description: CRAN Package 'coil' (Contextualization and Evaluation of COI-5P Barcode Data) Designed for the cleaning, contextualization and assessment of cytochrome c oxidase I DNA barcode data (COI-5P, or the five prime portion of COI). It contains functions for placing COI-5P barcode sequences into a common reading frame, translating DNA sequences to amino acids and for assessing the likelihood that a given barcode sequence includes an insertion or deletion error. The error assessment relies on the comparison of input sequences against nucleotide and amino acid profile hidden Markov models (PHMMs) (for details see Durbin et al. 1998, ISBN: 9780521629713) trained on a taxonomically diverse set of reference sequences. The functions are provided as a complete pipeline and are also available individually for efficient and targeted analysis of barcode data. Package: r-cran-coimp Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 283 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-copula, r-cran-cluster, r-cran-nnet, r-cran-gtools, r-cran-locfit Filename: pool/dists/focal/main/r-cran-coimp_2.1.0-1.ca2004.1_all.deb Size: 231296 MD5sum: 9f6c2d0fbbd384daecdcfb66cced2be4 SHA1: 47906a948710ba705a093f6f0ff983132285f23c SHA256: 834615f7880e8565b6fce6c3dd45cc0c2d894610a8cc9826e0945ba872a66a88 SHA512: 0a3661a0c2ee489ab534d31b06fa513b2f43c9987762ca841cf2b496391e421d1ca4c599889d9fd7675fc421a7c261edde16ce10432dc00253d744a7e8553d38 Homepage: https://cran.r-project.org/package=CoImp Description: CRAN Package 'CoImp' (Parametric and Nonparametric Copula-Based Imputation Methods) Copula-based imputation methods: parametric and nonparametric algorithms for missing multivariate data through conditional copulas. 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Seven classical methods (Wilson, Quesenberry and Hurst, Goodman, Wald with and without continuity correction, Fitzpatrick and Scott, Sison and Glaz) and Bayesian Dirichlet models are included in the package. The advantage of MCMC pack has been exploited to derive the Dirichlet posterior directly and this also helps in handling the Dirichlet prior parameters. This package is prepared to have equal and unequal values for the Dirichlet prior distribution that will provide better scope for data analysis and associated sensitivity analysis. 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This methodology studies the relationship between a couple of time series based on the the set of turning points of each time series. The coincident profile establishes if two time series are coincident, or one of them leads the second. 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It is a "development environment" for composite indicators and scoreboards, which includes utilities for construction (indicator selection, denomination, imputation, data treatment, normalisation, weighting and aggregation) and analysis (multivariate analysis, correlation plotting, short cuts for principal component analysis, global sensitivity analysis, and more). A composite indicator is completely encapsulated inside a single hierarchical list called a "coin". This allows a fast and efficient work flow, as well as making quick copies, testing methodological variations and making comparisons. It also includes many plotting options, both statistical (scatter plots, distribution plots) as well as for presenting results. 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It is well known that in a cointegrating regression the ordinary least squares (OLS) estimator of the parameters is super-consistent, i.e. converges at rate equal to the sample size T. When the regressors are endogenous, the limiting distribution of the OLS estimator is contaminated by so-called second order bias terms, see e.g. Phillips and Hansen (1990) . The presence of these bias terms renders inference difficult. Consequently, several modifications to OLS that lead to zero mean Gaussian mixture limiting distributions have been proposed, which in turn make standard asymptotic inference feasible. These methods include the fully modified OLS (FM-OLS) approach of Phillips and Hansen (1990) , the dynamic OLS (D-OLS) approach of Phillips and Loretan (1991) , Saikkonen (1991) and Stock and Watson (1993) and the new estimation approach called integrated modified OLS (IM-OLS) of Vogelsang and Wagner (2014) . 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Manuscript submitted for publication.) for multiple-species spatial data which contain the precise locations and membership of each spatial point. The two main functions are nsinc.d() and nsinc.z(). They provide the Pearson’s correlation coefficients of signal proportions in different memberships within a concerned proximity of every signal (or every base signal if single direction colocalization is considered) across all (base) signals using two different ways of normalization. The proximity sizes could be an individual value or a range of values, where the default ranges of values are different for the two functions. 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When many groups are plotted at the same time on multiple axes, for instance stacked bars or scatter plots, effectively ordering colors becomes difficult. This tool iterates through color combinations to find the best solution to maximize visual distinctness of nearby groups, so plots are more friendly toward colorblind users. This is achieved by two distance measurements, distance between groups within the plot, and CIELAB color space distances between colors as described in Carter et al., (2018) . 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This package is deprecated and will someday be removed; for reasons and details please see the README file. Package: r-cran-colorsgen Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-colorspace Filename: pool/dists/focal/main/r-cran-colorsgen_1.0.0-1.ca2004.1_all.deb Size: 22752 MD5sum: aab7de8ff6c09cc21b60465e22895088 SHA1: d7d757c19fe901659a9163ad9f21d722819f2810 SHA256: 1e4ae786306320fc0650c5175f6865de4dad2588b056023357696220f122c7f9 SHA512: b029fc54bccc499c1f943236fdf377fb4bf54690318d77e02cc3e6f371ac1b0ba2f8f3c8c36bbdbc8a5c024124262912277899d0bf1a66f8acd276638fc2478f Homepage: https://cran.r-project.org/package=colorsGen Description: CRAN Package 'colorsGen' (Generation of Random Colors) Generation of random colors, possibly with a given hue or a given luminosity. This is a port of the JavaScript library 'randomColor' . Package: r-cran-colorspec Architecture: all Version: 1.8-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5025 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-logger Suggests: r-cran-spacesxyz, r-cran-rootsolve, r-cran-mass, r-cran-quadprog, r-cran-rgl, r-cran-spacesrgb, r-cran-zonohedra, r-cran-microbenchmark, r-cran-arrangements, r-cran-knitr, r-cran-rmarkdown, r-cran-png Filename: pool/dists/focal/main/r-cran-colorspec_1.8-0-1.ca2004.1_all.deb Size: 3135208 MD5sum: 85892ac267dd3ff420672dc6cf04e9fa SHA1: 9387b1aaf6e54f90c76f66412655f8191a5d72ad SHA256: 354eb2a6b9ff7c7e9014f3c44b534157bce3b7b875bfe5e5c0199a485f49cb2c SHA512: 7ef98c39d0fbe07f2421a847a09b69ed40cb82fb52dc96c536c44ef980c63ec33740f3429f79350b6a2c9b8524daeb50dcff58f03f1ab8ec8df330834dbd0f2b Homepage: https://cran.r-project.org/package=colorSpec Description: CRAN Package 'colorSpec' (Color Calculations with Emphasis on Spectral Data) Calculate with spectral properties of light sources, materials, cameras, eyes, and scanners. Build complex systems from simpler parts using a spectral product algebra. For light sources, compute CCT, CRI, SSI, and IES TM-30 reports. For object colors, compute optimal colors and Logvinenko coordinates. Work with the standard CIE illuminants and color matching functions, and read spectra from text files, including CGATS files. Estimate a spectrum from its response. A user guide and 9 vignettes are included. Package: r-cran-colortools Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-colortools_0.1.5-1.ca2004.1_all.deb Size: 68652 MD5sum: 985df2d96c811526b8372dd8231c55bb SHA1: e80c2861d31c77981560c8af17c01919fdb06ec9 SHA256: 9a90252dbb9af97ae95d1aabe6af707e2abf4b97ba6c4c7552767f4139979c0b SHA512: 22ddd34cfddf46aeb9b17624dff112090bee70342e29f635dcb8a76706466d1df847436c2768e42e9e3ce15e5a0aab5f8bb8e55357e1a55fcd1f05161600017a Homepage: https://cran.r-project.org/package=colortools Description: CRAN Package 'colortools' (Tools for colors in a Hue-Saturation-Value (HSV) color model) R package with handy functions to help users select and play with color schemes in an HSV color model Package: r-cran-colour Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3424 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-jpeg, r-cran-png, r-cran-httr, r-cran-pixmap Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-scales Filename: pool/dists/focal/main/r-cran-colour_0.1.1-1.ca2004.1_all.deb Size: 2549488 MD5sum: 40bb1da345931fe3cba65c9d0390e4e4 SHA1: 1ddd395134a5e8d0743209094238877f64d78f6e SHA256: 96acd62e192b37cf0f4fef3e0ab80e27ca5f77590f3bbc3e3bc59f3f2ebf98c4 SHA512: 0d02224dd51f9bfab54cf122951dffac3c451d85dfbf8a99a82e0610e45552351021b493cc5bbc495e8c166e7d633492aa8b989a136d7951627f2f501f4c0795 Homepage: https://cran.r-project.org/package=colouR Description: CRAN Package 'colouR' (Create Colour Palettes from Images) Can take in images in either .jpg, .jpeg, or .png format and creates a colour palette of the most frequent colours used in the image. Also provides some custom colour palettes. Package: r-cran-colourlovers Architecture: all Version: 0.3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-jsonlite, r-cran-httr, r-cran-png Suggests: r-cran-httptest, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-colourlovers_0.3.6-1.ca2004.1_all.deb Size: 71652 MD5sum: 5682a330b38e9f15dca2c650e9675e34 SHA1: 27189e2e47987f50d4885fd97413f6bf1bb51d2e SHA256: 3d9b351816275b108a06f539676a2231dbee3e5cd623dc9c854a5b224b0f3926 SHA512: ab6d4d5c52c105ac5e77add42d475f755c6f6c9490b069455de40d5f6a8c8d81022cad674d648059dd0e8817c37272ec0e4a581d5febb8bbc2d8291d210acf2e Homepage: https://cran.r-project.org/package=colourlovers Description: CRAN Package 'colourlovers' (R Client for the COLOURlovers API) Provides access to the COLOURlovers API, which offers color inspiration and color palettes. Package: r-cran-colourpicker Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1698 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-htmltools, r-cran-htmlwidgets, r-cran-jsonlite, r-cran-miniui, r-cran-shiny, r-cran-shinyjs Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-shinydisconnect Filename: pool/dists/focal/main/r-cran-colourpicker_1.3.0-1.ca2004.1_all.deb Size: 1239928 MD5sum: b4edd42da555a5cc8a14b63db6cc994d SHA1: f34359883b18485e1f1c4b8793680c25e891c757 SHA256: 5bd69a337bb9f60365161e8338f5212b64c30f0b6dd8c4b2469a8daa5b18aa77 SHA512: f83c52b7957d35bfc4bffa73a8bff4136e7a84816b82ef8b1ac5d5e987bcfda06fe34e46a4b96ccd640c0ee59cad80a4608f3b5036ef6a395245395d53184c57 Homepage: https://cran.r-project.org/package=colourpicker Description: CRAN Package 'colourpicker' (A Colour Picker Tool for Shiny and for Selecting Colours inPlots) A colour picker that can be used as an input in 'Shiny' apps or Rmarkdown documents. The colour picker supports alpha opacity, custom colour palettes, and many more options. A Plot Colour Helper tool is available as an 'RStudio' Addin, which helps you pick colours to use in your plots. A more generic Colour Picker 'RStudio' Addin is also provided to let you select colours to use in your R code. Package: r-cran-colourvision Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1051 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-corrplot, r-cran-rgl Filename: pool/dists/focal/main/r-cran-colourvision_2.1.0-1.ca2004.1_all.deb Size: 692872 MD5sum: 56ff72312511d1678c04fed947a08676 SHA1: dc7febd54d09b3403754fa7ecb12f639e140eb27 SHA256: e7ab4f4b61dea5246984ab34063ae8b9e298334cbf990f4ac914fb6cf18d950f SHA512: 31fe892bbf4929383e7cfd54116cf8e9f4ee420b3942c3e601ddf723a5f611f0980523a7b0755d2d8b871cb6b94848b9d4f050330bbf5526eb2fc35c93168195 Homepage: https://cran.r-project.org/package=colourvision Description: CRAN Package 'colourvision' (Colour Vision Models) Colour vision models, colour spaces and colour thresholds. Provides flexibility to build user-defined colour vision models for n number of photoreceptor types. Includes Vorobyev & Osorio (1998) Receptor Noise Limited models , Chittka (1992) colour hexagon , and Endler & Mielke (2005) model . Models have been extended to accept any number of photoreceptor types. Package: r-cran-colp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-combinat Filename: pool/dists/focal/main/r-cran-colp_1.0.0-1.ca2004.1_all.deb Size: 21824 MD5sum: d6a458db5d575d2fe5224c710e48a34f SHA1: 2dc06627c7156b7e3879bd0f1d93e6bb7b8fc2e5 SHA256: 0cd55b67bfa921271054ee071b464ec95c4a809af9b3557f9aa5b271f540e1af SHA512: 4f6c39e1ecadcba0ea73dd46bb537ba99b3b7a98895af02b9c883150dae215846b6b50f8088efcf9b58f3a8b38178e2d12a2245d6ed025daaa1338aab7c770a1 Homepage: https://cran.r-project.org/package=COLP Description: CRAN Package 'COLP' (Causal Discovery for Categorical Data with Label Permutation) Discover causality for bivariate categorical data. This package aims to enable users to discover causality for bivariate observational categorical data. See Ni, Y. (2022) "Bivariate Causal Discovery for Categorical Data via Classification with Optimal Label Permutation. Advances in Neural Information Processing Systems 35 (in press)". Package: r-cran-colr Architecture: all Version: 0.1.900-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-colr_0.1.900-1.ca2004.1_all.deb Size: 24100 MD5sum: 142d4e41f02706d58359042a5031cdc8 SHA1: f798dc28d991b39001e1f22abb9f9ee89deb4dd0 SHA256: a1d7ef45fb5d88c6d3e10b6da8ea630ae5f1086caa2974779fb39a507d3509d8 SHA512: 14e1354bc3609129aac20128881cb611d8c6caade62138d5c0e0737034bbd4558c1b18a8432f81a257b8665cabfa6c3dbf1fa9a5cfdc2c585b37372dabe0a976 Homepage: https://cran.r-project.org/package=colr Description: CRAN Package 'colr' (Functions to Select and Rename Data) Powerful functions to select and rename columns in dataframes, lists and numeric types by 'Perl' regular expression. Regular expression ('regex') are a very powerful grammar to match strings, such as column names. Package: r-cran-cols4all Architecture: all Version: 0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3236 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-abind, r-cran-png, r-cran-stringdist, r-cran-colorspace, r-cran-spacesxyz Suggests: r-cran-colorblindcheck, r-cran-kableextra, r-cran-knitr, r-cran-shiny, r-cran-shinyjs, r-cran-ggplot2, r-cran-scales, r-cran-rmarkdown, r-cran-bookdown, r-cran-bibtex, r-cran-plotly Filename: pool/dists/focal/main/r-cran-cols4all_0.8-1.ca2004.1_all.deb Size: 2988104 MD5sum: 87a3f6e0abf015c8c6c0d705265693d9 SHA1: 107622dbf30a67bddf80e72b404ee9bc19e39ac2 SHA256: 22560aa3a96017f414f2efa189db794dfe70bbcf443227cc5e7ee0df1fcb16e3 SHA512: c78f000925ba539cf01b842d9d6bcc143e5ff1dd1152946254fab036c5dbe25d996baea7f9fde48436baf161cdd3a34ea4b5704d10021f93fbaad41e2e1a6169 Homepage: https://cran.r-project.org/package=cols4all Description: CRAN Package 'cols4all' (Colors for all) Color palettes for all people, including those with color vision deficiency. Popular color palette series have been organized by type and have been scored on several properties such as color-blind-friendliness and fairness (i.e. do colors stand out equally?). Own palettes can also be loaded and analysed. Besides the common palette types (categorical, sequential, and diverging) it also includes cyclic and bivariate color palettes. Furthermore, a color for missing values is assigned to each palette. Package: r-cran-cols Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quadprog, r-cran-rfast, r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-cols_1.5-1.ca2004.1_all.deb Size: 34256 MD5sum: 1c2549a48e7835a852c575bf477cdf9e SHA1: 9f0caf0ab13b7fe8e252771583f294b032184805 SHA256: 4d708dd2497310154dc3e435dbd218edc90f43d4f0b23494ef5e783b18b87e1e SHA512: 8361f528495bae42bc49d28f27c25ec2e224d637a64a1024e6ae726ef5449b6f9fa2a67953b45c2a7e8b326ff641da275dc15eb16620d0aeb574fa01687d7d33 Homepage: https://cran.r-project.org/package=cols Description: CRAN Package 'cols' (Constrained Ordinary Least Squares) Constrained ordinary least squares is performed. One constraint is that all beta coefficients (including the constant) cannot be negative. They can be either 0 or strictly positive. Another constraint is that the sum of the beta coefficients equals a constant. References: Hansen, B. E. (2022). Econometrics, Princeton University Press. . Package: r-cran-colt Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 217 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crayon Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-colt_0.1.1-1.ca2004.1_all.deb Size: 161932 MD5sum: 7769ad21d0117955d583f999207b84f6 SHA1: f7c2a31d4173384477b416d1e8f4d710efc23276 SHA256: 67da94d25db8f4f26e97cc03d1797e9e94695d7641e5f64921f74e46fd267c9d SHA512: 6362a05cf0995ec92a703bd88f59fc7cd2ddd8343ef5e7a0ef86001c17cf51ebc7d835c03300064c6414e8ae81dc738d0c57bc1a9ce962bfe5284ad6067aaad9 Homepage: https://cran.r-project.org/package=colt Description: CRAN Package 'colt' (Command-Line Color Themes) A collection of command-line color styles based on the 'crayon' package. 'Colt' styles are defined in themes that can easily be switched, to ensure command line output looks nice on dark as well as light consoles. Package: r-cran-comato Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-matrix, r-cran-lattice, r-cran-gdata, r-cran-xml, r-cran-cluster, r-cran-clustersim Filename: pool/dists/focal/main/r-cran-comato_1.1-1.ca2004.1_all.deb Size: 153480 MD5sum: c6ab62c5292a95007da38a83c9533297 SHA1: 5720e267b80f2aa194dbadf10818fe4c1ad95d8a SHA256: 1f708c56de0d20c296fdd70fd81020321ee3e9628f5652c6c650f5b410e14c98 SHA512: 44be71e809756526ce840dc73656669ce099c9c05b8b04d875a99cf23dae595b5e10f26a3c72c1960aeacb1a8fdb80f41ac5984e4c3d63114bfda58bbdf8d734 Homepage: https://cran.r-project.org/package=comato Description: CRAN Package 'comato' (Analysis of Concept Maps and Concept Landscapes) Provides methods for the import/export and automated analysis of concept maps and concept landscapes (sets of concept maps). Package: r-cran-combat.enigma Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-car, r-cran-caret, r-cran-matrix, r-cran-nlme Filename: pool/dists/focal/main/r-cran-combat.enigma_1.1.1-1.ca2004.1_all.deb Size: 102660 MD5sum: 5a16a08753c33b83adfa1a0e230ba10a SHA1: 02e21f30f6db262ef834776db546ba182896560c SHA256: 630b0930a171f92e71ba194264a0a2802ab95a451e12a43fa3bcbccdae6f0d8a SHA512: f0b810fa534efd40ebc97078d1425879bcf2c01e3ef070ae6f0ae33a75ad419e72a7369ad00b4ead77446e26276c8f76661efe04c2d71d2d49605dc99de76bdc Homepage: https://cran.r-project.org/package=combat.enigma Description: CRAN Package 'combat.enigma' (Fit and Apply ComBat, LMM, or Prescaling Harmonization forENIGMA and Other Multisite MRI Data) Fit and apply ComBat, linear mixed-effects models (LMM), or prescaling to harmonize magnetic resonance imaging (MRI) data from different sites. Briefly, these methods remove differences between sites due to using different scanning devices, and LMM additionally tests linear hypotheses. As detailed in the manual, the original ComBat function was first modified for the harmonization of MRI data (Fortin et al. (2017) ) and then modified again to create separate functions for fitting and applying the harmonization and allow missing values and constant rows for its use within the Enhancing Neuro Imaging Genetics through Meta-Analysis (ENIGMA) Consortium (Radua et al. (2020) ); this package includes the latter version. LMM calls "lme" massively considering specific brain imaging details. Finally, prescaling is a good option for fMRI, where different devices can have varying units of measurement. Package: r-cran-combat Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-corpcor Filename: pool/dists/focal/main/r-cran-combat_0.0.4-1.ca2004.1_all.deb Size: 30192 MD5sum: 58641f4de739f6a824282e3a6997758e SHA1: a63c21e36cb298f64875634434f0ddb1f931b1f8 SHA256: 816c4a8102d74d353977604f0e7d80337fcf5c5f38ec3f6c9506404367adb886 SHA512: 81bcafcb4a147ae9eaf3523b5a051610a56a555ccc6e9114c96ff1cdd664cf75c95e80998b4711124dac0d68f7beebf826479efea143845852172644c9740669 Homepage: https://cran.r-project.org/package=COMBAT Description: CRAN Package 'COMBAT' (A Combined Association Test for Genes using Summary Statistics) Genome-wide association studies (GWAS) have been widely used for identifying common variants associated with complex diseases. Due to the small effect sizes of common variants, the power to detect individual risk variants is generally low. Complementary to SNP-level analysis, a variety of gene-based association tests have been proposed. However, the power of existing gene-based tests is often dependent on the underlying genetic models, and it is not known a priori which test is optimal. Here we proposed COMBined Association Test (COMBAT) to incorporate strengths from multiple existing gene-based tests, including VEGAS, GATES and simpleM. Compared to individual tests, COMBAT shows higher overall performance and robustness across a wide range of genetic models. The algorithm behind this method is described in Wang et al (2017) . 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Features include interactive visualization tools, robust statistical tests, and a range of harmonization techniques. Additionally, 'ComBatFamQC' enables the creation of life-span age trend plots with estimated age-adjusted centiles and facilitates the generation of covariate-corrected residuals for analytical purposes. Methods for harmonization are based on approaches described in Johnson et al., (2007) , Beer et al., (2020) , Pomponio et al., (2020) , and Chen et al., (2021) . 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Returns confidence intervals and a p-value for the difference in C-statistics. Useful for evaluating and comparing predictive performance of survival models. Methods implemented for Uno's C are described in Uno et al. (2011) . Package: r-cran-comparedesign Architecture: all Version: 2.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 443 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-copula, r-cran-ggplot2, r-cran-ggpubr, r-cran-rootsolve, r-cran-numderiv Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-comparedesign_2.4.0-1.ca2004.1_all.deb Size: 313376 MD5sum: aeadec06cb07dc9e83d1745fa05545de SHA1: d88d0dee647c39f448f44f848b4746b61acf4f74 SHA256: c99a8dab71cf816bf158c49708a83f9440f33c0458ae3a1888bb28cf781dc60c SHA512: bdf2ef07f9f042c038c3deb88476308d18c2a4ba22b2770f1ec9888114202a1117e8ae79119620ce6068bf89ded146a280dc33e1b5da3756c67a07d7c7c920c4 Homepage: https://cran.r-project.org/package=CompAREdesign Description: CRAN Package 'CompAREdesign' (Statistical Functions for the Design of Studies with CompositeEndpoints) It has been designed to calculate the required sample size in randomized clinical trials with composite endpoints. 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Package: r-cran-comparedf Architecture: all Version: 2.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1153 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-data.table, r-cran-htmltable, r-cran-openxlsx, r-cran-tidyr, r-cran-stringr, r-cran-tibble, r-cran-rlang Suggests: r-cran-testthat, r-cran-futile.logger, r-cran-covr Filename: pool/dists/focal/main/r-cran-comparedf_2.3.5-1.ca2004.1_all.deb Size: 1071248 MD5sum: 73a7dd075284d048605261097ff23b7b SHA1: e9fb240a63719a94fbf0533758575a09a64d5182 SHA256: 2ebe7a85c38246ba35f81f701fb76558f70277e741485130b028de87c8b670aa SHA512: 22e51690768596e5ac097bc42bf0c1baf6a34e9773cbcdc614398a00b0dd15e09772721a45308d0eeda11580fd9a227253f01145d31b80cc054f0d1f687d9ccc Homepage: https://cran.r-project.org/package=compareDF Description: CRAN Package 'compareDF' (Do a Git Style Diff of the Rows Between Two Dataframes withSimilar Structure) Compares two dataframes which have the same column structure to show the rows that have changed. Also gives a git style diff format to quickly see what has changed in addition to summary statistics. Package: r-cran-comparegroups Architecture: all Version: 4.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4448 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-hardyweinberg, r-cran-rmarkdown, r-cran-knitr, r-cran-kableextra, r-cran-chron, r-cran-writexl, r-cran-flextable, r-cran-officer, r-cran-pmcmrplus Suggests: r-cran-tcltk2, r-cran-shiny, r-cran-shinybs, r-cran-shinyjs, r-cran-shinyjqui, r-cran-shinythemes, r-cran-shinywidgets, r-cran-shinydashboardplus, r-cran-dt, r-cran-readxl, r-cran-haven Filename: pool/dists/focal/main/r-cran-comparegroups_4.9.1-1.ca2004.1_all.deb Size: 3334204 MD5sum: 9059762c61de52d1b431c6973a3fa011 SHA1: f9c9144959fe74f9b8433c2623921570d791f7e6 SHA256: a82079d387ca6fbf48874400a72373bca4c86c6b03c56fe1e8205417d35d7490 SHA512: 6359c50e4b64b4c24a4fcd452471edf2babff5ab1dac4e547653bb6cbb2b4ebf34dfe7e0fbfd354f3c0945b2aaa41441083690fc9be25a3dda96610f562bb0b6 Homepage: https://cran.r-project.org/package=compareGroups Description: CRAN Package 'compareGroups' (Descriptive Analysis by Groups) Create data summaries for quality control, extensive reports for exploring data, as well as publication-ready univariate or bivariate tables in several formats (plain text, HTML,LaTeX, PDF, Word or Excel. Create figures to quickly visualise the distribution of your data (boxplots, barplots, normality-plots, etc.). Display statistics (mean, median, frequencies, incidences, etc.). Perform the appropriate tests (t-test, Analysis of variance, Kruskal-Wallis, Fisher, log-rank, ...) depending on the nature of the described variable (normal, non-normal or qualitative). Summarize genetic data (Single Nucleotide Polymorphisms) data displaying Allele Frequencies and performing Hardy-Weinberg Equilibrium tests among other typical statistics and tests for these kind of data. Package: r-cran-comparemcmcs Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 904 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nimble, r-cran-r6, r-cran-ggplot2, r-cran-reshape2, r-cran-xtable, r-cran-coda, r-cran-dplyr, r-cran-rlang Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rjags, r-cran-rstan Filename: pool/dists/focal/main/r-cran-comparemcmcs_0.6.0-1.ca2004.1_all.deb Size: 370540 MD5sum: 65482ef7c614184117cfc3ac98c26947 SHA1: f6dabbbee8e2c86aa8a5f25cc05a4955cdcbba88 SHA256: 62cbd23424d9320968097ebebf2e45fd6d6023fd5920b59936c7ad0e16842045 SHA512: 891439f1ad8a08b51203186dd588b5d7082115b9f57813e3c015033e95876af222113361db4d825102694d5930459742933672549ce6e0755788c123eca657cb Homepage: https://cran.r-project.org/package=compareMCMCs Description: CRAN Package 'compareMCMCs' (Compare MCMC Efficiency from 'nimble' and/or Other MCMC Engines) Manages comparison of MCMC performance metrics from multiple MCMC algorithms. These may come from different MCMC configurations using the 'nimble' package or from other packages. Plug-ins for JAGS via 'rjags' and Stan via 'rstan' are provided. It is possible to write plug-ins for other packages. Performance metrics are held in an MCMCresult class along with samples and timing data. It is easy to apply new performance metrics. Reports are generated as html pages with figures comparing sets of runs. It is possible to configure the html pages, including providing new figure components. Package: r-cran-comparemultiplemodels Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ceemdanml Filename: pool/dists/focal/main/r-cran-comparemultiplemodels_0.1.0-1.ca2004.1_all.deb Size: 14988 MD5sum: f6a083d1774216f2ae554d6275227fd9 SHA1: bc31b88e50a60fc75f94283f1886fb4655b373f9 SHA256: de8ec339bb39e09c053178df0e21607b0136b1dd82506d38f582bbb370484619 SHA512: 3d58370c205b88ab131519068f92497e9d2a6d010567f15bc1d3785a5259c78ec7b6f848664734b2d11d0626555339b2963bb2220fa01575833f98fe8239e92a Homepage: https://cran.r-project.org/package=CompareMultipleModels Description: CRAN Package 'CompareMultipleModels' (Finding the Best Model Using Eight Metrics Values) In statistical modeling, multiple models need to be compared based on certain criteria. The method described here uses eight metrics from 'AllMetrics' package. ‘input_df’ is the data frame (at least two columns for comparison) containing metrics values in different rows of a column (which denotes a particular model’s performance). First five metrics are expected to be minimum and last three metrics are expected to be maximum for a model to be considered good. Firstly, every metric value (among first five) is searched in every columns and minimum values are denoted as ‘MIN’ and other values are denoted as ‘NA’. Secondly, every metric (among last three) is searched in every columns and maximum values are denoted as ‘MAX’ and other values are denoted as ‘NA’. ‘output_df’ contains the similar number of rows (which is 8) and columns (which is number of models to be compared) as of ‘input_df’. Values in ‘output_df’ are corresponding ‘NA’, ‘MIN’ or ‘MAX’. Finally, the column containing minimum number of ‘NA’ values is denoted as the best column. ‘min_NA_col’ gives the name of the best column (model). ‘min_NA_values’ are the corresponding metrics values. ‘BestColumn_metrics’ is the data frame (dimension: 1*8) containing different metrics of the best column (model). ‘best_column_results’ is the final result (a list) containing all of these output elements. In special case, if two columns having equal 'NA', it will be checked among these two column which one is having least 'NA' in first five rows and will be inferred as the best. More details about 'AllMetrics' can be found in Garai (2023) . Package: r-cran-compareodm Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml Filename: pool/dists/focal/main/r-cran-compareodm_1.2-1.ca2004.1_all.deb Size: 21564 MD5sum: 45050a6ef5f1a8dd75f9be21f3785325 SHA1: 04b3fa425fd2002b857ea04895da0d8fc510068a SHA256: 048be7e851023e1bf9b9295e9f7bb01395be9be39be63212739bd8b3e0d5665f SHA512: 3c90343638d2185942a98d5149caa7e0fd35542e80ac570ffe524591a5c3e7ca5d9e0333caffdcda800eba72e0dc98155ab5560afe0aa23f090337d06e36986e Homepage: https://cran.r-project.org/package=compareODM Description: CRAN Package 'compareODM' (comparison of medical forms in CDISC ODM format) Input: 2 ODM files (ODM version 1.3) Output: list of identical, matching, similar and differing data items Package: r-cran-comparer Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 616 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gaupro, r-cran-mixopt, r-cran-rmarkdown, r-cran-plyr, r-cran-progress, r-cran-r6 Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-ggplot2, r-cran-ggally, r-cran-ggpubr, r-cran-contourfunctions, r-cran-snow, r-cran-tibble, r-cran-lhs, r-cran-dicekriging, r-cran-diceoptim, r-cran-microbenchmark Filename: pool/dists/focal/main/r-cran-comparer_0.2.4-1.ca2004.1_all.deb Size: 496004 MD5sum: c7cea4f2276c97f24d4ecae0272e303c SHA1: fcf5ab0aaa5c6b015f538f237131398d49fcb7ab SHA256: bf494b6b4df66be7a5cfd7b7cc9e1bd2b5800d5ffef221f53662d7cfad1df39a SHA512: c641e3677748621fa46db778adc06e449fc5c192f22455a2e5c09b405fec0f2884c896a23dddece6cea130fe56055e8a553ae4e3a123710ae18c00f86e25b851 Homepage: https://cran.r-project.org/package=comparer Description: CRAN Package 'comparer' (Compare Output and Run Time) Quickly run experiments to compare the run time and output of code blocks. The function mbc() can make fast comparisons of code, and will calculate statistics comparing the resulting outputs. It can be used to compare model fits to the same data or see which function runs faster. The R6 class ffexp$new() runs a function using all possible combinations of selected inputs. This is useful for comparing the effect of different parameter values. It can also run in parallel and automatically save intermediate results, which is very useful for long computations. Package: r-cran-comparetests Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-comparetests_1.3-1.ca2004.1_all.deb Size: 38676 MD5sum: 3069ece22e9dfe292035e5d1f17afa56 SHA1: 30ed5fd12039303f8367f1c2e814595f2403f2f2 SHA256: a6a6c9e4bdbf81da8377ca8fcffe7b08aee9111179b6e24ead8b9ade96554b7b SHA512: dd2214ab587c0d201b7edf510609d4d0433b7ec097ecc53bf926174919de8d675b018562d6f53045a3b50766d50e54e356a15f4ea89877c0880fd358a990a47c Homepage: https://cran.r-project.org/package=CompareTests Description: CRAN Package 'CompareTests' (Correct for Verification Bias in Diagnostic Accuracy & Agreement) A standard test is observed on all specimens. We treat the second test (or sampled test) as being conducted on only a stratified sample of specimens. Verification Bias is this situation when the specimens for doing the second (sampled) test is not under investigator control. We treat the total sample as stratified two-phase sampling and use inverse probability weighting. We estimate diagnostic accuracy (category-specific classification probabilities; for binary tests reduces to specificity and sensitivity, and also predictive values) and agreement statistics (percent agreement, percent agreement by category, Kappa (unweighted), Kappa (quadratic weighted) and symmetry tests (reduces to McNemar's test for binary tests)). See: Katki HA, Li Y, Edelstein DW, Castle PE. Estimating the agreement and diagnostic accuracy of two diagnostic tests when one test is conducted on only a subsample of specimens. Stat Med. 2012 Feb 28; 31(5) . Package: r-cran-comparison Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-isotone, r-cran-cvglasso Filename: pool/dists/focal/main/r-cran-comparison_1.0.8-1.ca2004.1_all.deb Size: 157644 MD5sum: 13c5046d965c02c2b6b44a523c27cd66 SHA1: 91c328061762bb51e0d62390f826cbdc38ca60ae SHA256: e53270578304beeca1df16549dec99dbcd5c92bb6f4d26ce7b1bae1b5cd15a3f SHA512: f6024ca8091022f71e226b2a7c499cf6d4d58032a655ea35b376098263c0dc8a9c2d5a0db9ab62428cfd428480973c0aab65335a2cd35e2128173aeef7caf173 Homepage: https://cran.r-project.org/package=comparison Description: CRAN Package 'comparison' (Multivariate Likelihood Ratio Calculation and Evaluation) Functions for calculating and evaluating likelihood ratios from uni/multivariate continuous observations. Package: r-cran-comparisoncr Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-boot, r-cran-cifsmry, r-cran-cmprsk Filename: pool/dists/focal/main/r-cran-comparisoncr_1.0.4-1.ca2004.1_all.deb Size: 80020 MD5sum: 72988e972d75c26bc49fd35533039229 SHA1: 9da1b33df6ab2aee6e461d0bd45d7707e02e3190 SHA256: c1ad73225d6d2509fda08da4f6c9dfeef7501ba0499cfeb413104527f65d275e SHA512: f2c302e2b0e9b819de54b6fd2f3711e382c35d63b08c346494897de4052506c1cea6ed208f2f164753505f0cb93808c26598a5aa0518ce74074446aae4f1fd57 Homepage: https://cran.r-project.org/package=ComparisonCR Description: CRAN Package 'ComparisonCR' (Comparison of Cumulative Incidence Between Two Groups UnderCompeting Risks) Statistical methods for competing risks data in comparing cumulative incidence function curves between two groups, including overall hypothesis tests and arbitrary tests in Lyu et al. (2020) , and the fixed-point tests in Chen et al. (2018) . Package: r-cran-comparisonsurv Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival, r-cran-survrm2, r-cran-tshrc, r-cran-muhaz Filename: pool/dists/focal/main/r-cran-comparisonsurv_1.1.1-1.ca2004.1_all.deb Size: 124376 MD5sum: c7bf9e12a9fb4d215441b4ce02e221fc SHA1: 7daa1f51f69ed6eb53db881d265d9200068d5358 SHA256: c76158e69217d45f945f1adede4439e2bad49b260b81443af0aa500e33b99a86 SHA512: f8e1ff5b6609b250a4a3d810bb4abddbd755c7be5c9a5b0a545efe7576e146085847584a31857d3809dd5df6196c32270ff72ea68ff1f32f61a7bcf57542ca09 Homepage: https://cran.r-project.org/package=ComparisonSurv Description: CRAN Package 'ComparisonSurv' (Comparison of Survival Curves Between Two Groups) Various statistical methods for survival analysis in comparing survival curves between two groups, including overall hypothesis tests described in Li et al. (2015) and Huang et al. (2020) , fixed-point tests in Klein et al. (2007) , short-term tests, and long-term tests in Logan et al. (2008) . Some commonly used descriptive statistics and plots are also included. Package: r-cran-compdb Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-callr, r-cran-cli, r-cran-pkgbuild, r-cran-withr Suggests: r-cran-fs, r-cran-jsonlite, r-cran-testthat Filename: pool/dists/focal/main/r-cran-compdb_0.0.1-1.ca2004.1_all.deb Size: 24148 MD5sum: 7243e89e02f38de8ba2b02e07280bbbd SHA1: 3ab122451fea7dda88a53f9ab5cf7bb36f140fe8 SHA256: 9ec63d3298a720cfe913f5ca436605d71ebcfc5989f0840f03755a67b40b0e8e SHA512: 59cc1235190d240e25b81d03952f0fb8d8f10bf8ad6afc458107cc29d76521441583cc677e3ef5eb88578fc1a0709340b4dc37a0068cae707e9fa265786161ef Homepage: https://cran.r-project.org/package=compdb Description: CRAN Package 'compdb' (Generate Compilation Database for Use with 'Clang' Tools) Many modern C/C++ development tools in the 'clang' toolchain, such as 'clang-tidy' or 'clangd', rely on the presence of a compilation database in JSON format . 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Package: r-cran-compdist Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-numderiv, r-cran-fextremes, r-cran-actuar, r-cran-vgam, r-cran-rmutil, r-cran-pearsonds Filename: pool/dists/focal/main/r-cran-compdist_1.0-1.ca2004.1_all.deb Size: 51652 MD5sum: dd87d95cc5743b7034f274e2ea6f7165 SHA1: bed0f788b7de2517f765c4c290b2f9978340e5db SHA256: cf67805d70d70eec4a5bcd36eca7d2c03b974dc14c942e4a2e5384914fdecb2e SHA512: cb45e526580d057500978e3760dda673de7e70bd3d8b99ad343c8c54524645546493025b434dae058083e7f0ca61ae69aaeb651270e958266b667f8d463ed7ca Homepage: https://cran.r-project.org/package=CompDist Description: CRAN Package 'CompDist' (Multisection Composite Distributions) Computes density function, cumulative distribution function, quantile function and random numbers for a multisection composite distribution specified by the user. Also fits the user specified distribution to a given data set. More details of the package can be found in the following paper submitted to the R journal Wiegand M and Nadarajah S (2017) CompDist: Multisection composite distributions. Package: r-cran-comperes Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 264 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-comperes_0.2.7-1.ca2004.1_all.deb Size: 134136 MD5sum: b199d7f83cbfd4270b31aca85253ac17 SHA1: c217f196fadedf0f2d5182cb4e97f7c0629d2291 SHA256: e46ef8ae0c842e9fd25810f2479c9b5464c580867a36b2f951d0ba656df9d60a SHA512: f8dd1b791a2226991bf4405089f3c68805511b2b0dc28e98ecbacc4368773e9ab052b9112397d8eab5d63b03dce0e5dc1eb4e9c0883a5213b03c097a6777e724 Homepage: https://cran.r-project.org/package=comperes Description: CRAN Package 'comperes' (Manage Competition Results) Tools for storing and managing competition results. Competition is understood as a set of games in which players gain some abstract scores. There are two ways for storing results: in long (one row per game-player) and wide (one row per game with fixed amount of players) formats. This package provides functions for creation and conversion between them. Also there are functions for computing their summary and Head-to-Head values for players. They leverage grammar of data manipulation from 'dplyr'. Package: r-cran-competitiontoolbox Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1670 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-antitrust, r-cran-trade, r-cran-shiny, r-cran-rhandsontable, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-competitiontoolbox_0.7.1-1.ca2004.1_all.deb Size: 958932 MD5sum: f86c9769c337020757a790c27b25be87 SHA1: e4ce71a64487a05ab6d9023df414e1de2ee6d132 SHA256: 527f3b70a9ff389b3b4127c45d155d35708f5cadf3085057e5222f3e70b2737c SHA512: b27279967052dfccf1aad162da770860d77eb94d078f65c0145cc5ec2654de28a5d1361bb3320a53ee91bda39062dfb4eaa38312ec9fa0fd9abbb72af4ae2e2c Homepage: https://cran.r-project.org/package=competitiontoolbox Description: CRAN Package 'competitiontoolbox' (A Graphical User Interface for Antitrust and Trade Practitioners) A graphical user interface for simulating the effects of mergers, tariffs, and quotas under an assortment of different economic models. The interface is powered by the 'Shiny' web application framework from 'RStudio'. Package: r-cran-compexpdes Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-hadamardr Filename: pool/dists/focal/main/r-cran-compexpdes_1.0.7-1.ca2004.1_all.deb Size: 80420 MD5sum: 2e8b151bea5ab1409fecd99c39f85be0 SHA1: f568270ed2a72de511b46547a5261ebff6076512 SHA256: f27af72b1eefe0d9b6aa7df7b737ecf4cb54a762415de3ef57da8a5ea57ed2fa SHA512: c2e2a918481b36c8ac2d4baaa5fb44ac884bb7a1c43b6b35f846ddd7a15c22ead85cf580801ac892857144917f9675fd0cd4cff1f9aba273cb8e77e38501b260 Homepage: https://cran.r-project.org/package=CompExpDes Description: CRAN Package 'CompExpDes' (Designs for Computer Experimentations) In computer experiments space-filling designs are having great impact. Most popularly used space-filling designs are Uniform designs (UDs), Latin hypercube designs (LHDs) etc. For further references one can see Mckay (1979) and Fang (1980) . In this package, we have provided algorithms for generate efficient LHDs and UDs. Here, generated LHDs are efficient as they possess lower value of Maxpro measure, Phi_p value and Maximum Absolute Correlation (MAC) value based on the weightage given to each criterion. On the other hand, the produced UDs are having good space-filling property as they always attain the lower bound of Discrete Discrepancy measure. Further, some useful functions added in this package for adding more value to this package. Package: r-cran-compgr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-compgr_0.1.3-1.ca2004.1_all.deb Size: 11416 MD5sum: 4cb73a576d5d91640d2a8966a13a35eb SHA1: dffe873b954a83cfddd1fc6af2b40ecffbf8ed91 SHA256: bca5978a7fba6b770da61bb067454ccaa371b37ef0882a00ab1b5fe192cd24dd SHA512: f8512c7c098dc1706bda7161809f4c17d9ebf5eb4bd35f362b261637a94b3d06fe8f357c77bbf3ce3e9a8e86e8be496dbb3edea22a00aee373b37ac0e30826cc Homepage: https://cran.r-project.org/package=CompGR Description: CRAN Package 'CompGR' (Complete Annual Growth Rate Generator) It is designed to streamline the process of calculating complete annual growth rates with user-friendly functions and robust algorithms. It enables researchers and analysts to effortlessly generate precise growth rate estimates for their data. For method details see, Sharma, M.K.(2013) . It offers a comprehensive suite of functions and customisable parameters. Equipped to handle varying complexities in data structures. It empowers users to uncover insightful growth dynamics and make informed decisions. 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Moreover, the variance inflation factor is used to reduce the set of correlated variables. In the case of a discrepancy between the importance and the assigned weight, the script determines weights that allow adjustment of the weights to the intended impact of variables. If the optimised weights are unable to reflect the desired importance, the highly correlated variables are reduced, taking into account variance inflation factor. The final outcome of the script is the calculated value of the composite indicator based on optimal weights and a reduced set of variables, and the linear ordering of the analysed objects. 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Package: r-cran-complognormal Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-complognormal_3.0-1.ca2004.1_all.deb Size: 24380 MD5sum: a303b3b4c5130aeeefe1407dd29fa42c SHA1: 4786d3afade71d5db4dabadc8c2b1820916b3a59 SHA256: 452698d5c497af4de11e9e7b71f3c8d61f09b7c5ef6c3c0bdbb63350fb273a13 SHA512: 38b1586a31dbe7ce469379288230a8eee2a46f912cb11eac94ba2eab13f4f630335df44256c2a25c129f5d331d1bce91f641d4fb6be2b56ba4f7f11bd8eef4e5 Homepage: https://cran.r-project.org/package=CompLognormal Description: CRAN Package 'CompLognormal' (Functions for actuarial scientists) Computes the probability density function, cumulative distribution function, quantile function, random numbers of any composite model based on the lognormal distribution. Package: r-cran-compmix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-mvtnorm, r-cran-gglasso, r-cran-higlasso, r-cran-hiernet, r-cran-glmnet, r-cran-superlearner, r-cran-bkmr, r-cran-qgcomp, r-cran-gwqs, r-cran-proc, r-cran-randomforest, r-cran-devtools Filename: pool/dists/focal/main/r-cran-compmix_0.1.0-1.ca2004.1_all.deb Size: 92284 MD5sum: 4f1d033ace742505bab09a010945c225 SHA1: 14b0e99a4f5dc37bcc5236b1be5212aaee96d9e8 SHA256: b98c7cbebbbe2bb5d106053c9d6ed6b0020ab0f2f91ad0b5a84c11daa437cb1a SHA512: 91d7d89dd5aa6fbdfb06bd8b17f6187a3044a9698e3abf3260f7b2e8939d0dca633b45c310aad436ee3202fa0f62a32dd652c8f6615db8acf98b7892c4a150cd Homepage: https://cran.r-project.org/package=CompMix Description: CRAN Package 'CompMix' (A Comprehensive Toolkit for Environmental Mixtures Analysis('CompMix')) Quantitative characterization of the health impacts associated with exposure to chemical mixtures has received considerable attention in current environmental and epidemiological studies. 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Package: r-cran-compositereliability Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-lme4, r-cran-magrittr, r-cran-plyr, r-cran-psych, r-cran-reshape2, r-cran-tidyr, r-cran-rsolnp Filename: pool/dists/focal/main/r-cran-compositereliability_1.0.3-1.ca2004.1_all.deb Size: 43440 MD5sum: 4bd26218894fe3fe2d7b9fac83b33f67 SHA1: f225d8135299a18207c6fcd8d30f8669024100b3 SHA256: 93886ca1c6a17774845dac8cc5cfc1b1fde8a35981ecb6bd0d9f197bfbc5ad0e SHA512: cac9e3d64eafbf0b9081fa54695ca462a36b8a14207d65e5d6a75e769585b25f04079026d4be74375c1edf70cdfd28ea473c15de130359783dc418e94c54440b Homepage: https://cran.r-project.org/package=CompositeReliability Description: CRAN Package 'CompositeReliability' (Determine the Composite Reliability of a Naturalistic,Unbalanced Dataset) The reliability of assessment tools is a crucial aspect of monitoring student performance in various educational settings. It ensures that the assessment outcomes accurately reflect a student's true level of performance. However, when assessments are combined, determining composite reliability can be challenging, especially for naturalistic and unbalanced datasets. This package provides an easy-to-use solution for calculating composite reliability for different assessment types. It allows for the inclusion of weight per assessment type and produces extensive G- and D-study results with graphical interpretations. Overall, our approach enhances the reliability of composite assessments, making it suitable for various education contexts. Package: r-cran-compositereliabilityinnesteddesigns Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-lme4, r-cran-magrittr, r-cran-plyr, r-cran-psych, r-cran-reshape2, r-cran-tidyr, r-cran-rsolnp Filename: pool/dists/focal/main/r-cran-compositereliabilityinnesteddesigns_1.0.4-1.ca2004.1_all.deb Size: 45044 MD5sum: 3b48dcef92c79c3426eaa4acec141e7d SHA1: 7749be2918a0b9597c08d38244233019f5354809 SHA256: 9d6cd8df6bce3b7d69a33261442ede09a4685ef09dba4c5f2f2869a5dc68d2d4 SHA512: c798d4ecadb2061d4d02bc5738e61eba3ebe30ca7857b1a04614956d959a6df7774f17bf532460470fb1f6bea99df1e705002c347281db9e30e61de274fbcb95 Homepage: https://cran.r-project.org/package=compositeReliabilityInNestedDesigns Description: CRAN Package 'compositeReliabilityInNestedDesigns' (Optimizing the Composite Reliability in Multivariate NestedDesigns) The reliability of assessment tools is a crucial aspect of monitoring student performance in various educational settings. It ensures that the assessment outcomes accurately reflect a student's true level of performance. However, when assessments are combined, determining composite reliability can be challenging, especially for naturalistic and unbalanced datasets in nested design as is often the case for Workplace-Based Assessments. This package is designed to estimate composite reliability in nested designs using multivariate generalizability theory and enhance the analysis of assessment data. The package allows for the inclusion of weight per assessment type and produces extensive G- and D-study results with graphical interpretations, and options to find the set of weights that maximizes the composite reliability or minimizes the standard error of measurement (SEM). Package: r-cran-compositional Architecture: all Version: 7.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1234 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bigstatsr, r-cran-cluster, r-cran-doparallel, r-cran-emplik, r-cran-energy, r-cran-foreach, r-cran-glmnet, r-cran-quantreg, r-cran-mass, r-cran-matrix, r-cran-mda, r-cran-minpack.lm, r-cran-mixture, r-cran-nnet, r-cran-quadprog, r-cran-rfast, r-cran-rfast2, r-cran-rnanoflann, r-cran-sn Suggests: r-cran-bigparallelr, r-cran-codalm, r-cran-flexdir Filename: pool/dists/focal/main/r-cran-compositional_7.6-1.ca2004.1_all.deb Size: 1161504 MD5sum: 2ab2ce3002deb7293b1c98895c1f2cdc SHA1: fcda70df16fb892ddf319981d160138640df8ffe SHA256: 5bea9c6662e0545f82f6e81cb29929d98c8701ca3082e05245b36fb2b4026f70 SHA512: b6ad9ff94ace0d3faa6a8143f5cab394ae411b033fc1bd7a4cb01f1865790438aeab30f5a98993c6d9168c88f532a2fe529dd2d736afc04d966509ec139dbad7 Homepage: https://cran.r-project.org/package=Compositional Description: CRAN Package 'Compositional' (Compositional Data Analysis) Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. We further include functions for percentages (or proportions). The standard textbook for such data is John Aitchison's (1986) "The statistical analysis of compositional data". Relevant papers include: a) Tsagris M.T., Preston S. and Wood A.T.A. (2011). "A data-based power transformation for compositional data". Fourth International International Workshop on Compositional Data Analysis. b) Tsagris M. (2014). "The k-NN algorithm for compositional data: a revised approach with and without zero values present". Journal of Data Science, 12(3): 519--534. . c) Tsagris M. (2015). "A novel, divergence based, regression for compositional data". Proceedings of the 28th Panhellenic Statistics Conference, 15-18 April 2015, Athens, Greece, 430--444. . d) Tsagris M. (2015). "Regression analysis with compositional data containing zero values". Chilean Journal of Statistics, 6(2): 47--57. . e) Tsagris M., Preston S. and Wood A.T.A. (2016). "Improved supervised classification for compositional data using the alpha-transformation". Journal of Classification, 33(2): 243--261. . f) Tsagris M., Preston S. and Wood A.T.A. (2017). "Nonparametric hypothesis testing for equality of means on the simplex". Journal of Statistical Computation and Simulation, 87(2): 406--422. . g) Tsagris M. and Stewart C. (2018). "A Dirichlet regression model for compositional data with zeros". Lobachevskii Journal of Mathematics, 39(3): 398--412. . h) Alenazi A. (2019). "Regression for compositional data with compositional data as predictor variables with or without zero values". Journal of Data Science, 17(1): 219--238. . i) Tsagris M. and Stewart C. (2020). "A folded model for compositional data analysis". Australian and New Zealand Journal of Statistics, 62(2): 249--277. . j) Alenazi A.A. (2022). "f-divergence regression models for compositional data". Pakistan Journal of Statistics and Operation Research, 18(4): 867--882. . k) Tsagris M. and Stewart C. (2022). "A Review of Flexible Transformations for Modeling Compositional Data". In Advances and Innovations in Statistics and Data Science, pp. 225--234. . l) Alenazi A. (2023). "A review of compositional data analysis and recent advances". Communications in Statistics--Theory and Methods, 52(16): 5535--5567. . m) Tsagris M., Alenazi A. and Stewart C. (2023). "Flexible non-parametric regression models for compositional response data with zeros". Statistics and Computing, 33(106). . n) Tsagris. M. (2025). "Constrained least squares simplicial-simplicial regression". Statistics and Computing, 35(27). . o) Sevinc V. and Tsagris. M. (2024). "Energy Based Equality of Distributions Testing for Compositional Data". . Package: r-cran-compositionalml Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boruta, r-cran-compositional, r-cran-doparallel, r-cran-e1071, r-cran-foreach, r-cran-ranger, r-cran-rfast, r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-compositionalml_1.0-1.ca2004.1_all.deb Size: 68148 MD5sum: 083521153ea54ffb24448d541e25dd23 SHA1: 39428f850e8cad6daee70d77ba661e5c84c6d9a6 SHA256: 0b83cb61a7c75edfe901dab91d755d5a2f34468717de1cc55a6d96f1a6cb796b SHA512: 5fa4912e799d2f8d0f76a19eee3c2437b08d9abc38db7ad0a50aaeec55f43e3fe2abadc72cb87b296bda307a81414c119c33613168d086cff43abbd06a9428fb Homepage: https://cran.r-project.org/package=CompositionalML Description: CRAN Package 'CompositionalML' (Machine Learning with Compositional Data) Machine learning algorithms for predictor variables that are compositional data and the response variable is either continuous or categorical. Specifically, the Boruta variable selection algorithm, random forest, support vector machines and projection pursuit regression are included. Relevant papers include: Tsagris M.T., Preston S. and Wood A.T.A. (2011). "A data-based power transformation for compositional data". Fourth International International Workshop on Compositional Data Analysis. and Alenazi, A. (2023). "A review of compositional data analysis and recent advances". Communications in Statistics--Theory and Methods, 52(16): 5535--5567. . Package: r-cran-compositionalrf Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-compositional, r-cran-doparallel, r-cran-foreach, r-cran-multivariaterandomforest, r-cran-rfast Filename: pool/dists/focal/main/r-cran-compositionalrf_1.0-1.ca2004.1_all.deb Size: 22976 MD5sum: c235a7aba9cdad7071b67c8fa3fe154c SHA1: cdcf7700dbf60b548d76e483d2be4943c243c667 SHA256: 774a43ed9966c1776a2d9b82a6294972c3055ec07baa25eff8bda543f579744b SHA512: 0a7f64c0adb087881fb97badf5378889660c8278ee585f2e790ec379fa97ba89d878b44422241d38421f960c0a4b2b08c3cdeb922153f02e622f4587b53a2d4c Homepage: https://cran.r-project.org/package=CompositionalRF Description: CRAN Package 'CompositionalRF' (Multivariate Random Forest with Compositional Responses) Non linear regression with compositional responses and Euclidean predictors is performed. The compositional data are first transformed using the additive log-ratio transformation, and then the multivariate random forest of Rahman R., Otridge J. and Pal R. (2017), , is applied. 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It uses the four R packages 'forecast', 'tsoutliers', 'otsad' and 'anomalize' to detect time series outliers (Kandanaarachchi, Menendez 2020) . 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Available are survival data for non-small-cell lung cancer patients with gene expressions (Chen et al 2007 New Engl J Med) , statistical methods in Emura et al (2012 PLoS ONE) , Emura & Chen (2016 Stat Methods Med Res) , and Emura et al (2019). Algorithms for generating correlated gene expressions are also available. Estimation of survival functions via copula-graphic (CG) estimators is also implemented, which is useful for sensitivity analyses under dependent censoring (Yeh et al 2023 Biomedicines) and factorial survival analyses (Emura et al 2024 Stat Methods Med Res) . 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Package: r-cran-compounding Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 332 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hypergeo Filename: pool/dists/focal/main/r-cran-compounding_1.0.2-1.ca2004.1_all.deb Size: 280452 MD5sum: a0762f390a72eb987ac1fe6f7bfdf362 SHA1: e6d9c3722adc520fddc475d17ce314a6b5eb82d3 SHA256: d106dc81f75493ef51240c57fc0c01b8e37c857872622a4fe453460e682d69e1 SHA512: fd721f2390c28c5f0251a4448d60821fed6ac25bc0636fb1f73d454b30d218e791f498a902dc570c9250e12e3f753efde4e4cb9b32b26de2c72709bd85888b8b Homepage: https://cran.r-project.org/package=Compounding Description: CRAN Package 'Compounding' (Computing Continuous Distributions) Computing Continuous Distributions Obtained by Compounding a Continuous and a Discrete Distribution Package: r-cran-comppareto Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-actuar Filename: pool/dists/focal/main/r-cran-comppareto_0.1.0-1.ca2004.1_all.deb Size: 32564 MD5sum: 2d76c47c07b880e05d326ecafd593396 SHA1: d575280c78e268b0987dfce4ad032087c1968f0b SHA256: cdffdec3941f3e1e0770cc72ce046b660f3feee43585967eb9013c999b2d33c7 SHA512: 850acdc8e3e6101648679f00ab051e52d6032991fe4312d16d6a48f1aea0d73ea31f291debe39c593c9d9257feb795c312b4b0e40d4a937fe87dc5d1bbfb459e Homepage: https://cran.r-project.org/package=CompPareto Description: CRAN Package 'CompPareto' (Discrete Composite Distributions with Pareto Tails) Contains the probability density function, cumulative distribution function, quantile function, and random number generator for composite and discrete composite distributions with Pareto tails. The detailed description of the methods and the applications of the methods can be found in Bowen Liu, Malwane M.A. Ananda (2023) . Package: r-cran-compr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 312 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-compr_1.0-1.ca2004.1_all.deb Size: 239580 MD5sum: e5db9fcbe99e0f82b98f55a3adbd57e6 SHA1: 8180e51aaecb770f9b84b7a12b32debad98df48f SHA256: b29001b5815f9a4deb2d18318d5e47d499b40687a39576d47a80a411b714acd6 SHA512: 0daec254193397ce5e9c88d229f3111a4411066d23f4e6197105292ee62495b0f26caf74ef5c585b5ee91054c61ac64b309cc1476025da409942e0e3e73d31a2 Homepage: https://cran.r-project.org/package=CompR Description: CRAN Package 'CompR' (Paired Comparison Data Analysis) Different tools for describing and analysing paired comparison data are presented. Main methods are estimation of products scores according Bradley Terry Luce model. A segmentation of the individual could be conducted on the basis of a mixture distribution approach. The number of classes can be tested by the use of Monte Carlo simulations. This package deals also with multi-criteria paired comparison data. Package: r-cran-comprehenr Architecture: all Version: 0.6.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-tinytest, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-comprehenr_0.6.10-1.ca2004.1_all.deb Size: 39580 MD5sum: dd5b7339b2dbc284c2b2701be881b465 SHA1: f72cbb530bdec727def8ac3b741101d707ae0396 SHA256: e237a8c61a05e4e60090c242695ed03b7b3dd7f508bed477e65a6d2a7cf7ab96 SHA512: 2af95b01d9c0aaef85a37c988b11615a2ef63d3852eb441c437d892cbef2ddf745fd7f3cd6957511325bfd6eb2ef05f90f76ad4f7e2fb5a246cd7f56f8c650f7 Homepage: https://cran.r-project.org/package=comprehenr Description: CRAN Package 'comprehenr' (List Comprehensions) Provides 'Python'-style list comprehensions. List comprehension expressions use usual loops (for(), while() and repeat()) and usual if() as list producers. 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The output includes ES's of d (mean difference), g (unbiased estimate of d), r (correlation coefficient), z' (Fisher's z), and OR (odds ratio and log odds ratio). In addition, NNT (number needed to treat), U3, CLES (Common Language Effect Size) and Cliff's Delta are computed. This package uses recommended formulas as described in The Handbook of Research Synthesis and Meta-Analysis (Cooper, Hedges, & Valentine, 2009). Package: r-cran-comradesm Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4368 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-comradesm_0.1.1-1.ca2004.1_all.deb Size: 4442500 MD5sum: 2648e64fda29e93d36a9eaed4b9ea860 SHA1: b7ec968a9f9cd8a4d12a490531de90e968b143d9 SHA256: fb081b6be5ad85bc25b7d1a646940ab62ae9cae6da5fc839d876db9a1973e3ba SHA512: bedeae5427c0422ea7cfc104ba96807ec5e96b6c9b32d4afce942be1a637136b63523ea1bf101049b2f0abd8c43dba12b69a18a65fcc6fee88a3c79a4ff5e41e Homepage: https://cran.r-project.org/package=ComradesM Description: CRAN Package 'ComradesM' (The Comrades Marathon 1921 to 2019) Datasets related to the Comrades Marathon used in the book Antony Unwin (2024, ISBN:978-0367674007) "Getting (more out of) Graphics". The main dataset contains the times of every runner that finished in the time limit for each year the race was run. 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The functions also allow computing the goodness-of-fit measures namely the Akaike-information-criterion (AIC), the Bayesian-information-criterion (BIC), the minimum value of the negative log-likelihood (-2L) function, Anderson-Darling (A) test, Cramer-Von-Mises (W) test, Kolmogorov-Smirnov test, P-value and convergence status. Moreover, some commonly used data sets from the fields of actuarial, reliability, and medical science are also provided. Related works include: a) Tahir, M. H., & Cordeiro, G. M. (2016). Compounding of distributions: a survey and new generalized classes. Journal of Statistical Distributions and Applications, 3, 1-35. . 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For details, see Alcaraz J., Anton-Sanchez L., Monge J.F. (2022) The Concordance Test, an Alternative to Kruskal-Wallis Based on the Kendall-tau Distance: An R Package. The R Journal 14, 26–53 . 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The CONCOR algorithm is used on social network data to identify network positions based off a definition of structural equivalence; see Breiger, Boorman, and Arabie (1975) and Wasserman and Faust's book Social Network Analysis: Methods and Applications (1994). This version allows multiple relationships for the same set of nodes and uses both incoming and outgoing ties to find positions. 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Measures can be calculated in groups or individually. The calculated measure or the resulting vector in table format should help practitioners make more informed decisions. Methods used in this package are from: 1. Chang, E. J., Guerra, S. M., de Souza Penaloza, R. A. & Tabak, B. M. (2005) "Banking concentration: the Brazilian case". 2. Cobham, A. and A. Summer (2013). "Is It All About the Tails? The Palma Measure of Income Inequality". 3. Garcia Alba Idunate, P. (1994). "Un Indice de dominancia para el analisis de la estructura de los mercados". 4. Ginevicius, R. and S. Cirba (2009). "Additive measurement of market concentration" . 5. Herfindahl, O. C. (1950), "Concentration in the steel industry" (PhD thesis). 6. Hirschmann, A. O. (1945), "National power and structure of foreign trade". 7. Melnik, A., O. Shy, and R. Stenbacka (2008), "Assessing market dominance" . 8. Palma, J. G. (2006). "Globalizing Inequality: 'Centrifugal' and 'Centripetal' Forces at Work". 9. Shannon, C. E. (1948). "A Mathematical Theory of Communication". 10. Simpson, E. H. (1949). "Measurement of Diversity" . 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'Condor' is an open source high-throughput computing software framework for distributed parallelization of computationally intensive tasks. Package: r-cran-condoroptions Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-magrittr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-condoroptions_1.0.1-1.ca2004.1_all.deb Size: 47700 MD5sum: ef9aeae082ab304ac182124ef73d7e06 SHA1: 5a6aa889f774c2bfcbdf8045c6d882ab11ab8ba5 SHA256: 949b4cf646e9872bdd6e62a3d1f538a24ab8fc64f412a64fdcc92992c2136fa4 SHA512: 7df65c60240afd6fcbd49a24fa78efe9302cebdb4015c3d61f34aaf77c6f4f42739d0479239e3f6dae12d825dfd8ba7da09230e2353790ea3b396608e50a2d9c Homepage: https://cran.r-project.org/package=condorOptions Description: CRAN Package 'condorOptions' (Trading Condor Options Strategies) Trading of Condor Options Strategies is represented here through their Graphs. The graphic indicators, strategies, calculations, functions and all the discussions are for academic, research, and educational purposes only and should not be construed as investment advice and come with absolutely no Liability. Guy Cohen (“The Bible of Options Strategies (2nd ed.)”, 2015, ISBN: 9780133964028). Zura Kakushadze, Juan A. Serur (“151 Trading Strategies”, 2018, ISBN: 9783030027919). John C. Hull (“Options, Futures, and Other Derivatives (11th ed.)”, 2022, ISBN: 9780136939979). Package: r-cran-condreg Architecture: all Version: 0.20-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-condreg_0.20-1.ca2004.1_all.deb Size: 244768 MD5sum: 710985ca59fd0557f9e6fbfd638df8ca SHA1: 894263ddfb961ee7083e11a34fd257160b34a062 SHA256: 89e8d783ffa03bbd50af1c45b67c04b51f530ced13b24c49fb2f1b65cce17977 SHA512: 37bdfee9f790acaf2eb14c98b0f0eeddec96533267fc9271f16b8e340e23b9c14693f0e9e90ec91aa5562e0d96ef0459167b5373efd88843be0c30f2f9e67899 Homepage: https://cran.r-project.org/package=CondReg Description: CRAN Package 'CondReg' (Condition Number Regularized Covariance Estimation) Based on \url{http://statistics.stanford.edu/~ckirby/techreports/GEN/2012/2012-10.pdf} Package: r-cran-condtruncmvn Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-condmvnorm, r-cran-matrixnormal, r-cran-tmvmixnorm, r-cran-tmvtnorm, r-cran-truncnorm Suggests: r-cran-formatr, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-sessioninfo, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-condtruncmvn_0.0.2-1.ca2004.1_all.deb Size: 43480 MD5sum: cfdd9ff926aa0274f31ee9cba2fb37cd SHA1: d4d5edfb65ac209e13427064af8653e004f6d6c1 SHA256: a2298a8ad04533796f5a71bbed54ddec2462e363ca82a13659ab139b95670307 SHA512: 04d1e9d334d7283a1d3e42854aa29f08d4866cfeb6c3c07a37e205aa8b5523c650541b06f2e334d5969367bddc52f5ea4f1dd12c9facb15f473c19fa8de2d97d Homepage: https://cran.r-project.org/package=condTruncMVN Description: CRAN Package 'condTruncMVN' (Conditional Truncated Multivariate Normal Distribution) Computes the density and probability for the conditional truncated multivariate normal (Horrace (2005) p. 4, ). Also draws random samples from this distribution. Package: r-cran-conductor Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 175 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-htmltools, r-cran-r6, r-cran-shiny Suggests: r-cran-shinytest2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-conductor_0.1.1-1.ca2004.1_all.deb Size: 96092 MD5sum: ae3ed9d794322f83b9e3373c82c2db03 SHA1: 7cbfbc7ff220db0214a5c721ab49150628a8bdeb SHA256: 907e7abda541b7702e985e70d6bf7219715ea7f9921101a95e05c719c09cda4c SHA512: 334615078bea6baf215836956a05380ab3f30825489722f809c084bd45294e69e8a746bb9a066a14f1c73655bc7092dce2780ef124ae8ccb33c879bc66531010 Homepage: https://cran.r-project.org/package=conductor Description: CRAN Package 'conductor' (Create Tours in 'Shiny' Apps Using 'Shepherd.js') Enable the use of 'Shepherd.js' to create tours in 'Shiny' applications. Package: r-cran-condusco Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-assertthat, r-cran-bigrquery, r-cran-dbi Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-whisker, r-cran-testthat, r-cran-rsqlite Filename: pool/dists/focal/main/r-cran-condusco_0.1.0-1.ca2004.1_all.deb Size: 24168 MD5sum: e6d260b06a837836bdda93ff0480b54b SHA1: fd7e51b5e3e8ac5dee9f0ee866610b2a3210ba61 SHA256: a89482b5c222d9dd84f8c4deb335a6df0b857aaeee99d7f01cefcfc781895a5c SHA512: 92d925e632ff635c254fd11cb9a12bcd1dd142c5f086c66ee906dfd6903f9fc64b5544758cf3115ae25f20df15552bc59556e3709a374a376ba1f3b007c29f2d Homepage: https://cran.r-project.org/package=condusco Description: CRAN Package 'condusco' (Query-Driven Pipeline Execution and Query Templates) Runs a function iteratively over each row of either a dataframe or the results of a query. Use the 'BigQuery' and 'DBI' wrappers to iteratively pass each row of query results to a function. If a field contains a 'JSON' string, it will be converted to an object. This is helpful for queries that return 'JSON' strings that represent objects. These fields can then be treated as objects by the pipeline. Package: r-cran-condvis2 Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2967 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-shiny, r-cran-rcolorbrewer, r-cran-ggplot2, r-cran-scales, r-cran-cluster, r-cran-dendser, r-cran-plyr, r-cran-colorspace, r-cran-gower Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-hdrcde, r-cran-scagnostics, r-cran-keras, r-cran-kernlab, r-cran-mclust, r-cran-mass, r-cran-ks, r-cran-mgcv, r-cran-randomforest, r-cran-parsnip, r-cran-mlr, r-cran-c50, r-cran-bartmachine, r-cran-bart, r-cran-caret, r-cran-e1071, r-cran-gbm, r-cran-glmnet, r-cran-glmnetutils, r-cran-mlr3, r-cran-nnet, r-cran-rpart, r-cran-tree, r-cran-testthat Filename: pool/dists/focal/main/r-cran-condvis2_0.1.2-1.ca2004.1_all.deb Size: 2150920 MD5sum: a501e22186132ee53d666e497b796d0d SHA1: c9384307faa4fbf07555296071883ff7d0d6df25 SHA256: 0faa4413b134b56f9e6b4faf9bc4788d2654e1615e31aa52a49bb1624c69b508 SHA512: d2939dca3ef97229350800ebc1d33dd594a94e3315c37317c39c660773dd559fff71cd33db8ce9fd7a1fcd0eaa5f782b88d258637c63560a4b4d35dd3b115ffd Homepage: https://cran.r-project.org/package=condvis2 Description: CRAN Package 'condvis2' (Interactive Conditional Visualization for Supervised andUnsupervised Models in Shiny) Constructs a shiny app function with interactive displays for conditional visualization of models, data and density functions. An extended version of package 'condvis'. Catherine B. Hurley, Mark O'Connell,Katarina Domijan (2021) . Package: r-cran-condvis Architecture: all Version: 0.5-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 409 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-rcolorbrewer, r-cran-shiny, r-cran-scagnostics, r-cran-cluster, r-cran-hdrcde, r-cran-gplots, r-cran-tsp, r-cran-dendser, r-cran-testthat Filename: pool/dists/focal/main/r-cran-condvis_0.5-1-1.ca2004.1_all.deb Size: 372688 MD5sum: cb77ccd38a79e386f03cced1c82d5f14 SHA1: 222053fdcb5b45a66b51dda89e91ed9c23df4343 SHA256: 99954cc6949c66b5c5d1376b50381c5ce59a1bdfcb90e28753dc028f73e7090c SHA512: 1296d687c70ab1126ee0bfab1ac73d1114196da3ea4aee0e3c9e1f0b204d65f3b703aba071651efd812df923c05484e55aa87f33ca1ef23712b78bebe9f0b11c Homepage: https://cran.r-project.org/package=condvis Description: CRAN Package 'condvis' (Conditional Visualization for Statistical Models) Exploring fitted models by interactively taking 2-D and 3-D sections in data space. Package: r-cran-conf.design Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-conf.design_2.0.0-1.ca2004.1_all.deb Size: 44528 MD5sum: 58e669cd3cfa96dbc0201c7e868ac726 SHA1: d612a5df711897af87fc200260cfd12d6ecf5040 SHA256: 78a1e6249f0615ae5a2c05d71f3ca8176362bcee639fc5eb04c02d641600e5fb SHA512: 6ea4e11e8b114ec67faf3a13fb4063e032323d7a9e5d9d397484bd2769991f466cd854c252b7088f72fdb684eda152b2befa2991c2c3f50f23aa4d58e463584a Homepage: https://cran.r-project.org/package=conf.design Description: CRAN Package 'conf.design' (Construction of factorial designs) This small library contains a series of simple tools for constructing and manipulating confounded and fractional factorial designs. Package: r-cran-conf Architecture: all Version: 1.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3302 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-statmod, r-cran-fitdistrplus, r-cran-pracma, r-cran-rootsolve Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-conf_1.9.1-1.ca2004.1_all.deb Size: 2101120 MD5sum: a66d5a3fc014512e57c3041716bf7fee SHA1: 7af58efacc7ec29c2c8a15155300bbb3a17158e4 SHA256: bcff4b514680239ced0e4633e26179db611c16f86b3a55947cde07fdc70f6388 SHA512: ee5c6f9f093bfc3d836bddb74e13bbb1e31402f5c6d23359834a66bc2e8faf6641ebc59ffa7f23c80e555aee493f9731a2048ff6d318e8a2472b3587155b5065 Homepage: https://cran.r-project.org/package=conf Description: CRAN Package 'conf' (Visualization and Analysis of Statistical Measures of Confidence) Enables: (1) plotting two-dimensional confidence regions, (2) coverage analysis of confidence region simulations, (3) calculating confidence intervals and the associated actual coverage for binomial proportions, (4) calculating the support values and the probability mass function of the Kaplan-Meier product-limit estimator, and (5) plotting the actual coverage function associated with a confidence interval for the survivor function from a randomly right-censored data set. Each is given in greater detail next. (1) Plots the two-dimensional confidence region for probability distribution parameters (supported distribution suffixes: cauchy, gamma, invgauss, logis, llogis, lnorm, norm, unif, weibull) corresponding to a user-given complete or right-censored dataset and level of significance. The crplot() algorithm plots more points in areas of greater curvature to ensure a smooth appearance throughout the confidence region boundary. An alternative heuristic plots a specified number of points at roughly uniform intervals along its boundary. Both heuristics build upon the radial profile log-likelihood ratio technique for plotting confidence regions given by Jaeger (2016) , and are detailed in a publication by Weld et al. (2019) . (2) Performs confidence region coverage simulations for a random sample drawn from a user- specified parametric population distribution, or for a user-specified dataset and point of interest with coversim(). (3) Calculates confidence interval bounds for a binomial proportion with binomTest(), calculates the actual coverage with binomTestCoverage(), and plots the actual coverage with binomTestCoveragePlot(). Calculates confidence interval bounds for the binomial proportion using an ensemble of constituent confidence intervals with binomTestEnsemble(). Calculates confidence interval bounds for the binomial proportion using a complete enumeration of all possible transitions from one actual coverage acceptance curve to another which minimizes the root mean square error for n <= 15 and follows the transitions for well-known confidence intervals for n > 15 using binomTestMSE(). (4) The km.support() function calculates the support values of the Kaplan-Meier product-limit estimator for a given sample size n using an induction algorithm described in Qin et al. (2023) . The km.outcomes() function generates a matrix containing all possible outcomes (all possible sequences of failure times and right-censoring times) of the value of the Kaplan-Meier product-limit estimator for a particular sample size n. The km.pmf() function generates the probability mass function for the support values of the Kaplan-Meier product-limit estimator for a particular sample size n, probability of observing a failure h at the time of interest expressed as the cumulative probability percentile associated with X = min(T, C), where T is the failure time and C is the censoring time under a random-censoring scheme. The km.surv() function generates multiple probability mass functions of the Kaplan-Meier product-limit estimator for the same arguments as those given for km.pmf(). (5) The km.coverage() function plots the actual coverage function associated with a confidence interval for the survivor function from a randomly right-censored data set for one or more of the following confidence intervals: Greenwood, log-minus-log, Peto, arcsine, and exponential Greenwood. The actual coverage function is plotted for a small number of items on test, stated coverage, failure rate, and censoring rate. The km.coverage() function can print an optional table containing all possible failure/censoring orderings, along with their contribution to the actual coverage function. Package: r-cran-confcons Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 404 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-mockery, r-cran-vctrs, r-cran-withr, r-cran-rocr, r-cran-covr, r-cran-terra, r-cran-sf, r-cran-blockcv, r-cran-ggplot2, r-cran-ranger Filename: pool/dists/focal/main/r-cran-confcons_0.3.1-1.ca2004.1_all.deb Size: 245900 MD5sum: 7aaf11b555feb64c66b16ed101522f07 SHA1: 97e710659511dcc1851bb5cb51de48d2c4492419 SHA256: bce6f63f01d22674d77e09fedbd7bc05498d66f3d242e48ae00afbd84ff83e41 SHA512: 0ebe3ba3bc6c5dbcba3dabafbf95f27b9cc82f1c970b6e721c209411589b86c0ade1687c709d9ea12ab33d5744de158aefd6d7343b90f9905d8279564b076741 Homepage: https://cran.r-project.org/package=confcons Description: CRAN Package 'confcons' (Confidence and Consistency of Predictive Distribution Models) Calculate confidence and consistency that measure the goodness-of-fit and transferability of predictive/potential distribution models (including species distribution models) as described by Somodi & Bede-Fazekas et al. (2024) . Package: r-cran-confidence Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 326 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-knitr, r-cran-markdown, r-cran-plyr, r-cran-xtable, r-cran-ggplot2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-confidence_1.1-2-1.ca2004.1_all.deb Size: 271972 MD5sum: 64a4661cd02d157cf514ad65380e2399 SHA1: 7ad689bf9a92d30b557b35e4ff4cb6a6f441d6c3 SHA256: da65dacae71dc89d58ab1249170e38c415379829e799f58f2b37a0baf36085a9 SHA512: d45136ab85790295a51694fc69dfb8812bb59923fbf3fa543967ec37abfba9ab8cff95592b21f716ef4962f9d962b8cfcd3f8b5ca13514a406ad5b7058704c1a Homepage: https://cran.r-project.org/package=confidence Description: CRAN Package 'confidence' (Confidence Estimation of Environmental State Classifications) Functions for estimating and reporting multi-year averages and corresponding confidence intervals and distributions. A potential use case is reporting the chemical and ecological status of surface waters according to the European Water Framework Directive. Package: r-cran-confidenceellipse Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3309 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cellwise, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-magrittr, r-cran-pcapp, r-cran-purrr, r-cran-rgl, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-patchwork, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-confidenceellipse_1.1.0-1.ca2004.1_all.deb Size: 2011984 MD5sum: d26f7a8a00be792077de83a610165c59 SHA1: 5fc1089ba8f6f2aa4773981e38304c8002389a3a SHA256: 4204aeabe3205e11388b793672ded1529882910be3d3a24bc2ff4e62534d77c1 SHA512: 6b75e712d5b92e916c4b2b22adde7d9e146684ba781c636c59e02443075ef463a0ebbfac0f9ae743abaebefd74e9dd73c691a7d598216c5eb45474347cca92a1 Homepage: https://cran.r-project.org/package=ConfidenceEllipse Description: CRAN Package 'ConfidenceEllipse' (Computation of 2D and 3D Elliptical Joint Confidence Regions) Computing elliptical joint confidence regions at a specified confidence level. It provides the flexibility to estimate either classical or robust confidence regions, which can be visualized in 2D or 3D plots. The classical approach assumes normality and uses the mean and covariance matrix to define the confidence regions. Alternatively, the robustified version employs estimators like minimum covariance determinant (MCD) and M-estimator, making them less sensitive to outliers and departures from normality. Furthermore, the functions allow users to group the dataset based on categorical variables and estimate separate confidence regions for each group. This capability is particularly useful for exploring potential differences or similarities across subgroups within a dataset. Varmuza and Filzmoser (2009, ISBN:978-1-4200-5947-2). Johnson and Wichern (2007, ISBN:0-13-187715-1). Raymaekers and Rousseeuw (2019) . Package: r-cran-config Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-yaml Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-spelling, r-cran-withr Filename: pool/dists/focal/main/r-cran-config_0.3.2-1.ca2004.1_all.deb Size: 94036 MD5sum: fe250da38248d0205f6bd2a7ac61880c SHA1: 49245ee2078c27d8478def0bb07e33f658678ee4 SHA256: 29486d58a17fa2739e2e171013f06549209badcf757927e437e73a36d89030ee SHA512: d975643c0624ed45ffa763df0b713af5df33c8d2c01a9ad7eaa8b437f8ff91eb05fae9daf4980ead6baafff699c21708e44d2962ba28d3c82bd27f6cb023345c Homepage: https://cran.r-project.org/package=config Description: CRAN Package 'config' (Manage Environment Specific Configuration Values) Manage configuration values across multiple environments (e.g. development, test, production). Read values using a function that determines the current environment and returns the appropriate value. Package: r-cran-configparser Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ini, r-cran-r6 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-configparser_1.0.0-1.ca2004.1_all.deb Size: 55972 MD5sum: c41608ca155de4cda73c7938788e6797 SHA1: 7f6596101b8ead07158bd3753391614d9cab7eb2 SHA256: 7f0584904319752587368989dbb34b8f1ead2932439da1eac6a81e0bddbf6b9e SHA512: c32c8a42878008923252f26eea4d090224b9463561e86862ac3a38cdda11c5d1060c0cc5bd95d398f1ad44748414400e1eae5b86cc0b27893e2be58119291c60 Homepage: https://cran.r-project.org/package=ConfigParser Description: CRAN Package 'ConfigParser' (Package to Parse an INI File, Including Variable Interpolation) Enhances the 'ini' package by adding the ability to interpolate variables. The INI configuration file is read into an R6 ConfigParser object (loosely inspired by Pythons ConfigParser module) and the keys can be read, where '%(....)s' instances are interpolated by other included options or outside variables. Package: r-cran-configr Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 250 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-ini, r-cran-yaml, r-cran-rcpptoml, r-cran-stringr, r-cran-glue Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-prettydoc Filename: pool/dists/focal/main/r-cran-configr_0.3.5-1.ca2004.1_all.deb Size: 109648 MD5sum: 563fe007261cdfb4bf368055adf1bf7c SHA1: 71e0d8e296029650191736942a11ccd60073bc2f SHA256: 03efcc7e6fd905168cdb6613eac161240290f6a2ff6f8a249b6c64c9ef5c5649 SHA512: e9d1fd901ce8a7490e8308d4a3e7aa4cc3761c870b005452e966bd4917885cd56d7838ae620f708a7e7bc1e7e3461fa242769411f0c6cd74b50d7ab18ce64425 Homepage: https://cran.r-project.org/package=configr Description: CRAN Package 'configr' (An Implementation of Parsing and Writing Configuration File(JSON/INI/YAML/TOML)) Implements the JSON, INI, YAML and TOML parser for R setting and writing of configuration file. The functionality of this package is similar to that of package 'config'. 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It supports default values, type casting, and environment variable overrides, enabling a clean separation of configuration from code. Ideal for managing credentials, API keys, and deployment-specific settings. Package: r-cran-configural Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-crayon Filename: pool/dists/focal/main/r-cran-configural_0.1.5-1.ca2004.1_all.deb Size: 169060 MD5sum: 3e87e9d908cdc5b82683acec9b0aed76 SHA1: 272d947d05a2a3e3f100031e6e9d4ce49a0da280 SHA256: f7a0e971baf6b475950e3a8fe065b172d677048a16efcd398ae7cecc736a5812 SHA512: d55b3d2654bb585a45803cb0fa8132bf2f875d0b9b84c27a11642545f44c7601520f00ffeb95b8ca3f6eac3a6afef41ebb8eaaafcef2079ab4635f5ccceee4fd Homepage: https://cran.r-project.org/package=configural Description: CRAN Package 'configural' (Multivariate Profile Analysis) R functions for criterion profile analysis, Davison and Davenport (2002) and meta-analytic criterion profile analysis, Wiernik, Wilmot, Davison, and Ones (2020) . Sensitivity analyses to aid in interpreting criterion profile analysis results are also included. Package: r-cran-confinterpret Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-confinterpret_1.0.0-1.ca2004.1_all.deb Size: 117164 MD5sum: 21da3fcbaf9774751c29e2b2c7b11425 SHA1: b3a376b44ac239d97213a84b0d10b53ed45971c8 SHA256: 1f5d2016571d5ea9890c99bb7292252602261d97c39a066639adf45b6ed9eff0 SHA512: 06b8038edf52d832d3e3983b89d5665ac6cc4561d0ca916198e68200935d28889b7ec3aeeef37b1494118adde5805340e74c8283754907d3b1729d12868cf13f Homepage: https://cran.r-project.org/package=confinterpret Description: CRAN Package 'confinterpret' (Descriptive Interpretations of Confidence Intervals) Produces descriptive interpretations of confidence intervals. Includes (extensible) support for various test types, specified as sets of interpretations dependent on where the lower and upper confidence limits sit. Provides plotting functions for graphical display of interpretations. Package: r-cran-confintr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 231 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-boot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-confintr_1.0.2-1.ca2004.1_all.deb Size: 165032 MD5sum: cd75d6c33f49f09619c4090319ffbf17 SHA1: c770332b5648e0d2294f3346f699cac644dbc2fb SHA256: f6411bdb9737cf464032b7cb7ef06b5aea61f4c02c38b589d943ae72ee8901a9 SHA512: f882c72c1397060db266db1bae27270e3883500ce88b2ba81fa05764528fca8e69af9eceba9eb7dfc1674f274614f4c6b3c46aa5a6169d39ee7cbf7615c366ba Homepage: https://cran.r-project.org/package=confintr Description: CRAN Package 'confintr' (Confidence Intervals) Calculates classic and/or bootstrap confidence intervals for many parameters such as the population mean, variance, interquartile range (IQR), median absolute deviation (MAD), skewness, kurtosis, Cramer's V, odds ratio, R-squared, quantiles (incl. median), proportions, different types of correlation measures, difference in means, quantiles and medians. Many of the classic confidence intervals are described in Smithson, M. (2003, ISBN: 978-0761924999). Bootstrap confidence intervals are calculated with the R package 'boot'. Both one- and two-sided intervals are supported. Package: r-cran-confintrob Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1349 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-foreach, r-cran-lme4, r-cran-mass, r-cran-mvtnorm, r-cran-tidyr Suggests: r-cran-robustlmm, r-cran-robustvarcomp, r-cran-lmertest, r-cran-xtable, r-cran-ggplot2, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-confintrob_1.0-2-1.ca2004.1_all.deb Size: 1296124 MD5sum: 1a767431da27d784713901d4438d47c3 SHA1: 6260c91347fad00c75d2ab9b06ee7b0da524de70 SHA256: 5b940fa1323e102328ddad88b00b10ceb620cfbafe36c8c2e7571a5aa1d4c65f SHA512: 77ee50b15057ab9b6740fa965eedb777eed36e9d39eb2ca57fcf65d7bbfa035f1ef399edce181f044d2cedfe2fd349a36dd6326e904a08a77ae40513f2c5d2e5 Homepage: https://cran.r-project.org/package=confintROB Description: CRAN Package 'confintROB' (Confidence Intervals for Robust and Classical Linear Mixed ModelEstimators) The main function calculates confidence intervals (CI) for Mixed Models, utilizing both classical estimators from the lmer() function in the 'lme4' package and robust estimators from the rlmer() function in the 'robustlmm' package, as well as the varComprob() function in the 'robustvarComp' package. Three methods are available: the classical Wald method, the wild bootstrap, and the parametric bootstrap. Bootstrap methods offer flexibility in obtaining lower and upper bounds through percentile or BCa methods. More details are given in Mason, F., Cantoni, E., & Ghisletta, P. (2021) and Mason, F., Cantoni, E., & Ghisletta, P. (2024) . Package: r-cran-confintvariance Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-confintvariance_1.0.2-1.ca2004.1_all.deb Size: 24248 MD5sum: 42704bfcf31aa5cc6947bdbf93b8ec29 SHA1: 87aecea22b83a6f4ce4e63580657161b0670215a SHA256: 44aace7b56114967bd70167e48fbc318c43ddd8fc51084d46e051aa1681358cf SHA512: 1ea17c3e5648e4905ce63ba20c0094f30e59c34b976429a0d7d374065f72c713a0a3769c798af0c3de1d961859d28f7a8c769ddbf4cfe8f3a293a1783c899490 Homepage: https://cran.r-project.org/package=ConfIntVariance Description: CRAN Package 'ConfIntVariance' (Confidence Interval for the Univariate Population Variancewithout Normality Assumption) Surrounds the usual sample variance of a univariate numeric sample with a confidence interval for the population variance. This has been done so far only under the assumption that the underlying distribution is normal. Under the hood, this package implements the unique least-variance unbiased estimator of the variance of the sample variance, in a formula that is equivalent to estimating kurtosis and square of the population variance in an unbiased way and combining them according to the classical formula into an estimator of the variance of the sample variance. Both the sample variance and the estimator of its variance are U-statistics. By the theory of U-statistic, the resulting estimator is unique. See Fuchs, Krautenbacher (2016) and the references therein for an overview of unbiased estimation of variances of U-statistics. Package: r-cran-conflicted Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-memoise, r-cran-rlang Suggests: r-cran-callr, r-cran-covr, r-cran-dplyr, r-cran-matrix, r-cran-pkgload, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-conflicted_1.2.0-1.ca2004.1_all.deb Size: 55840 MD5sum: 431608ae49c4c33962b6af54db5a2976 SHA1: 5d58e82baa0b79c1fce8385a19e13c942d9c0eb4 SHA256: 3fa6ff53cf0911e4c1c13e276f4a6ac0c26a44c2f49a8c072ae3c5e356074ac1 SHA512: 3cdd354eb48e8075519d666490ff2e5d4150a9c0bb288fb971fb89c2c0bad6f3993588b800aec6996dcf28c4c6aefce7e81fc85478dbd1f743a4ac5f866feda4 Homepage: https://cran.r-project.org/package=conflicted Description: CRAN Package 'conflicted' (An Alternative Conflict Resolution Strategy) R's default conflict management system gives the most recently loaded package precedence. This can make it hard to detect conflicts, particularly when they arise because a package update creates ambiguity that did not previously exist. 'conflicted' takes a different approach, making every conflict an error and forcing you to choose which function to use. Package: r-cran-conflr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 699 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-askpass, r-cran-commonmark, r-cran-curl, r-cran-glue, r-cran-httr, r-cran-knitr, r-cran-miniui, r-cran-purrr, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-shiny, r-cran-stringi, r-cran-xml2, r-cran-r6, r-cran-rlang Suggests: r-cran-mockery, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-conflr_0.1.1-1.ca2004.1_all.deb Size: 662172 MD5sum: d9a15f444ff8a50fde5d1736465e2037 SHA1: 734b808e6b0bc73998318af8f11b9d52fa57d4d7 SHA256: 704b6cf576619df1a2dd6f67a4f35066d7c68ba821f9cface630c5dc40edae46 SHA512: b8f8e2accc9c5b53378f17752aac214be998bc7ccd7be925530acd806b7c94a64fb16b4091e92c6243ad8015abc7756ce7b80b50a48bd9421b65049ce317319c Homepage: https://cran.r-project.org/package=conflr Description: CRAN Package 'conflr' (Client for 'Confluence' API) Provides utilities for working with various 'Confluence' API , including a functionality to convert an R Markdown document to 'Confluence' format and upload it to 'Confluence' automatically. Package: r-cran-confmatrix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 307 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-rdpack, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-confmatrix_0.1.0-1.ca2004.1_all.deb Size: 247476 MD5sum: 3a690ab0f71d428f9578d3f65f076923 SHA1: 2931d483c2d361eeee44ae642e3f62b560b3e969 SHA256: 42109f33f95f3439f215e9d21da37cdbb0ce6f1f01cc30a4b3805574d0de4805 SHA512: 93c445a6403b98629140061d6e00fe8350b341243a9ab3f376a8d9b9c6d2912073c785e8083eb92c5fd3b41cd4ba8b7aaa1933e0fcb21072266c4880602d7253 Homepage: https://cran.r-project.org/package=ConfMatrix Description: CRAN Package 'ConfMatrix' (Confusion Matrix) Thematic quality indices are provided to facilitate the evaluation and quality control of geospatial data products (e.g. thematic maps, remote sensing classifications, etc.). The indices offered are based on the so-called confusion matrix. This matrix is constructed by comparing the assigned classes or attributes of a set of pairs of positions or objects in the product and the ground truth. In this package it is considered that the classes of the ground truth correspond to the columns and that the classes of the product to be valued correspond to the rows. The package offers two object classes with their methods: 'ConfMatrix' (Confusion matrix) and 'QCCS' (Quality Control Columns Set). The 'ConfMatrix' class of objects offers more than 20 methods based on the confusion matrix. The 'QCCS' class of objects offers a different perspective in which the ground truth is considered to allow the values of the column marginals to be fixed, see Ariza López et al. (2019) and Canran Liu et al. (2007) for more details. The package was created with 'R6'. Package: r-cran-conformalbayes Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cli, r-cran-rstantools, r-cran-loo, r-cran-matrixstats Suggests: r-cran-rstanarm, r-cran-brms, r-cran-testthat, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-conformalbayes_0.1.2-1.ca2004.1_all.deb Size: 127784 MD5sum: a57ed12cf8f7950ceb7db5bb1b64a292 SHA1: a82d3ab0148b098c9a0792ec1f4afa5a84d1d897 SHA256: d4b55596abbb954b736bd618ab6b4589ce5f333350e25688c986933efae44b61 SHA512: 61956a5e878c79a81eb1a39e45ae22a94809a15543b25f72ad8d802cef06cf3c5b13e17a7e24724841dae232516d982f5548e1990b8aef7adccc7c9a20a7e465 Homepage: https://cran.r-project.org/package=conformalbayes Description: CRAN Package 'conformalbayes' (Jackknife(+) Predictive Intervals for Bayesian Models) Provides functions to construct finite-sample calibrated predictive intervals for Bayesian models, following the approach in Barber et al. (2021) . These intervals are calculated efficiently using importance sampling for the leave-one-out residuals. By default, the intervals will also reflect the relative uncertainty in the Bayesian model, using the locally-weighted conformal methods of Lei et al. (2018) . Package: r-cran-conformalclassification Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-randomforest, r-cran-foreach, r-cran-doparallel, r-cran-mlbench Filename: pool/dists/focal/main/r-cran-conformalclassification_1.0.0-1.ca2004.1_all.deb Size: 51004 MD5sum: b66faa9bd51eba68f363f1541c0e89e9 SHA1: dabf6fef68a37457a9a72f84f7720bbd1e111087 SHA256: e0d3a5f053c1b66ad69e1772eb26231f1f70556b119dab2c4331ba6fb6d1da0d SHA512: 66dd86c93498e4dddb060fdf2a60b857be7623d906d3f00351c4210eb4fd88d33c1cb677644f31ab6e29b3456fce550bbf9070e701272e39d15d445d12a55e8f Homepage: https://cran.r-project.org/package=conformalClassification Description: CRAN Package 'conformalClassification' (Transductive and Inductive Conformal Predictions forClassification Problems) Implementation of transductive conformal prediction (see Vovk, 2013, ) and inductive conformal prediction (see Balasubramanian et al., 2014, ISBN:9780124017153) for classification problems. Package: r-cran-conformalinference.fd Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fda, r-cran-future, r-cran-future.apply, r-cran-ggplot2, r-cran-ggnewscale, r-cran-ggpubr, r-cran-scales Suggests: r-cran-roahd, r-cran-pbapply Filename: pool/dists/focal/main/r-cran-conformalinference.fd_1.1.1-1.ca2004.1_all.deb Size: 188632 MD5sum: 40a8b4a9618975a8cfa65f1f5f09b173 SHA1: 64adeaaeaa1a8caa70531066cd25b2ff8161d712 SHA256: 2911201fae7c83b2ad03040540fa73ddc172804b0ff592c61d91498ad26a00a0 SHA512: bb6af03de29daaba7a390d7ae2a9417c81266de9e39fddfacf84edb1e9e8cd295fa2991725c6db86212cd42550567b37ea1200c69a51bf1d8d6b5d84d0277a6b Homepage: https://cran.r-project.org/package=conformalInference.fd Description: CRAN Package 'conformalInference.fd' (Tools for Conformal Inference for Regression in MultivariateFunctional Setting) It computes full conformal, split conformal and multi split conformal prediction regions when the response has functional nature. Moreover, the package also contain a plot function to visualize the output of the split conformal. To guarantee consistency, the package structure mimics the univariate 'conformalInference' package of professor Ryan Tibshirani. The main references for the code are: Diquigiovanni, Fontana, and Vantini (2021) , Diquigiovanni, Fontana, and Vantini (2021) , Solari, and Djordjilovic (2021) . Package: r-cran-conformalinference.multi Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-future, r-cran-future.apply, r-cran-ggplot2, r-cran-glmnet, r-cran-gridextra, r-cran-hrbrthemes Suggests: r-cran-mvtnorm, r-cran-pbapply Filename: pool/dists/focal/main/r-cran-conformalinference.multi_1.1.1-1.ca2004.1_all.deb Size: 97672 MD5sum: e83340219c239c6070fd161161f4bad2 SHA1: 38738ad799929f51ee76caaad17516ca25952c98 SHA256: ea254df52a63f44bc91d018e958dc3636fcdefaec77a56498b9c05a11af0238f SHA512: af3e0844d67ecf3d1f7e100e43acbd1ece8f89efa4329e365746ba205c13416c3e53873da0eb5435666ab17fb263f3bf4f3c394ee8dc4cf59ee1646552ec2317 Homepage: https://cran.r-project.org/package=conformalInference.multi Description: CRAN Package 'conformalInference.multi' (Conformal Inference Tools for Regression with MultivariateResponse) It computes full conformal, split conformal and multi split conformal prediction regions when the response variable is multivariate (i.e. dimension is greater than one). Moreover, the package also contain plot functions to visualize the output of the full and split conformal functions. To guarantee consistency, the package structure mimics the univariate 'conformalInference' package of professor Ryan Tibshirani. The main references for the code are: Lei et al. (2016) , Diquigiovanni, Fontana, and Vantini (2021) , Diquigiovanni, Fontana, and Vantini (2021) , Solari, and Djordjilovic (2021) . Package: r-cran-conformalpvalue Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-e1071 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-conformalpvalue_0.1.0-1.ca2004.1_all.deb Size: 13820 MD5sum: f12514fafa94c762831f6c412a918dc8 SHA1: e9349d0a3b76d46f9e2203137123a710eb2d5bd7 SHA256: 134868afaefbf6eba3984a9fa9e5e9d2d90361ba169eda9290264fdb326b7791 SHA512: bceed9ed84c83974b64f0bd6e214cfe7ae2a59936da5e2ec3bb99d105c849d383edf2b1e22bcfbaaaab6c12bfcf534fd28d9d44347ea45767fd33a08d868c21a Homepage: https://cran.r-project.org/package=conformalpvalue Description: CRAN Package 'conformalpvalue' (Computes Conformal p-Values) Computes marginal conformal p-values using conformal prediction in binary classification tasks. Conformal prediction is a framework that augments machine learning algorithms with a measure of uncertainty, in the form of prediction regions that attain a user-specified level of confidence. This package specifically focuses on providing conformal p-values that can be used to assess the confidence of the classification predictions. For more details, see Tyagi and Guo (2023) . Package: r-cran-conformalsmallest Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-mvtnorm, r-cran-mass, r-cran-quantregforest Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-repr Filename: pool/dists/focal/main/r-cran-conformalsmallest_1.0-1.ca2004.1_all.deb Size: 836312 MD5sum: f0e9661e0e4cd100c371d092fe0cdc9a SHA1: 4a0ede7f1f67519349da283dacacbe926cda54e4 SHA256: 65e7b9ff4337762e9e4f8f7116ba56c92a1db14741d09c0ddebafe08abe8630b SHA512: 4bf1026715cff3da502d55954dd1e72ffb2a80b212002d4e4aad3d8d4280c57b34f32501ac97d4dbc54d0b8f9c98b3e66233c8cbe4eb43b5d56ba839e3bf7b5f Homepage: https://cran.r-project.org/package=ConformalSmallest Description: CRAN Package 'ConformalSmallest' (Efficient Tuning-Free Conformal Prediction) An implementation of efficiency first conformal prediction (EFCP) and validity first conformal prediction (VFCP) that demonstrates both validity (coverage guarantee) and efficiency (width guarantee). To learn how to use it, check the vignettes for a quick tutorial. The package is based on the work by Yang Y., Kuchibhotla A.,(2021) . 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Diagnostic 1 assesses measured confounding/selection-bias, diagnostic 2 assesses exposure-covariate feedback, and diagnostic 3 assesses residual confounding/selection-bias after inverse probability weighting or propensity score stratification. All diagnostics appropriately account for exposure history, can be adapted to assess a particular depth of covariate history, and can be implemented in right-censored data. Balance assessments can be obtained for all times, selected-times, or averaged across person-time. The balance measures are reported as tables or plots. These diagnostics can be applied to the study of multivariate exposures including time-varying exposures, direct effects, interaction, and censoring. Package: r-cran-confreq Architecture: all Version: 1.6.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gmp, r-cran-vcd Filename: pool/dists/focal/main/r-cran-confreq_1.6.1-1-1.ca2004.1_all.deb Size: 161188 MD5sum: 0aadff89dca7de20752c9d883217e713 SHA1: d2b67a9bfaad1086fd2270aec708240147b54f85 SHA256: d0dfb3f8c1e36f62d253401358bffbbdda330cf2ea5f086c6e2f589b5776aafb SHA512: b35b25be2db073e7dd159dd8f46347b0e7f2d8bf953804087171311a7dee4b78f5d8deb3016ed521851a3665b4aa4a8e12058d38e700017a6a7d25082badab7a Homepage: https://cran.r-project.org/package=confreq Description: CRAN Package 'confreq' (Configural Frequencies Analysis Using Log-Linear Modeling) Offers several functions for Configural Frequencies Analysis (CFA), which is a useful statistical tool for the analysis of multiway contingency tables. CFA was introduced by G. A. Lienert as 'Konfigurations Frequenz Analyse - KFA'. Lienert, G. A. (1971). Die Konfigurationsfrequenzanalyse: I. Ein neuer Weg zu Typen und Syndromen. Zeitschrift für Klinische Psychologie und Psychotherapie, 19(2), 99–115. Package: r-cran-confsam Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 360 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-penalized, r-cran-survival, r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-confsam_0.2-1.ca2004.1_all.deb Size: 304548 MD5sum: b99dcf16b879a81056e5a5c592adc3e1 SHA1: fb759bc69a5ef9663ff4d2bffc093a7acf50617f SHA256: d528de4c1134280a62415c7f0a5b73ef8eb0c613d1b9dc87da444e3bf53ce985 SHA512: 2dc8ac17c373e4f7ebf24debbed6ab98709d7e7fff4d46159a71c35501108bff7b174e05ca2110ba76ceef16042936df0ca1f3f4e279825ecdf72348794426bf Homepage: https://cran.r-project.org/package=confSAM Description: CRAN Package 'confSAM' (Estimates and Bounds for the False Discovery Proportion, byPermutation) For multiple testing. Computes estimates and confidence bounds for the False Discovery Proportion (FDP), the fraction of false positives among all rejected hypotheses. The methods in the package use permutations of the data. Doing so, they take into account the dependence structure in the data. 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Package: r-cran-confzic Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cmna, r-cran-ltsa, r-cran-mumin, r-cran-mvtnorm, r-cran-tidytable, r-cran-psych Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-confzic_1.0.1-1.ca2004.1_all.deb Size: 66832 MD5sum: 04b6b8f760753b155d69823c15d38bfb SHA1: 64249f7ca2860dc18d3e3a5e013080e89142fea1 SHA256: 5d4b64190e76e9fc3de6980d95b54a7273bad5eabada4abc0c09bd05bc37dfc3 SHA512: c10049ddbb546964f96ab174906097d5000058a8e05a179222b60e0978a8bbdb1fe261e33c075ad4f7f260889c1ddbe3fd4f88bf232d59cb65aba58c3b3d0af1 Homepage: https://cran.r-project.org/package=ConfZIC Description: CRAN Package 'ConfZIC' (Confidence Envelopes for Model Selection Criteria Based onMinimum ZIC) Narrow down the number of models to look at in model selection using the confidence envelopes based on the minimum ZIC (Generalized Information Criteria) values for regression and time series data. 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'ConMET' is an R-shiny application that facilitates performing and evaluating confirmatory factor analyses (CFAs) and is useful for running and reporting typical measurement models in applied psychology and management journals. 'ConMET' automatically creates, compares and summarizes CFA models. Most common fit indices (E.g., CFI and SRMR) are put in an overview table. ConMET also allows to test for common method variance. The application is particularly useful for teaching and instruction of measurement issues in survey research. The application uses the 'lavaan' package (Rosseel, 2012) to run CFAs. Package: r-cran-connect Architecture: all Version: 0.7.27-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-qgraph Suggests: r-cran-covr, r-cran-lintr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-connect_0.7.27-1.ca2004.1_all.deb Size: 92888 MD5sum: a178f7a0846414068241b952cef75d39 SHA1: caa62c024a1e1d8863fbc016405942a48a35cdcf SHA256: 9764846d3e2f7e48f91d6faf6f93657718fd844a5d745cc615b0d6a2fba62367 SHA512: beb6c7a57e8d986341391fd819629411a76c3591f36998560564fec831de683e957bf0ea5b58c71d0d89ca41bcded7d4c0144899dd0c67001c6ae7702fa69d99 Homepage: https://cran.r-project.org/package=ConNEcT Description: CRAN Package 'ConNEcT' (Contingency Measure-Based Networks for Binary Time Series) The ConNEcT approach investigates the pairwise association strength of binary time series by calculating contingency measures and depicts the results in a network. The package includes features to explore and visualize the data. To calculate the pairwise concurrent or temporal sequenced relationship between the variables, the package provides seven contingency measures (proportion of agreement, classical & corrected Jaccard, Cohen's kappa, phi correlation coefficient, odds ratio, and log odds ratio), however, others can easily be implemented. The package also includes non-parametric significance tests, that can be applied to test whether the contingency value quantifying the relationship between the variables is significantly higher than chance level. Most importantly this test accounts for auto-dependence and relative frequency.See Bodner et al.(2021) .Finally, a network can be drawn. Variables depicted the nodes of the network, with the node size adapted to the prevalence. The association strength between the variables defines the undirected (concurrent) or directed (temporal sequenced) links between the nodes. The results of the non-parametric significance test can be included by depicting either all links or only the significant ones. Tutorial see Bodner et al.(2021) . 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API documentation varies by 'Posit Connect' installation and version, but the latest documentation is also hosted publicly at . Package: r-cran-connectcreds Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-httr2, r-cran-rlang Suggests: r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-connectcreds_0.1.0-1.ca2004.1_all.deb Size: 52852 MD5sum: 48c6c9e29754f2f6fca3fc6672223354 SHA1: 2afbddb2ba9ab60cf48fe30d63d0aad363f0c97e SHA256: 68c8ea0d3c7b6408f75e6d1333f8cd71f814fb5334d2a082d94f9dee503f6a75 SHA512: e91e7537cef7fea554bb6cb8e391a351be1a6a93b37be4a6ceb0a832645ab8b39e7b4dd175c2da83d2c6bac5b0a0167c827254af4342f7b55dfd0a39055a24fe Homepage: https://cran.r-project.org/package=connectcreds Description: CRAN Package 'connectcreds' (Manage 'OAuth' Credentials from 'Posit Connect') A toolkit for making use of credentials mediated by 'Posit Connect'. It handles the details of communicating with the Connect API correctly, 'OAuth' token caching, and refresh behaviour. Package: r-cran-connected Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 398 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice, r-cran-lfe, r-cran-reshape2 Suggests: r-cran-agridat, r-cran-dplyr, r-cran-janitor, r-cran-knitr, r-cran-lme4, r-cran-lucid, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-connected_1.1-1.ca2004.1_all.deb Size: 201696 MD5sum: d5916eeb2c3922045a711286a54f1f62 SHA1: 6b0e7791d53a0f9d2ff9763c1297671b98d2620b SHA256: 836ea06c13b9ee45b8a2ce8ca4b2a8465acbcbe309535cfc248914cea5fec940 SHA512: a5c13c2fce4ca8734ebf6819e39c1f68ced5f3e2c404777ab730db5eff7bf8047966cac64d6f96e775b1d1768586831aabeac917ca13d54821d7341c24a16178 Homepage: https://cran.r-project.org/package=connected Description: CRAN Package 'connected' (Visualize and Improve Connectedness of Factors in Tables) Visualize the connectedness of factors in two-way tables. 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Besides, the time domain connectedness approaches, this package further allows to estimate the frequency connectedness approach, the joint spillover index and the extended joint connectedness approach. In addition, all connectedness frameworks can be based upon orthogonalized and generalized VAR, QVAR, LASSO VAR, Ridge VAR, Elastic Net VAR and TVP-VAR models. Furthermore, the package includes the conditional, decomposed and partial connectedness measures as well as the pairwise connectedness index, influence index and corrected total connectedness index. Finally, a battery of datasets are available allowing to replicate a variety of connectedness papers. Package: r-cran-connections Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1021 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dbi, r-cran-pins, r-cran-dplyr, r-cran-dbplyr, r-cran-uuid, r-cran-rscontract Suggests: r-cran-rsqlite, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-connections_0.2.0-1.ca2004.1_all.deb Size: 913392 MD5sum: dec0f7847ed96965dc3446b20ab16b35 SHA1: 1aae8b7c5cb8a0686a82e8ccd0bc771f7a490216 SHA256: 5d4ed3b16e9ba3c9f89ee70ca9604739b5246df8b7dd26444d28112b833cdbed SHA512: e811e539631c7afd74061963d6f0acbfea457619c48ea3689c0e335e954215950e7883efdec155cdd74f61cfb1764d132e1d9b7d8ec945f5fb1294a7a927d16d Homepage: https://cran.r-project.org/package=connections Description: CRAN Package 'connections' (Integrates with the 'RStudio' Connections Pane and 'pins') Enables 'DBI' compliant packages to integrate with the 'RStudio' connections pane, and the 'pins' package. It automates the display of schemata, tables, views, as well as the preview of the table's top 1000 records. 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Designed for clinical research, 'connector' streamlines access to 'ADAM', 'SDTM' for example. It helps to deal with multiple data formats through a standardized API and centralized configuration. 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The components, Card, Grid, Table, Search, and Filter can be used to produce a showcase page or gallery contained within a static or interactive R Markdown page. Package: r-cran-connmattools Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 302 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-igraph, r-cran-mcmc Filename: pool/dists/focal/main/r-cran-connmattools_0.3.5-1.ca2004.1_all.deb Size: 263512 MD5sum: 5286e8d861e41f105906bc25ba68bc2b SHA1: 2201cc25ad77977cce66ad05cfb7b07053643d83 SHA256: 0cef541e69275fabf9c8664848402f92a6cf9982cfea9f5f2b5d644b908c82cc SHA512: 8daeb78c054a25de1af9bb4bfe73a580b0c9ff85824097f834383d897ff993f5d57493d8353dcd5f2b3270716d8af83d7a15ad0818e234dcc5d067c1f48f8b78 Homepage: https://cran.r-project.org/package=ConnMatTools Description: CRAN Package 'ConnMatTools' (Tools for Working with Connectivity Data) Collects several different methods for analyzing and working with connectivity data in R. Though primarily oriented towards marine larval dispersal, many of the methods are general and useful for terrestrial systems as well. Package: r-cran-conogive Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-psych, r-cran-mvtnorm, r-cran-checkmate, r-cran-assertthat Suggests: r-cran-testthat, r-cran-psychtools, r-cran-covr Filename: pool/dists/focal/main/r-cran-conogive_1.0.0-1.ca2004.1_all.deb Size: 114604 MD5sum: 1c77b12bc0904a459c933425b54e2afb SHA1: a18d1480c0ac04d3979cb72912b34145170349fb SHA256: 18925471a17725991a83d979dd54c3426ac0186e01c93454e05c6e1db0fb34c0 SHA512: 6938c1fd092970f178e969d67f453b2568a67b26bac4694383b538058694b6e0915395c0490e27329fbbc76cd8a7428581e7fba005fdc4bd68de6940f3970677 Homepage: https://cran.r-project.org/package=conogive Description: CRAN Package 'conogive' (Congeneric Normal-Ogive Model) The congeneric normal-ogive model is a popular model for psychometric data (McDonald, R. P. (1997) ). This model estimates the model, calculates theoretical and concrete reliability coefficients, and predicts the latent variable of the model. This is the companion package to Moss (2020) . Package: r-cran-conover.test Architecture: all Version: 1.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-conover.test_1.1.6-1.ca2004.1_all.deb Size: 55884 MD5sum: ddbf8b8f227af36fac69ca86b5139a24 SHA1: f4520d8a261956ff13004756f7eaa7158322284e SHA256: d55ff3a8bd9fb57b8e1ff42d23252e85cc67011ef045f32aa4e401a17a054279 SHA512: 09e575904522758dc3b167ff741e139d3e391b795932cc489a075035b10881e1b7a51049927ba3dc71245663df6803f9adb2c7272b9758bcbe1cd503f3c1edb4 Homepage: https://cran.r-project.org/package=conover.test Description: CRAN Package 'conover.test' (Conover-Iman Test of Multiple Comparisons Using Rank Sums) Computes the Conover-Iman test (1979) for 0th-order stochastic dominance and reports the results among multiple pairwise comparisons after a Kruskal-Wallis omnibus test for i0th-order stochastic dominance among k groups (Kruskal and Wallis, 1952). conover.test makes k(k-1)/2 multiple pairwise comparisons based on Conover-Iman t-test-statistic of the rank differences. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. Like the rank-sum test, if the data can be assumed to be continuous, and the distributions are assumed identical except for a difference in location, Conover-Iman test may be understood as a test for median difference and for mean difference. conover.test accounts for tied ranks. The Conover-Iman test is strictly valid if and only if the corresponding Kruskal-Wallis null hypothesis is rejected. 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Consensus clustering is an extension to clustering algorithms that aims to construct a robust result from those clustering features that are invariant under different sources of variation. For the reference, please cite the following paper: Yousefi, Melograna, et. al., (2023) . 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However, the inherent problems encountered when analyzing single tables are amplified with the generation of multi-block datasets, and finding the relationships between data layers of increasing complexity constitutes a challenging task. For that purpose, a generic methodology is proposed by combining the strength of established data analysis strategies, i.e. multi-block approaches and the Orthogonal Partial Least Squares (OPLS) framework to provide an efficient tool for the fusion of data obtained from multiple sources. The package enables quick and efficient implementation of the consensus OPLS model for any horizontal multi-block data structures (observation-based matching). Moreover, it offers an interesting range of metrics and graphics to help to determine the optimal number of components and check the validity of the model through permutation tests. Interpretation tools include score and loading plots, Variable Importance in Projection (VIP), functionality predict for SHAP computing, and performance coefficients such as R2, Q2, and DQ2 coefficients. J. Boccard and D.N. Rutledge (2013) . 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Package: r-cran-conspline Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coneproj Filename: pool/dists/focal/main/r-cran-conspline_1.2-1.ca2004.1_all.deb Size: 57932 MD5sum: 2c1f2f0a34b0307585f3d4ccaf5bcbc0 SHA1: b047c5dcfbc08da899a03cba910fa8df073321fa SHA256: dd6b06d20bd2381eedc4042262389edc67feac2aec83607c3d3b744f544bc9a3 SHA512: 9e9510e45a9241e2abd837428f3ae798d763229384508ece1ecf255de04c570b46e0da1188e0179fe812fcaae1967a839d3cba4d33aae9008c5eadfcf0f22273 Homepage: https://cran.r-project.org/package=ConSpline Description: CRAN Package 'ConSpline' (Partial Linear Least-Squares Regression using ConstrainedSplines) Given response y, continuous predictor x, and covariate matrix, the relationship between E(y) and x is estimated with a shape constrained regression spline. Function outputs fits and various types of inference. Package: r-cran-consrank Architecture: all Version: 2.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rgl, r-cran-rlist, r-cran-proxy, r-cran-gtools, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-consrank_2.1.5-1.ca2004.1_all.deb Size: 230436 MD5sum: be5ba6e7c294476082b2af97d1962a71 SHA1: 374c16cffd3bb0fe29f255df6d30549420e84b78 SHA256: 56e2236874e17a9b4f8b4bf09e9e896ecea1eb2e06a2fcd71bef58e6bbd1f7cb SHA512: dff428c0fdbd55a5b92e592ba80c0cee26ef18b3b9be30e0e9daefc6d0e0bf7836f9817ee8cad344c051a07edd6e1ed9b65ba07e8f0b9a0e6ec8d81c36718cbc Homepage: https://cran.r-project.org/package=ConsRank Description: CRAN Package 'ConsRank' (Compute the Median Ranking(s) According to the Kemeny'sAxiomatic Approach) Compute the median ranking according to the Kemeny's axiomatic approach. Rankings can or cannot contain ties, rankings can be both complete or incomplete. The package contains both branch-and-bound algorithms and heuristic solutions recently proposed. The searching space of the solution can either be restricted to the universe of the permutations or unrestricted to all possible ties. The package also provide some useful utilities for deal with preference rankings, including both element-weight Kemeny distance and correlation coefficient. This release declare as deprecated some functions that are still in the package for compatibility. Next release will not contains these functions. Please type '?ConsRank-deprecated' Essential references: Emond, E.J., and Mason, D.W. (2002) ; D'Ambrosio, A., Amodio, S., and Iorio, C. (2015) ; Amodio, S., D'Ambrosio, A., and Siciliano R. (2016) ; D'Ambrosio, A., Mazzeo, G., Iorio, C., and Siciliano, R. (2017) ; Albano, A., and Plaia, A. (2021) . Package: r-cran-consrankclass Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-consrank, r-cran-janitor, r-cran-pracma, r-cran-rlist, r-cran-proxy, r-cran-smacof, r-cran-gtools Filename: pool/dists/focal/main/r-cran-consrankclass_1.0.2-1.ca2004.1_all.deb Size: 239876 MD5sum: 4f029192c2a201530a4c307c35eff1ae SHA1: 1623936ffaaceeaaca7db38e0e0082677b4d1ce1 SHA256: 0a82a9a6f8f3ada6d4ab52367a0d9e324d2d3fbe7fab726cc96673d22f79da2a SHA512: 8561c11b3c950baf57273247372587b4c1055a288d9ae63b786dafa95644e9be74d95a22c657a026677f5b0ddb3cdef458238b39fdd1037170b1bc8323871c85 Homepage: https://cran.r-project.org/package=ConsRankClass Description: CRAN Package 'ConsRankClass' (Classification and Clustering of Preference Rankings) Tree-based classification and soft-clustering method for preference rankings, with tools for external validation of fuzzy clustering, and Kemeny-equivalent augmented unfolding. It contains the recursive partitioning algorithm for preference rankings, non-parametric tree-based method for a matrix of preference rankings as a response variable. It contains also the distribution-free soft clustering method for preference rankings, namely the K-median cluster component analysis (CCA). The package depends on the 'ConsRank' R package. Options for validate the tree-based method are both test-set procedure and V-fold cross validation. The package contains the routines to compute the adjusted concordance index (a fuzzy version of the adjusted rand index) and the normalized degree of concordance (the corresponding fuzzy version of the rand index). The package also contains routines to perform the Kemeny-equivalent augmented unfolding. The mds endine is the function 'sacofSym' from the package 'smacof'. Essential references: D'Ambrosio, A., Vera, J.F., and Heiser, W.J. (2021) ; D'Ambrosio, A., Amodio, S., Iorio, C., Pandolfo, G., and Siciliano, R. (2021) ; D'Ambrosio, A., and Heiser, W.J. (2019) ; D'Ambrosio, A., and Heiser W.J. (2016) ; Hullermeier, E., Rifqi, M., Henzgen, S., and Senge, R. (2012) ; Marden, J.J. . Package: r-cran-consrq Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quantreg, r-cran-rfast Suggests: r-cran-rfast2, r-cran-cols Filename: pool/dists/focal/main/r-cran-consrq_1.0-1.ca2004.1_all.deb Size: 30260 MD5sum: b92eb55ad862a7bf42c03649418856d0 SHA1: a1c18cacab586e622ca19578c448c7cb8a664589 SHA256: 921f335d28900dfe5d5b0044503c07c82350991c99ad9cfa8fb093795c5225e7 SHA512: a6c31025f317eeca4ad8a0be790216f32f9cd34658d2d4d36224b289511422bb35652dd60c3d94a8b957f233027b50c402a518f6399f84c3819e01246a57074e Homepage: https://cran.r-project.org/package=consrq Description: CRAN Package 'consrq' (Constrained Quantile Regression) Constrained quantile regression is performed. 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Package: r-cran-cooccur Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-gmp, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-cooccur_1.3-1.ca2004.1_all.deb Size: 87512 MD5sum: 50a352839183511d92c78c2dad50f6e2 SHA1: f4846ab746ec136a2ca42d70edfa0fcdfea8a7e8 SHA256: a03caeea82f5beee37cf0eccb425b6cb2bd905410086fc70f93e123443b8cdc3 SHA512: 52fff8eaea2b5935afa3e63dac01a7ce94d353e7a4692b18d9fde14c60e0138af1a994f998154ce3091885c24a74e04f007ac45e498ec0074005a944af93dc1f Homepage: https://cran.r-project.org/package=cooccur Description: CRAN Package 'cooccur' (Probabilistic Species Co-Occurrence Analysis in R) This R package applies the probabilistic model of species co-occurrence (Veech 2013) to a set of species distributed among a set of survey or sampling sites. The algorithm calculates the observed and expected frequencies of co-occurrence between each pair of species. The expected frequency is based on the distribution of each species being random and independent of the other species. The analysis returns the probabilities that a more extreme (either low or high) value of co-occurrence could have been obtained by chance. The package also includes functions for visualizing species co-occurrence results and preparing data for downstream analyses. Package: r-cran-cooccurrenceaffinity Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-biasedurn, r-cran-cowplot, r-cran-ggplot2, r-cran-plyr, r-cran-reshape Filename: pool/dists/focal/main/r-cran-cooccurrenceaffinity_1.0.2-1.ca2004.1_all.deb Size: 133664 MD5sum: 5dc1b7661d63c4455773deb498299a71 SHA1: f550ab2764ceb4f54854951f1feca32551aba749 SHA256: 2e0b73a2055449d2dbc458e9b23e97e8dcee77b7e933a05d639cc5a2895508f4 SHA512: 5f4aacb7976b8a61d0523905169dec5982e4a7b6157c87dae0f457144755b605d320041bae038c32506d808a0ec86a7690a7a41c6026f9711ae30f4a886a2836 Homepage: https://cran.r-project.org/package=CooccurrenceAffinity Description: CRAN Package 'CooccurrenceAffinity' (Affinity in Co-Occurrence Data) Computes a novel metric of affinity between two entities based on their co-occurrence (using binary presence/absence data). The metric and its MLE, alpha hat, were advanced in Mainali, Slud, et al, 2021 . Various types of confidence intervals and median interval were developed in Mainali and Slud, 2022 . The `finches` dataset is now bundled internally (no longer pulled via the cooccur package, which has been dropped). 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Cookies allow websites to persist information about the user and their use of the website. Here we provide tools for working with cookies in 'shiny' apps, in part by wrapping the 'js-cookie' JavaScript library . Package: r-cran-coopgame Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 984 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-geometry, r-cran-rcdd, r-cran-gtools Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rgl Filename: pool/dists/focal/main/r-cran-coopgame_0.2.2-1.ca2004.1_all.deb Size: 882172 MD5sum: bfe647648e9d6463e36aa7640b8ec3bf SHA1: 0bfe084c3bdc9cfe6713d4d69a85ee6310312666 SHA256: 26f26fb88a95d5d3b75c0a004e4beb6dc48a287f2d08d258c67c9d99ee6317c2 SHA512: e1b7b437e2f83a2d517a232785fdc0a4995830b29afe18ae3bdb09991237360e1e5e7be4def1cac133043b8fb98d15078afc74cb0434408ee78cd05691dc611d Homepage: https://cran.r-project.org/package=CoopGame Description: CRAN Package 'CoopGame' (Important Concepts of Cooperative Game Theory) The theory of cooperative games with transferable utility offers useful insights into the way parties can share gains from cooperation and secure sustainable agreements, see e.g. one of the books by Chakravarty, Mitra and Sarkar (2015, ISBN:978-1107058798) or by Driessen (1988, ISBN:978-9027727299) for more details. A comprehensive set of tools for cooperative game theory with transferable utility is provided. Users can create special families of cooperative games, like e.g. bankruptcy games, cost sharing games and weighted voting games. There are functions to check various game properties and to compute five different set-valued solution concepts for cooperative games. A large number of point-valued solution concepts is available reflecting the diverse application areas of cooperative game theory. Some of these point-valued solution concepts can be used to analyze weighted voting games and measure the influence of individual voters within a voting body. There are routines for visualizing both set-valued and point-valued solutions in the case of three or four players. Package: r-cran-coopproductgame Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolveapi, r-cran-ggplot2, r-cran-dplyr, r-cran-kappalab, r-cran-gtools Filename: pool/dists/focal/main/r-cran-coopproductgame_2.0-1.ca2004.1_all.deb Size: 93812 MD5sum: 1d74c8222607fe9da6619452f1373b1b SHA1: 3f40e2b4cd5fb3a28a7b4dbd7456914c21de200f SHA256: 827caa33f7de6376360e4d8fcb23a2a76807cf28674255a47bff356d42a0d996 SHA512: 94de61240f11bb03ad2338715ca5b2ad041d9bcd695a6ee261fcf2f9671d6a8fc262c049424d7a4c3dde7d794307d4792b48f1396bf8f46cfe05f9eb44b7d08b Homepage: https://cran.r-project.org/package=coopProductGame Description: CRAN Package 'coopProductGame' (Cooperative Aspects of Linear Production Programming Problems) Computes cooperative games and allocation rules associated with linear production programming problems. Package: r-cran-cooptrees Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-optrees, r-cran-gtools Filename: pool/dists/focal/main/r-cran-cooptrees_1.0-1.ca2004.1_all.deb Size: 102728 MD5sum: 51bcbb5e4710d932b1d4f75b372230c2 SHA1: 3e81d9973937f5134f581be513bce0353774ab72 SHA256: a7eab23e6539c36ba4419a8956adb046994cc0b1033023227967f4f6c06fcc96 SHA512: 5ebe213ebb3e4d943fbdefea0957ab279215aaad9a7344794f607e9f656696704682603da8300f9787ef505270d11a409f5bf9430f5173a7dc5c4faa4bf84ad7 Homepage: https://cran.r-project.org/package=cooptrees Description: CRAN Package 'cooptrees' (Cooperative aspects of optimal trees in weighted graphs) Computes several cooperative games and allocation rules associated with minimum cost spanning tree problems and minimum cost arborescence problems. Package: r-cran-coordinatecleaner Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2686 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-geosphere, r-cran-ggplot2, r-cran-rgbif, r-cran-rnaturalearth, r-cran-terra, r-cran-tidyselect Suggests: r-cran-countrycode, r-cran-covr, r-cran-knitr, r-cran-magrittr, r-cran-maps, r-cran-rmarkdown, r-cran-rnaturalearthdata, r-cran-sf, r-cran-testthat, r-cran-viridis Filename: pool/dists/focal/main/r-cran-coordinatecleaner_3.0.1-1.ca2004.1_all.deb Size: 2421044 MD5sum: 4e7466770ecb760f73f380d5d2a91599 SHA1: 2da1fa01d70d36bddd86df2339d19759ae48e8ba SHA256: 7e7e24cad1e691e63a63584c3eb9116a93c3945d6f7a0ec230eab82d08158899 SHA512: 8cde0ef96db3ea3f9800aaace51bd5e10cfc887d3e3db55a410013721dc3cf94a50700824b49278c0b947fdd474ba692918030207759981190b07ff1e751d1a3 Homepage: https://cran.r-project.org/package=CoordinateCleaner Description: CRAN Package 'CoordinateCleaner' (Automated Cleaning of Occurrence Records from BiologicalCollections) Automated flagging of common spatial and temporal errors in biological and paleontological collection data, for the use in conservation, ecology and paleontology. Includes automated tests to easily flag (and exclude) records assigned to country or province centroid, the open ocean, the headquarters of the Global Biodiversity Information Facility, urban areas or the location of biodiversity institutions (museums, zoos, botanical gardens, universities). Furthermore identifies per species outlier coordinates, zero coordinates, identical latitude/longitude and invalid coordinates. Also implements an algorithm to identify data sets with a significant proportion of rounded coordinates. Especially suited for large data sets. The reference for the methodology is: Zizka et al. (2019) . Package: r-cran-coortweet Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4200 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-tidytable, r-cran-rcppsimdjson, r-cran-lubridate, r-cran-igraph, r-cran-stringi Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-coortweet_2.1.2-1.ca2004.1_all.deb Size: 3762672 MD5sum: dbbe39f165eac47385a2ca2404684267 SHA1: efc6fcd94588a26deeb15e74be00f0a6c0e277d0 SHA256: 42ecb64b53004fca10e39e98cd1365fca198ace5ebe15333c3eda79c3f6766e2 SHA512: f5bd32ed7829e6c54c1d7cf7853920042dd68c1a99a3675c1a1a9d936b04340a147ce410c35d52b285ccbcc577cd65c58d01dea8738b3fa48da47a8efa0032d5 Homepage: https://cran.r-project.org/package=CooRTweet Description: CRAN Package 'CooRTweet' (Coordinated Networks Detection on Social Media) Detects a variety of coordinated actions on social media and outputs the network of coordinated users along with related information. Package: r-cran-copbasic Architecture: all Version: 2.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2302 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lmomco, r-cran-randtoolbox Suggests: r-cran-copula Filename: pool/dists/focal/main/r-cran-copbasic_2.2.8-1.ca2004.1_all.deb Size: 2051184 MD5sum: a948802447016b8228b8ddcef8cd7bae SHA1: fd117b2fe113ca6f0249ed3d0f00e85852474f81 SHA256: 554415e96c147ed2bb0d5cdc08ccdd6261466d40686127fa7c08ccc9eef306d2 SHA512: e5fb60c9ebdd1cdbdb17c75abffcb3c57d9069cf5ef48002b6ca833b963249dd7cfda60123bf66d5c1a8435285f1c725963a207ccc2f898efcaef38731c6ee53 Homepage: https://cran.r-project.org/package=copBasic Description: CRAN Package 'copBasic' (General Bivariate Copula Theory and Many Utility Functions) Extensive functions for bivariate copula (bicopula) computations and related operations for bicopula theory. The lower, upper, product, and select other bicopula are implemented along with operations including the diagonal, survival copula, dual of a copula, co-copula, and numerical bicopula density. Level sets, horizontal and vertical sections are supported. Numerical derivatives and inverses of a bicopula are provided through which simulation is implemented. Bicopula composition, convex combination, asymmetry extension, and products also are provided. Support extends to the Kendall Function as well as the Lmoments thereof. Kendall Tau, Spearman Rho and Footrule, Gini Gamma, Blomqvist Beta, Hoeffding Phi, Schweizer- Wolff Sigma, tail dependency, tail order, skewness, and bivariate Lmoments are implemented, and positive/negative quadrant dependency, left (right) increasing (decreasing) are available. Other features include Kullback-Leibler Divergence, Vuong Procedure, spectral measure, and Lcomoments for inference, maximum likelihood, and AIC, BIC, and RMSE for goodness-of-fit. Package: r-cran-copcor Architecture: all Version: 2024.7-31-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-kyotil Suggests: r-cran-runit, r-cran-r.rsp, r-cran-survival Filename: pool/dists/focal/main/r-cran-copcor_2024.7-31-1.ca2004.1_all.deb Size: 58244 MD5sum: dda34422ffb78b30d02a905203897748 SHA1: 40f0a68710a6f5bfa37ba990f9edcd0d1df03b97 SHA256: 237bfedb3ff7c535de3de2a221e777fdd22458e6d1cfd1bf88a2e8bcf2a0af6c SHA512: b1920eb32da71a3496d8e8096cffb98b23194dc02f72439e5db7967ee2b19e7d652e2c480c84b1b26ec2c8c3d31e1d000ae6112120bcf87dfd5b8393d562814c Homepage: https://cran.r-project.org/package=copcor Description: CRAN Package 'copcor' (Correlates of Protection and Correlates of Risk Functions) Correlates of protection (CoP) and correlates of risk (CoR) study the immune biomarkers associated with an infectious disease outcome, e.g. COVID or HIV-1 infection. This package contains shared functions for analyzing CoP and CoR, including bootstrapping procedures, competing risk estimation, and bootstrapping marginalized risks. Package: r-cran-copcts Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-copula, r-cran-msm, r-cran-copbasic Filename: pool/dists/focal/main/r-cran-copcts_1.0.0-1.ca2004.1_all.deb Size: 108520 MD5sum: 7788dbb99e7f3e6bc2d2148acb553d27 SHA1: 368b2877459d17c9e7d1695ee62502a8707c5a1c SHA256: 7c67d1e121e33d55b8f9459aa9f022253c5c711410f2436955b88453fee1f503 SHA512: a6f72842049a519d8f58610082cdb58add1b225401650c9c53849f1cb443f118c2239d9afc2de53808d55e084d28722624d90c7e928f4a5d52270ab8414d752a Homepage: https://cran.r-project.org/package=CopCTS Description: CRAN Package 'CopCTS' (Copula-Based Semiparametric Analysis for Time Series Data withDetection Limits) Semiparametric estimation for censored time series with lower detection limit. The latent response is a sequence of stationary process with Markov property of order one. Estimation of copula parameter(COPC) and Conditional quantile estimation are included for five available copula functions. Copula selection methods based on L2 distance from empirical copula function are also included. Package: r-cran-cope Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maps, r-cran-abind, r-cran-fields, r-cran-mass, r-cran-matrix, r-cran-mvtnorm, r-cran-nlme Filename: pool/dists/focal/main/r-cran-cope_0.2.3-1.ca2004.1_all.deb Size: 73568 MD5sum: 845533537ff0800999f5b0a930565fb7 SHA1: 987d0eca3acfd0e47074906867b2dbc126cab101 SHA256: 1c248ec6300e624f1ce8fef1fb98fce406b21732b04c1e20251e53c80ab26bb0 SHA512: cc32a9b146d53daf3df065cfd829ac4bf6b66e4b6f91b884f3a4e63c88f23cad8eb9722f95e20ffd83d574b709c001bc2dca428a7974320653ab8ed802f60bf4 Homepage: https://cran.r-project.org/package=cope Description: CRAN Package 'cope' (Coverage Probability Excursion (CoPE) Sets) Provides functions to compute and plot Coverage Probability Excursion (CoPE) sets for real valued functions on a 2-dimensional domain. CoPE sets are obtained from repeated noisy observations of the function on the entire domain. They are designed to bound the excursion set of the target function at a given level from above and below with a predefined probability. The target function can be a parameter in spatially-indexed linear regression. Support by NIH grant R01 CA157528 is gratefully acknowledged. Package: r-cran-copent Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-mnormt Filename: pool/dists/focal/main/r-cran-copent_0.5-1.ca2004.1_all.deb Size: 41376 MD5sum: f9c14d2c34b884147bdda2b66611f232 SHA1: 51d1119c1e1e497e979398778896b34811762435 SHA256: e930d584284f67727f51cdaee15f3044320c0fb8213b5b92bb7d1917ad5745fb SHA512: ab1c8d2d1c587b4d9fbecc2fcf9213a346bf2095bf8de7270172a7f400ef9022c4ea04c692ac204726fe4bb7478019886218b8f25717e511a8adf14580b92d22 Homepage: https://cran.r-project.org/package=copent Description: CRAN Package 'copent' (Estimating Copula Entropy and Transfer Entropy) The nonparametric methods for estimating copula entropy, transfer entropy, and the statistics for multivariate normality test and two-sample test are implemented. The methods for estimating transfer entropy and the statistics for multivariate normality test and two-sample test are based on the method for estimating copula entropy. The method for change point detection with copula entropy based two-sample test is also implemented. Please refer to Ma and Sun (2011) , Ma (2019) , Ma (2022) , Ma (2023) , and Ma (2024) for more information. Package: r-cran-copernicusdem Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7355 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glue, r-cran-sf, r-cran-doparallel, r-cran-foreach Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-data.table, r-cran-fitbitviz, r-cran-mapview, r-cran-terra Filename: pool/dists/focal/main/r-cran-copernicusdem_1.0.5-1.ca2004.1_all.deb Size: 2617712 MD5sum: a794468f1dd679cd4426c733aa0e9b11 SHA1: 2e4acb4142fcc5a6370e3c22cdfe2b8350245aa8 SHA256: 8b709dadfb77057a806bf00c083e236feda6247f22e0cfec74930d24bf428b61 SHA512: 4254ee51da026dcf18c9073f80efa8d07112feaa1d56a5db062079f9da3c33ee0881a8f924834f62995fd237ba081edbd7b925ba6122ec77d05872abc738caea Homepage: https://cran.r-project.org/package=CopernicusDEM Description: CRAN Package 'CopernicusDEM' (Copernicus Digital Elevation Models) Copernicus Digital Elevation Model datasets (DEM) of 90 and 30 meters resolution using the 'awscli' command line tool. The Copernicus (DEM) is included in the Registry of Open Data on 'AWS (Amazon Web Services)' and represents the surface of the Earth including buildings, infrastructure and vegetation. Package: r-cran-copernicusmarine Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1026 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-crayon, r-cran-dplyr, r-cran-httr2, r-cran-leaflet, r-cran-purrr, r-cran-rlang, r-cran-sf, r-cran-stringr, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-lifecycle, r-cran-ncmeta, r-cran-stars, r-cran-testthat Filename: pool/dists/focal/main/r-cran-copernicusmarine_0.2.5-1.ca2004.1_all.deb Size: 980072 MD5sum: d47c5f6a59a795a98076a2f0619b5d70 SHA1: e973945a6fe36b104164ef66c85e4abf64171c65 SHA256: a741223bad9ee945f4299412562cb74feaa4384dc8a306cc08e6a66fc7ecb7da SHA512: afb5145f84e5f58a64123b8099652cceb0c76f07246a22b8f3e6e12b92bc2ea3d0b44d4818e3dd5f58dbc83496131b475fec739f2e2aab4372d4758d370f8c9d Homepage: https://cran.r-project.org/package=CopernicusMarine Description: CRAN Package 'CopernicusMarine' (Search Download and Handle Data from Copernicus Marine ServiceInformation) Subset and download data from EU Copernicus Marine Service Information: . Import data on the oceans physical and biogeochemical state from Copernicus into R without the need of external software. Package: r-cran-coppecosenzar Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 332 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-coppecosenzar_0.1.3-1.ca2004.1_all.deb Size: 228152 MD5sum: 94dcbc66d3d634e54bc34ae6491559bd SHA1: b2f92f4bee7457dde3d40a0a8477dacade1e524f SHA256: 04c7ecd0bd039f1773b55549b8afb233308f9196b5206b431224237e86971aec SHA512: 8ebc88fbd9e330270767e25eb3e665553bf640e68e2d38318e7b2f80738548ffaf8920610d83cc889363e97bb6fdf488ed86ce722dcd132c44b50b5fafe40d1c Homepage: https://cran.r-project.org/package=coppeCosenzaR Description: CRAN Package 'coppeCosenzaR' (COPPE-Cosenza Fuzzy Hierarchy Model) The program implements the COPPE-Cosenza Fuzzy Hierarchy Model. The model was based on the evaluation of local alternatives, representing regional potentialities, so as to fulfill demands of economic projects. After defining demand profiles in terms of their technological coefficients, the degree of importance of factors is defined so as to represent the productive activity. The method can detect a surplus of supply without the restriction of the distance of classical algebra, defining a hierarchy of location alternatives. In COPPE-Cosenza Model, the distance between factors is measured in terms of the difference between grades of memberships of the same factors belonging to two or more sets under comparison. The required factors are classified under the following linguistic variables: Critical (CR); Conditioning (C); Little Conditioning (LC); and Irrelevant (I). And the alternatives can assume the following linguistic variables: Excellent (Ex), Good (G), Regular (R), Weak (W), Empty (Em), Zero (Z) and Inexistent (In). The model also provides flexibility, allowing different aggregation rules to be performed and defined by the Decision Maker. Such feature is considered in this package, allowing the user to define other aggregation matrices, since it considers the same linguistic variables mentioned. Package: r-cran-cops Architecture: all Version: 1.12-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 913 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cordillera, r-cran-smacofx, r-cran-smacof, r-cran-analogue, r-cran-cmaes, r-cran-crs, r-cran-dfoptim, r-cran-gensa, r-cran-minqa, r-cran-nlcoptim, r-cran-nloptr, r-cran-pso, r-cran-rgenoud, r-cran-rsolnp, r-cran-subplex Suggests: r-cran-r.rsp, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cops_1.12-1-1.ca2004.1_all.deb Size: 574508 MD5sum: 5c647a113fe4a5ea4ce7cd674ad40645 SHA1: 93ac9fb143895d4c36a794671e758ec56bc8ba30 SHA256: 77a2fac4ba6ee252ff3ee7841460a5b8111d5b5eaa477eebc51860c889c1e698 SHA512: c77deb02d02a0584ec38a2cda6f510e8f68f7d1d447fd856483e105c4bbd695f1d67b70a61253508ac0786906b0858c20e301d7684f689b55f9d0712336a9d40 Homepage: https://cran.r-project.org/package=cops Description: CRAN Package 'cops' (Cluster Optimized Proximity Scaling) Multidimensional scaling (MDS) methods that aim at pronouncing the clustered appearance of the configuration (Rusch, Mair & Hornik, 2021, ). They achieve this by transforming proximities/distances with explicit power functions and penalizing the fitting criterion with a clusteredness index, the OPTICS Cordillera (Rusch, Hornik & Mair, 2018, ). There are two variants: One for finding the configuration directly (COPS-C) with given explicit power transformations and implicit ratio, interval and non-metric optimal scaling transformations (Borg & Groenen, 2005, ISBN:978-0-387-28981-6), and one for using the augmented fitting criterion to find optimal hyperparameters for the explicit transformations (P-COPS). The package contains various functions, wrappers, methods and classes for fitting, plotting and displaying a large number of different MDS models (most of the functionality in smacofx) in the COPS framework. The package further contains a function for pattern search optimization, the ``Adaptive Luus-Jaakola Algorithm'' (Rusch, Mair & Hornik, 2021,) and a functions to calculate the phi-distances for count data or histograms. Package: r-cran-copsens Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3623 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-bioc-pcamethods, r-cran-cvxr, r-cran-mass, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-copsens_0.1.0-1.ca2004.1_all.deb Size: 3617080 MD5sum: 1cd708de164ccc6f8f52ae6f9e8d1efb SHA1: a56ad2dc6a638a558581ad6b2e3ba2cea1df6d22 SHA256: d196951a2080ff083c3dca07dee41141f937e26f85cbaf62274d3ec888cd6368 SHA512: a65e1af7b87db8f0c3070b40273c6782379f11c9fb8cc8196f6529c12467b5004ca5f8796336b1746e35fa04090dedbd214c63e618dac44fe00c8d6471292bfe Homepage: https://cran.r-project.org/package=CopSens Description: CRAN Package 'CopSens' (Copula-Based Sensitivity Analysis for Observational CausalInference) Implements the copula-based sensitivity analysis method, as discussed in Copula-based Sensitivity Analysis for Multi-Treatment Causal Inference with Unobserved Confounding , with Gaussian copula adopted in particular. Package: r-cran-copula.markov.survival Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-copula.markov.survival_1.0.0-1.ca2004.1_all.deb Size: 154700 MD5sum: 14d8676cdb0b1cea596c026c2123216c SHA1: 01dcf7a6d5cd740a08afa2aee348e8e2878c6d8b SHA256: d261a9f5ae0f3daeaf77f0ac4460b3ba554bd16b771e191bddd846c2bdf9b6be SHA512: 5fa3d6369342432240d2544a5b6ff9abf68c0e422d6b6b3628f8d42dd3e4c478349c514e0ef83248880f8ace3ce6927b230d53f9d3df0012d153a25861a043b5 Homepage: https://cran.r-project.org/package=Copula.Markov.survival Description: CRAN Package 'Copula.Markov.survival' (Copula Markov Model with Dependent Censoring) Perform likelihood estimation and corresponding analysis under the copula-based Markov chain model for serially dependent event times with a dependent terminal event. Available are statistical methods in Huang, Wang and Emura (2020, JJSD accepted). Package: r-cran-copula.markov Architecture: all Version: 2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 275 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-copula.markov_2.9-1.ca2004.1_all.deb Size: 235812 MD5sum: 964eab6edec5111c96e7ca7710343cb5 SHA1: 28eecae97556520a750e1222d44d425e9685da65 SHA256: 0735975eecd9d6e3d54161a3c9952b5cc3207cfa638ea9862b21f3dfbd908730 SHA512: 37de39590bb2fad29c34ee8a59be67acd705e0b25aa36749f6343f1691200a24f583291ccfe0d58e29d633a3a786581761d31fdfe46a36111cf487ebf8d812ee Homepage: https://cran.r-project.org/package=Copula.Markov Description: CRAN Package 'Copula.Markov' (Copula-Based Estimation and Statistical Process Control forSerially Correlated Time Series) Estimation and statistical process control are performed under copula-based time-series models. Available are statistical methods in Long and Emura (2014 JCSA), Emura et al. (2017 Commun Stat-Simul) , Huang and Emura (2021 Commun Stat-Simul) , Lin et al. (2021 Comm Stat-Simul) , Sun et al. (2020 JSS Series in Statistics), and Huang and Emura (2021, in revision). Package: r-cran-copula.surv Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-copula.surv_2.0-1.ca2004.1_all.deb Size: 174156 MD5sum: f3ecf6c12f20b23b2628aa63501dd297 SHA1: c5a8246a15563ba9ea46af60e01bf639ddd24278 SHA256: b109dba8a6d0f4add8a6db53bb6ff3ffaeb23f53f3cd4cd91929e52a8028a2de SHA512: 4e0f89ca9288db32be09b299dc519dfc8c613a53d1eb285334452159195d889bbb0925414556a917f0ec3dd96f707b3a036b5d03f3dcadd2a0ef71678f952ce1 Homepage: https://cran.r-project.org/package=Copula.surv Description: CRAN Package 'Copula.surv' (Analysis of Bivariate Survival Data Based on Copulas) Simulating bivariate survival data from copula models. Estimation of the association parameter in copula models. Two different ways to estimate the association parameter in copula models are implemented. A goodness-of-fit test for a given copula model is implemented. See Emura, Lin and Wang (2010) for details. Package: r-cran-copulaboost Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rvinecopulib Filename: pool/dists/focal/main/r-cran-copulaboost_0.1.0-1.ca2004.1_all.deb Size: 86008 MD5sum: b6eea8be64e93dfe36542a542850bda9 SHA1: 5e5ceaeac9e3f54313f594b025b42b2e91f585bd SHA256: b08e1ed01773056eafa53394ca31654a1d612dc6c8be0d911ef2442c0fe2aa93 SHA512: eb83566a4c6729c6aae99d2bd66f7510ae5affe98a950d31ad732d3c8ef1d38d9622504c23e9767d936ed355e0769919d171b0e6c5601dc3b4c8195f649e2b63 Homepage: https://cran.r-project.org/package=copulaboost Description: CRAN Package 'copulaboost' (Fitting Additive Copula Regression Models for Binary OutcomeRegression) Additive copula regression for regression problems with binary outcome via gradient boosting [Brant, Hobæk Haff (2022); ]. The fitting process includes a specialised model selection algorithm for each component, where each component is found (by greedy optimisation) among all the D-vines with only Gaussian pair-copulas of a fixed dimension, as specified by the user. When the variables and structure have been selected, the algorithm then re-fits the component where the pair-copula distributions can be different from Gaussian, if specified. Package: r-cran-copulacenr Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 759 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot, r-cran-caret, r-cran-copbasic, r-cran-copula, r-cran-corpcor, r-cran-flexsurv, r-cran-foreach, r-cran-icenreg, r-cran-magrittr, r-cran-plotly, r-cran-pracma, r-cran-survival, r-cran-vinecopula Filename: pool/dists/focal/main/r-cran-copulacenr_1.2.4-1.ca2004.1_all.deb Size: 719696 MD5sum: 7f8e81242f10353255df72a92b01ca4b SHA1: a1a85f0636b5712f9d1c552a15d2f4f8ba186c03 SHA256: d00a0cfe7cd9c57389c45473fb267300a10af58782fce8124f9de2285fd1cdc8 SHA512: 58338040d3a017ea7f92b0ee3d2d38d919a8cfb1c349a91285c6b51b9cc4903f13df8ddf286c4072e76eb941cb5b41c285bee0a6d71e3f859fbe56da1d6ec054 Homepage: https://cran.r-project.org/package=CopulaCenR Description: CRAN Package 'CopulaCenR' (Copula-Based Regression Models for Multivariate Censored Data) Copula-based regression models for multivariate censored data, including bivariate right-censored data, bivariate interval-censored data, and right/interval-censored semi-competing risks data. Currently supports Clayton, Gumbel, Frank, Joe, AMH and Copula2 copula models. For marginal models, it supports parametric (Weibull, Loglogistic, Gompertz) and semiparametric (Cox and transformation) models. Includes methods for convenient prediction and plotting. Also provides a bivariate time-to-event simulation function and an information ratio-based goodness-of-fit test for copula. Method details can be found in Sun et.al (2019) Lifetime Data Analysis, Sun et.al (2021) Biostatistics, Sun et.al (2022) Statistical Methods in Medical Research, Sun et.al (2022) Biometrics, and Sun et al. (2023+) JRSSC. Package: r-cran-copuladata Architecture: all Version: 0.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-copuladata_0.0-2-1.ca2004.1_all.deb Size: 53640 MD5sum: 5a96fc59cc74353366691d981d1ecf87 SHA1: b9423bce36ec067892da3745047c093eccaf2d11 SHA256: 707808f3564ec0ee1ad349a424cd0fe22ed82795974b2cc38872db6253162963 SHA512: 4e14e7c88025b4ce9f79897f7fe59700a23dbed67ed0c11054a7832267dcdaf885859f774d50f1a003c4901dfd8e3b4e9c1fbadb9ab3e14df37d3c86eeb5828a Homepage: https://cran.r-project.org/package=copulaData Description: CRAN Package 'copulaData' (Data Sets for Copula Modeling) Data sets used for copula modeling in addition to those in the R package 'copula'. These include a random subsample from the US National Education Longitudinal Study (NELS) of 1988 and nursing home data from Wisconsin. Package: r-cran-copuladta Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 782 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rstan, r-cran-ggplot2, r-cran-plyr, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-loo, r-cran-rmisc, r-cran-httr, r-cran-bayesplot, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-copuladta_1.0.1-1.ca2004.1_all.deb Size: 436116 MD5sum: 0829217008dbc3e37f622c370c012477 SHA1: 06994e77fd77f17a1dc7574ab44749f1bfa2717f SHA256: 75e227be16a7893e64d6db886dc03d18922c7673494631e6b41c543399d49ef5 SHA512: fa1b18780df6cf5a65d0a4ee19e28c93b02c84d44a8cd5fdc02141153aeb7c6d6c5d87c87817b2544eaf59173010ed8b7a854e30d56167626e8aeef397a957e6 Homepage: https://cran.r-project.org/package=CopulaDTA Description: CRAN Package 'CopulaDTA' (Copula Based Bivariate Beta-Binomial Model for Diagnostic TestAccuracy Studies) Modelling of sensitivity and specificity on their natural scale using copula based bivariate beta-binomial distribution to yield marginal mean sensitivity and specificity. The intrinsic negative correlation between sensitivity and specificity is modelled using a copula function. A forest plot can be obtained for categorical covariates or for the model with intercept only. Nyaga VN, Arbyn M, Aerts M (2017) . Package: r-cran-copulaedas Architecture: all Version: 1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 362 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-copula, r-cran-vines, r-cran-mvtnorm, r-cran-truncnorm Suggests: r-cran-cec2013 Filename: pool/dists/focal/main/r-cran-copulaedas_1.4.3-1.ca2004.1_all.deb Size: 273996 MD5sum: 4ad95a29db1b99644b74b9671326c229 SHA1: e288a5be3521c9136aa70124b052ddc76a14a984 SHA256: cd20ca5adacd101263e95b85bc8c6ea7955c7ed98b542dcef52cf4ddfeaea454 SHA512: d0298199eb7496c4b80c634fc99ecf35ea689cdf0d7563173461b0f462e3264d4079396ae357b0db96bb02243a6643458fc70b60f16ced8fcd61ecb2860654d9 Homepage: https://cran.r-project.org/package=copulaedas Description: CRAN Package 'copulaedas' (Estimation of Distribution Algorithms Based on Copulas) Provides a platform where EDAs (estimation of distribution algorithms) based on copulas can be implemented and studied. The package offers complete implementations of various EDAs based on copulas and vines, a group of well-known optimization problems, and utility functions to study the performance of the algorithms. Newly developed EDAs can be easily integrated into the package by extending an S4 class with generic functions for their main components. Package: r-cran-copulareg Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rvinecopulib Filename: pool/dists/focal/main/r-cran-copulareg_0.1.0-1.ca2004.1_all.deb Size: 40796 MD5sum: bd1301fb0d3bf0067ce895e9777522fd SHA1: b93224cdf7b2bdf548a54ecdb22a42f68ba5220e SHA256: 25fc6ee93b38edfd0c08960f6a1ec4eb3a2cb23d1afb40279f72408fc47026d9 SHA512: 5e3f8609f838702407f530037886f3fe5c10eda48055a7102a924ac818e5e20055d5260211395b8785c59d6ecb69c30b9a26613fa5c90d540481db506789d7ba Homepage: https://cran.r-project.org/package=copulareg Description: CRAN Package 'copulareg' (Copula Regression) Fits multivariate models in an R-vine pair copula construction framework, in such a way that the conditional copula can be easily evaluated. In addition, the package implements functionality to compute or approximate the conditional expectation via the conditional copula. Package: r-cran-copularemada Architecture: all Version: 1.7.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1248 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-statmod, r-cran-matlab, r-cran-tensor, r-cran-mc2d Filename: pool/dists/focal/main/r-cran-copularemada_1.7.5-1.ca2004.1_all.deb Size: 565992 MD5sum: 1202260be45aeb0a73fe5f7cbd8809d7 SHA1: 27751c962776f0cf00ec874e9b228b072d494870 SHA256: 3e1cfbdf2d757f32b9a4d58b2bf60490fe2528d4d1ae30dd170c67e0b72fd1f6 SHA512: 0f83ceb3e3a0e5054b9572836c4aabed6ac75c96afebbd165cc96ecfdc3ddc79bc147e29d7a282727f0e12a3dc9627201033120bc307eaba5a53bc6da01dc344 Homepage: https://cran.r-project.org/package=CopulaREMADA Description: CRAN Package 'CopulaREMADA' (Copula Mixed Models for Multivariate Meta-Analysis of DiagnosticTest Accuracy Studies) The bivariate copula mixed model for meta-analysis of diagnostic test accuracy studies in Nikoloulopoulos (2015) and Nikoloulopoulos (2018) . The vine copula mixed model for meta-analysis of diagnostic test accuracy studies accounting for disease prevalence in Nikoloulopoulos (2017) and also accounting for non-evaluable subjects in Nikoloulopoulos (2020) . The hybrid vine copula mixed model for meta-analysis of diagnostic test accuracy case-control and cohort studies in Nikoloulopoulos (2018) . The D-vine copula mixed model for meta-analysis and comparison of two diagnostic tests in Nikoloulopoulos (2019) . The multinomial quadrivariate D-vine copula mixed model for meta-analysis of diagnostic tests with non-evaluable subjects in Nikoloulopoulos (2020) . The one-factor copula mixed model for joint meta-analysis of multiple diagnostic tests in Nikoloulopoulos (2022) . The multinomial six-variate 1-truncated D-vine copula mixed model for meta-analysis of two diagnostic tests accounting for within and between studies dependence in Nikoloulopoulos (2024) . The 1-truncated D-vine copula mixed models for meta-analysis of diagnostic accuracy studies without a gold standard (Nikoloulopoulos, 2025) . Package: r-cran-copulasim Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-mvtnorm, r-cran-rlang, r-cran-tibble Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-ggplot2, r-cran-testthat, r-cran-ball, r-cran-energy Filename: pool/dists/focal/main/r-cran-copulasim_0.0.1-1.ca2004.1_all.deb Size: 68440 MD5sum: 05d8f7df8d0bb682434a19d8e11a421d SHA1: 5c9b85428d028dcfa255a9802dbd4f61250d0d80 SHA256: bfde8f1a82546df1d811b028b9ede94a46f94f0de088b826cda8365773e4778d SHA512: 766976ee5e7b8953080e28457901566b48ab94c0af15a9034a9782ec2763a9ae2c989ab5c4f4df42a8331a47a558b9e1254a59c4eb40001629d6fc6469d94041 Homepage: https://cran.r-project.org/package=copulaSim Description: CRAN Package 'copulaSim' (Virtual Patient Simulation by Copula Invariance Property) To optimize clinical trial designs and data analysis methods consistently through trial simulation, we need to simulate multivariate mixed-type virtual patient data independent of designs and analysis methods under evaluation. To make the outcome of optimization more realistic, relevant empirical patient level data should be utilized when it’s available. However, a few problems arise in simulating trials based on small empirical data, where the underlying marginal distributions and their dependence structure cannot be understood or verified thoroughly due to the limited sample size. To resolve this issue, we use the copula invariance property, which can generate the joint distribution without making a strong parametric assumption. The function copula.sim can generate virtual patient data with optional data validation methods that are based on energy distance and ball divergence measurement. The function compare.copula.sim can conduct comparison of marginal mean and covariance of simulated data. To simulate patient-level data from a hypothetical treatment arm that would perform differently from the observed data, the function new.arm.copula.sim can be used to generate new multivariate data with the same dependence structure of the original data but with a shifted mean vector. Package: r-cran-copyseparator Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2263 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ape, r-cran-seqinr, r-cran-stringr, r-cran-kmer, r-bioc-decipher, r-cran-beepr, r-bioc-biostrings, r-cran-doparallel, r-cran-foreach Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-copyseparator_1.2.0-1.ca2004.1_all.deb Size: 153204 MD5sum: 9d591deb87d0edac0afe00091147aba4 SHA1: 043b32034890dca80d78c30fd89d4561bcceeb8a SHA256: c5cfd1ee251eb331460460cff3184bcef36680960c01ce6c32df239b4fa928f0 SHA512: af44949be97b711d6a3f363bcc0d2bbc57c9f55953a77a320db5954a3bebafe99c4930fdc5e670d81107faf067bcd1a1c0aafb56c4d7fc09a9e00f53df0179e6 Homepage: https://cran.r-project.org/package=copyseparator Description: CRAN Package 'copyseparator' (Assembling Long Gene Copies from Short Read Data) Assembles two or more gene copies from short-read Next-Generation Sequencing data. Works best when there are only two gene copies and read length >=250 base pairs. High and relatively even coverage are important. Package: r-cran-cor Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 440 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cor_0.2.0-1.ca2004.1_all.deb Size: 412372 MD5sum: a61a0deac6cfd18511ccce54b6b58c4e SHA1: f3c63981be78b35d18c1436b2c93ed9c0c527cdf SHA256: 85f88737c648c22c9af2eaa58c829cd4128d06402c3e63ae55d8ea127c43cdf3 SHA512: 9aac2e6ea5b520ada78c403b48d80a406d43148295c341c788704b26ddaa5b472abe4d346bc74e881a275ed76b8638dac7b3378be47d937e97908f47492a5157 Homepage: https://cran.r-project.org/package=COR Description: CRAN Package 'COR' (The COR for Optimal Subset Selection in Distributed Estimation) An algorithm of optimal subset selection, related to Covariance matrices, observation matrices and Response vectors (COR) to select the optimal subsets in distributed estimation. The philosophy of the package is described in Guo G. (2024) . Package: r-cran-cora Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cora_0.1.0-1.ca2004.1_all.deb Size: 64776 MD5sum: 470164a73e0e682649987ae0e26bf774 SHA1: 3a1f07e62b60752ba0d219b44efaa793a60945d6 SHA256: 9c776c005cb65fd4b2d1402c0de242d46c72b68403d5ecb5465b49e470a1efe7 SHA512: 796e896092292f6e4b21f029e80edf700a5bfc6e86f80f88877c35d0cc277b57487fd2d55b10ba55013a5b9439cbb466d66a9427872ca8bc6cde621ba847dbf6 Homepage: https://cran.r-project.org/package=cora Description: CRAN Package 'cora' (Cora Data for Entity Resolution) Duplicated publication data (pre-processed and formatted) for entity resolution. This data set contains a total of 1879 records. The following variables are included in the data set: id, title, book title, authors, address, date, year, editor, journal, volume, pages, publisher, institution, type, tech, note. The data set has a respective gold data set that provides information on which records match based on id. Package: r-cran-corazon Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 787 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-corazon_0.1.0-1.ca2004.1_all.deb Size: 460180 MD5sum: 10955ad1f86b5ac1fab4bc2ff4b4428b SHA1: 42dea0b96dc5f43e592ae3e020a719c1891c86a6 SHA256: 1bb0dca595991c6c144c14584ae2b33dab0280e2d4a160b47920d18652737bd7 SHA512: 2986603d3ffba9f14627005459b925386f87d0ba09f8f571b961b5a2671b0e3b8eef015bd35db443f0da1ecd37eaaf0ecd7a67beec5ad85d7692c629f0a2fc8f Homepage: https://cran.r-project.org/package=corazon Description: CRAN Package 'corazon' (Apply 'colorffy' Color Gradients Within 'shiny' Elements) Allows the user to apply nice color gradients to 'shiny' elements. The gradients are extracted from the 'colorffy' website. See . Package: r-cran-corbin Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-corbin_1.0.0-1.ca2004.1_all.deb Size: 40816 MD5sum: 8716b4836f051ae5fe81d635d0c5d610 SHA1: 9b6d0c3d5221d2d2d11e1efa2d969b9e10fbec25 SHA256: cbd6bfb9f3c8629a2a93e7976f1c4c48507308ff3bde68bb2b512445d62aab49 SHA512: 1b8da58e284ec889e6ac6a27d26db14e6c39fe6da9ef21830dcc5a6eaf5c5e01365bd7fd093a337c1018edddd468ec920c5b434937645c57423dea45b5476d6f Homepage: https://cran.r-project.org/package=CorBin Description: CRAN Package 'CorBin' (Generate High-Dimensional Binary Data with CorrelationStructures) We design algorithms with linear time complexity with respect to the dimension for three commonly studied correlation structures, including exchangeable, decaying-product and K-dependent correlation structures, and extend the algorithms to generate binary data of general non-negative correlation matrices with quadratic time complexity. Jiang, W., Song, S., Hou, L. and Zhao, H. "A set of efficient methods to generate high-dimensional binary data with specified correlation structures." The American Statistician. See for a detailed presentation of the method. Package: r-cran-corbouli Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 440 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-rfast, r-cran-rfast2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-corbouli_0.1.5-1.ca2004.1_all.deb Size: 309460 MD5sum: df43973adc1b37b19192e0ccbd7e6025 SHA1: 23680d1bd32890c0c9b3b4b43194066378225294 SHA256: 6151bb393bff926b7d02842729da3456fbb57c27b78c1e3ca628fc346079175a SHA512: 9e97e66f43f3d65e9cafbe061032bc6872919df9c3496496d83b1cdace536e0039b84a8d8fbcd3b2e8cfe61eb6c74d0f2ed4a56d47837a62a7be663e485fd6b7 Homepage: https://cran.r-project.org/package=corbouli Description: CRAN Package 'corbouli' (Corbae-Ouliaris Frequency Domain Filtering) Corbae-Ouliaris frequency domain filtering. According to Corbae and Ouliaris (2006) , this is a solution for extracting cycles from time series, like business cycles etc. when filtering. This method is valid for both stationary and non-stationary time series. Package: r-cran-corclass Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-igraph Suggests: r-cran-cairo Filename: pool/dists/focal/main/r-cran-corclass_0.2.1-1.ca2004.1_all.deb Size: 37480 MD5sum: ce43fca004a049987a86c283170d29da SHA1: cca1ae98b7d1ca0fc4265f9fa0b7ed9dda41ea7f SHA256: 8d07a23d83e18dce3c076674271e8151145c0b481c3d2340534e9ebc0aab4346 SHA512: e924d30cd34a8ef6d9ea86d03a8ce80beb98243d26fd859ace42ab8a86a36624cd994fdc4a7a4eb99ec83cf248e9afdd6d23ff999d5d69bcab63ad6da142dfff Homepage: https://cran.r-project.org/package=corclass Description: CRAN Package 'corclass' (Correlational Class Analysis) Perform a correlational class analysis of the data, resulting in a partition of the data into separate modules. Package: r-cran-cordiff Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mcc Filename: pool/dists/focal/main/r-cran-cordiff_1.0-1.ca2004.1_all.deb Size: 23028 MD5sum: b78ff073bebaeb15004cb80af406b944 SHA1: 500c600f4a21bad59d553afa6d5e51a1ae925bbb SHA256: 10a11c11d09d58659c3ea62d113fdd0ccd16d3a5ac8b788c1aa707af194dee19 SHA512: e52e352dcfa09394b5bc6d6ec6bd27168fff367d921620f93185c946d72dd1c2bb9ffb92bcebe82c556ccdc194369fb6bbe4219abd9bb059de73cbb0a5039d82 Homepage: https://cran.r-project.org/package=CorDiff Description: CRAN Package 'CorDiff' (Set-Based Differential Covariance Testing for Genomics) We describe four different summary statistics, to ensure power and flexibility under various settings, including a new connectivity statistic that is sensitive to changes in overall covariance magnitude. Package: r-cran-cordillera Architecture: all Version: 1.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 798 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dbscan Suggests: r-cran-cluster, r-cran-scatterplot3d, r-cran-mass, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-cordillera_1.0-3-1.ca2004.1_all.deb Size: 487820 MD5sum: 84e1b8c505747eeaebac7461cf347c11 SHA1: baa3da445ed2d505366a1d9301b09898c739f4f7 SHA256: 5f0ae4e3fa3316faa4d09e17ea535f495a133ef9b4eccd6001c23b9175091e7f SHA512: 06a418472fe26ed4533376dd7f5e200e13642f2a7544599b97cc9a501cd0f1488b6e64da58455acb91f4aa6491862688185f905593384cb24b769d52d7b9a476 Homepage: https://cran.r-project.org/package=cordillera Description: CRAN Package 'cordillera' (Calculation of the OPTICS Cordillera) Functions for calculating the OPTICS Cordillera. The OPTICS Cordillera measures the amount of 'clusteredness' in a numeric data matrix within a distance-density based framework for a given minimum number of points comprising a cluster, as described in Rusch, Hornik, Mair (2018) . We provide an R native version with methods for printing, summarizing, and plotting the result. Package: r-cran-core Architecture: all Version: 3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-core_3.2-1.ca2004.1_all.deb Size: 100292 MD5sum: 92ab5233cf66757563e6bfb4cde75e27 SHA1: fc047c5cf4455fbcad588515321af59a8c080194 SHA256: f8569cb8c9780e59fbe69c90897fcaa8fed399e318ddb317559283e7f8c4eb26 SHA512: 3b35095cea8d8e2c9518df15046c1096b50a40a347e706c7abb6abbe4d880fb02d3c9e3ce521a1451b9a80f365b8777c8090ca36f832e0307f75e936bc9b7d9a Homepage: https://cran.r-project.org/package=CORE Description: CRAN Package 'CORE' (Cores of Recurrent Events) Given a collection of intervals with integer start and end positions, find recurrently targeted regions and estimate the significance of finding. Randomization is implemented by parallel methods, either using local host machines, or submitting grid engine jobs. Package: r-cran-corect Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 808 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-igraph, r-cran-oro.dicom, r-cran-plyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-corect_1.3.3-1.ca2004.1_all.deb Size: 747452 MD5sum: 8ad307b10cd551f890696cad3f9e97d6 SHA1: 676c90afb7a96b5565b0a1298cddfe3f1c2d3226 SHA256: c3e611f45fafb9e201cf7ea70cd0ebd85bdb9c1b66e71d2105d6399d95a341a3 SHA512: b635b08c445a056643442f460435b3eec70c1ca8ec01ed95e9282a1092cb9cdb23169b6f061abbc1b0223ba7cf38a01a0918def07a8644eb9cb14e5d2c04f784 Homepage: https://cran.r-project.org/package=coreCT Description: CRAN Package 'coreCT' (Programmatic Analysis of Sediment Cores Using ComputedTomography Imaging) Computed tomography (CT) imaging is a powerful tool for understanding the composition of sediment cores. This package streamlines and accelerates the analysis of CT data generated in the context of environmental science. Included are tools for processing raw DICOM images to characterize sediment composition (sand, peat, etc.). Root analyses are also enabled, including measures of external surface area and volumes for user-defined root size classes. For a detailed description of the application of computed tomography imaging for sediment characterization, see: Davey, E., C. Wigand, R. Johnson, K. Sundberg, J. Morris, and C. Roman. (2011) . Package: r-cran-corehunter Architecture: all Version: 3.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1920 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rjava, r-cran-naturalsort Suggests: r-cran-testthat, r-cran-mockr, r-cran-statmatch Filename: pool/dists/focal/main/r-cran-corehunter_3.2.3-1.ca2004.1_all.deb Size: 670548 MD5sum: c01314f1d1caf908d5a9eef02ec7ee17 SHA1: cac80e9ce55335c9bc719a25a83352a45c856725 SHA256: 8a8e625339970d1bc8efd340b50dd506b8d42b9db42f8e64573739cee1eaf897 SHA512: 9857453d3594b433803da8c97196ca41dd85c75d50e50f39d6336a5bde24fca6576ba4843c65907a382ed2a4ebd2e8a388df3238b4eecadddd58e02dc2552b34 Homepage: https://cran.r-project.org/package=corehunter Description: CRAN Package 'corehunter' (Multi-Purpose Core Subset Selection) Core Hunter is a tool to sample diverse, representative subsets from large germplasm collections, with minimum redundancy. Such so-called core collections have applications in plant breeding and genetic resource management in general. Core Hunter can construct cores based on genetic marker data, phenotypic traits or precomputed distance matrices, optimizing one of many provided evaluation measures depending on the precise purpose of the core (e.g. high diversity, representativeness, or allelic richness). In addition, multiple measures can be simultaneously optimized as part of a weighted index to bring the different perspectives closer together. The Core Hunter library is implemented in Java 8 as an open source project (see ). Package: r-cran-corella Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3841 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-hms, r-cran-lubridate, r-cran-purrr, r-cran-rlang, r-cran-sf, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-uuid Suggests: r-cran-gt, r-cran-knitr, r-cran-nanoparquet, r-cran-ozmaps, r-cran-readr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-corella_0.1.4-1.ca2004.1_all.deb Size: 1296288 MD5sum: 4531b450a80e65132ccd4dc5da58f859 SHA1: b4224f5277d1ca9060daf4531881ce40fade2411 SHA256: a6b3d163103ac9e4d91ced609bbf6b0985777dc7a5f81e7b511a30173f63e492 SHA512: d07ef49fa497093bfbb364362baf8647b9890357157ce5e910af2a1e62a80724946aa03134b46424d8e6670695d37d1044a4d8a85b4fcfadae15ad8c1486d47f Homepage: https://cran.r-project.org/package=corella Description: CRAN Package 'corella' (Prepare, Manipulate and Check Data to Comply with Darwin CoreStandard) Helps users standardise data to the Darwin Core Standard, a global data standard to store, document, and share biodiversity data like species occurrence records. The package provides tools to manipulate data to conform with, and check validity against, the Darwin Core Standard. Using 'corella' allows users to verify that their data can be used to build 'Darwin Core Archives' using the 'galaxias' package. Package: r-cran-coremicrobiomer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 437 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fastmatch, r-cran-vegan, r-cran-srs, r-bioc-edger, r-cran-ggplot2, r-cran-ggrepel, r-cran-plotly, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-coremicrobiomer_0.1.0-1.ca2004.1_all.deb Size: 387104 MD5sum: 68211491d5da388428da477077594321 SHA1: 4d978c95f5585ffe407c7f3b08b892f6a1d9cdcf SHA256: 53ead2b2cdc375fde7bd9c3c6d62307a2050c1d26a7035649b2f40094a46cc90 SHA512: 379b74ae2bede4ab08a6a477a602c71d72ccf5b6a6ae8b6ad3263dc95e9c143d077760ce75792ebd5dc23aac981191b30885ccca9c9cbc45cbf46e40c3121a8e Homepage: https://cran.r-project.org/package=CoreMicrobiomeR Description: CRAN Package 'CoreMicrobiomeR' (Identification of Core Microbiome) The Core Microbiome refers to the group of microorganisms that are consistently present in a particular environment, habitat, or host species. These microorganisms play a crucial role in the functioning and stability of that ecosystem. Identifying these microorganisms can contribute to the emerging field of personalized medicine. The 'CoreMicrobiomeR' is designed to facilitate the identification, statistical testing, and visualization of this group of microorganisms.This package offers three key functions to analyze and visualize microbial community data. This package has been developed based on the research papers published by Pereira et al.(2018) and Beule L, Karlovsky P. (2020) . 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The desktop application 'Cornerstone' () is a data analysis software provided by 'camLine' that empowers engineering teams to find solutions even faster. The engineers incorporate intensified hands-on statistics into their projects. They benefit from an intuitive and uniquely designed graphical Workmap concept: you design experiments (DoE) and explore data, analyze dependencies, and find answers you can act upon, immediately, interactively, and without any programming. While 'Cornerstone's' interface to the statistical programming language 'R' has been available since version 6.0, the latest interface with 'R' is even much more efficient. 'Cornerstone' release 7.1.1 allows you to integrate user defined 'R' packages directly into the standard 'Cornerstone' GUI. Your engineering team stays in 'Cornerstone's' graphical working environment and can apply 'R' routines, immediately and without the need to deal with programming code. 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Package: r-cran-corpora Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3473 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-corpora_0.7-1.ca2004.1_all.deb Size: 3436172 MD5sum: ed9aa5c6ad42161e3068a8eb035e50e2 SHA1: 59b6f85a4730b04383f41de975a9b3aacfe33a5d SHA256: 83c6aae596e458b7698c08b670a6aef011b44441c5615acb859d57d6fd724b0a SHA512: 645e35721f8be8e916efbbc99edd0204d93ec9d86279582748f369c9e594530b2afd86f6dfabb9166c282d614897dabf4ffea7b8bc6bb35cbe821eb5f0f6dd48 Homepage: https://cran.r-project.org/package=corpora Description: CRAN Package 'corpora' (Statistics and Data Sets for Corpus Frequency Data) Utility functions for the statistical analysis of corpus frequency data. This package is a companion to the open-source course "Statistical Inference: A Gentle Introduction for Computational Linguists and Similar Creatures" ('SIGIL'). 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Package: r-cran-corporaexplorer Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 443 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-lubridate, r-cran-magrittr, r-cran-padr, r-cran-plyr, r-cran-rcolorbrewer, r-cran-re2, r-cran-rlang, r-cran-rmarkdown, r-cran-scales, r-cran-shiny, r-cran-shinydashboard, r-cran-shinyjs, r-cran-shinywidgets, r-cran-stringi, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-janeaustenr, r-cran-shinytest2, r-cran-sotu, r-cran-testthat Filename: pool/dists/focal/main/r-cran-corporaexplorer_0.9.0-1.ca2004.1_all.deb Size: 147744 MD5sum: eba3b926e3b669caf81856cea83963de SHA1: 183b8034e9050482d9e6a4492182197f2c2ebdde SHA256: 83af849fe10572b209fe3ab3f0046c1202915a52c81c7705ffffe1223eb2ed1b SHA512: 65e2b08b514678340a142c0cbefe2378581f7b02a80214050cd82c5d99cf3f16de2d05d2ea96a58c4be8f72023ab35fabff5fd158314d54bd63cc8e8207bfbb3 Homepage: https://cran.r-project.org/package=corporaexplorer Description: CRAN Package 'corporaexplorer' (A 'Shiny' App for Exploration of Text Collections) Facilitates dynamic exploration of text collections through an intuitive graphical user interface and the power of regular expressions. The package contains 1) a helper function to convert a data frame to a 'corporaexplorerobject' and 2) a 'Shiny' app for fast and flexible exploration of a 'corporaexplorerobject'. The package also includes demo apps with which one can explore Jane Austen's novels and the State of the Union Addresses (data from the 'janeaustenr' and 'sotu' packages respectively). Package: r-cran-corpower Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 374 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-osdesign Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-corpower_1.0.4-1.ca2004.1_all.deb Size: 172356 MD5sum: 0922749c48746695baeb8840eca20ec7 SHA1: 853c1bc88ced0deb839747c56c6f67c5b3c10e7a SHA256: c0102bddb4a9d993ca0cb5ddb2364cb857b7a81ecac6be43b52710a86eea4886 SHA512: 11f2a259c24d7ef17f6318eef8cfa3fd8681a965cab537ff39492f536fee582e65d1b8e2a9ac3a67a7ae3fa4a9d35fa7b696f5a78792c6d357d5dde6ec2e2dfe Homepage: https://cran.r-project.org/package=CoRpower Description: CRAN Package 'CoRpower' (Power Calculations for Assessing Correlates of Risk in ClinicalEfficacy Trials) Calculates power for assessment of intermediate biomarker responses as correlates of risk in the active treatment group in clinical efficacy trials, as described in Gilbert, Janes, and Huang, Power/Sample Size Calculations for Assessing Correlates of Risk in Clinical Efficacy Trials (2016, Statistics in Medicine). The methods differ from past approaches by accounting for the level of clinical treatment efficacy overall and in biomarker response subgroups, which enables the correlates of risk results to be interpreted in terms of potential correlates of efficacy/protection. The methods also account for inter-individual variability of the observed biomarker response that is not biologically relevant (e.g., due to technical measurement error of the laboratory assay used to measure the biomarker response), which is important because power to detect a specified correlate of risk effect size is heavily affected by the biomarker's measurement error. The methods can be used for a general binary clinical endpoint model with a univariate dichotomous, trichotomous, or continuous biomarker response measured in active treatment recipients at a fixed timepoint after randomization, with either case-cohort Bernoulli sampling or case-control without-replacement sampling of the biomarker (a baseline biomarker is handled as a trivial special case). In a specified two-group trial design, the computeN() function can initially be used for calculating additional requisite design parameters pertaining to the target population of active treatment recipients observed to be at risk at the biomarker sampling timepoint. Subsequently, the power calculation employs an inverse probability weighted logistic regression model fitted by the tps() function in the 'osDesign' package. Power results as well as the relationship between the correlate of risk effect size and treatment efficacy can be visualized using various plotting functions. To link power calculations for detecting a correlate of risk and a correlate of treatment efficacy, a baseline immunogenicity predictor (BIP) can be simulated according to a specified classification rule (for dichotomous or trichotomous BIPs) or correlation with the biomarker response (for continuous BIPs), then outputted along with biomarker response data under assignment to treatment, and clinical endpoint data for both treatment and placebo groups. 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Noda (1993) ). Additionally there are two plot functions for the resulting correlation matrix: The first one creates colored 2D plots, while the second one generates 3D plots. 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For two specified levels of the variable, 'corrarray' displays one level's correlation matrix in the lower triangular matrix and the other level's correlation matrix in the upper triangular matrix. Such an output can enable visualization of correlations from two samples in a single correlation matrix or corrgram. 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Package: r-cran-correctoverloadedpeaks Architecture: all Version: 1.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 719 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-bitops, r-cran-digest, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-bioc-xcms, r-cran-xml, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-correctoverloadedpeaks_1.3.5-1.ca2004.1_all.deb Size: 651076 MD5sum: 52f08dbcb98ff618f89a1befd23a3f0b SHA1: ef330e1769c31aff84561ad411c189f4840924b9 SHA256: 88889e737064467007e99136a111e4cd778488180ffe7335ce9980bb0657839e SHA512: c78a520ebadf30d9e04401288de6a0cb7eb080366915f5f4832158c55dcec46df4c99be922ff1d91dea1dd10c1fe1f6b01ca06adf6d26edad7633a2eb9e34ef2 Homepage: https://cran.r-project.org/package=CorrectOverloadedPeaks Description: CRAN Package 'CorrectOverloadedPeaks' (Correct Overloaded Peaks from GC-APCI-MS Data) Analyzes and modifies metabolomics raw data (generated using Gas Chromatography-Atmospheric Pressure Chemical Ionization-Mass Spectrometry) to correct overloaded signals, i.e. ion intensities exceeding detector saturation leading to a cut-off peak. Data in 'xcmsRaw' format are accepted as input and 'mzXML' files can be processed alternatively. Overloaded signals are detected automatically and modified using an Gaussian or an Isotopic-Ratio approach. Quality control plots are generated and corrected data are stored within the original 'xcmsRaw' or 'mzXML' respectively to allow further processing. 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Consequently, correspondence regression can be used to analyze the effects for a polytomous or multinomial outcome variable. Package: r-cran-correlatio Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1334 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rdpack, r-cran-ggplot2, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-correlatio_0.2.1-1.ca2004.1_all.deb Size: 520452 MD5sum: 771726458460d7c8930e9802b69fc9a5 SHA1: 58290115d8e000809ac4a6c8827fd07d5631c105 SHA256: 199e4c2425f1491a0b6d0d8da46d40435bd59d0dbc290fc6368ce3ee720732ea SHA512: 21497bbf97d3b7255d8cacefb5abbf03db7ce4e513b13251d05b8dab1eb6e9dcefceb2fc2af5f47f7571415cc4ed16a2bec7f76b5eb1b1df6e0a103f157ba4fc Homepage: https://cran.r-project.org/package=correlatio Description: CRAN Package 'correlatio' (Visualize Details Behind Pearson's Correlation Coefficient) Helps visualizing what is summarized in Pearson's correlation coefficient. That is, it visualizes its main constituent, namely the distances of the single values to their respective mean. The visualization thereby shows what the etymology of the word correlation contains: In pairwise combination, bringing back (see package Vignette for more details). I hope that the 'correlatio' package may benefit some people in understanding and critically evaluating what Pearson's correlation coefficient summarizes in a single number, i.e., to what degree and why Pearson's correlation coefficient may (or may not) be warranted as a measure of association. Package: r-cran-correlation Architecture: all Version: 0.8.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2165 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayestestr, r-cran-datawizard, r-cran-insight, r-cran-parameters Suggests: r-cran-bayesfactor, r-cran-energy, r-cran-ggplot2, r-cran-ggraph, r-cran-gt, r-cran-hmisc, r-cran-knitr, r-cran-lme4, r-cran-mass, r-cran-mbend, r-cran-polycor, r-cran-poorman, r-cran-ppcor, r-cran-psych, r-cran-rmarkdown, r-cran-rmcorr, r-cran-rstanarm, r-cran-see, r-cran-testthat, r-cran-tidygraph, r-cran-wdm, r-cran-wrs2, r-cran-openxlsx2 Filename: pool/dists/focal/main/r-cran-correlation_0.8.7-1.ca2004.1_all.deb Size: 1518320 MD5sum: 2d255b1cf33787c47bd04063f866cb24 SHA1: 576a64b84e7fdafea389473a24c15b0c2eff7c72 SHA256: cff7c6993c6d006ee0d8ea7da08d8bd9af171045f4a3d86d24c5b38078e4d4d8 SHA512: 54c6df110bdba3703b515f055e58ad39cf52c6faf919be5f9eb4ef8891c3363071aa90474be5f385623b91483bacb5b4a1c8ea47b59049850fb21950dd1e4998 Homepage: https://cran.r-project.org/package=correlation Description: CRAN Package 'correlation' (Methods for Correlation Analysis) Lightweight package for computing different kinds of correlations, such as partial correlations, Bayesian correlations, multilevel correlations, polychoric correlations, biweight correlations, distance correlations and more. Part of the 'easystats' ecosystem. References: Makowski et al. (2020) . 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Uses binary correlation analysis to determine relationship. Default correlation method is the Pearson method. Lian Duan, W Nick Street, Yanchi Liu, Songhua Xu, and Brook Wu (2014) . 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The function takes as inputs the scalar values the level of correlation or association between trials, the success probability, the number of trials, an optional input specifying the number of bits of precision used in the calculation, and an optional input specifying whether the calculation approach to be used is from Witt (2014) or from Kuk (2004) . The output is a (trials+1)-dimensional vector containing the likelihoods of 0, 1, ..., trials successes. 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The correspondence table between two statistical classifications can be updated when one of the classifications gets updated to a new version. 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References include Mardia K.V., Kent J.T. and Bibby J.M. (1979). "Multivariate Analysis". ISBN: 978-0124712522. London: Academic Press and Owen A. B. (2001). "Empirical likelihood". Chapman and Hall/CRC Press. ISBN: 9781584880714. 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For more information about the method, refer to the paper Province MA. (2013) . 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The input can be a full data frame; any string and Boolean terms will be dropped as part of functionality. Correlations and p-values are calculated using the 'Hmisc' framework. Output of the correlation_matrix() function is a table of strings; this gets saved out to a '.csv2' with the save_correlation_matrix() function for easy insertion into a paper. For more details about the process, consult . 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The details of the method are explained in Demirtas, H. and Vardar-Acar, C. (2017) . 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This package aims to provide an easy and effective way to explore and visualize these correlations, making it easier to interpret and communicate results. 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Package: r-cran-cortest Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-igraph, r-cran-clustergeneration, r-cran-matrix, r-bioc-biobase, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-cortest_1.0.7-1.ca2004.1_all.deb Size: 131664 MD5sum: 0353529d57fdd3ea4bfc28da13ef778b SHA1: a453fa5cc5b9a988fcf7af39a8c74dc7e59b9860 SHA256: 22c297604c39021b29697cac916296d520ac1babe033af7428937f5a828a7294 SHA512: 9ff14ec70c06e0c6c021a3399a9fec96de7c5e42490cb2e079dda6c38f02f9c5c359c6c83dd6a2a1ebf950122d7edb5f93143e0cc5200bad9b917e67e5c1cb9c Homepage: https://cran.r-project.org/package=corTest Description: CRAN Package 'corTest' (Robust Tests for Equal Correlation) There are 6 novel robust tests for equal correlation. They are all based on logistic regressions. The score statistic U is proportion to difference of two correlations based on different types of correlation in 6 methods. The ST1() is based on Pearson correlation. ST2() improved ST1() by using median absolute deviation. ST3() utilized type M correlation and ST4() used Spearman correlation. ST5() and ST6() used two different ways to combine ST3() and ST4(). We highly recommend ST5() according to the article titled ''New Statistical Methods for Constructing Robust Differential Correlation Networks to characterize the interactions among microRNAs'' published in Scientific Reports. Please see the reference: Yu et al. (2019) . Package: r-cran-corto Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3986 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-gplots, r-cran-knitr, r-cran-rmarkdown, r-cran-pbapply, r-cran-plotrix Filename: pool/dists/focal/main/r-cran-corto_1.2.4-1.ca2004.1_all.deb Size: 3587780 MD5sum: 76367a2f7bcccf2360318dfb3d2094d4 SHA1: d843ca6348374879c000e321eab62b9fbb71d38a SHA256: d1c1791b62e2bdc5ce637957278529280c8df27716ce98541026fc140d856a5f SHA512: 433605fc73f762f653254056633739249953169b44af4f5741b30398b1be218e12c04ffbf72e64be97a3eb82f8d5f06b82ecd3f3334076874ae5229b11dc115c Homepage: https://cran.r-project.org/package=corto Description: CRAN Package 'corto' (Inference of Gene Regulatory Networks) We present 'corto' (Correlation Tool), a simple package to infer gene regulatory networks and visualize master regulators from gene expression data using DPI (Data Processing Inequality) and bootstrapping to recover edges. An initial step is performed to calculate all significant edges between a list of source nodes (centroids) and target genes. Then all triplets containing two centroids and one target are tested in a DPI step which removes edges. A bootstrapping process then calculates the robustness of the network, eventually re-adding edges previously removed by DPI. The algorithm has been optimized to run outside a computing cluster, using a fast correlation implementation. The package finally provides functions to calculate network enrichment analysis from RNA-Seq and ATAC-Seq signatures as described in the article by Giorgi lab (2020) . Package: r-cran-cortools Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cortools_1.0-1.ca2004.1_all.deb Size: 32512 MD5sum: 3ec11418fd209bea5d81db577bd264ce SHA1: e7be1575fe83d9f15a366e3d200b8f7438e2ffb0 SHA256: 4d3564c90d657628b890abb82e0b1f167231bbfc9c46380a7dfc11099cb82a02 SHA512: 757ebdb311cbfc2aa32617f4c9d55361ec2e5bfce521822d51391d5731ed08837e36cd9fe47db6da43073116d14753b6659d5da5dd34f27364048e5f34da0545 Homepage: https://cran.r-project.org/package=corTools Description: CRAN Package 'corTools' (Tools for processing data after a Genome Wide Association Study) Designed for analysis of the results of a Genome Wide Association Study. Includes tools to pull lists of Chromosome number and SNP position below a certain significance threshold, refine gene networks (including data I/O for Cytoscape), and check SNP base pair changes. 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Correlation matrices are formatted with significance stars based on user preferences. Matrices of coefficients, p-values, and number of pairwise observations are returned. Send resultant formatted matrices to the clipboard to be pasted into excel and other programs. A plot method allows users to visualize correlation matrices created with 'corx'. Package: r-cran-cosa Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 579 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cosa_2.1.0-1.ca2004.1_all.deb Size: 364284 MD5sum: a1dead9e13778f240d693b9d60ccb034 SHA1: 03e7ddfce1e2dd1fbd7e61541155950f1d756472 SHA256: 82006731c180e64f8d29e21c7533d10faa113b24822d0e0bc6e658dd2a5c89b5 SHA512: 5c103c6269f20007e48241e72931b078cd57f4fc9624e0fb36303054d3e6fceaf256036c5b43ffa7f058e54ed64a656da8d166020eb9ef30f6f204630bcbf01b Homepage: https://cran.r-project.org/package=cosa Description: CRAN Package 'cosa' (Bound Constrained Optimal Sample Size Allocation) Implements bound constrained optimal sample size allocation (BCOSSA) framework described in Bulus & Dong (2021) for power analysis of multilevel regression discontinuity designs (MRDDs) and multilevel randomized trials (MRTs) with continuous outcomes. Minimum detectable effect size (MDES) and power computations for MRDDs allow polynomial functional form specification for the score variable (with or without interaction with the treatment indicator). See Bulus (2021) . 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See Cornélissen, G. (2014). . Package: r-cran-cosinor Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-shiny Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-cosinor_1.2.3-1.ca2004.1_all.deb Size: 94972 MD5sum: edda365d96cbda8bb3d65c41ce8d81c0 SHA1: aaba89e790d2c9762197356f75b873e95d762a0d SHA256: 43df955e43069cd20aebecc7924affbfbb8e703dc200149861a02cb7bdd05941 SHA512: d3eb30371f1af3e72d46e2242dd4508d1fb358c231c01e1c4f9e1e80ef1796639839fb479e203a55f25376de2663ecba00f9e16a9877b1e0dbaf4b87b54ea270 Homepage: https://cran.r-project.org/package=cosinor Description: CRAN Package 'cosinor' (Tools for Estimating and Predicting the Cosinor Model) A set of simple functions that transforms longitudinal data to estimate the cosinor linear model as described in Tong (1976). Methods are given to summarize the mean, amplitude and acrophase, to predict the mean annual outcome value, and to test the coefficients. 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The 'signature' variable contains the latest mutational signature profiles released on COSMIC for 3 mutation types: * Single base substitutions in the context of preceding and following bases, * Doublet base substitutions, and * Small insertions and deletions. The 'etiology' variable provides the known or hypothesized causes of signatures. 'cosmicsig' stands for COSMIC signatures. Please run ?'cosmicsig' for more information. 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Implemented models include mean regression, quantile regression, logistic regression and the Cox regression models. Package: r-cran-cost Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 307 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-copula, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-cost_0.1.0-1.ca2004.1_all.deb Size: 277508 MD5sum: dd04ed27f9882d98b4ab6b3b66efc413 SHA1: e9ac47afb3f89c924f52d71f08129518712e0921 SHA256: 45a5ee120cd5cc37a871572f96b262676872e5bec8b02fee9bfa1dd11450fcb2 SHA512: 81d5da099f1054b6d44b8c76cf693dc946c407037c9f706667c5bebb88a0017b3a04eba727b7f7967c2b35469f589a3d1ed0c2ecb12953f074a08a17954b8fc1 Homepage: https://cran.r-project.org/package=COST Description: CRAN Package 'COST' (Copula-Based Semiparametric Models for Spatio-Temporal Data) Parameter estimation, one-step ahead forecast and new location prediction methods for spatio-temporal data. Package: r-cran-costat Architecture: all Version: 2.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-wavethresh Filename: pool/dists/focal/main/r-cran-costat_2.4.1-1.ca2004.1_all.deb Size: 224092 MD5sum: 17677e66539abb095467664c7c331775 SHA1: 448bf603786b2bdbef56a993821e9d43adbed35a SHA256: 5b15d2fc0db9ce0c9a246f1c13d3e4ee13dab66354be0c51d57b2187ea288d43 SHA512: d28bc5ef4e35c7ec648154e6f050ea77de59e2d2409044e20ae374267e218a88ba358802df4aafb27457fcad6509a1eaedda9df456dfd5b8b1eed5b5625a675e Homepage: https://cran.r-project.org/package=costat Description: CRAN Package 'costat' (Time Series Costationarity Determination) Contains functions that can determine whether a time series is second-order stationary or not (and hence evidence for locally stationarity). Given two non-stationary series (i.e. locally stationary series) this package can then discover time-varying linear combinations that are second-order stationary. Cardinali, A. and Nason, G.P. (2013) . Package: r-cran-cosw Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-fdrtool Filename: pool/dists/focal/main/r-cran-cosw_0.1-1.ca2004.1_all.deb Size: 19044 MD5sum: 8fd0566e2b9e063d5c981e84af84d5c3 SHA1: b114aa20a51ca067bb3223cfe4f852379f37c1f3 SHA256: cce0ab421672ccd5267ebe7edec4eb8824dbd95102edaf1e5d0e17b24051b2dd SHA512: a0366010baae355bbbf8adb51dbc07d6bfa138055108f2087f729c7a079c21f92a9cc668eed095262ec9b8294248ee68045b1ec610345d8db9719af61d17db3d Homepage: https://cran.r-project.org/package=CosW Description: CRAN Package 'CosW' (The CosW Distribution) Density, distribution function, quantile function, random generation and survival function for the Cosine Weibull Distribution as defined by SOUZA, L. New Trigonometric Class of Probabilistic Distributions. 219 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2015 (available at ) and BRITO, C. C. R. Method Distributions generator and Probability Distributions Classes. 241 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2014 (available upon request). Package: r-cran-cotima Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7072 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-openmx, r-cran-ctsem, r-cran-lavaan, r-cran-foreach, r-cran-mbess, r-cran-crayon, r-cran-psych, r-cran-doparallel, r-cran-rootsolve, r-cran-abind, r-cran-rpushbullet, r-cran-openxlsx, r-cran-zcurve, r-cran-scholar, r-cran-stringi, r-cran-mass Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-cotima_0.8.0-1.ca2004.1_all.deb Size: 4279536 MD5sum: 2a04b3ef97a2d7ceb629725435d46ee3 SHA1: b7d5ae063ecb58a89a929e78b7a1051aa33be37e SHA256: f8b56d93b1ef3954270818f43fd7aab199883564b10fb9859a47dffa619325d5 SHA512: 0b150bf7612b363a481ecabd02740fd8ef986f1f09c7f0021d65b3645ffaf1c10ae6fba042db9f82dd89da5fa464690ecdf1d2f16bd42167f210a7796407f67c Homepage: https://cran.r-project.org/package=CoTiMA Description: CRAN Package 'CoTiMA' (Continuous Time Meta-Analysis ('CoTiMA')) The 'CoTiMA' package performs meta-analyses of correlation matrices of repeatedly measured variables taken from studies that used different time intervals. Different time intervals between measurement occasions impose problems for meta-analyses because the effects (e.g. cross-lagged effects) cannot be simply aggregated, for example, by means of common fixed or random effects analysis. However, continuous time math, which is applied in 'CoTiMA', can be used to extrapolate or intrapolate the results from all studies to any desired time lag. By this, effects obtained in studies that used different time intervals can be meta-analyzed. 'CoTiMA' fits models to empirical data using the structural equation model (SEM) package 'ctsem', the effects specified in a SEM are related to parameters that are not directly included in the model (i.e., continuous time parameters; together, they represent the continuous time structural equation model, CTSEM). Statistical model comparisons and significance tests are then performed on the continuous time parameter estimates. 'CoTiMA' also allows analysis of publication bias (Egger's test, PET-PEESE estimates, zcurve analysis etc.) and analysis of statistical power (post hoc power, required sample sizes). See Dormann, C., Guthier, C., & Cortina, J. M. (2019) . and Guthier, C., Dormann, C., & Voelkle, M. C. (2020) . 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An appropriate data transformation for a count outcome and regression coefficients are simultaneously estimated by maximising the exact discrete log-likelihood using the computational framework provided in package 'mlt', technical details are given in Siegfried & Hothorn (2020) . The package also contains an experimental implementation of multivariate count transformation models with an application to multi-species distribution models . 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Numbered examples correspond to Feb 2011 preprint . Package: r-cran-couchdb Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 751 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcurl, r-cran-bitops, r-cran-httr, r-cran-rjson Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-couchdb_1.4.1-1.ca2004.1_all.deb Size: 235776 MD5sum: 3f1a357d354313219511ea33a2bb2c1c SHA1: a40f7766475ec66f233eb0b5ac88e739a79f198b SHA256: 04481bbb1b2a332a6fc7a993865efabae84dec55612a7efb243db34ca4ddb7c7 SHA512: edd227582556650bbdf8532e3dbbf76cc46e44260845c09a256acd39d4dd324c578252471408873dbfb016f9e8b182cdb016fa713d1d3a323b953f0e1099d18e Homepage: https://cran.r-project.org/package=couchDB Description: CRAN Package 'couchDB' (Connect to and Work with CouchDB Databases) Interface to the couchDB document database . 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The functions allow to compute the MLE for the following distributions such as the Bell distribution, the Borel distribution, the Poisson distribution, zero inflated Bell distribution, zero inflated Bell Touchard distribution, zero inflated Poisson distribution, zero one inflated Bell distribution and zero one inflated Poisson distribution. Moreover, the probability mass function (PMF), distribution function (CDF), quantile function (QF) and random numbers generation of the Bell Touchard and zero inflated Bell Touchard distribution are also provided. 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The counterfactual distributions considered are the result of changing either the marginal distribution of covariates related to the outcome variable of interest, or the conditional distribution of the outcome given the covariates. They can be applied to estimate quantile treatment effects and wage decompositions. 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The following methods are currently implemented: Burghmans et al. (2022) , Dandl et al. (2020) and Wexler et al. (2019) . Optional extensions allow these methods to be applied to a variety of models and use cases. Once generated, the counterfactuals can be analyzed and visualized by provided functionalities. Package: r-cran-counternull Architecture: all Version: 0.2.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-effsize, r-cran-ggplot2, r-cran-randomizr, r-cran-dplyr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-counternull_0.2.12-1.ca2004.1_all.deb Size: 159712 MD5sum: 0ee377ce69ef60604b4ade13e0eb3675 SHA1: cbf8314bb8826698a9d4ecb39b2f88f31761197a SHA256: fd9416c1de8bdca086ba9c5553190f41c407666f71d6ac1e3e7fec69fc5896b7 SHA512: ba58340fd1faf6a65b9fad6b2f1495caa3accbcc3fc62e242b0d709273c20c74c4f9e81679de36455bc96f69092aec7390908a2394ebdc94bb5a68fdb450bec8 Homepage: https://cran.r-project.org/package=Counternull Description: CRAN Package 'Counternull' (Randomization-Based Inference) Randomization-Based Inference for customized experiments. Computes Fisher-Exact P-Values alongside null randomization distributions. Retrieves counternull sets and generates counternull distributions. Computes Fisher Intervals and Fisher-Adjusted P-Values. Package includes visualization of randomization distributions and Fisher Intervals. Users can input custom test statistics and their own methods for randomization. Rosenthal and Rubin (1994) . 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This is a statistical data type that only assumes non-negative integer values and is generated by counting. Typically, counting data can be found in biomedical applications, such as the analysis of DNA double-strand breaks. The number of DNA double-strand breaks can be counted in individual cells using various bioanalytical methods. For diagnostic applications, it is relevant to record the distribution of the number data in order to determine their biomedical significance (Roediger, S. et al., 2018. Journal of Laboratory and Precision Medicine. ). The software offers functions for a comprehensive automated evaluation of distribution models of count data. In addition to programmatic interaction, a graphical user interface (web server) is included, which enables fast and interactive data-scientific analyses. The user is supported in selecting the most suitable counting distribution for his own data set. Package: r-cran-countgmifs Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 366 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-countgmifs_0.0.2-1.ca2004.1_all.deb Size: 279248 MD5sum: 3092c205e564a743d53ebd9b884ddc8c SHA1: c3d7d534dc1434a004510d9cc72214e540733a02 SHA256: a5f43b847b788d1a7c828b60200ccbe3408a3fe17b3c08e10072b9109d6bceaf SHA512: bed3e48fbf302e2d3313f5052ec99ec2f7cca0662f513d62c144dda5ccf46c8d570df5d6c7720d4b008e6285167bfad61ee1fd90ce9e1940c293c200f50a8052 Homepage: https://cran.r-project.org/package=countgmifs Description: CRAN Package 'countgmifs' (Discrete Response Regression for High-Dimensional Data) Provides a function for fitting Poisson and negative binomial regression models when the number of parameters exceeds the sample size, using the the generalized monotone incremental forward stagewise method. 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For details, see Adam, T., Langrock, R., and Weiß, C.H. (2019): Penalized Estimation of Flexible Hidden Markov Models for Time Series of Counts. . 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This package contains functions to easily identify and convert country names, download country information, merge country data from different sources, and make quick world maps. 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Package: r-cran-countseppm Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 463 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-formula, r-cran-expm, r-cran-numderiv, r-cran-lmtest Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-countseppm_3.1-1.ca2004.1_all.deb Size: 413816 MD5sum: 7f817ded50e9d1215473c34ae3af1189 SHA1: b4fbb39b3daa3efb9665d7878cb08c8976fa6a0d SHA256: 2d7ab8824fb7a2c68d56f7a299f4c1b2a1d52a65e96979b1693f00b62ee41582 SHA512: 25b813188ada7d7250386718ff8377cfb4fce9664e04dc70f512986f7eface1b105d21608a47bc0dcc3a590d7e792fc165b011c3470f44c6a9d9e9665027e5d9 Homepage: https://cran.r-project.org/package=CountsEPPM Description: CRAN Package 'CountsEPPM' (Mean and Variance Modeling of Count Data) Modeling under- and over-dispersed count data using extended Poisson process models as in the article Faddy and Smith (2011) Package: r-cran-counttofpkm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1988 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-complexheatmap, r-cran-circlize Filename: pool/dists/focal/main/r-cran-counttofpkm_1.0-1.ca2004.1_all.deb Size: 492896 MD5sum: 0b62f25568cae4e4e2cfd28a6bbd7019 SHA1: 7df03dd6e56fb398cff3f74fceeff890c7a685d9 SHA256: 3b98e59fde755ac73deffa1633c24abd1344fa96bd294648d2271e39f53d3be5 SHA512: df83bfb37b275c94ef6d24ef139b2da6728b6b39257bd189adfc533595fc441bfb207389a84a5897549eb2a800fc5b84cd617ec79c42594d8f2e57491c16ef25 Homepage: https://cran.r-project.org/package=countToFPKM Description: CRAN Package 'countToFPKM' (Convert Counts to Fragments per Kilobase of Transcript perMillion (FPKM)) Implements the algorithm described in Trapnell,C. et al. (2010) . This function takes read counts matrix of RNA-Seq data, feature lengths which can be retrieved using 'biomaRt' package, and the mean fragment lengths which can be calculated using the 'CollectInsertSizeMetrics(Picard)' tool. It then returns a matrix of FPKM normalised data by library size and feature effective length. It also provides the user with a quick and reliable function to generate FPKM heatmap plot of the highly variable features in RNA-Seq dataset. Package: r-cran-counttransformers Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biobase, r-bioc-limma, r-cran-mass Filename: pool/dists/focal/main/r-cran-counttransformers_0.0.6-1.ca2004.1_all.deb Size: 82560 MD5sum: c9673fca41b5b7a2f66acc84c62db66a SHA1: 990dd5510b9218ea52d6c060b092685be74a9838 SHA256: 02fb0a11f5451088bea71489359303d923ed42f269f2071a7e9d9010fcf4d2b6 SHA512: 0d00f8115d1f124454db1a9a8f43e32e051bf13c7444c07fdc3cdf14da8977e802021f822a261cc592ab0408e2910fb78a26fe6dc9420e1a944eea3d1bdf61e9 Homepage: https://cran.r-project.org/package=countTransformers Description: CRAN Package 'countTransformers' (Transform Counts in RNA-Seq Data Analysis) Provide data transformation functions to transform counts in RNA-seq data analysis. Please see the reference: Zhang Z, Yu D, Seo M, Hersh CP, Weiss ST, Qiu W. (2019) . 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It offers a simulated testing environment that includes various models like Poisson, Overdispersed Poisson, Zero-inflated Poisson, and Zero-inflated Overdispersed Poisson. The package is capable of executing five specific algorithms: Linear Thompson sampling with log transformation on the outcome, Thompson sampling Poisson, Thompson sampling Negative Binomial, Thompson sampling Zero-inflated Poisson, and Thompson sampling Zero-inflated Negative Binomial. Additionally, it can generate regret plots to evaluate the performance of contextual bandit algorithms. This package is based on the algorithms by Liu et al. (2023) . Package: r-cran-countyfloods Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 625 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dataretrieval, r-cran-dplyr, r-cran-ggplot2, r-cran-lubridate, r-cran-maps, r-cran-plyr, r-cran-r.utils, r-cran-tidyr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-hurricaneexposure, r-cran-scales Filename: pool/dists/focal/main/r-cran-countyfloods_0.1.0-1.ca2004.1_all.deb Size: 469768 MD5sum: c20ffdffc2101607c28e4fafdd3e9aa6 SHA1: 62fc43b3a7cca48f02db525dfbdaf1a6642c430e SHA256: ceb3c75060f4c81a6394a757ef808119017b8f9d294b020974588e4e7291a443 SHA512: e53a4b6642791dcec4a0d91c2ff1ffb27fda62317b05e00cecb9255f330f6ac69664a65cab254cac54af25c3f70d8d349a74f55d860598b25b001b203505d276 Homepage: https://cran.r-project.org/package=countyfloods Description: CRAN Package 'countyfloods' (Quantify United States County-Level Flood Measurements) Quantifies United States flood impacts at the county level using United States Geological Service (USGS) River Discharge data for the USGS API. This package builds on R packages from the USGS, with the goal of creating county-level time series of flood status that can be more easily joined with county-level impact measurements, including health outcomes. This work was supported in part by grants from the National Institute of Environmental Health Sciences (R00ES022631), the Colorado Water Center, and the National Science Foundation, Integrative Graduate Education and Research Traineeship (IGERT) Grant No. DGE-0966346 "I-WATER: Integrated Water, Atmosphere, Ecosystems Education and Research Program" at Colorado State University. Package: r-cran-coursekata Architecture: all Version: 0.18.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dslabs, r-cran-ggformula, r-cran-ggplot2, r-cran-glue, r-cran-lsr, r-cran-metrics, r-cran-mosaic, r-cran-palmerpenguins, r-cran-purrr, r-cran-remotes, r-cran-rlang, r-cran-supernova, r-cran-vctrs, r-cran-viridislite Suggests: r-cran-fivethirtyeight, r-cran-lubridate, r-cran-mass, r-cran-mockery, r-cran-mockr, r-cran-readr, r-cran-readxl, r-cran-usethis, r-cran-simstudy, r-cran-testthat, r-cran-tibble, r-cran-tidyr, r-cran-vdiffr, r-cran-withr Filename: pool/dists/focal/main/r-cran-coursekata_0.18.1-1.ca2004.1_all.deb Size: 223992 MD5sum: 65c95f673af28dbe4881da6ee66157d8 SHA1: 52eb2b2a309cdb01dee2a7ab7b4c93f38a88ef30 SHA256: bf0b3e7881a579fac0c4276d11620b76265113bac7372a554d9273847e9ef101 SHA512: 171f7ba080c710d6014cc6ade66fb282a48633405372d4f5677df0c009f5d00b40064c02216d2736da080aed7f4012db34ecf7e18c7f7bae9252433834915a88 Homepage: https://cran.r-project.org/package=coursekata Description: CRAN Package 'coursekata' (Packages and Functions for 'CourseKata' Courses) Easily install and load all packages and functions used in 'CourseKata' courses. Aid teaching with helper functions and augment generic functions to provide cohesion between the network of packages. Learn more about 'CourseKata' at . Package: r-cran-covadap Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 306 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-covadap_1.0.1-1.ca2004.1_all.deb Size: 282520 MD5sum: 077787bbcbf8f409114f2e893217a425 SHA1: 8ebca0fc0d24b1bed93aca33f43e153eee327a2e SHA256: 1aec83635dba016d68e1e8647c041e4b7503d9988aceb988201b0fea6b6e50ee SHA512: b9831e3c4e993c33e579351d782e6a5d86aa8ba02294acf16f8c546e887cf5da92eeeb9117327863bd3fc0708d0d49966fb05871bf3585143dac66010e793ac2 Homepage: https://cran.r-project.org/package=covadap Description: CRAN Package 'covadap' (Implement Covariate-Adaptive Randomization) Implementing seven Covariate-Adaptive Randomization to assign patients to two treatments. Three of these procedures can also accommodate quantitative and mixed covariates. Given a set of covariates, the user can generate a single sequence of allocations or replicate the design multiple times by simulating the patients' covariate profiles. At the end, an extensive assessment of the performance of the randomization procedures is provided, calculating several imbalance measures. See Baldi Antognini A, Frieri R, Zagoraiou M and Novelli M (2022) for details. 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Generate datasets with specified correlation structures for continuous variables, adjust mutual information between categorical variables, and manipulate subgroup correlations to intentionally create Simpson's Paradox. Joe (1997) Sklar (1959) . Package: r-cran-covatest Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 627 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mathjaxr, r-cran-lubridate, r-cran-v8, r-cran-zoo, r-cran-gstat, r-cran-sp, r-cran-spacetime Suggests: r-cran-sf Filename: pool/dists/focal/main/r-cran-covatest_1.2.4-1.ca2004.1_all.deb Size: 484080 MD5sum: c709e8ee177342a1a029488ea6312125 SHA1: db8279ddf6bc2f0698e4a4d2d5e95cef2f7cb96b SHA256: 40705c680f2d78fdb96afea288a4d2f2d7f4d3ab33a69b61e61b97831e088444 SHA512: 168b51777faff5c3f09334772117f68dad7e7a4e240687f642dde5d2479702cc450763044dd284e008958e3bebfa09419183b9abd1bc86f229e7593b4ce99dfb Homepage: https://cran.r-project.org/package=covatest Description: CRAN Package 'covatest' (Tests on Properties of Space-Time Covariance Functions) Tests on properties of space-time covariance functions. Tests on symmetry, separability and for assessing different forms of non-separability are available. Moreover tests on some classes of covariance functions, such that the classes of product-sum models, Gneiting models and integrated product models have been provided. It is the companion R package to the papers of Cappello, C., De Iaco, S., Posa, D., 2018, Testing the type of non-separability and some classes of space-time covariance function models and Cappello, C., De Iaco, S., Posa, D., 2020, covatest: an R package for selecting a class of space-time covariance functions . 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The hypothesis can be specified through a corresponding hypothesis matrix and a vector or by choosing one of the basic hypotheses, while for the structure test, only the latter works. Thereby Monte-Carlo and Bootstrap-techniques are used, and the respective method must be chosen, and the functions provide p-values and mostly also estimators of calculated covariance matrices of test statistics. For more details on the methodology, see Sattler et al. (2022) , Sattler and Pauly (2024) , and Sattler and Dobler (2025) . 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Detailed description of the methods in Chianucci et al. (2022) . Package: r-cran-covfefe Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tokenizers Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-covfefe_0.1.0-1.ca2004.1_all.deb Size: 19956 MD5sum: d73a2a1384d1d20fbe3b932ffd5f6db1 SHA1: 125593d76376a50a13509d5e4394a540e9a26efa SHA256: 5deef7b9b060a4b1819ed0f6ddf160e8415e48a0b31f42df8d613ca0ff32dcbf SHA512: 262cf22b5fa8bfc083cd8ba473c6e66a0926fb9be8e5c18ae69c577e474ee9bf9100c2f416a79795fe42f4b2e7ca72e490cd971ba5193f4f2c426529635f21ee Homepage: https://cran.r-project.org/package=covfefe Description: CRAN Package 'covfefe' (Covfefy Any Word, Sentence or Speech) Converts any word, sentence or speech into Trump's infamous "covfefe" format. Reference: . Inspiration thanks to: . Package: r-cran-covid19.analytics Architecture: all Version: 2.1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5035 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-readxl, r-cran-ape, r-cran-rentrez, r-cran-curl, r-cran-plotly, r-cran-htmlwidgets, r-cran-desolve, r-cran-gplots, r-cran-pheatmap, r-cran-shiny, r-cran-shinydashboard, r-cran-shinycssloaders, r-cran-dt, r-cran-dplyr, r-cran-collapsibletree Suggests: r-cran-knitr, r-cran-devtools, r-cran-roxygen2, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-covid19.analytics_2.1.3.3-1.ca2004.1_all.deb Size: 3272016 MD5sum: 609450c500c568bd4604b9200a669f79 SHA1: d6c662ddc87732c64f5dd2375e3a29b50218b4c6 SHA256: 3de0240bc4636a1527c304c787cb2d483743f4b66f910cf6f5c3c8ec96065ef6 SHA512: 5148513fb4ddd007abeed22a1f474546c3067de53dbb6779e885e8c17f2b1498b98892c92b325a3131fc6f4b7fc015168b23468815c535cab605be704e15c90a Homepage: https://cran.r-project.org/package=covid19.analytics Description: CRAN Package 'covid19.analytics' (Load and Analyze Live Data from the COVID-19 Pandemic) Load and analyze updated time series worldwide data of reported cases for the Novel Coronavirus Disease (COVID-19) from different sources, including the Johns Hopkins University Center for Systems Science and Engineering (JHU CSSE) data repository , "Our World in Data" among several others. The datasets reporting the COVID-19 cases are available in two main modalities, as a time series sequences and aggregated data for the last day with greater spatial resolution. Several analysis, visualization and modelling functions are available in the package that will allow the user to compute and visualize total number of cases, total number of changes and growth rate globally or for an specific geographical location, while at the same time generating models using these trends; generate interactive visualizations and generate Susceptible-Infected-Recovered (SIR) model for the disease spread. Package: r-cran-covid19 Architecture: all Version: 3.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-r.utils, r-cran-data.table Suggests: r-cran-rsqlite, r-cran-wbstats Filename: pool/dists/focal/main/r-cran-covid19_3.0.3-1.ca2004.1_all.deb Size: 34316 MD5sum: b088173724977510ead6b0e9987c2635 SHA1: b940e43a63435501b6e3c90d2b44cb18d664a6ca SHA256: 622b51571f0c5a2c14582091fb5980365c6f87b9cb2aff3e639a1def27fa165c SHA512: f8fecde3eeb9d1051cb4fb6a0847d7cff16ef8204ecad33caa18d2162e8a66526ab8c28b21b18d70f6f27fbf51f5d0cf86d8fef2f5ea12751cd56e7d11d614a5 Homepage: https://cran.r-project.org/package=COVID19 Description: CRAN Package 'COVID19' (R Interface to COVID-19 Data Hub) Provides a daily summary of COVID-19 cases, deaths, recovered, tests, vaccinations, and hospitalizations for 230+ countries, 760+ regions, and 12000+ administrative divisions of lower level. Includes policy measures, mobility data, and geospatial identifiers. Data source: COVID-19 Data Hub . Package: r-cran-covid19br Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-curl, r-cran-data.table, r-cran-dplyr, r-cran-httr, r-cran-rlang, r-cran-sf, r-cran-tidyr Suggests: r-cran-ggrepel, r-cran-kableextra, r-cran-knitr, r-cran-leaflet, r-cran-pracma, r-cran-plotly, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-covid19br_0.1.8-1.ca2004.1_all.deb Size: 149052 MD5sum: 61dfa8864ca1cfc8d0fd999b3e7255d2 SHA1: b0ec3bcf75e2d1056438663a459feca61b1ec7c4 SHA256: 94fbaae8bfa4a5f6b8e21cccf87af482926abd78e8db6137227a2501baf6fc1a SHA512: 6c9d056aed821ad87443e22885af059c32fbb9bb12e2a226eda168ac744d3021ecdf57d71cad98b1fdef3e236d8edcf9b62c34e116b9c1dbcd25efbd1d4427ee Homepage: https://cran.r-project.org/package=covid19br Description: CRAN Package 'covid19br' (Brazilian COVID-19 Pandemic Data) Set of functions to import COVID-19 pandemic data into R. The Brazilian COVID-19 data, obtained from the official Brazilian repository at , is available at country, region, state, and city-levels. The package also downloads the world-level COVID-19 data from the John Hopkins University's repository. Package: r-cran-covid19brazil Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4843 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-devtools, r-cran-dplyr Suggests: r-cran-remotes, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-covid19brazil_0.1.0-1.ca2004.1_all.deb Size: 4903544 MD5sum: 64d9ddc8527825436a0ce2ea2eb3e7e5 SHA1: e5ec71a0a240bec33878c22b3b614a03ad61f4e1 SHA256: ef6d9920365426f7fe4ad9021062e0085f94cffe4aa9bafbc3a2939c58d2a55b SHA512: f882b550aa441198de702b3d3101b80de1b05f43124ced8401edd9af41230f51b9b2fcefa3dd06eb9d64507b9fc316efcbc59bb948487b53c142bb036f8e8515 Homepage: https://cran.r-project.org/package=covid19brazil Description: CRAN Package 'covid19brazil' (COVID-19 Dataset for Brazil) Dataset with strategic information about COVID-19 in Brazil. Data for municipalities, states, region and Brazil. Data source: Sistema Unico de Saude - SUS. Package: r-cran-covid19dbcand Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1950 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-data.tree, r-cran-dt, r-cran-networkd3 Filename: pool/dists/focal/main/r-cran-covid19dbcand_0.1.1-1.ca2004.1_all.deb Size: 1503536 MD5sum: 807dbe4e8ecbcd454bdc12deff741d71 SHA1: ec9aa7b31b2000303565e1b9253cb83e7f6b3ac1 SHA256: f5fa414de62499d816b89e09d987b68809c39625dacdf029b8d49ea0fc3d9522 SHA512: 0985efd55cc5cb7fe8bc545b0d025d1203fc4eb23690287d57ec071a67eef7f817f3b379d0621687170175e6f227ada29176e3b02aa69d508e661e2c85d73afb Homepage: https://cran.r-project.org/package=covid19dbcand Description: CRAN Package 'covid19dbcand' (Selected 'Drugbank' Drugs for COVID-19 Treatment Related Data inR Format) Provides different datasets parsed from 'Drugbank' database using 'dbparser' package. It is a smaller version from 'dbdataset' package. It contains only information about COVID-19 possible treatment. Package: r-cran-covid19france Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-lubridate, r-cran-magrittr, r-cran-readr, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-covid19france_0.1.0-1.ca2004.1_all.deb Size: 18748 MD5sum: da31f2d8826290eae4054171de107ece SHA1: 10edf47d3566ca41c54b12148f2502a28e81619e SHA256: 6a15540bbaa738303f3af05d7c5dbee53a40128b3c5af0c1f182e73f53d8d352 SHA512: 8dda4d51ddfa1bd825489615751a18401146e01bd39a3e7a1942997b4c20b888cd5a51aafa4c14ae33152864fd83b4f8db77bb415248caa055970105a5c8fb3a Homepage: https://cran.r-project.org/package=covid19france Description: CRAN Package 'covid19france' (Cases of COVID-19 in France) Imports and cleans 'opencovid19-fr' data on COVID-19 in France. Package: r-cran-covid19india Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-epiestim, r-cran-cli, r-cran-gt, r-cran-httr, r-cran-glue, r-cran-janitor, r-cran-scales, r-cran-stringr, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-covid19india_0.1.4-1.ca2004.1_all.deb Size: 82964 MD5sum: 6cefc88d7533f5023985524e415f4a9d SHA1: 7a0e5dabbb4b49638c35a5a90c0d7717f136213a SHA256: 2509e4194389f637b853afc4dc7f9f91ea28b6a9846da732b6a53fc8a7de0bd2 SHA512: 8fc9f5d3c0d9093e593a71d271197756ff0d3c32145438ddc92b0ee032970012f96bb90ab4ee5c6dd7106f0d62ee2e8eb6e5374e8332e88e6daaf967d999ad57 Homepage: https://cran.r-project.org/package=covid19india Description: CRAN Package 'covid19india' (Pulling Clean Data from Covid19india.org) Pull raw and pre-cleaned versions of national and state-level COVID-19 time-series data from covid19india.org . Easily obtain and merge case count data, testing data, and vaccine data. Also assists in calculating the time-varying effective reproduction number with sensible parameters for COVID-19. Package: r-cran-covid19italy Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3215 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-devtools Suggests: r-cran-knitr, r-cran-readr, r-cran-remotes, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-covid19italy_0.3.1-1.ca2004.1_all.deb Size: 2883536 MD5sum: 7ff243e058afc36419b3b1e0e7f4697d SHA1: 5f7c32485fa6b3189b1b6ca5136053157f0c0a96 SHA256: db3302b6b0ab5ed98c07f205ee7410548fc394cb05104685996d69b8202328cf SHA512: e569e9d2bebe75a5f65dc603abbde10b7cc124a6e5255a68090b72e2eabc6dd8a8dbbaea319f685d1d095a0c24f8aa847daa3271c8822e652f1f522c8b26d510 Homepage: https://cran.r-project.org/package=covid19italy Description: CRAN Package 'covid19italy' (The 2019 Novel Coronavirus COVID-19 (2019-nCoV) Italy Dataset) Provides a daily summary of the Coronavirus (COVID-19) cases in Italy by country, region and province level. Data source: Presidenza del Consiglio dei Ministri - Dipartimento della Protezione Civile . Package: r-cran-covid19sf Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4779 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-devtools, r-cran-dplyr, r-cran-lubridate, r-cran-magrittr, r-cran-mapview, r-cran-plotly, r-cran-sf Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-covid19sf_0.1.2-1.ca2004.1_all.deb Size: 3146032 MD5sum: c12c9ea8576558f0a75ae71ae0faf88d SHA1: db618bed45ec39724caf3c2e9d12561f349568b4 SHA256: 3533200a5b87f389a0d73bc6da0b4f9469f9ead910dbdb5b15379c42648832f1 SHA512: 803007ac5da9a6ab23cb549a9d84207d52b67614cc8971297105fde8a2415f429f8461ce928ba2f1b2a129b5cec3eaf0f184b13f069c07115ecd1c33c4af7395 Homepage: https://cran.r-project.org/package=covid19sf Description: CRAN Package 'covid19sf' (The Covid19 San Francisco Dataset) Provides a verity of summary tables of the Covid19 cases in San Francisco. Data source: San Francisco, Department of Public Health - Population Health Division . Package: r-cran-covid19srilanka Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-covid19srilanka_1.1.0-1.ca2004.1_all.deb Size: 119532 MD5sum: bd38031b808cba26e4539febc2fba790 SHA1: d52a419ab483a02095135ac12e47b47416563fe6 SHA256: ad80edb6a3362e14a1e14fecf9382fb9f0297764b8d940387c66b11f3d00ad41 SHA512: c4efc3957db5a9e745c8344b316a27300016c60bdc1cc7e2f9bcee60899e881994bd4f071636ec77db7a9ab77fc3a9ffe476ca24c270e71fd277aff303b4990d Homepage: https://cran.r-project.org/package=covid19srilanka Description: CRAN Package 'covid19srilanka' (The 2019 Novel Coronavirus COVID-19 (2019-nCoV) Data in SriLanka) Provides a daily counts of the Coronavirus (COVID19) cases by districts and country. Data source: Epidemiological Unit, Ministry of Health, Sri Lanka . Package: r-cran-covid19swiss Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1292 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-devtools Suggests: r-cran-dplyr, r-cran-tidyr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-covid19swiss_0.1.0-1.ca2004.1_all.deb Size: 1215656 MD5sum: 5b0ddad4d8afab8e4b9f542c3d4a9189 SHA1: ec6cbf2299c947166b49313f62cfa077a8346b94 SHA256: 9d52baeb905d37e4f150cc30d3f94fa132ed3bb12cf3433a470a280d71bcfa36 SHA512: bff5a6f6adb31a0fa3d36863c6daa24c9c4506fd279f6169333e99c229e37a98a1ff12a70de0fd38a3e7b2c4a7f0563d6b1b195206473f910ca886d3482c4e58 Homepage: https://cran.r-project.org/package=covid19swiss Description: CRAN Package 'covid19swiss' (COVID-19 Cases in Switzerland and Principality of Liechtenstein) Provides a daily summary of the Coronavirus (COVID-19) cases in Switzerland cantons and Principality of Liechtenstein. Data source: Specialist Unit for Open Government Data Canton of Zurich . Package: r-cran-covid19tunisia Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-lubridate, r-cran-magrittr, r-cran-readr, r-cran-stringr, r-cran-tidyr, r-cran-knitr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-covid19tunisia_0.1.0-1.ca2004.1_all.deb Size: 55272 MD5sum: 740083f9b4b60e9820fefa5e49f44434 SHA1: aa0af33a98bb213241f5528c6844de14ac54e328 SHA256: 78db96066b71b8aa053aa0a42963c2d8e4c2f69ac523e8fd30421b8ffbd1a5dc SHA512: ed32c7eb6eff0759952f3b8c927b62de59020b6afb49fe214d988adce16d3047ea104f17a33f9cfe496e8d48b9ff65335a8ef2e4460f53bd229671c0ce8d3f03 Homepage: https://cran.r-project.org/package=covid19tunisia Description: CRAN Package 'covid19tunisia' (Cases of COVID-19 in Tunisia) Data personally collected about the spread of COVID-19 (SARS-COV-2) in Tunisia . Package: r-cran-covid19us Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-curl, r-cran-dplyr, r-cran-glue, r-cran-httr, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-snakecase, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-covid19us_0.1.9-1.ca2004.1_all.deb Size: 82724 MD5sum: 9936a36775c3389523c8065998f5ec3f SHA1: 795fc47b5abaac7cc4fdd1ac258621e645e079b1 SHA256: 93e348d9231f43db3a4928ff94d7a17197c8427226b53a62f201b01a04edcb8b SHA512: bc6a990f7d380fcae9c9b9586974a0f15159a250ff3cfb1bb1e642740aa86419e728aea3a30d4b3302aadfe7323ae68fa838a1270c6f83b8ff439fedd2bb2f67 Homepage: https://cran.r-project.org/package=covid19us Description: CRAN Package 'covid19us' (Cases of COVID-19 in the United States) A wrapper around the 'COVID Tracking Project API' providing data on cases of COVID-19 in the US. Package: r-cran-covidcast Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3667 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-httr, r-cran-mmwrweek, r-cran-purrr, r-cran-rlang, r-cran-sf, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-gridextra, r-cran-httptest, r-cran-knitr, r-cran-mockery, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-covidcast_0.5.2-1.ca2004.1_all.deb Size: 2636424 MD5sum: c0d3382e70fcff13788e06d3d4b804c4 SHA1: 25efc127cb36dd27320f96075fd0fdd7bc690512 SHA256: e04a08aaea2d17f086359816e34de37ce5f8d06eebc3b47c48c64f3ab66260fb SHA512: 39ca666e8d7eddd5105c5db736afe58a5368a7bb0996bf52b7fce759b6a2092529353fee88ecbb0ab42cbcd5d42b07af939d7a748884773cd16d86d314e42c93 Homepage: https://cran.r-project.org/package=covidcast Description: CRAN Package 'covidcast' (Client for Delphi's 'COVIDcast Epidata' API) Tools for Delphi's 'COVIDcast Epidata' API: data access, maps and time series plotting, and basic signal processing. The API includes a collection of numerous indicators relevant to the COVID-19 pandemic in the United States, including official reports, de-identified aggregated medical claims data, large-scale surveys of symptoms and public behavior, and mobility data, typically updated daily and at the county level. All data sources are documented at . Package: r-cran-covidibge Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1087 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-magrittr, r-cran-projmgr, r-cran-rcurl, r-cran-readr, r-cran-readxl, r-cran-survey, r-cran-tibble, r-cran-timedate Suggests: r-cran-convey, r-cran-sipdibge, r-cran-srvyr Filename: pool/dists/focal/main/r-cran-covidibge_0.2.2-1.ca2004.1_all.deb Size: 152236 MD5sum: 6e88ae656fb25d89b13685618db90bbc SHA1: 42d289a57bd25ab6cbfdd6bab4f599f732dacee7 SHA256: 818fbe944490432eca911dfb233acfda10042f682b0877ede29beba39e5c43b4 SHA512: c53fdafdb9494e122cdbed225bcebcd3bea70ca69d79b97634f080ec96db9a24e725639f1ff51b0f0d9145680f862b887ccb8a9c7703ec389831f06fd235e38e Homepage: https://cran.r-project.org/package=COVIDIBGE Description: CRAN Package 'COVIDIBGE' (Downloading, Reading and Analyzing PNAD COVID19 Microdata) Provides tools for downloading, reading and analyzing the COVID19 National Household Sample Survey - PNAD COVID19, a household survey from Brazilian Institute of Geography and Statistics - IBGE. The data must be downloaded from the official website . Further analysis must be made using package 'survey'. Package: r-cran-covidmutations Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4365 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-cowplot, r-cran-seqinr, r-cran-stringr, r-cran-ggpubr, r-cran-dplyr, r-cran-venndiagram Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-covidmutations_0.1.3-1.ca2004.1_all.deb Size: 3120300 MD5sum: 14993548c4276a4ffe41e34377d91fa8 SHA1: caf94ead05d57deb39ebb8ce968158260527b647 SHA256: 6a41297f84c2be99888d36851f59efcb8eff76e74d47d7f2f3e7bd434e2ed797 SHA512: 110723ad43a5698770d0477d9d63f365ad51e54ea4aef77fa88bf624f3498c3c956fefa8031c7e382a02f4aded6767efb5b7dced8d8c5a96efe3f65383e7515b Homepage: https://cran.r-project.org/package=CovidMutations Description: CRAN Package 'CovidMutations' (Mutation Analysis Toolkit for COVID-19 (Coronavirus Disease2019)) A feasible framework for mutation analysis and reverse transcription polymerase chain reaction (RT-PCR) assay evaluation of COVID-19, including mutation profile visualization, statistics and mutation ratio of each assay. The mutation ratio is conducive to evaluating the coverage of RT-PCR assays in large-sized samples. Mercatelli, D. and Giorgi, F. M. (2020) . Package: r-cran-covidmx Architecture: all Version: 0.7.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1410 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-dbi, r-cran-dplyr, r-cran-duckdb, r-cran-fs, r-cran-pins, r-cran-rcurl, r-cran-readr, r-cran-readxl, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-cowplot, r-cran-crayon, r-cran-dbplyr, r-cran-epiestim, r-cran-ggformula, r-cran-ggplot2, r-cran-ggstream, r-cran-ggtext, r-cran-glue, r-cran-lubridate, r-cran-metbrewer, r-cran-remotes, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-scales, r-cran-sessioninfo, r-cran-testthat, r-cran-usethis Filename: pool/dists/focal/main/r-cran-covidmx_0.7.7-1.ca2004.1_all.deb Size: 1297784 MD5sum: 14549658d9a4c9da49d70e51f0a58ca1 SHA1: 33541dd2f0fe4434e77f16b349e49bcebd4d5e12 SHA256: c46ff708429caa35e898a9c7de1b5ef81126a278e15cb732e0a69b6d4df8b884 SHA512: ecd3de3f23e8ce48953ca3ab457e8c49ba37ef3856746d315f0b3533bcfb0cc25ca05e0e06c0948a1c6bd5b4c87fa09b703195b10668524b4ea2832b373dbc6c Homepage: https://cran.r-project.org/package=covidmx Description: CRAN Package 'covidmx' (Descarga y analiza datos de COVID-19 en México) Herramientas para el análisis de datos de COVID-19 en México. Descarga y analiza los datos para COVID-19 de la Direccion General de Epidemiología de México (DGE) , la Red de Infecciones Respiratorias Agudas Graves (Red IRAG) y la Iniciativa Global para compartir todos los datos de influenza (GISAID) . English: Downloads and analyzes data of COVID-19 from the Mexican General Directorate of Epidemiology (DGE), the Network of Severe Acute Respiratory Infections (IRAG network),and the Global Initiative on Sharing All Influenza Data GISAID. Package: r-cran-covidnor Architecture: all Version: 2023.05.18-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2394 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-glue, r-cran-magrittr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-covidnor_2023.05.18-1.ca2004.1_all.deb Size: 1069196 MD5sum: f53b4d5a189fe7200b99230b034beb28 SHA1: 557a5e7cc5190561a95f403510e8a99186d6b800 SHA256: ba65dbf2da74303af2dcf2ed461ef73a61ce7b6788e50675615fbe7d375160a8 SHA512: 67ad1b788e6ef29a44e8922804c625f258bd624048facd085edea0fe241fde24674c281c7347887493669ac2706b0e2a0f6885c4482b1903cc762cdc060e4a2e Homepage: https://cran.r-project.org/package=covidnor Description: CRAN Package 'covidnor' (Public COVID-19 Data for Norway) Publicly available COVID-19 data for Norway cleaned and merged into one dataset, including PCR confirmed cases, tests, hospitalisation and vaccination. Package: r-cran-covidprobability Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 543 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-covidprobability_0.1.0-1.ca2004.1_all.deb Size: 327748 MD5sum: ec11b5051bb0994738656b1c91e18ff5 SHA1: e2be273790d28a3e70be73ad47de0b9af7155dc1 SHA256: 1fc7fe16ddc6b112372833903fcf29da3e7d3644b57ee9829958fb1a11f0f6b2 SHA512: c7add6fd1c111d0b1d114aa3381d5cc0d30e48d140a1f354072ad699950f26688bf5ec631fff500e41dc91735870623c3b16a66ecef594234b323833c68b6834 Homepage: https://cran.r-project.org/package=covidprobability Description: CRAN Package 'covidprobability' (Estimate the Unit-Wide Probability of COVID-19) We propose a method to estimate the probability of an undetected case of COVID-19 in a defined setting, when a given number of people have been exposed, with a given pretest probability of having COVID-19 as a result of that exposure. Since we are interested in undetected COVID-19, we assume no person has developed symptoms (which would warrant further investigation) and that everyone was tested on a given day, and all tested negative. Package: r-cran-covidregionaldata Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1641 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-countrycode, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-lifecycle, r-cran-lubridate, r-cran-memoise, r-cran-purrr, r-cran-r6, r-cran-readxl, r-cran-rlang, r-cran-stringr, r-cran-tidyselect, r-cran-vroom, r-cran-xml2 Suggests: r-cran-ggplot2, r-cran-ggspatial, r-cran-knitr, r-cran-mockery, r-cran-rmarkdown, r-cran-rsocrata, r-cran-rvest, r-cran-rworldmap, r-cran-sf, r-cran-spelling, r-cran-testthat, r-cran-usethis Filename: pool/dists/focal/main/r-cran-covidregionaldata_0.9.3-1.ca2004.1_all.deb Size: 1213404 MD5sum: ce617691adf8c87d9df72779a15c1e05 SHA1: d11072469b01c6c80ab2a073d21047259ce0b6e1 SHA256: 75cf3fd21c320fa9bb4e292f4feddf343351e23c73c325dcef3719fc49a4cff5 SHA512: eb9466a479a503b410f0a264f2826408e1ad4083f95f67042e650d162b2c87f10f654c06923b9a16250588e884d5b46cbc989254b552dfa818c2eaccca84a49d Homepage: https://cran.r-project.org/package=covidregionaldata Description: CRAN Package 'covidregionaldata' (Subnational Data for COVID-19 Epidemiology) An interface to subnational and national level COVID-19 data sourced from both official sources, such as Public Health England in the UK, and from other COVID-19 data collections, including the World Health Organisation (WHO), European Centre for Disease Prevention and Control (ECDC), John Hopkins University (JHU), Google Open Data and others. Designed to streamline COVID-19 data extraction, cleaning, and processing from a range of data sources in an open and transparent way. This allows users to inspect and scrutinise the data, and tools used to process it, at every step. For all countries supported, data includes a daily time-series of cases. Wherever available data is also provided for deaths, hospitalisations, and tests. National level data are also supported using a range of sources as well as line list data and links to intervention data sets. Package: r-cran-covidsymptom Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6001 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringi, r-cran-usethis Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-covidsymptom_1.0.0-1.ca2004.1_all.deb Size: 5350792 MD5sum: 8f8e90e4a2cea17f1c9755cc6c2b025e SHA1: eb42e5f97c6f5aa70f8d6bbb81daf00ac440e531 SHA256: aa871bb47675cc30c697be9c8d6807612ef6839c1115a463a4ed4b89b933828c SHA512: 9cc89c1494621eac5dd727c357d6c92f854bcb7a7a5c27a8ec05d699525cfa2c6acaba6c7660c76645289505728fbb8156fabea5625cf2b5d5bbf85ec6b3a6ae Homepage: https://cran.r-project.org/package=covidsymptom Description: CRAN Package 'covidsymptom' (COVID Symptom Study Sweden Open Dataset) The COVID Symptom Study is a non-commercial project that uses a free mobile app to facilitate real-time data collection of symptoms, exposures, and risk factors related to COVID19. The package allows easy access to summary statistics data from COVID Symptom Study Sweden. Package: r-cran-covkcd Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-covkcd_0.1-1.ca2004.1_all.deb Size: 32036 MD5sum: 15fc6da8f24fcd9ba45139ce6e8f3b6f SHA1: e4cb33224624bafcb27f12fe55baab986b8aae49 SHA256: a8c47e86c63b1df94582a26b11700548b0cd00909c22948fc80775c545b1497d SHA512: 10462a3987b93d7836fe8397a9c8757f60e6493e0f5a546e408de15a6ef28e6b93da224a5e205cb783a3890a9740b635f5d6de04aca3a164e92555e0c56799c1 Homepage: https://cran.r-project.org/package=covKCD Description: CRAN Package 'covKCD' (Covariance Estimation for Matrix Data with the Kronecker-CoreDecomposition) Matrix-variate covariance estimation via the Kronecker-core decomposition. Computes the Kronecker and core covariance matrices corresponding to an arbitrary covariance matrix, and provides an empirical Bayes covariance estimator that adaptively shrinks towards the space of separable covariance matrices. For details, see Hoff, McCormack and Zhang (2022) "Core Shrinkage Covariance Estimation for Matrix-variate data". 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The current version of the package provides the Bayesian estimates. Package: r-cran-covrobust Architecture: all Version: 1.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-covrobust_1.1-3-1.ca2004.1_all.deb Size: 26448 MD5sum: ad291e3229839168dee7652dd21d1765 SHA1: 845747d92680c9f3063267b0090f8d390e5babf6 SHA256: d6959ef9fc602d77b54d4ab6e012202cd51756034c41968fe8ae41296ce4d6e1 SHA512: 49e24aca92df9691345d9e6e75c9c000daa65489a3ab6c5bea6f002f2a443ec43fa6371709861875f2c1b48846049517d3f5e907fd182afaa2314f75b1d9a137 Homepage: https://cran.r-project.org/package=covRobust Description: CRAN Package 'covRobust' (Robust Covariance Estimation via Nearest Neighbor Cleaning) The cov.nnve() function implements robust covariance estimation by the nearest neighbor variance estimation (NNVE) method of Wang and Raftery (2002) . 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This package is based on model-free backward elimination algorithms proposed in de Luna, Waernbaum and Richardson (2011). Marginal co-ordinate hypothesis testing is used in situations where all covariates are continuous while kernel-based smoothing appropriate for mixed data is used otherwise. 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A complete descriptions of the implemented tests can be found in the paper Aston, John A. D.; Pigoli, Davide; Tavakoli, Shahin. Tests for separability in nonparametric covariance operators of random surfaces. Ann. Statist. 45 (2017), no. 4, 1431--1461. . 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Marginal information may be fully specified, for which the package implements the VITA (VIne-To-Anything) algorithm Grønneberg and Foldnes (2017) . See also Grønneberg, Foldnes and Marcoulides (2022) . Alternatively, marginal skewness and kurtosis may be specified, for which the package implements the IG (independent generator) and PLSIM (piecewise linear) algorithms, see Foldnes and Olsson (2016) and Foldnes and Grønneberg (2021) , respectively. 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The visualization of that function looks like a quarter segment of a cowbell giving the package its name. The package has been specifically constructed for the case where minimum and maximum value of the dependent and two independent variables are known a prior, which is usually the case when those values are derived from Likert scales. 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The package was originally written for internal use in the Wilke lab, hence the name (Claus O. Wilke's plot package). It has also been used extensively in the book Fundamentals of Data Visualization. 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An augmented inverse probability weighted estimator that involves 3 working models, one for conditional failure time T, one for conditional censoring time C and one for propensity score. Both models for T and C can depend on both a binary treatment A and additional baseline covariates Z, while the propensity score model only depends on Z. With the help of cross-fitting techniques, achieves the rate-doubly robust property that allows the use of most machine learning or non-parametric methods for all 3 working models, which are not permitted in classic inverse probability weighting or doubly robust estimators. When the proportional hazard assumption is violated, CoxAIPW estimates a causal estimated that is a weighted average of the time-varying log hazard ratio. Reference: Luo, J. (2023). Statistical Robustness - Distributed Linear Regression, Informative Censoring, Causal Inference, and Non-Proportional Hazards [Unpublished doctoral dissertation]. University of California San Diego.; Luo & Xu (2022) ; Rava (2021) . 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Contains support for hierarchical clustering, k-means, partitioning around medoids, density-based spatial clustering with noise, and manually imposed cluster membership. Mehlhaff (forthcoming) . 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Computational Statistics & Data Analysis, 54(12), 3446-3457. doi:10.1016/j.csda.2010.03.010 Package: r-cran-cpcat Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cpcat_1.0.0-1.ca2004.1_all.deb Size: 34852 MD5sum: 8dd04ebb25c9765781a6035547fe7fb4 SHA1: 7e289c1066ebca2144073b3cf12f30ee28cbf6e2 SHA256: 5213914d806a861b54370521cd7fd20241b8f99615192a292b8475370d55c67d SHA512: cffe233a5fa3cedca1b34dc01062434a9386b7cc2648be211312b711b38a8972bde86f66430109a6954652471f9e00725d0b1ff77fec2b29374c3fd9915df772 Homepage: https://cran.r-project.org/package=CPCAT Description: CRAN Package 'CPCAT' (The Closure Principle Computational Approach Test) P-values and no/lowest observed (adverse) effect concentration values derived from the closure principle computational approach test (Lehmann, R. et al. (2015) ) are provided. The package contains functions to generate intersection hypotheses according to the closure principle (Bretz, F., Hothorn, T., Westfall, P. (2010) ), an implementation of the computational approach test (Ching-Hui, C., Nabendu, P., Jyh-Jiuan, L. (2010) ) and the combination of both, that is, the closure principle computational approach test. Package: r-cran-cpd Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 193 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-hypergeo, r-cran-rdpack, r-cran-dgof Filename: pool/dists/focal/main/r-cran-cpd_0.3.3-1.ca2004.1_all.deb Size: 157820 MD5sum: d28d6cb1f64d585cd6edc9c46460fc76 SHA1: b03565d8989cee130ce77f357fcf35ac1303f2fb SHA256: a228ad22a6f0d225097a7ea89372299bb55fcf3c8297958c0f293f0449a59549 SHA512: 162412aac51dc9e68d1fce9074c40f1b5c60e71fa1037dac2f825f6c4fbc0d295b67dfffe5ebf0180b0420058f57065e82fcbc4d4afe12b985cba0c92b387e77 Homepage: https://cran.r-project.org/package=cpd Description: CRAN Package 'cpd' (Complex Pearson Distributions) Probability mass function, distribution function, quantile function and random generation for the Complex Triparametric Pearson (CTP) and Complex Biparametric Pearson (CBP) distributions developed by Rodriguez-Avi et al (2003) , Rodriguez-Avi et al (2004) and Olmo-Jimenez et al (2018) . The package also contains maximum-likelihood fitting functions for these models. Package: r-cran-cpfa Architecture: all Version: 1.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 535 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-multiway, r-cran-glmnet, r-cran-e1071, r-cran-randomforest, r-cran-nnet, r-cran-rda, r-cran-xgboost, r-cran-foreach, r-cran-doparallel Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cpfa_1.2-0-1.ca2004.1_all.deb Size: 489032 MD5sum: 1b328c1c53e34d9f51e8a5eaf4cbd2ef SHA1: 144450afa7509c5e851c84ef818067fc88fc858b SHA256: 90f13aaa238a7df6953888f3e6b4a54acfc09b374af12552d013316a780faa49 SHA512: c3c5ed7fcaf4c473e2b907262755a43edba67c99811960285acc1433709a7a1ca5a2a4f1ba33442d2c4764f33de2b0ba012eb7f5067a6ca8433057bb044c9488 Homepage: https://cran.r-project.org/package=cpfa Description: CRAN Package 'cpfa' (Classification with Parallel Factor Analysis) Classification using Richard A. Harshman's Parallel Factor Analysis-1 (Parafac) model or Parallel Factor Analysis-2 (Parafac2) model fit to a three-way or four-way data array. See Harshman and Lundy (1994): . Uses component weights from one mode of a Parafac or Parafac2 model as features to tune parameters for one or more classification methods via a k-fold cross-validation procedure. Allows for constraints on different tensor modes. Supports penalized logistic regression, support vector machine, random forest, feed-forward neural network, regularized discriminant analysis, and gradient boosting machine. Supports binary and multiclass classification. Predicts class labels or class probabilities and calculates multiple classification performance measures. Implements parallel computing via the 'parallel' and 'doParallel' packages. Package: r-cran-cpgassoc Architecture: all Version: 2.70-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2156 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlme Filename: pool/dists/focal/main/r-cran-cpgassoc_2.70-1.ca2004.1_all.deb Size: 1971064 MD5sum: 25bc7522567bcd3ecaddf430e6e60707 SHA1: 4558c77f5b84b0a9e5e1e7cfc859580c44c90510 SHA256: a8970f84106fd224698bc45482bbb16f676d262c23dfe486405c7a5e73e2e4a2 SHA512: a4979de26adbd63fafc3b35f9cac7ff8c4ca9783edf1e718cbf75015215baf0567b4be3e86a7e7d7296bfe3c4495b5d8ad0258448df74c997a0464d2b42a0951 Homepage: https://cran.r-project.org/package=CpGassoc Description: CRAN Package 'CpGassoc' (Association Between Methylation and a Phenotype of Interest) Is designed to test for association between methylation at CpG sites across the genome and a phenotype of interest, adjusting for any relevant covariates. The package can perform standard analyses of large datasets very quickly with no need to impute the data. It can also handle mixed effects models with chip or batch entering the model as a random intercept. Also includes tools to apply quality control filters, perform permutation tests, and create QQ plots, manhattan plots, and scatterplots for individual CpG sites. 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Including the large number of un-replicated samples improves ICC estimates dramatically. The method accommodates any replicate design. 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Includes functions to retrieve, clean, and organize data directly from the Transparency Portal and a curated dataset hosted on the Open Science Framework . Useful for public spending analysis, transparency research, and reproducible workflows in auditing or investigative journalism. 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Implements a conditional variable importance measure which can be applied to any supervised learning algorithm and loss function. Provides statistical inference procedures without parametric assumptions and applies equally well to continuous and categorical predictors and outcomes. Package: r-cran-cpk Architecture: all Version: 1.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 670 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cpk_1.3-1-1.ca2004.1_all.deb Size: 563120 MD5sum: 4a422d7b2360f69a5c29bf8ef00b97e1 SHA1: a86a6a17e65104464315e7ee9fbd98c93c94d8b3 SHA256: 542b6fbafb7232947ea8599c38a44d0d0817d24d1e547462588b2a6ea1baf38b SHA512: d8016f414b4c75d720844233c31bb64c23ef1d37e44fe33d5ecf58768c6d99557865a7c8b6e9388c91774ae9836a6069757850f32c94f737cc84c9840e388523 Homepage: https://cran.r-project.org/package=cpk Description: CRAN Package 'cpk' (Clinical Pharmacokinetics) The package cpk provides simplified clinical pharmacokinetic functions for dose regimen design and modification at the point-of-care. Currently, the following functions are available: (1) ttc.fn for target therapeutic concentration, (2) dr.fn for dose rate, (3) di.fn for dosing interval, (4) dm.fn for maintenance dose, (5) bc.ttc.fn for back calculation, (6) ar.fn for accumulation ratio, (7) dpo.fn for orally administered dose, (8) cmax.fn for peak concentration, (9) css.fn for steady-state concentration, (10) cmin.fn for trough,(11) ct.fn for concentration-time predictions, (12) dlcmax.fn for calculating loading dose based on drug's maximum concentration, (13) dlar.fn for calculating loading dose based on drug's accumulation ratio, and (14) R0.fn for calculating drug infusion rate. Reference: Linares O, Linares A. Computational opioid prescribing: A novel application of clinical pharmacokinetics. J Pain Palliat Care Pharmacother 2011;25:125-135. Package: r-cran-cplots Architecture: all Version: 0.5-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-circular Filename: pool/dists/focal/main/r-cran-cplots_0.5-0-1.ca2004.1_all.deb Size: 76608 MD5sum: eea38af11579b551c6878f6c87917d2c SHA1: 91c5613f6cdd6612dde5a91a1d2219aff55fb0b6 SHA256: c0e2a078053bef03fa62c3de24d3b8d32403237bcb5fd9b2af44fd23aac61cc4 SHA512: 85dd628bbb0047c9ef1d8754253a3325418b5b9488df460c5a77045a8ae90bcc65beb7bf5c9f2fe16304d25c00dae94855090eea3f84896fdc1504a2f1bad83f Homepage: https://cran.r-project.org/package=cplots Description: CRAN Package 'cplots' (Plots for Circular Data) Provides functions to produce some circular plots for circular data, in a height- or area-proportional manner. They include bar plots, smooth density plots, stacked dot plots, histograms, multi-class stacked smooth density plots, and multi-class stacked histograms. Package: r-cran-cpmbigdata Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rms, r-cran-hmisc, r-cran-doparallel, r-cran-foreach, r-cran-iterators, r-cran-benchmarkme Filename: pool/dists/focal/main/r-cran-cpmbigdata_0.0.2-1.ca2004.1_all.deb Size: 37276 MD5sum: 4a3097fd6cfdf68e11d49e9f128a5b3a SHA1: 132c740ea8de9fefa34fd33236b66b71b4a5d442 SHA256: 27eb4ba5133cf4b0841d23086f9480df8af41b18cd58762d2eaa7eb7255b12ac SHA512: 16d55b9dbe975495d6436a3682546e9bfb87b9b21c27cfc52970614d70480961831bd945dec5a2eedbf8a5e1e8880daee7b5122f513046b9756381940c1b5b42 Homepage: https://cran.r-project.org/package=cpmBigData Description: CRAN Package 'cpmBigData' (Fitting Semiparametric Cumulative Probability Models for BigData) A big data version for fitting cumulative probability models using the orm() function from the 'rms' package. See Liu et al. (2017) for details. Package: r-cran-cpmcglm Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-plyr, r-cran-abind Filename: pool/dists/focal/main/r-cran-cpmcglm_1.2-1.ca2004.1_all.deb Size: 85416 MD5sum: 9ff040be213e543d3aa8fe9a79e1dd83 SHA1: 67fb8928a89a91f359b25e61a67348193ebe42c6 SHA256: eac06bb16e6a4391e02d79a59a555133ab94c25de2a9879c9f0140f3e4e6dd57 SHA512: 81b40cb0bddc173bab49b240cf25b46fe23ba90815fe472d0641d65e2b17f8e771625413a00300f0e301cc62460e2731fea15342c2fc976a3f655e5792c20984 Homepage: https://cran.r-project.org/package=CPMCGLM Description: CRAN Package 'CPMCGLM' (Correction of the P-Value after Multiple Coding in GeneralizedLinear Models) We propose to determine the correction of the significance level after multiple coding of an explanatory variable in Generalized Linear Model. The different methods of correction of the p-value are the Single step Bonferroni procedure, and resampling based methods developed by P.H.Westfall in 1993. Resampling methods are based on the permutation and the parametric bootstrap procedure. If some continuous, and dichotomous transformations are performed this package offers an exact correction of the p-value developed by B.Liquet & D.Commenges in 2005. The naive method with no correction is also available. Package: r-cran-cpmerccutoff Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cpmerccutoff_1.0.0-1.ca2004.1_all.deb Size: 80136 MD5sum: 430252327c519452b67cd63460ea452a SHA1: 39136beaf05fc66310fcf0291b06aa638823e640 SHA256: bc77d1d126c20f5f3bf10624b09ff28263631453f2cc0706f2fa64829754e027 SHA512: 371008c151fa7ef3ccf6b9dd63de72acdeeac65101c79c96e1e244afdbd8e3c6cb17897f4774b32b873d989fde32ee6b8f32ccbaff92a82249078534bf5e6a65 Homepage: https://cran.r-project.org/package=CpmERCCutoff Description: CRAN Package 'CpmERCCutoff' (Calculation of Log2 Counts per Million Cutoff from ERCC Controls) Implementation of the empirical method to derive log2 counts per million (CPM) cutoff to filter out lowly expressed genes using ERCC spike-ins as described in Goll and Bosinger et.al (2022). This package utilizes the synthetic mRNA control pairs developed by the External RNA Controls Consortium (ERCC) (ERCC 1 / ERCC 2) that are spiked into sample pairs at known ratios at various absolute abundances. The relationship between the observed and expected fold changes is then used to empirically determine an optimal log2 CPM cutoff for filtering out lowly expressed genes. Package: r-cran-cpmr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-generics, r-cran-rfast, r-cran-tibble Suggests: r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-cpmr_0.1.0-1.ca2004.1_all.deb Size: 41172 MD5sum: aac1b2990628314e859f82175d2f3b2a SHA1: 2325fe8ceccaf27c79373004059b2ffa16562cb0 SHA256: d19709f1f7db89640bea595f83e6c1728b950c9f3e438b39562114b12509081b SHA512: 9fe44d3d2b5b00bd113685ed9e8b4da9540e2231a308679d36edcb8db17a686057d4d9d9e46e7f3cdccee8c654d65b407e23b27e6909d435df40b21ce6a7f041 Homepage: https://cran.r-project.org/package=cpmr Description: CRAN Package 'cpmr' (Connectome Predictive Modelling in R) Connectome Predictive Modelling (CPM) (Shen et al. (2017) ) is a method to predict individual differences in behaviour from brain functional connectivity. 'cpmr' provides a simple yet efficient implementation of this method. Package: r-cran-cpncoverageanalysis Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cpncoverageanalysis_1.1.0-1.ca2004.1_all.deb Size: 45492 MD5sum: e0b1d35ba72a61d2e2ceb49bbd4528e4 SHA1: 849efa4410cc28e886dbe070b2a602229718d170 SHA256: 8b19fc85c9947ad8b8fc577271a7f7555b9e35976eb4e626f3818c9ab849209b SHA512: 99d04d84f4fc25f9e41f6f7474967e5b5a12b59007ef9afcf8aaeac590ccee65a2ce49b45437796b793c492f826a0cd5c2bb0d3c9f22180ab6d27a35c0afadd1 Homepage: https://cran.r-project.org/package=CPNCoverageAnalysis Description: CRAN Package 'CPNCoverageAnalysis' (Conceptual Properties Norming Studies as Parameter Estimation) Implementation of conceptual properties norming studies, including estimates of CPNs parameters with their corresponding variances and estimates for the sampling process, and a sampling property function based on a modified empirical distribution from the original data. 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Compared to other approaches 'cpp11' strives to be safe against long jumps from the C API as well as C++ exceptions, conform to normal R function semantics and supports interaction with 'ALTREP' vectors. 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Package: r-cran-cpsr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-tibble Filename: pool/dists/focal/main/r-cran-cpsr_1.0.0-1.ca2004.1_all.deb Size: 22736 MD5sum: 8d5338e42901bd55ac907b9e5ffe1fad SHA1: ee7710475d17c84c258a04bfc74fc7861880a673 SHA256: b18d8a666dc79a66cabbf64153d4724535104129ccb0fb2f0a29b58185e3b55d SHA512: 322f0c00ec7a23e316ab658d8330446521d7948589187b3a1d252a7c26c387d22e37ff70bf07ea5e8609933cd334ebf9eba38a1e343000bd866a0b12630f5f77 Homepage: https://cran.r-project.org/package=cpsR Description: CRAN Package 'cpsR' (Load CPS Microdata into R Using the 'Census Bureau Data' API) Load Current Population Survey (CPS) microdata into R using the 'Census Bureau Data' API (), including basic monthly CPS and CPS ASEC microdata. 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Provides documentation for appropriate use of sample weights to generate statistical estimates, drawing from Hur & Achen (2013) and McDonald (2018) . Package: r-cran-cpt Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-nnet, r-cran-randomforest, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-cpt_1.0.2-1.ca2004.1_all.deb Size: 33392 MD5sum: 2c6ec7dde38ced5c97dd17b0a8a6a601 SHA1: 046b21b9725d8e6e61d6258c3baba213dad6b261 SHA256: 580ef026d38311093a4021c69b58a1d7617da3465db1893b3336ef611e2b6fe2 SHA512: b896f206fa57da947f79d5ae3863d037f7605c6f7f4a09cd2b0ce76e01a6dfa315a1c576e8c503b682f5e8a6cbca194a9e851492d31f02d76e1ea5cc6afa78e2 Homepage: https://cran.r-project.org/package=cpt Description: CRAN Package 'cpt' (Classification Permutation Test) Non-parametric test for equality of multivariate distributions. 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Package: r-cran-cptec Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-magrittr, r-cran-rvest, r-cran-xml2 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-cptec_0.1.1-1.ca2004.1_all.deb Size: 46044 MD5sum: cc665d7a3c2687dc19c126fe033dafa3 SHA1: b7895bf14d9dcb39c4a2530b0769fbb1551410a2 SHA256: 7dd59f58348bdd137c4d9d77402bdb7598198d94bd954c59cd212a86750dd7ea SHA512: 1e0b06675c61bc65204a26b3071afa872cfc7d7512fd586376883b189125792f9f5df14cf7088e386eff4f1342e603c55df4baaa7174dc0cab228e25dbd62573 Homepage: https://cran.r-project.org/package=cptec Description: CRAN Package 'cptec' (An Interface to the 'CPTEC/INPE' API) Allows to retrieve data from the 'CPTEC/INPE' weather forecast API. 'CPTEC' stands for 'Centro de Previsão de Tempo e Estudos Climáticos' and 'INPE' for 'Instituto Nacional de Pesquisas Espaciais'. 'CPTEC' is the most advanced numerical weather and climate forecasting center in Latin America, with high-precision short and medium-term weather forecasting since the beginning of 1995. See for more information. Package: r-cran-cqcr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 662 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-anytime, r-cran-snakecase, r-cran-rlang, r-cran-purrr Suggests: r-cran-testthat, r-cran-covr, r-cran-tibble, r-cran-knitr, r-cran-rmarkdown, r-cran-leaflet, r-cran-scales, r-cran-htmltools Filename: pool/dists/focal/main/r-cran-cqcr_0.1.2-1.ca2004.1_all.deb Size: 186964 MD5sum: 3fc25ec2ee2136d8c885c80eeb6a0ce5 SHA1: e0659c70bb32ead08a8ab008ac3406b9a7168566 SHA256: 3b10ceef33e4552b52f555ca228737a86a5a47a4e02ff5f607a6ea7ebecc3474 SHA512: 432dadf84e9b5dcaeeee37eb9150556126be46f97b38345e1cb5c7f07d4d68a366d6b8ea2e75c67a733a997df6a403a19cced8748af7b7931851308df5fc0790 Homepage: https://cran.r-project.org/package=cqcr Description: CRAN Package 'cqcr' (Access 'Care Quality Commission' Data) Access data from the 'Care Quality Commission', the health and adult social care regulator for England. 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The quadratic exponential model is suitable for the analysis of binary longitudinal data when state dependence (further to the effect of the covariates and a time-fixed individual intercept) has to be taken into account. Therefore, this is an alternative to the dynamic logit model having the advantage of easily allowing conditional inference in order to eliminate the individual intercepts and then getting consistent estimates of the parameters of main interest (for the covariates and the lagged response). The simplified version of this model does not distinguish, as the original model does, between the last time occasion and the previous occasions. The modified version formulates in a different way the interaction terms and it may be used to test in a easy way state dependence as shown in Bartolucci, F., Nigro, V. & Pigini, C. (2018, Econometric Reviews) . The package also includes estimation of the dynamic logit model by a pseudo conditional estimator based on the quadratic exponential model, as proposed by Bartolucci, F. & Nigro, V. (2012, Journal of Econometrics) . For large time dimensions of the panel, the computation of the proposed models involves a recursive function from Krailo M. D., & Pike M. C. (1984, Journal of the Royal Statistical Society. Series C (Applied Statistics)) and Bartolucci F., Valentini, F. & Pigini C. (2021, Computational Economics . 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Package: r-cran-createlogicalpcm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-createlogicalpcm_0.1.0-1.ca2004.1_all.deb Size: 18100 MD5sum: fc61d1ebba54e7d0b93c2f49c2165b68 SHA1: d381a293af3c5b4a00c760b2da73c75d3548135e SHA256: 2e1dadc0041a4691fe3cc817c91bb2cc48cd7289701723c67858d811ed4d5945 SHA512: 5e45c9eeb07de57b49c37af96201e4cb557831a4fe46eacbe39e867c8256fd82ab385213f17cfe595d7cbdafdbb0aa069719c280c5cbdd5ec506dfeee6c2cdba Homepage: https://cran.r-project.org/package=createLogicalPCM Description: CRAN Package 'createLogicalPCM' (Create Logical Pairwise Comparison Matrix for the AnalyticHierarchy Process) Create Pairwise Comparison Matrices for use in the Analytic Hierarchy Process. The Pairwise Comparison Matrix created will be a logical matrix, which unlike a random comparison matrix, is similar to what a rational decision maker would create on the basis of a preference vector for the alternatives considered. Package: r-cran-credentials Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 311 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openssl, r-cran-sys, r-cran-curl, r-cran-jsonlite, r-cran-askpass Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-credentials_2.0.2-1.ca2004.1_all.deb Size: 216172 MD5sum: e74985fe1ea5e33bc96ccdf39b51fd54 SHA1: db8d6e3f92b7eb637161425d4ac251d1c7fbb6a1 SHA256: 26f22d9241519c7650961970ef676e6b2ae85038c817b6d884edf0a0f50e89b9 SHA512: 578c7e7c96e6185f5dd803b9c1eac6400dfa008f3fbbb4108f1e68af8b2557599650612755ba7e5334d9a4e1c04ea0ae03a3419fdea71fd40b4caba4d7171973 Homepage: https://cran.r-project.org/package=credentials Description: CRAN Package 'credentials' (Tools for Managing SSH and Git Credentials) Setup and retrieve HTTPS and SSH credentials for use with 'git' and other services. For HTTPS remotes the package interfaces the 'git-credential' utility which 'git' uses to store HTTP usernames and passwords. For SSH remotes we provide convenient functions to find or generate appropriate SSH keys. The package both helps the user to setup a local git installation, and also provides a back-end for git/ssh client libraries to authenticate with existing user credentials. Package: r-cran-creditas Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rvest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-creditas_0.2.0-1.ca2004.1_all.deb Size: 27900 MD5sum: 76a9a9b5b41096a7247b9cc1d23ab221 SHA1: 9848ce7038a20deeab57fbe4cabc9a484c2eecb7 SHA256: b72539f90bede5ee0d17a16d16b26a6a401e06d3553d015a235650381d74d36e SHA512: bed0b61a4c8eeade503422e4e3467554ad4d18ba4a65c352ce1c9908ccd9f2a45249239a517aea60538609fa9da8f9ec99ab9666b2f76c2db2c111cae4946f55 Homepage: https://cran.r-project.org/package=CRediTas Description: CRAN Package 'CRediTas' (Generate CRediT Author Statements) A tiny package to generate CRediT author statements (). It provides three functions: create a template, read it back and generate the CRediT author statement in a text file. Package: r-cran-creditmodel Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4336 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-foreach, r-cran-doparallel, r-cran-glmnet, r-cran-rpart, r-cran-cli, r-cran-xgboost Suggests: r-cran-pdp, r-cran-pmml, r-cran-xml, r-cran-knitr, r-cran-gbm, r-cran-randomforest, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-creditmodel_1.3.1-1.ca2004.1_all.deb Size: 4212644 MD5sum: 4164b59eacecf03fb0421084733eb2ef SHA1: b06802ef87031f0bc517a80c17208686725ce77f SHA256: a2438fe3e6f00e277a1c97d3105c99bb1722d08243dad27aa65340b26b06c343 SHA512: 3870c716f5c0cc305b57a0e89be71ae1ed7d5e76192b346e1c5a893751ecc57150bb4f15ba689c9705f40f12ec5364f5675dcffcc850c894e47aeb1c8c695507 Homepage: https://cran.r-project.org/package=creditmodel Description: CRAN Package 'creditmodel' (Toolkit for Credit Modeling, Analysis and Visualization) Provides a highly efficient R tool suite for Credit Modeling, Analysis and Visualization.Contains infrastructure functionalities such as data exploration and preparation, missing values treatment, outliers treatment, variable derivation, variable selection, dimensionality reduction, grid search for hyper parameters, data mining and visualization, model evaluation, strategy analysis etc. This package is designed to make the development of binary classification models (machine learning based models as well as credit scorecard) simpler and faster. The references including: 1 Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard: Development and Implementation Using SAS; 2 Bezdek, James C.FCM: The fuzzy c-means clustering algorithm. Computers & Geosciences (0098-3004),. Package: r-cran-creditrisk Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-creditrisk_0.1.7-1.ca2004.1_all.deb Size: 81632 MD5sum: b5e9647f56941fa11cf3ba7bd180dff1 SHA1: 1bbed5320c3d51146ce7324e2afac0a17c94be01 SHA256: eaa4d0b77cf66a6963386a65c67b7f3c63347e83cfb92a4001f0b933e6764206 SHA512: fb92aebf10c81f4005e8776d30e39ce4da91053a14df4ecf0a5bb1fe96a05ff5bf32f17b3917358610744fbbbd6e3102be9b9a31287293435af5f81c7ae3e272 Homepage: https://cran.r-project.org/package=CreditRisk Description: CRAN Package 'CreditRisk' (Evaluation of Credit Risk with Structural and Reduced FormModels) Evaluation of default probability of sovereign and corporate entities based on structural or intensity based models and calibration on market Credit Default Swap quotes. References: Damiano Brigo, Massimo Morini, Andrea Pallavicini (2013) . Print ISBN: 9780470748466, Online ISBN: 9781118818589. © 2013 John Wiley & Sons Ltd. Package: r-cran-creds Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-creds_0.1.0-1.ca2004.1_all.deb Size: 20828 MD5sum: f7774eedd32bca9ea5b77dbc1ff48e36 SHA1: d6beb8069206ae8d769a125610edede41cd8a0d8 SHA256: 580af8812972cd481a1dcf29b7de0ab5f03b38b2d15caa7864ff25559608113a SHA512: 79f9c620ae26ef0b4d4a3ff63e442ab9571a9e431dce8aaa0aaa81b2e8093b4ace098899b67a64bca165c123376dfc2bdca61ae008fda5318e12a855849ba7eb Homepage: https://cran.r-project.org/package=CREDS Description: CRAN Package 'CREDS' (Calibrated Ratio Estimator under Double Sampling Design) Population ratio estimator (calibrated) under two-phase random sampling design has gained enormous popularity in the recent time. This package provides functions for estimation population ratio (calibrated) under two phase sampling design, including the approximate variance of the ratio estimator. The improved ratio estimator can be applicable for both the case, when auxiliary data is available at unit level or aggregate level (eg., mean or total) for first phase sampled. Calibration weight of each unit of the second phase sample was calculated. Single and combined inclusion probabilities were also estimated for both phases under two phase random [simple random sampling without replacement (SRSWOR)] sampling. The improved ratio estimator's percentage coefficient of variation was also determined as a measure of accuracy. This package has been developed based on the theoretical development of Islam et al. (2021) and Ozgul (2020) . Package: r-cran-credsubs Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 999 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-ff, r-cran-r.rsp, r-cran-shiny Filename: pool/dists/focal/main/r-cran-credsubs_1.1.1-1.ca2004.1_all.deb Size: 875328 MD5sum: d6e8a35961cc1cb01a54c7e20960643d SHA1: 2261c3520f239a8c8e62a25773e2af0270a06a37 SHA256: b399d1a222d8eef80f8ae3673a6b754f682e7f42604166e856786d5e330cb798 SHA512: 40e595fcec793304745b6ffc05ed8342f8f03d89f20fb2df074be62388a854d364cce0843c68a4cc1b7ab85d62268b7864f1156f97b4e1c9fbbf182426bec141 Homepage: https://cran.r-project.org/package=credsubs Description: CRAN Package 'credsubs' (Credible Subsets) Functions for constructing simultaneous credible bands and identifying subsets via the "credible subsets" (also called "credible subgroups") method. Package documentation includes the vignette included in this package, and the paper by Schnell, Fiecas, and Carlin (2020, ). Package: r-cran-creepyalien Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-beepr, r-cran-cli, r-cran-glue Filename: pool/dists/focal/main/r-cran-creepyalien_1.0.0-1.ca2004.1_all.deb Size: 84480 MD5sum: 6037bd388b0c7aca100884a959f57781 SHA1: 00a25edf6afea25fd200839be25a29e2ceed0809 SHA256: dd8b5d199522ffcdda3f1232bb811fd6cc7013bbd919aad7f199e52fe25db3ec SHA512: db06c6b5d2fc29b04b44c315da4054af215f7c3392d5ea4307d73da9e8a5caddd685db6f0a832afc2a5e6ad96043309e53cc05bc257978a10419a305d15b1615 Homepage: https://cran.r-project.org/package=creepyalien Description: CRAN Package 'creepyalien' (Puzzle Game for the R Console) Puzzle game that can be played in the R console. Help the alien to find the ship. Package: r-cran-cregg Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2049 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sandwich, r-cran-survey, r-cran-lmtest, r-cran-ggstance, r-cran-scales Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cregg_0.4.0-1.ca2004.1_all.deb Size: 1061740 MD5sum: c0982a647d4e4a66cf1390a57a16bf37 SHA1: bddccdfa9e1730b43d3fdfb0a570490bcae11a67 SHA256: 5831e51fdd0fdddb01e806c59feb7f09179cfdfd89727a057a84f23c636315e2 SHA512: 9ca9f352751d905ce5b490a227572529e3656ce6b516af544ebcddc3ad1b1c0f3f3a08685c8d1914f8042ac2a68dbf785b26ea0614332887623c172ca10c3d94 Homepage: https://cran.r-project.org/package=cregg Description: CRAN Package 'cregg' (Simple Conjoint Tidying, Analysis, and Visualization) Simple tidying, analysis, and visualization of conjoint (factorial) experiments, including estimation and visualization of average marginal component effects ('AMCEs') and marginal means ('MMs') for weighted and un-weighted survey data, along with useful reference category diagnostics and statistical tests. 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Package: r-cran-cregulome Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4475 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dbi, r-cran-httr, r-cran-rsqlite, r-cran-upsetr, r-cran-venndiagram, r-cran-ggplot2, r-cran-ggridges, r-cran-r.utils, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr, r-cran-readxl, r-bioc-annotationdbi, r-bioc-org.hs.eg.db, r-bioc-clusterprofiler Filename: pool/dists/focal/main/r-cran-cregulome_0.3.2-1.ca2004.1_all.deb Size: 1853648 MD5sum: cb372ea789f195d5188e19a040545e54 SHA1: c5688cbbf7220e9d797f406781934cbe3eac3205 SHA256: c693429f15ce185292ad99e8fd4af4c091f354f190af5c28fdf6c890f05f8a14 SHA512: 9e1cd23fd15fbb184805247cb4c406136f80b1aa9ad1c7ab5f6d63e5f5f1af6e974bd205cdb43f94c93357248f332c5c77da2b642664f9f21c83b7e4c8ccdf42 Homepage: https://cran.r-project.org/package=cRegulome Description: CRAN Package 'cRegulome' (Obtain and Visualize Regulome-Gene Expression Correlations inCancer) Builds a 'SQLite' database file of pre-calculated transcription factor/microRNA-gene correlations (co-expression) in cancer from the Cistrome Cancer Liu et al. (2011) and 'miRCancerdb' databases (in press). Provides custom classes and functions to query, tidy and plot the correlation data. Package: r-cran-crestr Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4031 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-clipr, r-cran-dbi, r-cran-openxlsx, r-cran-plot3d, r-cran-plyr, r-cran-raster, r-cran-rgdal, r-cran-rgeos, r-cran-rpostgres, r-cran-rsqlite, r-cran-scales, r-cran-sp, r-cran-stringr, r-cran-viridis Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-pals Filename: pool/dists/focal/main/r-cran-crestr_1.2.1-1.ca2004.1_all.deb Size: 3660492 MD5sum: fe3346a89c1098a5faf7bb05fc761b32 SHA1: 51793fde4d21c00b16142eecaa02e713ecfd235c SHA256: a9b9df64cf787b397af45ae82e03b71b1ce9cfd433b44076d4a3794a0a4f1bda SHA512: c2d389bbe115733eb2fcad22b0ac5776a177cc9c14ea107aff63e5601c0e2b87ba8301c0ab6d8cbe6716660fb67eb5f0f27826ba240e71ac5a59b4d10f4737b9 Homepage: https://cran.r-project.org/package=crestr Description: CRAN Package 'crestr' (A Probabilistic Approach to Reconstruct Past Climates UsingPalaeoecological Datasets) Applies the CREST climate reconstruction method. It can be used using the calibration data that can be obtained through the package or by importing private data. An ensemble of graphical outputs were designed to facilitate the use of the package and the interpretation of the results. More information can be obtained from Chevalier (2022) . Package: r-cran-crew.aws.batch Architecture: all Version: 0.0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 601 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-crew, r-cran-paws.common, r-cran-paws.compute, r-cran-paws.management, r-cran-r6, r-cran-rlang, r-cran-tibble Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-crew.aws.batch_0.0.11-1.ca2004.1_all.deb Size: 556192 MD5sum: a62d3b2ec6a6a20fe834c8099c093943 SHA1: 1330f30e805e0c7556ec692df788053d58751891 SHA256: 3014d9c5d2a419c04676b6b780ba83e66b62cd733ff3dd54d1f8156c1b3d9950 SHA512: 78c722cca807243af162114927112bc08e43d2c227a68de30e501524ac05c5bfa5441a06599d19ca991655f83ccaf7c2f5f53c626a593c5a3f53cdbea5e6cdfb Homepage: https://cran.r-project.org/package=crew.aws.batch Description: CRAN Package 'crew.aws.batch' (A Crew Launcher Plugin for AWS Batch) In computationally demanding analysis projects, statisticians and data scientists asynchronously deploy long-running tasks to distributed systems, ranging from traditional clusters to cloud services. The 'crew.aws.batch' package extends the 'mirai'-powered 'crew' package with a worker launcher plugin for AWS Batch. Inspiration also comes from packages 'mirai' by Gao (2023) , 'future' by Bengtsson (2021) , 'rrq' by FitzJohn and Ashton (2023) , 'clustermq' by Schubert (2019) ), and 'batchtools' by Lang, Bischl, and Surmann (2017). . 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The 'crew.cluster' package extends the 'mirai'-powered 'crew' package with worker launcher plugins for traditional high-performance computing systems. Inspiration also comes from packages 'mirai' by Gao (2023) , 'future' by Bengtsson (2021) , 'rrq' by FitzJohn and Ashton (2023) , 'clustermq' by Schubert (2019) ), and 'batchtools' by Lang, Bischl, and Surmann (2017). . 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The 'NNG'-powered 'mirai' R package by Gao (2023) is a sleek and sophisticated scheduler that efficiently processes these intense workloads. The 'crew' package extends 'mirai' with a unifying interface for third-party worker launchers. Inspiration also comes from packages. 'future' by Bengtsson (2021) , 'rrq' by FitzJohn and Ashton (2023) , 'clustermq' by Schubert (2019) ), and 'batchtools' by Lang, Bischel, and Surmann (2017) . Package: r-cran-cricketdata Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5424 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-jsonlite, r-cran-lubridate, r-cran-readr, r-cran-rvest, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-codetools, r-cran-gghighlight, r-cran-ggplot2, r-cran-ggtext, r-cran-glue, r-cran-here, r-cran-knitr, r-cran-paletteer, r-cran-patchwork, r-cran-rmarkdown, r-cran-r.rsp, r-cran-showtext Filename: pool/dists/focal/main/r-cran-cricketdata_0.3.0-1.ca2004.1_all.deb Size: 4547268 MD5sum: c46b0eba8732608cb6c2d529b6e90893 SHA1: d393204e2518b592b43705a0c07f5d14a1ff8328 SHA256: 06d55affb64610551ea8a15668e72d6e127d5c6c9a1a13038c51cf579ce4daa7 SHA512: 8d568f66e50b56ebf27fc37f98eca16ac4d5de2360ada12cfa11167509a83a7142f575586a1617adb76769100f39cbf23db512f1fae69e9cbbd23325ff65bb9f Homepage: https://cran.r-project.org/package=cricketdata Description: CRAN Package 'cricketdata' (International Cricket Data) Data on international and other major cricket matches from ESPNCricinfo and Cricsheet . This package provides some functions to download the data into tibbles ready for analysis. Package: r-cran-cricketr Architecture: all Version: 0.0.26-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 731 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-plotrix, r-cran-ggplot2, r-cran-scatterplot3d, r-cran-forecast, r-cran-lubridate, r-cran-xml, r-cran-httr Filename: pool/dists/focal/main/r-cran-cricketr_0.0.26-1.ca2004.1_all.deb Size: 372836 MD5sum: 02948f8bb066a157103f9e864ea941fd SHA1: 90b1f6ff4e3c216d50c637d139153b815da91f93 SHA256: 6cc427f6f82844a7b003f905f1f5f5a3da69e880bb9dd5f55d7a002eca39bb1f SHA512: b3e7071057f2952a5446cc385b5d5d09ae5dfd0f2c669650e62da8dba184d39d0d01ca8f3febd5316c390b0c1d748ac809d3484f2ac4668964e737dbd4a2be9f Homepage: https://cran.r-project.org/package=cricketr Description: CRAN Package 'cricketr' (Analyze Cricketers and Cricket Teams Based on ESPN CricinfoStatsguru) Tools for analyzing performances of cricketers based on stats in ESPN Cricinfo Statsguru. The toolset can be used for analysis of Tests,ODIs and Twenty20 matches of both batsmen and bowlers. The package can also be used to analyze team performances. Package: r-cran-crimedata Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1204 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-digest, r-cran-dplyr, r-cran-osfr, r-cran-purrr, r-cran-rlang, r-cran-sf, r-cran-stringr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-crimedata_0.3.5-1.ca2004.1_all.deb Size: 1151248 MD5sum: 860b4f7de7e260061ce3944b3e010e65 SHA1: 30fbaa151baa76e65edad7960b8e3748099a22ef SHA256: a689051586614abfba6697584dcee8be97f173be741e0eb3ce64aa0346c8e2ad SHA512: 5b660829eaccbd2b43c01c485595d830da0cdf6a2855a8b9fa08cf890061caa85300d1e54570a32102f4e337dc80c1645770a30e1228a0c7d205a20fbe994009 Homepage: https://cran.r-project.org/package=crimedata Description: CRAN Package 'crimedata' (Access Crime Data from the Open Crime Database) Gives convenient access to publicly available police-recorded open crime data from large cities in the United States that are included in the Crime Open Database . Package: r-cran-crimedatasets Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4202 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-testthat Filename: pool/dists/focal/main/r-cran-crimedatasets_0.1.0-1.ca2004.1_all.deb Size: 2164072 MD5sum: 271d47764a8ee162c28e2cb0f868ebe5 SHA1: 9f54329f53b409d730cbe834fa8ed57bbcd77586 SHA256: 74d9fb70f1bbb3414d1d16f251343b1928e08a1e8e7218cbae5459f5714ddbcd SHA512: 78b8962a6bd4c0ca3685b90e98cf7aba38db18c9f6056547f64f76bf1353d125076eaa84b3f5240e53f254a86eef8465032e804adc6a46bd9696bc06f90956d0 Homepage: https://cran.r-project.org/package=crimedatasets Description: CRAN Package 'crimedatasets' (A Comprehensive Collection of Crime-Related Datasets) A comprehensive collection of datasets exclusively focused on crimes, criminal activities, and related topics. This package serves as a valuable resource for researchers, analysts, and students interested in crime analysis, criminology, social and economic studies related to criminal behavior. Datasets span global and local contexts, with a mix of tabular and spatial data. Package: r-cran-crimelinkage Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 515 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-geosphere Suggests: r-cran-fields, r-cran-knitr, r-cran-gbm Filename: pool/dists/focal/main/r-cran-crimelinkage_0.0.4-1.ca2004.1_all.deb Size: 293684 MD5sum: 3a26cc1beb101ecd9dc5caaa54cf236d SHA1: ada50727e049890478d59dc6372f6f6f5396d315 SHA256: 6d28fa854754d0c1d912a074c9f7df6508826b7cdfd5a33c87ec5382797ac620 SHA512: ef5ebf9ed5f7a939dea1b6d94acfedda41ef9b71bd909d3e3279ef6cb085e13d41c276d096b8656dbd2f88813ee6f4f4d4d524e431697c408d79246d3afbc308 Homepage: https://cran.r-project.org/package=crimelinkage Description: CRAN Package 'crimelinkage' (Statistical Methods for Crime Series Linkage) Statistical Methods for Crime Series Linkage. This package provides code for criminal case linkage, crime series identification, crime series clustering, and suspect identification. Package: r-cran-crimeutils Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-stringr, r-cran-ggplot2, r-cran-readr, r-cran-gridextra, r-cran-scales, r-cran-magrittr, r-cran-gt, r-cran-tidyr, r-cran-rlang Suggests: r-cran-spelling, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-crimeutils_0.5.1-1.ca2004.1_all.deb Size: 99616 MD5sum: fbd7541a6e42d3b65887b62295e523b4 SHA1: 406a04415c6aa1e710b393a82cc4517ff05cb81c SHA256: 939bb19d8dffa494bb7248ba84234c45c32395f6f6c1365ea64bc6c5b3004b75 SHA512: c21626871321bfafceb79e94461f2f9d1fb0448827240a7019f17fee9b27ad74fa7b43b19a7bf3dae487f78b717484cbfe44b3472f339d4d230b7ba2a1f76f2f Homepage: https://cran.r-project.org/package=crimeutils Description: CRAN Package 'crimeutils' (A Comprehensive Set of Functions to Clean, Analyze, and PresentCrime Data) A collection of functions that make it easier to understand crime (or other) data, and assist others in understanding it. The package helps you read data from various sources, clean it, fix column names, and graph the data. Package: r-cran-crisp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-mass Filename: pool/dists/focal/main/r-cran-crisp_1.0.0-1.ca2004.1_all.deb Size: 95204 MD5sum: 06813bff6bb65b16e37eecc93c164da4 SHA1: d75f33229b7e89c4311df37bd7f86b449b347e12 SHA256: b5a5ceaa3ae7e022adbdd211b7af2ab06722837e28cc0a161616994e6fa85d19 SHA512: 8c9fe7e3a325489ec2b577b87c9e9cd92a16f86f2e56e4d1d794412f5ab806326ec319dfafbe818bd5d4b8f3e01449a34be1f7d6a86dbbe9e7b0607b850af080 Homepage: https://cran.r-project.org/package=crisp Description: CRAN Package 'crisp' (Fits a Model that Partitions the Covariate Space into Blocks ina Data- Adaptive Way) Implements convex regression with interpretable sharp partitions (CRISP), which considers the problem of predicting an outcome variable on the basis of two covariates, using an interpretable yet non-additive model. CRISP partitions the covariate space into blocks in a data-adaptive way, and fits a mean model within each block. Unlike other partitioning methods, CRISP is fit using a non-greedy approach by solving a convex optimization problem, resulting in low-variance fits. More details are provided in Petersen, A., Simon, N., and Witten, D. (2016). Convex Regression with Interpretable Sharp Partitions. Journal of Machine Learning Research, 17(94): 1-31 . Package: r-cran-crisprdesignr Architecture: all Version: 1.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2733 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-bioc-biostrings, r-cran-gbm, r-bioc-genomicranges, r-bioc-biocgenerics, r-bioc-iranges, r-bioc-genomeinfodb, r-bioc-s4vectors, r-bioc-rtracklayer, r-cran-stringr, r-cran-vtreat, r-cran-shiny, r-cran-dt Suggests: r-bioc-bsgenome.scerevisiae.ucsc.saccer3 Filename: pool/dists/focal/main/r-cran-crisprdesignr_1.1.7-1.ca2004.1_all.deb Size: 2528900 MD5sum: 1a84dbabae0aca98cf56004fec0a98cd SHA1: 1fd0602d0feff0a45960dfe0977322a2fe580cd0 SHA256: b7365880976c25d02e0d75cca9b534152a9d57890ec3d0c96fdf31db40d12907 SHA512: 9aaa0a1ac67a0abdc2d6042630b45e23b4e94f5f8e801bfd2428579a7d20de09b27734461b9ed89c16e95de81c70b15defa23621947d2c82b3a857b5a43a1ca0 Homepage: https://cran.r-project.org/package=crispRdesignR Description: CRAN Package 'crispRdesignR' (Guide Sequence Design for CRISPR/Cas9) Designs guide sequences for CRISPR/Cas9 genome editing and provides information on sequence features pertinent to guide efficiency. Sequence features include annotated off-target predictions in a user-selected genome and a predicted efficiency score based on the model described in Doench et al. (2016) . Users are able to import additional genomes and genome annotation files to use when searching and annotating off-target hits. All guide sequences and off-target data can be generated through the 'R' console with sgRNA_Design() or through 'crispRdesignR's' user interface with crispRdesignRUI(). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and the associated protein Cas9 refer to a technique used in genome editing. Package: r-cran-criticality Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 891 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-bnlearn, r-cran-dplyr, r-cran-evd, r-cran-fitdistrplus, r-cran-ggplot2, r-cran-keras, r-cran-magrittr, r-cran-reticulate, r-cran-scales Filename: pool/dists/focal/main/r-cran-criticality_0.9.3-1.ca2004.1_all.deb Size: 385208 MD5sum: 5e0a5d541c62216ae2df0733b425b35c SHA1: 5b893bb3eeec2e32d8bf2a138463491102d9d529 SHA256: d5569dc0dc3724967bde720b0af2239c70c8ed1da96cb2bcdc29e5ea733a037a SHA512: b3379398a324d318df0eeac35e9e4fe013fcfa6d69664fcf5d0f4a03ebb78e269084768f85778c8eac55c7d725cf8ec8b85bde916faf6a5e3d715a6282942172 Homepage: https://cran.r-project.org/package=criticality Description: CRAN Package 'criticality' (Modeling Fissile Material Operations in Nuclear Facilities) A collection of functions for modeling fissile material operations in nuclear facilities, based on Zywiec et al (2021) . Package: r-cran-criticalpath Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 463 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-igraph, r-cran-magrittr, r-cran-r6, r-cran-stringr, r-cran-tibble Suggests: r-cran-diagrammer, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-criticalpath_0.2.1-1.ca2004.1_all.deb Size: 275408 MD5sum: 6b709aafe9b382e94695ee6b8113d704 SHA1: fa085773befb196d3b4b121d18c1834fd1fddbf6 SHA256: 5f7ada43dd2f85c900976c46a2d6439fa2a3b852816fb14332d4811e7cde22bc SHA512: 1d4fdc914b559e1e6b5bf2aa8cbe7b0ba57d07422572052f2fc517dc28cf3e6fffe33ef8529917b356e1cf3aca9e463db65da88624cf25cb04507c2784ce47c6 Homepage: https://cran.r-project.org/package=criticalpath Description: CRAN Package 'criticalpath' (An Implementation of the Critical Path Method) An R implementation of the Critical Path Method (CPM). CPM is a method used to estimate the minimum project duration and determine the amount of scheduling flexibility on the logical network paths within the schedule model. The flexibility is in terms of early start, early finish, late start, late finish, total float and free float. Beside, it permits to quantify the complexity of network diagram through the analysis of topological indicators. Finally, it permits to change the activities duration to perform what-if scenario analysis. The package was built based on following references: To make topological sorting and other graph operation, we use Csardi, G. & Nepusz, T. (2005) ; For schedule concept, the reference was Project Management Institute (2017) ; For standards terms, we use Project Management Institute (2017) ; For algorithms on Critical Path Method development, we use Vanhoucke, M. (2013) and Vanhoucke, M. (2014) ; And, finally, for topological definitions, we use Vanhoucke, M. (2009) . Package: r-cran-critpath Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6640 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-diagrammer, r-cran-ggplot2, r-cran-reshape2, r-cran-dplyr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-critpath_0.2.3-1.ca2004.1_all.deb Size: 597532 MD5sum: 1e46ac595c75eb5d1853f418a575774a SHA1: 2bb1eb58858c06e1b50912011c53f3cc51a4a2ad SHA256: 47ccfc223f99e9fedc6592b157448d8bc4d4d73afc4db827f76bedee0037606d SHA512: d27d7ab4921d27c1f4554d00583f7b35073eaaf60424bcb8c520ba35305f08a8ab6f5f705e83ce643f33ea2714c79d3e941cc80436e75074e505536bfb3f8c51 Homepage: https://cran.r-project.org/package=critpath Description: CRAN Package 'critpath' (Setting the Critical Path in Project Management) Solving the problem of project management using CPM (Critical Path Method), PERT (Program Evaluation and Review Technique) and LESS (Least Cost Estimating and Scheduling) methods. The package sets the critical path, schedule and Gantt chart. In addition, it allows to draw a graph even with marked critical activities. For more information about project management see: Taha H. A. "Operations Research. An Introduction" (2017, ISBN:978-1-292-16554-7), Rama Murthy P. "Operations Research" (2007, ISBN:978-81-224-2944-2), Yuval Cohen & Arik Sadeh (2006) "A New Approach for Constructing and Generating AOA Networks", Journal of Engineering, Computing and Architecture 1. 1-13, Konarzewska I., Jewczak M., Kucharski A. (2020, ISBN:978-83-8220-112-3), Miszczyńska D., Miszczyński M. "Wybrane metody badań operacyjnych" (2000, ISBN:83-907712-0-9). Package: r-cran-crm12comb Architecture: all Version: 0.1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 709 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggforce Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-crm12comb_0.1.11-1.ca2004.1_all.deb Size: 462340 MD5sum: 0a6ecdb7a8a93852e833b0261e1a843f SHA1: e36971e89f52e1174ff4c2e1e6061beb85150119 SHA256: debf6d96d979812a2995eb3238d1a9ba7cefd4145042370a58946ea280bf207e SHA512: f8d7e0b611286cd25f44d2d842b13df9a573097f49ace59f159f0c9f7728e93bb2e6bd9f7fd0502c656cc4f9ad1588c97e0b36a0bb3df884901673b15dd5d9b1 Homepage: https://cran.r-project.org/package=crm12Comb Description: CRAN Package 'crm12Comb' (Phase I/II CRM Based Drug Combination Design) Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) . Package: r-cran-crmetrics Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 475 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cowplot, r-cran-dplyr, r-cran-ggbeeswarm, r-cran-ggplot2, r-cran-ggpmisc, r-cran-ggpubr, r-cran-ggrepel, r-cran-magrittr, r-cran-matrix, r-cran-r6, r-cran-scales, r-cran-sccore, r-bioc-sparsematrixstats, r-cran-tibble, r-cran-tidyr Suggests: r-cran-conos, r-cran-data.table, r-cran-markdown, r-cran-pagoda2, r-cran-reticulate, r-bioc-rhdf5, r-cran-seurat, r-cran-soupx, r-cran-testthat Filename: pool/dists/focal/main/r-cran-crmetrics_0.3.2-1.ca2004.1_all.deb Size: 420476 MD5sum: 187b644965dfcebfc3a7b8fdc87e0bb1 SHA1: af5b49794e30d325358d90373e6667da2d451bbb SHA256: 484512627546fc228321c027eea7a38cb9ab2964968b8955f9e5ef7e309c1de0 SHA512: a52f7c421a76b57b6b70784b31ab64f604fbdca847bf2daa941616968524c749c80f5dd208f9034bddf0ba21ff4a023231005a8d07d5eb308b4395ee9bda57db Homepage: https://cran.r-project.org/package=CRMetrics Description: CRAN Package 'CRMetrics' (Cell Ranger Output Filtering and Metrics Visualization) Sample and cell filtering as well as visualisation of output metrics from 'Cell Ranger' by Grace X.Y. Zheng et al. (2017) . 'CRMetrics' allows for easy plotting of output metrics across multiple samples as well as comparative plots including statistical assessments of these. 'CRMetrics' allows for easy removal of ambient RNA using 'SoupX' by Matthew D Young and Sam Behjati (2020) or 'CellBender' by Stephen J Fleming et al. (2022) . Furthermore, it is possible to preprocess data using 'Pagoda2' by Nikolas Barkas et al. (2021) or 'Seurat' by Yuhan Hao et al. (2021) followed by embedding of cells using 'Conos' by Nikolas Barkas et al. (2019) . Finally, doublets can be detected using 'scrublet' by Samuel L. Wolock et al. (2019) or 'DoubletDetection' by Gayoso et al. (2020) . In the end, cells are filtered based on user input for use in downstream applications. Package: r-cran-crmn Architecture: all Version: 0.0.21-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 534 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-pcamethods, r-bioc-biobase Filename: pool/dists/focal/main/r-cran-crmn_0.0.21-1.ca2004.1_all.deb Size: 430380 MD5sum: 31c5a054d7de1a69af7036c210f4b10a SHA1: 97dc36dec06a4775b09142ad0cadd23017330207 SHA256: ae09475971bbc19a655f749e27b369bb87c14a73f39848fe39d472c3b4c5a34b SHA512: 08b17e1b844df82369f158e4c47fea99f868cdcf3881b3fc2be0f3506473ea52eb2897ac7a1970dacb1ea54ed83b10de6baa0aa808063256c25bab7b2cff3860 Homepage: https://cran.r-project.org/package=crmn Description: CRAN Package 'crmn' (CCMN and Other Normalization Methods for Metabolomics Data) Implements the Cross-contribution Compensating Multiple standard Normalization (CCMN) method described in Redestig et al. (2009) Analytical Chemistry and other normalization algorithms. Package: r-cran-crmpack Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2181 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-gensa, r-cran-mvtnorm, r-cran-rjags, r-cran-mass Suggests: r-cran-ggmcmc, r-cran-knitr, r-cran-rcpp, r-cran-rcpparmadillo Filename: pool/dists/focal/main/r-cran-crmpack_1.0.6-1.ca2004.1_all.deb Size: 1667932 MD5sum: 1140a0002941c7fa55551169bcb29850 SHA1: 116b70671487d4af8c17123b765fa9525ec7ba74 SHA256: 01ec73118176a6581ab5a00b8abc2fb0c39cb1ff79950b127fec24e01990c280 SHA512: 3cd5adde7cb29cffac0cea738c55001ad9a593f4a585f5fbd26e0f1672c6f43384e7f527015d606b2698f31e3e5ba15f642993599d817c9b1c6d971f02bce7ba Homepage: https://cran.r-project.org/package=crmPack Description: CRAN Package 'crmPack' (Object-Oriented Implementation of CRM Designs) Implements a wide range of model-based dose escalation designs, ranging from classical and modern continual reassessment methods (CRMs) based on dose-limiting toxicity endpoints to dual-endpoint designs taking into account a biomarker/efficacy outcome. The focus is on Bayesian inference, making it very easy to setup a new design with its own JAGS code. However, it is also possible to implement 3+3 designs for comparison or models with non-Bayesian estimation. The whole package is written in a modular form in the S4 class system, making it very flexible for adaptation to new models, escalation or stopping rules. Package: r-cran-crmreg Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fnn, r-cran-ggplot2, r-cran-gplots, r-cran-pcapp, r-cran-plyr, r-cran-robustbase, r-cran-rrcov Filename: pool/dists/focal/main/r-cran-crmreg_1.0.4-1.ca2004.1_all.deb Size: 91944 MD5sum: 7cb54df8755f0572eadfc45c573ddc5d SHA1: 60057cdac2d60868ee7115d49c6b6a6a8bacbace SHA256: 0f9ee1293e8f7cbaaef674408f24063a788893f01fd4789d8dc929ac4c221731 SHA512: df6a6123abb14a2a9a571df670b000ff39245bf51f1dca7eee5975ae4c7a23b3f9a49722188fbe48d9ab50bebfde7d5024decff9d1cd2a535266124783f87ec3 Homepage: https://cran.r-project.org/package=crmReg Description: CRAN Package 'crmReg' (Cellwise Robust M-Regression and SPADIMO) Method for fitting a cellwise robust linear M-regression model (CRM, Filzmoser et al. (2020) ) that yields both a map of cellwise outliers consistent with the linear model, and a vector of regression coefficients that is robust against vertical outliers and leverage points. As a by-product, the method yields an imputed data set that contains estimates of what the values in cellwise outliers would need to amount to if they had fit the model. The package also provides diagnostic tools for analyzing casewise and cellwise outliers using sparse directions of maximal outlyingness (SPADIMO, Debruyne et al. (2019) ). Package: r-cran-crn Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-chron, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-crn_1.1-1.ca2004.1_all.deb Size: 39840 MD5sum: 852312aa7960ad313bfd77c228b3341a SHA1: f738133b0e18e16f4f497b2fa0c81349ea21a365 SHA256: 5ac479a63fd6c98617431bd8da2f60e607d72f53571255296dd73ac5d0c9a995 SHA512: f14d777ee729ff492c6238bda1bf52123f28f7ee73739fc8de43318b7cfb342a78bd8da07d1ca76da48b548837ec4702985fdda74358caa10186af44f03d32dc Homepage: https://cran.r-project.org/package=crn Description: CRAN Package 'crn' (Downloads and Builds datasets for Climate Reference Network) The crn package provides the core functions required to download and format data from the Climate Reference Network. Both daily and hourly data are downloaded from the ftp, a consolidated file of all stations is created, station metadata is extracted. In addition functions for selecting individual variables and creating R friendly datasets for them is provided. Package: r-cran-crochet Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-tinytest, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-crochet_2.3.0-1.ca2004.1_all.deb Size: 52220 MD5sum: 8c412a2efd6afcb54578f4fb8908b619 SHA1: 17ae5eba465f6eaf54a0f7647b56c948ba0823e9 SHA256: 125b838f6e57d18ea95509a6abbb9ef0090b5c6eb5188ca686cc9be68cc6e0ab SHA512: 3b10c3701220fa86ec91246f1ec3cce9fc9fec99783e7101ca037d60304087683f20eb5c499da0568d55e88be69e8c69a8a0092395efa782007f8ef0b5650c1a Homepage: https://cran.r-project.org/package=crochet Description: CRAN Package 'crochet' (Implementation Helper for '[' and '[<-' of Custom Matrix-LikeTypes) Functions to help implement the extraction / subsetting / indexing function '[' and replacement function '[<-' of custom matrix-like types (based on S3, S4, etc.), modeled as closely to the base matrix class as possible (with tests to prove it). Package: r-cran-cromwelldashboard Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-shinydashboard, r-cran-stringr, r-cran-httr, r-cran-dplyr, r-cran-dt Filename: pool/dists/focal/main/r-cran-cromwelldashboard_0.5.1-1.ca2004.1_all.deb Size: 19060 MD5sum: fa3adfcfbd6238e4d931e2f448ade949 SHA1: ce0cd7a4c762f5fdae4ea88ec99ce31ee767d797 SHA256: 199dce7a350a6d2b064af80a37c813f53eff2e3059f12afe8b12f92e661545d8 SHA512: 60f175015e3f232bd7aa9184274493d8d0c35553864846c6f74320f912f6790293bd9a0ec66721edffd1aa12d79751f9e40f10712f9d5b543e62dae69b5dcbc7 Homepage: https://cran.r-project.org/package=cromwellDashboard Description: CRAN Package 'cromwellDashboard' (A Dashboard to Visualize Scientific Workflows in 'Cromwell') A dashboard supports the usage of 'cromwell'. 'Cromwell' is a scientific workflow engine for command line users. This package utilizes 'cromwell' REST APIs and provides these convenient functions: timing diagrams for running workflows, 'cromwell' engine status, a tabular workflow list. For more information about 'cromwell', visit . Package: r-cran-cronbach Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot, r-cran-rfast Filename: pool/dists/focal/main/r-cran-cronbach_0.2-1.ca2004.1_all.deb Size: 23300 MD5sum: 2341fbd1b44bad7e24231295c261b902 SHA1: 4ac3c7572d798b444e4ef37b030d4932d5344671 SHA256: d1e9bd430f16b6e9ec940b018d75e9d87d9f19719b56b47ab90b1e89d9e88921 SHA512: bb962b28bfe1b2942050d99e1bbeb8c816ed7482523f69cc72722829adc15939775d45c2ef5821eeeff3f66e203067ec9d79030563358f6db8250043d60363f4 Homepage: https://cran.r-project.org/package=Cronbach Description: CRAN Package 'Cronbach' (Cronbach's Alpha) Cronbach's alpha and various formulas for confidence intervals. The relevant paper is Tsagris M., Frangos C.C. and Frangos C.C. (2013). "Confidence intervals for Cronbach's reliability coefficient". Recent Techniques in Educational Science, 14-16 May, Athens, Greece. Package: r-cran-crone Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1657 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-crone_0.1.1-1.ca2004.1_all.deb Size: 1283200 MD5sum: d208a38c01f40931f1541d4a95a3fd47 SHA1: 5e727f385fa9ff43bcbc749a53bfe8be654cf725 SHA256: 62d21fe947c883c2f514b378dc37a1dbb5536b1fc9305701f030dd7610600406 SHA512: 2761847d639b4daffe0eb67b88cb1178850fd40b972f67beac2bd8c8eb72a11d9d361fcd6aab795797ce9ec57b34f6d057218d6eb0bcd55a5dea407ec0574d90 Homepage: https://cran.r-project.org/package=crone Description: CRAN Package 'crone' (Structural Crystallography in 1d) Functions to carry out the most important crystallographic calculations for crystal structures made of 1d Gaussian-shaped atoms, especially useful for methods development. Main reference: E. Smith, G. Evans, J. Foadi (2017) . Package: r-cran-cronologia Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-glue Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-cronologia_0.2.0-1.ca2004.1_all.deb Size: 25128 MD5sum: cf852804a6d97312bebfc034068348fc SHA1: eb51979f9ea3ea2b85b1bf091bc0172c0679c696 SHA256: dd50a577bb3f2579664235bbd5616db24f6ba8b9df30e03c158f9cf32752506d SHA512: a559b178bfb532c2df93201a5e2533167c69dc5dfcc0a0428f53f2fd9f386191e2f6a0fbb8e3e859a028cd350909eb42084bec445484cda8462eb8d7105c9b6b Homepage: https://cran.r-project.org/package=cronologia Description: CRAN Package 'cronologia' (Create an HTML Vertical Timeline from a Data Frame in'rmarkdown' and 'shiny') Creates an HTML vertical timeline from a data frame as an input for 'rmarkdown' documents and 'shiny' applications. Package: r-cran-cronr Architecture: all Version: 0.6.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-digest Suggests: r-cran-miniui, r-cran-shiny, r-cran-shinyfiles, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-cronr_0.6.5-1.ca2004.1_all.deb Size: 77664 MD5sum: 9c9ff482f5ede06d4ac67177c0f427f6 SHA1: 57eea2ea3264ff9f8cc0af280d5c86d374eb735c SHA256: 693309b60e667df04f00c841c37412672c6a6ac88d5d1b4372fdc591e43e034e SHA512: 77433510909d8d3c0829d096ae7384af140854345d04b83fa0ca15adc241f23fb98503715ecabd65ef021f02d2231abc56e3d5d287b90333fade5a80067da6a4 Homepage: https://cran.r-project.org/package=cronR Description: CRAN Package 'cronR' (Schedule R Scripts and Processes with the 'cron' Job Scheduler) Create, edit, and remove 'cron' jobs on your unix-alike system. The package provides a set of easy-to-use wrappers to 'crontab'. It also provides an RStudio add-in to easily launch and schedule your scripts. Package: r-cran-crop Architecture: all Version: 0.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-crop_0.0-3-1.ca2004.1_all.deb Size: 14088 MD5sum: 802de5e89b24c9a20e69b6b3b40f8dfe SHA1: 96eb2bf4063fdf36c3890ba26d6f819aafab5e5d SHA256: 869fadbd667a6f882ab6d3ec91b709d7eb892577e22633912af36dbad6280801 SHA512: 821a40d2b2f85e6006adc3900c138a504c1b37f271a546deffb41b2617eef4fa5a956a35f47e1c8220804d216f485632471c17d7f90374cd2218bd6bf6249ed0 Homepage: https://cran.r-project.org/package=crop Description: CRAN Package 'crop' (Graphics Cropping Tool) A device closing function which is able to crop graphics (e.g., PDF, PNG files) on Unix-like operating systems with the required underlying command-line tools installed. Package: r-cran-cropbreeding Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-metan, r-cran-rlang Filename: pool/dists/focal/main/r-cran-cropbreeding_0.1.0-1.ca2004.1_all.deb Size: 29908 MD5sum: 4cefdeb8b994de72b43a118ece7adbd5 SHA1: c0f3795b041eaacc214cc35e17eeed0dcdff041b SHA256: b49efacea9086e3e1380ad4eecd798eaca20d7c6dac8e3eb95c9c9cabd9e758d SHA512: 0342b1aea104062e1df48f1b108eb9c1ef4aef7ee1362ec439ffd0555d1027c4b877527d00e533542bb07fae103bfc4f2a9fd1be539f6bf2fa2830d49a180cc9 Homepage: https://cran.r-project.org/package=CropBreeding Description: CRAN Package 'CropBreeding' (Stability Analysis in Crop Breeding) Provides tools for crop breeding analysis including Genetic Coefficient of Variation (GCV), Phenotypic Coefficient of Variation (PCV), heritability, genetic advance calculations, stability analysis using the Eberhart-Russell model, two-way ANOVA for genotype-environment interactions, and Additive Main Effects and Multiplicative Interaction (AMMI) analysis. These tools are developed for crop breeding research and stability evaluation under various environmental conditions. The methods are based on established statistical and biometrical principles. Refer to Eberhart and Russell (1966) for stability parameters, Fisher (1935) "The Design of Experiments" , Falconer (1996) "Introduction to Quantitative Genetics" , and Singh and Chaudhary (1985) "Biometrical Methods in Quantitative Genetic Analysis" for foundational methodologies. Package: r-cran-cropcircles Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-glue, r-cran-magick, r-cran-purrr Filename: pool/dists/focal/main/r-cran-cropcircles_0.2.4-1.ca2004.1_all.deb Size: 62004 MD5sum: f65680a569bc61f3122fa08451384df9 SHA1: 955249d9568e4b5c36c229769229bf88b4417f69 SHA256: 62cb4839de5d1955a21052cabdaac629ce959ce509f23cffea7431292a792fa1 SHA512: ea779f79e44ff19fba1653a830206c5f39f0ed7c7d5742e4296d55863b46cbe67c3845f33450432ad626e0e2b430993c18c9a8ff8d5f437d1f8eae5db37390b1 Homepage: https://cran.r-project.org/package=cropcircles Description: CRAN Package 'cropcircles' (Crops an Image to a Circle) Images are cropped to a circle with a transparent background. The function takes a vector of images, either local or from a link, and circle crops the image. Paths to the cropped image are returned for plotting with 'ggplot2'. Also includes cropping to a hexagon, heart, parallelogram, and square. Package: r-cran-cropdatape Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 227 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cropdatape_1.0.0-1.ca2004.1_all.deb Size: 193316 MD5sum: cbd3f5e55a19e644ea5fbdb02cb334fb SHA1: 99b5ce9565ac7e4da934d8f4447224a99a94e52c SHA256: 3d15fe48f6dc2f685d1e664d6b593a92b9dacc4ba07ca5186b5aa94c2b826d79 SHA512: 48a963201ea5d44959be559f7eff6f9df05813ba24ccecc74aa5d5cb1d63d4b3ef699b67c40ddd42b42e19e0e2182706638f5b75ccf8d27618067761e2551419 Homepage: https://cran.r-project.org/package=cropdatape Description: CRAN Package 'cropdatape' (Open Data of Agricultural Production of Crops of Peru) Provides peruvian agricultural production data from the Agriculture Minestry of Peru (MINAGRI). The first version includes 6 crops: rice, quinoa, potato, sweet potato, tomato and wheat; all of them across 24 departments. Initially, in excel files which has been transformed and assembled using tidy data principles, i.e. each variable is in a column, each observation is a row and each value is in a cell. The variables variables are sowing and harvest area per crop, yield, production and price per plot, every one year, from 2004 to 2014. Package: r-cran-cropdemand Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4484 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-terra, r-cran-sf, r-cran-tidyr, r-cran-ncdf4 Filename: pool/dists/focal/main/r-cran-cropdemand_1.0.3-1.ca2004.1_all.deb Size: 3007440 MD5sum: 0a8f1186302b299ae349850492b23727 SHA1: 3e472fa317a1832e0b86db51ebf4551fb7e41d33 SHA256: a4fc0b0a5fa57f858da886dc5aec121b8918e1c1d281e92d1dba3808dbea8ab6 SHA512: 85a9563f83304431928afd1c5a3d82684f97a9a5bc9ffc365461b065ae0cba628a0d05f724dd760c0fb9b3ce5ee2977816b63a435c13a7a852ee6529b7283a2a Homepage: https://cran.r-project.org/package=cropDemand Description: CRAN Package 'cropDemand' (Spatial Crop Water Demand for Brazil) Estimation of crop water demand can be processed via this package. As example, the data from 'TerraClimate' dataset () calibrated with automatic weather stations of National Meteorological Institute of Brazil is available in a coarse spatial resolution to do the crop water demand. However, the user have also the option to download the variables directly from 'TerraClimate' repository with the download.terraclimate function and access the original 'TerraClimate' products. If the user believes that is necessary calibrate the variables, there is another function to do it. Lastly, the estimation of the crop water demand present in this package can be run for all the Brazilian territory with 'TerraClimate' dataset. Package: r-cran-cropdetectr Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 340 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-imager, r-cran-reshape2, r-bioc-ebimage Suggests: r-cran-knitr, r-cran-ggplot2, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cropdetectr_0.0.1-1.ca2004.1_all.deb Size: 226204 MD5sum: 6faacf65c911876527b78c06b6e0c892 SHA1: 4bd37bf066ba5a98efa85b21b2af32ce01fe3bb4 SHA256: 20d20f64e109edf89109d14ea7704036117180a429a29262c7408033e6f0273a SHA512: 0291d71eeac07910703a2cbd6efd95ee1c15df32139bcc276bd8225e7ee50addf8cf506490a81dee5117687a1bf6cc966dcf213156d9eeaa66727db7f322d159 Homepage: https://cran.r-project.org/package=CropDetectR Description: CRAN Package 'CropDetectR' (Crop Row Detector) A helpful tool for the identification of crop rows. Methods of this package include: Excess Green color scale , Otsu Thresholding , and Morphology . Package: r-cran-cropgrowdays Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lubridate, r-cran-dplyr, r-cran-tibble, r-cran-purrr, r-cran-purrrlyr, r-cran-httr Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-furrr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cropgrowdays_0.2.1-1.ca2004.1_all.deb Size: 145224 MD5sum: 5e3a3c2d9472a5ab7e4b6ae9a7a96a93 SHA1: d35b5464c99785ed7813addaab41d24cb7730298 SHA256: 1a0fc8b0b81cc6ce0bb85e6cad76b0c9763c21b15cb7661a8c079ed104bfb185 SHA512: 4306d839db4d36c53d290e13c14fb25f933056ab6f9046fd111a6d4751e0149b5762a5e182341e2f77ec8f8c4127a5de9cf4d0e1c04302a38eb618f0732f35bf Homepage: https://cran.r-project.org/package=cropgrowdays Description: CRAN Package 'cropgrowdays' (Crop Growing Degree Days and Agrometeorological Calculations) Calculate agrometeorological variables for crops including growing degree days (McMaster, GS & Wilhelm, WW (1997) ), cumulative rainfall, number of stress days and cumulative or mean radiation and evaporation. Convert dates to day of year and vice versa. Also, download curated and interpolated Australian weather data from the Queensland Government DES longpaddock website . This data is freely available under the Creative Commons 4.0 licence. Package: r-cran-crops Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-sets, r-cran-reshape, r-cran-tidyverse, r-cran-memoise, r-cran-ggplot2, r-cran-magrittr, r-cran-cowplot, r-cran-tibble, r-cran-rdpack Suggests: r-cran-fpop, r-cran-pacman Filename: pool/dists/focal/main/r-cran-crops_1.0.3-1.ca2004.1_all.deb Size: 51420 MD5sum: 69f9714612d49f209836f64dfafab7df SHA1: 0c884ef1b949a57bdb47fba0be82f2963be70f20 SHA256: 4653d13dd7ae9d982ce1e3a72c4ae406681bf79d84e879e13bc033a67a84149a SHA512: ede50fb60551bc6c8b3d30beca622663ba030131bda7d805e8bea505225b9ff4f8f87c40439fb653b51677fd3e378d646a8d79c3945e2b66ae488b2f740622a3 Homepage: https://cran.r-project.org/package=crops Description: CRAN Package 'crops' (Changepoints for a Range of Penalties (CROPS)) Implements the Changepoints for a Range of Penalties (CROPS) algorithm of Haynes et al. (2017) for finding all of the optimal segmentations for multiple penalty values over a continuous range. 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Package: r-cran-crrcbcv Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crrsc, r-cran-abind, r-cran-pracma, r-cran-survival Filename: pool/dists/focal/main/r-cran-crrcbcv_1.0-1.ca2004.1_all.deb Size: 43760 MD5sum: 81fc8279f0ce290784c7c3aadd848981 SHA1: ca003029dc2892e5dfd7b5372f6684ed67130d6f SHA256: 7dc13b62860ddad0127f0401ad11d46065f498f6546cfd169de49d10e3e8ccd7 SHA512: e4b52f0dbeec65af52335979758cfeafcb6e2082ce922c78e88d16923f22c319be20100a4602ab657b43a27f9f2fafbda2dde1a8f4cb06079c80481450b90328 Homepage: https://cran.r-project.org/package=crrcbcv Description: CRAN Package 'crrcbcv' (Bias-Corrected Variance for Competing Risks Regression withClustered Data) A user friendly function 'crrcbcv' to compute bias-corrected variances for competing risks regression models using proportional subdistribution hazards with small-sample clustered data. 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Package: r-cran-crrstep Architecture: all Version: 2024.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cmprsk Filename: pool/dists/focal/main/r-cran-crrstep_2024.1.1-1.ca2004.1_all.deb Size: 36284 MD5sum: cf672507b03181ab610c0775c94c59ad SHA1: 84686c590ad57d8d2ea1ffe1c26362d8c1f4600f SHA256: 861cffd74d1da0e42c2be4eb53592ba37d7c18f380ea56b66a4417416e26c5ee SHA512: 9097c388679704e20c53eda096e6d9f44f824b22e9f6f6329b5ca00cda9ea78d5ef9d7c60a4b35e112bf4eec15f79870cfe3d68176af23ea28b663bfb223ed69 Homepage: https://cran.r-project.org/package=crrstep Description: CRAN Package 'crrstep' (Stepwise Covariate Selection for the Fine & Gray Competing RisksRegression Model) Performs forward and backwards stepwise regression for the Proportional subdistribution hazards model in competing risks (Fine & Gray 1999). Procedure uses AIC, BIC and BICcr as selection criteria. BICcr has a penalty of k = log(n*), where n* is the number of primary events. Package: r-cran-crseeventstudy Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sandwich Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-crseeventstudy_1.2.2-1.ca2004.1_all.deb Size: 74520 MD5sum: 418dea42aedeefb6c555b3b14c7427f0 SHA1: 114a99099379f8f974395d985e3170d2a18f6dcc SHA256: 118cfe53934b11c48f809c29bd41e347779035805cdb217a783e1782bdb4c5a0 SHA512: 39a771269c575c3aeaa37dfe86b39abbaf4a8b8538e44364766edf062d1acdd2af8608bfdc091480b7634fd2c523d1f1c5d855b97c6c8fd8d0e5567a0a59cb00 Homepage: https://cran.r-project.org/package=crseEventStudy Description: CRAN Package 'crseEventStudy' (A Robust and Powerful Test of Abnormal Stock Returns inLong-Horizon Event Studies) Based on Dutta et al. (2018) , this package provides their standardized test for abnormal returns in long-horizon event studies. The methods used improve the major weaknesses of size, power, and robustness of long-run statistical tests described in Kothari/Warner (2007) . Abnormal returns are weighted by their statistical precision (i.e., standard deviation), resulting in abnormal standardized returns. This procedure efficiently captures the heteroskedasticity problem. Clustering techniques following Cameron et al. (2011) are adopted for computing cross-sectional correlation robust standard errors. The statistical tests in this package therefore accounts for potential biases arising from returns' cross-sectional correlation, autocorrelation, and volatility clustering without power loss. Package: r-cran-crsmeta Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-spelling Filename: pool/dists/focal/main/r-cran-crsmeta_0.3.0-1.ca2004.1_all.deb Size: 27116 MD5sum: 99b9f1d7ea1912a07b6520ecbf8b71dc SHA1: 7cc3b666f096c55a19c7b0380ad81a7fb5617bd7 SHA256: d5457e971abce5d08c465130ea1988d6864339adace685c0b14276fc54781727 SHA512: ec61ad6e8ac842c930c96fc64c3cbeb2251d77a9fa5536039a32faa03619561bf85af8b38f4fe97b40a56c2675f8f521648434c1b0df503194b0a4e4ca2e0b70 Homepage: https://cran.r-project.org/package=crsmeta Description: CRAN Package 'crsmeta' (Extract Coordinate System Metadata) Obtain coordinate system metadata from various data formats. There are functions to extract a 'CRS' (coordinate reference system, ) in 'EPSG' (European Petroleum Survey Group, ), 'PROJ4' , or 'WKT2' (Well-Known Text 2, ) forms. This is purely for getting simple metadata from in-memory formats, please use other tools for out of memory data sources. Package: r-cran-crsnls Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-crsnls_0.2-1.ca2004.1_all.deb Size: 42956 MD5sum: 193d4b5a5de115c06cfe175f48b02268 SHA1: 473580728b080e13eaa839e72dee5b2af19d78b5 SHA256: 1ec2e4487de547409ff8fe1997c997fe639d4e4f20cf2a53d182181281c962cf SHA512: fd93cd0c97abddfeb88e1d49c6547dd76bcc5a867079f64845590a3d47bceb123a3014ff7de306003c71ba5ea50200ceb1d50e8ec6ff0198fc124b9aab051cd5 Homepage: https://cran.r-project.org/package=crsnls Description: CRAN Package 'crsnls' (Nonlinear Regression Parameters Estimation by 'CRS4HC' and'CRS4HCe') Functions for nonlinear regression parameters estimation by algorithms based on Controlled Random Search algorithm. Both functions (crs4hc(), crs4hce()) adapt current search strategy by four heuristics competition. In addition, crs4hce() improves adaptability by adaptive stopping condition. Package: r-cran-crso Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-crso_0.1.1-1.ca2004.1_all.deb Size: 132600 MD5sum: 45a47d8adb37d2baec0caa01160fe2b2 SHA1: dc8c941f25b07427d0e99525905b3f9c21e53e54 SHA256: 0fbf1e9a3b6455b1417a6075a2a0484a5e60b73edf9498eee186642abfb0086e SHA512: b203181d244817d86055f5637d568a6c885ea70f078b32b14ab7ac6b47b3653c4408b9eedcb570cb9cbc69049ee40da15403d3c246c87beaca42e98991466f00 Homepage: https://cran.r-project.org/package=crso Description: CRAN Package 'crso' (Cancer Rule Set Optimization ('crso')) An algorithm for identifying candidate driver combinations in cancer. CRSO is based on a theoretical model of cancer in which a cancer rule is defined to be a collection of two or more events (i.e., alterations) that are minimally sufficient to cause cancer. A cancer rule set is a set of cancer rules that collectively are assumed to account for all of ways to cause cancer in the population. In CRSO every event is designated explicitly as a passenger or driver within each patient. Each event is associated with a patient-specific, event-specific passenger penalty, reflecting how unlikely the event would have happened by chance, i.e., as a passenger. CRSO evaluates each rule set by assigning all samples to a rule in the rule set, or to the null rule, and then calculating the total statistical penalty from all unassigned event. CRSO uses a three phase procedure find the best rule set of fixed size K for a range of Ks. A core rule set is then identified from among the best rule sets of size K as the rule set that best balances rule set size and statistical penalty. Users should consult the 'crso' vignette for an example walk through of a full CRSO run. The full description, of the CRSO algorithm is presented in: Klein MI, Cannataro V, Townsend J, Stern DF and Zhao H. "Identifying combinations of cancer driver in individual patients." BioRxiv 674234 [Preprint]. June 19, 2019. . Please cite this article if you use 'crso'. 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These export data can be downloaded by anyone who has classes on Coursera and wants to analyze the data. Coursera is one of the leading providers of MOOCs and was launched in January 2012. With over 25 million learners, Coursera is the most popular provider in the world being followed by EdX, the MOOC provider that was a result of a collaboration between Harvard University and MIT, with over 10 million users. Coursera has over 150 university partners from 29 countries and offers a total of 2000+ courses from computer science to philosophy. Besides, Coursera offers 180+ specialization, Coursera's credential system, and four fully online Masters degrees. For more information about Coursera check Coursera's About page on . 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Package: r-cran-crypto2 Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tibble, r-cran-tidyr, r-cran-purrr, r-cran-progress, r-cran-lubridate, r-cran-jsonlite, r-cran-cli, r-cran-plyr, r-cran-base64enc, r-cran-janitor Suggests: r-cran-spelling, r-cran-testthat, r-cran-digest Filename: pool/dists/focal/main/r-cran-crypto2_2.0.3-1.ca2004.1_all.deb Size: 96328 MD5sum: 8cd995cfe00305a210d521d99b1ed839 SHA1: f324ed1959d16ac2d9b5412e9a01a37fbf006ff9 SHA256: 4c5c5b0a40a33d5c27cb982842bd4cf84490072b616097252ab704036d635a42 SHA512: 9403fb8d5b48461dc1aaed4cf7eddaa757a6f392cf4458d339afa85325c9906b89c29d32bfd4cf2d94355021ccc69b8e3a861d0aa6759c98e3874b8ec603243f Homepage: https://cran.r-project.org/package=crypto2 Description: CRAN Package 'crypto2' (Download Crypto Currency Data from 'CoinMarketCap' without 'API') Retrieves crypto currency information and historical prices as well as information on the exchanges they are listed on. Historical data contains daily open, high, low and close values for all crypto currencies. All data is scraped from via their 'web-api'. Package: r-cran-cryptography Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-desctools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cryptography_1.0.0-1.ca2004.1_all.deb Size: 44956 MD5sum: 6804a632a034dd95d986cfd8f79f348f SHA1: f873bb456d9648515585de465a934d99ed8566ca SHA256: 2c447af6950540ae0a3c24c923eeea27cdb32f9988e84b51047e4919812ef913 SHA512: 421a0db4c6fee5051cb17a129e2e307b7c7cb365ec60e4e46db275dae7a4bd7ceb35f7a846665cacc30d015a34e424ffc99ed98b32e2b6e0725e984cb40ff1bf Homepage: https://cran.r-project.org/package=cryptography Description: CRAN Package 'cryptography' (Encrypts and Decrypts Text Ciphers) Playfair, Four-Square, Scytale, Columnar Transposition and Autokey methods. Further explanation on methods of classical cryptography can be found at Wikipedia; (). Package: r-cran-cryptoquotes Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 13277 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-jsonlite, r-cran-lifecycle, r-cran-plotly, r-cran-ttr, r-cran-xts, r-cran-zoo Suggests: r-cran-data.table, r-cran-knitr, r-cran-quantmod, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-cryptoquotes_1.3.2-1.ca2004.1_all.deb Size: 2262344 MD5sum: ce085e371126487e57fa84673d537be4 SHA1: ce3a16050748ec1517341cac0a9219c511eef610 SHA256: cb615ba4c0aaec526b6341d2cbd6b6d60bd3ec278a67211907295f6fdf722adc SHA512: 48bdffed5547f094a74ad3745b97440282d0b5838c3e742fb669a0a4a362a45102f43fbe9e08026ed2cebf2d09294096b2ecd651e9bac7a48a2f45d7c304c9fc Homepage: https://cran.r-project.org/package=cryptoQuotes Description: CRAN Package 'cryptoQuotes' (Open Access to Cryptocurrency Market Data, Sentiment Indicatorsand Interactive Charts) This high-level API client provides open access to cryptocurrency market data, sentiment indicators, and interactive charting tools. The data is sourced from major cryptocurrency exchanges via 'curl' and returned in 'xts'-format. The data comes in open, high, low, and close (OHLC) format with flexible granularity, ranging from seconds to months. This flexibility makes it ideal for developing and backtesting trading strategies or conducting detailed market analysis. Package: r-cran-cryptotax Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1600 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-lubridate, r-cran-pricer, r-cran-curl, r-cran-ggplot2, r-cran-ggrepel, r-cran-rcolorbrewer, r-cran-tidyr, r-cran-crypto2, r-cran-stringr, r-cran-rstudioapi, r-cran-rlang, r-cran-tidyselect, r-cran-progress Suggests: r-cran-spelling, r-cran-usethis, r-cran-flextable, r-cran-rmarkdown, r-cran-testthat, r-cran-knitr, r-cran-covr Filename: pool/dists/focal/main/r-cran-cryptotax_0.0.4-1.ca2004.1_all.deb Size: 1068324 MD5sum: 88d562567ddc43bee5cf8d9c93cb2445 SHA1: dc958106d7857aae3d6a656c1bd0b52cae4aedbe SHA256: 5db8bf12c7d28a80c4d1fdd0e3b2ed7c736da68e17390feba2f5d832d45d7283 SHA512: 092ee5f255201da8594169b6e75684868c1d7744e1e109f449332c9597862271a6a691b6972a535fd0bef696189dae521a423a89d35c75fcd2170044af61dc23 Homepage: https://cran.r-project.org/package=cryptoTax Description: CRAN Package 'cryptoTax' (Report Crypto Taxes (Canada Only)) Helps calculate crypto taxes in R. First, by allowing you to format .CSV files from various exchanges to one large data frame of organized transactions. Second, by allowing you to calculate your Adjusted Cost Base (ACB), ACB per share, and realized and unrealized capital gains/losses. Third, by calculating revenues gained from staking, interest, airdrops, etc. Fourth, by calculating superficial losses as well. *Disclaimer: This is not financial advice. Use at your own risks. There are no guarantees whatsoever in relation to the use of this package. Please consult a tax professional as necessary*. Package: r-cran-cryptotrackr Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 532 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-stringi, r-cran-openssl, r-cran-digest Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cryptotrackr_1.3.3-1.ca2004.1_all.deb Size: 440088 MD5sum: 1e6aadd0bb0fb19680c9e81a31265dab SHA1: e539123508c69e8b447150080e7fb1db12eb51c6 SHA256: 7227152fa7c21e66266fbe68f1707cd1e14ea613fe09e4bdd1968867904e4d87 SHA512: 1c979045f3e94b58c4c4ade392cc0820544ea06a229090eb620e9b3694f5b88eba16794ce9d4657d9b1de661db623fb9e15f272929bb4e925e930ddab81f072b Homepage: https://cran.r-project.org/package=cryptotrackr Description: CRAN Package 'cryptotrackr' (An Interface to Crypto Data Sources) Allows you to connect to data sources across the crypto ecosystem. This data can enable a range of activity such as portfolio tracking, programmatic trading, or industry analysis. The package is described in French (2024) . Package: r-cran-cryptoverse Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1297 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cryptoverse_0.1.0-1.ca2004.1_all.deb Size: 1266676 MD5sum: 349c16c8bedb6bacba77f232a49dcc2c SHA1: f3a0958b10c53e305a03dd2e6aadb28cb68d9f63 SHA256: 21b88a1c8bd999695158afd67be37d8415ceee34b9125e0e534c9d32ab5e6682 SHA512: 61bc7383157a1e2cf741344c11620b4942f883131c17165bddfe05fa915ae16aed6f19a7557f14c2ee6984af767759958aafe89849193dff450dfc485fd40be2 Homepage: https://cran.r-project.org/package=cryptoverse Description: CRAN Package 'cryptoverse' (Visualization and Analytics for the Cryptoverse) Providing data to quickly visualize and analyze data from several cryptocurrencies. Package: r-cran-cryptowatchr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-lubridate Filename: pool/dists/focal/main/r-cran-cryptowatchr_0.2.0-1.ca2004.1_all.deb Size: 58868 MD5sum: 2181da439f3fdcfc3f70c096ee84cfc5 SHA1: 1a6e1b88ce77727901a75aa7e5ac3d16757600d6 SHA256: 90db42bdfdf3ec6b0934d00fcb0ccd80008c90d86feb782772c666251830ab81 SHA512: fa90c12c0fb87fd994c5f886a5e3e44ed4adba3210badc8f9a1cf687637c81e8eaa06c46dae5c00cb800e7920f01bdb4b7715ce9fbff5e0d869f21d11474fbe3 Homepage: https://cran.r-project.org/package=cryptowatchR Description: CRAN Package 'cryptowatchR' (An API Wrapper for 'Cryptowatch') An API wrapper for 'Cryptowatch' to get prices and other information (e.g., volume, trades, order books, bid and ask prices, live quotes, and more) about cryptocurrencies and crypto exchanges. See for a detailed documentation. Package: r-cran-cryptrndtest Architecture: all Version: 1.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 444 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ksamples, r-cran-sfsmisc, r-cran-rmpfr, r-cran-lambertw, r-cran-gmp, r-cran-tseries Suggests: r-cran-r.rsp, r-cran-bbotk Filename: pool/dists/focal/main/r-cran-cryptrndtest_1.2.7-1.ca2004.1_all.deb Size: 340164 MD5sum: 3f1613fb18b8747dc14a4e7b21a9a042 SHA1: 7fbff24aaedbb553f5e137fbe78124bc9c4a08be SHA256: ad72d94034e069ea1e21ebe199e643d08fa587cdc28828be6ff69886106d14bb SHA512: d182a42ceb87a71d7dc501df60860de156969b2611f63dcb5a35f24dec9c36e548814485d80a790c3ca5d22ea59a3941ed5920407e7a3c8ef8dee95b6404f836 Homepage: https://cran.r-project.org/package=CryptRndTest Description: CRAN Package 'CryptRndTest' (Statistical Tests for Cryptographic Randomness) Performs cryptographic randomness tests on a sequence of random integers or bits. Included tests are greatest common divisor, birthday spacings, book stack, adaptive chi-square, topological binary, and three random walk tests (Ryabko and Monarev, 2005) . Tests except greatest common divisor and birthday spacings are not covered by standard test suites. In addition to the chi-square goodness-of-fit test, results of Anderson-Darling, Kolmogorov-Smirnov, and Jarque-Bera tests are also generated by some of the cryptographic randomness tests. Package: r-cran-cryst Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 149 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-flux, r-cran-pracma Filename: pool/dists/focal/main/r-cran-cryst_0.1.0-1.ca2004.1_all.deb Size: 117192 MD5sum: f6c24328935b8c9c6cde18ccd03edb10 SHA1: e0898f57807451ec5dfa8631e89a634a644e66a3 SHA256: 1cbbc9d00bea5448802540e87fd25133a06c84f75f20cd1ecf61520797b5cbae SHA512: 6575acd334c0921741d710b3161ee69ccd8852f1315bea209df775aa036f1564a63e8209376352430457cb5252c7c083ecfd4bfd486cc12e114be8301d3febbe Homepage: https://cran.r-project.org/package=cryst Description: CRAN Package 'cryst' (Calculate the Relative Crystallinity of Starch by XRD and FTIR) Functions to calculate the relative crystallinity of starch by X-ray Diffraction (XRD) and Infrared Spectroscopy (FTIR). Starch is biosynthesized by plants in the form of granules semicrystalline. For XRD, the relative crystallinity is obtained by separating the crystalline peaks from the amorphous scattering region. For FTIR, the relative crystallinity is achieved by setting of a Gaussian holocrystalline-peak in the 800-1300 cm-1 region of FTIR spectrum of starch which is divided into amorphous region and crystalline region. The relative crystallinity of native starch granules varies from 14 of 45 percent. This package was supported by FONDECYT 3150630 and CIPA Conicyt-Regional R08C1002 is gratefully acknowledged. Package: r-cran-csa Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 494 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-data.table, r-cran-scales, r-cran-reshape2, r-cran-moments, r-cran-lmoments, r-cran-foreach, r-cran-ggpubr, r-cran-raster, r-cran-doparallel Suggests: r-cran-testthat, r-cran-colorspace Filename: pool/dists/focal/main/r-cran-csa_0.7.1-1.ca2004.1_all.deb Size: 352480 MD5sum: 2d8e344e5174728be2379528da499eca SHA1: 8d38e2b3ba3dc8073826a6921c91851ee6703e4f SHA256: 8a6c84631f3b61dee91338c2e3a3bdd32045eea95aa9167d19238a37195bbbbb SHA512: 9f33a55344395bf23fa6a93318f6a576b09ded8c635a26be5e7d45a5aab9788f808084bf7a2cb7e350b27cca318861c4ccae3e755f61d19a2ed51fd5d89d6335 Homepage: https://cran.r-project.org/package=csa Description: CRAN Package 'csa' (A Cross-Scale Analysis Tool for Model-Observation Visualizationand Integration) Integration of Earth system data from various sources is a challenging task. 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Package: r-cran-csabounds Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-bmisc, r-cran-pbapply, r-cran-progress, r-cran-qte Filename: pool/dists/focal/main/r-cran-csabounds_1.0.0-1.ca2004.1_all.deb Size: 109296 MD5sum: d223488e017606574bf5307942353fb7 SHA1: 8bb58a19e2dc9399d5cd3e5c5844e8a43e4ab4ef SHA256: b1bd893eda85c393df4eff19bf6408a423c200697f3a8e6a2f6e63834838f480 SHA512: ae1e6cfd745b2908d1f0fd90e1015ffe402af27a831f1c64761c1afb83be51fb0a83441c4f85921037353356b76947952320375dfb0513ded1e4e85bf63bb125 Homepage: https://cran.r-project.org/package=csabounds Description: CRAN Package 'csabounds' (Bounds on Distributional Treatment Effect Parameters) The joint distribution of potential outcomes is not typically identified under standard identifying assumptions such as selection on observables or even when individuals are randomly assigned to being treated. 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The primary analysis method is based upon a published analytics strategy by Benedetti (2019) . Package: r-cran-csampling Architecture: all Version: 1.2-4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-marg, r-cran-statmod, r-cran-survival Filename: pool/dists/focal/main/r-cran-csampling_1.2-4.1-1.ca2004.1_all.deb Size: 87136 MD5sum: 9517b621e3a39efe1d14f312cbded2ce SHA1: 9b740c3c9409b870d47cd4ba33cd39e602ff43b3 SHA256: 6532234ad6551f3441d525883e32125a08b59a61c1913ca1b35486b6766a1038 SHA512: e7bc3a538eeace644d8b6477ce72de7fdc928e608bca4ad18a833a2fa54506828071fdc05a20b014b719b6d97d685c52eb5e0f02fd0ed758d8ec45dc4434e387 Homepage: https://cran.r-project.org/package=csampling Description: CRAN Package 'csampling' (Functions for Conditional Simulation in Regression-Scale Models) Implements Monte Carlo conditional inference for the parameters of a linear nonnormal regression model. Package: r-cran-cscdrna Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-nlshrink, r-cran-limsolve, r-bioc-biobase, r-cran-bisquerna, r-cran-plyr, r-cran-seurat, r-bioc-mast Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cscdrna_1.0.3-1.ca2004.1_all.deb Size: 39300 MD5sum: 2ad9755b367e22e0f745b024da170d7a SHA1: 4157635ceb47f6bfdbf6164b8489bb5650609242 SHA256: 7ab802529efb5bd1558063904e6ed2e89e3ac525eed68c245f5894d9ceae4808 SHA512: 5c4cb0e33215f3086cf5ebbbb52147e9a13350bae5eb222713b9610f63c0f9fa8d015001c6d714baadbb1e73fff7747c0a3b0d6a874b7797f8fffd0d4c706f33 Homepage: https://cran.r-project.org/package=CSCDRNA Description: CRAN Package 'CSCDRNA' (Covariance Based Single-Cell Decomposition of Bulk ExpressionData) Provides accurate cell type proportion estimation by incorporating covariance structure in both single-cell and bulk RNA-seq datasets into the analysis. 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The confidence interval was calculated by using the bootstrap method. The p value was calculated by using the Z testing method. Please refer to the article of Peter Ganz et al. (2016) . 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However, experimental serotyping needs great cost on manpower and resources. Recently, we found that the newly incorporated spacer in the clustered regularly interspaced short palindromic repeat (CRISPR) could serve as an effective marker for typing of Salmonella. It was further revealed by Li et. al (2014) that recognized types based on the combination of two newly incorporated spacer in both CRISPR loci showed high accordance with serotypes. Here, we developed an R package 'CSESA' to predict the serotype based on this finding. Considering it’s time saving and of high accuracy, we recommend to predict the serotypes of unknown Salmonella isolates using 'CSESA' before doing the traditional serotyping. 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The functions focus on the use of Canadian data sets, and are suited to Canadian hydrology, such as the important cold region hydrological processes and will work with Canadian hydrological models. The functions are grouped into several themes, currently including Statistical hydrology, Basic data manipulations, Visualization, and Spatial hydrology. Functions developed by the Floodnet project are also included. CSHShydRology has been developed with the assistance of the Canadian Society for Hydrological Sciences (CSHS) which is an affiliated society of the Canadian Water Resources Association (CWRA). As of version 1.2.6, functions now fail gracefully when attempting to download data from a url which is unavailable. 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Each method represents a specific mathematical approach which is combined with the possibility to select an arbitrary time period to define the indicator. This enables a wide range of possibilities to tailor the most suitable indicator for each particular climate service application (agriculture, food security, energy, water management, ...). This package is intended for sub-seasonal, seasonal and decadal climate predictions, but its methods are also applicable to other time-scales, provided the dimensional structure of the input is maintained. Additionally, the outputs of the functions in this package are compatible with 'CSTools'. This package is described in 'Pérez-Zanón et al. (2023) ' and it was developed in the context of 'H2020 MED-GOLD' (776467) and 'S2S4E' (776787) projects. See 'Lledó et al. (2019) ' and 'Chou et al., 2023 ' for details. Package: r-cran-csmaps Architecture: all Version: 2023.5.22-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5692 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-magrittr, r-cran-ggrepel, r-cran-leaflet, r-cran-sf, r-cran-csdata Filename: pool/dists/focal/main/r-cran-csmaps_2023.5.22-1.ca2004.1_all.deb Size: 3697132 MD5sum: 4a66e9b5b231d0a0136a60ea969e9000 SHA1: cf5a12f9159e812a2c195cd7157917089800e093 SHA256: aea1593d642aa2165f3ef9af23564d2291a1ff24ce621f32ffd423915e575cc1 SHA512: dc1ec631aa9c60cfaf858fda5d041df1df3d8d41f4d822e725e0f258f9ec54996c57732bf358ae4f15e9bfed186b0ed02b7ed28b5c2e737c0dda0622901217fc Homepage: https://cran.r-project.org/package=csmaps Description: CRAN Package 'csmaps' (Preformatted Maps of Norway that Don't Need Geolibraries) Provides datasets containing preformatted maps of Norway at the county, municipality, and ward (Oslo only) level for redistricting in 2024, 2020, 2018, and 2017. Multiple layouts are provided (normal, split, and with an insert for Oslo), allowing the user to rapidly create choropleth maps of Norway without any geolibraries. 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Package: r-cran-csmgmm Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 195 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-mvtnorm, r-cran-rlang, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-csmgmm_0.3.0-1.ca2004.1_all.deb Size: 111652 MD5sum: f4b3292b0433eb0627d15a1a632b848a SHA1: e9724d450c9982c55d6df50576d09840383a848c SHA256: e6f564ec55787066837be226d2249f668a707e81f99d163fd544c00f485d9e9e SHA512: 21941cb97031a2ad0f8acfc1265f9fe641fb30c20c0a8bb813b982a8534935584805d65730d6877f550f04a3f150c43123770595b9762fb9b8c3ec61b6903dfe Homepage: https://cran.r-project.org/package=csmGmm Description: CRAN Package 'csmGmm' (Conditionally Symmetric Multidimensional Gaussian Mixture Model) Implements the conditionally symmetric multidimensional Gaussian mixture model (csmGmm) for large-scale testing of composite null hypotheses in genetic association applications such as mediation analysis, pleiotropy analysis, and replication analysis. In such analyses, we typically have J sets of K test statistics where K is a small number (e.g. 2 or 3) and J is large (e.g. 1 million). For each one of the J sets, we want to know if we can reject all K individual nulls. Please see the vignette for a quickstart guide. The paper describing these methods is "Testing a Large Number of Composite Null Hypotheses Using Conditionally Symmetric Multidimensional Gaussian Mixtures in Genome-Wide Studies" by Sun R, McCaw Z, & Lin X (2024, ). The paper is accepted and published online (but not yet in print) in the Journal of the American Statistical Association as of Dec 1 2024. Package: r-cran-csmpv Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8270 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-glmnet, r-cran-hmisc, r-cran-rms, r-cran-forestmodel, r-cran-ggplot2, r-cran-ggpubr, r-cran-survminer, r-cran-xgboost, r-cran-scales, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-csmpv_1.0.3-1.ca2004.1_all.deb Size: 2991400 MD5sum: 43270d9c04404ca3bb1bd7cc6332af3d SHA1: 73a2819b269e30a91aaf1305a7f2b19895170294 SHA256: 8c22cd9f98686232cbbdae11b8124765855df9b03f6c3cb49315e1d29e49a4c4 SHA512: 6e7f0c6c3fc554c6590e6ced994b6d1f7ce8175a90e608e8bb23aabbb2707ab729e91eee5cbabff89b24c6f281dc6eb54dddfa5c5f5c4ea7dd14338dee3dc382 Homepage: https://cran.r-project.org/package=csmpv Description: CRAN Package 'csmpv' (Biomarker Confirmation, Selection, Modelling, Prediction, andValidation) There are diverse purposes such as biomarker confirmation, novel biomarker discovery, constructing predictive models, model-based prediction, and validation. It handles binary, continuous, and time-to-event outcomes at the sample or patient level. - Biomarker confirmation utilizes established functions like glm() from 'stats', coxph() from 'survival', surv_fit(), and ggsurvplot() from 'survminer'. - Biomarker discovery and variable selection are facilitated by three LASSO-related functions LASSO2(), LASSO_plus(), and LASSO2plus(), leveraging the 'glmnet' R package with additional steps. - Eight versatile modeling functions are offered, each designed for predictive models across various outcomes and data types. 1) LASSO2(), LASSO_plus(), LASSO2plus(), and LASSO2_reg() perform variable selection using LASSO methods and construct predictive models based on selected variables. 2) XGBtraining() employs 'XGBoost' for model building and is the only function not involving variable selection. 3) Functions like LASSO2_XGBtraining(), LASSOplus_XGBtraining(), and LASSO2plus_XGBtraining() combine LASSO-related variable selection with 'XGBoost' for model construction. - All models support prediction and validation, requiring a testing dataset comparable to the training dataset. Additionally, the package introduces XGpred() for risk prediction based on survival data, with the XGpred_predict() function available for predicting risk groups in new datasets. The methodology is based on our new algorithms and various references: - Hastie et al. (1992, ISBN 0 534 16765-9), - Therneau et al. (2000, ISBN 0-387-98784-3), - Kassambara et al. (2021) , - Friedman et al. (2010) , - Simon et al. (2011) , - Harrell (2023) , - Harrell (2023) , - Chen and Guestrin (2016) , - Aoki et al. (2023) . 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The closed skew normal distribution, Skew-elliptical distributions and their applications: a journey beyond normality, Chapman and Hall/CRC, Boca Raton, FL, pp. 25-42. 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Jordan and Matt Grossmann (2020) . The Correlates data contains over 2000 variables across more than 100 years that pertain to state politics and policy in the United States. Users with only a basic understanding of R can subset this data across multiple dimensions, export their search results, create map visualizations, export the citations associated with their searches, and more. 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It also provides several commonly used C-TMLE instantiation, like the vanilla/scalable variable-selection C-TMLE (Ju et al. (2017) ) and the glmnet-C-TMLE algorithm (Ju et al. (2017) ). 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The package is described in Calabrese et al (2016) , with models and methods based on those introduced and detailed in Fleming & Calabrese et al (2014) , Fleming et al (2014) , Fleming et al (2015) , Fleming et al (2015) , Fleming et al (2016) , Péron & Fleming et al (2016) , Fleming & Calabrese (2017) , Péron et al (2017) , Fleming et al (2017) , Fleming et al (2018) , Winner & Noonan et al (2018) , Fleming et al (2019) , Noonan & Fleming et al (2019) , Fleming et al (2020) , Noonan et al (2021) , Fleming et al (2022) , Silva et al (2022) , Alston & Fleming et al (2023) . Package: r-cran-ctmva Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fda, r-cran-polynom Suggests: r-cran-eegkit, r-cran-corrplot Filename: pool/dists/focal/main/r-cran-ctmva_1.4.0-1.ca2004.1_all.deb Size: 81712 MD5sum: 1608ba063914ba82737b918e1cf360eb SHA1: 230a5d0c0f84aa2f4f4207762606f43f2970da87 SHA256: 233de55c28fafca1d4b519b3c9790f3ce2645b85279120538d9eb71e46a6457e SHA512: 2ab67eefec6fef38e14965dff75cb24fff6dc163a4603cc75898ac55d8af854c328484f0bdd07c1f10604c792da368b35bff7d5b21299d12ca7616bade69e1bc Homepage: https://cran.r-project.org/package=ctmva Description: CRAN Package 'ctmva' (Continuous-Time Multivariate Analysis) Implements a basis function or functional data analysis framework for several techniques of multivariate analysis in continuous-time setting. Specifically, we introduced continuous-time analogues of several classical techniques of multivariate analysis, such as principal component analysis, canonical correlation analysis, Fisher linear discriminant analysis, K-means clustering, and so on. Details are in Biplab Paul, Philip T. Reiss and Erjia Cui (2023) "Continuous-time multivariate analysis" . 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The CTN-0094 team herein provides a coded collection of trial outcomes and endpoints used in various OUD clinical trials over the past 50 years. These coded outcome functions are used to contrast and cluster different clinical outcome functions based on daily or weekly patient urine screenings. Note that we abbreviate urine drug screen as "UDS" and urine opioid screen as "UOS". For the example data sets (based on clinical trials data harmonized by the CTN-0094 research team), UDS and UOS are largely interchangeable. Package: r-cran-ctost Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2562 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-powertost, r-cran-cli, r-cran-knitr, r-cran-rmarkdown Suggests: r-cran-asciicast Filename: pool/dists/focal/main/r-cran-ctost_1.0.1-1.ca2004.1_all.deb Size: 1676732 MD5sum: 9f5300878c8a21ed4e4e329b0b2839c4 SHA1: 9a2f43be61fbad23eeae4bbeb9086b6597fc4f64 SHA256: 3f1e7fe18b9a8853d173d5e4d9f5791cf835908a0a9d06bacad619a414281164 SHA512: 42cc80163eb911d9671ac197744ae2a97e4655fcbc2409add004c619eb34a4db709bc5191e45cee6241f0aaa3557bc710d9430c3c921222084a9ef070c1a950b Homepage: https://cran.r-project.org/package=cTOST Description: CRAN Package 'cTOST' (Finite Sample Correction of the Two One-Sided Tests in theUnivariate Framework) A system containing easy-to-use tools to compute the bioequivalence assessment in the univariate framework using the methods proposed in Boulaguiem et al. (2023) . 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For reference, see Marcus, R., Peritz, E, and Gabriel, K.R. (1976) and Bauer, P (1991) . 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The package is based on methods introduced in Noonan et al. (2021) . Package: r-cran-ctqr Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-pch Suggests: r-cran-car, r-cran-lmtest Filename: pool/dists/focal/main/r-cran-ctqr_2.1-1.ca2004.1_all.deb Size: 98752 MD5sum: c9abcc2b6beb05bf509088375eef8c73 SHA1: 66fb9572d6b3f76c3b6329127cda05c2b63f9be7 SHA256: 925af659b497a4bd8c57c6031ce84dff56506f59cb69cbfcb00ab6c40b7c168f SHA512: 50b93564db676b3f777aaddcfcc0e74a688f046f89ee85c8d554b3592b66f4e388785dc86d5842966898c824fcf2d8e8f1bbc78fcb2e01076f4a20a9b1f0deac Homepage: https://cran.r-project.org/package=ctqr Description: CRAN Package 'ctqr' (Censored and Truncated Quantile Regression) Estimation of quantile regression models for survival data. 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Trial information is downloaded, converted and stored in a database ('PostgreSQL', 'SQLite', 'DuckDB' or 'MongoDB'; via package 'nodbi'). Protocols, statistical analysis plans, informed consent sheets and other documents in registers associated with trials can also be downloaded. Other functions implement trial concepts canonically across registers, identify deduplicated records, easily find and extract variables (fields) of interest even from complex nested data as used by the registers, merge variables and update queries. The package can be used for monitoring, meta- and trend-analysis of the design and conduct as well as of the results of clinical trials across registers. 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Wood density profiles (i.e. variations of wood density from pith to bark) can yield important information used for studies in forest resource assessment, wood quality and dendrochronology studies. The first step consists in transforming grey values from the scan images to density values. The packages then proposes a unique method to automatically locate the pith by combining an adapted Hough Transform method and a one-dimensional edge detector. Tree ring profiles (average ring density, earlywood and latewood density, ring width and percent latewood for each ring) are then obtained. 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Runtime examples are provided in the package function as well as at . 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See Hou, Chambers and Xu (2017) . Package: r-cran-cureplots Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-glue Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cureplots_1.1.1-1.ca2004.1_all.deb Size: 69516 MD5sum: 3d4f5f2e4d872b02b0373f148483c85d SHA1: e78c036e7f0d0dfe916135e8464f57ccf33c02ae SHA256: 4e1bddaaae61b1b687a1787ce4304889c44394e94d79bc5075cea49f22f0b333 SHA512: 330e258fc0927873a67f6aed5209f7a4011c9d97c2a8c4004993edb575f4c75eabef4351f2bdf90d81c39649c66dbae4cb401cf03562474f2087e9ef944b6da5 Homepage: https://cran.r-project.org/package=cureplots Description: CRAN Package 'cureplots' (CURE (Cumulative Residual) Plots) Creates 'ggplot2' Cumulative Residual (CURE) plots to check the goodness-of-fit of a count model; or the tables to create a customized version. A dataset of crashes in Washington state is available for illustrative purposes. 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(2002) The Weibull distribution is used to represent the survival function of the uncured patients; Fits also non-mixture cure model such as the time-to-null excess hazard model proposed by Boussari et al. (2020) . 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Visualise the cutpoint estimation process using contour plots, index plots, and spline plots. It is also possible to estimate cutpoints based on the assumption of a U-shaped or inverted U-shaped relationship between the predictor and the hazard ratio. Govindarajulu, U., and Tarpey, T. (2022) . Package: r-cran-cutpointsoehr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-cutpointsoehr_0.1.2-1.ca2004.1_all.deb Size: 25784 MD5sum: 88a5c806bf0a1a38e62c7dc3154f7825 SHA1: 4709ea0b220fe4afe50109ad28a2789d409f3ee8 SHA256: 652d5653c1872d6d0bba1e2e526392ea78815ee8b8ac6289023a0fc3f4680b7b SHA512: 62ae773ddbda01a7e50f11f584d203a25500f0315fbf0d16e2340085187446e8d5e9f55d2245aacf45d165992c1c3ba235e0d0415b79734a1cb4877e32372013 Homepage: https://cran.r-project.org/package=CutpointsOEHR Description: CRAN Package 'CutpointsOEHR' (Optimal Equal-HR Method to Find Two Cutpoints for U-ShapedRelationships in Cox Model) Use optimal equal-HR method to determine two optimal cutpoints of a continuous predictor that has a U-shaped relationship with survival outcomes based on Cox regression model. The optimal equal-HR method estimates two optimal cut-points that have approximately the same log hazard value based on Cox regression model and divides individuals into different groups according to their HR values. Package: r-cran-cuttlefish.model Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cuttlefish.model_1.0-1.ca2004.1_all.deb Size: 100732 MD5sum: cdcc2c392eabf4e32cbf2607ed27e9c8 SHA1: 72e65af8832df21b21f1fae8e1f19f3b9403fdb4 SHA256: e833b48fa4e5d3c03dd07105cadc33853d273d37b03ffadfd1d570891b274d45 SHA512: 92a90421237eff6cb881f4d28c681de2062179e31b9e97835c09d31e01f7ffee4fc269b572cd7b65c984fe4d5ac5d05b317333311460c6b7bc52835bd229dac6 Homepage: https://cran.r-project.org/package=cuttlefish.model Description: CRAN Package 'cuttlefish.model' (An R package to perform LPUE standardization and stockassessment of the English Channel cuttlefish stock using atwo-stage biomass model) This package can be used to standardize abundance indices using the delta-GLM method and to model the English Channel cuttlefish stock using a two-stage biomass model Package: r-cran-cv Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3896 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-doparallel, r-cran-car, r-cran-foreach, r-cran-glmmtmb, r-cran-gtools, r-cran-insight, r-cran-lattice, r-cran-lme4, r-cran-mass, r-cran-nlme Suggests: r-cran-boot, r-cran-cardata, r-cran-dplyr, r-cran-effects, r-cran-islr2, r-cran-knitr, r-cran-latticeextra, r-cran-leaps, r-cran-metrics, r-cran-microbenchmark, r-cran-nnet, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cv_2.0.4-1.ca2004.1_all.deb Size: 2359016 MD5sum: 8bf03fb77033a754988223ce7899e083 SHA1: 0d5be203a07623e0d557ff6cc744d1575b80b09a SHA256: d762a2f0461de288f0c939a88b2892b4a58d859ad9e80f2ebe76f2ca7dcea955 SHA512: 6565e2a41175a7f466336bbd295732baf0812a126c2175c8fbe8d1394dc504d1303699d75e8b778c23f0dcaf286a4ea3bbbc220c461479416ce0dddbaae653ad Homepage: https://cran.r-project.org/package=cv Description: CRAN Package 'cv' (Cross-Validating Regression Models) Cross-validation methods of regression models that exploit features of various modeling functions to improve speed. Some of the methods implemented in the package are novel, as described in the package vignettes; for general introductions to cross-validation, see, for example, Gareth James, Daniela Witten, Trevor Hastie, and Robert Tibshirani (2021, ISBN 978-1-0716-1417-4, Secs. 5.1, 5.3), "An Introduction to Statistical Learning with Applications in R, Second Edition", and Trevor Hastie, Robert Tibshirani, and Jerome Friedman (2009, ISBN 978-0-387-84857-0, Sec. 7.10), "The Elements of Statistical Learning, Second Edition". 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References are Panichkitkosolkul (2013) , Altunkaynak & Gamgam (2018) , Albatineh, Kibria, Wilcox & Zogheib (2014) . Package: r-cran-cvcrand Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 392 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tableone Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-cvcrand_0.1.1-1.ca2004.1_all.deb Size: 165072 MD5sum: 5f61c50dafe5c6e4077268b7a714d7a8 SHA1: eaec25ee09a5329db67fe772f2f99059e876aa27 SHA256: 68258dee7cd10f955b6e89d7cf9f521e0f68de45a7bf172c370087a4a8c30d9a SHA512: 68db25988a788cac0adb42c93bb054eba1e6fd4c59617c872779e56d972092445c65adb7a585943dea38b051a2b9dc98eebf9571a49c62a21ffa198c85ddca8c Homepage: https://cran.r-project.org/package=cvcrand Description: CRAN Package 'cvcrand' (Efficient Design and Analysis of Cluster Randomized Trials) Constrained randomization by Raab and Butcher (2001) is suitable for cluster randomized trials (CRTs) with a small number of clusters (e.g., 20 or fewer). The procedure of constrained randomization is based on the baseline values of some cluster-level covariates specified. The intervention effect on the individual outcome can then be analyzed through clustered permutation test introduced by Gail, et al. (1996) . Motivated from Li, et al. (2016) , the package performs constrained randomization on the baseline values of cluster-level covariates and clustered permutation test on the individual-level outcomes for cluster randomized trials. Package: r-cran-cvd Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1770 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cvd_1.0.2-1.ca2004.1_all.deb Size: 1591132 MD5sum: b9be4ebca43e58c95400499e6bf88346 SHA1: b64e331051bfbd0106a653d62e09646e65c2b880 SHA256: 5accc2d10f64bb974b7fff026386d0c276744d504be45a0d8488eba376ebfe3c SHA512: 153a9daaf46eb92f904003d98f510393bd4d5a4e77985001148e8d4f22cdec95f8dbe7471c347cba4f110b199ea434cc7ce9fcc11f410d8ca1ff39abcb1c3afb Homepage: https://cran.r-project.org/package=CVD Description: CRAN Package 'CVD' (Color Vision Deficiencies) Methods for color vision deficiencies (CVD), to help understanding and mitigating issues with CVDs and to generate tests for diagnosis and interpretation. 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Package: r-cran-cvglasso Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-ggplot2, r-cran-dplyr, r-cran-glasso Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cvglasso_1.0-1.ca2004.1_all.deb Size: 51632 MD5sum: ea137e8f3f6f852833839fda7176dcc9 SHA1: 01356870295321a61b79e3d3b952112364b03e1d SHA256: cf7f77f54ac098019c8ca00205ee8e0980e4c9c436f5c017d4a19caf67a6446d SHA512: 66c2ff0d99f9399b6a5a477142b723282e6bcc72e226263c786c3eb841d8b055e39e88e15a00968cd848232d233feff414f3e5f6e8c55435cc11710412dd7b40 Homepage: https://cran.r-project.org/package=CVglasso Description: CRAN Package 'CVglasso' (Lasso Penalized Precision Matrix Estimation) Estimates a lasso penalized precision matrix via the blockwise coordinate descent (BCD). This package is a simple wrapper around the popular 'glasso' package that extends and enhances its capabilities. These enhancements include built-in cross validation and visualizations. See Friedman et al (2008) for details regarding the estimation method. Package: r-cran-cvmaplfam Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fda, r-cran-quadprog, r-cran-mgcv, r-cran-mass Filename: pool/dists/focal/main/r-cran-cvmaplfam_0.1.1-1.ca2004.1_all.deb Size: 57644 MD5sum: 2b2b34a136940499684da7b24c1e7de7 SHA1: b0e14b1e134f1560c5c1a9607913e47d9cac7417 SHA256: 28d3c0ea9599c3b1967fe4383285ff301692491ef86c775f475d215205bf84b2 SHA512: 7b4b22760b4aab9c0d6591d3c1ea2aa26596acff0e9733a38d39e4ccbda27d323be477948fd8dd7527310739ab03db5a9a9d02313625c6b2c200f2bba3133924 Homepage: https://cran.r-project.org/package=cvmaPLFAM Description: CRAN Package 'cvmaPLFAM' (Cross-Validation Model Averaging for Partial Linear FunctionalAdditive Models) Produce an averaging estimate/prediction by combining all candidate models for partial linear functional additive models, using multi-fold cross-validation criterion. More details can be referred to arXiv e-Prints via . Package: r-cran-cvmdisc Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-compquadform Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cvmdisc_0.1.0-1.ca2004.1_all.deb Size: 50520 MD5sum: 40d6497a544ae307e01ea4bf7c807e0d SHA1: ef2365e95785d6ecabd6c8672e307c21027b049c SHA256: b03a4aa35a496a758ba0761ae0f3aca4fa7e91c4cb9a2ba4a0479c10eddb8ced SHA512: af6205e4d7a42a6f8ea554720207b5dcf35caa0696773d1e558b4ad39c5d16c06fa118e71bc7af19ad08a52619052bb3d20bdef2f2bde44176513d36281be8f6 Homepage: https://cran.r-project.org/package=cvmdisc Description: CRAN Package 'cvmdisc' (Cramer von Mises Tests for Discrete or Grouped Distributions) Implements Cramer-von Mises Statistics for testing fit to (1) fully specified discrete distributions as described in Choulakian, Lockhart and Stephens (1994) (2) discrete distributions with unknown parameters that must be estimated from the sample data, see Spinelli & Stephens (1997) and Lockhart, Spinelli and Stephens (2007) (3) grouped continuous distributions with Unknown Parameters, see Spinelli (2001) . Maximum likelihood estimation (MLE) is used to estimate the parameters. The package computes the Cramer-von Mises Statistics, Anderson-Darling Statistics and the Watson-Stephens Statistics and their p-values. Package: r-cran-cvmgof Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Filename: pool/dists/focal/main/r-cran-cvmgof_1.0.3-1.ca2004.1_all.deb Size: 112348 MD5sum: 174ad77e79fcfc8adf30316ad0b8e536 SHA1: 468cc5f6905c0b90f8272571589137b731c13e5e SHA256: 155defaea33be49d2c781483a8af7c2ac4294df20bd059bda7a2b8b36807e0b1 SHA512: 6c97e7f3cac71914722b14a2a9da624656ec831877c63a50860aea76fe08727be6428c3491a5e0dc766ccdde888a566c99235eaf7c11336f8e4a42f7ada5f559 Homepage: https://cran.r-project.org/package=cvmgof Description: CRAN Package 'cvmgof' (Cramer-von Mises Goodness-of-Fit Tests) It is devoted to Cramer-von Mises goodness-of-fit tests. It implements three statistical methods based on Cramer-von Mises statistics to estimate and test a regression model. Package: r-cran-cvmortalitymult Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2273 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-stmomo, r-cran-forecast, r-cran-gnm, r-cran-tmap, r-cran-sf Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cvmortalitymult_1.1.0-1.ca2004.1_all.deb Size: 1998944 MD5sum: f93b5d709e70f6e88051418178f7d149 SHA1: 1e69481bb0df3f3a7e2d27bb2d5855251d87259b SHA256: 434d1d07c74e4e451cf4702ea1df62221bacbfe5439d7949194fec08e2db39aa SHA512: faa51ea84f689ea820820f72635a578eafffb68c3ec3e2b0533b765c41763a3c511682b2bedcda1b6271fd2b65e975c388143945e89c38c7f23adfdc967ffc17 Homepage: https://cran.r-project.org/package=CvmortalityMult Description: CRAN Package 'CvmortalityMult' (Cross-Validation for Multi-Population Mortality Models) Implementation of cross-validation method for testing the forecasting accuracy of several multi-population mortality models. The family of multi-population includes several multi-population mortality models proposed through the actuarial and demography literature. The package includes functions for fitting and forecast the mortality rates of several populations. Additionally, we include functions for testing the forecasting accuracy of different multi-population models. References. Atance, D., Debon, A., and Navarro, E. (2020) . Bergmeir, C. & Benitez, J.M. (2012) . Debon, A., Montes, F., & Martinez-Ruiz, F. (2011) . Lee, R.D. & Carter, L.R. (1992) . Russolillo, M., Giordano, G., & Haberman, S. (2011) . Santolino, M. (2023) . Package: r-cran-cvms Architecture: all Version: 1.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4743 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-groupdata2, r-cran-lifecycle, r-cran-lme4, r-cran-mumin, r-cran-parameters, r-cran-plyr, r-cran-proc, r-cran-purrr, r-cran-rearrr, r-cran-recipes, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-auc, r-cran-covr, r-cran-e1071, r-cran-furrr, r-cran-ggimage, r-cran-ggnewscale, r-cran-knitr, r-cran-merderiv, r-cran-nnet, r-cran-randomforest, r-cran-rmarkdown, r-cran-rsvg, r-cran-testthat, r-cran-xpectr Filename: pool/dists/focal/main/r-cran-cvms_1.7.0-1.ca2004.1_all.deb Size: 3527468 MD5sum: 57d07f5f00209ccacd79acd3d5990469 SHA1: 6eaa46c44c0e681523a253394fa0aaa4d47d8aa5 SHA256: 0325280bca565e8986608f96194b3eb807947781d436958d07ac4eb9a55c3a4e SHA512: 483dcb822e03df5fe55bcfd37a0c521a79e2328100f72499d0861b58cb958d7fd803b4baf997724c413e3afb34aea3404b2191f64166da666b16a9e87d126429 Homepage: https://cran.r-project.org/package=cvms Description: CRAN Package 'cvms' (Cross-Validation for Model Selection) Cross-validate one or multiple regression and classification models and get relevant evaluation metrics in a tidy format. Validate the best model on a test set and compare it to a baseline evaluation. Alternatively, evaluate predictions from an external model. Currently supports regression and classification (binary and multiclass). Described in chp. 5 of Jeyaraman, B. P., Olsen, L. R., & Wambugu M. (2019, ISBN: 9781838550134). Package: r-cran-cvq2 Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-cvq2_1.2.0-1.ca2004.1_all.deb Size: 193624 MD5sum: 02ff845587b3bfd9e89c7785ba1d6307 SHA1: e036d874db284bafe197b51df4ec2fc1ffac071b SHA256: e159b915754bcb38d524ae6fe3acf6b39e08ba70a0ef99bff01cc20fdfe7c3b8 SHA512: 06e556ee5bb093c1e40be782d2ef38b72b809b420845d472b34b8033eca1ab79cd61d37d074a47d17edbbcff971915afa540c521d5526272e2f60b234d797e9d Homepage: https://cran.r-project.org/package=cvq2 Description: CRAN Package 'cvq2' (Calculate the predictive squared correlation coefficient) The external prediction capability of quantitative structure-activity relationship (QSAR) models is often quantified using the predictive squared correlation coefficient. This value can be calculated with an external data set or by cross validation. Package: r-cran-cvrisk Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat, r-cran-covr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-cvrisk_1.1.1-1.ca2004.1_all.deb Size: 59236 MD5sum: 8d5c3de6855464af1a6ca1573102e835 SHA1: 93e11d84c510a04a42fde12075083c660622e622 SHA256: 38b87f48d591906c50ec734f1dc9dcfd0bb6d60464c527c33842481bd544df15 SHA512: 9c740b8954101b0a68de1029f8afe2e9492176b2def59c0b30ba48b8e4f6c475c54b4980e0ad8b10659c7224466e904ee4acc58d2b6ab4b24a5f502565538b62 Homepage: https://cran.r-project.org/package=CVrisk Description: CRAN Package 'CVrisk' (Compute Risk Scores for Cardiovascular Diseases) Calculate various cardiovascular disease risk scores from the Framingham Heart Study (FHS), the American College of Cardiology (ACC), and the American Heart Association (AHA) as described in D’agostino, et al (2008) , Goff, et al (2013) , and Mclelland, et al (2015) . Package: r-cran-cvsem Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-lavaan, r-cran-rdpack Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cvsem_1.0.0-1.ca2004.1_all.deb Size: 38608 MD5sum: e1979fcfba54f40e1682e80846e38665 SHA1: b8f93a73286b5071bca4e2597c8120c2379c04af SHA256: 6e586ae0a769c6b438cb1d80eb39d9b5ad9018d94d71f25818c0869dbb4e84e2 SHA512: 57140fafccc6a80231af7f12428f0b87b11795de7cfc4c0c58f7085d92b9735611d75d3e20fde64c7effe74866ea781a218c934ec79c0bba651776c3886c0bdf Homepage: https://cran.r-project.org/package=cvsem Description: CRAN Package 'cvsem' (SEM Model Comparison with K-Fold Cross-Validation) The goal of 'cvsem' is to provide functions that allow for comparing Structural Equation Models (SEM) using cross-validation. Users can specify multiple SEMs using 'lavaan' syntax. 'cvsem' computes the Kullback Leibler (KL) Divergence between 1) the model implied covariance matrix estimated from the training data and 2) the sample covariance matrix estimated from the test data described in Cudeck, Robert & Browne (1983) . The KL Divergence is computed for each of the specified SEMs allowing for the models to be compared based on their prediction errors. Package: r-cran-cvst Architecture: all Version: 0.2-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernlab, r-cran-matrix Filename: pool/dists/focal/main/r-cran-cvst_0.2-3-1.ca2004.1_all.deb Size: 85720 MD5sum: fd1be262990e17f574e2adef3846ac08 SHA1: 6a3c9b5fb61cbb439168aa9402e6eba349dfa2dd SHA256: 914eee90ba2cdfa3846c9764e4b726a5424fbf4a932cea161046d26d03be5af6 SHA512: 0e4a3918ea8e1edb61240b638ae7c66ff35608ec61f527535657bdec058babd7183c2d22dfe8531934d1411e23062694a6dc6ed49f65b8ce3779a9105492d756 Homepage: https://cran.r-project.org/package=CVST Description: CRAN Package 'CVST' (Fast Cross-Validation via Sequential Testing) The fast cross-validation via sequential testing (CVST) procedure is an improved cross-validation procedure which uses non-parametric testing coupled with sequential analysis to determine the best parameter set on linearly increasing subsets of the data. By eliminating under-performing candidates quickly and keeping promising candidates as long as possible, the method speeds up the computation while preserving the capability of a full cross-validation. Additionally to the CVST the package contains an implementation of the ordinary k-fold cross-validation with a flexible and powerful set of helper objects and methods to handle the overall model selection process. The implementations of the Cochran's Q test with permutations and the sequential testing framework of Wald are generic and can therefore also be used in other contexts. Package: r-cran-cvthresh Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-wavethresh, r-cran-ebayesthresh Filename: pool/dists/focal/main/r-cran-cvthresh_1.1.2-1.ca2004.1_all.deb Size: 78344 MD5sum: 6e08b454ce949bfbaae0c2c2f2679a2d SHA1: 90d47db38753da714802e427d39f275ba1936e93 SHA256: abc25d32774fc78b0c9c282aac9d79b3254397f6a4f576b010f262d10170b1ae SHA512: 0819b77a1dc5c764f0ae1dacd80a67a874dbfcf996b8002488560d1b2c256f1475a6b501832489de76073ced4f5fa2e1acc4d22e74a7ea85e97265ec8d3b0484 Homepage: https://cran.r-project.org/package=CVThresh Description: CRAN Package 'CVThresh' (Level-Dependent Cross-Validation Thresholding) The level-dependent cross-validation method is implemented for the selection of thresholding value in wavelet shrinkage. This procedure is implemented by coupling a conventional cross validation with an imputation method due to a limitation of data length, a power of 2. It can be easily applied to classical leave-one-out and k-fold cross validation. Since the procedure is computationally fast, a level-dependent cross validation can be performed for wavelet shrinkage of various data such as a data with correlated errors. Package: r-cran-cvtools Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 288 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lattice, r-cran-robustbase Filename: pool/dists/focal/main/r-cran-cvtools_0.3.3-1.ca2004.1_all.deb Size: 196044 MD5sum: 3eaeac8a688d2c8bbee6c0926f3e154c SHA1: e3ece56531ef682af188ab258e04c3314151757e SHA256: e8f5468b9a68094effc58475a9d2e4378f31f051e73cd313ce8215e24092c555 SHA512: 8e5c4a788a3869ef1d593f63999ab0b2fd2a36824379b37b3a799e3e57b732e78fd56318fb605863e8330ae209807a62817f97ea8a25b44a49b5d851a3a6a68d Homepage: https://cran.r-project.org/package=cvTools Description: CRAN Package 'cvTools' (Cross-Validation Tools for Regression Models) Tools that allow developers to write functions for cross-validation with minimal programming effort and assist users with model selection. Package: r-cran-cvtuningcov Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-cvtuningcov_1.0-1.ca2004.1_all.deb Size: 39048 MD5sum: be1b3729aa04e9abb26aab7af9ec7d6a SHA1: 8df9cc2addefb9d7ab15fe6354b6523e0b26be54 SHA256: 9c9dfb96cb24a104ec2b92d6b57d21fa1afd78fa1f83b7129aada69ee8cba0a8 SHA512: 51a619760b08eea82cabbbd561c67e0a9cf75628f5d41b4f5b02dd50316fe0ec738ec1300cab8a566dc1b1bc5f8a0a4e7e20a9393e25eda905bc6c91a30bf11a Homepage: https://cran.r-project.org/package=CVTuningCov Description: CRAN Package 'CVTuningCov' (Regularized Estimators of Covariance Matrices with CV Tuning) This is a package for selecting tuning parameters based on cross-validation (CV) in regularized estimators of large covariance matrices. Four regularized methods are implemented: banding, tapering, hard-thresholding and soft-thresholding. Two types of matrix norms are applied: Frobenius norm and operator norm. Two types of CV are considered: K-fold CV and random CV. Usually K-fold CV use K-1 folds to train a model and the rest one fold to validate the model. The reverse version trains a model with 1 fold and validates with the rest with K-1 folds. Random CV randomly splits the data set to two parts, a training set and a validation set with user-specified sizes. Package: r-cran-cvwrapr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 619 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-foreach Suggests: r-cran-doparallel, r-cran-gbm, r-cran-glmnet, r-cran-knitr, r-cran-matrix, r-cran-pls, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-cvwrapr_1.0-1.ca2004.1_all.deb Size: 388616 MD5sum: 9544ebd973566d7d6f14365ead1fde79 SHA1: d1e51bfada04d9a254fc77687e45824157cf6acc SHA256: 15ec52a023a01e97618202eabcd8b9fb124aa78147df2a8f634dc4e1d3258bc9 SHA512: d8ebe5f2afc33ac094a6cec8e967b71f46784f83c9f527e448fceb123f0b1eaff54afe6b4414ccb1de8edef8d1dcf24ed163d82dcafa33b86f1018856b05da9e Homepage: https://cran.r-project.org/package=cvwrapr Description: CRAN Package 'cvwrapr' (Tools for Cross Validation) Tools for performing cross-validation (CV). The main function is a general purpose wrapper that performs k-fold CV for any tuning parameter in any supervised learning method. The package also has a function that computes the loss incurred by a set of predictions for a variety of loss functions and model families. Package: r-cran-cwbtools Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1227 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-r6, r-cran-xml2, r-cran-stringi, r-cran-curl, r-cran-rcppcwb, r-cran-pbapply, r-cran-cli, r-cran-jsonlite, r-cran-httr, r-cran-rstudioapi, r-cran-zen4r, r-cran-lifecycle, r-cran-fs Suggests: r-cran-tm, r-cran-knitr, r-cran-markdown, r-cran-tokenizers, r-cran-tidytext, r-cran-snowballc, r-cran-janeaustenr, r-cran-testthat, r-cran-rmarkdown, r-cran-aws.s3, r-cran-quanteda, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-cwbtools_0.4.2-1.ca2004.1_all.deb Size: 460772 MD5sum: c658c26be067f1c09801af8a097c4726 SHA1: f0544da686dba3b863154152e6b8355e0e6734f9 SHA256: 138d5827cfe5dd36b1589e50925cb054705a768530ebb8bce192d0d5a6035669 SHA512: 1a994de7ae565aa6cdf1923bd9fdcb0174046bfe456ca96dab469a82615def9fbd8d6d9f2e47f2e8c46a650a49d1ef237725bf03d978c2c2fd5b15997633630a Homepage: https://cran.r-project.org/package=cwbtools Description: CRAN Package 'cwbtools' (Tools to Create, Modify and Manage 'CWB' Corpora) The 'Corpus Workbench' ('CWB', ) offers a classic and mature approach for working with large, linguistically and structurally annotated corpora. The 'CWB' is memory efficient and its design makes running queries fast, see Evert (2011) . The 'cwbtools' package offers pure 'R' tools to create indexed corpus files as well as high-level wrappers for the original 'C' implementation of 'CWB' as exposed by the 'RcppCWB' package (). Additional functionality to add and modify annotations of corpora from within 'R' makes working with 'CWB' indexed corpora much more flexible and convenient. The 'cwbtools' package in combination with the 'R' packages 'RcppCWB' () and 'polmineR' () offers a lightweight infrastructure to support the combination of quantitative and qualitative approaches for working with textual data. 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Package: r-cran-cyclotomic Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 267 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-intmap, r-cran-gmp, r-cran-maybe, r-cran-memoise, r-cran-numbers, r-cran-verylargeintegers Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-cyclotomic_1.3.0-1.ca2004.1_all.deb Size: 217424 MD5sum: 51a1dad7f71840a412eed0e96dff6e1f SHA1: 0ade6e7b8f646b803c04b05b80d08228bed50f34 SHA256: f6208bb7ef16e6198bb56aeac4f599bc75e28152f5780857acc58534fe05d1bd SHA512: 573730eadf86445d03317b33d29e12ca9a3e312bdd0368932249dee322fbdbd123e0ff310c4f3439ad20fbd6d9b4c08e3f2c913edbcbda54d1324ff685fd0a7f Homepage: https://cran.r-project.org/package=cyclotomic Description: CRAN Package 'cyclotomic' (The Field of Cyclotomic Numbers) The cyclotomic numbers are complex numbers that can be thought of as the rational numbers extended with the roots of unity. 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English: It provides a Portuguese translated version of the datasets listed above. 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'Document AI' is a powerful server-based OCR service that extracts text and tables from images and PDF files with high accuracy. 'daiR' gives R users programmatic access to this service and additional tools to handle and visualize the output. See the package website for more information and examples. Package: r-cran-daisieprep Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3524 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-phylobase, r-cran-ggplot2, r-cran-scales, r-bioc-ggtree, r-cran-daisie, r-cran-castor, r-cran-tibble, r-cran-rlang Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-diversitree, r-cran-corhmm, r-cran-tidyr, r-cran-dplyr, r-cran-ggimage Filename: pool/dists/focal/main/r-cran-daisieprep_1.0.0-1.ca2004.1_all.deb Size: 2061044 MD5sum: 9f5725f56d66f39e386d873e594f93d7 SHA1: d589d891a11108f0b6724ac0fd38a678165bec33 SHA256: a0649a9fba67563b7a228fff81553fb51fa2769412defe10376c5000f0152d01 SHA512: bc8ada0423ab4ab371753ab8016032f1acc5766c553b529d8f16fc6cb4eedd1289d93e36cb9d4c090cc631f58e7b75fd450c607d63a93e9a3dd7778b87bf0d5e Homepage: https://cran.r-project.org/package=DAISIEprep Description: CRAN Package 'DAISIEprep' (Extracts Phylogenetic Island Community Data from PhylogeneticTrees) Extracts colonisation and branching times of island species to be used for analysis in the R package 'DAISIE'. It uses phylogenetic and endemicity data to extract the separate island colonists and store them. Package: r-cran-daks Architecture: all Version: 2.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 808 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-relations, r-cran-sets Filename: pool/dists/focal/main/r-cran-daks_2.1-3-1.ca2004.1_all.deb Size: 711080 MD5sum: 1a52f4899509f79b738916c147d73248 SHA1: c9643ba15739cb8f198ea4f7d0046f783de90f27 SHA256: ebcfe5f80856c4975553529c7f22ca7b33b3f3b1205bfc05337bcf637f1b1487 SHA512: 1d27bc92138cf3800829821a8973502891ecbbe8efb43c3f95de80c4ca98bf57c84d4436d0320b5f15cf67087076ab266df08b3d0df025ad1de03553002b86d3 Homepage: https://cran.r-project.org/package=DAKS Description: CRAN Package 'DAKS' (Data Analysis and Knowledge Spaces) Functions and an example dataset for the psychometric theory of knowledge spaces. This package implements data analysis methods and procedures for simulating data and quasi orders and transforming different formulations in knowledge space theory. See package?DAKS for an overview. Package: r-cran-dalex Architecture: all Version: 2.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1412 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-ibreakdown, r-cran-ingredients Suggests: r-cran-gower, r-cran-ranger, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dalex_2.4.3-1.ca2004.1_all.deb Size: 1096436 MD5sum: a4e47447039f56fb52ea6928bcb33917 SHA1: f8b2199c5494c58276fd4f3dfadcd6f64e331569 SHA256: b766dadff3df048ad7e9baefc47821e1fe08b064025fc0d01f685c1b588aafea SHA512: cbfa7f4b80f24905422ac8dbcafb8e1d5de1fcad32860dbb0205c85029cef4b4b7c20bf8b651ee044cb435c6bd92cf47227e41b9235dfa76b7299aa313f5c7ed Homepage: https://cran.r-project.org/package=DALEX Description: CRAN Package 'DALEX' (moDel Agnostic Language for Exploration and eXplanation) Any unverified black box model is the path to failure. Opaqueness leads to distrust. Distrust leads to ignoration. Ignoration leads to rejection. DALEX package xrays any model and helps to explore and explain its behaviour. Machine Learning (ML) models are widely used and have various applications in classification or regression. Models created with boosting, bagging, stacking or similar techniques are often used due to their high performance. But such black-box models usually lack direct interpretability. DALEX package contains various methods that help to understand the link between input variables and model output. Implemented methods help to explore the model on the level of a single instance as well as a level of the whole dataset. All model explainers are model agnostic and can be compared across different models. DALEX package is the cornerstone for 'DrWhy.AI' universe of packages for visual model exploration. Find more details in (Biecek 2018) . Package: r-cran-dalextra Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 808 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dalex, r-cran-ggplot2 Suggests: r-cran-auditor, r-cran-gbm, r-cran-ggrepel, r-cran-h2o, r-cran-iml, r-cran-ingredients, r-cran-lime, r-cran-localmodel, r-cran-mlr, r-cran-mlr3, r-cran-ranger, r-cran-recipes, r-cran-reticulate, r-cran-rmarkdown, r-cran-rpart, r-cran-stacks, r-cran-xgboost, r-cran-testthat, r-cran-tidymodels Filename: pool/dists/focal/main/r-cran-dalextra_2.3.0-1.ca2004.1_all.deb Size: 350180 MD5sum: 95aade0bcaeb66dfe84b80c4df59f185 SHA1: ed75285f00818f159585443211b7847d40734716 SHA256: 70f85967593941c71250a7b30f4ab9fbc76c1b1c9df73b94e0aa02abc5fac42f SHA512: 515c189003afe817c09d35ee98adcd328e4045f5f0c31544cbdd5c747ac6b176fbe48b9bdb8ebf0d9aabe7c4b6d340e905a2130b083998fddd3c3a96be598051 Homepage: https://cran.r-project.org/package=DALEXtra Description: CRAN Package 'DALEXtra' (Extension for 'DALEX' Package) Provides wrapper of various machine learning models. In applied machine learning, there is a strong belief that we need to strike a balance between interpretability and accuracy. However, in field of the interpretable machine learning, there are more and more new ideas for explaining black-box models, that are implemented in 'R'. 'DALEXtra' creates 'DALEX' Biecek (2018) explainer for many type of models including those created using 'python' 'scikit-learn' and 'keras' libraries, and 'java' 'h2o' library. Important part of the package is Champion-Challenger analysis and innovative approach to model performance across subsets of test data presented in Funnel Plot. Package: r-cran-dalmatian Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4834 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-ggmcmc, r-cran-dglm, r-cran-tidyr, r-cran-dplyr, r-cran-rlang Suggests: r-cran-rmarkdown, r-cran-rjags, r-cran-nimble, r-cran-knitr, r-cran-ggplot2, r-cran-dclone Filename: pool/dists/focal/main/r-cran-dalmatian_1.0.0-1.ca2004.1_all.deb Size: 3926784 MD5sum: 17317015e5bdf7cfc2251f84ebfe8fba SHA1: e1d98bfa43f9a345e35757253bf18709116de344 SHA256: 970b72e5e3724b4f55f8f0a3152003be4671f8b24e5f1d595331f3406c2b59ed SHA512: d619c491a45fff5b888fd0992a88af2b075bfd838179ae243a8dd1aca893e4d0a7bcf7957857dc5064b6072220a16e15e3e8489fd1dacf18ce6e71777d894219 Homepage: https://cran.r-project.org/package=dalmatian Description: CRAN Package 'dalmatian' (Automating the Fitting of Double Linear Mixed Models in 'JAGS'and 'nimble') Automates fitting of double GLM in 'JAGS'. Includes automatic generation of 'JAGS' scripts, running 'JAGS' or 'nimble' via the 'rjags' and 'nimble' package, and summarizing the resulting output. For further information see Bonner, Kim, Westneat, Mutzel, Wright, and Schofield . Package: r-cran-dalsm Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 421 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cubicbsplines, r-cran-mass, r-cran-plyr Filename: pool/dists/focal/main/r-cran-dalsm_0.9.1-1.ca2004.1_all.deb Size: 366776 MD5sum: 9ae7b14450c7ab4d364848d0a0b7b29d SHA1: a04bb73fc1c249e9be6c9902581e1d25694dc3bd SHA256: 27537c4d9fc9c5e3a6a164cdc34412e54c418c7e6398b711058872fd2e1b3e69 SHA512: 7268ecbefe8505c219c6438072cd8e3d4a99698f637e8d7c65c1733f4e73dd47bc02b743cec170c4695c6a654975265170d2ed7839b6e0ec19e8568bcbacb019 Homepage: https://cran.r-project.org/package=DALSM Description: CRAN Package 'DALSM' (Nonparametric Double Additive Location-Scale Model (DALSM)) Fit of a double additive location-scale model with a nonparametric error distribution from possibly right- or interval censored data. The additive terms in the location and dispersion submodels, as well as the unknown error distribution in the location-scale model, are estimated using Laplace P-splines. For more details, see Lambert (2021) . Package: r-cran-daltoolbox Architecture: all Version: 1.2.727-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 390 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fnn, r-cran-caret, r-cran-class, r-cran-cluster, r-cran-dbscan, r-cran-dplyr, r-cran-e1071, r-cran-ggplot2, r-cran-nnet, r-cran-randomforest, r-cran-reshape, r-cran-tree Filename: pool/dists/focal/main/r-cran-daltoolbox_1.2.727-1.ca2004.1_all.deb Size: 328892 MD5sum: 1a4d481bb370bc90398935da21bd24d1 SHA1: 4d6b3095cc8ec4351b3d38403a347b7fa043e03d SHA256: 0bbc1d1e67290948c25fa6a2bc7f5d417657e877f81f504fbb198a08d5a3030c SHA512: 7e7441aecfec6dba300861d89e3d8e08e003fde7815767470dd3088dea14417e290803ca800ab6a275754ec36966c39c60682c81a55a2ee48ccef71168c5291e Homepage: https://cran.r-project.org/package=daltoolbox Description: CRAN Package 'daltoolbox' (Leveraging Experiment Lines to Data Analytics) The natural increase in the complexity of current research experiments and data demands better tools to enhance productivity in Data Analytics. The package is a framework designed to address the modern challenges in data analytics workflows. The package is inspired by Experiment Line concepts. It aims to provide seamless support for users in developing their data mining workflows by offering a uniform data model and method API. It enables the integration of various data mining activities, including data preprocessing, classification, regression, clustering, and time series prediction. It also offers options for hyper-parameter tuning and supports integration with existing libraries and languages. Overall, the package provides researchers with a comprehensive set of functionalities for data science, promoting ease of use, extensibility, and integration with various tools and libraries. Information on Experiment Line is based on Ogasawara et al. (2009) . Package: r-cran-daltoolboxdp Architecture: all Version: 1.2.727-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 329 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tspredit, r-cran-daltoolbox, r-cran-leaps, r-cran-fselector, r-cran-doby, r-cran-glmnet, r-cran-smotefamily, r-cran-reticulate Filename: pool/dists/focal/main/r-cran-daltoolboxdp_1.2.727-1.ca2004.1_all.deb Size: 190856 MD5sum: 3ea03aced7a3d9c67fee913b9250faae SHA1: 474465c19f8d09ed2e7c89149691f0e27f39e72d SHA256: 67943f8872998c666281ff9653e47cbdde0bd735d80ba6e76a2759349cdf6b9f SHA512: 59470a90e9df72c7c74c13228157a0a8f55b4a4fbfba36464e3d85bcd065546e538856266eeeda893b181ce2f30e96dbcd3f4f02d3cd8c22bd73b05c9a0dc5f1 Homepage: https://cran.r-project.org/package=daltoolboxdp Description: CRAN Package 'daltoolboxdp' (Python-Based Extensions for Data Analytics Workflows) Provides Python-based extensions to enhance data analytics workflows, particularly for tasks involving data preprocessing and predictive modeling. Includes tools for data sampling, transformation, feature selection, balancing strategies (e.g., SMOTE), and model construction. These capabilities leverage Python libraries via the reticulate interface, enabling seamless integration with a broader machine learning ecosystem. Supports instance selection and hybrid workflows that combine R and Python functionalities for flexible and reproducible analytical pipelines. The architecture is inspired by the Experiment Lines approach, which promotes modularity, extensibility, and interoperability across tools. More information on Experiment Lines is available in Ogasawara et al. (2009) . Package: r-cran-dam Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 40 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dam_0.0.1-1.ca2004.1_all.deb Size: 9564 MD5sum: 35da45f08aebcd026a738693176c573e SHA1: e0a747bc19be3fb5781e7fe93ac6f39851f200ae SHA256: e93c384bd66de80c63863f21280167ca7376cd46ba33fc8fc4226aec52ad2e50 SHA512: 326d81e231fee6326bab06861342b57790819974e7cd5f50513c692216ffdd228aab645b93190ccc6e6ca90909d61b6c2a41d459429a4fd7166d3f2edc351db5 Homepage: https://cran.r-project.org/package=dam Description: CRAN Package 'dam' (Data Analysis Metabolomics) A collection of functions which aim to assist common computational workflow for analysis of matabolomic data.. Package: r-cran-damagedetective Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2388 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cowplot, r-cran-dplyr, r-cran-ggplot2, r-cran-ggpubr, r-cran-matrix, r-cran-patchwork, r-cran-scales, r-cran-rcpphnsw, r-cran-rlang, r-cran-tidyr, r-cran-withr Suggests: r-cran-seurat, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-damagedetective_1.0.0-1.ca2004.1_all.deb Size: 854404 MD5sum: 7b0f798c9f3f3bdc266e9a0d46d6d21f SHA1: 2693bb7a6d7588dc129a729646961f8d4cc9a598 SHA256: ab3219ac786685e1acda33bd38ea07a57c5dd8e668f33d089f6beeca386cca0a SHA512: 8b02ee1c11912237a5fc8789a0cf30341f172efe6fea15a1efe9cb625132976b30121086757f3591cf24af9bab3761babe0e92d034724ff2bbd03b7873b02f16 Homepage: https://cran.r-project.org/package=DamageDetective Description: CRAN Package 'DamageDetective' (Detecting Damaged Cells in Single-Cell RNA Sequencing Data) Detects and filters damaged cells in single-cell RNA sequencing (scRNA-seq) data using a novel approach inspired by 'DoubletFinder'. Damage is detected by measuring the extent to which cells deviate from artificially damaged profiles of themselves, simulated through the probabilistic escape of cytoplasmic RNA. As output, a damage score ranging from 0 to 1 is given for each cell providing an intuitive scale for filtering that is standardised across cell types, samples, and experiments. Package: r-cran-damaoi Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1997 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-fnn, r-cran-magrittr, r-cran-sf, r-cran-units, r-cran-smoothr, r-cran-terra, r-cran-tibble, r-cran-tidyr, r-cran-shiny, r-cran-leaflet, r-cran-shinydashboard Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-damaoi_0.1-1.ca2004.1_all.deb Size: 1752568 MD5sum: 28f03889cd6e18331ba632c6c093e112 SHA1: ad36638b26ffde8b703c1ab8fafd6096f7a7a3e9 SHA256: 07f90794946bf6545134a2accc80a4446bfca12078ecf83e5dc760917c6cdc65 SHA512: 8e914f3fca46403df31d1445834a0c02aaf59a807207fafb54e919372ee7f4d334e9364960f3906cfa02c054a20f798a3d6b0025a18e9751c8e145cce8a8dd87 Homepage: https://cran.r-project.org/package=damAOI Description: CRAN Package 'damAOI' (Create an 'Area of Interest' Around a Constructed Dam forComparative Impact Evaluations) Define a spatial 'Area of Interest' (AOI) around a constructed dam using hydrology data. Dams have environmental and social impacts, both positive and negative. Current analyses of dams have no consistent way to specify at what spatial extent we should evaluate these impacts. 'damAOI' implements methods to adjust reservoir polygons to match satellite-observed surface water areas, plot upstream and downstream rivers using elevation data and accumulated river flow, and draw buffers clipped by river basins around reservoirs and relevant rivers. This helps to consistently determine the areas which could be impacted by dam construction, facilitating comparative analysis and informed infrastructure investments. Package: r-cran-damiann Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 171 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-testthat Filename: pool/dists/focal/main/r-cran-damiann_1.0.0-1.ca2004.1_all.deb Size: 128264 MD5sum: 8fefddd9dd484ec8ba81d4b8cd49b371 SHA1: c205204ac6d07032025b2b6e2a00cc6e17ad72f1 SHA256: 3b1e22b2bd575e3522df9c30cc5c4a878949842faaff2fa643fe774e5eeba97d SHA512: 8c141acb49e2b6c6113a894da0816e723f0282a9e30e6a8d134d0e9d6cc02634e2ec6c152542fe10136c7630dfd57508701f64d9680492ba4436c7d505d0b44c Homepage: https://cran.r-project.org/package=DamiaNN Description: CRAN Package 'DamiaNN' (Neural Network Numerai) Interactively train neural networks on Numerai, , data. Generate tournament predictions and write them to a CSV. Package: r-cran-damisc Architecture: all Version: 1.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2570 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice, r-cran-car, r-cran-effects, r-cran-ggplot2, r-cran-mass, r-cran-nnet, r-cran-xtable, r-cran-boot, r-cran-optiscale, r-cran-aiccmodavg, r-cran-latticeextra, r-cran-coda, r-cran-clarketest, r-cran-haven, r-cran-survey, r-cran-janitor, r-cran-tidyr, r-cran-tidyselect, r-cran-tibble, r-cran-magrittr, r-cran-dplyr, r-cran-rlang, r-cran-jtools, r-cran-dt, r-cran-srvyr Suggests: r-cran-cardata, r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-rstan Filename: pool/dists/focal/main/r-cran-damisc_1.7.2-1.ca2004.1_all.deb Size: 1896208 MD5sum: ed94e329f4f661dd661f2c065c47a4e4 SHA1: 5191274fb7cb4e88ac425a72ca48e30d073bfe7d SHA256: da288f2d772dc5d5873d5587baea07e93cf1f861561f772beae54f38bddf1bad SHA512: 1bc34ef214c1b547372712bad123e9c02a901e2b6e7b66f7c548faa7155523467595d2cbb935958bb0efffb3abb18dabb624170c632ae78b3d459eb820f3ef47 Homepage: https://cran.r-project.org/package=DAMisc Description: CRAN Package 'DAMisc' (Dave Armstrong's Miscellaneous Functions) Miscellaneous set of functions I use in my teaching either at the University of Western Ontario or the Inter-university Consortium for Political and Social Research (ICPSR) Summer Program in Quantitative Methods. Broadly, the functions help with presentation and interpretation of LMs and GLMs, but also implement some new tools like Alternating Least Squares Optimal Scaling for dependent variables, a Bayesian analog to the ALSOS algorithm. 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This package was developed with funding from the National Institutes of Allergy and Infectious Diseases of the National Institutes of Health under award no. R01AI138783. The content of this package is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. The theoretical underpinnings of 'dampack''s functionality are detailed in Hunink et al. (2014) . 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Package: r-cran-dapper Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayesplot, r-cran-checkmate, r-cran-furrr, r-cran-memoise, r-cran-posterior, r-cran-progressr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-dapper_1.0.1-1.ca2004.1_all.deb Size: 82392 MD5sum: 68bca7b25f68dd77d0f0e3a0f8e5d4e7 SHA1: 14a2637647b86c955c6cb5445aa7fa4a9de108f6 SHA256: e5409cd0232650950cc53a2c076efcb5e9334e9575d3337a5418c9dc336f99be SHA512: 63040e7f6c43c057d5347b5dbf630d924cdffb40c640cd467ac6340a21588aa4323861d2dfb2362f79c8efdea29459e661f135e621854b868139c01bab08c022 Homepage: https://cran.r-project.org/package=dapper Description: CRAN Package 'dapper' (Data Augmentation for Private Posterior Estimation) A data augmentation based sampler for conducting privacy-aware Bayesian inference. 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Package: r-cran-darand Architecture: all Version: 0.0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-darand_0.0.1.2-1.ca2004.1_all.deb Size: 29620 MD5sum: d952b7d8c867073a8ddde16eedc27e84 SHA1: c1897258bc5431a065c4a295fae27c8a79c89b7d SHA256: c284b0f60a791a2f9d4a538de8a9eef825d5a18c8b6c49cdff8f908e4fac97bf SHA512: 479d25f39a4f184ca111e3611b7039899d8f3ccb9ad65ca53c453053de713bbd69ececab77c232ba527569702c665ff8bb95f9d8d4ed195681128e6b455f8a42 Homepage: https://cran.r-project.org/package=DArand Description: CRAN Package 'DArand' (Differential Analysis with Random Reference Genes) Differential Analysis of short RNA transcripts that can be modeled by either Poisson or Negative binomial distribution. The statistical methodology implemented in this package is based on the random selection of references genes (Desaulle et al. (2021) ). 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Package: r-cran-darkdiv Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vegan Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-darkdiv_0.3.0-1.ca2004.1_all.deb Size: 35424 MD5sum: 04a206af96879edbe3420b03b4bb15eb SHA1: f4a18df54a1e9a7f5b78ef616c2b13b88117d449 SHA256: e49b8442e8a60c4fe9cd547b7196f65354da611b27a141b648917c8d335ac840 SHA512: 6ace23607ef5e09ab4019d5809ce2eb9c7ba20bbc9789b1d99ddafe8e697fae7bb6b88369bfa786bc866fd5735a2770f152be1b1c67bc87b0d65ae51b4228583 Homepage: https://cran.r-project.org/package=DarkDiv Description: CRAN Package 'DarkDiv' (Estimating Dark Diversity and Site-Specific Species Pools) Estimation of dark diversity and site-specific species pools using species co-occurrences. It includes implementations of probabilistic dark diversity based on the Hypergeometric distribution, as well as estimations based on the Beals index, which can be transformed to binary predictions using different thresholds, or transformed into a favorability index. All methods include the possibility of using a calibration dataset that is used to estimate the indication matrix between pairs of species, or to estimate dark diversity directly on a single dataset. See De Caceres and Legendre (2008) , Lewis et al. (2016) , Partel et al. (2011) , Real et al. (2017) for further information. Package: r-cran-darksky Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-gridextra, r-cran-gtable, r-cran-ggplot2, r-cran-plyr Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-darksky_1.3.0-1.ca2004.1_all.deb Size: 40000 MD5sum: bf6d4d63c167bcfa8beabcf3ece5117a SHA1: a373bd727c92e329f2214d040da5531e86345096 SHA256: 7a57c300bd321bc9cafc9ece19453af429645603df2002d10aa587356890282f SHA512: 3b0c381469ba547c99e1c658c7e7e61138a65175c5a05dc6f271ec04f3bbc5fc3e2e09f4a1d92fcee23572cc5f4abb9888fe6a949bd5b6b5e380a3f596d06f14 Homepage: https://cran.r-project.org/package=darksky Description: CRAN Package 'darksky' (Tools to Work with the 'Dark Sky' 'API') Provides programmatic access to the 'Dark Sky' 'API' , which provides current or historical global weather conditions. Package: r-cran-dartr.base Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3838 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-adegenet, r-cran-ggplot2, r-cran-dplyr, r-cran-dartr.data, r-cran-ape, r-cran-crayon, r-cran-data.table, r-cran-foreach, r-cran-gridextra, r-cran-patchwork, r-cran-plyr, r-cran-reshape2, r-bioc-snprelate, r-cran-stampp, r-cran-stringr, r-cran-tidyr, r-cran-mass, r-cran-snpassoc, r-bioc-snpstats, r-cran-raster Suggests: r-cran-boot, r-cran-devtools, r-cran-directlabels, r-cran-dismo, r-cran-doparallel, r-cran-expm, r-cran-gdistance, r-cran-gganimate, r-cran-ggrepel, r-cran-gtable, r-cran-ggthemes, r-cran-gplots, r-cran-hardyweinberg, r-cran-hierfstat, r-cran-igraph, r-cran-iterpc, r-cran-knitr, r-cran-label.switching, r-cran-lattice, r-cran-leaflet, r-cran-leaflet.minicharts, r-cran-markdown, r-cran-mmod, r-cran-networkd3, r-cran-pegas, r-cran-pheatmap, r-cran-plotly, r-cran-poppr, r-cran-proxy, r-cran-purrr, r-bioc-qvalue, r-cran-rcolorbrewer, r-cran-rcpp, r-cran-rgl, r-cran-rmarkdown, r-cran-rrblup, r-cran-scales, r-cran-seqinr, r-cran-sf, r-cran-shinybs, r-cran-shinyjs, r-cran-shinythemes, r-cran-shinywidgets, r-cran-siber, r-cran-stringi, r-cran-terra, r-cran-tibble, r-cran-vcfr, r-cran-zoo, r-cran-viridis, r-cran-fields, r-cran-testthat, r-cran-ggtern Filename: pool/dists/focal/main/r-cran-dartr.base_1.0.5-1.ca2004.1_all.deb Size: 3648796 MD5sum: fff8ba4bf1809aced629d2b937cb6c5a SHA1: 5bdfb16a3a6415c6293658f8c26b83543d979515 SHA256: b52aef5d8b876574830a1062458c20198ae20af213eb53bb7cc7c1cfc8c9c25c SHA512: 83741076afe72e0e319fa282290563c66c254c1c6f42dc4beee986435533b8d24a3bdf1f07e729cfa92ffad120461375594e59a5da6a149500986957483bac0f Homepage: https://cran.r-project.org/package=dartR.base Description: CRAN Package 'dartR.base' (Analysing 'SNP' and 'Silicodart' Data - Basic Functions) Facilitates the import and analysis of 'SNP' (single nucleotide 'polymorphism') and 'silicodart' (presence/absence) data. The main focus is on data generated by 'DarT' (Diversity Arrays Technology), however, data from other sequencing platforms can be used once 'SNP' or related fragment presence/absence data from any source is imported. Genetic datasets are stored in a derived 'genlight' format (package 'adegenet'), that allows for a very compact storage of data and metadata. Functions are available for importing and exporting of 'SNP' and 'silicodart' data, for reporting on and filtering on various criteria (e.g. 'callrate', 'heterozygosity', 'reproducibility', maximum allele frequency). Additional functions are available for visualization (e.g. Principle Coordinate Analysis) and creating a spatial representation using maps. 'dartR.base' is the 'base' package of the 'dartRverse' suits of packages. To install the other packages, we recommend to install the 'dartRverse' package, that supports the installation of all packages in the 'dartRverse'. If you want to cite 'dartR', you find the information by typing citation('dartR.base') in the console. Package: r-cran-dartr.captive Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 869 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-adegenet, r-cran-dartr.base, r-cran-dartr.data, r-cran-dartr.sim, r-cran-crayon, r-cran-ggplot2, r-cran-patchwork, r-cran-stringr, r-cran-data.table Suggests: r-cran-siber, r-cran-gplots, r-cran-fields, r-cran-igraph, r-cran-reshape2, r-cran-rrblup, r-cran-scales, r-cran-spelling Filename: pool/dists/focal/main/r-cran-dartr.captive_1.0.2-1.ca2004.1_all.deb Size: 845808 MD5sum: ccc3fc76253e6a2aa937832dc047ce68 SHA1: cad9759623fd0cdf0f967ad1f21fb6ca816c2e66 SHA256: dc3fd07f38e6ca0125df4361dbee8141bfc77f6711ba60f10aa50d916663949d SHA512: eb2fde562828d80f33d009f243d9f65fdd970e5696fe6e2b188d225e5d524bad462b0360c319c179385d2f7028fb8af200c5bba6436ef832a46d20fb629ca203 Homepage: https://cran.r-project.org/package=dartR.captive Description: CRAN Package 'dartR.captive' (Analysing 'SNP' Data to Support Captive Breeding) Functions are provided that facilitate the analysis of SNP (single nucleotide polymorphism) data to answer questions regarding captive breeding and relatedness between individuals. 'dartR.captive' is part of the 'dartRverse' suit of packages. Gruber et al. (2018) . Mijangos et al. (2022) . Package: r-cran-dartr.data Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5902 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-adegenet, r-cran-crayon Filename: pool/dists/focal/main/r-cran-dartr.data_1.0.8-1.ca2004.1_all.deb Size: 5373372 MD5sum: bf3815c464f6cb95333749007d53f854 SHA1: 0e7b3050c165fddae6e5b346b51ee88d422290df SHA256: 541fb565adbfea4e67110fc6d843f76c4493315139224b0923a1adc9cf6394a8 SHA512: 504ecdc4d4bd8e189f3f244dae8f548579e043461789c583ab831ca20e24606248b55ab3a56ce089ef1d40a9bc0e610558439b63664372114a6ee4e37a40539a Homepage: https://cran.r-project.org/package=dartR.data Description: CRAN Package 'dartR.data' (Auxiliary Data Package for Our Main Package 'dartR') Data package for 'dartR'. Provides data sets to run examples in 'dartR'. This was necessary due to the size limit imposed by 'CRAN'. The data in 'dartR.data' is needed to run the examples provided in the 'dartR' functions. All available data sets are either based on actual data (but reduced in size) and/or simulated data sets to allow the fast execution of examples and demonstration of the functions. Package: r-cran-dartr.popgen Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1052 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-adegenet, r-cran-dartr.base, r-cran-dartr.data, r-cran-mass, r-cran-dplyr, r-cran-patchwork, r-cran-crayon, r-cran-ggplot2, r-cran-data.table, r-cran-stringr, r-cran-furrr, r-cran-future, r-cran-ggdendro Suggests: r-cran-siber, r-cran-expm, r-cran-fields, r-cran-gplots, r-cran-gridextra, r-cran-igraph, r-cran-iterpc, r-cran-label.switching, r-cran-leaflet, r-cran-plyr, r-cran-proxy, r-cran-purrr, r-bioc-qvalue, r-cran-raster, r-cran-reshape2, r-cran-scales, r-bioc-snpstats, r-cran-tidyr, r-cran-viridis, r-cran-zoo, r-cran-gsubfn, r-cran-sp Filename: pool/dists/focal/main/r-cran-dartr.popgen_1.0.0-1.ca2004.1_all.deb Size: 1031268 MD5sum: 8535af0d6b19f4d83d317fb77ee35c11 SHA1: 02bb0207d65f35f357cf464394b9701ecd64f718 SHA256: 96aea2fbe67b24c96e645aff90e7110b4749312b8ac45a9e4e6e0b7affa4384d SHA512: 570a01a0669e64bc66cec231968ded942b197bd7a9a88864dabbe4586fed2bc464fb5b802c6f354a1256990a2b0624a31a52dc52fca1bc67aa7ffdb56835ef19 Homepage: https://cran.r-project.org/package=dartR.popgen Description: CRAN Package 'dartR.popgen' (Analysing 'SNP' and 'Silicodart' Data Generated by Genome-WideRestriction Fragment Analysis) Facilitates the analysis of SNP (single nucleotide polymorphism) and silicodart (presence/absence) data. 'dartR.popgen' provides a suit of functions to analyse such data in a population genetics context. It provides several functions to calculate population genetic metrics and to study population structure. Quite a few functions need additional software to be able to run (gl.run.structure(), gl.blast(), gl.LDNe()). You find detailed description in the help pages how to download and link the packages so the function can run the software. 'dartR.popgen' is part of the the 'dartRverse' suit of packages. Gruber et al. (2018) . Mijangos et al. (2022) . Package: r-cran-dartr.sexlinked Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 529 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-adegenet, r-cran-dartr.base, r-cran-dartr.data, r-cran-doparallel, r-cran-ggplot2, r-cran-foreach, r-cran-patchwork Filename: pool/dists/focal/main/r-cran-dartr.sexlinked_1.0.5-1.ca2004.1_all.deb Size: 502740 MD5sum: 2c13fb44477e63fe21ab4e914e82ec80 SHA1: bcda16892b1a94d6526f6d2efd4113438e0b40a5 SHA256: c60a69cfd94d6e9ad0fc45c29ebece1abf2571e04916d04bcfc03ae58895fcf9 SHA512: 1d26157ad11ef58a220d5bf6e308a5a7e11ed80f6d7933829cc0c9e351b326669aacb5ac368ca962f665c725a6205aaa77694a5fdc30a6a0a308d228932e7dd5 Homepage: https://cran.r-project.org/package=dartR.sexlinked Description: CRAN Package 'dartR.sexlinked' (Analysing SNP Data to Identify Sex-Linked Markers) Identifies, filters and exports sex linked markers using 'SNP' (single nucleotide polymorphism) data. To install the other packages, we recommend to install the 'dartRverse' package, that supports the installation of all packages in the 'dartRverse'. If you want understand the applied rational to identify sexlinked markers and/or want to cite 'dartR.sexlinked', you find the information by typing citation('dartR.sexlinked') in the console. Package: r-cran-dartr.sim Architecture: all Version: 0.70-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1380 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-adegenet, r-cran-dartr.base, r-cran-dartr.data, r-cran-ggplot2, r-cran-shiny, r-cran-fields, r-cran-stringi, r-cran-stringr, r-cran-data.table, r-cran-rcpp, r-cran-shinybs, r-cran-shinyjs, r-cran-shinythemes, r-cran-shinywidgets, r-cran-hierfstat, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-dartr.sim_0.70-1.ca2004.1_all.deb Size: 1368172 MD5sum: 52deab708f5462d4f61ecb8473814d0f SHA1: 8a321f73126ee82bc3e00767f49662430e6c044f SHA256: 0ea72604ee3b7278b8425d75b197a8f04bb2cd18d4e649797036fba789c090a9 SHA512: fb02c1600720d22022a439bb67d776e41f245f4c393ac5ab8e678b3c1a46fe769c2a882e7e946fd9bc69595c84b8a5456b1b84df90188b09a4af9b58db363a9f Homepage: https://cran.r-project.org/package=dartR.sim Description: CRAN Package 'dartR.sim' (Computer Simulations of 'SNP' Data) Allows to simulate SNP data using genlight objects. For example, it is straight forward to simulate a simple drift scenario with exchange of individuals between two populations or create a new genlight object based on allele frequencies of an existing genlight object. Package: r-cran-dartr.spatial Architecture: all Version: 0.78-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1311 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-adegenet, r-cran-dartr.base, r-cran-dartr.data, r-cran-crayon, r-cran-stampp, r-cran-raster, r-cran-sp, r-cran-tidyr, r-cran-vegan, r-cran-mass, r-cran-ggplot2, r-cran-data.table Suggests: r-cran-mmod, r-cran-dismo, r-cran-gdistance, r-cran-gplots, r-cran-rrblup, r-cran-terra, r-cran-sf, r-cran-popgenreport Filename: pool/dists/focal/main/r-cran-dartr.spatial_0.78-1.ca2004.1_all.deb Size: 1297328 MD5sum: 888ab860ea6de2257074d9da8c9ed10c SHA1: ad822708472dff7706665343f972da37d619a43b SHA256: e694a0c77f9e8642cd420b0e414e83317a771b44b8a37e85a9e89617f3ff9b71 SHA512: 724aa3753045fa874cb2856292dc5ca0193be82159946f4e827c97251023360e60598c304b4b2fe6c2a021eab64774c786f63d3082727d6a78994fad046fa58a Homepage: https://cran.r-project.org/package=dartR.spatial Description: CRAN Package 'dartR.spatial' (Applying Landscape Genomic Methods on 'SNP' and 'Silicodart'Data) Provides landscape genomic functions to analyse 'SNP' (single nuclear polymorphism) data, such as least cost path analysis and isolation by distance. Therefore each sample needs to have coordinate data attached (lat/lon) to be able to run most of the functions. 'dartR.spatial' is a package that belongs to the 'dartRverse' suit of packages and depends on 'dartR.base' and 'dartR.data'. Package: r-cran-dartr Architecture: all Version: 2.9.9.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6097 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-adegenet, r-cran-ggplot2, r-cran-dplyr, r-cran-dartr.data, r-cran-ape, r-cran-crayon, r-cran-data.table, r-cran-fields, r-cran-foreach, r-cran-gridextra, r-cran-mass, r-cran-patchwork, r-cran-plyr, r-cran-popgenreport, r-cran-raster, r-cran-reshape2, r-cran-shiny, r-bioc-snprelate, r-cran-sp, r-cran-stampp, r-cran-stringr, r-cran-tidyr, r-cran-gsubfn, r-cran-purrr Suggests: r-cran-boot, r-cran-devtools, r-cran-directlabels, r-cran-dismo, r-cran-doparallel, r-cran-expm, r-cran-gdistance, r-cran-ggtern, r-cran-gganimate, r-cran-ggrepel, r-cran-gtable, r-cran-ggthemes, r-cran-gplots, r-cran-hardyweinberg, r-cran-hierfstat, r-cran-igraph, r-cran-iterpc, r-cran-knitr, r-cran-label.switching, r-cran-lattice, r-cran-leaflet, r-cran-leaflet.minicharts, r-cran-markdown, r-cran-mmod, r-cran-networkd3, r-cran-pegas, r-cran-pheatmap, r-cran-plotly, r-cran-poppr, r-cran-proxy, r-bioc-qvalue, r-cran-rcolorbrewer, r-cran-rcpp, r-cran-rgl, r-cran-rmarkdown, r-cran-rrblup, r-cran-scales, r-cran-seqinr, r-cran-shinybs, r-cran-shinyjs, r-cran-shinythemes, r-cran-shinywidgets, r-cran-siber, r-bioc-snpstats, r-cran-stringi, r-cran-terra, r-cran-tibble, r-cran-vcfr, r-cran-zoo, r-cran-viridis, r-cran-vegan Filename: pool/dists/focal/main/r-cran-dartr_2.9.9.5-1.ca2004.1_all.deb Size: 5297780 MD5sum: 71341d6e9e9e686bbd6861ad5bd9e416 SHA1: 6b010119c30c376c3924ec00f170fef69a992bff SHA256: a91b64f3489f69d1eb888b380f738c0b4b9966966e5b0ce52bc0768d30c9c194 SHA512: 69d5c8e0ab645fb66d44b38ef7f9ab88c8a705421e2e673c5eb15e90ef16972bd1154bb2b75cfcafb5c6efe171cd39c5c7f4153dda33fed5263c639fd1d2600c Homepage: https://cran.r-project.org/package=dartR Description: CRAN Package 'dartR' (Importing and Analysing 'SNP' and 'Silicodart' Data Generated byGenome-Wide Restriction Fragment Analysis) Functions are provided that facilitate the import and analysis of 'SNP' (single nucleotide polymorphism) and 'silicodart' (presence/absence) data. The main focus is on data generated by 'DarT' (Diversity Arrays Technology), however, data from other sequencing platforms can be used once 'SNP' or related fragment presence/absence data from any source is imported. Genetic datasets are stored in a derived 'genlight' format (package 'adegenet'), that allows for a very compact storage of data and metadata. Functions are available for importing and exporting of 'SNP' and 'silicodart' data, for reporting on and filtering on various criteria (e.g. 'CallRate', heterozygosity, reproducibility, maximum allele frequency). Additional functions are available for visualization (e.g. Principle Coordinate Analysis) and creating a spatial representation using maps. 'dartR' supports also the analysis of 3rd party software package such as 'newhybrid', 'structure', 'NeEstimator' and 'blast'. Since version 2.0.3 we also implemented simulation functions, that allow to forward simulate 'SNP' dynamics under different population and evolutionary dynamics. Comprehensive tutorials and support can be found at our 'github' repository: github.com/green-striped-gecko/dartR/. If you want to cite 'dartR', you find the information by typing citation('dartR') in the console. Package: r-cran-dartrverse Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1702 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-rlang, r-cran-devtools, r-cran-rcurl, r-cran-httr Suggests: r-cran-dartr.base, r-cran-dartr.data, r-cran-dartr.sim, r-cran-dartr.captive, r-cran-dartr.popgen, r-cran-dartr.spatial Filename: pool/dists/focal/main/r-cran-dartrverse_1.0.6-1.ca2004.1_all.deb Size: 1686684 MD5sum: 1dac6652a8d42fb3f7ff38660be2786e SHA1: 895bb6015fe4798b113e99f830514368d7c6c017 SHA256: a709bba11ca302cb7cb44057e82952ed0aace79cfca5ca0672a102ba80e84e65 SHA512: db469747647e3a16e7fb443230332c69e1763cc389909c02d4ca846d5571719e2a4088f9bf977b516958aa61526ee32802c4107886294ef36a203e3d8b1bc6a7 Homepage: https://cran.r-project.org/package=dartRverse Description: CRAN Package 'dartRverse' (Install and Load the 'dartRverse' Suits of Packages) Provides a single function that supports the installation of all packages belonging to the 'dartRverse'. The 'dartRverse' is a set of packages that work together to analyse SNP (single nuclear polymorphism) data. All packages aim to have a similar 'look and feel' and are based on the same type of data structure ('genlight'), with additional metadata for loci and individuals (samples). For more information visit the 'GitHub' pages . Package: r-cran-dasguptr Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2609 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-dasguptr_2.1.0-1.ca2004.1_all.deb Size: 462764 MD5sum: e4dc3f7349814e2c0e45062bd6ed903c SHA1: cc5e9e3361bd816ae8ad3e9e5cef43b611be53c2 SHA256: 5b8ee87c00b65ea72f488048490b09ed1cc8ff6aff0eb6a67b3f13a35a03524f SHA512: fc39bc292a0a7fe17a29c974922387210637d373232b890b39ef319853f02d7b5a32b81890f574283c5b0a4a7c8c207c3a4604db79d1074f8051ae84316303ad Homepage: https://cran.r-project.org/package=DasGuptR Description: CRAN Package 'DasGuptR' (Das Gupta Standardisation and Decomposition) Implementation of Das Gupta's standardisation and decomposition of population rates, as set out "Standardization and decomposition of rates: A user’s manual", Das Gupta (1993) . The goal of these methods is to calculate adjusted rates based on compositional 'factors' and quantify the contribution of each factor to the difference in crude rates between populations. The package offers functionality to handle various scenarios for any number of factors and populations, where said factors can be comprised of vectors across sub-populations (including cross-classified population breakdowns), and with the option to specify user-defined rate functions. Package: r-cran-dash Architecture: all Version: 0.9.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 16122 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-r6, r-cran-fiery, r-cran-routr, r-cran-plotly, r-cran-reqres, r-cran-jsonlite, r-cran-htmltools, r-cran-assertthat, r-cran-digest, r-cran-base64enc, r-cran-mime, r-cran-crayon, r-cran-brotli, r-cran-glue, r-cran-magrittr, r-cran-rlang Suggests: r-cran-testthat, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-dash_0.9.4-1.ca2004.1_all.deb Size: 3595344 MD5sum: 7745fe3798ff614cd355d235d8d65116 SHA1: 36bf29f1963f8eac3e98849b52127996514fdb3d SHA256: 07678c9be086d9b204e4d5303f84ccd56c5455d4de56e580ab3866c8a363af67 SHA512: 205bf97ddee53a5cd7a829dbfa16e7067d6fefb30eea90ec54d0ed507a4dab16767f2149b507c3781f631e2fd41ae39d76fa62f1dcc45034283d8562dc9e45b9 Homepage: https://cran.r-project.org/package=dash Description: CRAN Package 'dash' (An Interface to the Dash Ecosystem for Authoring Reactive WebApplications) A framework for building analytical web applications, Dash offers a pleasant and productive development experience. 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This package provides commands to interact with the data stored on 'Databrary.org'. 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Specify the expected type (i.e., character, numeric, etc), expected length, minimum and maximum values, allowable values, and more for each element in your data. Decide whether violations of these expectations should throw an error or a warning. This package is useful for validating data within R processes which pull from dynamic data sources such as databases and web APIs to provide an extra layer of validation around input and output data. Package: r-cran-dataclean Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xlsx, r-cran-xml Filename: pool/dists/focal/main/r-cran-dataclean_1.0-1.ca2004.1_all.deb Size: 17484 MD5sum: fbeae19de8d6ea6ec21e7104b7005d40 SHA1: eaf22c076d83aa5d2c9d0a0d0f39ef53e1398827 SHA256: 02b229cd94893ecb5653d888b0a985fa1418428790e7aa5092b23d12b8ee1ee9 SHA512: be4fc5605a04214c4aff305776e021183f91e58afc5fa007bbdcfb3d8dad959b7bdd019aee912b4030f404a7e171f306b3450a2876f468e73b7058ae0511c6c7 Homepage: https://cran.r-project.org/package=DataClean Description: CRAN Package 'DataClean' (Data Cleaning) Includes functions that researchers or practitioners may use to clean raw data, transferring html, xlsx, txt data file into other formats. And it also can be used to manipulate text variables, extract numeric variables from text variables and other variable cleaning processes. It is originated from a author's project which focuses on creative performance in online education environment. The resulting paper of that study will be published soon. 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'datacleanr' facilitates best practices in data analyses and reproducibility with built-in features and by translating interactive/manual operations to code. The package is designed for interoperability, and so seamlessly fits into reproducible analyses pipelines in 'R'. 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'datadigest' includes two key functions (codebook() and explorer()) that deliver a concise summary of every variable in a data frame, along with interactive features such as real-time filters, grouping, and highlighting. Each function has an associated 'RStudio' addin/'Shiny' app for quick and convenient exploration of one or more data frames. 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Package: r-cran-datadriftr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-doremi, r-cran-fda.usc Filename: pool/dists/focal/main/r-cran-datadriftr_1.0.0-1.ca2004.1_all.deb Size: 302364 MD5sum: 14f033a291cd93564a63ceae64243c94 SHA1: d7e638e61efbc51e30cae29938a4768fbd52e888 SHA256: b7c64d0e505ee164d923fd873d51498a6765449fea2002ebd5e84316bf4d6311 SHA512: 958015654ac9cd1abb1ef3471daffce7a48444149cd3dbcf099b9924c9459b40500bd43d8db4fd1e8e75126ab746a88c8b7765ea768fd7dd793ba7c234fed1ca Homepage: https://cran.r-project.org/package=datadriftR Description: CRAN Package 'datadriftR' (Concept Drift Detection Methods for Stream Data) A system designed for detecting concept drift in streaming datasets. It offers a comprehensive suite of statistical methods to detect concept drift, including methods for monitoring changes in data distributions over time. 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It provides an extendable suite of test for common potential errors in a dataset. Package: r-cran-datamart Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 503 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjsonio, r-cran-xml, r-cran-rcurl, r-cran-base64, r-cran-gsubfn, r-cran-markdown Filename: pool/dists/focal/main/r-cran-datamart_0.5.2-1.ca2004.1_all.deb Size: 398320 MD5sum: 7e8567916cd809e912f3493caaa8138e SHA1: 7cb84613fcfec11284ea80ca49be0f0f940ab962 SHA256: 7a9d3190e6ba60ad194f648f9c2dca55b0093e7965bed4c56dff96e116b0e0df SHA512: 19f2ca81bd97068c4ea949a7e72b3f73f2afe3b481fc837095e3a91cd88e0455ae75674f49511e375a13371ab1f2376c1d56fc6c8a465bb764840ed186b3ce45 Homepage: https://cran.r-project.org/package=datamart Description: CRAN Package 'datamart' (Unified access to your data sources) Provides an S4 infrastructure for unified handling of internal datasets and web based data sources. 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The package allows for news searches using search phrases and date filters, and returns the results in a structured format, ready for analysis. Additionally, it includes functions to clean the extracted data, visualize it, and store it in databases. All of this can be done automatically, facilitating the collection and analysis of relevant information from Chilean media. Package: r-cran-datameta Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 306 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-datameta_0.1.1-1.ca2004.1_all.deb Size: 172488 MD5sum: 5eb448521e6133dd20c2a0b8521702eb SHA1: dfdff743c8904bf6035eddac9c33aab10a89bf04 SHA256: 744c466bbb5d50a6fa1977ca9e7db5c09135d788d3fcf211cf71423607e6ace9 SHA512: 0860eb41dd64b88edba9fc81cb54c90d3cf372f2095602a3eb76281a683f9fc05dbdd088353386bead92177587db53d01c64f38e88187ce6ac05f72e6242cb61 Homepage: https://cran.r-project.org/package=dataMeta Description: CRAN Package 'dataMeta' (Create and Append a Data Dictionary for an R Dataset) Designed to create a basic data dictionary and append to the original dataset's attributes list. The package makes use of a tidy dataset and creates a data frame that will serve as a linker that will aid in building the dictionary. The dictionary is then appended to the list of the original dataset's attributes. The user will have the option of entering variable and item descriptions by writing code or use alternate functions that will prompt the user to add these. Package: r-cran-datametprocess Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4865 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-lubridate, r-cran-rlang, r-cran-shiny Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-datametprocess_1.0.5-1.ca2004.1_all.deb Size: 3468548 MD5sum: 5c17424615c20a51e49772b58b23df80 SHA1: 80a0146cd1bdbde3a249404a9ddca0bb05a20c7b SHA256: 9aee266ab058159946694efaa2c5022fd9535644cbdddf9c5baebb9d8f7a44f8 SHA512: ac3dba137f739dddba09137574c483c81fc265085dbf4df228c7b996ebf3ad29f309d439b5830dbb8a2387eff429c503bd15921352069bec30c1bfe1da02db27 Homepage: https://cran.r-project.org/package=DataMetProcess Description: CRAN Package 'DataMetProcess' (Meteorological Data Processing) Set of tools aimed at processing meteorological data, converting hourly recorded data to daily, monthly and annual data. 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Package: r-cran-datamojo Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-datamojo_1.0.0-1.ca2004.1_all.deb Size: 94880 MD5sum: 9b1ba9c8737dd26ddb5078ae7bfa8c2e SHA1: 6dd424b98b45d4ab6ae76b308cd06e26d58e505d SHA256: ca5502d11f4e5ec550fa2e8781a3c454f4ed85b1231a1310162c50cc0693b9b1 SHA512: 77880c1eb7a3309b80522dd0724020fbf3b3e1d33f932950cf4efd8217661b587776e7895819d6164f87c76348813f79fdd392e1abd783f3795ab8c1d35cd6d5 Homepage: https://cran.r-project.org/package=dataMojo Description: CRAN Package 'dataMojo' (Reshape Data Table) A grammar of data manipulation with 'data.table', providing a consistent a series of utility functions that help you solve the most common data manipulation challenges. Package: r-cran-datana Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3877 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-hmisc Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-datana_1.1.0-1.ca2004.1_all.deb Size: 3776576 MD5sum: 414abae912886442d24a1f92fb45abca SHA1: 30357b3ae9a86a063580cd89d1b4dddf8a87f1d2 SHA256: 3e8470b9cfa70c03f51ea91e3c8721d78061667c0a94054f6d07ec24bf6686fa SHA512: df81ec6eb8803c0261b60e899f007ca634121608d91f611cd818f7202f53065ec71933e16e5829b6e41ad567fb9364eea10e2364151d75e24166a48fb74917fe Homepage: https://cran.r-project.org/package=datana Description: CRAN Package 'datana' (Datasets and Functions to Accompany Analisis De Datos Con R) Datasets and functions to accompany the book 'Analisis de datos con el programa estadistico R: una introduccion aplicada' by Salas-Eljatib (2021, ISBN: 9789566086109). The package helps carry out data management, exploratory analyses, and model fitting. Package: r-cran-datanugget Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dosnow, r-cran-foreach, r-cran-rfast Filename: pool/dists/focal/main/r-cran-datanugget_1.3.1-1.ca2004.1_all.deb Size: 78996 MD5sum: e66854d03118d2471c6ba4f421fa16b5 SHA1: 53531141903e2596a43bb12995febf4a97ba7b32 SHA256: e1239e9fe9691932610809b8b6e9fd90566ed0d242a88706da418aea06c5a2fc SHA512: 927051511e2898b86fe6fc27342263e5af2663a2341f77beba6affcde0d513c60b583357cc0a8b75835bf016f805adff3ecc3f9101edd26271538eb75142b195 Homepage: https://cran.r-project.org/package=datanugget Description: CRAN Package 'datanugget' (Create, and Refine Data Nuggets) Creating, and refining data nuggets. Data nuggets reduce a large dataset into a small collection of nuggets of data, each containing a center (location), weight (importance), and scale (variability) parameter. Data nugget centers are created by choosing observations in the dataset which are as equally spaced apart as possible. Data nugget weights are created by counting the number observations closest to a given data nugget center. We then say the data nugget 'contains' these observations and the data nugget center is recalculated as the mean of these observations. Data nugget scales are created by calculating the trace of the covariance matrix of the observations contained within a data nugget divided by the dimension of the dataset. Data nuggets are refined by 'splitting' data nuggets which have scales or shapes (defined as the ratio of the two largest eigenvalues of the covariance matrix of the observations contained within the data nugget) Reference paper: [1] Beavers, T. E., Cheng, G., Duan, Y., Cabrera, J., Lubomirski, M., Amaratunga, D., & Teigler, J. E. (2024). Data Nuggets: A Method for Reducing Big Data While Preserving Data Structure. Journal of Computational and Graphical Statistics, 1-21. [2] Cherasia, K. E., Cabrera, J., Fernholz, L. T., & Fernholz, R. (2022). Data Nuggets in Supervised Learning. \emph{In Robust and Multivariate Statistical Methods: Festschrift in Honor of David E. Tyler} (pp. 429-449). Cham: Springer International Publishing. 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Each DataONE repository implements a consistent repository application programming interface. Users call methods in R to access these remote repository functions, such as methods to query the metadata catalog, get access to metadata for particular data packages, and read the data objects from the data repository. Users can also insert and update data objects on repositories that support these methods. 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Package: r-cran-datasetsicr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1071 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-datasetsicr_1.0-1.ca2004.1_all.deb Size: 1062056 MD5sum: f483706a8eb12bb80c8a8609e04282c0 SHA1: 6a8ee1189317ee4a48860a2002def7d227678e88 SHA256: 017bbdec1754050e830f1f263f577d40a3acacb11a038dc81ac23f3f6f33b10d SHA512: 0cfe8f213ff513e07715249c5f40622db5a78120aa42d85a08ac1c217344801ee6beb2418bde8dd4b60d1dca4866c01933edec5bcf932acd95ab79d34fd12cbe Homepage: https://cran.r-project.org/package=datasetsICR Description: CRAN Package 'datasetsICR' (Datasets from the Book "An Introduction to Clustering with R") Companion to the book "An Introduction to Clustering with R" by P. Giordani, M.B. Ferraro and F. Martella (Springer, Singapore, 2020). The datasets are used in some case studies throughout the text. 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Package: r-cran-datos Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 370 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-babynames, r-cran-dplyr, r-cran-forcats, r-cran-fueleconomy, r-cran-gapminder, r-cran-ggplot2, r-cran-lahman, r-cran-nasaweather, r-cran-nycflights13, r-cran-palmerpenguins, r-cran-modeldata, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-yaml Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-datos_0.5.1-1.ca2004.1_all.deb Size: 158676 MD5sum: cb3531e4ca86a075c06524a96b97c09b SHA1: b0024623b49837df81b78df51854fdbe024218dd SHA256: 39d77f469b152477115dd5168afafec8ee264eba1706720af45dc45114b1ef82 SHA512: 4686fac2c227be85d9d71742591ba6dbbce0334660ba6710f48a5f08be3601479ac356868c0ed8aafd63113c414702ebbae148fce3761cfafca47233f0793efd Homepage: https://cran.r-project.org/package=datos Description: CRAN Package 'datos' (Traduce al Español Varios Conjuntos de Datos de Práctica) Provee una versión traducida de los siguientes conjuntos de datos: 'airlines', 'airports', 'AwardsManagers', 'babynames', 'Batting', 'credit_data', 'diamonds', 'faithful', 'fueleconomy', 'Fielding', 'flights', 'gapminder', 'gss_cat', 'iris', 'Managers', 'mpg', 'mtcars', 'atmos', 'palmerpenguins', 'People, 'Pitching', 'planes', 'presidential', 'table1', 'table2', 'table3', 'table4a', 'table4b', 'table5', 'vehicles', 'weather', 'who'. English: It provides a Spanish translated version of the datasets listed above. 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This package provides tools to process and prepare data for visualization and employs the concept of aoristic analysis. Package: r-cran-datr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-devtools Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-datr_0.1.0-1.ca2004.1_all.deb Size: 24168 MD5sum: efaec9453333ad2e28fbac1f9c5de953 SHA1: 241cca93bc8033b30414ccc629ff5f178874c680 SHA256: ccd7df3cb8a41ed6dccf2ce1fb43b9c23c71fb8d9b60f9f5f8535cee8279a055 SHA512: 77e5cddd48efde5a7efcd89cef41e3d527c7a245a141a39671b02c346f9178cb45b4b7572f8e3f17157f3a56b3bf2a84eabc6dc05f6067d4d14058aa0cc89037 Homepage: https://cran.r-project.org/package=datr Description: CRAN Package 'datr' ('Dat' Protocol Interface) Interface with the 'Dat' p2p network protocol . Clone archives from the network, share your own files, and install packages from the network. 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Package: r-cran-daymetr Architecture: all Version: 1.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 636 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-terra, r-cran-ncdf4, r-cran-httr, r-cran-tidyr, r-cran-tibble Suggests: r-cran-ggplot2, r-cran-dplyr, r-cran-knitr, r-cran-markdown, r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-daymetr_1.7.1-1.ca2004.1_all.deb Size: 286140 MD5sum: d6e09febb984e33bda9369c203a1c517 SHA1: e0e92d59284a371a9f3fbee397cae5f27cb35e25 SHA256: 6764c73b1cfe7fbbf383942aed07e1bb0d0792d395e7b412f4060eca7dbda772 SHA512: 7f3afbe39e79a3b77e9f12a539c047080fedc8ea40ab8ecb108c637150d9317190d3313e191a76e8c93850c8b929fe4a49c2bf246e5313959e6e987cd124e1b1 Homepage: https://cran.r-project.org/package=daymetr Description: CRAN Package 'daymetr' (Interface to the 'Daymet' Web Services) Programmatic interface to the 'Daymet' web services (). Allows for easy downloads of 'Daymet' climate data directly to your R workspace or your computer. Routines for both single pixel data downloads and gridded (netCDF) data are provided. Package: r-cran-days2lessons Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-purrr, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-days2lessons_0.1.3-1.ca2004.1_all.deb Size: 44404 MD5sum: e074054f90dc81bc0b7ca170a4a44617 SHA1: e31235d73a9e0427bd534391dd86118c5f1dfeda SHA256: 10ca3a31768259b686c2c26df50ce58836135a6b0009ea156ebabcfe3706f626 SHA512: cebfcf7df8b34daf5bcda9b04d8aec82ca1f2cd8c7337fdc0f772562a6049cf05416e357e7db68d03b7067e61085c2815c6935dd889d4fd4c6493b508ae6572c Homepage: https://cran.r-project.org/package=days2lessons Description: CRAN Package 'days2lessons' (Distributes Teachers Lessons On Days in a Balanced Manner) The set of teacher/class lessons is completed with a column that allocates a day to each lesson, so that the distribution of lessons by day, by class, and by teacher is as uniform as possible. . 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Daily dose is the computed dose that the patient takes every day. For medications with fixed dosing (e.g. direct oral anticoagulants) this is known and does not need to be estimated. For medications with varying dose such as warfarin, however, the daily dose should be assumed or estimated to allow measurement of drug exposure. Days’ supply is the number of days that patients’ supply of medication will last after each prescription fill. Estimating days’ supply is necessary to calculate drug exposure. The package computes days’ supply and daily dose at both the prescription and patient levels. Results at the prescription level are denoted with “-Rx-” and those at patient level are denoted with “-Pt-”. Package: r-cran-dbacf Architecture: all Version: 0.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix Filename: pool/dists/focal/main/r-cran-dbacf_0.2.8-1.ca2004.1_all.deb Size: 48076 MD5sum: 53d3591fcadecdfcf96ab35fc3207664 SHA1: 072e5acfd89c1dfb3aff71c650ab905a7d50ed6e SHA256: babfd181b7f4ed5857b796352d982bcdeafcf3553aeba2209f395c54c13e2882 SHA512: 49603b8aa811c7a7d1bc36cb747be9d109fa23b493bb0620b37faae8037274f8607167aa2bcde03a2228323a1d8552ba6910b827eb432ec0620c426af505aca5 Homepage: https://cran.r-project.org/package=dbacf Description: CRAN Package 'dbacf' (Autocovariance Estimation via Difference-Based Methods) Provides methods for (auto)covariance/correlation function estimation in change point regression with stationary errors circumventing the pre-estimation of the underlying signal of the observations. Generic, first-order, (m+1)-gapped, difference-based autocovariance function estimator is based on M. Levine and I. Tecuapetla-Gómez (2023) . Bias-reducing, second-order, (m+1)-gapped, difference-based estimator is based on I. Tecuapetla-Gómez and A. Munk (2017) . Robust autocovariance estimator for change point regression with autoregressive errors is based on S. Chakar et al. (2017) . It also includes a general projection-based method for covariance matrix estimation. Package: r-cran-dbcsp Architecture: all Version: 0.0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3769 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-caret, r-cran-tsdist, r-cran-geigen, r-cran-ggplot2, r-cran-mass, r-cran-matrix, r-cran-paralleldist, r-cran-plyr, r-cran-zoo Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-dbcsp_0.0.2.1-1.ca2004.1_all.deb Size: 3713756 MD5sum: f16d72c6d969be080aec50bb57403df6 SHA1: 39a213202067eb598e85df3b104a6d4a9a5d885e SHA256: 0615ef25a514018816e40a42dc19baf712c70218006dd88282ca1f39757a070b SHA512: 8d73ac0ccbb336661729d130a7282b23b48f8da7c7ef983efc5641aaf0924972f8668a776592130c93ad17f227dc405d4afede7978f870ec8380876b22e04f64 Homepage: https://cran.r-project.org/package=dbcsp Description: CRAN Package 'dbcsp' (Distance-Based Common Spatial Patterns) A way to apply Distance-Based Common Spatial Patterns (DB-CSP) techniques in different fields, both classical Common Spatial Patterns (CSP) as well as DB-CSP. The method is composed of two phases: applying the DB-CSP algorithm and performing a classification. The main idea behind the CSP is to use a linear transform to project data into low-dimensional subspace with a projection matrix, in such a way that each row consists of weights for signals. This transformation maximizes the variance of two-class signal matrices.The dbcsp object is created to compute the projection vectors. For exploratory and descriptive purpose, plot and boxplot functions can be used. Functions train, predict and selectQ are implemented for the classification step. Package: r-cran-dbcvindex Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-qpdf Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dbcvindex_1.4-1.ca2004.1_all.deb Size: 27180 MD5sum: 4261fbf76309af68526fccb7966e7b3f SHA1: ae47943c8bb5e39d1d63f86685f86ad858923f45 SHA256: de49f38af594f8891ddead328000b2a15224a779b75cfe3c805311662cce20c7 SHA512: 6d506f1a28732bed6c2b80138caedd5f6cfee319442fe5e35f54ad92014bf5fda60fe8bf516bc42521364881af1961d355d6c53082371a94db49b7633ea47471 Homepage: https://cran.r-project.org/package=DBCVindex Description: CRAN Package 'DBCVindex' (Calculates the Density-Based Clustering Validation (DBCV) Index) A metric called 'Density-Based Clustering Validation index' (DBCV) index to evaluate clustering results, following the 'R' implementation by Pablo Andretta Jaskowiak. Original 'DBCV' index article: Moulavi, D., Jaskowiak, P. A., Campello, R. J., Zimek, A., and Sander, J. (April 2014), "Density-based clustering validation", Proceedings of SDM 2014 -- the 2014 SIAM International Conference on Data Mining (pp. 839-847), . Package: r-cran-dbd Architecture: all Version: 0.0-22-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-hmm.discnp, r-cran-mass, r-cran-rmutil, r-cran-spcadjust Filename: pool/dists/focal/main/r-cran-dbd_0.0-22-1.ca2004.1_all.deb Size: 214748 MD5sum: 1a0a198fb044f4c80f26b8848ba7b02a SHA1: a8c230caf0e759dd4fed069035d3a3a5a593d3f6 SHA256: d7f24da2fc7d7158e6d788b2d0f5738942e27b8e47bc747f75e92dea96547796 SHA512: e23d2e4f9a890dd21f2fd9ca944d0850dfb633edafcb7348cc36342f053ed048080bb50956d87dcb9053669105dab43d10dc8cc33a00fc6048d9a7644e122b96 Homepage: https://cran.r-project.org/package=dbd Description: CRAN Package 'dbd' (Discretised Beta Distribution) Tools for working with a new versatile discrete distribution, the db ("discretised Beta") distribution. This package provides density (probability), distribution, inverse distribution (quantile) and random data generation functions for the db family. It provides functions to effect conveniently maximum likelihood estimation of parameters, and a variety of useful plotting functions. It provides goodness of fit tests and functions to calculate the Fisher information, different estimates of the hessian of the log likelihood and Monte Carlo estimation of the covariance matrix of the maximum likelihood parameter estimates. In addition it provides analogous tools for working with the beta-binomial distribution which has been proposed as a competitor to the db distribution. Package: r-cran-dbemplikegof Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 530 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dbemplikegof_1.2.4-1.ca2004.1_all.deb Size: 496964 MD5sum: 93f6b4b608c0fcc218c8f801291fb7d3 SHA1: dd62199db41c222de3178bcf24031a42d0729ea9 SHA256: 43a9b2f1decb5ed81e640f9b63f798fd44da58f88268b8925277ff5d4a4a2c13 SHA512: bb2708713347977653b4aca1877f1df484c4f191c0067079cdc72e78b6aae7bc6cf0e3138471ff9bfcfefcf8f271e10933e324c9486542930f47ae3d535952a5 Homepage: https://cran.r-project.org/package=dbEmpLikeGOF Description: CRAN Package 'dbEmpLikeGOF' (Goodness-of-fit and two sample comparison tests using sampleentropy) Goodness-of-fit and two sample comparison tests using sample entropy Package: r-cran-dbemplikenorm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 924 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dbemplikegof Filename: pool/dists/focal/main/r-cran-dbemplikenorm_1.0.0-1.ca2004.1_all.deb Size: 899536 MD5sum: 09946ce62b161a4936bd8843ec22075a SHA1: 6a48ab9d9861209b32aec2f0400fa5c2d50a0459 SHA256: 85ebdb55f8f6a3ad218e70a10ae4b94040de4a2520ccc3809fe3e6d25daf6131 SHA512: 7be85774911c3b1a1acde28b6d7bfd3805562181beefa07dae53672a19e0127338ae0e416e049759a2fa096df64299e1358b664c5e2eec16181b53097485ec99 Homepage: https://cran.r-project.org/package=dbEmpLikeNorm Description: CRAN Package 'dbEmpLikeNorm' (Test for joint assessment of normality) Test for joint assessment of normality Package: r-cran-dberlibr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 547 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-car, r-cran-dplyr, r-cran-emmeans, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggrepel, r-cran-psych, r-cran-readr, r-cran-reshape, r-cran-rstatix, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dberlibr_0.1.3-1.ca2004.1_all.deb Size: 284880 MD5sum: 2e685283b304914f9ee02a1075d7f48d SHA1: d29da5027023d0a8e02ce1a15dca534b2cb02d36 SHA256: 93a6ba06dc1c1308b4c50241ca2e577ee679ada041b8b60d11149ec78d197dce SHA512: 4052504fee9e5cb0d3175faf3106d3375fb78b71df4c2d1a251d5af9631fdaeb26f901f2f8d2ff5bd5a032399f4630a0ca4624f95b0811dd60df32e5e3e32f5c Homepage: https://cran.r-project.org/package=DBERlibR Description: CRAN Package 'DBERlibR' (Automated Assessment Data Analysis for Discipline-BasedEducation Research) Discipline-Based Education Research scientists repeatedly analyze assessment data to ensure question items’ reliability and examine the efficacy of a new educational intervention. Analyzing assessment data comprises multiple steps and statistical techniques that consume much of researchers’ time and are error-prone. While education research continues to grow across many disciplines of science, technology, engineering, and mathematics (STEM), the discipline-based education research community lacks tools to streamline education research data analysis. ‘DBERlibR’—an ‘R’ package to streamline and automate assessment data processing and analysis—fills this gap. The package reads user-provided assessment data, cleans them, merges multiple datasets (as necessary), checks assumption(s) for specific statistical techniques (as necessary), applies various statistical tests (e.g., one-way analysis of covariance, one-way repeated-measures analysis of variance), and presents and interprets the results all at once. By providing the most frequently used analytic techniques, this package will contribute to education research by facilitating the creation and widespread use of evidence-based knowledge and practices. The outputs contain a sample interpretation of the results for users’ convenience. User inputs are minimal; they only need to prepare the data files as instructed and type a function in the 'R' console to conduct a specific data analysis.\n For descriptions of the statistical methods employed in package, refer to the following Encyclopedia of Research Design, edited by Salkind, N. (2010) . Package: r-cran-dbest Architecture: all Version: 1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-zoo Filename: pool/dists/focal/main/r-cran-dbest_1.8-1.ca2004.1_all.deb Size: 87556 MD5sum: 83f4775d86134c3a7f24835ee3ca3549 SHA1: 03523da23fb7a2b7b6418a415cb8e1486f05de0b SHA256: 3f8386585459dbe064b54a93cccafade10c3caf2a96ffa5817e43e5414eb8dab SHA512: 3a37a8ba87e3c44d831f03d14286d1b1a71c170fb89e2ac857cb9929eb0a945c484b862b4288b9902dbddbc9a570b2f389d41b07558b5679b0b71346aaf6c148 Homepage: https://cran.r-project.org/package=DBEST Description: CRAN Package 'DBEST' (Detecting Breakpoints and Estimating Segments in Trend) A program for analyzing vegetation time series, with two algorithms: 1) change detection algorithm that detects trend changes, determines their type (abrupt or non-abrupt), and estimates their timing, magnitude, number, and direction; 2) generalization algorithm that simplifies the temporal trend into main features. 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Package: r-cran-dbfit Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rfit Filename: pool/dists/focal/main/r-cran-dbfit_2.0-1.ca2004.1_all.deb Size: 92180 MD5sum: e20d75e37a7637f7c9cf913afd348e94 SHA1: 8e022720d6ae8d9ba10b42df7598eb9197e4a9ae SHA256: 55ce2611355c0b39afb5c7e47a1d2434566c751a08be5c4e4e2e202e2dbbb6f1 SHA512: 29a5e216bc688b15b167fd316fdaf6cf5860d65febced8a3860913b803169fed3e4c5d874f74ee7c421e6a1799913c1caf6c73a5cd5a8d7611248aefe3aeac88 Homepage: https://cran.r-project.org/package=DBfit Description: CRAN Package 'DBfit' (A Double Bootstrap Method for Analyzing Linear Models withAutoregressive Errors) Computes the double bootstrap as discussed in McKnight, McKean, and Huitema (2000) . The double bootstrap method provides a better fit for a linear model with autoregressive errors than ARIMA when the sample size is small. 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Thomas Lumley . Package: r-cran-dbgsa Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1163 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dbgsa_1.2-1.ca2004.1_all.deb Size: 1155448 MD5sum: 0b09293dfcf4c0b4d0a4f7a652ff45d0 SHA1: 8050ac409cc2720640c7103b75137961542edc36 SHA256: 61d1a11dc6de67f5f68b1a73180ae66af202ab245badab406c1d31b3cba4aa2b SHA512: 03ddee4bac31f87def18559a13188547dcad6d330673fc7d2b55dede1cf5d072328b6ef1bb8349356b3a53618e564e4beb5cdcee7201f5d39c2c03f4169b5408 Homepage: https://cran.r-project.org/package=DBGSA Description: CRAN Package 'DBGSA' (methods of distance-based gene set functional enrichmentanalysis) This package provides methods and examples to support a method of Gene Set Analysis (GSA). DBGSA is a novel distance-based gene set enrichment analysis method. We consider that, the distance between 2 groups with different phenotype by focusing on the gene expression should be larger, if a certain gene functional set was significantly associated with a particular phenotype. 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The DBHC algorithm is an HMM Clustering algorithm that finds a mixture of discrete-output HMMs while using heuristics based on Bayesian Information Criterion (BIC) to search for the optimal number of HMM states and the optimal number of clusters. 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Package: r-cran-dblr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-xgboost, r-cran-catencoders, r-cran-metrics Filename: pool/dists/focal/main/r-cran-dblr_0.1.0-1.ca2004.1_all.deb Size: 32020 MD5sum: d0c89df585fbfc103566743d0298df84 SHA1: 27278cb1e963760fb32c7c177cb7771cecf7d59f SHA256: f74f269eae9713fa3850daa054718b8a11039ca32d0bdd43aaf5de3d0e47a159 SHA512: 49328cf8e933399d050f404c85739b3b52ac1f145a86f8bd11fe2536776322e50ffdefeaa678bb8cd67ebd22a16bcef9a71f4d17befbd81ec2277cd3ad3ac78b Homepage: https://cran.r-project.org/package=dblr Description: CRAN Package 'dblr' (Discrete Boosting Logistic Regression) Trains logistic regression model by discretizing continuous variables via gradient boosting approach. The proposed method tries to achieve a tradeoff between interpretation and prediction accuracy for logistic regression by discretizing the continuous variables. The variable binning is accomplished in a supervised fashion. The model trained by this package is still a single logistic regression model, but not a sequence of logistic regression models. The fitted model object returned from the model training consists of two tables. One table is used to give the boundaries of bins for each continuous variable as well as the corresponding coefficients, and the other one is used for discrete variables. This package can also be used for binning continuous variables for other statistical analysis. 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The new functionalities are: 1) to create domain-centric ontologies; 2) to predict ontology terms for input protein sequences (precisely domain content in the form of architectures) plus to assess the predictions; 3) to reconstruct ancestral discrete characters using maximum likelihood/parsimony. 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Chaotic systems are nonlinear deterministic dynamic systems which can behave like an erratic and apparently random motion. A relevant field inside chaos theory and nonlinear time series analysis is the detection of a chaotic behaviour from empirical time series data. One of the main features of chaos is the well known initial value sensitivity property. Methods and techniques related to test the hypothesis of chaos try to quantify the initial value sensitive property estimating the Lyapunov exponents. The DChaos package provides different useful tools and efficient algorithms which test robustly the hypothesis of chaos based on the Lyapunov exponent in order to know if the data generating process behind time series behave chaotically or not. 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Useful for clustering large datasets where computation of a n x n distance matrix is not feasible (e.g. n > 10,000 records). For further information see Steinbach, Karypis and Kumar (2000) . 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For these methods, both the item and structural model parameters are considered simultaneously. Specifically, the observed information matrix, the empirical cross-product information matrix and the sandwich-type co-variance matrix that can be used to estimate the asymptotic co-variance matrix (or the model parameter standard errors) within the context of diagnostic classification models are provided. Package: r-cran-dcmle Architecture: all Version: 0.4-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 766 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dclone, r-cran-coda, r-cran-lattice Suggests: r-cran-mass, r-cran-rjags Filename: pool/dists/focal/main/r-cran-dcmle_0.4-1-1.ca2004.1_all.deb Size: 503224 MD5sum: d19dcd796641ffe8d48588b502b5655d SHA1: 8543595d33c4b9b23820d01029eb6a0a0bcbfe8c SHA256: b55a87ebc256c6d6bfa368450b2e51883addfd8511312f3cbd83aa4206ac0584 SHA512: 8d41fc2c283d3d2603e6fbdb1cc1a06c6420643863c6f0ceb88e3925cd7c9bb957efd72163e9180e8308fd33feba8780870c16a356f443fbe745cf96f6d9b14a Homepage: https://cran.r-project.org/package=dcmle Description: CRAN Package 'dcmle' (Hierarchical Models Made Easy with Data Cloning) S4 classes around infrastructure provided by the 'coda' and 'dclone' packages to make package development easy as a breeze with data cloning for hierarchical models. Package: r-cran-dcmodify Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 273 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-yaml, r-cran-validate, r-cran-lumberjack, r-cran-settings Suggests: r-cran-simplermarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-dcmodify_0.9.0-1.ca2004.1_all.deb Size: 185264 MD5sum: 672a442c58552a219230e81582f24397 SHA1: f3d347ab05bdf62dccb60b6d34df9dad6dfdc9e5 SHA256: b04f43419fcf1d58e1806b2e26db7b465796e6766bfd16ccbc01f1c51edd52e9 SHA512: d917d17713c0442fae6f83310f2864031a645c09ef645305f0bcf0d705f0ccb5194899279fd1c520e9ba39c3a6c0e91b92e9071b87c7e00f9b22aeb120a7ce0b Homepage: https://cran.r-project.org/package=dcmodify Description: CRAN Package 'dcmodify' (Modify Data Using Externally Defined Modification Rules) Data cleaning scripts typically contain a lot of 'if this change that' type of statements. Such statements are typically condensed expert knowledge. 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Package: r-cran-dcmodifydb Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 187 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-dbplyr, r-cran-dbi, r-cran-dcmodify, r-cran-validate Suggests: r-cran-testthat, r-cran-rsqlite, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dcmodifydb_0.3.1-1.ca2004.1_all.deb Size: 57492 MD5sum: 28d72b7bd1f39fccd29c0314c5fa46fa SHA1: bfdaf283ed934a988ff6438239a0284b4e867fca SHA256: 807d83ba08f5d84d87e71749c4b4cb13c66fe4bbc63232f122975af3dde087c5 SHA512: f35122cd118875ff24452d5cd94342675d8c0a159f395df17bc163063b0b2edd2e75cb4b8566f094d4589d6283ddc34a63e4a213901c95b953acc2145cf3f43d Homepage: https://cran.r-project.org/package=dcmodifydb Description: CRAN Package 'dcmodifydb' (Modifying Rules on a DataBase) Apply modification rules from R package 'dcmodify' to the database, prescribing and documenting deterministic data cleaning steps on records in a database. The rules are translated into SQL statements using R package 'dbplyr'. Package: r-cran-dcode Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-seqinr Filename: pool/dists/focal/main/r-cran-dcode_1.0-1.ca2004.1_all.deb Size: 31216 MD5sum: 6562767e43c56c8fc07e042f9f199d3e SHA1: 11ea4efb4ba81adc2dec8763ff1dd58242fdc51d SHA256: 93811f139a0e3ee4334bf43b7cf61ec2ccf37907f8f368c3edc4655900fc9444 SHA512: f47ef30e333c1855b29a0f9ed10884cba8c005fd7bcffc698ea4acc5fade56103cc8ee02b5613d2d9448dc3017a7a5b114f91dd91381506495700ed1dea40f84 Homepage: https://cran.r-project.org/package=DCODE Description: CRAN Package 'DCODE' (List Linear n-Peptide Constraints for Overlapping ProteinRegions) Traversal graph algorithm for listing linear n-peptide constraints for overlapping protein regions. (Lebre and Gascuel, The combinatorics of overlapping genes, freely available from arXiv at : http://arxiv.org/abs/1602.04971). Package: r-cran-dcorvs Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dcov, r-cran-rfast Suggests: r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-dcorvs_1.1-1.ca2004.1_all.deb Size: 31308 MD5sum: 3c829ad533ca1423c38ce008a6cf078f SHA1: 1bc3395a02572d5ef5e63e5912c133c53173a1d5 SHA256: 094af30f617d5a2e4cda16aaa0b38750c075ebe6be9c57b83ecb0bbf3bdad860 SHA512: 767b853466568f55051d7c40be7ffc1d70087e6e8726ada7653473321cfbca02599df225a511165c63c6e9d1aaba6a6e14976c1c7a1b402a68ab9895475c0a74 Homepage: https://cran.r-project.org/package=dcorVS Description: CRAN Package 'dcorVS' (Variable Selection Algorithms Using the Distance Correlation) The 'FBED' and 'mmpc' variable selection algorithms have been implemented using the distance correlation. The references include: Tsamardinos I., Aliferis C. F. and Statnikov A. (2003). "Time and sample efficient discovery of Markovblankets and direct causal relations". In Proceedings of the ninth ACM SIGKDD international Conference. . Borboudakis G. and Tsamardinos I. (2019). "Forward-backward selection with early dropping". Journal of Machine Learning Research, 20(8): 1--39. . Huo X. and Szekely G.J. (2016). "Fast computing for distance covariance". Technometrics, 58(4): 435--447. . Package: r-cran-dcovts Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dcov, r-cran-doparallel, r-cran-foreach, r-cran-rfast, r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-dcovts_1.4-1.ca2004.1_all.deb Size: 179236 MD5sum: 178702b017f12af49592c83d57506926 SHA1: b8278f6914133eec316e2ab29f5f2622196cd252 SHA256: e5c9818701a5bb72268870f960cab4d97f9dba406a3faed404165b5b045c5c76 SHA512: e73685c692ec441a5bc56d8491b199600e64aa0f373347ee5692f9a694fed4209b52ce65082f5f797b8965e2dddf0d86d0fe44168987a602129ed1d6e80e19cf Homepage: https://cran.r-project.org/package=dCovTS Description: CRAN Package 'dCovTS' (Distance Covariance and Correlation for Time Series Analysis) Computing and plotting the distance covariance and correlation function of a univariate or a multivariate time series. Both versions of biased and unbiased estimators of distance covariance and correlation are provided. Test statistics for testing pairwise independence are also implemented. Some data sets are also included. References include: a) Edelmann Dominic, Fokianos Konstantinos and Pitsillou Maria (2019). 'An Updated Literature Review of Distance Correlation and Its Applications to Time Series'. International Statistical Review, 87(2): 237--262. . b) Fokianos Konstantinos and Pitsillou Maria (2018). 'Testing independence for multivariate time series via the auto-distance correlation matrix'. Biometrika, 105(2): 337--352. . c) Fokianos Konstantinos and Pitsillou Maria (2017). 'Consistent testing for pairwise dependence in time series'. Technometrics, 59(2): 262--270. . d) Pitsillou Maria and Fokianos Konstantinos (2016). 'dCovTS: Distance Covariance/Correlation for Time Series'. R Journal, 8(2):324-340. . Package: r-cran-dctensor Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2466 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-fields, r-cran-rtensor, r-cran-nntensor Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dctensor_1.3.0-1.ca2004.1_all.deb Size: 1384956 MD5sum: c61671f8586e65ccfa3d03682ab35f44 SHA1: 0cb28bd05360e41e238ccca193c20d9c089e943a SHA256: ff45d6fa2a21e32b7cb6e8b8c03919c2bc425e2535854e0c9a05be1bcdb6b2e3 SHA512: e25226ce95c7c20fcb5364de6ef3acf1df69d8d0cf01439e8a8e5ce8c66cbf3702547ebf275cb7f6269648a1c4c2384d1a96f9fa917c8163a91a20829efa9b3d Homepage: https://cran.r-project.org/package=dcTensor Description: CRAN Package 'dcTensor' (Discrete Matrix/Tensor Decomposition) Semi-Binary and Semi-Ternary Matrix Decomposition are performed based on Non-negative Matrix Factorization (NMF) and Singular Value Decomposition (SVD). For the details of the methods, see the reference section of GitHub README.md . Package: r-cran-dcur Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 679 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magrittr, r-cran-mclust, r-cran-mass, r-cran-ppcor, r-cran-ggplot2, r-cran-dplyr, r-cran-rdpack Suggests: r-cran-testthat, r-cran-snow Filename: pool/dists/focal/main/r-cran-dcur_1.0.1-1.ca2004.1_all.deb Size: 579388 MD5sum: 24d4db41e1f2fd22b650ce1ab0dc69dc SHA1: 9713561574abaf4a6bf8aceed73e85231355688d SHA256: 1d0db038fe1b010113f969109cfee0d175ebb255d98a0b06cf2fb0756f020bec SHA512: b5bfd06f35b2e55bb7520028f6391fe01f00128cdefbe23d1d04b141e06ef01d6464360d9d7a93348aad73337ef718313e95cbf16f03b43ec284c225bbc6395b Homepage: https://cran.r-project.org/package=dCUR Description: CRAN Package 'dCUR' (Dimension Reduction with Dynamic CUR) Dynamic CUR (dCUR) boosts the CUR decomposition (Mahoney MW., Drineas P. (2009) ) varying the k, the number of columns and rows used, and its final purposes to help find the stage, which minimizes the relative error to reduce matrix dimension. The goal of CUR Decomposition is to give a better interpretation of the matrix decomposition employing proper variable selection in the data matrix, in a way that yields a simplified structure. Its origins come from analysis in genetics. The goal of this package is to show an alternative to variable selection (columns) or individuals (rows). The idea proposed consists of adjusting the probability distributions to the leverage scores and selecting the best columns and rows that minimize the reconstruction error of the matrix approximation ||A-CUR||. It also includes a method that recalibrates the relative importance of the leverage scores according to an external variable of the user's interest. Package: r-cran-dcurves Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 583 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-dplyr, r-cran-ggplot2, r-cran-glue, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-survival, r-cran-tibble Suggests: r-cran-broom.helpers, r-cran-covr, r-cran-gtsummary, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-dcurves_0.5.0-1.ca2004.1_all.deb Size: 363692 MD5sum: 82aa9f7ef4e320b5e256f4d27e78f0c4 SHA1: d7f4bb8cb57f90e7b188cb610f025512650689a9 SHA256: da772dad9abbabca1634dfa8266226c96909d9b0894ea184da00be82ce7393dd SHA512: 875f2a0adfe3410451b55f5c028f3fc7f77335dfd9b34dddcf57a01b643098e2ef474d34c427280e0f0103d1d0a037e726e4e56f6a237fa735f58693e423c1d1 Homepage: https://cran.r-project.org/package=dcurves Description: CRAN Package 'dcurves' (Decision Curve Analysis for Model Evaluation) Diagnostic and prognostic models are typically evaluated with measures of accuracy that do not address clinical consequences. Decision-analytic techniques allow assessment of clinical outcomes, but often require collection of additional information may be cumbersome to apply to models that yield a continuous result. Decision curve analysis is a method for evaluating and comparing prediction models that incorporates clinical consequences, requires only the data set on which the models are tested, and can be applied to models that have either continuous or dichotomous results. See the following references for details on the methods: Vickers (2006) , Vickers (2008) , and Pfeiffer (2020) . Package: r-cran-dda Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dhsic, r-cran-energy, r-cran-foreach Suggests: r-cran-boot, r-cran-doparallel, r-cran-devtools, r-cran-interactions, r-cran-iterators, r-cran-lmtest, r-cran-moments, r-cran-spelling, r-cran-testthat, r-cran-waldo Filename: pool/dists/focal/main/r-cran-dda_0.1.0-1.ca2004.1_all.deb Size: 152248 MD5sum: 246c8e619993135ab657049d632a5db2 SHA1: 24022c9e6d8c3f0a76015ae491b3a99cadee2d86 SHA256: ea03f3bc4ed8a227641c3c970823b1886172022620ba7c725aea8a286487f16f SHA512: 584426f5d9dde822c20e06f68791166a1a34d8873ecd75fce9f9047be4b064216835cf166bc07946c9b4d9ff50324a89e1567d29ea1abb945882255ca5bcb7a7 Homepage: https://cran.r-project.org/package=dda Description: CRAN Package 'dda' (Direction Dependence Analysis) A collection of tests to analyze the causal direction of dependence in linear models (Wiedermann, W., & von Eye, A., 2025, ISBN: 9781009381390). The package includes functions to perform Direction Dependence Analysis for variable distributions, residual distributions, and independence properties of predictors and residuals in competing causal models. In addition, the package contains functions to test the causal direction of dependence in conditional models (i.e., models with interaction terms) For more information see . Package: r-cran-ddecompose Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1409 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-rifreg, r-cran-formula, r-cran-hmisc, r-cran-pbapply, r-cran-sandwich, r-cran-ranger, r-cran-fastglm Suggests: r-cran-testthat, r-cran-tidyr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-ddecompose_1.0.0-1.ca2004.1_all.deb Size: 1347604 MD5sum: ee70e09a4e964f423b3c7fc8c911a898 SHA1: 934625c1db2c5f389068ef25949655a7112bc451 SHA256: 797507401d38bbe7b78a8449703d4dac7aa43bafaf311cbf2d4529cc6bfe0e63 SHA512: 65b802efadae44748eb7f373f74df9d1da5c67da718235f408e7696205097f2bdb9ea8f8fadca7b822129e7ae10d0cd7b0adb8abb338d6b70432d788db3c7a5a Homepage: https://cran.r-project.org/package=ddecompose Description: CRAN Package 'ddecompose' (Detailed Distributional Decomposition) Implements the Oaxaca-Blinder decomposition method and generalizations of it that decompose differences in distributional statistics beyond the mean. The function ob_decompose() decomposes differences in the mean outcome between two groups into one part explained by different covariates (composition effect) and into another part due to differences in the way covariates are linked to the outcome variable (structure effect). The function further divides the two effects into the contribution of each covariate and allows for weighted doubly robust decompositions. For distributional statistics beyond the mean, the function performs the recentered influence function (RIF) decomposition proposed by Firpo, Fortin, and Lemieux (2018). The function dfl_decompose() divides differences in distributional statistics into an composition effect and a structure effect using inverse probability weighting as introduced by DiNardo, Fortin, and Lemieux (1996). The function also allows to sequentially decompose the composition effect into the contribution of single covariates. References: Firpo, Sergio, Nicole M. Fortin, and Thomas Lemieux. (2018) . "Decomposing Wage Distributions Using Recentered Influence Function Regressions." Fortin, Nicole M., Thomas Lemieux, and Sergio Firpo. (2011) . "Decomposition Methods in Economics." DiNardo, John, Nicole M. Fortin, and Thomas Lemieux. (1996) . "Labor Market Institutions and the Distribution of Wages, 1973-1992: A Semiparametric Approach." Oaxaca, Ronald. (1973) . "Male-Female Wage Differentials in Urban Labor Markets." Blinder, Alan S. (1973) . "Wage Discrimination: Reduced Form and Structural Estimates." Package: r-cran-ddi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-dplyr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-ddi_0.1.0-1.ca2004.1_all.deb Size: 18496 MD5sum: 7d81269de41a61a97c6fb2c1ecd3f1d7 SHA1: bf2eb2fd9a0d9733e3bcad1785c002f92da14e21 SHA256: b6e3cad0db9cc63184d0318cb706c6d44b961e50e161721f210b15691b7f3511 SHA512: 2e7b92ffa1d03a45bccf1b6824fad3a3685a507de8b79bec06e46efddc5947f7913453586de6e2f00d4aaf654e2e7a50dfa05045cd9c79c09f058dc629f0a219 Homepage: https://cran.r-project.org/package=ddi Description: CRAN Package 'ddi' (The Data Defect Index for Samples that May not be IID) Implements Meng's data defect index (ddi), which represents the degree of sample bias relative to an iid sample. The data defect correlation (ddc) represents the correlation between the outcome of interest and the selection into the sample; when the sample selection is independent across the population, the ddc is zero. Details are in Meng (2018) , "Statistical Paradises and Paradoxes in Big Data (I): Law of Large Populations, Big Data Paradox, and the 2016 US Presidential Election." Survey estimates from the Cooperative Congressional Election Study (CCES) is included to replicate the article's results. Package: r-cran-ddiv Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 680 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-segmented, r-cran-qpdf Suggests: r-cran-rmarkdown, r-cran-testthat, r-cran-knitr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-ddiv_0.1.1-1.ca2004.1_all.deb Size: 400176 MD5sum: c68002ab9ca0d1ddeb638dacb07d31db SHA1: 542c6cb4de8c58de78c51d498eef46417289d376 SHA256: 98bdfc6870020ab969a0070e0e75325889b2328db0c821377e418f2bf15a6375 SHA512: 0fa0ae8b24a717380a4f2c1bba51756665d84d1a69e031d5d897fd02a9225a3501073f28fcaa25019a9c22c15cdf977c82b4dcb54bc3d510bc1b871899a91331 Homepage: https://cran.r-project.org/package=ddiv Description: CRAN Package 'ddiv' (Data Driven I-v Feature Extraction) The Data Driven I-V Feature Extraction is used to extract Current-Voltage (I-V) features from I-V curves. I-V curves indicate the relationship between current and voltage for a solar cell or Photovoltaic (PV) modules. The I-V features such as maximum power point (Pmp), shunt resistance (Rsh), series resistance (Rs),short circuit current (Isc), open circuit voltage (Voc), fill factor (FF), current at maximum power (Imp) and voltage at maximum power(Vmp) contain important information of the performance for PV modules. The traditional method uses the single diode model to model I-V curves and extract I-V features. This package does not use the diode model, but uses data-driven a method which select different linear parts of the I-V curves to extract I-V features. This method also uses a sampling method to calculate uncertainties when extracting I-V features. Also, because of the partially shaded array, "steps" occurs in I-V curves. The "Segmented Regression" method is used to identify steps in I-V curves. This material is based upon work supported by the U.S. Department of Energy’s Office of Energy Efficiency and Renewable Energy (EERE) under Solar Energy Technologies Office (SETO) Agreement Number DE-EE0007140. Further information can be found in the following paper. [1] Ma, X. et al, 2019. . 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Allows users to identify local outliers by comparing observations to their nearest neighbors, reverse nearest neighbors, shared neighbors or natural neighbors. For distance-based approaches, see Knorr, M., & Ng, R. T. (1997) , Angiulli, F., & Pizzuti, C. (2002) , Hautamaki, V., & Ismo, K. (2004) and Zhang, K., Hutter, M. & Jin, H. (2009) . For density-based approaches, see Tang, J., Chen, Z., Fu, A. W. C., & Cheung, D. W. (2002) , Jin, W., Tung, A. K. H., Han, J., & Wang, W. (2006) , Schubert, E., Zimek, A. & Kriegel, H-P. (2014) , Latecki, L., Lazarevic, A. & Prokrajac, D. (2007) , Papadimitriou, S., Gibbons, P. B., & Faloutsos, C. (2003) , Breunig, M. M., Kriegel, H.-P., Ng, R. T., & Sander, J. (2000) , Kriegel, H.-P., Kröger, P., Schubert, E., & Zimek, A. (2009) , Zhu, Q., Feng, Ji. & Huang, J. (2016) , Huang, J., Zhu, Q., Yang, L. & Feng, J. (2015) , Tang, B. & Haibo, He. (2017) and Gao, J., Hu, W., Zhang, X. & Wu, Ou. (2011) . 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Decision support is given on two levels: (i) The actual decision level is to choose between two alternatives under probabilistic uncertainty. This package calculates the optimal decision based on maximizing expected welfare. (ii) The meta decision level is to allocate resources to reduce the uncertainty in the underlying decision problem, i.e to increase the current information to improve the actual decision making process. This problem is dealt with using the Value of Information Analysis. The Expected Value of Information for arbitrary prospective estimates can be calculated as well as Individual Expected Value of Perfect Information. The probabilistic calculations are done via Monte Carlo simulations. This Monte Carlo functionality can be used on its own. Package: r-cran-deckgl Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3431 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-htmlwidgets, r-cran-htmltools, r-cran-magrittr, r-cran-base64enc, r-cran-yaml, r-cran-jsonlite, r-cran-readr, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-rprojroot, r-cran-sf, r-cran-scales, r-cran-rcolorbrewer, r-cran-shiny Filename: pool/dists/focal/main/r-cran-deckgl_0.3.0-1.ca2004.1_all.deb Size: 1220584 MD5sum: 9c9babd1adfeb68290e02db1b8abfbf1 SHA1: dad4cd818a2e32dad2d8494311fa3ac3fff7cbae SHA256: 07fa9b51b6281ff3a78ab20a87c1791dcdae7815f03d280032e7bccf90c898d9 SHA512: 9d7b959c6fe4602233260afa69abd2f5b74f74e86ae221102b2fc02e0cbc11ca88dfacdcbd1946ef0a0f5fc5e2cf30c1fc2aa52c4a45c020505c9154f1184769 Homepage: https://cran.r-project.org/package=deckgl Description: CRAN Package 'deckgl' (An R Interface to 'deck.gl') Makes 'deck.gl' , a WebGL-powered open-source JavaScript framework for visual exploratory data analysis of large datasets, available within R via the 'htmlwidgets' package. 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Package: r-cran-declaredesign Architecture: all Version: 1.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-randomizr, r-cran-fabricatr, r-cran-estimatr, r-cran-rlang, r-cran-generics Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-aer, r-cran-diffobj, r-cran-dplyr, r-cran-data.table, r-cran-tibble, r-cran-ggplot2, r-cran-future, r-cran-future.apply, r-cran-broom, r-cran-mass, r-cran-matching, r-cran-betareg, r-cran-biglm, r-cran-gam, r-cran-sf, r-cran-reshape2, r-cran-designlibrary, r-cran-coin, r-cran-marginaleffects, r-cran-psych Filename: pool/dists/focal/main/r-cran-declaredesign_1.0.10-1.ca2004.1_all.deb Size: 297872 MD5sum: cc6a74780e164c15cb45f11f54e6b377 SHA1: f84d4122bf7bdfec23a744a7c96b9ac9508674fd SHA256: 4d8548b7f71c9411e6c6a2716bcdc91de57a2b822b514e29a5a404711048dcc9 SHA512: a09a41a75f7396c4ffe85d616f1a1161c56372eb548cc0351b3ee65a299a31beb3101e08bb35ece796c0ac3ad3e9eb84036a336c37d223904ea7674ff146fb17 Homepage: https://cran.r-project.org/package=DeclareDesign Description: CRAN Package 'DeclareDesign' (Declare and Diagnose Research Designs) Researchers can characterize and learn about the properties of research designs before implementation using `DeclareDesign`. Ex ante declaration and diagnosis of designs can help researchers clarify the strengths and limitations of their designs and to improve their properties, and can help readers evaluate a research strategy prior to implementation and without access to results. It can also make it easier for designs to be shared, replicated, and critiqued. Package: r-cran-decode Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5074 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-decode_1.2-1.ca2004.1_all.deb Size: 1486796 MD5sum: 3cb9e5da6e71bf19714b0e42e537b1cc SHA1: 7ece04ec9e056be5fa3e9212d1b8778dc9598b36 SHA256: a2ed3c0487e5bb37957806d3e8206f68ab5494e733b90c1268df3245a1074dc2 SHA512: e11e337a86002b6ba7a6458bfb7353869c618c7ffb947e4806ff7ba5140a0ab2fa123dc7200115b73a0a26b2593d47d5a83056cea268e4453e06c31ef5a24be9 Homepage: https://cran.r-project.org/package=decode Description: CRAN Package 'decode' (Differential Co-Expression and Differential Expression Analysis) Integrated differential expression (DE) and differential co-expression (DC) analysis on gene expression data based on DECODE (DifferEntial CO-expression and Differential Expression) algorithm. Package: r-cran-decoder Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2066 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-dt, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-decoder_1.2.2-1.ca2004.1_all.deb Size: 1644720 MD5sum: 3140258f2aed8b6b99802b9ef075f065 SHA1: 85392eb17b5003ad1d4f3dca69bb6b6a74e4654b SHA256: 75d61bd2e2a41558b232a163a87ee833d0cec7c3a66e279812446e9374572e87 SHA512: 424aea852ff81403777fd8c48e1a98ba03309e9f2fff7d1f0112086f227a9257503fff0abf5e39ed460f36abf9c290f8446435647d6fbe238d927b849c4007ba Homepage: https://cran.r-project.org/package=decoder Description: CRAN Package 'decoder' (Decode Coded Variables to Plain Text and the Other Way Around) Main function "decode" is used to decode coded key values to plain text. Function "code" can be used to code plain text to code if there is a 1:1 relation between the two. The concept relies on 'keyvalue' objects used for translation. There are several 'keyvalue' objects included in the areas of geographical regional codes, administrative health care unit codes, diagnosis codes and more. It is also easy to extend the use by arbitrary code sets. Package: r-cran-decompdl Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-keras, r-cran-tensorflow, r-cran-reticulate, r-cran-tsutils, r-bioc-biocgenerics, r-cran-magrittr, r-cran-rlibeemd, r-cran-tsdeeplearning, r-cran-vmdecomp Filename: pool/dists/focal/main/r-cran-decompdl_0.1.0-1.ca2004.1_all.deb Size: 82356 MD5sum: 3a8fea57019e7088eefde3feeeb10748 SHA1: b3af701fb324e24097924f001e46a4a42190ff46 SHA256: 59132e01a50c22cadd68033a8c8aa5ceeaae8d0ed9e61a8180dd30d97a782c55 SHA512: 04236b585ddbc4f003f195fb0f779238ddf8a6c5eaeebf4f9fffb31ae9a45df28d152838f0329e6c10f259ee2e8a1f81176831244cfc0c81c788b724deb43f90 Homepage: https://cran.r-project.org/package=decompDL Description: CRAN Package 'decompDL' (Decomposition Based Deep Learning Models for Time SeriesForecasting) Hybrid model is the most promising forecasting method by combining decomposition and deep learning techniques to improve the accuracy of time series forecasting. Each decomposition technique decomposes a time series into a set of intrinsic mode functions (IMFs), and the obtained IMFs are modelled and forecasted separately using the deep learning models. Finally, the forecasts of all IMFs are combined to provide an ensemble output for the time series. The prediction ability of the developed models are calculated using international monthly price series of maize in terms of evaluation criteria like root mean squared error, mean absolute percentage error and, mean absolute error. For method details see Choudhary, K. et al. (2023). . Package: r-cran-decompml Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-forecast, r-cran-nnfor, r-cran-rlibeemd, r-cran-vmdecomp Filename: pool/dists/focal/main/r-cran-decompml_0.1.1-1.ca2004.1_all.deb Size: 79084 MD5sum: 9b920c405bce60873f5a3c355e12f2af SHA1: cf0c68c7174524e4a211ec4abf02722289ea3cae SHA256: 2b78a1ae4ade171f9198045579d475375358d38bc31aac1e269d2ff679e67469 SHA512: 965773cacad7f9bb91bbce072d96c8d1fbb6826d8de621b6c910583bcac0f8b128bfa069c46c23d8cfc2d848d846a8ab7357f4a79fdbc3679095d7a518208fa6 Homepage: https://cran.r-project.org/package=decompML Description: CRAN Package 'decompML' (Decomposition Based Machine Learning Model) The hybrid model is a highly effective forecasting approach that integrates decomposition techniques with machine learning to enhance time series prediction accuracy. Each decomposition technique breaks down a time series into multiple intrinsic mode functions (IMFs), which are then individually modeled and forecasted using machine learning algorithms. The final forecast is obtained by aggregating the predictions of all IMFs, producing an ensemble output for the time series. The performance of the developed models is evaluated using international monthly maize price data, assessed through metrics such as root mean squared error (RMSE), mean absolute percentage error (MAPE), and mean absolute error (MAE). For method details see Choudhary, K. et al. (2023). . Package: r-cran-decomposedpsf Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-psf, r-cran-rlibeemd, r-cran-forecast, r-cran-tseries Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-decomposedpsf_0.2-1.ca2004.1_all.deb Size: 27956 MD5sum: d81b3f607b98fe0dec0c69e80aa2aeca SHA1: eef8796bf97335a4c63562ec6fe028d53ad7c1b7 SHA256: a25147680d7b332a0e77f07e3da21876b4a1d3730508a6f10dca31637cf851c4 SHA512: 2b9fbe22671391707b322abe8729902ce60aab89e6ee0701f0927f887420698bdfa73eb38bdfd8dd3f3534242437ddd9dece978008610d8fada82909cfd83ed9 Homepage: https://cran.r-project.org/package=decomposedPSF Description: CRAN Package 'decomposedPSF' (Time Series Prediction with PSF and Decomposition Methods (EMDand EEMD)) Predict future values with hybrid combinations of Pattern Sequence based Forecasting (PSF), Autoregressive Integrated Moving Average (ARIMA), Empirical Mode Decomposition (EMD) and Ensemble Empirical Mode Decomposition (EEMD) methods based hybrid methods. Package: r-cran-decomposer Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 985 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-usethis, r-cran-tictoc, r-cran-stratigrapher, r-cran-hexbin, r-cran-colorramps, r-cran-dplyr Suggests: r-cran-emd, r-cran-rssa, r-cran-astrochron, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-decomposer_1.0.6-1.ca2004.1_all.deb Size: 802168 MD5sum: fd4a748b996adaadf107991e411b83f0 SHA1: bbe9b2e6d97cf19f02a1a5d6460c1521908945aa SHA256: 8a92d14f3ec83983b1d567e34c276bd0f8b0e78d0323c8eb44e433b9a02768d3 SHA512: aa0106439347283aa05a564426b3f80a645158f2580f708da975515f04fce09ef401269f50141f53b76059691bb7ad83de73cd6d6d51b6912736ce2868493fb3 Homepage: https://cran.r-project.org/package=DecomposeR Description: CRAN Package 'DecomposeR' (Empirical Mode Decomposition for Cyclostratigraphy) Tools to apply Ensemble Empirical Mode Decomposition (EEMD) for cyclostratigraphy purposes. Mainly: a new algorithm, extricate, that performs EEMD in seconds, a linear interpolation algorithm using the greatest rational common divisor of depth or time, different algorithms to compute instantaneous amplitude, frequency and ratios of frequencies, and functions to verify and visualise the outputs. The functions were developed during the CRASH project (Checking the Reproducibility of Astrochronology in the Hauterivian). When using for publication please cite Wouters, S., Crucifix, M., Sinnesael, M., Da Silva, A.C., Zeeden, C., Zivanovic, M., Boulvain, F., Devleeschouwer, X., 2022, "A decomposition approach to cyclostratigraphic signal processing". Earth-Science Reviews 225 (103894). . Package: r-cran-deconstructsigs Architecture: all Version: 1.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 304 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-bioc-bsgenome, r-bioc-bsgenome.hsapiens.ucsc.hg19, r-bioc-genomeinfodb Suggests: r-bioc-variantannotation Filename: pool/dists/focal/main/r-cran-deconstructsigs_1.8.0-1.ca2004.1_all.deb Size: 268812 MD5sum: a3396e1ea2fdd2bdff6408525c2af695 SHA1: 192598e577e0f7249ceaa9c7a64d887f8a3bd340 SHA256: 3ab9734b786a7db00e48a1cff112c9ea7f8f6dea2af8cc26dab94776e04ac881 SHA512: 6ee980f60dfb2796d73795e8a14e75d93088eb2f9d098c57f7c047c5f38b02aad40b37eb02fafee98382e17dcb3e1681fca82feb1eed0e77a5574adc5fdd203e Homepage: https://cran.r-project.org/package=deconstructSigs Description: CRAN Package 'deconstructSigs' (Identifies Signatures Present in a Tumor Sample) Takes sample information in the form of the fraction of mutations in each of 96 trinucleotide contexts and identifies the weighted combination of published signatures that, when summed, most closely reconstructs the mutational profile. Package: r-cran-deconvolver Architecture: all Version: 1.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2888 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-cowplot, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-deconvolver_1.2-1-1.ca2004.1_all.deb Size: 1655708 MD5sum: cdaf2b34c998708d3c4715bf2aaacc3a SHA1: ab6e4f8ca1f5abe35146aa859df6d24b178b2ccb SHA256: c178388eccb29af3e5de00d544bfb99d043be9ec25828c4b4eefd6361740a3b0 SHA512: 982219fc282c53a652740ce0ed51aad8d41c2e125fd1c706a1e01ad0422e44323e7fcf012a71c4c0a577e39d33a036e7f4619bdbbb99a2ae06ee8126b46ce53d Homepage: https://cran.r-project.org/package=deconvolveR Description: CRAN Package 'deconvolveR' (Empirical Bayes Estimation Strategies) Empirical Bayes methods for learning prior distributions from data. An unknown prior distribution (g) has yielded (unobservable) parameters, each of which produces a data point from a parametric exponential family (f). The goal is to estimate the unknown prior ("g-modeling") by deconvolution and Empirical Bayes methods. Details and examples are in the paper by Narasimhan and Efron (2020, ). Package: r-cran-decorater Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rweka, r-cran-rwekajars, r-cran-rjava Filename: pool/dists/focal/main/r-cran-decorater_0.1.2-1.ca2004.1_all.deb Size: 24840 MD5sum: 5a9054ba4ec5594d6db48cec5926060c SHA1: 668210e0d4603610d2dcbc252e89aa549d23de37 SHA256: 6f5dfbb3e5618206bde2db08041d0c6875b66c2f43bb01c0a3c2d50d59746a64 SHA512: 074610217167add725767e92515902c5993ba76eda3bcdd3435d1ef3304aa3ff6abfb261d5ec18672c670ffd07ed534e273ba42a7d10379a3f03312380c66580 Homepage: https://cran.r-project.org/package=DecorateR Description: CRAN Package 'DecorateR' (Fit and Deploy DECORATE Trees) DECORATE (Diverse Ensemble Creation by Oppositional Relabeling of Artificial Training Examples) builds an ensemble of J48 trees by recursively adding artificial samples of the training data ("Melville, P., & Mooney, R. J. (2005) "). Package: r-cran-decorators Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-purrr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-decorators_0.3.0-1.ca2004.1_all.deb Size: 21740 MD5sum: 2a53b2c38543afd28e5f87837ce50536 SHA1: 7b0e5ce8d9e554b2d70c555c729adad1f85c1af2 SHA256: 5067f087c9365ec6cc9b1c17363fa30fd00a74afd1f94df2c0a55d95d81a32bf SHA512: 8efcce9bd4c2cb1ad1fb155d0ab036a1a1cf92efb03f15d5338f77513569ac9b30089f79fc8554fec627d57a4bc6b99bc636abde4ed0dc81ae39dc2455d5a39c Homepage: https://cran.r-project.org/package=decorators Description: CRAN Package 'decorators' (Extend the Behaviour of a Function without Explicitly Modifyingit) A decorator is a function that receives a function, extends its behaviour, and returned the altered function. Any caller that uses the decorated function uses the same interface as it were the original, undecorated function. Decorators serve two primary uses: (1) Enhancing the response of a function as it sends data to a second component; (2) Supporting multiple optional behaviours. An example of the first use is a timer decorator that runs a function, outputs its execution time on the console, and returns the original function's result. An example of the second use is input type validation decorator that during running time tests whether the caller has passed input arguments of a particular class. Decorators can reduce execution time, say by memoization, or reduce bugs by adding defensive programming routines. Package: r-cran-decp Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-geigen, r-cran-ggplot2, r-cran-magrittr, r-cran-matrixcalc, r-cran-purrr, r-cran-rlang Filename: pool/dists/focal/main/r-cran-decp_0.1.2-1.ca2004.1_all.deb Size: 56200 MD5sum: deee140ec82bb1b7b596b89eecd1e6e3 SHA1: b11417ae688e1e39420a206fd67a6f54432e3a87 SHA256: c348f1e42f755a9fdb10e98b5c01da9f7beccedf47916961a60e3a825217e204 SHA512: ec93bc06848751aea490aebc7b121af7a42be65e0f6a9dbb123c93b230cf2b41fcd081c81e05a077e480a1d49104f9b46a90e6b2969bdb183740b31d24e772c4 Homepage: https://cran.r-project.org/package=decp Description: CRAN Package 'decp' (Complete Change Point Analysis) Provides a comprehensive approach for identifying and estimating change points in multivariate time series through various statistical methods. Implements the multiple change point detection methodology from Ryan & Killick (2023) and a novel estimation methodology from Fotopoulos et al. (2023) generalized to fit the detection methodologies. Performs both detection and estimation of change points, providing visualization and summary information of the estimation process for each detected change point. Package: r-cran-deducer Architecture: all Version: 0.9-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3858 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-jgr, r-cran-car, r-cran-mass, r-cran-rjava, r-cran-e1071, r-cran-scales, r-cran-plyr, r-cran-foreign, r-cran-multcomp, r-cran-effects Suggests: r-cran-hmisc, r-cran-brunnermunzel Filename: pool/dists/focal/main/r-cran-deducer_0.9-0-1.ca2004.1_all.deb Size: 3209412 MD5sum: e8db9cfc3fdd493089969bc7cbd26c4b SHA1: e5fcb9d05bbd57eab1e5334aa4558d3ae3a33cde SHA256: 60e94e996c45f45e906c93b803f7740ec32fef93eb37783d02df4d45338088f2 SHA512: 53b9a66c3be41767c00fa6eb52f73c40fe2cb50700349a3280f3734455abe39db2498b92abb46e7d362bcb3192f969be263d2bfbf6579ded6ced755ce21a313e Homepage: https://cran.r-project.org/package=Deducer Description: CRAN Package 'Deducer' (A Data Analysis GUI for R) An intuitive, cross-platform graphical data analysis system. It uses menus and dialogs to guide the user efficiently through the data manipulation and analysis process, and has an excel like spreadsheet for easy data frame visualization and editing. Deducer works best when used with the Java based R GUI JGR, but the dialogs can be called from the command line. Dialogs have also been integrated into the Windows Rgui. Package: r-cran-deducerpluginexample Architecture: all Version: 0.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1524 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-deducer Filename: pool/dists/focal/main/r-cran-deducerpluginexample_0.2-0-1.ca2004.1_all.deb Size: 1151000 MD5sum: e4a4f992fd9e76164777a8eab1eeb91c SHA1: db51b9fda3b76b2960955ea8098fef4575b0173a SHA256: 06b5f73cf002714fa37ff08f31b963048122c04d6f66b13c348a707c4a9debef SHA512: 0484e5d55fdc78768db0449192810cc812fe07c8f70602d95b8a90671bc1202820e34fb98eec87d53a8eec3ad33c2942ce87c5bfb941836acae047c1350edb80 Homepage: https://cran.r-project.org/package=DeducerPlugInExample Description: CRAN Package 'DeducerPlugInExample' (Deducer Plug-in Example) A example GUI plug-in package to serve as a template. 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The method is as described in: Campos, D.F., (1984, ISBN:9686194444). 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This package allows to find connected rows based on data on chosen columns and collapse it into one row. Package: r-cran-deep Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 183 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-deep_0.1.0-1.ca2004.1_all.deb Size: 153696 MD5sum: 27ffce27fc660089295cdf0d3f00c05d SHA1: 872bbc39e6deeea4cab3601f7ca43b5156de9afc SHA256: ed8a619c8968c87c9e68d5d5fe19c2dc1477f1a402ee6ad168637e97182bbbb4 SHA512: a806248c9a255577d87c83e43d403e271b7bcf6fe7e58cc700dae7826558771abb854c6a409c90151c8e3e245c45ed0614ec7cf64c3372419a2221b509ece350 Homepage: https://cran.r-project.org/package=deep Description: CRAN Package 'deep' (A Neural Networks Framework) Explore neural networks in a layer oriented way, the framework is intended to give the user total control of the internals of a net without much effort. 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In addition novel ensemble models like 'deeptree' and 'deepforest' has been included which combines decision trees and neural network. 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To avoid overparameterized solutions, dimension reduction is applied at each layer by way of factor models. 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The package first provides functions to implement meta-learners such as the Single-learner (S-learner) and Two-learner (T-learner) described in KC for estimating the CATE. The S- and T-learner are each estimated using the SL ensemble method and deep neural networks. It then provides functions to implement the Ottoboni and Poulos (2020) PATT-C estimator to obtain the PATT from experimental data with noncompliance by using the SL ensemble method and deep neural networks. 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(2000). ), Mixture of Dirichlet-Multinomials estimated by Gradient Descent (Anderlucci, Viroli (2020) ) and Deep Mixture of Multinomials whose estimates are obtained with Gibbs sampling scheme (Viroli, Anderlucci (2020) ). There are also functions for graphical representation of clusters obtained. 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Package: r-cran-deepnn Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix Filename: pool/dists/focal/main/r-cran-deepnn_1.2-1.ca2004.1_all.deb Size: 156524 MD5sum: 14588e504a4e344d704da5cf39736688 SHA1: e19a0c74975bc5523d61fcca234f3c84a6ee64e9 SHA256: 395e516f2a299c43628bfd2adf89bc5ecb47feda05583183231f8aaa708864f6 SHA512: b763d53f5e8b6d707e61dc4516cf3f103ff1ab672805ff0143794393478c681068cd144ac68f9561218fcd07cb824343ab196d5cd5e2d4a3eb4a4456f74b9fda Homepage: https://cran.r-project.org/package=deepNN Description: CRAN Package 'deepNN' (Deep Learning) Implementation of some Deep Learning methods. Includes multilayer perceptron, different activation functions, regularisation strategies, stochastic gradient descent and dropout. Thanks go to the following references for helping to inspire and develop the package: Ian Goodfellow, Yoshua Bengio, Aaron Courville, Francis Bach (2016, ISBN:978-0262035613) Deep Learning. Terrence J. Sejnowski (2018, ISBN:978-0262038034) The Deep Learning Revolution. Grant Sanderson (3brown1blue) Neural Networks YouTube playlist. Michael A. Nielsen Neural Networks and Deep Learning. 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'deepredeff' has been trained to identify effector proteins using a set of known experimentally validated effectors from either bacteria, fungi, or oomycetes. Documentation is available via several vignettes, and the paper by Kristianingsih and MacLean (2020) . 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Package: r-cran-deeprstudio Architecture: all Version: 0.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 927 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-assertthat, r-cran-clipr, r-cran-rstudioapi, r-cran-crayon Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-deeprstudio_0.0.9-1.ca2004.1_all.deb Size: 818460 MD5sum: ff416f4b37e49c6dadac0bfefe0e3cdf SHA1: 8e15e6f5c4ae13e505e40ba21f883c7009c5cc8e SHA256: 6d93bde3db165ab4bb9614cd45641fc9b679b3f5968ef134d40aad9e228eeb21 SHA512: d49205482ecf879238408f731a7b4a5d693457674b338ad0930a59138377b9d0795ab09a621c313101cdc706ad72be9b16df91b61e53b4e96689f4bd3f3bd3cb Homepage: https://cran.r-project.org/package=deepRstudio Description: CRAN Package 'deepRstudio' (Seamless Language Translation in 'RStudio' using 'DeepL' API and'Rstudioapi') Enhancing cross-language compatibility within the 'RStudio' environment and supporting seamless language understanding, the 'deepRstudio' package leverages the power of the 'DeepL' API (see ) to enable seamless, fast, accurate, and affordable translation of code comments, documents, and text. This package offers the ability to translate selected text into English (EN), as well as from English into various languages, namely Japanese (JA), Chinese (ZH), Spanish (ES), French (FR), Russian (RU), Portuguese (PT), and Indonesian (ID). With much of the text being written in English, the emphasis is on compatibility from English. It is also designed for developers working on multilingual projects and data analysts collaborating with international teams, simplifying the translation process and making code more accessible and comprehensible to people with diverse language backgrounds. This package uses the 'rstudioapi' package and 'DeepL' API, and is simply implemented, executed from addins or via shortcuts on 'RStudio'. With just a few steps, content can be translated between supported languages, promoting better collaboration and expanding the global reach of work. The functionality of this package works only on 'RStudio' using 'rstudioapi'. Package: r-cran-deeptime Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3827 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-deeptimedata, r-cran-ggplot2, r-cran-ggforce, r-cran-gridextra, r-cran-gtable, r-cran-lattice, r-cran-rlang, r-cran-scales, r-cran-ggfittext, r-cran-curl, r-cran-cli, r-cran-lifecycle, r-cran-grimport2, r-cran-ggh4x Suggests: r-cran-geomtextpath, r-cran-phytools, r-cran-dplyr, r-cran-divdyn, r-cran-gsloid, r-cran-ape, r-cran-palaeoverse, r-cran-paleotree, r-cran-disprity, r-bioc-ggtree, r-cran-testthat, r-cran-vdiffr, r-cran-knitr, r-cran-rmarkdown, r-cran-withr, r-cran-ggpattern, r-cran-ggrepel, r-cran-rmacrostrat, r-cran-svglite Filename: pool/dists/focal/main/r-cran-deeptime_2.2.0-1.ca2004.1_all.deb Size: 2826524 MD5sum: 05638968d47704bd32e2ce87401e3b35 SHA1: 7dbae02b6552b320bf2311b847e8ad5a84c96408 SHA256: 9b37c28ee5da798b3cf8778f3cbee67ef03b323f975016fd5e1ef25448e90c91 SHA512: b205170b4405ad7649eec674f8828732a72fbdb4721602e8d0f4c24fafa8a8265ee9dd4047ee13fcd639f3b9513035e88bfdf64535a24559fb7abde0cdc7a488 Homepage: https://cran.r-project.org/package=deeptime Description: CRAN Package 'deeptime' (Plotting Tools for Anyone Working in Deep Time) Extends the functionality of other plotting packages (notably 'ggplot2') to help facilitate the plotting of data over long time intervals, including, but not limited to, geological, evolutionary, and ecological data. The primary goal of 'deeptime' is to enable users to add highly customizable timescales to their visualizations. Other functions are also included to assist with other areas of deep time visualization. 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Differential gene expression analysis using RNA sequencing (RNA-seq) data is a standard approach for making biological discoveries. Ongoing large-scale efforts to process and normalize publicly available gene expression data enable rapid and systematic reanalysis. While several powerful tools systematically process RNA-seq data, enabling their reanalysis, few resources systematically recompute differentially expressed genes (DEGs) generated from individual studies. We developed a robust differential expression analysis pipeline to recompute 3162 human DEG lists from The Cancer Genome Atlas, Genotype-Tissue Expression Consortium, and 142 studies within the Sequence Read Archive. After measuring the accuracy of the recomputed DEG lists, we built the Differential Expression Enrichment Tool (DEET), which enables users to interact with the recomputed DEG lists. DEET, available through CRAN and RShiny, systematically queries which of the recomputed DEG lists share similar genes, pathways, and TF targets to their own gene lists. DEET identifies relevant studies based on shared results with the user’s gene lists, aiding in hypothesis generation and data-driven literature review. Sokolowski, Dustin J., et al. "Differential Expression Enrichment Tool (DEET): an interactive atlas of human differential gene expression." Nucleic Acids Research Genomics and Bioinformatics (2023). 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A high biological variability may impact the discovery of these genes once it may be divergent between the fixed effects. However, this variability can be covered by the random effects. 'DEGRE' was designed to identify the differentially expressed genes considering fixed and random effects on individuals. These effects are identified earlier in the experimental design matrix. 'DEGRE' has the implementation of preprocessing procedures to clean the near zero gene reads in the count matrix, normalize by 'RLE' published in the 'DESeq2' package, 'Love et al. (2014)' and it fits a regression for each gene using the Generalized Linear Mixed Model with the negative binomial distribution, followed by a Wald test to assess the regression coefficients. 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Theses models are used in chemistry, biology and pharmacy to find a relationship between the structure of a molecule and its property (such as activity, toxicology but also physical properties). The various functions of this package allows: selection of descriptors based of variances, intercorrelation and user expertise; selection of the best multi-linear regression in terms of correlation and robustness; methods of internal validation (Leave-One-Out, Leave-Many-Out, Y-scrambling) and external using test sets. 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It includes robust wrappers for 'Cutadapt' and 'DADA2' to trim primers, filter reads, perform amplicon sequence variant (ASV) inference, and assign taxonomy. The package can handle single metabarcode datasets, datasets with two pooled metabarcodes, or multiple datasets simultaneously. The final output is a matrix per metabarcode, containing both ASV abundance data and associated taxonomic assignments. An optional function converts these matrices into 'phyloseq' and 'taxmap' objects. For more information on 'DADA2', including information on how DADA2 infers samples sequences, see Callahan et al. (2016) . For more details on the demulticoder R package see Sudermann et al. (2025) . Package: r-cran-dendextend Architecture: all Version: 1.19.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6998 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-ggplot2, r-cran-viridis Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-seriation, r-cran-colorspace, r-cran-ape, r-cran-microbenchmark, r-cran-gplots, r-cran-heatmaply, r-cran-dynamictreecut, r-cran-pvclust, r-cran-corrplot, r-cran-dendser, r-cran-mass, r-cran-cluster, r-cran-fpc, r-cran-circlize, r-cran-covr Filename: pool/dists/focal/main/r-cran-dendextend_1.19.0-1.ca2004.1_all.deb Size: 4815796 MD5sum: 40ef7270587cc827baa37ec060785fdb SHA1: e174dbf83c761d5856df72780700eb8655c7e883 SHA256: 388a8588706943712e848601d2c50ce066a1461062e2ecab01fa708bb7d468fe SHA512: ed88ea24514ce44c74754121d1c23fb993b15d9587dc1a564e932aeda102ec937f3e8579415cc9c86bb7a01df9bc2f8d3617d73939f0b5f50b8d18470ac6105f Homepage: https://cran.r-project.org/package=dendextend Description: CRAN Package 'dendextend' (Extending 'dendrogram' Functionality in R) Offers a set of functions for extending 'dendrogram' objects in R, letting you visualize and compare trees of 'hierarchical clusterings'. You can (1) Adjust a tree's graphical parameters - the color, size, type, etc of its branches, nodes and labels. (2) Visually and statistically compare different 'dendrograms' to one another. 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This includes identifying and erasing sudden jumps in dendrometer data not related to environmental change, identifying the time gaps of recordings, and changing the temporal resolution of data to different frequencies. Furthermore, the package calculates daily statistics of dendrometer data, including the daily amplitude of tree growth. Various approaches can be applied to separate radial growth from daily cyclic shrinkage and expansion due to uptake and loss of stem water. In addition, it identifies periods of consecutive days with user-defined climatic conditions in daily meteorological data, then check what trees are doing during that period. Package: r-cran-dendroextras Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-dendroextras_0.2.3-1.ca2004.1_all.deb Size: 32268 MD5sum: 61092011c62afc5d39d48db4c11be850 SHA1: 97a038c74a1cc0fd70579e5bd63aa36ac87c3fb4 SHA256: 51b4c2213bbc296383705ed90347c387256c0d6296a8c57fd88be74931638bb7 SHA512: fc99e30169e523ca19ddf0edee319c4186d3a598e6d2d1c70043e4bec4fb7100cec0941900349f967bdfc30a25a21b24e6d1c6870c1192459e2b80d18555b6d4 Homepage: https://cran.r-project.org/package=dendroextras Description: CRAN Package 'dendroextras' (Extra Functions to Cut, Label and Colour Dendrogram Clusters) Provides extra functions to manipulate dendrograms that build on the base functions provided by the 'stats' package. The main functionality it is designed to add is the ability to colour all the edges in an object of class 'dendrogram' according to cluster membership i.e. each subtree is coloured, not just the terminal leaves. In addition it provides some utility functions to cut 'dendrogram' and 'hclust' objects and to set/get labels. Package: r-cran-dendrometer Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 995 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-forecast, r-cran-pspline, r-cran-zoo Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-dendrometer_1.1.1-1.ca2004.1_all.deb Size: 586480 MD5sum: b34279710d18bc4764a86e8f32ae88ca SHA1: 8812a457148285af6186c6a8e73d3fccafbe13dc SHA256: b98645d8e41a1a61166cf4b4a6475e065ba7af375735f555b4bea66343fb1350 SHA512: d43d11275588be67848de1ae8707005bb706d0a12e58fe54d74ecbf00f4548acb69b93d2403174d3710f4b803fc4ba8783cd707227806bca048ff09e6d924295 Homepage: https://cran.r-project.org/package=dendrometeR Description: CRAN Package 'dendrometeR' (Analyzing Dendrometer Data) Various functions to import, verify, process and plot high-resolution dendrometer data using daily and stem-cycle approaches as described in Deslauriers et al, 2007 . For more details about the package please see: Van der Maaten et al. 2016 . Package: r-cran-dendrometry Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1184 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-forestfit Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dendrometry_0.0.3-1.ca2004.1_all.deb Size: 421860 MD5sum: c42de4b52549f71e029024990499741a SHA1: b3af63aa06aa7a73c4e48096d9bb3ceee52a54f3 SHA256: f6736e297bc10f8b1a9aca8797db3d049523580091a31dbd3fd457823e44f6b0 SHA512: 36eeba1918fb5ae6642fb495d2d5883f5109f0f71c29a06f962ddb916fb5fc38ce16b4562d3dac5ee9f6329844dcca519df0d9af0d29e6f0d2ea7481ef9ac5fd Homepage: https://cran.r-project.org/package=dendrometry Description: CRAN Package 'dendrometry' (Forest Estimations and Dendrometric Computations) Computation of dendrometric and structural parameters from forest inventory data. The objective is to provide an user-friendly R package for researchers, ecologists, foresters, statisticians, loggers and others persons who deal with forest inventory data. Useful conversion of angle value from degree to radian, conversion from angle to slope (in percentage) and their reciprocals as well as principal angle determination are also included. Position and dispersion parameters usually found in forest studies are implemented. The package contains Fibonacci series, its extensions and the Golden Number computation. Useful references are Arcadius Y. J. Akossou, Soufianou Arzouma, Eloi Y. Attakpa, Noël H. Fonton and Kouami Kokou (2013) and W. Bonou, R. Glele Kakaï, A.E. Assogbadjo, H.N. Fonton, B. Sinsin (2009) . Package: r-cran-dendronetwork Architecture: all Version: 0.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3391 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplr, r-cran-igraph, r-cran-stringr, r-cran-reshape2, r-bioc-rcy3, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-tidyr, r-cran-foreach, r-cran-lifecycle, r-cran-doparallel Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-diagrammer Filename: pool/dists/focal/main/r-cran-dendronetwork_0.5.4-1.ca2004.1_all.deb Size: 1358076 MD5sum: 41e2ad0ed4724f9e2e43836ebb4c66da SHA1: b95ca6f1484fe36caa2c4eab0bb71b35f5c0fd2e SHA256: 6e91bf731c5da35d95387646e52501a7a743fa9ed5ffcd49b4dc34c89c587c66 SHA512: 348afc9f938ee8b9975f45d938a5f4bd03fea4f9c5e76e252cd390ef1d5d46025fd9ca62cacc3d6f9db8e2118e67029cebc023147169959c68f819deb3332845 Homepage: https://cran.r-project.org/package=dendroNetwork Description: CRAN Package 'dendroNetwork' (Create Networks of Dendrochronological Series using PairwiseSimilarity) Creating dendrochronological networks based on the similarity between tree-ring series or chronologies. The package includes various functions to compare tree-ring curves building upon the 'dplR' package. The networks can be used to visualise and understand the relations between tree-ring curves. These networks are also very useful to estimate the provenance of wood as described in Visser (2021) or wood-use within a structure/context/site as described in Visser and Vorst (2022) . Package: r-cran-dendrosync Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-nlme, r-cran-ggplot2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-dendrosync_0.1.4-1.ca2004.1_all.deb Size: 125288 MD5sum: b0a5eef46d900a843598063bb783744a SHA1: a491249d459cf37c2f5ddfbd527fb0a0f2237b22 SHA256: 594042be0e94b3db6ced0f9dadc55d8feed105874aef933a992c69338fa98ecf SHA512: 3faafc1d98ae8a0c145510414cef556afc21cb42454875407d757af61658be7468598603dbe1c63203c2818ab7f40b20ef5de242014b9e20789b4a625aba85a2 Homepage: https://cran.r-project.org/package=DendroSync Description: CRAN Package 'DendroSync' (A Set of Tools for Calculating Spatial Synchrony BetweenTree-Ring Chronologies) Provides functions for the calculation and plotting of synchrony in tree growth from tree-ring width chronologies (TRW index). It combines variance-covariance (VCOV) mixed modelling with functions that quantify the degree to which the TRW chronologies contain a common temporal signal. It also implements temporal trends in spatial synchrony using a moving window. These methods can also be used with other kind of ecological variables that have temporal autocorrelation corrected. Package: r-cran-dendrotools Architecture: all Version: 1.2.14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2667 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-brnn, r-cran-reshape2, r-cran-scales, r-cran-oce, r-cran-mlmetrics, r-cran-dplyr, r-cran-knitr, r-cran-magrittr, r-cran-plotly, r-cran-randomforest, r-cran-cubist, r-cran-lubridate, r-cran-psych, r-cran-boot, r-cran-viridis, r-cran-dplr Suggests: r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dendrotools_1.2.14-1.ca2004.1_all.deb Size: 1486496 MD5sum: 9f8324b8e821a996abf5fb545c669a6f SHA1: d976a419f6539701e9c151219b84d660c67e568a SHA256: 25f4c85e0477feda7f4192adb47bcec1d88a542a692afa77eb7b6237a3a7f06a SHA512: b234fa04a725258af87b39361016672bf01076ea98908293ec7f719b3ddbc51acfa3b56e67bb0d031fed455a11cb11118026eed0d42048356c3a3532234712e0 Homepage: https://cran.r-project.org/package=dendroTools Description: CRAN Package 'dendroTools' (Linear and Nonlinear Methods for Analyzing Daily and MonthlyDendroclimatological Data) Provides novel dendroclimatological methods, primarily used by the Tree-ring research community. There are four core functions. The first one is daily_response(), which finds the optimal sequence of days that are related to one or more tree-ring proxy records. Similar function is daily_response_seascorr(), which implements partial correlations in the analysis of daily response functions. For the enthusiast of monthly data, there is monthly_response() function. The last core function is compare_methods(), which effectively compares several linear and nonlinear regression algorithms on the task of climate reconstruction. Package: r-cran-dendsort Architecture: all Version: 0.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1608 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rcolorbrewer, r-cran-gplots, r-cran-seriation, r-cran-gapmap, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dendsort_0.3.4-1.ca2004.1_all.deb Size: 1149440 MD5sum: 8746ee9f12e12defbc555d160df77036 SHA1: 668398a71857b8cb0468b0a2abc4f8d390623e44 SHA256: 930c32b7db2606d44e6d8352fe5fef329d3f8cb596f8b51b410484059328c73a SHA512: 57608668d2e241ce3bf0c92159aa317d34cdd1f833a420bda63fdac38d449f80ce5fdb4b52e8547fa11a1c6ef28afab4c308915ac9907c6e4a0c342bf7103bef Homepage: https://cran.r-project.org/package=dendsort Description: CRAN Package 'dendsort' (Modular Leaf Ordering Methods for Dendrogram Nodes) An implementation of functions to optimize ordering of nodes in a dendrogram, without affecting the meaning of the dendrogram. A dendrogram can be sorted based on the average distance of subtrees, or based on the smallest distance value. These sorting methods improve readability and interpretability of tree structure, especially for tasks such as comparison of different distance measures or linkage types and identification of tight clusters and outliers. As a result, it also introduces more meaningful reordering for a coupled heatmap visualization. This method is described in "dendsort: modular leaf ordering methods for dendrogram representations in R", F1000Research 2014, 3: 177 . 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This model is developed in Ndifon Wilfred, Hilah Gal, Eric Shifrut, Rina Aharoni, Nissan Yissachar, Nir Waysbort, Shlomit Reich Zeliger, Ruth Arnon, and Nir Friedman (2012), , and results in a distribution for the counts that is a superposition of the binomial and negative binomial distribution. 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Observed variant frequencies can then be compared against expectation in a Poisson framework. denovolyzeR provides a suite of functions to implement these analyses for the interpretation of de novo variation in human disease. 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The package implements FDET (Fourier-based Density Equality Testing) and MDET (Moment-based Density Equality Testing), two new approaches introduced by the author. Both methods extend an earlier testing approach by Delicado (2007), "Functional k-sample problem when data are density functions" , which is referred to as DET (Density Equality Testing) in this package for clarity. FDET compares groups of densities based on their global shape using Fourier transforms, while MDET tests for differences in distributional moments. All methods are described in Anarat, Krutmann and Schwender (2025), "Testing for Differences in Extrinsic Skin Aging Based on Density Functions" (Submitted). 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Using the functions in the package, that analysis can be repeated using sample life histories, either synthesized from local seroprevalence data using other functions in this package (as in the manuscript) or from some other source. The package provides a vignette which walks through the analysis in the publication, as well as a function to generate a project skeleton for such an analysis. 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In addition to accounting for dependent censoring, it offers tools to adjust for unmeasured confounding factors. The implemented approaches allow users to estimate the dependency between survival time and dependent censoring time, based solely on observed survival data. For more details on the methods, refer to Deresa and Van Keilegom (2021) , Czado and Van Keilegom (2023) , Crommen et al. (2024) , Deresa and Van Keilegom (2024) , Rutten et al. (2024+) and Ding and Van Keilegom (2024). 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Parametric approaches are based on Emura & Konno (2012) and Emura & Pan (2017). A regression approach is based on Emura & Wang (2016). Quasi-independence tests are based on Emura & Wang (2010). Right-truncated data for Japanese male centenarians are given by Emura & Murotani (2015). 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In jargon, it is used to identify a task which is boring, banal, annoying, painful, frustrating and maybe even with a not so beautiful or rewarding result, just like the obstinate act of trying to challenge yourself in extracting pine nuts from a pine cone, provided that, in the end, you will find at least one inside it. Here you can find a backpack of functions to be used to solve small everyday problems of coding or analyzing (clinical) data, which would be normally solved using quick-and-dirty patches. You will be able to convert 'Hmisc' and 'rms' summary()es into data.frames ready to be rendered by 'pander' and 'knitr'. You can access easy-to-use wrappers to activate essential but useful progress bars (from 'progress') into your loops or functionals. Easy setup and control Telegram's bots (from 'telegram.bot') to send messages or to divert error messages to a Telegram's chat. 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Calculate descriptive statistical measures in budget data of municipalities across Europe, according to the 'OpenBudgets.eu' data model. There are functions for measuring central tendency and dispersion of amount variables along with their distributions and correlations and the frequencies of categorical variables for a given dataset. Also, can be used generally to other datasets, to extract visualization parameters, convert them to 'JSON' format and use them as input in a different graphical interface. 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Though there are other packages which does similar job but each of these are deficient in one form or other, in the measures generated, in treating numeric, character and date variables alike, no functionality to view these measures on a group level or the way the output is represented. Given the foremost role of the descriptive statistics in any of the exploratory data analysis or solution development, there is a need for a more constructive, structured and refined version over these packages. This is the idea behind the package and it brings together all the required descriptive measures to give an initial understanding of the data quality, distribution in a faster,easier and elaborative way.The function brings an additional capability to be able to generate these statistical measures on the entire dataset or at a group level. It calculates measures of central tendency (mean, median), distribution (count, proportion), dispersion (min, max, quantile, standard deviation, variance) and shape (skewness, kurtosis). Addition to these measures, it provides information on the data type, count on no. of rows, unique entries and percentage of missing entries. More importantly the measures are generated based on the data types as required by them,rather than applying numerical measures on character and data variables and vice versa. Output as a dataframe object gives a very neat representation, which often is useful when working with a large number of columns. It can easily be exported as csv and analyzed further or presented as a summary report for the data. 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Among others, these functions can be used for matching in observational studies with treated and control units, with cases and controls, in related settings with instrumental variables, and in discontinuity designs. Also, they can be used for the design of randomized experiments, for example, for matching before randomization. By default, 'designmatch' uses the 'highs' optimization solver, but its performance is greatly enhanced by the 'Gurobi' optimization solver and its associated R interface. For their installation, please follow the instructions at and . We have also included directions in the gurobi_installation file in the inst folder. 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Package: r-cran-devtreatrules Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 495 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-dyntxregime, r-cran-modelobj Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-devtreatrules_1.1.0-1.ca2004.1_all.deb Size: 403708 MD5sum: 5ca048f70e9cd99363340683f3874ef2 SHA1: e504d6496b18b0f1f0b60be81e3f3375905b013d SHA256: b7d597a6726fc30521dea9f4be7b997e9fecd07112c019815ed85f73c4271e63 SHA512: b19b16ac814b22bb9db3f7bd5ace89eb37eab196ded2bdd64b95084d5c885aaecaaf0fdaaf9d69f6bb41253af195a2b749fa6ab56660461cbae39ef9ad4f9a48 Homepage: https://cran.r-project.org/package=DevTreatRules Description: CRAN Package 'DevTreatRules' (Develop Treatment Rules with Observational Data) Develop and evaluate treatment rules based on: (1) the standard indirect approach of split-regression, which fits regressions separately in both treatment groups and assigns an individual to the treatment option under which predicted outcome is more desirable; (2) the direct approach of outcome-weighted-learning proposed by Yingqi Zhao, Donglin Zeng, A. John Rush, and Michael Kosorok (2012) ; (3) the direct approach, which we refer to as direct-interactions, proposed by Shuai Chen, Lu Tian, Tianxi Cai, and Menggang Yu (2017) . Please see the vignette for a walk-through of how to start with an observational dataset whose design is understood scientifically and end up with a treatment rule that is trustworthy statistically, along with an estimation of rule benefit in an independent sample. 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Contains functions to filter, process, save, visualize, and interpret differential correlations of identifier-pairs across the entire identifier space, or with respect to a particular set of identifiers (e.g., one). Also contains several functions to perform differential correlation analysis on clusters (i.e., modules) or genes. Finally, it contains functions to generate empirical p-values for the hypothesis tests and adjust them for multiple comparisons. Although the package was built with gene expression data in mind, it is applicable to other types of genomics data as well, in addition to being potentially applicable to data from other fields entirely. It is described more fully in the manuscript introducing it, freely available at . Package: r-cran-dgear Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-desctools Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dgear_0.1.4-1.ca2004.1_all.deb Size: 38312 MD5sum: 4667e51ccfbaf616930e6feb8d57c066 SHA1: 1ffd5705a1f05614ce3d35d2aa1540c7f3440195 SHA256: 94d7b70b2b800e09dc823d7d0248c288901b827ed1224e5fbd5b44a690300cdd SHA512: 706510e899ba6f967e42f12ccf7d3a5110ca96b1f1ea02707fa7e08cef60713fba2c008edf0eaded2d38f37f8cb9164da2af7b1db786dff70fc21bb244151235 Homepage: https://cran.r-project.org/package=DGEAR Description: CRAN Package 'DGEAR' (Differential Gene Expression Analysis with R) Analyses gene expression data derived from experiments to detect differentially expressed genes by employing the concept of majority voting with five different statistical models. 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In addition to the indicators, the 'DHS.rates' package estimates sampling errors indicators such as Standard Error (SE), Design Effect (DEFT), Relative Standard Error (RSE) and Confidence Interval (CI). The package is developed according to the DHS methodology of calculating the fertility indicators and the childhood mortality rates outlined in the "Guide to DHS Statistics" (Croft, Trevor N., Aileen M. J. Marshall, Courtney K. Allen, et al. 2018, ) and the DHS methodology of estimating the sampling errors indicators outlined in the "DHS Sampling and Household Listing Manual" (ICF International 2012, ). Package: r-cran-dhsage Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dhsage_0.1.0-1.ca2004.1_all.deb Size: 75100 MD5sum: 21b52ec5013cd4c5d30323cee60ee07f SHA1: 6d300666de4f14b8a179858c778df02324bcc2b5 SHA256: ca7186d51cc64cfc64f5b48834a4335b0defca4c42dfc8d5f67b2075d31823e9 SHA512: 50dc6764596e63305021b5b8e1c9ad00f22bb004f9ee4fbf0c504fc9c41b47cc7cbb1275b96b3410030c34fe079cc862e0761baa4d5002788d9e58c1c249e1fb Homepage: https://cran.r-project.org/package=dhsage Description: CRAN Package 'dhsage' (Reproductive Age Female Data of Various Demographic HealthSurveys) We provide 70 data sets of females of reproductive age from 19 Asian countries, ranging in age from 15 to 49. The data sets are extracted from demographic and health surveys that were conducted over an extended period of time. 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Look over a data frame with many numeric columns and a factor column. Package: r-cran-diario Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2393 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble, r-cran-httr2, r-cran-keyring Filename: pool/dists/focal/main/r-cran-diario_0.1.0-1.ca2004.1_all.deb Size: 147120 MD5sum: ef6546f44697561d2afed7492ec48eaa SHA1: 270b7017be6a18b612d5a862d8ec6942245c5e3c SHA256: 8f81183164c6284152da0abc2662778f0632c3e7960d0c3ff3ccc5c830e19af8 SHA512: b5bff347dba177acea1c9c2123d74546b1e042920ff2d3ad1f6b27fa303caba6093f12788b785b60fc721b4091077b6360446252318aec3590e1a64aa1921da1 Homepage: https://cran.r-project.org/package=diario Description: CRAN Package 'diario' ('R' Interface to the 'Diariodeobras' Application) Provides a set of functions for securely storing 'API' tokens and interacting with the system. 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Package: r-cran-diathor Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2779 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringdist, r-cran-vegan, r-cran-ggplot2, r-cran-tidyr, r-cran-data.table, r-cran-purrr, r-cran-stringr, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-diathor_0.1.5-1.ca2004.1_all.deb Size: 2608772 MD5sum: d6b30ee801f4021d50efbac55f5ddf54 SHA1: 9fb7bc71186924b4072ad9491a4c4b6a84a6ee5d SHA256: e86638c279959c6aa08ce269b7679e4fbb0ac5b6f787f6f0a6f74b4535d29747 SHA512: ca7d7383df8b4babfc614487f4046a4aaf66f1ee00aa171cafb40ab3c127aa4ecc46304649543a04f46987d8c37ca82cf2da02038fc2c91a2a80c1bf22726ad2 Homepage: https://cran.r-project.org/package=diathor Description: CRAN Package 'diathor' (Calculate Ecological Information and Diatom Based Indices) Calculate multiple biotic indices using diatoms from environmental samples. Diatom species are recognized by their species' name using a heuristic search, and their ecological data is retrieved from multiple sources. It includes number/shape of chloroplasts diversity indices, size classes, ecological guilds, and multiple biotic indices. It outputs both a dataframe with all the results and plots of all the obtained data in a defined output folder. - Sample data was taken from Nicolosi Gelis, Cochero & Gómez (2020, ). - The package uses the 'Diat.Barcode' database to calculate morphological and ecological information by Rimet & Couchez (2012, ),and the combined classification of guilds and size classes established by B-Béres et al. (2017, ). - Current diatom-based biotic indices include the DES index by Descy (1979) - EPID index by Dell'Uomo (1996, ISBN: 3950009002) - IDAP index by Prygiel & Coste (1993, ) - ID-CH index by Hürlimann & Niederhauser (2007) - IDP index by Gómez & Licursi (2001, ) - ILM index by Leclercq & Maquet (1987) - IPS index by Coste (1982) - LOBO index by Lobo, Callegaro, & Bender (2002, ISBN:9788585869908) - SLA by Sládeček (1986, ) - TDI index by Kelly, & Whitton (1995, ) - SPEAR(herbicide) index by Wood, Mitrovic, Lim, Warne, Dunlop, & Kefford (2019, ) - PBIDW index by Castro-Roa & Pinilla-Agudelo (2014) - DISP index by Stenger-Kovács et al. (2018, ) - EDI index by Chamorro et al. (2024, ) - DDI index by Álvarez-Blanco et al. (2013, ) - PDISE index by Kahlert et al. (2023, ). 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Package: r-cran-difconet Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gplots, r-cran-stringr, r-cran-data.table, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-difconet_1.0-4-1.ca2004.1_all.deb Size: 82640 MD5sum: 6ae483ea4737d205106a7fbb90b8754a SHA1: 2bba0bbb69d5d92cb01cbcb4a0d662fc4339dcd1 SHA256: 59347ce5a989708bfc679ecd1fbb8e4f52908d2dc94cdf35511a1ed7c85e1871 SHA512: 12ed2fb80c3fc412f8e3264c0e3458b9f8507a838e9d9d9cc4c693c6b355000c8b6b2ca92c90a321e9d62d3eeb80dc32140eec636616b9795201ed80e744205c Homepage: https://cran.r-project.org/package=difconet Description: CRAN Package 'difconet' (Differential Coexpressed Networks) Estimation of DIFferential COexpressed NETworks using diverse and user metrics. This package is basically used for three functions related to the estimation of differential coexpression. First, to estimate differential coexpression where the coexpression is estimated, by default, by Spearman correlation. For this, a metric to compare two correlation distributions is needed. The package includes 6 metrics. Some of them needs a threshold. A new metric can also be specified as a user function with specific parameters (see difconet.run). The significance is be estimated by permutations. Second, to generate datasets with controlled differential correlation data. This is done by either adding noise, or adding specific correlation structure. Third, to show the results of differential correlation analyses. Please see for further information. Package: r-cran-diffcor Architecture: all Version: 0.8.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-diffcor_0.8.4-1.ca2004.1_all.deb Size: 66648 MD5sum: 22eafccca7643d1425e8ef6e76a9eb47 SHA1: 652957a8422c36427c8a866800856fe4c1f549a0 SHA256: 14d09bc70d1ca77724214946431ab5bc0968ca77ccf1f142c8f4e0551897b523 SHA512: 1ee8ce9069e2e4afb951a544602ab1c7958e66cb747bd67dfb31edd2949f43560651b4ca99350bd5f788c84542fd6836fa5e25d701ee4d68d05dd361e1d0360e Homepage: https://cran.r-project.org/package=diffcor Description: CRAN Package 'diffcor' (Fisher's z-Tests Concerning Differences Between Correlations) Computations of Fisher's z-tests concerning different kinds of correlation differences. The 'diffpwr' family entails approaches to estimating statistical power via Monte Carlo simulations. Important to note, the Pearson correlation coefficient is sensitive to linear association, but also to a host of statistical issues such as univariate and bivariate outliers, range restrictions, and heteroscedasticity (e.g., Duncan & Layard, 1973 ; Wilcox, 2013 ). Thus, every power analysis requires that specific statistical prerequisites are fulfilled and can be invalid if the prerequisites do not hold. To this end, the 'bootcor' family provides bootstrapping confidence intervals for the incorporated correlation difference tests. Package: r-cran-diffcorr Architecture: all Version: 0.4.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 846 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fdrtool, r-cran-igraph, r-bioc-multtest, r-bioc-pcamethods Suggests: r-cran-knitr, r-cran-prettydoc, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-diffcorr_0.4.5-1.ca2004.1_all.deb Size: 725316 MD5sum: a5298b2f987ba23505489e4909ae61ed SHA1: d544143d1187e621547dc3c94ab0c7ca9fdb112a SHA256: 81abb7c7f0c50474b7d46fbd75a042cb1f9a769daef4796f72a97a09dd9143eb SHA512: 75936bb3988cad94d0da8f8e859e3c1305c56bac2258ca7d82e8403e9b6df97c46beacf6d747c2b8d29885641a1794c2c3a14a741f98fdacc8170f3f56802e3f Homepage: https://cran.r-project.org/package=DiffCorr Description: CRAN Package 'DiffCorr' (Analyzing and Visualizing Differential Correlation Networks inBiological Data) A method for identifying pattern changes between 2 experimental conditions in correlation networks (e.g., gene co-expression networks), which builds on a commonly used association measure, such as Pearson's correlation coefficient. This package includes functions to calculate correlation matrices for high-dimensional dataset and to test differential correlation, which means the changes in the correlation relationship among variables (e.g., genes and metabolites) between 2 experimental conditions. Package: r-cran-diffdepprop Architecture: all Version: 0.1-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gee, r-cran-rootsolve, r-cran-propcis Filename: pool/dists/focal/main/r-cran-diffdepprop_0.1-9-1.ca2004.1_all.deb Size: 72216 MD5sum: ced256836c4edd0f429a43463bd6872d SHA1: 32ff1af4286aeea2519fc008c1a06e438561800d SHA256: 863f5f12def3e3ae22f15b120dd73ee13fd3889ff5d44a660d14d3304563b204 SHA512: 807fdb3679a9cd16fee2a55570a67b62df8361ee85a539c835ab9e80bd6b7b5552501c3c76ead3e55c9958feeef2faa98ffc088d83fae61534713a5911b5392d Homepage: https://cran.r-project.org/package=diffdepprop Description: CRAN Package 'diffdepprop' (Calculates Confidence Intervals for two Dependent Proportions) The package includes functions to calculate confidence intervals for the difference of dependent proportions. There are two functions implemented to edit the data (dichotomising with the help of cutpoints, counting accordance and discordance of two tests or situations). For the calculation of the confidence intervals entries of the fourfold table are needed. Package: r-cran-diffdf Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 239 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble, r-cran-assertthat Suggests: r-cran-testthat, r-cran-lubridate, r-cran-knitr, r-cran-rmarkdown, r-cran-purrr, r-cran-dplyr, r-cran-stringi, r-cran-stringr, r-cran-devtools, r-cran-covr, r-cran-bit64 Filename: pool/dists/focal/main/r-cran-diffdf_1.1.1-1.ca2004.1_all.deb Size: 133200 MD5sum: 726a695fce04ffe19b030e52a832b9f2 SHA1: 877a81807211f94b0accef4aff5369181887bd55 SHA256: aac969e6c33f5de8b2f8661b6c12878d3f80fc68263dc0b60d8197a92935e57e SHA512: 7250a13adbb75601cfca27f0caefb6597bfffb2c077888bab80577f9a3bb240a4f5a483c7b9dfecd27ac850f5b38b8c05a1d18c0e88719b51bab4d0b52496c81 Homepage: https://cran.r-project.org/package=diffdf Description: CRAN Package 'diffdf' (Dataframe Difference Tool) Functions for comparing two data.frames against each other. The core functionality is to provide a detailed breakdown of any differences between two data.frames as well as providing utility functions to help narrow down the source of problems and differences. Package: r-cran-diffdfs Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-arrow, r-cran-dplyr, r-cran-janitor, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-diffdfs_0.9.0-1.ca2004.1_all.deb Size: 14968 MD5sum: e0259612df50044a94fbf09590e53e22 SHA1: ba0cdbb4c1f4ef169f131f26b4467733efc8e853 SHA256: 1044ecc222e500dd09f91822d1118d5fbf29f6c8823c252166e20cde5a5f06dc SHA512: c58ab29f5ceea2576a135210b078ecf599b37aa63c444a0f1580cd62800e05beea8bc2c739a019290fd3aefe17cc7d0c297c70150b1dd05d9d42b855271bbe6a Homepage: https://cran.r-project.org/package=diffdfs Description: CRAN Package 'diffdfs' (Compute the Difference Between Data Frames) Shows you which rows have changed between two data frames with the same column structure. Useful for diffing slowly mutating data. Package: r-cran-diffee Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4074 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-pcapp Filename: pool/dists/focal/main/r-cran-diffee_1.1.0-1.ca2004.1_all.deb Size: 4129624 MD5sum: edae5bb9ad73852cfb08a5bfe54480fd SHA1: 74fb556b1bb81c881e0da148e9de1cc9f50fe8ee SHA256: 72a336ea24fe3164fc08d0a1774ecd9bf17736f34279deef1dea7be5b1136bc8 SHA512: 9bbeaa5de6fd9d0f83a0658e524187571bb684d63e8a64820584033fa68b7ac59282966dfdbe825744c1bc43394f63aa75f0e325058ac85d98c43c29d4400d04 Homepage: https://cran.r-project.org/package=diffee Description: CRAN Package 'diffee' (Fast and Scalable Learning of Sparse Changes in High-DimensionalGaussian Graphical Model Structure) This is an R implementation of Fast and Scalable Learning of Sparse Changes in High-Dimensional Gaussian Graphical Model Structure (DIFFEE). The DIFFEE algorithm can be used to fast estimate the differential network between two related datasets. For instance, it can identify differential gene network from datasets of case and control. By performing data-driven network inference from two high-dimensional data sets, this tool can help users effectively translate two aggregated data blocks into knowledge of the changes among entities between two Gaussian Graphical Model. Please run demo(diffeeDemo) to learn the basic functions provided by this package. For further details, please read the original paper: Beilun Wang, Arshdeep Sekhon, Yanjun Qi (2018) . Package: r-cran-diffenrich Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1349 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-here, r-cran-rlang, r-cran-stringr, r-cran-reshape2, r-cran-ggnewscale Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-diagram Filename: pool/dists/focal/main/r-cran-diffenrich_0.1.2-1.ca2004.1_all.deb Size: 1007332 MD5sum: 0b51acf735939657a70824ad56633742 SHA1: d4bba63e6aa4b4613dc26bb5aee5240a2b2e7be0 SHA256: 563aa126070e1c6ee7fe0d9e0bb18f5adebdf1e4e707765d67e52616d8f859ca SHA512: 76a24599036ad72febde582314fe9e4be017837e65f7a36cdd4732962dde306d40e900416116b2656ffec0cef4af6d0be644d66163660af5346cda19bae5eeea Homepage: https://cran.r-project.org/package=diffEnrich Description: CRAN Package 'diffEnrich' (Given a List of Gene Symbols, Performs Differential EnrichmentAnalysis) Compare functional enrichment between two experimentally-derived groups of genes or proteins (Peterson, DR., et al.(2018)) . Given a list of gene symbols, 'diffEnrich' will perform differential enrichment analysis using the Kyoto Encyclopedia of Genes and Genomes (KEGG) REST API. This package provides a number of functions that are intended to be used in a pipeline. Briefly, the user provides a KEGG formatted species id for either human, mouse or rat, and the package will download and clean species specific ENTREZ gene IDs and map them to their respective KEGG pathways by accessing KEGG's REST API. KEGG's API is used to guarantee the most up-to-date pathway data from KEGG. Next, the user will identify significantly enriched pathways from two gene sets, and finally, the user will identify pathways that are differentially enriched between the two gene sets. In addition to the analysis pipeline, this package also provides a plotting function. Package: r-cran-diffeqr Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 11067 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-juliacall Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-diffeqr_2.1.0-1.ca2004.1_all.deb Size: 500576 MD5sum: b2e512a70a2cc731b415e0c695965be3 SHA1: 932addba166ea588568773662b15d5b23567ba3e SHA256: c36dfebd95695f5c7a751add32dd963c009a8a2a58b7b95036947aa7055d7692 SHA512: 8d1c117bea7927e84c5f9c18e9fc7c8b980b1ccf0f1aeef3dd67c55cc73045b1d9aafe41d71983098b2f42d23a7eb4850ad4c26835cbe54899936bd55820b48d Homepage: https://cran.r-project.org/package=diffeqr Description: CRAN Package 'diffeqr' (Solving Differential Equations (ODEs, SDEs, DDEs, DAEs)) An interface to 'DifferentialEquations.jl' from the R programming language. It has unique high performance methods for solving ordinary differential equations (ODE), stochastic differential equations (SDE), delay differential equations (DDE), differential-algebraic equations (DAE), and more. Much of the functionality, including features like adaptive time stepping in SDEs, are unique and allow for multiple orders of magnitude speedup over more common methods. Supports GPUs, with support for CUDA (NVIDIA), AMD GPUs, Intel oneAPI GPUs, and Apple's Metal (M-series chip GPUs). 'diffeqr' attaches an R interface onto the package, allowing seamless use of this tooling by R users. For more information, see Rackauckas and Nie (2017) . Package: r-cran-differ Architecture: all Version: 0.0-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1194 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-terra, r-cran-ggplot2, r-cran-tidyr, r-cran-tidyselect, r-cran-rlang, r-cran-raster Filename: pool/dists/focal/main/r-cran-differ_0.0-8-1.ca2004.1_all.deb Size: 361024 MD5sum: 2328687eacdc6bbbafb34fd6fb386e8b SHA1: 0f4c17072335bc1238f274d41391703628ed8617 SHA256: 7bb42de3acae0ee60c36d41c345c968a8862bea9df9520ae7f27980c0f1ded97 SHA512: bbc84c9c15b8e8effc8cda7454b74387fc6312edf632fb304d3c11cdbec066102bfafc4b7c601bd872cfa087b54e45c0faf574205206114ccbff7b4a985aa9de Homepage: https://cran.r-project.org/package=diffeR Description: CRAN Package 'diffeR' (Metrics of Difference for Comparing Pairs of Maps or Pairs ofVariables) Metrics of difference for comparing pairs of variables or pairs of maps representing real or categorical variables at original and multiple resolutions. Package: r-cran-differentes Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-boolnet, r-cran-dot, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-differentes_0.3.2-1.ca2004.1_all.deb Size: 40632 MD5sum: 7852ffee68ebd33b0278da380231de2f SHA1: 4d2242106cbf96a2e037c0266ab9f11ea5c08b05 SHA256: 1d56cdc9f502303e142881044c34707153d4ed40f7f9f5347ccacba2b6b880c4 SHA512: 1d4da34f6e2dde2c763c3eef772ab6ff989c605faf8741a13c154b3eaf42e830d5d95e2b77a4c46e09147bd16e9719288d3f1b688dda924bd4ec89026da394fe Homepage: https://cran.r-project.org/package=diffeRenTES Description: CRAN Package 'diffeRenTES' (Computation of TES-Based Cell Differentiation Trees) Computes the ATM (Attractor Transition Matrix) structure and the tree-like structure describing the cell differentiation process (based on the Threshold Ergodic Set concept introduced by Serra and Villani), starting from the Boolean networks with synchronous updating scheme of the 'BoolNet' R package. TESs (Threshold Ergodic Sets) are the mathematical abstractions that represent the different cell types arising during ontogenesis. TESs and the powerful model of biological differentiation based on Boolean networks to which it belongs have been firstly described in "A Dynamical Model of Genetic Networks for Cell Differentiation" Villani M, Barbieri A, Serra R (2011) A Dynamical Model of Genetic Networks for Cell Differentiation. PLOS ONE 6(3): e17703. Package: r-cran-diffmeshgp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-diffmeshgp_0.1.0-1.ca2004.1_all.deb Size: 20240 MD5sum: 505544642ddb9844d988bab6164a900b SHA1: 4a6f2c6f2920d80aa79b720a00ae6f4e9d0af0cc SHA256: 8dc78f12731fe7533498a81a361706268171019efe528b5a5842b973ca26db2e SHA512: 001eabae7d41d90d3ce88b24db34ba786076eaa288f78b1ba215edd2147ae7b17cf855a9d3496027c4fe5b7eafe21de562dd86d5c9a17e04969875860c7a2c1d Homepage: https://cran.r-project.org/package=diffMeshGP Description: CRAN Package 'diffMeshGP' (Multi-Fidelity Computer Experiments Using the Tuo-Wu-Yu Model) This R function implements the nonstationary Kriging model proposed by Tuo, Wu and Yu (2014) for analyzing multi-fidelity computer outputs. This function computes the maximum likelihood estimates for the model parameters as well as the predictive means and variances of the exact solution (i.e., the conceptually highest fidelity). Package: r-cran-diffnet Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-igraph, r-cran-assertthat, r-cran-mass Filename: pool/dists/focal/main/r-cran-diffnet_1.0.2-1.ca2004.1_all.deb Size: 28324 MD5sum: 836fe419a43e67ab80740d4f5e0b9e56 SHA1: c6e196f9419ac92f19ed03e1fa09c37ec2be529b SHA256: 11e90d47fa28fabcf82f84f777750fbc5936b615458b2c23dfe7335bf1e0daa6 SHA512: 6753347189d670fbb9e961911a885101957dee34641baf4a0290479d6d3143311e9b4ba34fab10c69c8ad506cb5955aa14f9f2be7a674658fee9d2beb46dd057 Homepage: https://cran.r-project.org/package=DiffNet Description: CRAN Package 'DiffNet' (Identifying Significant Node Scores using Network DiffusionAlgorithm) Designed for network analysis, leveraging the personalized PageRank algorithm to calculate node scores in a given graph. This innovative approach allows users to uncover the importance of nodes based on a customized perspective, making it particularly useful in fields like bioinformatics, social network analysis, and more. Package: r-cran-diffpriv Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 885 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gsl Suggests: r-cran-randomnames, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-diffpriv_0.4.2-1.ca2004.1_all.deb Size: 703600 MD5sum: 37011e9e4196c374bdc91521f5b88327 SHA1: f8af8581fdf85325103f57ae63867549ce34f17f SHA256: f4b0f4aad435dc5c073b9d0dcf7cdd15b1b70ecbdd126c60b8ad2791e370b7d8 SHA512: ab9aa7e9f962e22e62117564b71f8b52c42c41db9bf16e348d990b606a9d2123c121046c58311e2286d112793ea9cb44844deb83eb6ed4f0ec28d783bba61541 Homepage: https://cran.r-project.org/package=diffpriv Description: CRAN Package 'diffpriv' (Easy Differential Privacy) An implementation of major general-purpose mechanisms for privatizing statistics, models, and machine learners, within the framework of differential privacy of Dwork et al. (2006) . Example mechanisms include the Laplace mechanism for releasing numeric aggregates, and the exponential mechanism for releasing set elements. A sensitivity sampler (Rubinstein & Alda, 2017) permits sampling target non-private function sensitivity; combined with the generic mechanisms, it permits turn-key privatization of arbitrary programs. 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The end result is similar to 'DataThief' and other other programs that 'digitize' published plots or graphs. 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This package provides S4 classes and methods to compute, extract, summarize and visualize results of multivariate data analysis. It also includes methods for partial bootstrap validation described in Greenacre (1984, ISBN: 978-0-12-299050-2) and Lebart et al. (2006, ISBN: 978-2-10-049616-7). 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This package uses the multivariate and repeated measures Diversity-Interactions (DI) methods developed by Kirwan et al. (2009) , Finn et al. (2013) , and Dooley et al. (2015) . 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'DImodelsVis' provides novel visualisations tools to aid with the interpretation of models fit to compositional data. All visualisations in the package are created using the 'ggplot2' plotting framework and can be extended like every other 'ggplot' object. 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You can choose to add from 1 to 3 shocks), Guseo-Guidolin model and Variable Potential Market model, and UCRCD model. The Bass model consists of a simple differential equation that describes the process of how new products get adopted in a population, the Generalized Bass model is a generalization of the Bass model in which there is a "carrier" function x(t) that allows to change the speed of time sliding. In some real processes the reachable potential of the resource available in a temporal instant may appear to be not constant over time, because of this we use Variable Potential Market model, in which the Guseo-Guidolin has a particular specification for the market function. The UCRCD model (Unbalanced Competition and Regime Change Diachronic) is a diffusion model used to capture the dynamics of the competitive or collaborative transition. 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Sporadic copy number alterations occur randomly throughout the genome, whereas recurrent alterations are observed in the same genomic region across multiple independent samples, perhaps because they provide a selective growth advantage. Here we use cyclic shift permutations to identify recurrent copy number alterations in a single cohort or recurrent copy number differences in two cohorts based on a common set of genomic markers. Additional functionality is provided to perform downstream analyses, including the creation of summary files and graphics. DiNAMIC.Duo builds upon the original DiNAMIC package of Walter et al. (2011) and leverages the theory developed in Walter et al. (2015) . An article describing DiNAMIC.Duo by Walter et al. (2022) can be found at . Package: r-cran-dinamic Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 178 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-dinamic_1.0.1-1.ca2004.1_all.deb Size: 136232 MD5sum: 678460afd94f44887f9370aeeb33df71 SHA1: 7fed60bb3e13069d46cd0b9d54ba32b2a5d49ef0 SHA256: 562d2aa35fe4f968493f0dae3c4df2f47200cf04f83f75543b5918325217347f SHA512: ca1a011b4c21b4c324df5f117ff071c95317d65f294f911eb00f8cc2e2f74ea7f592125e98b75a7206def3e839342c30fb1aa69374f3f85e32ede0bb372422de Homepage: https://cran.r-project.org/package=dinamic Description: CRAN Package 'dinamic' (A Method to Analyze Recurrent DNA Copy Number Aberrations inTumors) In tumor tissue, underlying genomic instability can lead to DNA copy number alterations, e.g., copy number gains or losses. Sporadic copy number alterations occur randomly throughout the genome, whereas recurrent alterations are observed in the same genomic region across multiple independent samples, perhaps because they provide a selective growth advantage. This package implements the DiNAMIC procedure for assessing the statistical significance of recurrent DNA copy number aberrations (Bioinformatics (2011) 27(5) 678 - 685). 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For a decomposition on multiple variables a regression based technique can be used (see Fields (2003) ). Recentered influence function regression for marginal effects of the (income or wealth) distribution (see Firpo et al. (2009) ). Some extensions to inequality functions to handle weights and/or missings. 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Basic arithmetic operations (such as adding and subtracting) are supported, as well as formatting and converting to and from standard R date types. 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Using the framework of linear model-based differential expression comparisons ('limma' package), time-course expression patterns for genes in different conditions are compared and analyzed for significant pattern changes. For reference, see: Greenham K, Sartor RC, Zorich S, Lou P, Mockler TC and McClung CR. eLife. 2020 Sep 30;9(4). . Package: r-cran-diphiseq Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-diphiseq_0.2.0-1.ca2004.1_all.deb Size: 54776 MD5sum: 901dfa070cdc4c2ba30e9a4b05a67d79 SHA1: 3d20b476c21866fcce96f94f8293eee7dc89b521 SHA256: fb5be03bf8ea3e16214473608bd953ba277e9eef989473d5da64bd139ec2321f SHA512: 6ccd9ccb3e7d5d26620d6cc19245f2bdd8d24d310773a8f906d26fee9dde1eec4787c1216b3f6cfe6a88dbbe43822a978d9d928059c9975a6d138e4a51d56dac Homepage: https://cran.r-project.org/package=DiPhiSeq Description: CRAN Package 'DiPhiSeq' (Robust Tests for Differential Dispersion and DifferentialExpression in RNA-Sequencing Data) Implements the algorithm described in Jun Li and Alicia T. Lamere, "DiPhiSeq: Robust comparison of expression levels on RNA-Seq data with large sample sizes" (Unpublished). Detects not only genes that show different average expressions ("differential expression", DE), but also genes that show different diversities of expressions in different groups ("differentially dispersed", DD). DD genes can be important clinical markers. 'DiPhiSeq' uses a redescending penalty on the quasi-likelihood function, and thus has superior robustness against outliers and other noise. Updates from version 0.1.0: (1) Added the option of using adaptive initial value for phi. (2) Added a function for estimating the proportion of outliers in the data. (3) Modified the input parameter names for clarity, and modified the output format for the main function. Package: r-cran-diproperm Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 394 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-usethis, r-cran-ggplot2, r-cran-lemon, r-cran-gridextra, r-cran-dplyr, r-cran-dwdlarger, r-cran-e1071, r-cran-matrix, r-cran-sparsem, r-cran-sampling Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-diproperm_0.2.0-1.ca2004.1_all.deb Size: 296132 MD5sum: 61a316b4cfa73f5393bccda547396f15 SHA1: 145244eb575ea2f9b3b9958033b4bbde5e8c1afb SHA256: 3d9c0182f4ffb887b6482d07452d5f738f25f538ae07da941b3387e847e3e462 SHA512: 2b32a6cd74ea5ea59650b9699d42ecb772355fc7ec013c2e0707f1bdb355716d8ab41eb1c4bfa6c5bc6964cc29bf8a2998e16213eaf5df2f44a15ffde28695b1 Homepage: https://cran.r-project.org/package=diproperm Description: CRAN Package 'diproperm' (Conduct Direction-Projection-Permutation Tests and Display Plots) Conducts a direction-projection-permutation test and displays diagnostic plots to facilitate the visual assessment of the test. See Wei et al. (2016) and Lam et al. (2018) for more details. 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Many directional penalties can also be viewed as Lagrange multipliers, pushing a matched sample in the direction of satisfying a linear constraint that would not be satisfied without penalization. Yu and Rosenbaum (2019) . 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DIPW relies on the propensity score following a sparse logistic regression model, but the regression curves are not required to be estimable. Despite this, our package also allows the users to estimate the regression curves and take the estimated curves as input to our methods. Details of the methodology can be found in Yuhao Wang and Rajen D. Shah (2020) "Debiased Inverse Propensity Score Weighting for Estimation of Average Treatment Effects with High-Dimensional Confounders" . The package relies on the optimisation software 'MOSEK' which must be installed separately; see the documentation for 'Rmosek'. 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This package lets you recursively traverse a directory and convert its contents into a JSON object, making it easier to import code base from file systems into large language models. 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Hypothesis testing, discriminant and regression analysis, MLE of distributions and more are included. The standard textbook for such data is the "Directional Statistics" by Mardia, K. V. and Jupp, P. E. (2000). Other references include: a) Paine J.P., Preston S.P., Tsagris M. and Wood A.T.A. (2018). "An elliptically symmetric angular Gaussian distribution". Statistics and Computing 28(3): 689-697. . b) Tsagris M. and Alenazi A. (2019). "Comparison of discriminant analysis methods on the sphere". Communications in Statistics: Case Studies, Data Analysis and Applications 5(4):467--491. . c) Paine J.P., Preston S.P., Tsagris M. and Wood A.T.A. (2020). "Spherical regression models with general covariates and anisotropic errors". Statistics and Computing 30(1): 153--165. . d) Tsagris M. and Alenazi A. (2024). "An investigation of hypothesis testing procedures for circular and spherical mean vectors". Communications in Statistics-Simulation and Computation, 53(3): 1387--1408. . e) Yu Z. and Huang X. (2024). A new parameterization for elliptically symmetric angular Gaussian distributions of arbitrary dimension. Electronic Journal of Statistics, 18(1): 301--334. . f) Tsagris M. and Alzeley O. (2024). "Circular and spherical projected Cauchy distributions: A Novel Framework for Circular and Directional Data Modeling". Australian & New Zealand Journal of Statistics (Accepted for publication). . g) Tsagris M., Papastamoulis P. and Kato S. (2024). "Directional data analysis: spherical Cauchy or Poisson kernel-based distribution". Statistics and Computing (Accepted for publication). . 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Compare it with the existing EM (Expectation-Maximization)-like methods. Then, distribute and process five methods and compare them, achieving good performance in convergence speed and result quality.The philosophy of the package is described in Guo G. (2022) . 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Although the calculation of AUC is standardized, there are differences in AUC based on some assumptions. For example, Myerson et al. (2001) assumed that (with delay discounting data) a researcher would impute an indifference point at zero delay equal to the value of the larger, later outcome. However, this practice is not clearly followed. This imputed zero-delay indifference point plays an important role in log and ordinal versions of AUC. Ordinal and log versions of AUC are described by Borges et al. (2016). The package can calculate all three versions of AUC [and includes a new version: IHS(AUC)], impute indifference points when x = 0, calculate ordinal AUC in the case of Halton sampling of x-values, and account for probability discounting AUC. 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The package contains functions to calculate discordance and concordance score for homologous gene pairs, identify concordantly or discordantly regulated transcriptional modules and visualize the results. It is intended for analysis of transcriptional data. 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Contains data restructuring functions and functions for generating biometrically informed data for kin pairs. See [Garrison and Rodgers, 2016 ], [Sims, Trattner, and Garrison, 2024 ] for empirical examples, and Garrison and colleagues for theoretical work . Package: r-cran-discos Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2068 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-cvxr, r-cran-pracma, r-cran-rdpack, r-cran-evmix, r-cran-extremestat, r-cran-mass Suggests: r-cran-haven, r-cran-latex2exp, r-cran-knitr, r-cran-rmarkdown, r-cran-maps, r-cran-testthat, r-cran-quadprog Filename: pool/dists/focal/main/r-cran-discos_0.1.1-1.ca2004.1_all.deb Size: 2015008 MD5sum: 3d9f6884bba820eb1deedf21cf1ecccb SHA1: 08c4ab4bc190d5530fbe95ddb9e5b0de15277e76 SHA256: e6a60ccf8e0894b4a7111c7fce9ca28e2e29c84b551fc5d23b99d5a6e6f6761f SHA512: 0eef8f5cd15f42e3c726da9a0d6e08dd0d9b557a0d8d0e1b0bfe4b400dfb8f9513396c9175d7d9b81da52a1d5cfae85321d67f54dd50e6f0a59af08bb2f39c6c Homepage: https://cran.r-project.org/package=DiSCos Description: CRAN Package 'DiSCos' (Distributional Synthetic Controls Estimation) The method of synthetic controls is a widely-adopted tool for evaluating causal effects of policy changes in settings with observational data. In many settings where it is applicable, researchers want to identify causal effects of policy changes on a treated unit at an aggregate level while having access to data at a finer granularity. This package implements a simple extension of the synthetic controls estimator, developed in Gunsilius (2023) , that takes advantage of this additional structure and provides nonparametric estimates of the heterogeneity within the aggregate unit. The idea is to replicate the quantile function associated with the treated unit by a weighted average of quantile functions of the control units. The package contains tools for aggregating and plotting the resulting distributional estimates, as well as for carrying out inference on them. Package: r-cran-discoursegt Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 515 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggally, r-cran-ggplot2, r-cran-ggrepel, r-cran-igraph, r-cran-network Suggests: r-cran-biocmanager, r-cran-formatr, r-cran-ggpubr, r-cran-knitr, r-cran-markdown, r-cran-r.rsp, r-cran-rmarkdown, r-cran-rticles, r-cran-sna, r-cran-testthat Filename: pool/dists/focal/main/r-cran-discoursegt_1.2.0-1.ca2004.1_all.deb Size: 433232 MD5sum: 7c6de7e149cf9ad3b7080a4873df73f2 SHA1: e776f2bd3433f1dbee985fc5188874167ff8b24c SHA256: d5d8e5d4e49ad8412e81799c61779a511d090272cb3153ecf0a4c1bc744820fc SHA512: 982538f348dbe45892f566c391b382f84b0efff23aba23ac8d9dd619639cce1a4039b1e0a7fe2f9ff2d416ed9544ecf9ff17ad58ae0ca313f47092cc0f6c4c96 Homepage: https://cran.r-project.org/package=discourseGT Description: CRAN Package 'discourseGT' (Analyze Group Patterns using Graph Theory in EducationalSettings) Analyzes group patterns using discourse analysis data with graph theory mathematics. Takes the order of which individuals talk and converts it to a network edge and weight list. Returns the density, centrality, centralization, and subgroup information for each group. Based on the analytical framework laid out in Chai et al. (2019) . Package: r-cran-discover Architecture: all Version: 3.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 506 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dt, r-cran-rlang, r-cran-golem, r-cran-shiny, r-cran-config, r-cran-plotly, r-cran-loader, r-cran-cluster, r-cran-ggplot2, r-cran-shinyjs, r-cran-shinyace, r-cran-ggdendro, r-cran-echarts4r, r-cran-htmltools, r-cran-factominer, r-cran-htmlwidgets, r-cran-colourpicker, r-cran-shinydashboard, r-cran-shinycustomloader, r-cran-shinydashboardplus Filename: pool/dists/focal/main/r-cran-discover_3.1.7-1.ca2004.1_all.deb Size: 443212 MD5sum: af788255f1f81e81fc7c929b663d4c53 SHA1: 4c2e4b30bb1fd5ad1e037f51c836cc5393fc9699 SHA256: 91c636224f02117e338bf8a60646d98b38a4ee7aa82caf55e8911a5c52822bf0 SHA512: 6119f507ccabe6b53c3261b10d3864f4ccb01be1bc774b644bf106774b8b8784a1878909ccdde0809d235bbfc7f2368d4f899f81b8b999206317cad1540eabbf Homepage: https://cran.r-project.org/package=discoveR Description: CRAN Package 'discoveR' (Exploratory Data Analysis System) Performs an exploratory data analysis through a 'shiny' interface. It includes basic methods such as the mean, median, mode, normality test, among others. It also includes clustering techniques such as Principal Components Analysis, Hierarchical Clustering and the K-Means Method. 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The function looks for terms in the title and abstract that also exist in other fields and highlights these as needing attention. suggest_keywords() - this function takes a full text document and produces a list of unigrams, bigrams and trigrams (1-, 2- or 2-word phrases) present in the full text after removing stop words (words with a low utility in natural language processing) that do not occur in the title or abstract that may be suitable candidates for keywords. suggest_title() - this function takes a full text document and produces a list of the most frequently used unigrams, bigrams and trigrams after removing stop words that do not occur in the abstract or keywords that may be suitable candidates for title words. check_title() - this function carries out a number of sub tasks: 1) it compares the length (number of words) of the title with the mean length of titles in major bibliographic databases to assess whether the title is likely to be too short; 2) it assesses the proportion of stop words in the title to highlight titles with low utility in search engines that strip out stop words; 3) it compares the title with a given sample of record titles from an .ris import and calculates a similarity score based on phrase overlap. This highlights the level of uniqueness of the title. This version of the package also contains functions currently in a non-CRAN package called 'litsearchr' . Package: r-cran-discovr Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5096 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-learnr, r-cran-ggplot2, r-cran-glue, r-cran-scales Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-discovr_0.2.2-1.ca2004.1_all.deb Size: 2074292 MD5sum: 399ae130fe98ece1357faa449b2df956 SHA1: 8ec0b86d43c600d9a915cdf42c3d0f945fdb173b SHA256: c5851463a169d1806adb15f1f7384b7449ca9e8e9ca5d4edabc6ce91f1846b48 SHA512: 217dc21ee8df9a532c20ddcbc3af75c889acf12ae39055e6383a94837ac1a1a83db84b8ef9f08cfe628b29bd0820122c8db61b8860474d6d3969365c6bf902a6 Homepage: https://cran.r-project.org/package=discovr Description: CRAN Package 'discovr' (Interactive Tutorials and Data for "Discovering Statistics UsingR and RStudio") Interactive 'R' tutorials and datasets for the textbook Field (2026), "Discovering Statistics Using R and RStudio", . Interactive tutorials cover general workflow in 'R' and 'RStudio', summarizing data, visualizing data, fitting models and bias, correlation, the general linear model (GLM), moderation, mediation, missing values, comparing means using the GLM (analysis of variance), comparing adjusted means (analysis of covariance), factorial designs, repeated measures designs, exploratory factor analysis (EFA). There are no functions, only datasets and interactive tutorials. Package: r-cran-discretedatasets Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1601 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate Filename: pool/dists/focal/main/r-cran-discretedatasets_0.1.2-1.ca2004.1_all.deb Size: 1464168 MD5sum: a8bc225271a15390f8fd9dfc37fb1c38 SHA1: 10d0c9947e7ff0fb13f4b31a856cc57540db7d21 SHA256: 6c474a00ee7aeed0321dbf0fe00e2f8e294470acb772aee73b082eb0da5b4573 SHA512: cf1ac71e10188acae784e69c86822dd0190134077288a1a7d8356787c023c29da99eb6d003b9c8aa607fe46651c788abd457f808ae3520ae3375a172f1929951 Homepage: https://cran.r-project.org/package=DiscreteDatasets Description: CRAN Package 'DiscreteDatasets' (Example Data Sets for Use with Discrete Statistical Tests) Provides several data sets for use with discrete statistical tests and discrete multiple testing procedures. Some of them are also available as a four-column version, so that each row represents a 2x2 table. 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This approach and accompanying software is designed to be used with the output of any clustering algorithm and with distances specifically designed for categorical (i.e. multiple choice) or ordinal survey response data. 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Package: r-cran-discretemtp Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-discretemtp_0.1-2-1.ca2004.1_all.deb Size: 41960 MD5sum: dc76c437e64ade927998a27519b7a7cd SHA1: dc5ea85e8069f11f959559215a37cf1b339b78db SHA256: 5d44bda74ce1a6e9d5857b7f573e4928e44fe9d7fe7f0867aad953209a001f95 SHA512: b8998f0d24b031f2b1e0bb3ed4f3dd4fce0a0465b8703038326a00e5289dae02538fb7b844c73d9ea3e686a1ed2bd925790b75f5b5d3a0be60cd1cd9b6d5e8b3 Homepage: https://cran.r-project.org/package=discreteMTP Description: CRAN Package 'discreteMTP' (Multiple testing procedures for discrete test statistics) Multiple testing procedures for discrete test statistics, that use the known discrete null distribution of the p-values for simultaneous inference. Package: r-cran-discreteqvalue Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-coin, r-cran-exactranktests Filename: pool/dists/focal/main/r-cran-discreteqvalue_1.1-1.ca2004.1_all.deb Size: 35684 MD5sum: d4a8b80f04cfb2ea169ec4f7f55d8535 SHA1: 1846cde581bb3ed34f61fb22a8b6beff141b010e SHA256: 49d909f24afce604021c194e48d88ab4ddb1d4eb8336f68a03ef5f826265aca1 SHA512: 3637d48e96b72be33344ba0fd6aaacaea91a93973c0482ca07a54f101b9976a29bc34cd7fc76c1e4d4c7d4b0623d5b35ad5e9487701cbd52e7770945132f59bf Homepage: https://cran.r-project.org/package=DiscreteQvalue Description: CRAN Package 'DiscreteQvalue' (Improved q-Values for Discrete Uniform and Homogeneous Tests) We consider a multiple testing procedure used in many modern applications which is the q-value method proposed by Storey and Tibshirani (2003), . The q-value method is based on the false discovery rate (FDR), hence versions of the q-value method can be defined depending on which estimator of the proportion of true null hypotheses, p0, is plugged in the FDR estimator. We implement the q-value method based on two classical pi0 estimators, and furthermore, we propose and implement three versions of the q-value method for homogeneous discrete uniform P-values based on pi0 estimators which take into account the discrete distribution of the P-values. 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The syntax is modeled after that which is used in mathematical statistics and probability courses, but with powerful support for more advanced probability calculations. This includes the creation of joint random variables, and the derivation and manipulation of their conditional and marginal distributions. 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Exact and approximate computation methods are provided. For exact p-values, several procedures of determining two-sided p-values are included, which are outlined in more detail in Hirji (2006) . 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Package: r-cran-displayhts Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 307 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-displayhts_1.0-1.ca2004.1_all.deb Size: 247468 MD5sum: 45cf0e569d3051383401b3e405d1f211 SHA1: 9ceb80be5a9c9b514b33e06286f3919758d47672 SHA256: 7d5fa3689e2292814b257be948767762cb228103b43b3ea04e9aae7024ccaca6 SHA512: 226fbc09795693978e622c16b9c087c3089e99b0cb4a1fe89f81ec06e31155bf3d85c0b175f02bc9b496424e69cf7056e4228a15b2a49d9b9db4c3bedd6246ca Homepage: https://cran.r-project.org/package=displayHTS Description: CRAN Package 'displayHTS' (displayHTS) A package containing R functions for displaying data and results from high-throughput screening experiments. 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This package includes functions for applying such non-linear easings to colors and numeric values, and is useful where smooth animated movement and transitions are desired. Package: r-cran-dispmod Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-car Filename: pool/dists/focal/main/r-cran-dispmod_1.2-1.ca2004.1_all.deb Size: 52556 MD5sum: 4fc9188a000c6d619188138a9f48a649 SHA1: f2cff72a23486d84784cbe5b20ba440a54cb0094 SHA256: 40ac18aa002f54425d71c323e5a44e53298105de4d44a1322ebdee12a08eafb3 SHA512: 54066a997ff6cda87e92257264f1b10e7c60815cd322f10eeced2ccfe8fad90491772ec9c19fa735a895b73974d98f9ffde7d09b156b66c7da91269320169e1e Homepage: https://cran.r-project.org/package=dispmod Description: CRAN Package 'dispmod' (Modelling Dispersion in GLM) Functions for estimating Gaussian dispersion regression models (Aitkin, 1987 ), overdispersed binomial logit models (Williams, 1987 ), and overdispersed Poisson log-linear models (Breslow, 1984 ), using a quasi-likelihood approach. Package: r-cran-disposables Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-disposables_1.0.3-1.ca2004.1_all.deb Size: 22448 MD5sum: a76c4f25a6aa860bf4a1850e14c4b812 SHA1: a92e9cf67d4385a4e9b615b12ab8b10ca9b843c7 SHA256: ab26069365d934ddd7705f9731f6ac9ca4963da3aa7f50c99177e7407d407a7d SHA512: 1d2ebfe7c8809096ecb72f5ee825a2753c2982d215a0256c93a99c87852ef6340c3f65c0a346306007ba6a8046b5789ad1d8643bc7709ebe0593156cd2febb41 Homepage: https://cran.r-project.org/package=disposables Description: CRAN Package 'disposables' (Create Disposable R Packages for Testing) Create disposable R packages for testing. You can create, install and load multiple R packages with a single function call, and then unload, uninstall and destroy them with another function call. This is handy when testing how some R code or an R package behaves with respect to other packages. 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Package: r-cran-disprofas Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 401 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-testthat, r-cran-t2eq Filename: pool/dists/focal/main/r-cran-disprofas_0.2.1-1.ca2004.1_all.deb Size: 349392 MD5sum: a71b67a179185abf6d1e32f321440f10 SHA1: a03b263ef13ceafa766b0d27ae7c9bf40dfb0b3b SHA256: dfbb6236707c146d77e9832c44a61c0f668b6f0b46daf5195cee52a82986862b SHA512: 5b6513fab2660f51d1281b31d1dde53db7fd3de94ed8695f3bcbe7905c7e58d62b44d76333d04a5594422b3a557a0268e014054b5cf4d63cceb41d5bff2a20d7 Homepage: https://cran.r-project.org/package=disprofas Description: CRAN Package 'disprofas' (Non-Parametric Dissolution Profile Analysis) Similarity of dissolution profiles is assessed using the similarity factor f2 according to the EMA guideline (European Medicines Agency 2010) "On the investigation of bioequivalence". 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Package: r-cran-disscqn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-spader, r-cran-vegan Filename: pool/dists/focal/main/r-cran-disscqn_0.1.0-1.ca2004.1_all.deb Size: 61976 MD5sum: 12342a6d922a03cea03da00d1f856e1c SHA1: c8da062cbb727a19d2cef3226c2b1bc7c22c43d7 SHA256: 47a8448378fa95d90e4f084f8c527afb464beb355907058ca823f247d3c820f3 SHA512: fa701a436d0e50426712a90e69227bff37141351129833cc97d2e52b81af0911e8999afa32a572156847224df8662a025089a18e1794d9e8cb80cd341a725bf3 Homepage: https://cran.r-project.org/package=dissCqN Description: CRAN Package 'dissCqN' (Multiple Assemblage Dissimilarity for Orders q = 0-N) Calculate multiple or pairwise dissimilarity for orders q = 0-N (CqN; Chao et al. 2008 ) for a set of species assemblages or interaction networks. 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The original dissever algorithm was published by Malone et al. (2012) , and extended by Roudier et al. (2017) . Package: r-cran-dissmod Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 451 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sfsmisc, r-cran-matrixcalc, r-cran-psych, r-cran-mass Filename: pool/dists/focal/main/r-cran-dissmod_1.0.0-1.ca2004.1_all.deb Size: 410156 MD5sum: 843a0e0ba8570e8c8726e579a991f8ad SHA1: 829374d56a086c5bf83213b5980d10a1fb68ffe3 SHA256: 105c27dd740b8a174b3cbf2421beb68c1df6be49ea75afca48c0858bc125cbda SHA512: c981513b461c5c6fd015060e1af2db6ffb63c1b2fac99eaa23d0006639c311e92697826206f9cedbdeed3712746c53334b41c5ba76542db2fe453b3906da46d9 Homepage: https://cran.r-project.org/package=DiSSMod Description: CRAN Package 'DiSSMod' (Fitting Sample Selection Models for Discrete Response Variables) Tools to fit sample selection models in case of discrete response variables, through a parametric formulation which represents a natural extension of the well-known Heckman selection model are provided in the package. 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The calculation allows for the penalty due to unknown detection function, and for overdispersion. The user must specify a guess at the true detection function. 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Adjustment term selection, left and right truncation as well as monotonicity constraints and binning are supported. Abundance and density estimates can also be calculated (via a Horvitz-Thompson-like estimator) if survey area information is provided. See Miller et al. (2019) for more information on methods and for example analyses. Package: r-cran-distancehd Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 371 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-distancehd_1.2-1.ca2004.1_all.deb Size: 346200 MD5sum: a197016b6581e0e745b57809a417ba37 SHA1: 15f677741084a2f36938824f89535e96779c2600 SHA256: f7f56c86ba12f231417646979d2287f697e83680deb1a8fd57f9fa1d37c18327 SHA512: 41723f5126494773782da3f333ced2f93498ca49184a10e00aa6406402930adeabbab6bf9914c6750db7afb19595f9d7ae0574085dd9b1eaa2a5d4639444724c Homepage: https://cran.r-project.org/package=distanceHD Description: CRAN Package 'distanceHD' (Distance Metrics for High-Dimensional Clustering) We provide three distance metrics for measuring the separation between two clusters in high-dimensional spaces. The first metric is the centroid distance, which calculates the Euclidean distance between the centers of the two groups. 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Package: r-cran-distanceto Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sf, r-cran-nabor, r-cran-geodist Suggests: r-cran-fasterize, r-cran-knitr, r-cran-rmarkdown, r-cran-raster, r-cran-tinytest, r-cran-lwgeom Filename: pool/dists/focal/main/r-cran-distanceto_0.0.3-1.ca2004.1_all.deb Size: 69804 MD5sum: 1dcb8d55a70f0a2e912fd3524f9ae67e SHA1: af97a2f443948292690596a10b9555fd36529e61 SHA256: 2b41cc44d0a03fceef019a944b641dc48c2bf004a2b4a444b8530d03f517e8bb SHA512: fb966c34dd6f737f2f0c24e8fcd44a4d98612b0ec48cf25a1e2336bea30a73b8d07202a4128863d1364aac72c453fb418e880c3ea7be65652340c9855cc77b17 Homepage: https://cran.r-project.org/package=distanceto Description: CRAN Package 'distanceto' (Calculate Distance to Features) Calculates distances from point locations to features. The usual approach for eg. resource selection function analyses is to generate a complete distance to features surface then sample it with your observed and random points. Since these raster based approaches can be pretty costly with large areas, and often lead to memory issues in R, the distanceto package opts to compute these distances using efficient, vector based approaches. As a helper, there's a decidedly low-res raster based approach for visually inspecting your region's distance surface. But the workhorse is distance_to. 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DiSTATIS and CovSTATIS are used to analyze multiple distance/covariance matrices collected on the same set of observations. These methods are based on Abdi, H., Williams, L.J., Valentin, D., & Bennani-Dosse, M. (2012) . 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It also provides methods to simulate the effect of bias, random team-data, etc. White paper: 'Philippe J.S. De Brouwer' (2021) . Book (chapter 36): 'Philippe J.S. De Brouwer' (2020, ISBN:978-1-119-63272-6) and 'Philippe J.S. De Brouwer' (2020) . Package: r-cran-dive Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3231 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-desolve, r-cran-fme, r-cran-sp Filename: pool/dists/focal/main/r-cran-dive_1.3-1.ca2004.1_all.deb Size: 3268148 MD5sum: d6a7c0fa5331521028cd4e7bacfcbd2a SHA1: dd8d8a2e380f60edb057750d4758de35501a1d87 SHA256: b38fd2593ffed9443877729cdc809e5c18bde84694bc5179dc6a275fcb10b5de SHA512: c1989929e4ef8665938ee1ee9799aeefe1bc46934e2d1f7c58e9cf3b0267ba61b6d43283308209379ca0d423255938c60e1d753091dd1a35469b519c2839225c Homepage: https://cran.r-project.org/package=DivE Description: CRAN Package 'DivE' (Diversity Estimator) Contains functions for the 'DivE' estimator . The 'DivE' estimator is a heuristic approach to estimate the number of classes or the number of species (species richness) in a population. 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These tools work with and complement those of the 'tidyverse' suite, extending the grammar of 'ggplot2' to become a grammar of interactive graphics. The suite provides many visual tools designed for moderately (100s of variables) high dimensional data analysis, through 'zenplots' and novel tools in 'loon', and extends the 'ggplot2' grammar to provide parallel coordinates, Andrews plots, and arbitrary glyphs through 'ggmulti'. The 'diveR' package gathers together and installs all these related packages in a single step. 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Package: r-cran-diversificationr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-diversificationr_0.1.0-1.ca2004.1_all.deb Size: 39952 MD5sum: dbdc4bff7bfa6eeab019532d09338198 SHA1: eee61fbe3df9f30fb325a060c4a0c540e0f08148 SHA256: f7618bd28ff6f7e1c77257b37670e2032437c1d3f88974d8bcabb3480c5b8dfc SHA512: 3690f8fac2ab792d99444944ad8a9e911d4889e2580c792de292da95c07cb361d1ece02751e98524d4cf93b61b677144e3f7041a39e3967abf2e1cd0ef2a50ae Homepage: https://cran.r-project.org/package=DiversificationR Description: CRAN Package 'DiversificationR' (Econometric Tools to Measure Portfolio Diversification) Diversification is one of the most important concepts in portfolio management. This framework offers scholars, practitioners and policymakers a useful toolbox to measure diversification. 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Spatial and temporal beta diversity can be partitioned into replacement and richness difference components. It also calculates standardized effect size for FD and PD alpha diversity and the average individual traits across multilayer rasters. The layers of the raster represent species, while the cells represent communities. Methods details can be found at Cardoso et al. 2022 and Heming et al. 2023 . Package: r-cran-divseg Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 348 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sf, r-cran-rlang, r-cran-dplyr, r-cran-magrittr, r-cran-tidyselect, r-cran-tibble, r-cran-units Suggests: r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-divseg_0.0.5-1.ca2004.1_all.deb Size: 305772 MD5sum: 43e173761d88df179f7d867399f609b3 SHA1: a688801bab8c0e350a226c9056ee5a7f98e6fc05 SHA256: a1152321592023f28f1878703e4fff1f29e97cd87cfc21b9cdb66169cbf7b3dc SHA512: e14f4825fd30a5307fc19d7a215edd311fce335fd5594a3666e0d2b2862b43b09598d301be288656f6027f1b8218eab1623ddfa93438dffb8e438679a3d7138d Homepage: https://cran.r-project.org/package=divseg Description: CRAN Package 'divseg' (Calculate Diversity and Segregation Indices) Implements common measures of diversity and spatial segregation. This package has tools to compute the majority of measures are reviewed in Massey and Denton (1988) . Multiple common measures of within-geography diversity are implemented as well. All functions operate on data frames with a 'tidyselect' based workflow. 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First part: our goal is to perform inference for the linear parameter in partially linear models with confounding variables. The standard DML estimator of the linear parameter has a two-stage least squares interpretation, which can lead to a large variance and overwide confidence intervals. We apply regularization to reduce the variance of the estimator, which produces narrower confidence intervals that are approximately valid. Nuisance terms can be flexibly estimated with machine learning algorithms. Second part: our goal is to estimate and perform inference for the linear coefficient in a partially linear mixed-effects model with DML. Machine learning algorithms allows us to incorporate more complex interaction structures and high-dimensional variables. 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Method documented in dmmOverview.pdf; dmm is an implementation of dispersion mean model described by Searle et al. (1992) "Variance Components", Wiley, NY. 'DMM' can do 'MINQUE', 'bias-corrected-ML', and 'REML' variance component estimates. 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Therefore, all major functions produce and can handle expressions for symbolic derivatives. The methods used in dMod were published in Kaschek et al, 2019, . 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The core is a Non-homogeneous Hidden Markov Model for estimating spatial correlation and a novel Constrained Gaussian Mixture Model for modeling the M-value pairs of each individual locus. 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The selected model consists of a subset of numerical regressors and partitions of levels of factors. Szymon Nowakowski, Piotr Pokarowski, Wojciech Rejchel and Agnieszka Sołtys, 2023. Improving Group Lasso for High-Dimensional Categorical Data. In: Computational Science – ICCS 2023. Lecture Notes in Computer Science, vol 14074, p. 455-470. Springer, Cham. . Aleksandra Maj-Kańska, Piotr Pokarowski and Agnieszka Prochenka, 2015. Delete or merge regressors for linear model selection. Electronic Journal of Statistics 9(2): 1749-1778. . Piotr Pokarowski and Jan Mielniczuk, 2015. Combined l1 and greedy l0 penalized least squares for linear model selection. Journal of Machine Learning Research 16(29): 961-992. . Piotr Pokarowski, Wojciech Rejchel, Agnieszka Sołtys, Michał Frej and Jan Mielniczuk, 2022. Improving Lasso for model selection and prediction. Scandinavian Journal of Statistics, 49(2): 831–863. . 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Methods used in the package refer to Dai, J, Wang, X, Chen, H and others (2021) "Incorporating increased variability in discovering cancer methylation markers", Biostatistics, submitted. 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Integration is achieved to identify a gene subnetwork from the whole gene network whose nodes/genes are labelled with informative data (such as the significant levels of differential expression or survival risks). To help make sense of identified gene networks, enrichment analysis is also supported using a wide variety of pre-compiled ontologies and phylostratific gene age information in major organisms including: human, mouse, rat, chicken, C.elegans, fruit fly, zebrafish and arabidopsis. Add-on functionalities are supports for calculating semantic similarity between ontology terms (and between genes) and for calculating network affinity based on random walk; both can be done via high-performance parallel computing. 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Package: r-cran-dnmf Architecture: all Version: 1.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-foreach, r-cran-matrix, r-cran-gplots, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-dnmf_1.4.2-1.ca2004.1_all.deb Size: 37260 MD5sum: 744cf52baf6d9dd04da0558cfd059348 SHA1: 49413b2ff3b116aedcbb07b6163031edf5a6ca20 SHA256: d4eeb78bc47aeee4f4236b7578698ab134138806e1dfd95c2e4f1f9bf3fd0188 SHA512: 0360f0c2e03fb2343c42058b78ff9f138d208bbd2af49a6c6d552b4cf4bbd87603dca61ab3a71cb7f29a770240ad0d052ea2411c663e8c178da12995ee934b86 Homepage: https://cran.r-project.org/package=DNMF Description: CRAN Package 'DNMF' (Discriminant Non-Negative Matrix Factorization) Discriminant Non-Negative Matrix Factorization aims to extend the Non-negative Matrix Factorization algorithm in order to extract features that enforce not only the spatial locality, but also the separability between classes in a discriminant manner. It refers to three article, Zafeiriou, Stefanos, et al. "Exploiting discriminant information in nonnegative matrix factorization with application to frontal face verification." Neural Networks, IEEE Transactions on 17.3 (2006): 683-695. Kim, Bo-Kyeong, and Soo-Young Lee. "Spectral Feature Extraction Using dNMF for Emotion Recognition in Vowel Sounds." Neural Information Processing. Springer Berlin Heidelberg, 2013. and Lee, Soo-Young, Hyun-Ah Song, and Shun-ichi Amari. "A new discriminant NMF algorithm and its application to the extraction of subtle emotional differences in speech." Cognitive neurodynamics 6.6 (2012): 525-535. 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The designs covered are completely randomized design, randomized complete block design, factorial completely randomized design, factorial randomized complete block design, split plot design, strip plot design and latin square design. The analysis include analysis of variance, coefficient of determination, normality test of residuals, standard error of mean, standard error of difference and multiple comparison test of means. The package has functions for transformation of data and yield data conversion. Some datasets are also added in order to facilitate examples. Package: r-cran-doem Architecture: all Version: 0.0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1486 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-doem_0.0.0.1-1.ca2004.1_all.deb Size: 1471648 MD5sum: df60833b4384175d0a455894271971b0 SHA1: 7a51c1291578f7c0f14fef578df1f6ffdb9ae7df SHA256: 6a63d2ec78b936ec9b1542b140c0f7a82e259af94eadd53a43ec33affd85dcc5 SHA512: f6072ad5e529a0361b514a6162db4b5672635e4f4ae1c74b47d86fc926ce15f61d339155c14873d6e7942541bc447264f7f43426d483ca5c507d9469e548b527 Homepage: https://cran.r-project.org/package=DOEM Description: CRAN Package 'DOEM' (The Distributed Online Expectation Maximization Algorithms toSolve Parameters of Poisson Mixture Models) The distributed online expectation maximization algorithms are used to solve parameters of Poisson mixture models. The philosophy of the package is described in Guo, G. (2022) . Package: r-cran-doex Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-doex_1.2-1.ca2004.1_all.deb Size: 110900 MD5sum: 9ce8e01a8e1f273b5cf612d79941d6d7 SHA1: 91dc0173b2400e903a1b215fbdcdb91c03727b7a SHA256: 16774ccf2e2551d38e629f7db1c32ccd222bb209c2b40fa0189b4ec08d17599d SHA512: a5ece747fe145d7a0e60678bf5d953d99b0bfd75d4011644e7abd81951ecdcd39d9f84d57c1a212f8a00ce62502d63abf66abdcda8a0a82d50edd396b726741a Homepage: https://cran.r-project.org/package=doex Description: CRAN Package 'doex' (The One-Way Heteroscedastic ANOVA Tests) Contains the heteroscedastic ANOVA tests for normal and two-parameter exponential distributed populations. For normal distributions, Alexander-Govern test by Alexandern and Govern (1994) , Alvandi et al. Generalized F test by Alvandi et al. (2012) , Approximate F test by Asiribo and Gurland (1990) , Box F test by Box (1954) , Brown-Forsythe test by Brown and Forsythe (1974) , B2 test by Ozdemir and Kurt (2006) , Cochran F test by Cochran (1937) , Fiducial Approach test by Li et al. (2011) , Generalized F test by Weerahandi (1995) , Johansen F test by Johansen (1980) , Modified Brown-Forsythe test by Mehrotra (1997) , Modified Welch test by Hartung et al.(2002) , One-Stage test by Chen and Chen (1998) , One-Stage Range test by Chen and Chen (2000) , Parametric Bootstrap test by Krishnamoorhty et al.(2007) , Permutation F test by Berry and Mielke (2002) , Scott-Smith test by Scott and Smith (1971) , Welch test by Welch(1951) , and Welch-Aspin test by Aspin (1948) . These tests are used to test the equality of group means under unequal variance. Also, a modified version of Generalized F-test is improved to test the equality of non-normal group means under unequal variances and a revised version of Generalized F-test is given to test the equality of non-normal group means caused by skewness. Furthermore, it consists some procedures for testing equality of several two-parameter exponentially distributed population means under unequal scale parameters such as generalized p-value, parametric bootstrap and fiducial approach test by Malekzadeh and Jafari (2019) . There is also Hsieh test by Hsieh (1986) for testing equality of location parameters of two-parameter exponentially distributed populations under unequal scale parameters. 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Package: r-cran-dola Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3872 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-xml, r-cran-stringr, r-cran-knitr, r-cran-dplyr, r-cran-reshape2, r-cran-openxlsx, r-cran-rmarkdown Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-dola_0.1.0-1.ca2004.1_all.deb Size: 3551220 MD5sum: b8fc9527bcaff5a4956e4fc9161925da SHA1: f610affebedd36aa1ae36137dedee9bc10ef51be SHA256: 20e1ac37f541e571b47461abd357b58c196da794c9590b65d95feabbb479b259 SHA512: e6cfa3c6e8acfcaa5967e0a011c42d7948f35f37536faa816b6d3174e78b41c5e23cb9de7d4ea1b6fb85d19d513c01529e7bf74642326668a2510037302503d2 Homepage: https://cran.r-project.org/package=DoLa Description: CRAN Package 'DoLa' (Do Currículo Lattes Para o Programa de Pós-Graduação) Managing postgraduate programmes involves extracting information from Lattes CVs. This information can be used for strategic planning and self-evaluation, as well as for producing reports on the Sucupira Platform. Summary reports are produced for each period and course (specialisation, master's and doctorate), showing bibliographic production with and without student participation, as well as papers at events, technical or technological production, ongoing and completed supervision, research projects, exchanges (visiting professor, postdoctoral or short-term leave), awards and general activity indicators. Based on this information, a detailed report is then drawn up for each lecturer, taking into account their participation in exam boards, their research project contributions, their technical collaborations (e.g. advisory committee, editorial board) and the subjects they teach. For more details see Pagliosa and Nascimento (2021) . Package: r-cran-domc Architecture: all Version: 1.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 230 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-domc_1.3.8-1.ca2004.1_all.deb Size: 166372 MD5sum: 8b18eea1a1b5fa7bb4067043fb3f1882 SHA1: f509b87dfde619d1554650b66dbe45a5ca521153 SHA256: 52f176fb8be3f507275f911f68b8180fe8a350e83ac931bea34e49d207809196 SHA512: 933c8acd6d2410923f8037fdd679533d82910e92024a67ba03cecc70dd41504103a211428408e4e889896ace11c5bad7f319aa04e4433f165c45077781e295e6 Homepage: https://cran.r-project.org/package=doMC Description: CRAN Package 'doMC' (Foreach Parallel Adaptor for 'parallel') Provides a parallel backend for the %dopar% function using the multicore functionality of the parallel package. Package: r-cran-domean Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-domean_0.1-1.ca2004.1_all.deb Size: 40772 MD5sum: 104c3b7a9f25f00415503dfdfbd66fdc SHA1: 9d08da2bac7415978edcc3cb32798f7a99295790 SHA256: ef7012ba8eecc1a0288cd0a01bf6c46cb100b4f57b226ad043c7d36c7038d7c8 SHA512: 5e99100ed97fb47b4df45ee360c74f6e503b926edc0f9775a0d956982619b820206d2ddd03a67f8de21cd7b687358d38bf83f731cfdd15d17e8924ca8aa0bbf6 Homepage: https://cran.r-project.org/package=Domean Description: CRAN Package 'Domean' (Distributed Online Mean Tests) Distributed Online Mean Tests is a powerful tool designed to efficiently process and analyze distributed datasets. It enables users to perform mean tests in an online, distributed manner, making it highly suitable for large-scale data analysis. By leveraging advanced computational techniques, 'Domean' ensures robust and scalable solutions for statistical analysis, particularly in scenarios where data is dispersed across multiple nodes or sources. This package is ideal for researchers and practitioners working with high-dimensional data, providing a flexible and efficient framework for mean testing. The philosophy of 'Domean' is described in Guo G.(2025) . Package: r-cran-dominance Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-chron Suggests: r-cran-xlconnect, r-cran-openxlsx, r-cran-rcmdrmisc Filename: pool/dists/focal/main/r-cran-dominance_1.2.0-1.ca2004.1_all.deb Size: 105968 MD5sum: cde6394d2ee0a4392e8149f74271fe46 SHA1: 1e5ae902210bb853046aa8108fa5b8886d79ae19 SHA256: 5ccfa0b925689ac3e5f276475873c14e26d8f5ee595c03b91ca6353ba6c5d4cd SHA512: d71da63030f9dce3e9afd75387983a1daaedafbc3021c667afb86ae9d499eca4e80bdddf84720cd3ad27a8909a9c9ca3ce8be6b67295cff70b81f9ec34a61d18 Homepage: https://cran.r-project.org/package=Dominance Description: CRAN Package 'Dominance' (Calculate and Visualize Dominance Hierarchies) Functions to calculate ADI (Average Dominance Index) and FDI (Frequency-Based Dominance Index). Functions to visualize the Data with Social Network Graphs with Dual Directions and Music Notation Graph. 'XLConnect' or 'openxlsx' or 'RcmdrMisc' is only necessary for comfortable Excel file handling. See ADI-FDI Hemelrijk et al. (2005) de Vries et al. (2009) Musicnotition: Chase (2006) . Package: r-cran-dominanceanalysis Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 486 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-lme4, r-cran-boot, r-cran-testthat, r-cran-car, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-pscl, r-cran-dynlm, r-cran-reshape2, r-cran-betareg, r-cran-performance Filename: pool/dists/focal/main/r-cran-dominanceanalysis_2.1.0-1.ca2004.1_all.deb Size: 349016 MD5sum: 4caa4b7dadffbd91bad3cf68c9b6aaf0 SHA1: 1e15409d8db059573689020ae9f110d24889a937 SHA256: d443ee848f2543075ad4dda615e21420df280b7caa1ae83a839dc56bee439ce4 SHA512: cd606acc72402db32f88c7138503c3d8e15cdf57ad5e28c1440b2895d34bd1648fe7edfdeb8a9e3716884b56c2a97473c078970f765bf593366d801bf325d68c Homepage: https://cran.r-project.org/package=dominanceanalysis Description: CRAN Package 'dominanceanalysis' (Dominance Analysis) Dominance analysis is a method that allows to compare the relative importance of predictors in multiple regression models: ordinary least squares, generalized linear models, hierarchical linear models, beta regression and dynamic linear models. The main principles and methods of dominance analysis are described in Budescu, D. V. (1993) and Azen, R., & Budescu, D. V. (2003) for ordinary least squares regression. Subsequently, the extensions for multivariate regression, logistic regression and hierarchical linear models were described in Azen, R., & Budescu, D. V. (2006) , Azen, R., & Traxel, N. (2009) and Luo, W., & Azen, R. (2013) , respectively. Package: r-cran-domino Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-domino_0.3.1-1.ca2004.1_all.deb Size: 42580 MD5sum: f8e7875a485b6412c6c13fe66c11f7da SHA1: 660adade790878d2d58b9b5a8af7ac8e2d685718 SHA256: 6542b766e7e7050c617c906e39f8427a8d8c06b5a51b4f0724406f1142137aa5 SHA512: 724fd6b621266092617216cba34c98bcf3b74ef20d40266708a92faac3d3353ac9a89de028cd93221e945671f6fb4212b4b1e7173f7dcbc0b61ac77561af0665 Homepage: https://cran.r-project.org/package=domino Description: CRAN Package 'domino' (R Console Bindings for the 'Domino Command-Line Client') A wrapper on top of the 'Domino Command-Line Client'. It lets you run 'Domino' commands (e.g., "run", "upload", "download") directly from your R environment. 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Package: r-cran-dominodatar Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-arrow, r-cran-configparser, r-cran-httr, r-cran-reticulate Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-dominodatar_0.2.3-1.ca2004.1_all.deb Size: 43292 MD5sum: ba8cd2c21156bcf883afa40c3364cee5 SHA1: 9f9d359360071e1490dda6306c521c05ea356ae4 SHA256: bf28496beafd69a783b2476628b792f5e65cef6856bdbe889cc74df612249a9c SHA512: 10d2f107366644f97cd3bd11b9b5c461b5eadcf102b134f7d504e2880f448f1249d317c4de5eaa2164b68d5aaa9672a094224b2639cfe10a5c64a497f177a0cf Homepage: https://cran.r-project.org/package=DominoDataR Description: CRAN Package 'DominoDataR' ('Domino Data R SDK') A wrapper on top of the 'Domino Data Python SDK' library. It lets you query and access 'Domino Data Sources' directly from your R environment. 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Package: r-cran-domir Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1171 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-dplyr, r-cran-dominanceanalysis, r-cran-forcats, r-cran-formula, r-cran-ggplot2, r-cran-knitr, r-cran-lme4, r-cran-parameters, r-cran-performance, r-cran-pscl, r-cran-purrr, r-cran-relaimpo, r-cran-rlang, r-cran-rmarkdown, r-cran-stringr, r-cran-systemfit, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-domir_1.2.0-1.ca2004.1_all.deb Size: 1039072 MD5sum: ece391f4bb67139f5efa4486b563287a SHA1: f3c26155281f5248bf17c55cbba1e79d860155a9 SHA256: 64f07e134756925ec601fb8b0ddbc948827aacd47208a519ddaa4637d8e3f174 SHA512: 8e26515bfa47459e405fc78464926a3df814dccc4c877ed9c66d979ca0f71d2b35fa83982c8b40dd2ae102f452104890df6bd3c48d03e4d98998a1024ac8671d Homepage: https://cran.r-project.org/package=domir Description: CRAN Package 'domir' (Tools to Support Relative Importance Analysis) Methods to apply decomposition-based relative importance analysis for R functions. This package supports the application of decomposition methods by providing 'lapply'- or 'Map'-like meta-functions that compute dominance analysis (Azen, R., & Budescu, D. V. (2003) ; Grömping, U. (2007) ) an extension of Shapley value regression (Lipovetsky, S., & Conklin, M. (2001) ) based on the values returned from other functions. 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Leverage layouts to distribute labels effectively. Connect labels to donut segments using pins. Streamline annotation and highlighting. Package: r-cran-doofa Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lpsolve, r-cran-combinat Filename: pool/dists/focal/main/r-cran-doofa_1.0-1.ca2004.1_all.deb Size: 39880 MD5sum: 548f55b3036f1fca4ec4bf5ca79aec13 SHA1: c2f0567557254c8b302f441a211bcb36623559db SHA256: 39096be061c29395ffd06ffa4549ec30f4e0288beb83e994f78ad831d9077bae SHA512: 9e2ed35655117af040819921fc4ac2d6ab3fac0c29011393fe7b701a561df7b532b3b7aa6b6f63dd310059e839c5c5488ee29488d6bd990e735273e2db5a402c Homepage: https://cran.r-project.org/package=doofa Description: CRAN Package 'doofa' (Designs for Order-of-Addition Experiments) A facility to generate efficient designs for order-of-additions experiments under pair-wise-order model, see Dennis K. J. 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See Bodhisattva Sen and Mary C Meyer (2016) for more details. 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The input data consists of two matrices where each row represents an exon and the columns represent the biological samples. The first matrix is the count of the number of reads expressing the exon for each sample. The second matrix is the count of the number of reads that either express the exon or explicitly skip the exon across the samples, a.k.a. the total count matrix. Dividing the two matrices yields proportions representing the propensity to express the exon versus skipping the exon for each sample. 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(2018) for partially linear regression models, partially linear instrumental variable regression models, interactive regression models and interactive instrumental variable regression models. 'DoubleML' allows estimation of the nuisance parts in these models by machine learning methods and computation of the Neyman orthogonal score functions. 'DoubleML' is built on top of 'mlr3' and the 'mlr3' ecosystem. The object-oriented implementation of 'DoubleML' based on the 'R6' package is very flexible. More information available in the publication in the Journal of Statistical Software: . 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For our earlier work, we refer to Arntzen et al. (2023) . A paper describing our approach in detail will follow. Package: r-cran-doubt Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-unglue Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-doubt_0.1.0-1.ca2004.1_all.deb Size: 53508 MD5sum: 17f4bed3b27ddaa752d6ed1e58542362 SHA1: 3aab06abcf79a87b629ab0214b6176e5f46893de SHA256: 1653572d32757f8836f144a25ccd7b408dda4a049b79ce35db54dd99675b4a70 SHA512: ed452dc967bc0489f2ddd65ed21d15835298b65be69389e54fceaeb09966b4370f3382f8e53949c3c3647e6cd451adc551ae1a172bf41839b56900433cde38c7 Homepage: https://cran.r-project.org/package=doubt Description: CRAN Package 'doubt' (Enable Operators Containing the '?' 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Throughout the two step algorithm of ter Braak et al. (2018) is used. This algorithm combines and extends community- (sample-) and species-level analyses, i.e. the usual community weighted means (CWM)-based regression analysis and the species-level analysis of species-niche centroids (SNC)-based regression analysis. The two steps use canonical correspondence analysis to regress the abundance data on to the traits and (weighted) redundancy analysis to regress the CWM of the orthonormalized traits on to the environmental predictors. The function dc_CA() has an option to divide the abundance data of a site by the site total, giving equal site weights. This division has the advantage that the multivariate analysis corresponds with an unweighted (multi-trait) community-level analysis, instead of being weighted. The first step of the algorithm uses vegan::cca(). The second step uses wrda() but vegan::rda() if the site weights are equal. This version has a predict() function. 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Publication: Mang et al. (2021) . 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Publication: Kapsner et al. (2021) . Package: r-cran-dqtg.seq Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1144 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-bb, r-cran-data.table, r-cran-doparallel, r-cran-openxlsx, r-cran-qtl, r-cran-stringr, r-cran-writexl, r-cran-vroom, r-cran-foreach Filename: pool/dists/focal/main/r-cran-dqtg.seq_1.0.2-1.ca2004.1_all.deb Size: 951180 MD5sum: 57a84571083139a69a087394f5ff0755 SHA1: 12897462545e1f2412c21e7293266f99d553bb82 SHA256: b9ebb82254ae99f192f58237b614569286e405bd8700b1ce8c6db622004a665a SHA512: 353284576a541ff8712310ef1226967e62c31f8ca795251a3d54d502f504e3b32e4bb09a9362e029b50e7ac65064e5111921b3566770652e62dbc0975913734b Homepage: https://cran.r-project.org/package=dQTG.seq Description: CRAN Package 'dQTG.seq' (A BSA Software for Detecting All Types of QTLs in BC, DH, RILand F2) The new (dQTG.seq1 and dQTG.seq2) and existing (SmoothLOD, G', deltaSNP and ED) bulked segregant analysis methods are used to identify various types of quantitative trait loci for complex traits via extreme phenotype individuals in bi-parental segregation populations (F2, backcross, doubled haploid and recombinant inbred line). The numbers of marker alleles in extreme low and high pools are used in existing methods to identify trait-related genes, while the numbers of marker alleles and genotypes in extreme low and high pools are used in the new methods to construct a new statistic Gw for identifying trait-related genes. dQTG-seq2 is feasible to identify extremely over-dominant and small-effect genes in F2. Li P, Li G, Zhang YW, Zuo JF, Liu JY, Zhang YM (2022, ). Package: r-cran-dr4pl Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 903 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-matrix, r-cran-tensor, r-cran-rdpack, r-cran-generics, r-cran-rlang, r-cran-glue Suggests: r-cran-drc, r-cran-devtools, r-cran-roxygen2, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-tibble Filename: pool/dists/focal/main/r-cran-dr4pl_2.0.0-1.ca2004.1_all.deb Size: 582644 MD5sum: 3b893dd912dada0854054467d75367b7 SHA1: d906a108badc16638d1ce81a2c189e6e0f8d11fa SHA256: 35038edab86a7f5c9b96e423be7b5d57f7fd02623bb48443678005cd6987ed56 SHA512: 65dc1fbf84151b99555c586bad74f8b0a224f7a30024183a2688c436ef931f135ff52f2bedce3ba27ec43792762e40cd5425fd858081b83d2ed9648af1dd57a2 Homepage: https://cran.r-project.org/package=dr4pl Description: CRAN Package 'dr4pl' (Dose Response Data Analysis using the 4 Parameter Logistic (4pl)Model) Models the relationship between dose levels and responses in a pharmacological experiment using the 4 Parameter Logistic model. Traditional packages on dose-response modelling such as 'drc' and 'nplr' often draw errors due to convergence failure especially when data have outliers or non-logistic shapes. This package provides robust estimation methods that are less affected by outliers and other initialization methods that work well for data lacking logistic shapes. We provide the bounds on the parameters of the 4PL model that prevent parameter estimates from diverging or converging to zero and base their justification in a statistical principle. These methods are used as remedies to convergence failure problems. Gadagkar, S. R. and Call, G. B. (2015) Ritz, C. and Baty, F. and Streibig, J. C. and Gerhard, D. (2015) . 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A variety of tests, and stepwise deletion of predictors, is also included. Also included is code for computing permutation tests of dimension. Adding additional methods of estimating dimension is straightforward. For documentation, see the vignette in the package. With version 3.0.4, the arguments for dr.step have been modified. 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Package: r-cran-dragracer Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 311 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-tidyr, r-cran-tibble, r-cran-dplyr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dragracer_0.1.7-1.ca2004.1_all.deb Size: 231320 MD5sum: 93834b13dfbae5dddd9f94c17ca9fa3a SHA1: 5cd8029d0eae231b20a00d723dfdeb7aaf758d5c SHA256: dee5dd4dd5a11fb6aa9488fe7e064b4bde80e800718ee4c02eb93eb62b7c516b SHA512: 57d989d003b7dd56fb6bdc2480768a6f46166789928a101c0f80a5bb9163db9e1346b361740db5cefd22bd0d36a51dec03c86c465ea6b5b762ff2e54af7344f8 Homepage: https://cran.r-project.org/package=dragracer Description: CRAN Package 'dragracer' (Data Sets for RuPaul's Drag Race) These are data sets for the hit TV show, RuPaul's Drag Race. Data right now include episode-level data, contestant-level data, and episode-contestant-level data. This is a work in progress, and a love letter of a kind to RuPaul's Drag Race and the performers that have appeared on the show. This may not be the most productive use of my time, but I have tenure and what are you going to do about it? I think there is at least some value in this package if it allows the show's fandom to learn more about the R programming language around its contents. 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Not every execution starts from scratch, there is native support for parallel and distributed computing, and completed projects have tangible evidence that they are reproducible. Extensive documentation, from beginner-friendly tutorials to practical examples and more, is available at the reference website and the online manual . 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The package provides functions to analyze and visualize information about characters, stage directions, the dramatic structure and the text itself. The dramatic texts are expected to be in CSV format, which can be installed from within the package, sample texts are provided. The package and the reasoning behind it are described in Reiter et al. (2017) . 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This implementation contains methods for adding additional smoothness to plug-in regression procedures and for estimating score functions using smoothing splines. Details of the method can be found in Harvey Klyne and Rajen D. Shah (2023) . 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Two primary types of repositories are support: gh-pages at GitHub, as well as local repositories on either the same machine or a local network. Drat is a recursive acronym: Drat R Archive Template. Package: r-cran-draw Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-draw_1.0.0-1.ca2004.1_all.deb Size: 74104 MD5sum: 32506f8ae20de808182ff647aa7ac1e1 SHA1: 9a73c162fca6b0d559bde25aeace27e876b10a58 SHA256: b4eae7df6e5b01cd2c733fcd046ce956ae5b5bbc7e8873809e02954be033ab5e SHA512: 9a5a48be62a69e6c52475d8950437a26ba00e5c8f1a84be0ab9fd5800cb2f8583cc579e49786e7081a6bb5b16d85384a42b1bedc24c28bcc5e70275a193c2c97 Homepage: https://cran.r-project.org/package=draw Description: CRAN Package 'draw' (Wrapper Functions for Producing Graphics) A set of user-friendly wrapper functions for creating consistent graphics and diagrams with lines, common shapes, text, and page settings. Compatible with and based on the R 'grid' package. 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Often times, plots, photos are embedded in the web application/file. 'drawer' can take screenshots of these image-like elements, or any part of the HTML document and send to an image editing space called 'canvas' to allow users immediately edit the screenshot(s) within the same document. Users can quickly combine, compare different screenshots, upload their own images and maybe make a scientific figure. Package: r-cran-drawr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-rocr Filename: pool/dists/focal/main/r-cran-drawr_1.0.3-1.ca2004.1_all.deb Size: 45212 MD5sum: edb15645054669ede85e2647e2770f17 SHA1: 3237bcf0f48dc096c3833bfd5943af9e9be64cfb SHA256: f54339f079ef266674680668c27525672dbf03a1e9f0ecd5b3d5e0d57080ba62 SHA512: 9f7331888ac44bdbfefb9b0d7db450ed7c75c2b34b861acd06cdb8754e1adc367bcb2f3d3296469fa785a99d68005be7d4f68345d727ba1c5bac3f196299217b Homepage: https://cran.r-project.org/package=DRaWR Description: CRAN Package 'DRaWR' (Discriminative Random Walk with Restart) We present DRaWR, a network-based method for ranking genes or properties related to a given gene set. Such related genes or properties are identified from among the nodes of a large, heterogeneous network of biological information. Our method involves a random walk with restarts, performed on an initial network with multiple node and edge types, preserving more of the original, specific property information than current methods that operate on homogeneous networks. In this first stage of our algorithm, we find the properties that are the most relevant to the given gene set and extract a subnetwork of the original network, comprising only the relevant properties. We then rerank genes by their similarity to the given gene set, based on a second random walk with restarts, performed on the above subnetwork. 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For purposive sampling, a researcher has something in mind and participants that fit the purpose of the study are included (Etikan,Musa, & Alkassim, 2015) .Purposive sampling can be useful for answering many research questions (Klar & Leeper, 2019) . Package: r-cran-drayl Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-rconics, r-cran-rmutil, r-cran-cubature Filename: pool/dists/focal/main/r-cran-drayl_1.0-1.ca2004.1_all.deb Size: 40860 MD5sum: 76ec6686574de0188ad9b1817aac7d5d SHA1: eb41191b84e3ed2b7e6698559c7cc079011ddd02 SHA256: bdaa0ba8f3e90e90423bdacebb55adcf7cb6726b89601fc12805a797b786950c SHA512: 7c59b5a337df89801050a66df89a6817daf77d319077eec0312cfb8a80b34acd868fb78d8532122d3b75e07c1b81c257591dbbd0a8c5c20fd4074ac7cb47147a Homepage: https://cran.r-project.org/package=DRAYL Description: CRAN Package 'DRAYL' (Computation of Rayleigh Densities of Arbitrary Dimension) We offer an implementation of the series representation put forth in "A series representation for multidimensional Rayleigh distributions" by Wiegand and Nadarajah . Furthermore we have implemented an integration approach proposed by Beaulieu et al. for 3 and 4-dimensional Rayleigh densities (Beaulieu, Zhang, "New simplest exact forms for the 3D and 4D multivariate Rayleigh PDFs with applications to antenna array geometrics", ). Package: r-cran-drbats Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1502 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstan, r-cran-ade4, r-cran-coda, r-cran-mass, r-cran-matrix, r-cran-sde Suggests: r-cran-fda, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-drbats_0.1.6-1.ca2004.1_all.deb Size: 1295360 MD5sum: 462bd3cda68ec4c000fc5ac0eb76e451 SHA1: 4b5479466639a48a154326cd725aef3c12f7906c SHA256: f80413144b1e6b47a3a0ceb49e54378936fa802589539f102b15cdc6832ebaae SHA512: e68df96294f626e9c60292908401c7f0aa0a0ff44e8e8cd7bef5c8b73b04a0fddb4ee021b73369c8b943e1eefc6e203edf7baf807e4a5c961979353708af82ab Homepage: https://cran.r-project.org/package=DrBats Description: CRAN Package 'DrBats' (Data Representation: Bayesian Approach That's Sparse) Feed longitudinal data into a Bayesian Latent Factor Model to obtain a low-rank representation. Parameters are estimated using a Hamiltonian Monte Carlo algorithm with STAN. See G. Weinrott, B. Fontez, N. Hilgert and S. Holmes, "Bayesian Latent Factor Model for Functional Data Analysis", Actes des JdS 2016. Package: r-cran-drc Architecture: all Version: 3.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 984 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-car, r-cran-gtools, r-cran-multcomp, r-cran-plotrix, r-cran-scales Filename: pool/dists/focal/main/r-cran-drc_3.0-1-1.ca2004.1_all.deb Size: 884996 MD5sum: b28b64120767b90bce7360adb1c61f4b SHA1: 41021bdee44de51a34a14d0a96e392c1e846a93a SHA256: c1a30fe17ac8f05b442b5b3c56500421cd1a672167ac5413d86a9386e43e6a70 SHA512: 0de70a558046969759a21709d9ebb4d6e0512d33ad99303ebaa1ec6be8edba8b6a73db3fd82354c9804b530f04a0bc24fdf0e030960b58296a1120bfe1bafd54 Homepage: https://cran.r-project.org/package=drc Description: CRAN Package 'drc' (Analysis of Dose-Response Curves) Analysis of dose-response data is made available through a suite of flexible and versatile model fitting and after-fitting functions. Package: r-cran-drcarlate Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 510 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pracma, r-cran-mass, r-cran-stringr, r-cran-splus2r, r-cran-glmnet, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-drcarlate_1.2.0-1.ca2004.1_all.deb Size: 192944 MD5sum: eaf2500bf362b68c4fe4bc87e2166990 SHA1: 4e1a022e89bc9cebe6093fcef87812c72ce74553 SHA256: 456031772daff20429cf5b4886de851f63e0697a81c7897625fd7d0b32f376d6 SHA512: b722041b07b333cd6c83424676522e17270ec994c3918fab7ecddb9c8da9d9808d7f6b0e1e5a09da183267c2bf162b577362e9aa554ea8808ceee5ecebc5f954 Homepage: https://cran.r-project.org/package=drcarlate Description: CRAN Package 'drcarlate' (Improving Estimation Efficiency in CAR with Imperfect Compliance) We provide a list of functions for replicating the results of the Monte Carlo simulations and empirical application of Jiang et al. (2022). In particular, we provide corresponding functions for generating the three types of random data described in this paper, as well as all the estimation strategies. Detailed information about the data generation process and estimation strategy can be found in Jiang et al. (2022) . Package: r-cran-drclass Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-drclass_0.1.0-1.ca2004.1_all.deb Size: 49792 MD5sum: 494df340d2378b6158fc5479e1205cf6 SHA1: 2baa4fce58caa67abefabcfde71e9193a59081bc SHA256: c4ed0e25a293408bb6e207cc569f03c1b292b91cfe74bd46dddc3a2cad280957 SHA512: 15e49048b823c76a3a83f19b0c3169a79345990d67bd846d1c1f553e4f33165cc21b473ebb02bd43d0f7595fdbd1f9a87243b3a5bd16323c30edf5003bac2f0c Homepage: https://cran.r-project.org/package=DRclass Description: CRAN Package 'DRclass' (Consider Ambiguity in Probabilistic Descriptions Using DensityRatio Classes) Consider ambiguity in probabilistic descriptions by replacing a parametric probabilistic description of uncertainty by a non-parametric set of probability distributions in the form of a Density Ratio Class. This is of particular interest in Bayesian inference. The Density Ratio Class is particularly suited for this purpose as it is invariant under Bayesian inference, marginalization, and propagation through a deterministic model. Here, invariant means that the result of the operation applied to a Density Ratio Class is again a Density Ratio Class. In particular the invariance under Bayesian inference thus enables iterative learning within the same framework of Density Ratio Classes. The use of imprecise probabilities in general, and Density Ratio Classes in particular, lead to intervals of characteristics of probability distributions, such as cumulative distribution functions, quantiles, and means. The package is based on a sample of the distribution proportional to the upper bound of the class. Typically this will be a sample from the posterior in Bayesian inference. Based on such a sample, the package provides functions to calculate lower and upper class boundaries and lower and upper bounds of cumulative distribution functions, and quantiles. Rinderknecht, S.L., Albert, C., Borsuk, M.E., Schuwirth, N., Kuensch, H.R. and Reichert, P. (2014) "The effect of ambiguous prior knowledge on Bayesian model parameter inference and prediction." Environmental Modelling & Software. 62, 300-315, 2014. . Sriwastava, A. and Reichert, P. "Robust Bayesian Estimation of Value Function Parameters using Imprecise Priors." Submitted. . Package: r-cran-drcseedgerm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 419 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-drc, r-cran-drcte, r-cran-plyr, r-cran-dplyr, r-cran-mvtnorm, r-cran-survival Filename: pool/dists/focal/main/r-cran-drcseedgerm_1.0.1-1.ca2004.1_all.deb Size: 367028 MD5sum: 206a039b0b9c674536227639f686d079 SHA1: b91f33489c30cea972f2d503d4159f679c12bcfc SHA256: bc71e6bc9fafcb2342598747cc3b66e7895e33644192b6678e3bb3860632f118 SHA512: 471cf382e495f81d5064856ebf9eed93d50d85d0d8ae67f344380ffdfe6fd301402f8868caef72a61aa2f5408954939760cb9da0d2421016be75727a7d9ddd3d Homepage: https://cran.r-project.org/package=drcSeedGerm Description: CRAN Package 'drcSeedGerm' (Utilities for Data Analyses in Seed Germination/Emergence Assays) Utility functions to be used to analyse datasets obtained from seed germination/emergence assays. Fits several types of seed germination/emergence models, including those reported in Onofri et al. (2018) "Hydrothermal-time-to-event models for seed germination", European Journal of Agronomy, 101, 129-139 . Contains several datasets for practicing. Package: r-cran-drcte Architecture: all Version: 1.0.30-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 498 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-drc, r-cran-plyr, r-cran-nor1mix, r-cran-mclust, r-cran-survival, r-cran-sandwich, r-cran-lmtest, r-cran-dplyr, r-cran-multcomp, r-cran-tidyr, r-cran-mass Filename: pool/dists/focal/main/r-cran-drcte_1.0.30-1.ca2004.1_all.deb Size: 463000 MD5sum: 621f854aaefd0af893fd7f7f89c6dcfb SHA1: aa34d0211a75b4afccb5da8d57faf37dcd070a94 SHA256: d047e69167988f7879c1624a7d63056154a904045637c0eceafa782065b1ed66 SHA512: 9462f84d5618d8d1d4de273dfd60fd4b5e4e39973a2f123a2f941cb28c99e0d208844e24fdc20c9d9b6ed3822d2eabd3c347909ec46140b73a17774a77842e91 Homepage: https://cran.r-project.org/package=drcte Description: CRAN Package 'drcte' (Statistical Approaches for Time-to-Event Data in Agriculture) A specific and comprehensive framework for the analyses of time-to-event data in agriculture. Fit non-parametric and parametric time-to-event models. Compare time-to-event curves for different experimental groups. Plots and other displays. It is particularly tailored to the analyses of data from germination and emergence assays. The methods are described in Onofri et al. (2020) "A unified framework for the analysis of germination, emergence, and other time-to-event data in weed science"", Weed Science, 70, 259-271 . Package: r-cran-drda Architecture: all Version: 2.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1200 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-drda_2.0.5-1.ca2004.1_all.deb Size: 1058716 MD5sum: d11f9387dc089b7d7541702948cdb137 SHA1: aa11c994f31dcc86119542bde0fed9af693b9a62 SHA256: fa219cd816d03fe61b489dcf1a789597125fa0a5b5014539934530862919ae58 SHA512: 10b406d2a1f4edb91098e55d7f7d6ae4e70d97fcc4dcd5db78e905bfea882a966670f744ce87b25ccd420c00458149c980a424777efa020fd4fe0e69c172418f Homepage: https://cran.r-project.org/package=drda Description: CRAN Package 'drda' (Dose-Response Data Analysis) Fit logistic functions to observed dose-response continuous data and evaluate goodness-of-fit measures. See Malyutina A., Tang J., and Pessia A. (2023) . Package: r-cran-drdimont Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1436 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-igraph, r-cran-dplyr, r-cran-stringr, r-cran-wgcna, r-cran-rfast, r-cran-readr, r-cran-tibble, r-cran-tidyr, r-cran-magrittr, r-cran-rlang, r-cran-reticulate Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-drdimont_0.1.4-1.ca2004.1_all.deb Size: 1221468 MD5sum: 987a94ec74123845dbaf2913c9419d85 SHA1: ee06d64e5a614bebc3ad32f1f95ef42661dc06d9 SHA256: 579ca9fb48369091b6376d273f91e0de4d7f36043aeabfa200c068c027aefefd SHA512: ab6e01a466c23f5a11828aabcc08e591e0537810514edf5e1f30504ebae7e3668036df0c6f878df18de218216aa85b45bbb14030b6ce604564cfaf59c8ac1974 Homepage: https://cran.r-project.org/package=DrDimont Description: CRAN Package 'DrDimont' (Drug Response Prediction from Differential Multi-Omics Networks) While it has been well established that drugs affect and help patients differently, personalized drug response predictions remain challenging. Solutions based on single omics measurements have been proposed, and networks provide means to incorporate molecular interactions into reasoning. However, how to integrate the wealth of information contained in multiple omics layers still poses a complex problem. We present a novel network analysis pipeline, DrDimont, Drug response prediction from Differential analysis of multi-omics networks. It allows for comparative conclusions between two conditions and translates them into differential drug response predictions. DrDimont focuses on molecular interactions. It establishes condition-specific networks from correlation within an omics layer that are then reduced and combined into heterogeneous, multi-omics molecular networks. A novel semi-local, path-based integration step ensures integrative conclusions. Differential predictions are derived from comparing the condition-specific integrated networks. DrDimont's predictions are explainable, i.e., molecular differences that are the source of high differential drug scores can be retrieved. Our proposed pipeline leverages multi-omics data for differential predictions, e.g. on drug response, and includes prior information on interactions. The case study presented in the vignette uses data published by Krug (2020) . The package license applies only to the software and explicitly not to the included data. Package: r-cran-drdrtest Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernsmooth, r-cran-superlearner Filename: pool/dists/focal/main/r-cran-drdrtest_0.1-1.ca2004.1_all.deb Size: 52972 MD5sum: e5f49d70efe3e07981f18711773f634a SHA1: 06c4d64625ac751b767d674a625221db109c4f97 SHA256: 847e8a3212ee4778af6f347164b1cbaf35607fe74ae708a2ff8afe370c35ae05 SHA512: a38107bec0dccc5e5889ee83b03218423a8f92cfeb5d5cd35c4d18ba58dbf7e3bc0dd3a9ebdcb434b3557e035cfc68af1a1bb9d092d7a2b524ffa12afcdead76 Homepage: https://cran.r-project.org/package=DRDRtest Description: CRAN Package 'DRDRtest' (A Nonparametric Doubly Robust Test for Continuous TreatmentEffect) Implement the statistical test proposed in Weng et al. (2021) to test whether the average treatment effect curve is constant and whether a discrete covariate is a significant effect modifier. Package: r-cran-dreamer Architecture: all Version: 3.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1361 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda, r-cran-dplyr, r-cran-ellipsis, r-cran-ggplot2, r-cran-purrr, r-cran-rootsolve, r-cran-rjags, r-cran-rlang, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-fs, r-cran-knitr, r-cran-rmarkdown, r-cran-tibble, r-cran-spelling Filename: pool/dists/focal/main/r-cran-dreamer_3.2.0-1.ca2004.1_all.deb Size: 979280 MD5sum: e4b1236f926d03e61e82e309da3188e7 SHA1: a99dc96a7a24b0a3d9d2bfcb9a9e71e02ddffdff SHA256: 760821749b1c30cc724e163558678c6ee577324002ef7cededf7a4207cc2c78a SHA512: 031f295548a094bc8b9a7bfeb57a5efb14a12cf46886b81c8a34c1f1130dc9e46348345ce3af38bd4162f5dec86c0ea4930015b193fc2f9485eeed2b52949573 Homepage: https://cran.r-project.org/package=dreamer Description: CRAN Package 'dreamer' (Dose Response Models for Bayesian Model Averaging) Fits dose-response models utilizing a Bayesian model averaging approach as outlined in Gould (2019) for both continuous and binary responses. Longitudinal dose-response modeling is also supported in a Bayesian model averaging framework as outlined in Payne, Ray, and Thomann (2024) . Functions for plotting and calculating various posterior quantities (e.g. posterior mean, quantiles, probability of minimum efficacious dose, etc.) are also implemented. Copyright Eli Lilly and Company (2019). Package: r-cran-dreamerr Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1767 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-formula, r-cran-stringmagic Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dreamerr_1.5.0-1.ca2004.1_all.deb Size: 934484 MD5sum: d4efd452050070aa901f6248d44b6628 SHA1: 40e8deb2a560ac9c301839070d6141d94bd39433 SHA256: e9f23a7da5f68aeb491bc7b55d265f094bba86f118edf60959f31a22901a08de SHA512: 0b243ce10b4d0ca81af512d2574171dc2c2d4c69db9172051536385c72c4331d614dda3eeef1d7a00292fa2cce09f2007ff490b14980843cf68048ac33461be2 Homepage: https://cran.r-project.org/package=dreamerr Description: CRAN Package 'dreamerr' (Error Handling Made Easy) Set of tools to facilitate package development and make R a more user-friendly place. Mostly for developers (or anyone who writes/shares functions). Provides a simple, powerful and flexible way to check the arguments passed to functions. The developer can easily describe the type of argument needed. If the user provides a wrong argument, then an informative error message is prompted with the requested type and the problem clearly stated--saving the user a lot of time in debugging. Package: r-cran-dregar Architecture: all Version: 0.1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-msgps Filename: pool/dists/focal/main/r-cran-dregar_0.1.4.0-1.ca2004.1_all.deb Size: 49788 MD5sum: 103991f4aa7aa6f9a278f4bec292bf1c SHA1: dc67aa3c84d42ff04b1ce6f76b6daecf79e4260b SHA256: 3852941f543f621adf7cf0f9db1394f7518d4f6a0b99432a30f49bb10dec168e SHA512: d423886a0ae79202bfaf984dc1f12f0ab8d4cb6590df9b11c0b7bb2ba8ed6428dab6d9b1c691b46c5454027eda6e6e23fe00e57a0e6bbcf3e79de842e384f219 Homepage: https://cran.r-project.org/package=DREGAR Description: CRAN Package 'DREGAR' (Regularized Estimation of Dynamic Linear Regression in thePresence of Autocorrelated Residuals (DREGAR)) A penalized/non-penalized implementation for dynamic regression in the presence of autocorrelated residuals (DREGAR) using iterative penalized/ordinary least squares. It applies Mallows CP, AIC, BIC and GCV to select the tuning parameters. Package: r-cran-drfit Architecture: all Version: 0.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-drc, r-cran-reshape2, r-cran-qcc, r-cran-odbc, r-cran-dbi Filename: pool/dists/focal/main/r-cran-drfit_0.7.2-1.ca2004.1_all.deb Size: 304824 MD5sum: 53773e77c7b4e131daf1eba0733e0a5c SHA1: 56731e082def15bab338c2766a529adc9fb86f8c SHA256: b9fc1217018c73b1234de47aef58245609fc7e3f8527141bf90142867b45a3bd SHA512: 78d33ab57d9a3abfcb2d697e455dc7eec3787c0c113a77447c4239f6cc79f061d53883c9632ef2fcb76a1b20abc9f421b3d3eb64170d9c6c420b6e6f884d9d0c Homepage: https://cran.r-project.org/package=drfit Description: CRAN Package 'drfit' (Dose-Response Data Evaluation) A somewhat outdated package of basic and easy-to-use functions for fitting dose-response curves to continuous dose-response data, calculating some toxicological parameters and plotting the results. Please consider using the more powerful and actively developed 'drc' package. Functions that are fitted are the cumulative density function of the log-normal distribution ('probit' fit), of the logistic distribution ('logit' fit), of the Weibull distribution ('weibull' fit) and a linear-logistic model ('linlogit' fit), derived from the latter, which is used to describe data showing stimulation at low doses (hormesis). In addition, functions checking, plotting and retrieving dose-response data retrieved from a database accessed via 'odbc' are included. As an alternative to the original fitting methods, the algorithms from the 'drc' package can be used. Package: r-cran-drglm Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nnet, r-cran-speedglm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-drglm_1.1-1.ca2004.1_all.deb Size: 55992 MD5sum: 4531df72a4277231f31213fe1974474d SHA1: a83bc37e408537c695fdacce3baac0a87641eb18 SHA256: acf11aee71571ca45c8314a0487c841e74ed9637c6725597645566c0284c9c7e SHA512: 2c9ad820616c6ac8703438267751e8b77a39420e28700e2fef219455eff8a1231c5abb860c22278a7de98351a0f263158c6aca7e94ae7aa18a57830e54bd1fee Homepage: https://cran.r-project.org/package=drglm Description: CRAN Package 'drglm' (Fitting Linear and Generalized Linear Models in "Divide andRecombine" Approach to Large Data Sets) To overcome the memory limitations for fitting linear (LM) and Generalized Linear Models (GLMs) to large data sets, this package implements the Divide and Recombine (D&R) strategy. It basically divides the entire large data set into suitable subsets manageable in size and then fits model to each subset. Finally, results from each subset are aggregated to obtain the final estimate. This package also supports fitting GLMs to data sets that cannot fit into memory and provides methods for fitting GLMs under linear regression, binomial regression, Poisson regression, and multinomial logistic regression settings. Respective models are fitted using different D&R strategies as described by: Xi, Lin, and Chen (2009) , Xi, Lin and Chen (2006) , Zuo and Li (2018) , Karim, M.R., Islam, M.A. (2019) . Package: r-cran-drhotnet Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 444 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pbsmapping, r-cran-raster, r-cran-sp, r-cran-spatstat.geom, r-cran-spatstat.linnet, r-cran-spatstat, r-cran-spdep Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-drhotnet_2.3-1.ca2004.1_all.deb Size: 404292 MD5sum: 4e69f09baf9f42c2b2e37e7e3fe541e1 SHA1: 3dabec40d9387502dd054d35e09433558f6dd348 SHA256: e38cf216ae05952778818c8671fa5bb4673f6d918f98693a7b3ec00e4abc9fb8 SHA512: eabd73bf444b74415ab8a5710475d05e40fec114936b63bf8d048ba82c743074c48a842e806ec854af3fc39fe6b93c170114518ebb62f76228d7cf616cb9bb81 Homepage: https://cran.r-project.org/package=DRHotNet Description: CRAN Package 'DRHotNet' (Differential Risk Hotspots in a Linear Network) Performs the identification of differential risk hotspots (Briz-Redon et al. 2019) along a linear network. Given a marked point pattern lying on the linear network, the method implemented uses a network-constrained version of kernel density estimation (McSwiggan et al. 2017) to approximate the probability of occurrence across space for the type of event specified by the user through the marks of the pattern (Kelsall and Diggle 1995) . The goal is to detect microzones of the linear network where the type of event indicated by the user is overrepresented. Package: r-cran-drhur Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3766 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-learnr Suggests: r-cran-rmarkdown, r-cran-scales, r-cran-modelsummary, r-cran-knitr, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-drhur_1.1.0-1.ca2004.1_all.deb Size: 3558996 MD5sum: 18be8056431529e1626603fd0f817844 SHA1: 78d570330a8dbc3bb19254fad12672d685120438 SHA256: dc766251d92b65f7a0f1e996d9fae39b1dc679b17a515b0a20390964c529f43a SHA512: b53d24c521b4128952fb694c49b1aba8d49b7f2fad64bdfc0c08959f0d3a29bb059d93e5650eae971403a2331de7ebeede6588f312c697c5a9098897012ae8e2 Homepage: https://cran.r-project.org/package=drhur Description: CRAN Package 'drhur' (Learning R with Dr. Hu) Tutarials of R learning easily and happily. Package: r-cran-drhutools Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 547 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-purrr, r-cran-htmltools, r-cran-sf, r-cran-htmlwidgets, r-cran-jsonlite, r-cran-leaflet, r-cran-sp, r-cran-gganimate, r-cran-magick, r-cran-mapview, r-cran-webshot, r-cran-animation, r-cran-png Suggests: r-cran-knitr, r-cran-remotes, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-drhutools_1.0.0-1.ca2004.1_all.deb Size: 385184 MD5sum: 27a34041f1bfdada230e344772d7d377 SHA1: 734c29f2d5ca6573fe62a2ba2990d61ae51a3452 SHA256: 2b85578be38019d01c6ddd712da066e8d9f5ffa96459db0c46d244557d4ac24d SHA512: 12a9f254d53f45af7b0f3e12bb0561d425dd25de121a1cd13d06d05f87a22b39cc37c830c1ba39a340389c1004ba768101db6c92c8e5f99987735187789d803d Homepage: https://cran.r-project.org/package=drhutools Description: CRAN Package 'drhutools' (Political Science Academic Research Gears) Using these tools to simplify the research process of political science and other social sciences. The current version can create folder system for academic project in political science, calculate psychological trait scores, visualize experimental and spatial data, and set up color-blind palette, functions used in academic research of political psychology or political science in general. Package: r-cran-drifter Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dalex, r-cran-dplyr, r-cran-tidyr, r-cran-ingredients Suggests: r-cran-testthat, r-cran-ranger Filename: pool/dists/focal/main/r-cran-drifter_0.2.1-1.ca2004.1_all.deb Size: 38164 MD5sum: 0c15c71db88ac0741e379b4ea7180349 SHA1: 102a75e1e345723526352e785dc3306e421418f7 SHA256: c4a6c7d62eeb5a4ff2af10095a6e2bdc97d8b5fbb3f6c42c1f17e479a52a7d9e SHA512: b92f40b5d85b50b6686865001ac08e4dae5424e2a327c744570d8eeed31d70df9b0503ea3c39ad11b67524abe14644aeaa9d1244ef6d53b82e31179fc383fcc1 Homepage: https://cran.r-project.org/package=drifter Description: CRAN Package 'drifter' (Concept Drift and Concept Shift Detection for Predictive Models) Concept drift refers to the change in the data distribution or in the relationships between variables over time. 'drifter' calculates distances between variable distributions or variable relations and identifies both types of drift. Key functions are: calculate_covariate_drift() checks distance between corresponding variables in two datasets, calculate_residuals_drift() checks distance between residual distributions for two models, calculate_model_drift() checks distance between partial dependency profiles for two models, check_drift() executes all checks against drift. 'drifter' is a part of the 'DrWhy.AI' universe (Biecek 2018) . Package: r-cran-drillr Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr Filename: pool/dists/focal/main/r-cran-drillr_0.1-1.ca2004.1_all.deb Size: 41620 MD5sum: 848f8c1c7a990dcbf1989df31ceff150 SHA1: 16379de4567d32ed45d18d76dd3873eb6f3995ba SHA256: a990761af0ff6a702cb97475760dbcc3a8917753bae10ac6157ddbf4162eb153 SHA512: 9999a8193dd57a9174ef69c236d76146ade183431ad019dead70f788b61ac19555f54a2b2df41f0bbeab755333e4ed60a4e1ac66c5db769d84dccc7a7e73f3df Homepage: https://cran.r-project.org/package=DrillR Description: CRAN Package 'DrillR' (R Driver for Apache Drill) Provides a R driver for Apache Drill, which could connect to the Apache Drill cluster or drillbit and get result(in data frame) from the SQL query and check the current configuration status. This link contains more information about Apache Drill. Package: r-cran-drimmr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-seqinr, r-cran-ggplot2, r-cran-future, r-cran-doparallel, r-cran-foreach, r-cran-tidyverse, r-cran-dplyr, r-cran-reshape2, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-drimmr_1.0.1-1.ca2004.1_all.deb Size: 227252 MD5sum: 10b2b6a73aaeb8bcd6ed93279f89b1d1 SHA1: 36b1801bedb71f4f55afc56fa50ef6a6b1374a68 SHA256: 013a211ce039224b796eb600f2856e227d6645466774a8aa7a05d98c47204238 SHA512: 0bdf24832b18a04bb303dbe7aa39304aaa087c00cfdc91ce2400bfde0322ef1044a50b770ebe6c0b381b41135b58249121190928198021e79c7747d69c461560 Homepage: https://cran.r-project.org/package=drimmR Description: CRAN Package 'drimmR' (Estimation, Simulation and Reliability of Drifting Markov Models) Performs the drifting Markov models (DMM) which are non-homogeneous Markov models designed for modeling the heterogeneities of sequences in a more flexible way than homogeneous Markov chains or even hidden Markov models. In this context, we developed an R package dedicated to the estimation, simulation and the exact computation of associated reliability of drifting Markov models. The implemented methods are described in Vergne, N. (2008), and Barbu, V.S., Vergne, N. (2019) . Package: r-cran-driveml Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2833 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sampling, r-cran-rmarkdown, r-cran-smarteda, r-cran-data.table, r-cran-catools, r-cran-paramhelpers, r-cran-mlr, r-cran-ggplot2, r-cran-iml Suggests: r-cran-testthat, r-cran-knitr, r-cran-ranger, r-cran-glmnet, r-cran-randomforest, r-cran-rpart, r-cran-xgboost, r-cran-tidyr, r-cran-mass Filename: pool/dists/focal/main/r-cran-driveml_0.1.5-1.ca2004.1_all.deb Size: 2323848 MD5sum: aac533f7c5c07f2f7bfd48035687a6f9 SHA1: e074e976b2dacfdf9a4e03a950fdf25a28c46bfd SHA256: a63509e09c407f3b2971d6fbc165fbead1e3ada7f4b0219899fdfd07fc041749 SHA512: e0097f7814c14f25ea8b5e598e2a7b4701056adb2b95bbc7b13dbc03eab03d732063e41f8b6f42d41c4e4209c189c46c94138a5d004d4d4e8a47928b0c5904e5 Homepage: https://cran.r-project.org/package=DriveML Description: CRAN Package 'DriveML' (Self-Drive Machine Learning Projects) Implementing some of the pillars of an automated machine learning pipeline such as (i) Automated data preparation, (ii) Feature engineering, (iii) Model building in classification context that includes techniques such as (a) Regularised regression [1], (b) Logistic regression [2], (c) Random Forest [3], (d) Decision tree [4] and (e) Extreme Gradient Boosting (xgboost) [5], and finally, (iv) Model explanation (using lift chart and partial dependency plots). Accomplishes the above tasks by running the function instead of writing lengthy R codes. Also provides some additional features such as generating missing at random (MAR) variables and automated exploratory data analysis. Moreover, function exports the model results with the required plots in an HTML vignette report format that follows the best practices of the industry and the academia. [1] Gonzales G B and De Saeger (2018) , [2] Sperandei S (2014) , [3] Breiman L (2001) , [4] Kingsford C and Salzberg S (2008) , [5] Chen Tianqi and Guestrin Carlos (2016) . Package: r-cran-driver Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5483 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-randomforest, r-bioc-genomicranges, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-bioc-txdb.hsapiens.ucsc.hg38.knowngene, r-bioc-s4vectors, r-bioc-org.hs.eg.db, r-cran-rlang Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-driver_0.4.1-1.ca2004.1_all.deb Size: 2640436 MD5sum: 963adcf8b63977b532a77616fa6e2eca SHA1: 61eab1e9cba978952dcea4878f03357e87edef68 SHA256: 6ebb3b9165bd7dfa8127d04bb3e83bc7db2b023979b97e420faaf020f61c0610 SHA512: 94da9fdde7e339319f1034d92bc49ec56f1a65f4a6a887bcb1528c715da62253bd27ff8411b2b0486d525971c37eb6ed168f6b8151e994286c7c4ea96149da34 Homepage: https://cran.r-project.org/package=driveR Description: CRAN Package 'driveR' (Prioritizing Cancer Driver Genes Using Genomics Data) Cancer genomes contain large numbers of somatic alterations but few genes drive tumor development. Identifying cancer driver genes is critical for precision oncology. Most of current approaches either identify driver genes based on mutational recurrence or using estimated scores predicting the functional consequences of mutations. 'driveR' is a tool for personalized or batch analysis of genomic data for driver gene prioritization by combining genomic information and prior biological knowledge. As features, 'driveR' uses coding impact metaprediction scores, non-coding impact scores, somatic copy number alteration scores, hotspot gene/double-hit gene condition, 'phenolyzer' gene scores and memberships to cancer-related KEGG pathways. It uses these features to estimate cancer-type-specific probability for each gene of being a cancer driver using the related task of a multi-task learning classification model. The method is described in detail in Ulgen E, Sezerman OU. 2021. driveR: driveR: a novel method for prioritizing cancer driver genes using somatic genomics data. BMC Bioinformatics . Package: r-cran-droll Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 306 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ryacas Suggests: r-cran-covr, r-cran-ggplot2, r-cran-mockery, r-cran-testthat, r-cran-tibble, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-droll_0.1.0-1.ca2004.1_all.deb Size: 233928 MD5sum: c2142a7f987b15efef68080f039dc368 SHA1: ab04aa71200550206c995b51f7d83a16426f49cf SHA256: 372284bc94b7f26421576cc1fa65c8d162b5fc541c64eb421a136106d5838be0 SHA512: 6e77c923ce6be7bf20ce7e0915113660bba5587a6899d2a84baea61e41546882864aec85a3126ceeeccd93eee820aa4829a8235078cd6d7bc3213bdcc2fec423 Homepage: https://cran.r-project.org/package=droll Description: CRAN Package 'droll' (Analyze Roll Distributions) A toolkit for parsing dice notation, analyzing rolls, calculating success probabilities, and plotting outcome distributions. 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'DRomics' is especially dedicated to omics data obtained using a typical dose-response design, favoring a great number of tested doses (or concentrations) rather than a great number of replicates (no need of replicates). 'DRomics' provides functions 1) to check, normalize and or transform data, 2) to select monotonic or biphasic significantly responding items (e.g. probes, metabolites), 3) to choose the best-fit model among a predefined family of monotonic and biphasic models to describe each selected item, 4) to derive a benchmark dose or concentration and a typology of response from each fitted curve. In the available version data are supposed to be single-channel microarray data in log2, RNAseq data in raw counts, or already pretreated continuous omics data (such as metabolomic data) in log scale. In order to link responses across biological levels based on a common method, 'DRomics' also handles apical data as long as they are continuous and follow a normal distribution for each dose or concentration, with a common standard error. For further details see Delignette-Muller et al (2023) and Larras et al (2018) . 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Firstly drugs are clustered with respect to their features description and secondly predictions are made, according to Bayesian scores. Moreover it can perform protein enrichment considering the proteins clustered together in the first step of the algorithm. This last tool is of extreme interest for biologist and drug discovery purposes, given the fact that it can be used either as a validation of the clusters obtained, as well as for the possible discovery of new interactions between certain side effects and non targeted pathways. Clustering of the drugs in the feature space can be done using K-Means, PAM or K-Seeds (a novel clustering algorithm proposed by the author). 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(2016) and Preussler (2020). Optimal is in the sense of maximal expected utility, where the utility is a function taking into account the expected cost and benefit of the program. It is possible to extend to more complex settings with bias correction (Preussler S et al. (2020) ), multiple phase III trials (Preussler et al. (2019) ), multi-arm trials (Preussler et al. (2019) ), and multiple endpoints (Kieser et al. (2018) ). 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Package: r-cran-drugprepr Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 217 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-doseminer, r-cran-rlang, r-cran-tidyr, r-cran-sqldf, r-cran-stringr, r-cran-purrr, r-cran-desctools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-drugprepr_0.0.4-1.ca2004.1_all.deb Size: 161348 MD5sum: 72aa0e2235aaf09fcc67e1546cf66594 SHA1: 1e9a48686585511c8473ec5fd72438e11b7e6196 SHA256: b58290c34d773c6ddae9c6059e9fcf8b37e0eaca6090b8458d6e2a85882dcc65 SHA512: 4627ade7682cc57a4ffba5122278d0702eebf3987a38168c0242dc55768d1c2364995c69a4944c62726dfe3e887df679de6b3b202604cc87f52a70e88385b872 Homepage: https://cran.r-project.org/package=drugprepr Description: CRAN Package 'drugprepr' (Prepare Electronic Prescription Record Data to Estimate DrugExposure) Prepare prescription data (such as from the Clinical Practice Research Datalink) into an analysis-ready format, with start and stop dates for each patient's prescriptions. Based on Pye et al (2018) . Package: r-cran-drugsens Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1337 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggpubr, r-cran-knitr, r-cran-roxygen2, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect, r-cran-testthat Filename: pool/dists/focal/main/r-cran-drugsens_0.1.0-1.ca2004.1_all.deb Size: 126096 MD5sum: 207c891b6512d56e8f45785ccbd80065 SHA1: 5df8a34036d4dc0a16dc77beac421c00a3933fed SHA256: 5fe1a2ba0ef0001bcec16b3eb484896161f6e7db451fa2946f4c81a18f270fea SHA512: 6eba5499ea9b81b405a971dba8302fc556f2deed66b6b246a2af2755e209ea8ebba6f997b9af77fc3b2d5e6b244a2cb823cdac539f9cd7d03384c2a14d8c2b0b Homepage: https://cran.r-project.org/package=drugsens Description: CRAN Package 'drugsens' (Automated Analysis of 'QuPath' Output Data and MetadataExtraction) A comprehensive toolkit for analyzing microscopy data output from 'QuPath' software. Provides functionality for automated data processing, metadata extraction, and statistical analysis of imaging results. The methodology implemented in this package is based on Labrosse et al. (2024) "Protocol for quantifying drug sensitivity in 3D patient-derived ovarian cancer models", which describes the complete workflow for drug sensitivity analysis in patient-derived cancer models. Package: r-cran-drugsim2dr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3079 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-igraph, r-cran-pheatmap, r-bioc-chemminer, r-cran-rvest, r-cran-sp, r-cran-tidyr, r-cran-reshape2, r-cran-fastmatch Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-drugsim2dr_0.1.1-1.ca2004.1_all.deb Size: 2472852 MD5sum: c2ce24f970a32b0f07673e5e7c73ab84 SHA1: 55b9b40e36da00812ab519c67925e7b8c42a87a9 SHA256: 0c319029c8a19a71ae3f8fa8f0e0b526594bee5d22ec84652f658e2f0e4e49f9 SHA512: 6195384f7272bbc0ec7c72ab8c3417496585c457bc438cccf00488cbb12d72f7ddbba061db8d8e6e12cf675c1ec90bf87678c0790eb1adb6ba4dcecc97a57f45 Homepage: https://cran.r-project.org/package=DrugSim2DR Description: CRAN Package 'DrugSim2DR' (Predict Drug Functional Similarity to Drug Repurposing) A systematic biology tool was developed to repurpose drugs via a drug-drug functional similarity network. 'DrugSim2DR' first predict drug-drug functional similarity in the context of specific disease, and then using the similarity constructed a weighted drug similarity network. Finally, it used a network propagation algorithm on the network to identify drugs with significant target abnormalities as candidate drugs. Package: r-cran-drugutilisation Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3199 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cdmconnector, r-cran-cli, r-cran-clock, r-cran-codelistgenerator, r-cran-dplyr, r-cran-glue, r-cran-omopgenerics, r-cran-patientprofiles, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr Suggests: r-cran-bit64, r-cran-cohortsurvival, r-cran-covr, r-cran-dbi, r-cran-duckdb, r-cran-flextable, r-cran-ggplot2, r-cran-ggtext, r-cran-gt, r-cran-here, r-cran-knitr, r-cran-odbc, r-cran-rmarkdown, r-cran-rpostgres, r-cran-scales, r-cran-testthat, r-cran-tibble, r-cran-visomopresults Filename: pool/dists/focal/main/r-cran-drugutilisation_1.0.3-1.ca2004.1_all.deb Size: 775408 MD5sum: 97f274242a5085f02c4365d364791421 SHA1: f396f055e681a7be17640e25db0ebefd0a34b949 SHA256: e5aac2f7faaa3609b87c29ce44c3aab4017c4132348e239be41f7704875e00a7 SHA512: ec26203cc6a7fa070ecd0e8d39a69643db3fd12dbacf632a3fc71d734b82949fec4ba06340c9e4739b95a7fa7012a34396119cb0c14aa6910cb80278b98f3c72 Homepage: https://cran.r-project.org/package=DrugUtilisation Description: CRAN Package 'DrugUtilisation' (Summarise Patient-Level Drug Utilisation in Data Mapped to theOMOP Common Data Model) Summarise patient-level drug utilisation cohorts using data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model. New users and prevalent users cohorts can be generated and their characteristics, indication and drug use summarised. Package: r-cran-drumr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4198 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-audio, r-cran-stringr Filename: pool/dists/focal/main/r-cran-drumr_0.1.0-1.ca2004.1_all.deb Size: 1603572 MD5sum: e544ccd88c47d3946cea4ebdd12a47e7 SHA1: cfb5d6091d6b13efc384b8dff618b91e3c799462 SHA256: fa6c62f14113c6707e74d82f4f33aa0748d1281ce3792973d70fd71910bc4dea SHA512: 4a9209f9002a363bb50ad132317173b811fc25d1eea15810eeb0d2d9b5f077a41ec6a6315eb400ded27982337a54eeaddbb3bd984d420d3e0760f8aafd966a57 Homepage: https://cran.r-project.org/package=drumr Description: CRAN Package 'drumr' (Turn R into a Drum Machine) Includes various functions for playing drum sounds. beat() plays a drum sound from one of the six included drum kits. tempo() sets spacing between calls to beat() in bpm. Together the two functions can be used to create many different drum patterns. Package: r-cran-drviaspcn Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4672 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-gsva, r-bioc-clusterprofiler, r-cran-igraph, r-cran-pheatmap Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-dt Filename: pool/dists/focal/main/r-cran-drviaspcn_0.1.5-1.ca2004.1_all.deb Size: 4540816 MD5sum: 9005f4b71f415688274208e155e34fd5 SHA1: 69e1a13bb3d991d4d3eca482eb9fe21f21f6802f SHA256: 3af1899ee0801f129ba6560d605942bd3d6212057bd0426effc757eba8c4b411 SHA512: 4c65c7de7714af50be9097755d11faa107143276f558049739c645955e4d36bbab970bcf2325f959a5872073ab319efaf7abb81cf5f6ea8ea3759e05398a9430 Homepage: https://cran.r-project.org/package=DRviaSPCN Description: CRAN Package 'DRviaSPCN' (Drug Repurposing in Cancer via a Subpathway Crosstalk Network) A systematic biology tool was developed to repurpose drugs via a subpathway crosstalk network. The operation modes include 1) calculating centrality scores of SPs in the context of gene expression data to reflect the influence of SP crosstalk, 2) evaluating drug-disease reverse association based on disease- and drug-induced SPs weighted by the SP crosstalk, 3) identifying cancer candidate drugs through perturbation analysis. There are also several functions used to visualize the results. Package: r-cran-ds4psy Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 906 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-unikn Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-ds4psy_1.0.0-1.ca2004.1_all.deb Size: 796852 MD5sum: 50c10158e92b05995d0965422b3e0083 SHA1: 2c9a04653290b7cad4c3ca121c04f8d0436f8ae6 SHA256: 5d828c409396e64f87a5135a241db1d4c1671c51b1f272f23e2d6598cb736e59 SHA512: 4e805c4c4cf993d865a0a54f9d610214e615e4948d47ded09206150c25b778f14748b2e1bbae927d24aeb6ff3d1fc814cd3c65f783c8994fcf565fb83427f307 Homepage: https://cran.r-project.org/package=ds4psy Description: CRAN Package 'ds4psy' (Data Science for Psychologists) All datasets and functions required for the examples and exercises of the book "Data Science for Psychologists" (by Hansjoerg Neth, Konstanz University, 2022), available at . The book and course introduce principles and methods of data science to students of psychology and other biological or social sciences. The 'ds4psy' package primarily provides datasets, but also functions for data generation and manipulation (e.g., of text and time data) and graphics that are used in the book and its exercises. All functions included in 'ds4psy' are designed to be explicit and instructive, rather than efficient or elegant. Package: r-cran-ds Architecture: all Version: 4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ds_4.0-1.ca2004.1_all.deb Size: 36468 MD5sum: 6c4d0fd31ab35f0cc30d248827fb6c8a SHA1: 0c28aa09a0a496be7114dded9667d43e0c8e2917 SHA256: ecac45b8c22dd1120a61c9e840a5d7a32353cc76cb11d5abd77498724d829b39 SHA512: 1550784f12a4bc2bb7a86dd4a5e306da77d6580931df424d242e6c4c4c2bad5a51383ef9fbfbe533d19b3f534e0f1b3aceaf7b80275996d8fd2eb3e18ab2e902 Homepage: https://cran.r-project.org/package=ds Description: CRAN Package 'ds' (Descriptive Statistics) Performs various analyzes of descriptive statistics, including correlations, graphics and tables. 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Bundesbank Discussion Paper 41/2018. Package: r-cran-dsaide Architecture: all Version: 0.9.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5149 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-adaptivetau, r-cran-desolve, r-cran-dplyr, r-cran-ggplot2, r-cran-gridextra, r-cran-lhs, r-cran-nloptr, r-cran-plotly, r-cran-rlang, r-cran-xml Suggests: r-cran-covr, r-cran-devtools, r-cran-emoji, r-cran-knitr, r-cran-pkgdown, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dsaide_0.9.6-1.ca2004.1_all.deb Size: 2620516 MD5sum: 0f07f36850236671e8a2822001182b41 SHA1: c188fc24f312e8d4d4bde63ed9b0fbbc19c21fe1 SHA256: 8ecdad80132872bef23bb5d85018ea4450541052d499fa820c50b0b5828f95a4 SHA512: 85470d996bf0f9ac0dad49c7bc42087e6e489f926059e1a064e554bd07f87b38c193fee215b9844bc0175ae91d297971db363b4f9e00fff99169f6520cdb4b93 Homepage: https://cran.r-project.org/package=DSAIDE Description: CRAN Package 'DSAIDE' (Dynamical Systems Approach to Infectious Disease Epidemiology(Ecology/Evolution)) Exploration of simulation models (apps) of various infectious disease transmission dynamics scenarios. The purpose of the package is to help individuals learn about infectious disease epidemiology (ecology/evolution) from a dynamical systems perspective. All apps include explanations of the underlying models and instructions on what to do with the models. 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The purpose of the package is to help individuals learn about within-host infection and immune response modeling from a dynamical systems perspective. All apps include explanations of the underlying models and instructions on what to do with the models. Package: r-cran-dsam Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-caret, r-cran-kohonen, r-cran-matrix, r-cran-proc, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-dsam_1.0.2-1.ca2004.1_all.deb Size: 107632 MD5sum: 6fff108b23acdea93de0e88e8e5112e0 SHA1: 4be4a3bdec0e3d285c9dbd55ab04ad1b54885563 SHA256: 9b77a70d0d3a4c8937aae31ac9d402d484e9952e589cfa5cc2a31d470d6baf56 SHA512: e5cbf8a0936a3b14283978be8ed235fd11bf3063e7017624c7ad743ee12e1b461997bfc681809cbf4ec8da538431ccf5c35e119f4fb309cad90bb81f3faa9a44 Homepage: https://cran.r-project.org/package=DSAM Description: CRAN Package 'DSAM' (Data Splitting Algorithms for Model Developments) Providing six different algorithms that can be used to split the available data into training, test and validation subsets with similar distribution for hydrological model developments. The dataSplit() function will help you divide the data according to specific requirements, and you can refer to the par.default() function to set the parameters for data splitting. The getAUC() function will help you measure the similarity of distribution features between the data subsets. For more information about the data splitting algorithms, please refer to: Chen et al. (2022) , Zheng et al. (2022) . Package: r-cran-dsample Architecture: all Version: 0.91.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-mnormt Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dsample_0.91.3.4-1.ca2004.1_all.deb Size: 50456 MD5sum: 871ee6b5a308b5bbd57cd2f338cb9c90 SHA1: aa807b379bad5a4d3ca8296663bdf92129464257 SHA256: 4219013a6f755667e928cb900be13b757fd56e7d13f06edaf8dfaefbadec872e SHA512: 68dfc17cac084fbff01e7093975aca7f6bc2e1a7666945a98d325394d3f806149851d4e7cdfc8b095e9f0bd66faa0be741edafd9206e51c54affd3a9bcaeb23a Homepage: https://cran.r-project.org/package=dsample Description: CRAN Package 'dsample' (Discretization-Based Direct Random Sample Generation) Discretization-based random sampling algorithm that is useful for a complex model in high dimension is implemented. The normalizing constant of a target distribution is not needed. Posterior summaries are compared with those by 'OpenBUGS'. The method is described: Wang and Lee (2014) and exercised in Lee (2009) . Package: r-cran-dsb Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4769 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-bioc-limma, r-cran-mclust Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-cowplot, r-cran-spelling Filename: pool/dists/focal/main/r-cran-dsb_2.0.0-1.ca2004.1_all.deb Size: 3792720 MD5sum: b49a5982ff196944b031294f704138fd SHA1: fb53f3aa9feea6d02a269bd522f071e1cf632a83 SHA256: aa13c9658245d31c61f288a2cde3071480de859b0d041f9f9881b902a81f9c2f SHA512: e9da7b13dcfb7ac5abd835ed1aecb430660cc00feb809c93377284c5cd2bf7ca24985f61d7d3bb8993041fcc8ffbdeb4c1bc9d8714b6895eb774ab2fc8d31245 Homepage: https://cran.r-project.org/package=dsb Description: CRAN Package 'dsb' (Normalize & Denoise Droplet Single Cell Protein Data (CITE-Seq)) This lightweight R package provides a method for normalizing and denoising protein expression data from droplet based single cell experiments. Raw protein Unique Molecular Index (UMI) counts from sequencing DNA-conjugated antibody derived tags (ADT) in droplets (e.g. 'CITE-seq') have substantial measurement noise. Our experiments and computational modeling revealed two major components of this noise: 1) protein-specific noise originating from ambient, unbound antibody encapsulated in droplets that can be accurately inferred via the expected protein counts detected in empty droplets, and 2) droplet/cell-specific noise revealed via the shared variance component associated with isotype antibody controls and background protein counts in each cell. This package normalizes and removes both of these sources of noise from raw protein data derived from methods such as 'CITE-seq', 'REAP-seq', 'ASAP-seq', 'TEA-seq', 'proteogenomic' data from the Mission Bio platform, etc. See the vignette for tutorials on how to integrate dsb with 'Seurat' and 'Bioconductor' and how to use dsb in 'Python'. Please see our paper Mulè M.P., Martins A.J., and Tsang J.S. Nature Communications 2022 for more details on the method. Package: r-cran-dsbayes Architecture: all Version: 2023.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bb Filename: pool/dists/focal/main/r-cran-dsbayes_2023.1.0-1.ca2004.1_all.deb Size: 74564 MD5sum: b88ea89cfb5b04a70ee875fad590b98b SHA1: d9ad0d4923122ed22de2e6c5ecedef65c9e37ec6 SHA256: 6cfe05d5e320916d7f18e81ff07a02ced14c7c0dcba985b96642dd664012a03f SHA512: ea682cb6f517dd107c5e149443b849f5cdf1253702a0617af3f041cc8d62bf4cd60b3aecf92d90e2f60de56bcb45ead03a49c84e02f6ead06f8e549b30c9b6c6 Homepage: https://cran.r-project.org/package=DSBayes Description: CRAN Package 'DSBayes' (Bayesian Subgroup Analysis in Clinical Trials) Calculate posterior modes and credible intervals of parameters of the Dixon-Simon model for subgroup analysis (with binary covariates) in clinical trials. For details of the methodology, please refer to D.O. Dixon and R. Simon (1991), Biometrics, 47: 871-881. 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These designs can be assessed for various effort and coverage statistics. Once the user is satisfied with the design characteristics they can generate a set of transects to use in their distance sampling survey. Many of the designs implemented in this R package were first made available in our 'Distance' for Windows software and are detailed in Chapter 7 of Advanced Distance Sampling, Buckland et. al. (2008, ISBN-13: 978-0199225873). Find out more about estimating animal/plant abundance with distance sampling at . 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The data are then analysed so that the results can be compared for accuracy and precision across all replications. This will allow users to select survey designs which will give them the best accuracy and precision given their expectations about population distribution. Any uncertainty in population distribution or population parameters can be included by running the different survey designs for a number of different population descriptions. An example simulation can be found in the help file for make.simulation. 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Package: r-cran-dstat Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dstat_1.0.4-1.ca2004.1_all.deb Size: 115668 MD5sum: 68697c2c3adf9aa25cf3ecc01371dfc9 SHA1: 9e7cb6b68a3cef5baedde43fdfdaca1d71d5d4c0 SHA256: 17d7e0d023e250ad98dccce79f1316a1f4d06357706c123124f1971bdb4c8570 SHA512: a974f0dbe6dd68d409ce6bb0f7458e218343b8d5674fbcef22e18cb2770e68150cb7eff3577d5960f2df8f74a63aef14cff3c72cb3c139d127a41d1ff3eae140 Homepage: https://cran.r-project.org/package=dstat Description: CRAN Package 'dstat' (Conditional Sensitivity Analysis for Matched ObservationalStudies) A d-statistic tests the null hypothesis of no treatment effect in a matched, nonrandomized study of the effects caused by treatments. A d-statistic focuses on subsets of matched pairs that demonstrate insensitivity to unmeasured bias in such an observational study, correcting for double-use of the data by conditional inference. This conditional inference can, in favorable circumstances, substantially increase the power of a sensitivity analysis (Rosenbaum (2010) ). There are two examples, one concerning unemployment from Lalive et al. (2006) , the other concerning smoking and periodontal disease from Rosenbaum (2017) . 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The core idea is to transform the problem of detecting change points into the detection of local extrema (local maxima and local minima)through kernel smoothing and differentiation of the data sequence, see Cheng et al. (2020) . A low-computational and fast algorithm call 'dSTEM' is introduced to detect change points based on the 'STEM' algorithm in D. Cheng and A. Schwartzman (2017) . 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Currently, 'DataSHIELD' contains very limited tools for data manipulation, so the aim of this package is to improve the researcher experience by implementing essential functions for data manipulation, including subsetting, filtering, grouping, and renaming variables. This is the clientside package which should be installed locally, and is used in conjuncture with the serverside package 'dsTidyverse' which is installed on the remote server holding the data. For more information, see , and . 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This package includes code that researchers may use to reproduce or extend key results of the DTAT research programme, plus tools for trialists to design and simulate a '3+3/PC' dose-finding study. Please see Norris (2017a) and Norris (2017c) . 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Package: r-cran-dtreg Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 384 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr2, r-cran-jsonlite, r-cran-r6, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-sets, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dtreg_1.1.1-1.ca2004.1_all.deb Size: 140736 MD5sum: 46129b8ea849cd74d7fab4200e245063 SHA1: cf57031c1cf197c1eb6fae47a479b0ae35a32c94 SHA256: 867fdd6693db2e325d390c06af8eef2f55f44926527a232cb0157c8a00972a06 SHA512: 35733c5660aeebaea253176fd1baeb4fdc878877b321113b123ded38eee41db5d56fcbfe72eb12cc524ffd2167d1306170554270ef892c83511b6cff2ff15b35 Homepage: https://cran.r-project.org/package=dtreg Description: CRAN Package 'dtreg' (Interact with Data Type Registries and Create Machine-ReadableData) You can load a schema from a DTR (data type registry) as an R object. 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Package: r-cran-dtrlearn2 Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernlab, r-cran-mass, r-cran-matrix, r-cran-foreach, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-dtrlearn2_1.1-1.ca2004.1_all.deb Size: 124988 MD5sum: 8698bc925d7e29b53466fd776b0ffeed SHA1: 0f30259b50a957f4375ede5bdb6a255345523ac9 SHA256: 964ce3af6fd723e6ad6c369820f04a0a20bb986f94f3f4f07018f55d07a205bc SHA512: bae8b228d55f3878058a069d31bd5482bb56f591991c965bc1ddd3ce4bd21aa569b6c40d147503d6e8c576d8b8246db62ce3ba75f4835a25d348caf3326228db Homepage: https://cran.r-project.org/package=DTRlearn2 Description: CRAN Package 'DTRlearn2' (Statistical Learning Methods for Optimizing Dynamic TreatmentRegimes) We provide a comprehensive software to estimate general K-stage DTRs from SMARTs with Q-learning and a variety of outcome-weighted learning methods. Penalizations are allowed for variable selection and model regularization. With the outcome-weighted learning scheme, different loss functions - SVM hinge loss, SVM ramp loss, binomial deviance loss, and L2 loss - are adopted to solve the weighted classification problem at each stage; augmentation in the outcomes is allowed to improve efficiency. The estimated DTR can be easily applied to a new sample for individualized treatment recommendations or DTR evaluation. Package: r-cran-dtrreg Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 465 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-nnet, r-cran-r6 Filename: pool/dists/focal/main/r-cran-dtrreg_2.3-1.ca2004.1_all.deb Size: 413384 MD5sum: ac56ef7f53d1371f65dbf5e393875f34 SHA1: 7239540e5cbc23db904625e4a0bbb087947f17f6 SHA256: befba68bd29df1c1f9cb381ed08d48ebe2678b2e8b98b930160eec589b243070 SHA512: 54211b2b975e8538dd4f9071114c756e65c1e6aed6c9736d740f73dbed17788a59122a8e9c3ced36a100082c71ab436a369082c5c97770c9ed6baa14b419d9e9 Homepage: https://cran.r-project.org/package=DTRreg Description: CRAN Package 'DTRreg' (DTR Estimation and Inference via G-Estimation, Dynamic WOLS,Q-Learning, and Dynamic Weighted Survival Modeling (DWSurv)) Dynamic treatment regime estimation and inference via G-estimation, dynamic weighted ordinary least squares (dWOLS) and Q-learning. Inference via bootstrap and recursive sandwich estimation. Estimation and inference for survival outcomes via Dynamic Weighted Survival Modeling (DWSurv). Extension to continuous treatment variables. Wallace et al. (2017) ; Simoneau et al. (2020) . Package: r-cran-dts Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-actuar, r-cran-expint Filename: pool/dists/focal/main/r-cran-dts_0.1.1-1.ca2004.1_all.deb Size: 97732 MD5sum: 8e326f5b9110c465b0f82b2dc3931408 SHA1: cdc3d65e814e7d82df76fc9c4cf88f22e208ff55 SHA256: fd9933956558d22585ba61c98c846a7f7dadf971ced1d9761b8616eb0c5cce1a SHA512: cb327d7cdca5b2d848261aa64736a5fa2a43c645fab8e9ee0e3fda8b12c9b5dec4c56b7b712361ab6a70f770e1f514cf7ae813a27f1ed3c318dfcf809cac2172 Homepage: https://cran.r-project.org/package=DTS Description: CRAN Package 'DTS' (Discrete Tempered Stable Distributions) Methods for evaluating the probability mass function, cumulative distribution function, and generating random samples from discrete tempered stable distributions. For more details see Grabchak (2021) . 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Package: r-cran-dtsg Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1760 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-r6, r-cran-timechange Suggests: r-cran-dygraphs, r-cran-fasttime, r-cran-knitr, r-cran-rcolorbrewer, r-cran-rcppcctz, r-cran-rmarkdown, r-cran-runner, r-cran-tinytest, r-cran-units Filename: pool/dists/focal/main/r-cran-dtsg_2.0.0-1.ca2004.1_all.deb Size: 368016 MD5sum: 6f73b9ad21b6d07b4af4c6f5ba42581a SHA1: e157be78506f12554a5375756ae2c70e6b44e30b SHA256: 6bebc311d59df24f08b56ec0d80300173794ec79b1d103c22d79bc8dd0e09a15 SHA512: 1210542c85314e7cfa34696cd9041359536ad3be32fe853a922bfe71c15feec993530986c386ff038b4169c76d8a97f0cd80ffdce2b5d507de0835aebf3ac7e3 Homepage: https://cran.r-project.org/package=DTSg Description: CRAN Package 'DTSg' (A Class for Working with Time Series Data Based on 'data.table'and 'R6' with Largely Optional Reference Semantics) Basic time series functionalities such as listing of missing values, application of arbitrary aggregation as well as rolling (asymmetric) window functions and automatic detection of periodicity. 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Package: r-cran-dtsr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1316 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvdalab, r-cran-dmwr2, r-cran-cluster, r-cran-mass Filename: pool/dists/focal/main/r-cran-dtsr_0.2.0-1.ca2004.1_all.deb Size: 1309264 MD5sum: cb99ac71a4fa3340381399b1d9d9c633 SHA1: d56ca01c585217ef2ae843d302c341c4dc7f6a82 SHA256: 084568a9ccbeb7b89d0d23de2b63f147953a5ea12795c3361ac05d6b430d0dfe SHA512: a080e140fdafd56dc9a0509ec7e55b2709658888d939e594f0e718bbf47ebcd74807a2aaec3025aed44d4beea2dba18346a78fc3c5849b4cc6d0ea2ed0254352 Homepage: https://cran.r-project.org/package=DTSR Description: CRAN Package 'DTSR' (Distributed Trimmed Scores Regression for Handling Missing Data) Provides functions for handling missing data using Distributed Trimmed Scores Regression and other imputation methods. It includes facilities for data imputation, evaluation metrics, and clustering analysis. It is designed to work in distributed computing environments to handle large datasets efficiently. The philosophy of the package is described in Guo G. (2024) . Package: r-cran-dtt Architecture: all Version: 0.1-2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dtt_0.1-2.1-1.ca2004.1_all.deb Size: 20700 MD5sum: e48021e97c7443b2e094f53cc0e5dded SHA1: 9fd413a76a54ce85acf3ede90ab8fc8ad6bda009 SHA256: 54e75ed70439e183be832ba43209d563476c729077ba732ce458e784af875227 SHA512: f2c61bf58086add2e99f54a0314c9aa5fe1ebb135a4b8d3d7e76c15a3ed36dbc251d5dbfeb7652936238eac263d372c6a7e4361cc917a0660a6aa98c01a70dde Homepage: https://cran.r-project.org/package=dtt Description: CRAN Package 'dtt' (Discrete Trigonometric Transforms) Provides functions for 1D and 2D Discrete Cosine Transform (DCT), Discrete Sine Transform (DST) and Discrete Hartley Transform (DHT). Package: r-cran-dttr2 Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 338 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-chk, r-cran-hms, r-cran-lifecycle Suggests: r-cran-rlang, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dttr2_0.5.2-1.ca2004.1_all.deb Size: 244416 MD5sum: 4c7a63b7364b76e0dfa412eb5be1f352 SHA1: 3a7a63410d127cfa068fee8261258bc213ed060f SHA256: e64f5a9933e19472be23466ae0c8a8caa1535ca33b8f397e1ba93d69caaf5cc7 SHA512: ea900e2089d42d2c83fd56018c42d11f97e68ab91ffc0e3681d59a0ad5d941828a1d72fb90b5ad64121abb40c0e9591a144e8a68cecd520508fe193fc758cf90 Homepage: https://cran.r-project.org/package=dttr2 Description: CRAN Package 'dttr2' (Manipulate Date, POSIXct and hms Vectors) Manipulates date ('Date'), date time ('POSIXct') and time ('hms') vectors. Date/times are considered discrete and are floored whenever encountered. Times are wrapped and time zones are maintained unless explicitly altered by the user. Package: r-cran-dtwbi Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dtw, r-cran-rlist, r-cran-e1071, r-cran-entropy, r-cran-lsa Filename: pool/dists/focal/main/r-cran-dtwbi_1.1-1.ca2004.1_all.deb Size: 75068 MD5sum: 02685af89b38aae228832f4b49d76c8f SHA1: 6ae01eec23505711460288b2925d06654b13d612 SHA256: 77544797cfa74c00f577486b3f9e9894f2c6a32ee22a7d634eeee7f5a85530ba SHA512: 6c225ce27c17a9a9df1ea097401c1fb669bb31c59f78a883bf8d2d25f4ab87f87a41800960245706d88be27840ee55d2ecdfffad8b09ce1989854cc321f51a19 Homepage: https://cran.r-project.org/package=DTWBI Description: CRAN Package 'DTWBI' (Imputation of Time Series Based on Dynamic Time Warping) Functions to impute large gaps within time series based on Dynamic Time Warping methods. It contains all required functions to create large missing consecutive values within time series and to fill them, according to the paper Phan et al. (2017), . Performance criteria are added to compare similarity between two signals (query and reference). Package: r-cran-dtwrappers2 Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-dtwrappers Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-devtools, r-cran-markdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dtwrappers2_0.0.3-1.ca2004.1_all.deb Size: 129000 MD5sum: 60eaf4fff20eb8210f82df35785bdb37 SHA1: df890edea672cbbc0062719f6f50202ea4460433 SHA256: a929389798edea90a87605b24ad96e1b04ba3ebd6956ea32f9712ca35a9d3433 SHA512: cf3aca584147fac23bcb091efff10e31a2407cad825d451997376ff3f377aa6d6380e35628a79e7282b398c8b421907dbfd30517a2ef3a54a17aee343d082909 Homepage: https://cran.r-project.org/package=DTwrappers2 Description: CRAN Package 'DTwrappers2' (Extensions of 'DTwrappers') Offers functionality which provides methods for data analyses and cleaning that can be flexibly applied across multiple variables and in groups. These include cleaning accidental text, contingent calculations, counting missing data, and building summarizations of the data. Package: r-cran-dtwrappers Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 218 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dtwrappers_0.0.2-1.ca2004.1_all.deb Size: 87564 MD5sum: 03b0dd246667459b8aa3e3a405e18534 SHA1: 0e6f83430712ebeecce14999e33b9e207eb0c178 SHA256: 6932552f1a9a3271a87f50fcc064aeaa03a7bd5bd4ea6ed2ed6c3114adfcb216 SHA512: 0f8f9f6cb3bc74f6730c65a469317124276c04e66d264650c6406c0ee476a9213e91582044bbb8100ffa3382d4fae31d1101050090340f930877d548e746479c Homepage: https://cran.r-project.org/package=DTwrappers Description: CRAN Package 'DTwrappers' (Simplified Data Analysis with Wrapper Functions for the'Data.Table' Package) Provides functionality for users who are learning R or the techniques of data analysis. Written as a collection of wrapper functions, the 'DTwrapper' package facilitates many core operations of data processing. This is achieved with relatively few requirements about the order of the processing steps or knowledge of specialized syntax. 'DTwrappers' creates coding results along with translations to data.table's code. This enables users to benefit from the speed and efficiency of data.table's calculations. Furthermore, the package also provides the translated code for educational purposes so that users can review working examples of coding syntax and calculations. Package: r-cran-dtwsat Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2006 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-twdtw, r-cran-sf, r-cran-stars, r-cran-ggplot2, r-cran-mgcv, r-cran-tidyr, r-cran-proxy Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-dtwsat_1.0.0-1.ca2004.1_all.deb Size: 1043212 MD5sum: 93545f34b42c43eb1849e66ae1cd6916 SHA1: 2b17ac1537edd6ea007c694c159667cb23b6b317 SHA256: 756be40379c37b1bed262dab226e89d200449c7791e4ff7f2f9be4f6d2d217d8 SHA512: 11d16b0fc64fa5676f20ec52b3b5dbf807fa54c0a378f73f0882130ee0a6060a9b215818b9b10978a29f0a3d410dfde5973dcd54477d299bc50277350837563d Homepage: https://cran.r-project.org/package=dtwSat Description: CRAN Package 'dtwSat' (Time-Weighted Dynamic Time Warping for Satellite Image TimeSeries Analysis) Provides a robust approach to land use mapping using multi-dimensional (multi-band) satellite image time series. By leveraging the Time-Weighted Dynamic Time Warping (TWDTW) distance metric in tandem with a 1 Nearest-Neighbor (1-NN) Classifier, this package offers functions to produce land use maps based on distinct seasonality patterns, commonly observed in the phenological cycles of vegetation. The approach is described in Maus et al. (2016) and Maus et al. (2019) . A primary advantage of TWDTW is its capability to handle irregularly sampled and noisy time series, while also requiring minimal training sets. The package includes tools for training the 1-NN-TWDTW model, visualizing temporal patterns, producing land use maps, and visualizing the results. Package: r-cran-dtwumi Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dtw, r-cran-rlist, r-cran-e1071, r-cran-entropy, r-cran-lsa, r-cran-dtwbi Filename: pool/dists/focal/main/r-cran-dtwumi_1.0-1.ca2004.1_all.deb Size: 72100 MD5sum: afa9f0479ce84004d084a0d0ee19773a SHA1: fb3e521e336545bf9a5ecfdb5a9d68e499fd7bbd SHA256: 694e348b4de686e51458aacedf82675f03e468c630f026a509b21cdbeac987cd SHA512: 43342c99f7d1b15c9696fca3462877c816dc75dd780d7358e75d2f3761622a990c82333295f3762febdb8a069b634f898191f3ee0b308f0399a24bf4c887ef58 Homepage: https://cran.r-project.org/package=DTWUMI Description: CRAN Package 'DTWUMI' (Imputation of Multivariate Time Series Based on Dynamic TimeWarping) Functions to impute large gaps within multivariate time series based on Dynamic Time Warping methods. Gaps of size 1 or inferior to a defined threshold are filled using simple average and weighted moving average respectively. Larger gaps are filled using the methodology provided by Phan et al. (2017) : a query is built immediately before/after a gap and a moving window is used to find the most similar sequence to this query using Dynamic Time Warping. To lower the calculation time, similar sequences are pre-selected using global features. Contrary to the univariate method (package 'DTWBI'), these global features are not estimated over the sequence containing the gap(s), but a feature matrix is built to summarize general features of the whole multivariate signal. Once the most similar sequence to the query has been identified, the adjacent sequence to this window is used to fill the gap considered. This function can deal with multiple gaps over all the sequences componing the input multivariate signal. 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Package: r-cran-dwls Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 228 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-quadprog, r-cran-reshape, r-cran-seurat, r-cran-rocr, r-cran-varhandle, r-cran-dplyr, r-cran-e1071, r-bioc-mast, r-bioc-summarizedexperiment Suggests: r-cran-testthat, r-cran-matrix Filename: pool/dists/focal/main/r-cran-dwls_0.1.0-1.ca2004.1_all.deb Size: 197012 MD5sum: ab9aa496206f6cc479e913b9b2f7df7d SHA1: b98de45fcb77c02f10a89e6052ddd286f74fa55d SHA256: 2054ce2ee3e482c819619b29ae3c34cd975adcfdc6124b06ad85bec4e0e3af99 SHA512: 4c02727eaa62137851682788caffa90b4b7ac89da43914c3cc965fe752f561e0e91fd42d36d8afa9404de17aba73970c8a4b1e28dbda682cb29caadc59e593a8 Homepage: https://cran.r-project.org/package=DWLS Description: CRAN Package 'DWLS' (Gene Expression Deconvolution Using Dampened Weighted LeastSquares) The rapid development of single-cell transcriptomic technologies has helped uncover the cellular heterogeneity within cell populations. However, bulk RNA-seq continues to be the main workhorse for quantifying gene expression levels due to technical simplicity and low cost. To most effectively extract information from bulk data given the new knowledge gained from single-cell methods, we have developed a novel algorithm to estimate the cell-type composition of bulk data from a single-cell RNA-seq-derived cell-type signature. Comparison with existing methods using various real RNA-seq data sets indicates that our new approach is more accurate and comprehensive than previous methods, especially for the estimation of rare cell types. More importantly,our method can detect cell-type composition changes in response to external perturbations, thereby providing a valuable, cost-effective method for dissecting the cell-type-specific effects of drug treatments or condition changes. As such, our method is applicable to a wide range of biological and clinical investigations. 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While there are several excellent logging solutions already in the R ecosystem, I always feel constrained in some way by each of them. Every project is designed differently to solve it's domain specific problem, and ultimately the utility of a logging solution is its ability to adapt to this design. This is the raison d'être for 'dyn.log': to provide a modular design, template mechanics and a configuration-based integration model, so that the logger can integrate deeply into your design, even though it knows nothing about it. 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Package: r-cran-dynamic Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 481 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-simstandard, r-cran-tidyr, r-cran-lavaan, r-cran-ggplot2, r-cran-magrittr, r-cran-tibble, r-cran-patchwork, r-cran-stringr, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dynamic_1.1.0-1.ca2004.1_all.deb Size: 339716 MD5sum: 7acb575831106fd80ffce6775c8cae4e SHA1: dee16334148eaeca876837c65de904aba8455286 SHA256: 4c6249db2c7623144b4e36b797f9c4af8dbff7cdbb83904bc00d2cba2cc532e8 SHA512: 5baee626e64be587bd346fc82657af821564951958a65dbfe41d6747c8dd73317bb9e7735db7ed90ee0e8cc8fe596b572887568a04195294ed1336d95f50396d Homepage: https://cran.r-project.org/package=dynamic Description: CRAN Package 'dynamic' (DFI Cutoffs for Latent Variable Models) Returns dynamic fit index (DFI) cutoffs for latent variable models that are tailored to the user's model statement, model type, and sample size. 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Package: r-cran-dynamictreecut Architecture: all Version: 1.63-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dynamictreecut_1.63-1-1.ca2004.1_all.deb Size: 91180 MD5sum: e46729492405dc2474fcfdd83d88f468 SHA1: dcd4e265c5ae30b0000c97f4dfef1ceefa4c53c5 SHA256: 0c104858704bbf846fc4fc6d8e3e7c1eb4c4447cf176d5b501da5883616dc5e5 SHA512: 14b680f96398cb3b7485fe7dc563aca26b8b2231f78a8764483c596c600ea6d839cfc63a5102c425de0d33e54e2856dff45ff78715f27814ee71fa1f627a9db2 Homepage: https://cran.r-project.org/package=dynamicTreeCut Description: CRAN Package 'dynamicTreeCut' (Methods for Detection of Clusters in Hierarchical ClusteringDendrograms) Contains methods for detection of clusters in hierarchical clustering dendrograms. Package: r-cran-dynamite Architecture: all Version: 1.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 12487 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-data.table, r-cran-ggforce, r-cran-glue, r-cran-ggplot2, r-cran-loo, r-cran-patchwork, r-cran-posterior, r-cran-rlang, r-cran-rstan, r-cran-tibble Suggests: r-cran-covr, r-cran-dplyr, r-cran-knitr, r-cran-mice, r-cran-mockthat, r-cran-quarto, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-dynamite_1.5.6-1.ca2004.1_all.deb Size: 11038416 MD5sum: 138a8ccaffb729b3468acbe52c4cbd43 SHA1: caa6715a0577f6e23d38c420d56f089fe2d8419c SHA256: 9974e7c0b520a4a9ea4192c3fdd094670046dc02ad8f052052d512ac425253c0 SHA512: 30381744bc908b5911e01674beb4f29968c87d96a14a801458474152f392589d472d9fb3b3b9aab392cd2986505054de45e2fa63ea0282311f96b1f6e7e39180 Homepage: https://cran.r-project.org/package=dynamite Description: CRAN Package 'dynamite' (Bayesian Modeling and Causal Inference for MultivariateLongitudinal Data) Easy-to-use and efficient interface for Bayesian inference of complex panel (time series) data using dynamic multivariate panel models by Helske and Tikka (2024) . 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Package: r-cran-dynarer Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1785 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-cran-magrittr, r-cran-magick Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-dynarer_0.1.5-1.ca2004.1_all.deb Size: 395756 MD5sum: ceda860d48511ca1576fa489ba849236 SHA1: 8218f59fd7893c6d43095fc3107c7706f6743cd8 SHA256: c1786d2467ce4d618e91ccf2f4864d62e9031e715bcd82288eca557eb08c32bd SHA512: 543edf831b96f345f653f0bc67cb089bed1cb749cdc815fecb2d5517f6b28c958d63ec5c974c5e4d8890c58f3113725a3d3df856442facf5725f6086e1735dad Homepage: https://cran.r-project.org/package=DynareR Description: CRAN Package 'DynareR' (Bringing the Power of 'Dynare' to 'R', 'R Markdown', and'Quarto') It allows running 'Dynare' program from base R, R Markdown and Quarto. 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Package: r-cran-dynclust Architecture: all Version: 3.24-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 662 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-dynclust_3.24-1.ca2004.1_all.deb Size: 619448 MD5sum: d4d4e75696c59e51e141cfe9a168ab80 SHA1: 5fee91e1a848c49fe40108c6f5b44fe508c19a1f SHA256: 9aa5b9682acbe966980c680a0f72114af226abff0956906b88ce7be73ecfa572 SHA512: 7e8583decd310f9084836cfad4eb083487ef1be1be1c96840d4912dad41ccbdda7e0628079c1aa662da7b7f4fdd7e9628a2de8a3f37f524b8d8263e0c40a3070 Homepage: https://cran.r-project.org/package=DynClust Description: CRAN Package 'DynClust' (Denoising and Clustering for Dynamical Image Sequence (2D or3D)+t) A two-stage procedure for the denoising and clustering of stack of noisy images acquired over time. Clustering only assumes that the data contain an unknown but small number of dynamic features. 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Package: r-cran-dyncomp Architecture: all Version: 0.0.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-zoo Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-dyncomp_0.0.2-1-1.ca2004.1_all.deb Size: 13424 MD5sum: 9faa2d2aea4b70f9f6708b4b33a01f1e SHA1: 693f833bd49acdbd8532b8d4d10ee1039438a6f0 SHA256: ff2a5de624a51ac3be8132dddc785d63f52cec7e4f136037c9fc3d4321246d55 SHA512: 8fb66d98075c945794a3fa030ee247e0794ed42451faed5d71731da64935caa7179d6b5afccf6f0077dabb1890107eef1f7100e94da163d70633ef7fda7744f9 Homepage: https://cran.r-project.org/package=dyncomp Description: CRAN Package 'dyncomp' (Complexity of Short and Coarse-Grained Time Series) While there are many well-established measures for identifying critical fluctuations and phase transitions, these measures only work with many points of measurement and thus are unreliable when studying short and coarse-grained time series. 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(Rosvall M, Bergstrom CT (2010) Mapping Change in Large Networks. PLoS ONE 5(1): e8694. Their graphical grammar however is a bit more complex then that of a regular x/y plots. The 'ggalluvial' package made a great job of translating that grammar into 'ggplot2' syntax and gives you many options to tweak the appearance of an alluvial plot, however there still remains a multi-layered complexity that makes it difficult to use 'ggalluvial' for explorative data analysis. 'easyalluvial' provides a simple interface to this package that allows you to produce a decent alluvial plot from any dataframe in either long or wide format from a single line of code while also handling continuous data. It is meant to allow a quick visualisation of entire dataframes with a focus on different colouring options that can make alluvial plots a great tool for data exploration. 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This package can perform descriptive statistics according to different data types. If the data is a continuous variable, the mean and standard deviation or median and quartiles are automatically output; if the data is a categorical variable, the number and percentage are automatically output. In addition, if you enter two variables in this package, the two variables will be described and their relationships will be tested automatically according to their data types. For example, if one of the two input variables is a categorical variable, another variable will be described hierarchically based on the categorical variable and the statistical differences between different groups will be compared using appropriate statistical methods. And for groups of more than two, the post hoc test will be applied. For more information on the methods we used, please see the following references: Libiseller, C. and Grimvall, A. (2002) , Patefield, W. M. (1981) , Hope, A. C. A. (1968) , Mehta, C. R. and Patel, N. R. (1983) , Mehta, C. R. and Patel, N. R. (1986) , Clarkson, D. B., Fan, Y. and Joe, H. (1993) , Cochran, W. G. (1954) , Armitage, P. (1955) , Szabo, A. (2016) , David, F. B. (1972) , Joanes, D. N. and Gill, C. A. (1998) , Dunn, O. J. (1964) , Copenhaver, M. D. and Holland, B. S. (1988) , Chambers, J. M., Freeny, A. and Heiberger, R. M. (1992) , Shaffer, J. P. (1995) , Myles, H. and Douglas, A. W. (1973) , Rahman, M. and Tiwari, R. (2012) , Thode, H. J. (2002) , Jonckheere, A. R. (1954) , Terpstra, T. J. (1952) . 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Package: r-cran-eatme Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-qcr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-eatme_0.1.0-1.ca2004.1_all.deb Size: 82712 MD5sum: dffdac5b2887a7cf497cfb53dc32d524 SHA1: 283676674ea7a6a8f636a90cf4a8ca832b9fbe61 SHA256: 4dd2e658ec9bf5a27fc2b9a09b844bd0361ecdebc348eac0b0dcae04e3b8c75e SHA512: 6c0a663a6b3df169ec33ef6eb8f84fe9484e92965447bfa470dcd7065413b04b61488de12ffd75c90b1e22bf6e6e71a875c1d98559ca22ccc55f3ff6d61e1ad0 Homepage: https://cran.r-project.org/package=EATME Description: CRAN Package 'EATME' (Exponentially Weighted Moving Average with Adjustments toMeasurement Error) The univariate statistical quality control tool aims to address measurement error effects when constructing exponentially weighted moving average p control charts. The method primarily focuses on binary random variables, but it can be applied to any continuous random variables by using sign statistic to transform them to discrete ones. With the correction of measurement error effects, we can obtain the corrected control limits of exponentially weighted moving average p control chart and reasonably adjusted exponentially weighted moving average p control charts. The methods in this package can be found in some relevant references, such as Chen and Yang (2022) ; Yang et al. (2011) ; Yang and Arnold (2014) ; Yang (2016) and Yang and Arnold (2016) . Package: r-cran-eatrep Architecture: all Version: 0.15.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1456 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survey, r-cran-bifiesurvey, r-cran-progress, r-cran-lavaan, r-cran-hmisc, r-cran-fmsb, r-cran-mice, r-cran-boot, r-cran-car, r-cran-reshape2, r-cran-plyr, r-cran-combinat, r-cran-miceadds, r-cran-tidyr, r-cran-effectliter, r-cran-estimatr, r-cran-eattools, r-cran-eatgads, r-cran-janitor, r-cran-msm, r-cran-lme4, r-cran-checkmate, r-cran-lifecycle, r-cran-dplyr, r-cran-future Suggests: r-cran-weights, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-zoo Filename: pool/dists/focal/main/r-cran-eatrep_0.15.2-1.ca2004.1_all.deb Size: 1214316 MD5sum: eda48671326d1ce0dbc059a1e972c8af SHA1: 00032e131831a5e0cba99a680282b5d19ea00ad7 SHA256: e199859deaffcfe7e8bd80138255cecab0402768bf44a1f80786d95dc8b55b21 SHA512: 0a2e25228eb5c03f26b53575d43fbe48dbc92dd6502d08ea2531836829d86ce64b27afd9da64eb0637177a04338ab45c6033c971faaba3b628d586a2e7c135dc Homepage: https://cran.r-project.org/package=eatRep Description: CRAN Package 'eatRep' (Educational Assessment Tools for Replication Methods) Replication methods to compute some basic statistic operations (means, standard deviations, frequency tables, percentiles, mean comparisons using weighted effect coding, generalized linear models, and linear multilevel models) in complex survey designs comprising multiple imputed or nested imputed variables and/or a clustered sampling structure which both deserve special procedures at least in estimating standard errors. See the package documentation for a more detailed description along with references. Package: r-cran-eattools Architecture: all Version: 0.7.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 288 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-stringi, r-cran-checkmate Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-eattools_0.7.8-1.ca2004.1_all.deb Size: 251160 MD5sum: ca544f01118e5274e47d889be9847ed5 SHA1: 2bae0def796100424571baf6c253b251636c83fe SHA256: 3e0d646b947a8738dab58e75f2c9dcdc5be300dd0dc4dc85e6d4e12d74f9c0d2 SHA512: 3200d74fc59cbbaeb07b49a6f38c7891cc4254fce312f574b38313ad197060c6f5f464860e8137a78fe913f86b612060917c60e909a9dcd3568350dc438af992 Homepage: https://cran.r-project.org/package=eatTools Description: CRAN Package 'eatTools' (Miscellaneous Functions for the Analysis of EducationalAssessments) Miscellaneous functions for data cleaning and data analysis of educational assessments. Includes functions for descriptive analyses, character vector manipulations and weighted statistics. Mainly a lightweight dependency for the packages 'eatRep', 'eatGADS', 'eatPrep' and 'eatModel' (which will be subsequently submitted to 'CRAN'). The function for defining (weighted) contrasts in weighted effect coding refers to te Grotenhuis et al. (2017) . Functions for weighted statistics refer to Wolter (2007) . Package: r-cran-eava Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 769 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-stringi, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eava_1.0.0-1.ca2004.1_all.deb Size: 297380 MD5sum: 06adf7a299dd234bdfa9173197e5476e SHA1: 6dc4777fa7bc8f352a2713256689b21726383a91 SHA256: 10f184f845f9be48d1c5db0cc47268237386cc5018f43bd00e204ee8822b3124 SHA512: a4790c9f371729864abef09af208c33214bd630d503a341c3744fefbc6f4a8c44182b8e347e98c32c9fbb72031a5639a558d7f8945e7aef491d92af7175e4b88 Homepage: https://cran.r-project.org/package=EAVA Description: CRAN Package 'EAVA' (Deterministic Verbal Autopsy Coding with Expert Algorithm VerbalAutopsy) Expert Algorithm Verbal Autopsy assigns causes of death to 2016 WHO Verbal Autopsy Questionnaire data. odk2EAVA() converts data to a standard input format for cause of death determination building on the work of Thomas (2021) . codEAVA() uses the presence and absence of signs and symptoms reported in the Verbal Autopsy interview to diagnose common causes of death. A deterministic algorithm assigns a single cause of death to each Verbal Autopsy interview record using a hierarchy of all common causes for neonates or children 1 to 59 months of age. Package: r-cran-eba Architecture: all Version: 1.10-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 286 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlme, r-cran-psychotools Filename: pool/dists/focal/main/r-cran-eba_1.10-1-1.ca2004.1_all.deb Size: 233804 MD5sum: 2a6f47b629ff6b41b47501cf61ec2718 SHA1: f9a101a2de011aeb2d7ad5c4137cbbdbf17add69 SHA256: 2b351c60a4e62b28a96def7dba5b4db960caea8b0871a3fef6b352e9cb727807 SHA512: 1861eb5ad0bf4bc3e9a046ddfb69874eff9fc6466daa238447bb91900bb19aa095a190a6266d3c65efcd1187d44827050dd4652ea866fad7841267e4d2bb488d Homepage: https://cran.r-project.org/package=eba Description: CRAN Package 'eba' (Elimination-by-Aspects Models) Fitting and testing multi-attribute probabilistic choice models, especially the Bradley-Terry-Luce (BTL) model (Bradley & Terry, 1952 ; Luce, 1959), elimination-by-aspects (EBA) models (Tversky, 1972 ), and preference tree (Pretree) models (Tversky & Sattath, 1979 ). Package: r-cran-ebal Architecture: all Version: 0.1-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ebal_0.1-8-1.ca2004.1_all.deb Size: 44112 MD5sum: dfe31e7bb0c598e71fb4770f99e2577a SHA1: 2d42c36ddf4b76f983c9a370b6c92c22c16e5935 SHA256: 38cc9d3faa380a2583ae031a5ad3e5f317f82890f7029038be006d9036cb63a1 SHA512: 314031a61c8314032a4361a051f3f9caf039d645c3f20cecd1ceae0aea37eaa18819e866671aee4fd9619122379418c88ff4069f9893c46dd2de7582c1fb6c76 Homepage: https://cran.r-project.org/package=ebal Description: CRAN Package 'ebal' (Entropy Reweighting to Create Balanced Samples) Package implements entropy balancing, a data preprocessing procedure described in Hainmueller (2008, ) that allows users to reweight a dataset such that the covariate distributions in the reweighted data satisfy a set of user specified moment conditions. This can be useful to create balanced samples in observational studies with a binary treatment where the control group data can be reweighted to match the covariate moments in the treatment group. Entropy balancing can also be used to reweight a survey sample to known characteristics from a target population. 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A mass balance equation is used that provides estimates of parameters for gross primary production, respiration, and gas exchange. Methods adapted from Grace et al. (2015) and Wanninkhof (2014) . Details in Beck et al. (2024) . 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The basic problem is to estimate a mean vector given a vector of observations of the mean vector plus white noise, taking advantage of possible sparsity in the mean vector. Within a Bayesian formulation, the elements of the mean vector are modelled as having, independently, a distribution that is a mixture of an atom of probability at zero and a suitable heavy-tailed distribution. The mixing parameter can be estimated by a marginal maximum likelihood approach. This leads to an adaptive thresholding approach on the original data. Extensions of the basic method, in particular to wavelet thresholding, are also implemented within the package. Package: r-cran-ebchs Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-fda Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ebchs_0.1.0-1.ca2004.1_all.deb Size: 49112 MD5sum: 25374aad762173a09bf1626f38f493bf SHA1: 4dbdc96b048e40b8bad5b279595324aada272455 SHA256: 10cabc48c8c81be711523e304fd46bdebe4de76c89338ff3c2a8533052fcb4ad SHA512: 3baaca67aca94f7e1dc129f24003dc16058babdef8704a91b472e0341deb1faa1714a8df86e950619804f068fcc871c8e61f96feec8614cd975cbf36f84d4c9d Homepage: https://cran.r-project.org/package=EBCHS Description: CRAN Package 'EBCHS' (An Empirical Bayes Method for Chi-Squared Data) We provide the main R functions to compute the posterior interval for the noncentrality parameter of the chi-squared distribution. The skewness estimate of the posterior distribution is also available to improve the coverage rate of posterior intervals. Details can be found in Du and Hu (2020) . 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The intervals are robust in the sense that they achieve correct coverage regardless of the distribution of the means. If the means are treated as fixed, the intervals have an average coverage guarantee. The implementation is based on Armstrong, Kolesár and Plagborg-Møller (2020) . 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These weights correspond to the probabilities of the variables being selected in the splitting rules of the sum-of-trees. Weights are estimated using empirical Bayes and external information on the explanatory variables (co-data). BART models are fitted using the 'dbarts' 'R' package. See Goedhart and others (2023) for details. 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The method is fully described in the manuscript by Shang, Tsao and Zhang (2025) : "Estimating the Joint Distribution of Two Binary Variables from Their Marginal Summaries". 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In order to distinguish the genomic structural variation from sequencing error, we propose a statistical model which involves the genotype effect through a latent variable to depict the distribution of non-reference allele frequency data among different samples and different genome loci, while decomposing the sequencing error into sample effect and positional effect. An ECM algorithm is implemented to estimate the model parameters, and then the genotypes and SNPs are inferred based on the empirical Bayes method. 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Package: r-cran-ebm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 619 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate, r-cran-ggplot2, r-cran-lattice Suggests: r-cran-htmltools, r-cran-islr2, r-cran-knitr, r-cran-rmarkdown, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-ebm_0.1.0-1.ca2004.1_all.deb Size: 501036 MD5sum: 5e462edf2004c0fc3656e8a887342a4f SHA1: ce928d08c64f26dca83ff48c37c2c8092fbd3eda SHA256: 5a917cf9243bc5fe99c93325ae32b1cfea31b637c344c6233b11957ac7aeee5f SHA512: 02ab2e2dca3fc59fefee56df42ac1d5f9fe2d1f49e2b4d119587692420a64be9e05a9ebf931313692e0a1fce2d1ba7d0de19db9f9b9ed2f5ddc215d06d207f6f Homepage: https://cran.r-project.org/package=ebm Description: CRAN Package 'ebm' (Explainable Boosting Machines) An interface to the 'Python' 'InterpretML' framework for fitting explainable boosting machines (EBMs); see Nori et al. (2019) for details. EBMs are a modern type of generalized additive model that use tree-based, cyclic gradient boosting with automatic interaction detection. They are often as accurate as state-of-the-art blackbox models while remaining completely interpretable. Package: r-cran-ebmc Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-e1071, r-cran-rpart, r-cran-c50, r-cran-randomforest, r-cran-proc, r-cran-smotefamily Filename: pool/dists/focal/main/r-cran-ebmc_1.0.1-1.ca2004.1_all.deb Size: 69432 MD5sum: abf2c1148a27f7e8a7078110ffd31b9c SHA1: 218185ad71f674062a91203ade9d1be01e66a4fa SHA256: 3a3b22edd9a0cd6f209b277a5322ea7ea1aa626fd5548f967cc42f4c5952ec3f SHA512: eef0b5dde458b632b815169417d6c29ccdcf3fd738c14b5f7ccddccd44fcf31f101c822821bb29a7c97f30c7ba66b4fd29ac76d9080be39de05b8696e3fbe6e8 Homepage: https://cran.r-project.org/package=ebmc Description: CRAN Package 'ebmc' (Ensemble-Based Methods for Class Imbalance Problem) Four ensemble-based methods (SMOTEBoost, RUSBoost, UnderBagging, and SMOTEBagging) for class imbalance problem are implemented for binary classification. Such methods adopt ensemble methods and data re-sampling techniques to improve model performance in presence of class imbalance problem. One special feature offers the possibility to choose multiple supervised learning algorithms to build weak learners within ensemble models. References: Nitesh V. Chawla, Aleksandar Lazarevic, Lawrence O. Hall, and Kevin W. Bowyer (2003) , Chris Seiffert, Taghi M. Khoshgoftaar, Jason Van Hulse, and Amri Napolitano (2010) , R. Barandela, J. S. Sanchez, R. M. Valdovinos (2003) , Shuo Wang and Xin Yao (2009) , Yoav Freund and Robert E. Schapire (1997) . Package: r-cran-ebnm Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 897 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ashr, r-cran-mixsqp, r-cran-truncnorm, r-cran-trust, r-cran-horseshoe, r-cran-deconvolver, r-cran-magrittr, r-cran-rlang, r-cran-dplyr, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-numderiv, r-cran-rebayes, r-cran-knitr, r-cran-rmarkdown, r-cran-cowplot Filename: pool/dists/focal/main/r-cran-ebnm_1.1-2-1.ca2004.1_all.deb Size: 693544 MD5sum: 1d09633c46a1e5c72ee01103adf25ef8 SHA1: 13390710584d533c95ad702d7332777d066ec61d SHA256: 7f348288ae068bbc0a20844cbfa47bf50aeeee54c3597209fe797190a63daf51 SHA512: e6eae3649bc3b51d20d6517c3198ad07d304476eaa99cfc3918a514f63597aa8b272f69803b1b1e26b5946feadce53a32898770f4079da657f722e41dab42761 Homepage: https://cran.r-project.org/package=ebnm Description: CRAN Package 'ebnm' (Solve the Empirical Bayes Normal Means Problem) Provides simple, fast, and stable functions to fit the normal means model using empirical Bayes. For available models and details, see function ebnm(). A detailed introduction to the package is provided by Willwerscheid and Stephens (2021) . Package: r-cran-ebprs Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rocr, r-cran-bedmatrix, r-cran-data.table Filename: pool/dists/focal/main/r-cran-ebprs_2.1.0-1.ca2004.1_all.deb Size: 55540 MD5sum: 184362d2032c233d3707302e630540d0 SHA1: 9ac2ad4fac3965f651e2493424cc3162dca574c3 SHA256: 0d9f9283d7ac2957213b0593ac28627ded0a03d34215f5bad77c110117c07254 SHA512: 7fd5f6180c513c2eb4ff17fccf7108507ce19019b1d5ae7de0a1e7df7f73059388c90995c06df8d01ba18b71101ba69117036c1f797b830c4ca8fd18ccdf5333 Homepage: https://cran.r-project.org/package=EBPRS Description: CRAN Package 'EBPRS' (Derive Polygenic Risk Score Based on Emprical Bayes Theory) EB-PRS is a novel method that leverages information for effect sizes across all the markers to improve the prediction accuracy. No parameter tuning is needed in the method, and no external information is needed. This R-package provides the calculation of polygenic risk scores from the given training summary statistics and testing data. We can use EB-PRS to extract main information, estimate Empirical Bayes parameters, derive polygenic risk scores for each individual in testing data, and evaluate the PRS according to AUC and predictive r2. See Song et al. (2020) for a detailed presentation of the method. Package: r-cran-ebrank Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ebrank_1.0.0-1.ca2004.1_all.deb Size: 33980 MD5sum: 10b3817de4c7ffe87592c81c454ee76b SHA1: d91aa46324ce7f90c1c6d3689f9626e392d4556d SHA256: 057fd20e7807605257a8716351e9c4669b7a22e05764362b61480561490b16a4 SHA512: fdafe8ea8fee05cfeeef17ef2910a63a64b4c253da7ea20ca22ee274d9158ee995b5782717c9d3dd376bfcb04cc4f8e3c536659217bfe748ad8ee9f058e1db94 Homepage: https://cran.r-project.org/package=EBrank Description: CRAN Package 'EBrank' (Empirical Bayes Ranking) Empirical Bayes ranking applicable to parallel-estimation settings where the estimated parameters are asymptotically unbiased and normal, with known standard errors. A mixture normal prior for each parameter is estimated using Empirical Bayes methods, subsequentially ranks for each parameter are simulated from the resulting joint posterior over all parameters (The marginal posterior densities for each parameter are assumed independent). Finally, experiments are ordered by expected posterior rank, although computations minimizing other plausible rank-loss functions are also given. 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The method was first presented in Martin, Ryan and Mess, Raymond and Walker, Stephen G (2017) . More details focused on the prediction problem are given in Martin, Ryan and Tang, Yiqi (2019) . Package: r-cran-ebsnp Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ebsnp_1.0-1.ca2004.1_all.deb Size: 16560 MD5sum: 393613da2d152deb0f6bc330116c5e60 SHA1: 544e96531cd81baa860f088c3e1cacd0c75cd5b0 SHA256: 5aa9b6519df6b0047f5efedcaa17d201c3546dac37abb21421023006ea5c9924 SHA512: 44b9f32e20c98bebb7cf0cce1937e12b589f5d8c3623d98bdf2762da5dac317103d564f17e7d058c89ade05af028cbe3f431046bc6eafefe36a93bb45bb1e1d5 Homepage: https://cran.r-project.org/package=ebSNP Description: CRAN Package 'ebSNP' (Genotyping and SNP calling using single-sample next generationsequencing data) Genotyping and SNP calling tool for single-sample next generation sequencing data analysis using an empirical Bayes method. 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It implements functions from the drc package in a way that is displayed a tidy data.frame as output. Info about the drc package is available in Ritz C, Baty F, Streibig JC, Gerhard D (2015) . 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Package: r-cran-ecic Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 697 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-furrr, r-cran-future, r-cran-ggplot2, r-cran-patchwork, r-cran-progress, r-cran-progressr Suggests: r-cran-tinytest Filename: pool/dists/focal/main/r-cran-ecic_0.0.4-1.ca2004.1_all.deb Size: 597900 MD5sum: 4a7e7d4e2670f648c4ead870d8107856 SHA1: 0a5ee5dda67052a83cfac4132490d2d27a395603 SHA256: 06bd5eddd0da69287009e37a136fab365e7a8caa28b0a4d194690c5064a1cfdb SHA512: d5b6a9f1dfbb7ad913d32367b422b50af0840158ea2c568d90653babdc2514eb58f5deed13168d0aac76f1e5c82087b1e7baf9b86a2e8218631c90051ee91c7f Homepage: https://cran.r-project.org/package=ecic Description: CRAN Package 'ecic' (Extended Changes-in-Changes) Extends the Changes-in-Changes model a la Athey and Imbens (2006) to multiple cohorts and time periods, which generalizes difference-in-differences estimation techniques to the entire distribution. Computes quantile treatment effects for every possible two-by-two combination in ecic(). Then, aggregating all bootstrap runs adds the standard errors in summary_ecic(). Results can be plotted with plot_ecic() aggregated over all cohort-group combinations or in an event-study style for either individual periods or individual quantiles. Package: r-cran-ecipex Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-chnosz Filename: pool/dists/focal/main/r-cran-ecipex_1.1.1-1.ca2004.1_all.deb Size: 41080 MD5sum: bb9b9c76255af40fbc2fa1e98459d9c9 SHA1: 59d6b63e6c24d139f142a2abc0f129c68b806076 SHA256: f0448164a1c0e84a51af4836d3595ad02bfd0044f062cebd2ef91cae95aac711 SHA512: 02c3ff19c95b5592034d13e720f27f20ab04341ac5e6e566ea9a04c1a4a1cc98170664363f9864c8a337db701cc192e321b2b7cbb2df78a8914176f7315559e9 Homepage: https://cran.r-project.org/package=ecipex Description: CRAN Package 'ecipex' (Efficient Calculation of Fine Structure Isotope Patterns viaFourier Transforms of Simplex-Based Elemental Models) Provides a function that quickly computes the fine structure isotope patterns of a set of chemical formulas to a given degree of accuracy (up to the limit set by errors in floating point arithmetic). A data-set comprising the masses and isotopic abundances of individual elements is also provided and calculation of isotopic gross structures is also supported. Package: r-cran-eclrmc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-softimpute Filename: pool/dists/focal/main/r-cran-eclrmc_1.0-1.ca2004.1_all.deb Size: 28744 MD5sum: 8d6c5cd3cdfb08ca3270edb687be6701 SHA1: 1432dc49d83c997013bbbb30238c17730fa0c00c SHA256: 395b9d81d45ee719044b461ace3a30ea8376bd900fb3974df7fe661f7cf03ce3 SHA512: ae798d63f2a50a143f6f6ccc18b5ffc64da94b4050ad23d3b748c102f2d8d49bf3eeca41f9135d1c931dc7a9fb68cc551f5627315479e936e9baadb86cc68ef1 Homepage: https://cran.r-project.org/package=ECLRMC Description: CRAN Package 'ECLRMC' (Ensemble Correlation-Based Low-Rank Matrix Completion) Ensemble correlation-based low-rank matrix completion method (ECLRMC) is an extension to the LRMC based methods. Traditionally, the LRMC based methods give identical importance to the whole data which results in emphasizing on the commonality of the data and overlooking the subtle but crucial differences. This method aims to overcome the equality assumption problem that exists in the current LRMS based methods. Ensemble correlation-based low-rank matrix completion (ECLRMC) takes consideration of the specific characteristic of each sample and performs LRMC on the set of samples with a strong correlation. It uses an ensemble learning method to improve the imputation performance. Since each sample is analyzed independently this method can be parallelized by distributing imputation across many computation units or GPU platforms. This package provides three different methods (LRMC, CLRMC and ECLRMC) for data imputation. There is also an NRMS function for evaluating the result. Chen, Xiaobo, et al (2017) . Package: r-cran-eclust Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4677 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-data.table, r-cran-dynamictreecut, r-cran-magrittr, r-cran-pacman, r-cran-wgcna, r-cran-stringr, r-cran-pander Suggests: r-cran-cluster, r-cran-earth, r-cran-ncvreg, r-cran-knitr, r-cran-rmarkdown, r-cran-protoclust, r-cran-factoextra, r-bioc-complexheatmap, r-cran-circlize, r-cran-pheatmap, r-cran-viridis, r-cran-proc, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-eclust_0.1.0-1.ca2004.1_all.deb Size: 4500048 MD5sum: 9beee480fcc33e8475546c53e727bdf3 SHA1: 809ef74c539c46bf2d5a41dae19a390b076f48a5 SHA256: 8549e57b4972c9b7dc39d0209c58f9ff5892f3252a250eb827da5984e4ab8dd9 SHA512: a838333dc2f931864df511bdcce45762282ddb4111f7aa157633e7ead7351c3d7afbd7f7fd7e0774151e34a8f2331efde2179cfd45a7f80c961cc27dca09c1f7 Homepage: https://cran.r-project.org/package=eclust Description: CRAN Package 'eclust' (Environment Based Clustering for Interpretable Predictive Modelsin High Dimensional Data) Companion package to the paper: An analytic approach for interpretable predictive models in high dimensional data, in the presence of interactions with exposures. Bhatnagar, Yang, Khundrakpam, Evans, Blanchette, Bouchard, Greenwood (2017) . This package includes an algorithm for clustering high dimensional data that can be affected by an environmental factor. Package: r-cran-ecm Architecture: all Version: 7.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-car, r-cran-earth Filename: pool/dists/focal/main/r-cran-ecm_7.2.0-1.ca2004.1_all.deb Size: 66116 MD5sum: 8b9639eabf47353dbd413e99b1c3d755 SHA1: cb809e41d0028940bc26388dfd3deb86d14b1bc8 SHA256: 3b8e34a176072e592ce3d50cded4dd2f228ecbb21de450d3bd7b718be5277ab1 SHA512: c3c53e8eb06148d7381b4c66f21b42135892fb656a7b52c7943155f421a999ebdca4461892ce2fca233a4ee4edc36d2f98505598d85edebb45d679625da806a2 Homepage: https://cran.r-project.org/package=ecm Description: CRAN Package 'ecm' (Build Error Correction Models) Functions for easy building of error correction models (ECM) for time series regression. Package: r-cran-ecmwfr Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 715 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-memoise, r-cran-getpass, r-cran-r6, r-cran-keyring Suggests: r-cran-rmarkdown, r-cran-covr, r-cran-xml2, r-cran-testthat, r-cran-terra, r-cran-maps, r-cran-ncdf4, r-cran-knitr, r-cran-rlang, r-cran-rstudioapi, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-ecmwfr_2.0.3-1.ca2004.1_all.deb Size: 464124 MD5sum: 07d9b8b21046bd2b1b7b67b3ffcfaf24 SHA1: 028e9694e923c86983b0c6fca8afd681711d3c92 SHA256: f4ae0fe2c550d387b8cd9d55efc677c3e8b8c4525f401bce39d702eca9b286ab SHA512: 4ff452155f55ac4e8556ab469d86a9724348f6f546cbb4175016e000a65e587a139dd30bd223fa199ce10765f1b50d313846f6ac09c36a56ef388227e144e823 Homepage: https://cran.r-project.org/package=ecmwfr Description: CRAN Package 'ecmwfr' (Interface to 'ECMWF' and 'CDS' Data Web Services) Programmatic interface to the European Centre for Medium-Range Weather Forecasts dataset web services (ECMWF; ) and Copernicus's Data Stores. Allows for easy downloads of weather forecasts and climate reanalysis data in R. Data stores covered include the Climate Data Store (CDS; ), Atmosphere Data Store (ADS; ) and Early Warning Data Store (CEMS; ). Package: r-cran-ecocbo Architecture: all Version: 0.12.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 651 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-ggpubr, r-cran-sampling, r-cran-rlang, r-cran-foreach, r-cran-doparallel, r-cran-dosnow, r-cran-vegan, r-cran-ssp Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ecocbo_0.12.0-1.ca2004.1_all.deb Size: 547508 MD5sum: c2da419869851a757fb0cae51aa03c78 SHA1: a6f5aabc25d9c2541c079ded02c167618c210719 SHA256: 317993a9c89c55d5402d99771eaaf9b9412dc550570f4c54c664a6d20b019fb4 SHA512: 26f4afb43a373639536eb45239d58d119e4b1a3605b4f011906b20a45e63e4fdbe9dbdbd9f90f0eb3d2d135d14498a5607692b57cd38055417165b33d1820703 Homepage: https://cran.r-project.org/package=ecocbo Description: CRAN Package 'ecocbo' (Calculating Optimum Sampling Effort in Community Ecology) A system for calculating the optimal sampling effort, based on the ideas of "Ecological cost-benefit optimization" as developed by A. Underwood (1997, ISBN 0 521 55696 1). Data is obtained from simulated ecological communities with prep_data() which formats and arranges the initial data, and then the optimization follows the following procedure of four functions: (1) scompvar() calculates the variation components necessary for (2) sim_cbo() to calculate the optimal combination of number of sites and samples depending on either an economic budget or on a desired statistical accuracy. Additionally, (3) sim_beta() estimates statistical power and type 2 error by using Permutational Multivariate Analysis of Variance, and (6) plot_power() represents the results of the previous function. Package: r-cran-ecochange Architecture: all Version: 2.9.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1170 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-raster, r-cran-sf, r-cran-rastervis, r-cran-sp, r-cran-ggplot2, r-cran-landscapemetrics, r-cran-tibble, r-cran-httr, r-cran-getpass, r-cran-rlang, r-cran-lattice, r-cran-rasterdt Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-curl, r-cran-xml2, r-cran-rvest, r-cran-viridis Filename: pool/dists/focal/main/r-cran-ecochange_2.9.3.3-1.ca2004.1_all.deb Size: 948436 MD5sum: 6921abe5191e315feef5a00ede2a5b46 SHA1: 8e6972281d316e0726918832f488451d595adf7d SHA256: 8defc0f69b46aeca47432c303f6edb3fde8794dd10d6dd5df3a4b6dab19a36a0 SHA512: 75ccb966f4fa6641b67168f86db5bae51d7575f5521124bc02f4a49594c98d7651698b574d77c1b33d7df799bb48412be2b5b2b5b616446130043fadd7e84926 Homepage: https://cran.r-project.org/package=ecochange Description: CRAN Package 'ecochange' (Integrating Ecosystem Remote Sensing Products to Derive EBVIndicators) Essential Biodiversity Variables (EBV) are state variables with dimensions on time, space, and biological organization that document biodiversity change. Freely available ecosystem remote sensing products (ERSP) are downloaded and integrated with data for national or regional domains to derive indicators for EBV in the class ecosystem structure (Pereira et al., 2013) , including horizontal ecosystem extents, fragmentation, and information-theory indices. To process ERSP, users must provide a polygon or geographic administrative data map. Downloadable ERSP include Global Surface Water (Peckel et al., 2016) , Forest Change (Hansen et al., 2013) , and Continuous Tree Cover data (Sexton et al., 2013) . Package: r-cran-ecocomdp Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4321 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcolorbrewer, r-cran-data.table, r-cran-dplyr, r-cran-eml, r-cran-emld, r-cran-geosphere, r-cran-ggplot2, r-cran-httr, r-cran-lubridate, r-cran-magrittr, r-cran-neonutilities, r-cran-rlang, r-cran-rmarkdown, r-cran-stringr, r-cran-tidyr, r-cran-uuid, r-cran-xml2, r-cran-neonos Suggests: r-cran-knitr, r-cran-mime, r-cran-reader, r-cran-ritis, r-cran-taxize, r-cran-testthat, r-cran-worrms, r-cran-ggrepel, r-cran-usmap, r-cran-sf, r-cran-maps Filename: pool/dists/focal/main/r-cran-ecocomdp_1.3.2-1.ca2004.1_all.deb Size: 3006340 MD5sum: 3760d4c12e7b627dc9ca3e03d1a481b1 SHA1: 39f44242fd633d24bd70a46f8a6741b643fdf817 SHA256: cfcbfb3a64c8bf3f6fe093b3ef0bd935c40ee274b601dcd8bf683ff3b4453a89 SHA512: b5d0dfd7f9860a23a5660f20c35ddb72f20ba89b72278cdd9c3e939de4768162e4612a713a76b9dd7f3d6a536d080f294a403a3ad1de857c800169b88901582c Homepage: https://cran.r-project.org/package=ecocomDP Description: CRAN Package 'ecocomDP' (Tools to Create, Use, and Convert ecocomDP Data) Work with the Ecological Community Data Design Pattern. 'ecocomDP' is a flexible data model for harmonizing ecological community surveys, in a research question agnostic format, from source data published across repositories, and with methods that keep the derived data up-to-date as the underlying sources change. Described in O'Brien et al. (2021), . Package: r-cran-ecocopula Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 382 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvabund, r-cran-glasso, r-cran-plyr, r-cran-sna, r-cran-mass, r-cran-tweedie, r-cran-igraph, r-cran-betareg, r-cran-doparallel, r-cran-mgcv, r-cran-glm2, r-cran-ordinal, r-cran-foreach Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr, r-cran-ggplot2, r-cran-rcolorbrewer, r-cran-ggraph, r-cran-labdsv, r-cran-tidygraph Filename: pool/dists/focal/main/r-cran-ecocopula_1.0.2-1.ca2004.1_all.deb Size: 259872 MD5sum: b7a470a5af1ce7e139246b50e4b4f968 SHA1: 94f21c5ee3b2221bcf75851004eeb025a6f39144 SHA256: f38d03558103dbc874507e357d175943edf15942fdf7f2056fd40ac328a12d03 SHA512: 8f31de81130958089a7712d2d5ae993ed2c6ce0dd5f5a5f08d11ff7e5b5bca195879dedae3b0021ca89c5999bdc5ea2a0e17fede0dbeb95c388e4dfa14db3169 Homepage: https://cran.r-project.org/package=ecoCopula Description: CRAN Package 'ecoCopula' (Graphical Modelling and Ordination using Copulas) Creates 'graphs' of species associations (interactions) and ordination biplots from co-occurrence data by fitting discrete gaussian copula graphical models. Methods described in Popovic, GC., Hui, FKC., Warton, DI., (2018) . Package: r-cran-ecode Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-cowplot, r-cran-rlang, r-cran-stringr Filename: pool/dists/focal/main/r-cran-ecode_0.1.0-1.ca2004.1_all.deb Size: 180772 MD5sum: 7ab5acc854c96bfe0efae541ab81c109 SHA1: 7fa0a53d2490e70c2ea67c25faf07dbbcf9cfaf1 SHA256: 903ff6eb6a8fe39117e1d5f151a4128f596410a0d126389048a513f10cc81406 SHA512: 3430abc66abc00b2a37e71e1a5132851aaf14fe82b5fbaf053ec16f300e5aae6a73392b802c45d2206d554a769652d0bb217241e603f286ede1d1bac41c13eb1 Homepage: https://cran.r-project.org/package=ecode Description: CRAN Package 'ecode' (Ordinary Differential Equation Systems in Ecology) A framework to simulate ecosystem dynamics through ordinary differential equations (ODEs). You create an ODE model, tells 'ecode' to explore its behaviour, and perform numerical simulations on the model. 'ecode' also allows you to fit model parameters by machine learning algorithms. Potential users include researchers who are interested in the dynamics of ecological community and biogeochemical cycles. Package: r-cran-ecodiet Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2649 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-coda, r-cran-jagsui, r-cran-ggmcmc Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ecodiet_2.0.1-1.ca2004.1_all.deb Size: 2023852 MD5sum: 875f081fbadb09e82b4f6616db8fa135 SHA1: 11fc13c7974db85d584289a87f16eacd0135560c SHA256: 76bdd6c3833fd1c66f141e0c5433987008ee631f1147b2001fdd59c51f1cfc1b SHA512: eedd0b60740b261a2df6648119b926e54715094a85378b75e1e2b23845708fd49d0a07cb1c8dfd9a428ebb1d8b6e6858c475730dd6f1a4cdcd501845eaf151a4 Homepage: https://cran.r-project.org/package=EcoDiet Description: CRAN Package 'EcoDiet' (Estimating a Diet Matrix from Biotracer and Stomach Content Data) Biotracers and stomach content analyses are combined in a Bayesian hierarchical model to estimate a probabilistic topology matrix (all trophic link probabilities) and a diet matrix (all diet proportions). 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Package: r-cran-ecohydmod Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ecohydmod_1.0.0-1.ca2004.1_all.deb Size: 25844 MD5sum: 2b83cf817770b4f9d0089c96e31c459c SHA1: 8bbd5af0799a126a393e2f81aec3f9c54d1caabf SHA256: d28e80db64da490249ff079098b6b6f9a735b6a4706d55b85c893f3a8ee8710e SHA512: 4a8d0c43ce0d45dc161ad6c1fffdfc05934807d90cee11612530906ba0bc3da10011e8ed37519823378dcb4913243d6696635d730aeeab56d404dc95f7a56634 Homepage: https://cran.r-project.org/package=Ecohydmod Description: CRAN Package 'Ecohydmod' (Ecohydrological Modelling) Simulates the soil water balance (soil moisture, evapotranspiration, leakage and runoff), rainfall series by using the marked Poisson process and the vegetation growth through the normalized difference vegetation index (NDVI). Please see Souza et al. (2016) . 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Package: r-cran-ecol Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-e1071, r-cran-fnn, r-cran-igraph, r-cran-mass Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ecol_0.3.0-1.ca2004.1_all.deb Size: 119304 MD5sum: 60bcb07a8dde200110a2664747867dc1 SHA1: 2455fe4e567b2141c8e89b59f05f1313ae537089 SHA256: ccb0cfaf947f3b963077c07683c61d52c8d2391d1181ddfe66abf73823e5c1c9 SHA512: f758ca82ac43678debe3b788385d433d3a117d7b3260ef8c9ab2d8c14699623408366ca2f22b7ccdd7178216027826d47253a27ae9a73d467d40f94eaf8f0539 Homepage: https://cran.r-project.org/package=ECoL Description: CRAN Package 'ECoL' (Complexity Measures for Supervised Problems) Provides measures to characterize the complexity of classification and regression problems based on aspects that quantify the linearity of the data, the presence of informative feature, the sparsity and dimensionality of the datasets. This package provides bug fixes, generalizations and implementations of many state of the art measures. The measures are described in the papers: Lorena et al. (2019) and Lorena et al. (2018) . 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The package includes a tool for estimating parameters of community assembly by using Approximate Bayesian Computation. 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''Ecological Inference and Aggregate Analysis of Election''. PhD Dissertation. University of Michigan. Thomsen, S.R. (1987, ISBN:87-7335-037-2). ''Danish Elections 1920 79: a Logit Approach to Ecological Analysis and Inference''. Politica, Aarhus, Denmark. Package: r-cran-ecoltest Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ecoltest_0.0.1-1.ca2004.1_all.deb Size: 30656 MD5sum: 09b9a2a7304f5c8bc54d3ee0d5bb06b9 SHA1: e4abc7b8102b3178cfc230c000be0c6d9ee5b8e9 SHA256: a693dbd1894b1dbe31ba001532e9e3fdefcafd0cb6958e8dc982e1e8d1bf4792 SHA512: 9c730643e2e169fda11f05d76e3a0424c3c50d5ca0f5cfa2bc3872a81f53a34673df1e12d69f929582de348c36786e8c60195676a3d939c8bde939233f2e328e Homepage: https://cran.r-project.org/package=ecolTest Description: CRAN Package 'ecolTest' (Community Ecology Tests) Functions and data sets to perform and demonstrate community ecology statistical tests, including Hutcheson's t-test (Hutcheson (1970) , Zar (2010) ISBN:9780321656865). 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Package: r-cran-econid Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 491 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-purrr, r-cran-fuzzyjoin, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat, r-cran-stringr, r-cran-withr Filename: pool/dists/focal/main/r-cran-econid_0.0.1-1.ca2004.1_all.deb Size: 386576 MD5sum: 55000aeb77bb452e8c1f69e451f1e615 SHA1: e985b0b1188a7b8f7333b827fb8e0d15e076177a SHA256: 5c15359559e418ff458a2888004357b92b5832d0c2d044ba780e29cf322af5b6 SHA512: dfd0ab5a95927de00aec79ed7d329c61451711cc21a80bd9206897d78a5d49afeee1f9a3639b570f013dcd50ba2f2f02291497f9b15ba95c826f09d5fe427b3c Homepage: https://cran.r-project.org/package=econid Description: CRAN Package 'econid' (Economic Entity Identifier Standardization) Provides utility functions for standardizing economic entity (economy, aggregate, institution, etc.) name and id in economic datasets such as those published by the International Monetary Fund and World Bank. 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Package: r-cran-ecorisk Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1845 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-colorspace, r-cran-forecast, r-cran-geomtextpath, r-cran-ggnewscale, r-cran-ggplot2, r-cran-ggpubr, r-cran-gridextra, r-cran-mgcv, r-cran-rlang, r-cran-tibble Suggests: r-cran-dplyr, r-cran-kableextra, r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-ecorisk_0.1.1-1.ca2004.1_all.deb Size: 1240716 MD5sum: 0dad6c934ae507f12c31dbff009710a1 SHA1: bee27338da7a2dcdeb36580f09d07bc88df6f906 SHA256: a150404d6a21051e3669db93898c0191717ab36e270fe6d05ae1316c5a1a183f SHA512: ed8c55a6470814cc2c211aa48b30a30dffa4229569df082ded6bfc5062cce93acddf2ada67e77a91209d12a9882c5f3ec2aa7ad2a9623146a602f701c1fbf9f1 Homepage: https://cran.r-project.org/package=ecorisk Description: CRAN Package 'ecorisk' (Risk Assessments for Ecosystems or Ecosystem Components) Implementation of a modular framework for ecosystem risk assessments, combining existing risk assessment approaches tailored to semi-quantitative and quantitative analyses. 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Package: r-cran-ecosim Architecture: all Version: 1.3-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 278 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-desolve, r-cran-stoichcalc Filename: pool/dists/focal/main/r-cran-ecosim_1.3-4-1.ca2004.1_all.deb Size: 113680 MD5sum: 50730ba849a877350d01f987573b3adc SHA1: 7ac37f25a7662e578708fec3393b3893b36e4ea7 SHA256: 21d047343ec69b812ca130d69791e15cda82680fdbfa108927f00e55340fedb9 SHA512: 8acc4ab64de97a645a69bf1447f8cb5fcc1c3c08982cf43f3ae2ecda582b0b7f8a0a2f392af6d6f8c20169fc2deeca474355e0eac6bd6a824e02e1cd9df57ad0 Homepage: https://cran.r-project.org/package=ecosim Description: CRAN Package 'ecosim' (Toolbox for Aquatic Ecosystem Modeling) Classes and methods for implementing aquatic ecosystem models, for running these models, and for visualizing their results. Package: r-cran-ecospace Architecture: all Version: 1.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 331 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fd Suggests: r-cran-vegan, r-cran-knitr, r-cran-rmarkdown, r-cran-data.table Filename: pool/dists/focal/main/r-cran-ecospace_1.4.2-1.ca2004.1_all.deb Size: 207696 MD5sum: 55fdef602de4ea484123ade8b5b79cc0 SHA1: 94475dbd9f0dcc54c231085b43a849003cc29f37 SHA256: 899f682e2aebc12a72e57d487d503bdae0bfa888412466bf3c167cd29fa03554 SHA512: d3f1e032865ac394dad211631e0bd276989a3b42fae82dda43353f3efb738d80aad093ca338f03b6e15c830ab02a9e819dd30c841a11bfda8fd922805d5cab06 Homepage: https://cran.r-project.org/package=ecospace Description: CRAN Package 'ecospace' (Simulating Community Assembly and Ecological DiversificationUsing Ecospace Frameworks) Implements stochastic simulations of community assembly (ecological diversification) using customizable ecospace frameworks (functional trait spaces). Provides a wrapper to calculate common ecological disparity and functional ecology statistical dynamics as a function of species richness. Functions are written so they will work in a parallel-computing environment. Package: r-cran-ecospat Architecture: all Version: 4.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1912 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ade4, r-cran-gbm, r-cran-foreach, r-cran-adehabitathr, r-cran-adehabitatma, r-cran-biomod2, r-cran-dismo, r-cran-ecodist, r-cran-terra, r-cran-gtools, r-cran-presenceabsence, r-cran-classint, r-cran-vegan, r-cran-poibin, r-cran-matrixstats, r-cran-ks, r-cran-nabor, r-cran-hmisc Suggests: r-cran-rjava, r-cran-knitr, r-cran-alphahull, r-cran-snowfall, r-cran-dplyr, r-cran-maps, r-cran-rms, r-cran-sp, r-cran-ape, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-ecospat_4.1.2-1.ca2004.1_all.deb Size: 1743384 MD5sum: 33f96c40d0a658ed82c12a1b97c6d995 SHA1: 1ab8f0211d885cf4b11c25f1db2f984be8269bcf SHA256: f4d37e8af80f5a57c357b0821ce6940f95850683e44608461394c94d9be98bf6 SHA512: 40f6ae2bcb9469d23065c3f09d2ef2de199c030193bd96e4026ea1c037e0debe4873ec7f3242b139e4f2f3c4fc41d4530b55a676fb398c7a103afcad062078b4 Homepage: https://cran.r-project.org/package=ecospat Description: CRAN Package 'ecospat' (Spatial Ecology Miscellaneous Methods) Collection of R functions and data sets for the support of spatial ecology analyses with a focus on pre, core and post modelling analyses of species distribution, niche quantification and community assembly. Written by current and former members and collaborators of the ecospat group of Antoine Guisan, Department of Ecology and Evolution (DEE) and Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Switzerland. Read Di Cola et al. (2016) for details. Package: r-cran-ecostate Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 259 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rtmb, r-cran-tmb, r-cran-mass, r-cran-checkmate, r-cran-ggplot2, r-cran-ggnetwork, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ecostate_0.2.0-1.ca2004.1_all.deb Size: 188560 MD5sum: 9a6bf2d2d8691c2fbe36db4608f879a1 SHA1: a72f5d64594040614b5e59064ac626b6ed3dc93c SHA256: d0823beef6fb14188722795342827008c380f2bf58864aad4cecabc908ed22a3 SHA512: 36f898a4f4150f903c2bb46f3046cfe5a8321d61d81aa64f8692febf655cb80855a30aaecd7e4e391ae8051510ea4814ef0dd6bae6b03b00b611629ce8858c23 Homepage: https://cran.r-project.org/package=ecostate Description: CRAN Package 'ecostate' (State-Space Mass-Balance Model for Marine Ecosystems) Fits a state-space mass-balance model for marine ecosystems, which implements dynamics derived from 'Ecopath with Ecosim' while fitting to time-series of fishery catch, biomass indices, age-composition samples, and weight-at-age data. Package 'ecostate' fits biological parameters (e.g., equilibrium mass) and measurement parameters (e.g., catchability coefficients) jointly with residual variation in process errors, and can include Bayesian priors for parameters. Package: r-cran-ecostats Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4735 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mvabund, r-cran-ecocopula, r-cran-get, r-cran-mass, r-cran-mgcv, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ade4, r-cran-caper, r-cran-car, r-cran-corrplot, r-cran-daag, r-cran-dharma, r-cran-dplyr, r-cran-gclus, r-cran-ggally, r-cran-ggplot2, r-cran-ggthemes, r-cran-glmnet, r-cran-gllvm, r-cran-glmmtmb, r-cran-gparotation, r-cran-grplasso, r-cran-lattice, r-cran-leaps, r-cran-lme4, r-cran-mcmcglmm, r-cran-multcomp, r-cran-nlme, r-cran-ordinal, r-cran-permute, r-cran-pgirmess, r-cran-phylobase, r-cran-phylosignal, r-cran-psych, r-cran-reshape2, r-cran-smatr, r-cran-testthat, r-cran-vegan, r-cran-vgam, r-cran-covr Filename: pool/dists/focal/main/r-cran-ecostats_1.2.2-1.ca2004.1_all.deb Size: 2619272 MD5sum: fff987d3cd8955e37415448030ca2df3 SHA1: 45765e55067624e1c1370f2d5f3affdc124e59c7 SHA256: 46fe8a647da2d9603a295ee7d3b788dd20265565072a14b3a4963aa65b583845 SHA512: bbb500ad545ba62fa3ef87a95173f83cfafcc1500abc6746906ba7f05c93f71248706e43dc990e8d8d95b4d133ff6bf9990ef923e5385bf74101d6824b3ad0ab Homepage: https://cran.r-project.org/package=ecostats Description: CRAN Package 'ecostats' (Code and Data Accompanying the Eco-Stats Text (Warton 2022)) Functions and data supporting the Eco-Stats text (Warton, 2022, Springer), and solutions to exercises. Functions include tools for using simulation envelopes in diagnostic plots, and a function for diagnostic plots of multivariate linear models. Datasets mentioned in the package are included here (where not available elsewhere) and there is a vignette for each chapter of the text with solutions to exercises. Package: r-cran-ecostatscale Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mvtnorm, r-cran-desolve Filename: pool/dists/focal/main/r-cran-ecostatscale_1.1-1.ca2004.1_all.deb Size: 48904 MD5sum: c4b2a3cdb43a12f1ab4993ed4b8bceb9 SHA1: 14084a28033a584861fb0964d2cf1ca89a70a4f2 SHA256: 67fc23a4c0399cb4b279a6cd9c673c8d6c339765d2d5277f53057dc6d0098e01 SHA512: 810c172c26d1ad93ce1a39ae6037de94d55a2ad3c4b9336029a7d9e945b6763bb2221d6874036c87c49e5012e68b0459d073ae428cbec09b611d66c4aaafe19c Homepage: https://cran.r-project.org/package=ecostatscale Description: CRAN Package 'ecostatscale' (Statistical Scaling Functions for Ecological Systems) Implementation of the scaling functions presented in "General statistical scaling laws for stability in ecological systems" by Clark et al in Ecology Letters . Includes functions for extrapolating variability, resistance, and resilience across spatial and ecological scales, as well as a basic simulation function for producing time series, and a regression routine for generating unbiased parameter estimates. See the main text of the paper for more details. Package: r-cran-ecoteach Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 247 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ecoteach_0.1.0-1.ca2004.1_all.deb Size: 183336 MD5sum: 97a94f0926dfe8899b7dafabe7ae12ea SHA1: 9a6471b8a720b1e56a0304bf27529c31f0bed018 SHA256: 766310718649169444eb3cd5ed7fb3dbef8212268e5dcb0f1fff3569dd0f8519 SHA512: 366b57233a83a740ffdd5af1097e2df13ab9cd22ea577e24b9a3c708e83e4a1582a1f077771a7c61f841a7dac041b873848f03c97681cdccb00ce626a0adcd07 Homepage: https://cran.r-project.org/package=ecoteach Description: CRAN Package 'ecoteach' (Educational Datasets for Ecology and Agriculture) A collection of curated educational datasets for teaching ecology and agriculture concepts. Includes data on wildlife monitoring, plant treatments, and ecological observations with documentation and examples for educational use. All datasets are derived from published scientific studies and are available under CC0 or compatible licenses. Package: r-cran-ecotonefinder Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 242 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-colorspace, r-cran-corrplot, r-cran-e1071, r-cran-ggplot2, r-cran-qgraph, r-cran-igraph, r-cran-philentropy, r-cran-plyr, r-cran-purrr, r-cran-reshape, r-cran-rlang, r-cran-rmisc, r-cran-vegan, r-cran-vegclust, r-cran-withr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-bookdown Filename: pool/dists/focal/main/r-cran-ecotonefinder_0.2.3-1.ca2004.1_all.deb Size: 213484 MD5sum: 93f8616e5bbc42f007d2fe28c0c8b129 SHA1: fb5a66d1da3968b55d1a98a384ec7dac68950efa SHA256: 3804de9e795bb9f194dbcf504edf9392a61c432a9206bce84c8d90da2874e3c9 SHA512: f7efd0225af60794270e0172e9285a5f829b2730d471dfa2e2438c029c6454a96e285fc8fb3b85bb11fd51d6ef96c9eaa87bcd4d01a2a29aed59149a6af165ba Homepage: https://cran.r-project.org/package=EcotoneFinder Description: CRAN Package 'EcotoneFinder' (Characterising and Locating Ecotones and Communities) Analytical methods to locate and characterise ecotones, ecosystems and environmental patchiness along ecological gradients. Methods are implemented for isolated sampling or for space/time series. It includes Detrended Correspondence Analysis (Hill & Gauch (1980) ), fuzzy clustering (De Cáceres et al. (2010) ), biodiversity indices (Jost (2006) ), and network analyses (Epskamp et al. (2012) ) - as well as tools to explore the number of clusters in the data. Functions to produce synthetic ecological datasets are also provided. Package: r-cran-ecotox Architecture: all Version: 1.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-covr, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-hmisc, r-cran-openxlsx, r-cran-readr, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-ecotox_1.4.4-1.ca2004.1_all.deb Size: 90504 MD5sum: 0de96d613f9dc5285814fac57038c383 SHA1: aa120f456d91fd65405740ec648da957ddddce13 SHA256: b3f21c1b5e954627b54b97dae1258818166621a30031ea3f4201cf90ceb5c4b4 SHA512: 4cf945620c6a649c5be203cb3cb5f9b3658cb6ceeb5be42c1b3b2a7be25a68814436ca2fba5207a3c658c81d0180ef25e90f4976094d74dbb223097e5ed9af1a Homepage: https://cran.r-project.org/package=ecotox Description: CRAN Package 'ecotox' (Analysis of Ecotoxicology) A simple approach to using a probit or logit analysis to calculate lethal concentration (LC) or time (LT) and the appropriate fiducial confidence limits desired for selected LC or LT for ecotoxicology studies (Finney 1971; Wheeler et al. 2006; Robertson et al. 2007). The simplicity of 'ecotox' comes from the syntax it implies within its functions which are similar to functions like glm() and lm(). In addition to the simplicity of the syntax, a comprehensive data frame is produced which gives the user a predicted LC or LT value for the desired level and a suite of important parameters such as fiducial confidence limits and slope. Finney, D.J. (1971, ISBN: 052108041X); Wheeler, M.W., Park, R.M., and Bailer, A.J. (2006) ; Robertson, J.L., Savin, N.E., Russell, R.M., and Preisler, H.K. (2007, ISBN: 0849323312). Package: r-cran-ecotoxicology Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ecotoxicology_1.0.1-1.ca2004.1_all.deb Size: 211876 MD5sum: fe227e758ffcdd6f0f080ef30aa1aa0f SHA1: 80480ba4a11958fec6b208ffa49c5971fc05a038 SHA256: 70c1d36b3dd5da5ffd3a28dea436a427d6a387bfec7932e6aa46c0ef6bc382cd SHA512: c5b8a6b99c205a9b133b392160ec8c25bc956cd7572383af964fc23ab586c15d9b0f572a5e225bd677e0a16bfc6fc985cf05d906525bb77c28107cc2e9817a15 Homepage: https://cran.r-project.org/package=ecotoxicology Description: CRAN Package 'ecotoxicology' (Methods for Ecotoxicology) Implementation of the EPA's Ecological Exposure Research Division (EERD) tools (discontinued in 1999) for Probit and Trimmed Spearman-Karber Analysis. Probit and Spearman-Karber methods from Finney's book "Probit analysis a statistical treatment of the sigmoid response curve" with options for most accurate results or identical results to the book. Probit and all the tables from Finney's book (code-generated, not copied) with the generating functions included. Control correction: Abbott, Schneider-Orelli, Henderson-Tilton, Sun-Shepard. 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As the online search interface doesn't come with an API, this package provides the means to easily access and search the database in R. To this end, all raw tables are downloaded from the EPA website and stored in a local SQLite database . Package: r-cran-ecotrends Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1177 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-collinear, r-cran-fuzzysim, r-cran-maxnet, r-cran-modeva, r-cran-terra, r-cran-trend Filename: pool/dists/focal/main/r-cran-ecotrends_1.0-1.ca2004.1_all.deb Size: 942232 MD5sum: 9b9c59ad6bb63cb31db377ae1229bc6e SHA1: b7505df0697eade4ff6530bc0eee8652f437cbc8 SHA256: 64a4b87b56d126927979d50ec8014a2703939931674f1dc866f2b2e0cbb55baf SHA512: 527d137d85010a99d9adcab96246bf9a837f33499d1b2c86cfc4dae483c588bb55b0a8462ecf33c7447a29091b9fbf74fd208d4ef3bc88bf4d07fe3f4960c1c5 Homepage: https://cran.r-project.org/package=ecotrends Description: CRAN Package 'ecotrends' (Temporal Trends in Ecological Niche Models) Computes temporal trends in environmental suitability obtained from ecological niche models, based on a set of species presence point coordinates and predictor variables. Package: r-cran-ecotroph Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml Filename: pool/dists/focal/main/r-cran-ecotroph_1.6.1-1.ca2004.1_all.deb Size: 153600 MD5sum: 7a5d3de879d6f3a0f167ce39af43eac9 SHA1: 47ad269eeea69d6c4c0fb66b9353e478b08ec38b SHA256: 8dc349d5f575f06c2a57218d194ac19fe44516d7ea36807eb01719223ed9b4e2 SHA512: 8815807e894c85d119fca3a1476270ace8239d321d908e859933491f024950f133953a4e449839335a72d82e079673653ade214dd2f1af28bb427ae1bdde9885 Homepage: https://cran.r-project.org/package=EcoTroph Description: CRAN Package 'EcoTroph' (An Implementation of the EcoTroph Ecosystem Modelling Approach) An approach and software for modelling marine and freshwater ecosystems. It is articulated entirely around trophic levels. EcoTroph's key displays are bivariate plots, with trophic levels as the abscissa, and biomass flows or related quantities as ordinates. Thus, trophic ecosystem functioning can be modelled as a continuous flow of biomass surging up the food web, from lower to higher trophic levels, due to predation and ontogenic processes. Such an approach, wherein species as such disappear, may be viewed as the ultimate stage in the use of the trophic level metric for ecosystem modelling, providing a simplified but potentially useful caricature of ecosystem functioning and impacts of fishing. This version contains catch trophic spectrum analysis (CTSA) function and corrected versions of the mf.diagnosis and create.ETmain functions. 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Package: r-cran-edf Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-edf_1.0.0-1.ca2004.1_all.deb Size: 33012 MD5sum: b321c724cbdc1d443435cf7ff6ca0304 SHA1: 611a2fe3f295ed5038bea453942f39ad0c195bfd SHA256: 7df0ffb2a12c93b70c3561fdd9ff43dc4e8270a3ac6a49a04cd9e872f203a120 SHA512: 0458601b24b8a1f4160e797818c5e845c4a1f19551f02d9fc4b413689cf88170a02ad33a63c3f0de72fe0e0394f3afb2300a127d03658e8a6640111f865e5a18 Homepage: https://cran.r-project.org/package=edf Description: CRAN Package 'edf' (Read Data from European Data Format (EDF and EDF+) Files) Import physiologic data stored in the European Data Format (EDF and EDF+) into R. Both EDF and EDF+ files are supported. Discontinuous EDF+ files are not yet supported. Package: r-cran-edfir Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve, r-cran-geometry, r-cran-vertexenum, r-cran-mass Filename: pool/dists/focal/main/r-cran-edfir_1.0-1.ca2004.1_all.deb Size: 37096 MD5sum: 44113f6aeea73f536e3ee3ea063ff741 SHA1: ebf50197265097527ba751024a3fb49ebce8c549 SHA256: 2a9b89860acb4ffcfe9e1fc77b7278f5cb7bc5dfc903130565e858cdf21a6a9e SHA512: 438ec3f0d190d6a23e9e815116eb81f4f472dcc57b6bde70413a48962cbaf7c1b4baf25d82db75dbad8ce758544a573e5ffdf30714c57e00c468ea6bd380c727 Homepage: https://cran.r-project.org/package=EDFIR Description: CRAN Package 'EDFIR' (Estimating Discrimination Factors) Functions for reading in data sets of prey and predator isotopic measurements and producing estimates for discrimination factors. Package: r-cran-edfreader Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1713 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-edfreader_1.2.1-1.ca2004.1_all.deb Size: 337852 MD5sum: 17b113241f11828ef0b33ba92c66d975 SHA1: f007b9c7cb39a91af59744c6ac021d9880e40347 SHA256: bdfba4b363c7e8260ace970cf3c5b613458fd1127cfd167e94babdb25cb3e7df SHA512: 974def139eef329575636674e3fa7c0362e1e5f911cbf71a54c1099ec6ef2a1884874adae5165dcb05bef5d7cca900ae294f40b0312f0883688eac2878877b45 Homepage: https://cran.r-project.org/package=edfReader Description: CRAN Package 'edfReader' (Reading EDF(+) and BDF(+) Files) Reads European Data Format files EDF and EDF+, see , BioSemi Data Format files BDF, see , and BDF+ files, see . The files are read in two steps: first the header is read and then the signals (using the header object as a parameter). 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Package: r-cran-edgebundler Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 418 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets, r-cran-rjson, r-cran-igraph, r-cran-shiny Suggests: r-cran-knitr, r-cran-huge Filename: pool/dists/focal/main/r-cran-edgebundler_0.1.4-1.ca2004.1_all.deb Size: 93028 MD5sum: af54bd91fc9859938bcabffe081b57dc SHA1: 848f6f529f170c1323806d1c7ff08c5b302faa6c SHA256: 152b50e924dc1fe002f138ec1c456241267a9a0d20a99e4dbae6dce59749be34 SHA512: e93c8b84cd9d2cc379204aef564358dcb9b561935061c62b1639720b68a767460d79a58292aa05fa18306df7fd87aa6ac278234aca55716e5587d316267c2dcf Homepage: https://cran.r-project.org/package=edgebundleR Description: CRAN Package 'edgebundleR' (Circle Plot with Bundled Edges) Generates interactive circle plots with the nodes around the circumference and linkages between the connected nodes using hierarchical edge bundling via the D3 JavaScript library. See for more information on D3. Package: r-cran-edgecorr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-edgecorr_1.0-1.ca2004.1_all.deb Size: 27160 MD5sum: 9760d912b54861aab32986d9be58a967 SHA1: 049e647579e229c2afecd9d355235a077857ed33 SHA256: 651e0c6a1e630577e5157f0fa2c8e87fc2f2d8032d5aa506b7ab9228022d53af SHA512: ff7f31a9e8705cfcd0bc713d4fb530f427f71ec94f7ab7a415179e808251aa24d1140b76efd61338bd7098722462da2467ee6ec14e2e21c510e66c159dc26202 Homepage: https://cran.r-project.org/package=edgeCorr Description: CRAN Package 'edgeCorr' (Spatial Edge Correction) Facilitates basic spatial edge correction to point pattern data. Package: r-cran-edgedata Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 240 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-edgedata_0.2.0-1.ca2004.1_all.deb Size: 196928 MD5sum: cc076ccf1dd0cf26f60a27c6f336b368 SHA1: 973e2f1f2b89a207d43163added38f5ab1c01bc6 SHA256: 1481e25e9d45f2e515435262e71055591bc8af047811f7e3e00cbc9b18c4273e SHA512: 2a9318c5fb0c7fc8c77899e71116cfae51d35ff424deeda8e71f14e3517cbac3a609c0b58866435a93d4a9cd8cb21fd68453a58778f4a359b199eb4a47bd32dc Homepage: https://cran.r-project.org/package=edgedata Description: CRAN Package 'edgedata' (Datasets that Support the EDGE Server DIY Logic) Datasets from most recent CCIIO DIY entry in a tidy format. These support the Centers for Medicare and Medicaid Services' (CMS) risk adjustment Do-It-Yourself (DIY) process, which allows health insurance issuers to calculate member risk profiles under the Health and Human Services-Hierarchical Condition Categories (HHS-HCC) regression model. This regression model is used to calculate risk adjustment transfers. Risk adjustment is a selection mitigation program implemented under the Patient Protection and Affordable Care Act (ACA or Obamacare) in the USA. Under the ACA, health insurance issuers submit claims data to CMS in order for CMS to calculate a risk score under the HHS-HCC regression model. However, CMS does not inform issuers of their average risk score until after the data submission deadline. These data sets can be used by issuers to calculate their average risk score mid-year. More information about risk adjustment and the HHS-HCC model can be found here: . Package: r-cran-edgerun Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-edger, r-cran-data.table Filename: pool/dists/focal/main/r-cran-edgerun_1.0.9-1.ca2004.1_all.deb Size: 99020 MD5sum: 68ed2f198eaf376fa172d0daf108892a SHA1: cc0f13c43b6782ae18a45f3111937a50a7a416c1 SHA256: d9c39c1d13a1fc8b1d61f2b2459a850f5a274013256259fb8a666205eaeadb5d SHA512: 7fd54f8e86ab5c3db266a26b47b065c6a6912148fcedb6ae30a108ea83733e269c62535536c048fa75129fa9135f26b00e863d94fd0b38d4242d40a4e3f6c50b Homepage: https://cran.r-project.org/package=edgeRun Description: CRAN Package 'edgeRun' (More Powerful Unconditional Testing of Negative Binomial Meansfor Digital Gene Expression Data) Extends edgeR functionality by improving on exactTest using an unconditional exact test of negative binomial means. 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An experimental design is treated as an intermediate, mutable object that is built progressively by fundamental experimental components like units, treatments, and their relation. The system aids in experimental planning, management and workflow. Package: r-cran-ediblecity Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2399 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sf, r-cran-dplyr, r-cran-magrittr, r-cran-stars, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ediblecity_0.2.1-1.ca2004.1_all.deb Size: 2349704 MD5sum: 9d4ae33a38bc0738f7196c88d6e8a998 SHA1: 1fdda0ab136929ceadd9cccf6c2b4054fc807ffd SHA256: 83e07567b805982603286db37b701101e7eaa7196c43edefb42eb293cdb377df SHA512: 0d27e3a9a7d3f0e3fabee8363aa0c54d2e092d4f6b1ef4c7a7043dedd0081ab7d884e654bca107fe7c096efb0b8689752f43f69d42024128d849a275f5ccc153 Homepage: https://cran.r-project.org/package=ediblecity Description: CRAN Package 'ediblecity' (Modeling Urban Agriculture at City Scale) The purpose of this package is to estimate the potential of urban agriculture to contribute to addressing several urban challenges at the city-scale. Within this aim, we selected 8 indicators directly related to one or several urban challenges. Also, a function is provided to compute new scenarios of urban agriculture. Methods are described by Pueyo-Ros, Comas & Corominas (2023) . 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Networks segments and changepoints are inferred concurrently, and information sharing priors provide a reduction of the inference uncertainty. 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By the use of generic 'dplyr' methods it supports many types of data storage, with relational databases ('dbplyr') being the main use case. 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You can delete, add or update a 'data.frame' without coding. You can get resultant data as a 'data.frame'. In the package, modularized 'shiny' app codes are provided. These modules are intended for reuse across applications. Package: r-cran-editrules Architecture: all Version: 2.9.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 638 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph, r-cran-lpsolveapi Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-editrules_2.9.5-1.ca2004.1_all.deb Size: 517584 MD5sum: 90ed1b7e3a61ad8623f844c7619c4728 SHA1: b82973e9f23a8bccbe80469a742b726145f19858 SHA256: a893e8f3bfc9ee99abd21b3946d319bcea3488cdf0f4d5332c021b71523d55e4 SHA512: 9f54d995d998e85009f5d7f705c87ec70d7a7615c1c1dfc26d56955dd6865c6580c178a8663a74cd4f31724b3a48719cf2fa04c9349d256abdd51481e5a69ab3 Homepage: https://cran.r-project.org/package=editrules Description: CRAN Package 'editrules' (Parsing, Applying, and Manipulating Data Cleaning Rules) Please note: active development has moved to packages 'validate' and 'errorlocate'. Facilitates reading and manipulating (multivariate) data restrictions (edit rules) on numerical and categorical data. Rules can be defined with common R syntax and parsed to an internal (matrix-like format). Rules can be manipulated with variable elimination and value substitution methods, allowing for feasibility checks and more. Data can be tested against the rules and erroneous fields can be found based on Fellegi and Holt's generalized principle. Rules dependencies can be visualized with using the 'igraph' package. Package: r-cran-ediutils Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 538 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-curl, r-cran-httr, r-cran-jsonlite, r-cran-xml2 Suggests: r-cran-knitr, r-cran-readr, r-cran-vcr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ediutils_1.0.3-1.ca2004.1_all.deb Size: 332516 MD5sum: 1d37af6dc5d23cc3945d190093c71d72 SHA1: 4debe4b327bb34614f2c24c9d94fd69b3d343605 SHA256: a3aed3f484adb36fe259034b31819604404fa7edee70f036febb341f61e687a1 SHA512: c72fb2f19f4f2268dcecc39dc8bd3ac137a10c5e736989397d4e71d4a71686100747c8b3de8a4dfbb0512b7dd96acb4269d5708c40e2e6bf3cc4b35324f4f47f Homepage: https://cran.r-project.org/package=EDIutils Description: CRAN Package 'EDIutils' (An API Client for the Environmental Data Initiative Repository) A client for the Environmental Data Initiative repository REST API. The 'EDI' data repository is for publication and reuse of ecological data with emphasis on metadata accuracy and completeness. It is built upon the 'PASTA+' software stack and was developed in collaboration with the US 'LTER' Network . 'EDIutils' includes functions to search and access existing data, evaluate and upload new data, and assist other data management tasks common to repository users. Package: r-cran-edl Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 566 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plotfunctions, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-edl_1.1-1.ca2004.1_all.deb Size: 391360 MD5sum: dcc027bdc9b68b18eaee5fecdb480092 SHA1: a8a7195c83aa38a8620dd0cb30f65807701d12ba SHA256: c2a200483dfa79eac03f28313882f5822abbd08971198438f8328b90157cf7b7 SHA512: f8909e4c71bca3c314cd4b6e2a9f3ec6588ffdba52ae7e38d2e359a781460346ea003a0a995789da8bf538f08947e810d3b1d6450ed56465728f248a927f22a6 Homepage: https://cran.r-project.org/package=edl Description: CRAN Package 'edl' (Toolbox for Error-Driven Learning Simulations with Two-LayerNetworks) Error-driven learning (based on the Widrow & Hoff (1960) learning rule, and essentially the same as Rescorla-Wagner's learning equations (Rescorla & Wagner, 1972, ISBN: 0390718017), which are also at the core of Naive Discrimination Learning, (Baayen et al, 2011, ) can be used to explain bottom-up human learning (Hoppe et al, ), but is also at the core of artificial neural networks applications in the form of the Delta rule. This package provides a set of functions for building small-scale simulations to investigate the dynamics of error-driven learning and it's interaction with the structure of the input. For modeling error-driven learning using the Rescorla-Wagner equations the package 'ndl' (Baayen et al, 2011, ) is available on CRAN at . However, the package currently only allows tracing of a cue-outcome combination, rather than returning the learned networks. To fill this gap, we implemented a new package with a few functions that facilitate inspection of the networks for small error driven learning simulations. Note that our functions are not optimized for training large data sets (no parallel processing), as they are intended for small scale simulations and course examples. (Consider the python implementation 'pyndl' for that purpose.) Package: r-cran-edmdata Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 737 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-edmdata_1.3.0-1.ca2004.1_all.deb Size: 646980 MD5sum: a68ed5dcacdc2402bd36c78cbcab6acd SHA1: 2f842d0c8c6383225ae7ed1875200f322733cb17 SHA256: 4aee9a21f5ae66546463ac8fd6f2ec99e75e03a7a900c2c1e5a3727759558a18 SHA512: 2c8e3f78ef5647e5ee4d2e07cc9c230e2ceaa19e1fef0ccc1e6eec6d9d1674d14be78744f4cf39d8bdbc9c105b04bcad8d0653b10eee483f96a6227011ca3264 Homepage: https://cran.r-project.org/package=edmdata Description: CRAN Package 'edmdata' (Data Sets for Psychometric Modeling) Collection of data sets from various assessments that can be used to evaluate psychometric models. These data sets have been analyzed in the following papers that introduced new methodology as part of the application section: Jimenez, A., Balamuta, J. J., & Culpepper, S. A. (2023) , Culpepper, S. A., & Balamuta, J. J. (2021) , Yinghan Chen et al. (2021) , Yinyin Chen et al. (2020) , Culpepper, S. A. (2019a) , Culpepper, S. A. (2019b) , Culpepper, S. A., & Chen, Y. (2019) , Culpepper, S. A., & Balamuta, J. J. (2017) , and Culpepper, S. A. (2015) . Package: r-cran-edne.eq Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-edne.eq_1.0-1.ca2004.1_all.deb Size: 35812 MD5sum: 6de63324b6a1f3ab8129df95a46157f2 SHA1: 33629a4c3dcb20223f832a494dcac7d47873e453 SHA256: 4a62860fd627f57e95ef70838ebc2465caa0d638c276a8f22070680e0cc2f33a SHA512: 2af41d8a478e7d8dfcee33d0b02721294db8bcd1faa42b1de9d31b85c59bbea2a84b86e5ca89fb8978dde142887ece904845c97f28ee1ffff1b5d8f591dadf23 Homepage: https://cran.r-project.org/package=EDNE.EQ Description: CRAN Package 'EDNE.EQ' (Implements the EDNE-Test for Equivalence) Package implements the EDNE-test for equivalence according to Hoffelder et al. (2015) . "EDNE" abbreviates "Euclidean Distance between the Non-standardized Expected values". The EDNE-test for equivalence is a multivariate two-sample equivalence test. Distance measure of the test is the Euclidean distance. The test is an asymptotically valid test for the family of distributions fulfilling the assumptions of the multivariate central limit theorem (see Hoffelder et al.,2015). The function EDNE.EQ() implements the EDNE-test for equivalence according to Hoffelder et al. (2015). The function EDNE.EQ.dissolution.profiles() implements a variant of the EDNE-test for equivalence analyses of dissolution profiles (see Suarez-Sharp et al.,2020 ). EDNE.EQ.dissolution.profiles() checks whether the quadratic mean of the differences of the expected values of both dissolution profile populations is statistically significantly smaller than 10 [\% of label claim]. The current regulatory standard approach for equivalence analyses of dissolution profiles is the similarity factor f2. The statistical hypotheses underlying EDNE.EQ.dissolution.profiles() coincide with the hypotheses for f2 (see Hoffelder et al.,2015, Suarez-Sharp et al., 2020). 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Its main purpose is to infer orders of empirical distributions from different categories based on a probability of finding a value in one distribution that is greater than an expectation of another distribution. Given a set of ordered-pair of real-category values the framework is capable of 1) inferring orders of domination of categories and representing orders in the form of a graph; 2) estimating magnitude of difference between a pair of categories in forms of mean-difference confidence intervals; and 3) visualizing domination orders and magnitudes of difference of categories. The publication of this package is at Chainarong Amornbunchornvej, Navaporn Surasvadi, Anon Plangprasopchok, and Suttipong Thajchayapong (2020) . 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This package serves as a resource for educational researchers, data analysts, and statisticians to explore and analyze data in the field of education. Package: r-cran-educineq Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 651 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ineq, r-cran-flexsurv Filename: pool/dists/focal/main/r-cran-educineq_0.1.0-1.ca2004.1_all.deb Size: 429040 MD5sum: 95c3ed3678fc684d46c8138e140b9326 SHA1: 49918e40d1153384fad0ff2f5a2ac41a0d1edf7e SHA256: ebc50ddb2c2564c02760238d84e9dbdf9b1ff9e4913589a25c910af41970aaae SHA512: 005b9671089e260a467cebb4c6ee3040c9b7399ffa08f63f5cbfa8afc0684344259a902c783b1bbc3416d4404e471f20ce436ffc52a568daa08af03cb106a664 Homepage: https://cran.r-project.org/package=educineq Description: CRAN Package 'educineq' (Compute and Decompose Inequality in Education) Easily compute education inequality measures and the distribution of educational attainments for any group of countries, using the data set developed in Jorda, V. and Alonso, JM. (2017) . The package offers the possibility to compute not only the Gini index, but also generalized entropy measures for different values of the sensitivity parameter. In particular, the package includes functions to compute the mean log deviation, which is more sensitive to the bottom part of the distribution; the Theil’s entropy measure, equally sensitive to all parts of the distribution; and finally, the GE measure when the sensitivity parameter is set equal to 2, which gives more weight to differences in higher education. The decomposition of these measures in the components between-country and within-country inequality is also provided. Two graphical tools are also provided, to analyse the evolution of the distribution of educational attainments: The cumulative distribution function and the Lorenz curve. 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Data and methods are provided to optimise empirical coefficients. 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See the web page for details on the EEA's Air Quality Download Service. The package allows dynamically mapping the stations, summarising and time aggregating the measurements and building spatial interpolation maps. See the web page for further information on EEA activities and history. Further details, as well as, an extended vignette of the main functions included in the package, are available at the GitHub web page dedicated to the project. Package: r-cran-eechidna Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1582 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-shiny, r-cran-ggplot2, r-cran-ggthemes, r-cran-magrittr, r-cran-rgeos, r-cran-plotly, r-cran-sp, r-cran-tidyr, r-cran-purrr, r-cran-colourpicker, r-cran-rgdal, r-cran-stringi, r-cran-tibble, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-maptools, r-cran-purrrlyr, r-cran-ggally, r-cran-corrplot, r-cran-broom, r-cran-scales, r-cran-readr, r-cran-gridextra, r-cran-tidyverse, r-cran-spelling, r-cran-ggmap Filename: pool/dists/focal/main/r-cran-eechidna_1.4.1-1.ca2004.1_all.deb Size: 1414036 MD5sum: 15ea2fd1f490aef8dc09f1fa76069d8c SHA1: 8dc6a9507058f29dc6125e084ae4ffdd7219b3ee SHA256: 8c90beff5fb6fa0810622bf83674ae2685ff2f18f4d3b8c24aab2c2d8145e555 SHA512: 045e91821497ad91202219df80d0508cc94e3fd904eb2dd84943bdccf5f365b8ff7309e7d5270892ef80f9428cd7e0bf5bfd8eba67fb125a8c4db90afcd5fba2 Homepage: https://cran.r-project.org/package=eechidna Description: CRAN Package 'eechidna' (Exploring Election and Census Highly Informative Data Nationallyfor Australia) Data from the seven Australian Federal Elections (House of Representatives) between 2001 and 2019, and from the four Australian Censuses over the same period. 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For method details see Das (2020).. Package: r-cran-eemdtdnn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-forecast, r-cran-rlibeemd Filename: pool/dists/focal/main/r-cran-eemdtdnn_0.1.0-1.ca2004.1_all.deb Size: 28792 MD5sum: 5c1404235c7e869153e440a555fa5938 SHA1: caee09d5e7569f62e4196e3d21e04b751aec4faa SHA256: a4bf67bb6f43bce429344ac04062dba8e03d334170ae802b3bcafe680543224b SHA512: c571ab4468fc367cef8809adc73cc73231b4df86bf3d46fe6b8125d82d24fd7c90445859643d3499eaa0d6a9d7b8a4800a00a2cdecec9a86136702d1f6167697 Homepage: https://cran.r-project.org/package=eemdTDNN Description: CRAN Package 'eemdTDNN' (EEMD and Its Variant Based Time Delay Neural Network Model) Forecasting univariate time series with different decomposition based time delay neural network models. For method details see Yu L, Wang S, Lai KK (2008). . 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This package also provides functions to evaluate the results of simulation studies based on these simulated time series. This work was supported by a grant from the National Institute of Environmental Health Sciences (R00ES022631) and a fellowship from the Colorado State University Programs for Research and Scholarly Excellence. Package: r-cran-eespca Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 252 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rifle, r-cran-mass, r-cran-pma Filename: pool/dists/focal/main/r-cran-eespca_0.7.0-1.ca2004.1_all.deb Size: 205800 MD5sum: 7e66be5a50d0cfd6b4b0f55650973870 SHA1: 6534970d379b6939d64fcb99f988bde7afcd874a SHA256: 7f62932e4d41d3aaecab872a1eff352f651887aea7cba874ffd2fb7c9e652a96 SHA512: cf02c1217b40606411ff54c7f3d3e18aa32b4d2f40423900a123a8da2ceaee1fc1dd71423542742c3c24be9ca83232d09bf37deaa3c512db48808695612d5b27 Homepage: https://cran.r-project.org/package=EESPCA Description: CRAN Package 'EESPCA' (Eigenvectors from Eigenvalues Sparse Principal ComponentAnalysis (EESPCA)) Contains logic for computing sparse principal components via the EESPCA method, which is based on an approximation of the eigenvector/eigenvalue identity. 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Supports several data formats, including the export formats of 'EgoNet', 'EgoWeb 2.0' and 'openeddi'. An interactive (shiny) app for the intuitive visualization of ego-centered networks is provided. Also included are procedures for creating and visualizing Clustered Graphs (Lerner 2008 ). 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Package: r-cran-egretci Architecture: all Version: 2.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2728 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-egret, r-cran-binom, r-cran-foreach Suggests: r-cran-knitr, r-cran-testthat, r-cran-doparallel, r-cran-iterators, r-cran-rmarkdown, r-cran-pkgdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-egretci_2.0.5-1.ca2004.1_all.deb Size: 2567412 MD5sum: b2e9ddc3cc9dd593669f62444c207a49 SHA1: 9b24c6d1d2904a77df03ccb5917be5d36996f2f4 SHA256: f60ba5bcd19c2528f4eb8c1fcad36f4a7ad2100e2236a0eaca91b6e6ef1dd272 SHA512: 963286cc346b316a18cf01fb41a75d5e743573cee18a8ececa87cfbf0dbc376ee740d45e7554533911a3053374eef07113681c76fe5e09597086b565b2164587 Homepage: https://cran.r-project.org/package=EGRETci Description: CRAN Package 'EGRETci' (Exploration and Graphics for RivEr Trends Confidence Intervals) Collection of functions to evaluate uncertainty of results from water quality analysis using the Weighted Regressions on Time Discharge and Season (WRTDS) method. This package is an add-on to the EGRET package that performs the WRTDS analysis. The WRTDS modeling method was initially introduced and discussed in Hirsch et al. (2010) , and expanded in Hirsch and De Cicco (2015) . The paper describing the uncertainty and confidence interval calculations is Hirsch et al. (2015) . 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Fisher's weighted method has been implemented to combine the outcomes of different methods based on the probability values. The combined score follows chi-square distribution with 2n degrees of freedom. . 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As an example, the genetic predisposition for obesity could be manifested through inherited variants that control metabolism through regulation of genes expressed in the brain and/or through the control of fat storage in the adipose tissue by dysregulation of genes expressed in adipose tissue. We present a method eGST (eQTL-based genetic subtyper) that integrates tissue-specific eQTLs with GWAS data for a complex trait to probabilistically assign a tissue of interest to the phenotype of each individual in the study. eGST estimates the posterior probability that an individual's phenotype can be assigned to a tissue based on individual-level genotype data of tissue-specific eQTLs and marginal phenotype data in a genome-wide association study (GWAS) cohort. Under a Bayesian framework of mixture model, eGST employs a maximum a posteriori (MAP) expectation-maximization (EM) algorithm to estimate the tissue-specific posterior probability across individuals. Methodology is available from: A Majumdar, C Giambartolomei, N Cai, MK Freund, T Haldar, T Schwarz, J Flint, B Pasaniuc (2019) . Package: r-cran-ehagof Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ehagof_0.1.1-1.ca2004.1_all.deb Size: 66392 MD5sum: 93769e64be721fca2694cebf0946c972 SHA1: 4fef1ec9415cfd4f0c530d2a40ab7ac3fc914ef2 SHA256: 17f8a9ec4201d19ab3287c9a76df290e039d612dba3372e97ae729758c8faa84 SHA512: 31ef41e722b1ce76fa57ca76b21ca0b15c800403791b3f2036f0b31c5faa1e474501c1b021dcd9c03e1e915bf8bf8e0dffe82e3f2c40c9c54022894224e3c771 Homepage: https://cran.r-project.org/package=ehaGoF Description: CRAN Package 'ehaGoF' (Calculates Goodness of Fit Statistics) Calculates 15 different goodness of fit criteria. These are; standard deviation ratio (SDR), coefficient of variation (CV), relative root mean square error (RRMSE), Pearson's correlation coefficients (PC), root mean square error (RMSE), performance index (PI), mean error (ME), global relative approximation error (RAE), mean relative approximation error (MRAE), mean absolute percentage error (MAPE), mean absolute deviation (MAD), coefficient of determination (R-squared), adjusted coefficient of determination (adjusted R-squared), Akaike's information criterion (AIC), corrected Akaike's information criterion (CAIC), Mean Square Error (MSE), Bayesian Information Criterion (BIC) and Normalized Mean Square Error (NMSE). 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The 'EHR' package provides modules to perform diverse medication-related studies using data from EHR databases. Especially, the package includes modules to perform pharmacokinetic/pharmacodynamic (PK/PD) analyses using EHRs, as outlined in Choi, Beck, McNeer, Weeks, Williams, James, Niu, Abou-Khalil, Birdwell, Roden, Stein, Bejan, Denny, and Van Driest (2020) . Additional modules will be added in future. In addition, this package provides various functions useful to perform Phenome Wide Association Study (PheWAS) to explore associations between drug exposure and phenotypes obtained from EHR data, as outlined in Choi, Carroll, Beck, Mosley, Roden, Denny, and Van Driest (2018) . Package: r-cran-ehrmuse Architecture: all Version: 0.0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-mass, r-cran-nleqslv, r-cran-xgboost, r-cran-survey, r-cran-nnet, r-cran-simplexreg Filename: pool/dists/focal/main/r-cran-ehrmuse_0.0.2.1-1.ca2004.1_all.deb Size: 79564 MD5sum: 226f5825105d45efc7058f1cb3feb140 SHA1: 8737acb9d746b4216f46d805b67a5382b72cde02 SHA256: 4f72f7c58708979e649459ad262db16de949a1354638029cb9cd74278e2f2f60 SHA512: 2bc42eef6f4438d09ff753c4eaccd24ee289c9a5df2732c87c88d93d2de1ca89ce2df01019396e61e8e951c6eda346b9444b8456404ca9f3f575bf8ecab699b3 Homepage: https://cran.r-project.org/package=EHRmuse Description: CRAN Package 'EHRmuse' (Multi-Cohort Selection Bias Correction using IPW and AIPWMethods) Comprehensive toolkit for addressing selection bias in binary disease models across diverse non-probability samples, each with unique selection mechanisms. It utilizes Inverse Probability Weighting (IPW) and Augmented Inverse Probability Weighting (AIPW) methods to reduce selection bias effectively in multiple non-probability cohorts by integrating data from either individual-level or summary-level external sources. The package also provides a variety of variance estimation techniques. Please refer to Kundu et al. . Package: r-cran-ehrtemporalvariability Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10629 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-plotly, r-cran-zoo, r-cran-xts, r-cran-lubridate, r-cran-rcolorbrewer, r-cran-viridis, r-cran-scales, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-bioc-biocstyle, r-cran-dbscan, r-cran-webshot, r-cran-httr Filename: pool/dists/focal/main/r-cran-ehrtemporalvariability_1.2.1-1.ca2004.1_all.deb Size: 2834016 MD5sum: 2b0d9255f908235cd2a509c8561a0f87 SHA1: f10c619deb0c17429d4d29f276f5e4b377b50450 SHA256: 49c62f62b8c3a01e8f07d2268c88c83a1acddfa03cb817aeddda9d9a83cf56ee SHA512: 7305d1af30dae3cce40f8c5215f3a99d49a54ada25684c6f13f5e6b37d8bd68aa294778c150c693239ca539d78e3cf6ca08021b691731b421ed925212dff2aad Homepage: https://cran.r-project.org/package=EHRtemporalVariability Description: CRAN Package 'EHRtemporalVariability' (Delineating Temporal Dataset Shifts in Electronic Health Records) Functions to delineate temporal dataset shifts in Electronic Health Records through the projection and visualization of dissimilarities among data temporal batches. This is done through the estimation of data statistical distributions over time and their projection in non-parametric statistical manifolds, uncovering the patterns of the data latent temporal variability. 'EHRtemporalVariability' is particularly suitable for multi-modal data and categorical variables with a high number of values, common features of biomedical data where traditional statistical process control or time-series methods may not be appropriate. 'EHRtemporalVariability' allows you to explore and identify dataset shifts through visual analytics formats such as Data Temporal heatmaps and Information Geometric Temporal (IGT) plots. An additional 'EHRtemporalVariability' Shiny app can be used to load and explore the package results and even to allow the use of these functions to those users non-experienced in R coding. (Sáez et al. 2020) . Package: r-cran-ehymet Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 356 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-clustercrit, r-cran-kernlab, r-cran-tf Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-ehymet_0.1.1-1.ca2004.1_all.deb Size: 195360 MD5sum: db6f291e61635b66beb1322970ac71ae SHA1: 6526af460871581bc76c8b0287e1e96a32df95fd SHA256: d0a2b3132b0ed525a82f1abde65a26e55522b5c28fd1705d935eb66dd1f063f8 SHA512: c9bbf59f58f34e035a891374cee6f590978b178feaf8de5c20e5623765132f7c7c6ba208891a318ed71119d30ab45c9f700f8ae69408827b97d7db6e8eef7559 Homepage: https://cran.r-project.org/package=ehymet Description: CRAN Package 'ehymet' (Methodologies for Functional Data Based on the Epigraph andHypograph Indices) Implements methods for functional data analysis based on the epigraph and hypograph indices. These methods transform functional datasets, whether in one or multiple dimensions, into multivariate datasets. The transformation involves applying the epigraph, hypograph, and their modified versions to both the original curves and their first and second derivatives. The calculation of these indices is tailored to the dimensionality of the functional dataset, with special considerations for dependencies between dimensions in multidimensional cases. This approach extends traditional multivariate data analysis techniques to the functional data setting. A key application of this package is the EHyClus method, which enhances clustering analysis for functional data across one or multiple dimensions using the epigraph and hypograph indices. See Pulido et al. (2023) and Pulido et al. (2024) . Package: r-cran-ei.datasets Architecture: all Version: 0.0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4013 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Filename: pool/dists/focal/main/r-cran-ei.datasets_0.0.1-3-1.ca2004.1_all.deb Size: 4060400 MD5sum: 94999044713b4058ed8c6852b01a1116 SHA1: 73639330d0b39c455ca86593fe20729fa5794251 SHA256: e91835d09c9ecff0abda8be3217d29abdec140ed93ee7f2bb6450c23cae8756d SHA512: 1f6ed50acd2b653794989b33c6a767bf0ee37dd2cba2ab026f04806fec9d8eb65bbda94bfd2be4940757c8ce95d82f3754902c7d15a4b2cfa9437cdb73ae682a Homepage: https://cran.r-project.org/package=ei.Datasets Description: CRAN Package 'ei.Datasets' (Real Datasets for Assessing Ecological Inference Algorithms) Provides more than 550 data sets of actual election results. Each of the data sets includes aggregate party and candidate outcomes at the voting unit (polling stations) level and two-way cross-tabulated results at the district level. These data sets can be used to assess ecological inference algorithms devised for estimating RxC (global) ecological contingency tables using exclusively aggregate results from voting units. Reference: Pavía (2022) . 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ISBN 978-0691012407. Package: r-cran-eia Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 483 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble, r-cran-httr, r-cran-jsonlite, r-cran-memoise, r-cran-lubridate Suggests: r-cran-testthat, r-cran-knitr, r-cran-covr, r-cran-rmarkdown, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-spelling Filename: pool/dists/focal/main/r-cran-eia_0.4.2-1.ca2004.1_all.deb Size: 295244 MD5sum: 7d23792c88bc49c6b736bdef3014e417 SHA1: 23e93efe7746b22b06799b5be7430c7d3ea605c5 SHA256: 32ec78beccaaec20a782560817ad2075582c2eedca9ed3eef6ad5ebb550c67e6 SHA512: ca5e37aff358f16b44d92a353a7257ba56c5cebcd656e646055cd06a0ee1dbf59d6c50cecf4d9231a0a74f63c2c7786260c5ca6a50e187aed2edb9c61ab32fce Homepage: https://cran.r-project.org/package=eia Description: CRAN Package 'eia' (API Wrapper for U.S. Energy Information Administration ('EIA')Open Data) Provides API access to data from the U.S. Energy Information Administration ('EIA') . Use of the EIA's API and this package requires a free API key obtainable at . This package includes functions for searching the EIA data directory and returning time series and geoset time series datasets. Datasets returned by these functions are provided by default in a tidy format, or alternatively, in more raw formats. It also offers helper functions for working with EIA date strings and time formats and for inspecting different summaries of series metadata. The package also provides control over API key storage and caching of API request results. Package: r-cran-eiaapi Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 661 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-jsonlite, r-cran-lubridate Suggests: r-cran-knitr, r-cran-plotly, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-eiaapi_0.2.0-1.ca2004.1_all.deb Size: 476152 MD5sum: 5657e3464939389fdda8f1c5d9ad457f SHA1: d12a613648e2c0c093a211fae2f601570245f075 SHA256: 795eb617c182f9ad00cfcf017355fce430749903ef56e83cdd7973f01ad7835c SHA512: 426ce311059f31662eba7bce55a653a39103b6971b8fe132a05f12f89a30bf857e22ea452a9b2c2d08d37ec2733663236828abe8eff51ec9b353ebe29c252910 Homepage: https://cran.r-project.org/package=EIAapi Description: CRAN Package 'EIAapi' (Query Data from the 'EIA' API) Provides a function to query and extract data from the 'US Energy Information Administration' ('EIA') API V2 . The 'EIA' API provides a variety of information, in a time series format, about the energy sector in the US. The API is open, free, and requires an access key and registration at . 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Package: r-cran-eicircles Architecture: all Version: 0.0.1-12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlcoptim Suggests: r-cran-ggplot2, r-cran-scales Filename: pool/dists/focal/main/r-cran-eicircles_0.0.1-12-1.ca2004.1_all.deb Size: 202452 MD5sum: 0a384d4847df49a2094225449426c7d5 SHA1: 2f6386f99e9651aac861e074854494abfc912f6a SHA256: c473a1cfc6cda82704f95ad9ebcf07db040df8d72f45a58d36d686bcbf03d23d SHA512: f63023c10f06ec063971a4066dcf55570abbe03990d0d100fdc85ebc7f36f86a5d3aaca4b9dac2f499612350372cc2a8981a5f51906088c0815f111fdf04d454 Homepage: https://cran.r-project.org/package=eiCircles Description: CRAN Package 'eiCircles' (Ecological Inference of RxC Tables by Overdispersed-MultinomialModels) Estimates RxC (R by C) vote transfer matrices (ecological contingency tables) from aggregate data using the model described in Forcina et al. (2012), as extension of the model proposed in Brown and Payne (1986). Allows incorporation of covariates. References: Brown, P. and Payne, C. (1986). ''Aggregate data, ecological regression and voting transitions''. Journal of the American Statistical Association, 81, 453–460. . Forcina, A., Gnaldi, M. and Bracalente, B. (2012). ''A revised Brown and Payne model of voting behaviour applied to the 2009 elections in Italy''. Statistical Methods & Applications, 21, 109–119. . 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Includes functions for predicting voter race/ethnicity and conducting ecological inference. Race/ethnicity prediction builds on race prediction developed by Imai et al. (2016) . Ecological inference methods are based on King (1997) , ; King et. al. (2004) , . 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Package: r-cran-eientropy Architecture: all Version: 0.0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-here Filename: pool/dists/focal/main/r-cran-eientropy_0.0.1.4-1.ca2004.1_all.deb Size: 99088 MD5sum: ed9a08fef9b7d4d6ec3f3c2c2c0d2c61 SHA1: 3aaac197dc6b599587f2464062fdd7433ecc453b SHA256: 643a6b20ec38eb2a931e808e0b7b22e51e9937a20a609e43183c7e53d550c5c4 SHA512: e65518f4e0f864daeb292dd755af8fbfab7e268acb6007a41da045c18bce510fdb9b6479f002f2cc897494ad8052575d1ee77bec993bfb094f1c9b3578711a58 Homepage: https://cran.r-project.org/package=EIEntropy Description: CRAN Package 'EIEntropy' (Ecological Inference Applying Entropy) Implements two estimations related to the foundations of info metrics applied to ecological inference. These methodologies assess the lack of disaggregated data and provide an approach to obtaining disaggregated territorial-level data. For more details, see the following references: Fernández-Vázquez, E., Díaz-Dapena, A., Rubiera-Morollón, F. et al. (2020) "Spatial Disaggregation of Social Indicators: An Info-Metrics Approach." . Díaz-Dapena, A., Fernández-Vázquez, E., Rubiera-Morollón, F., & Vinuela, A. (2021) "Mapping poverty at the local level in Europe: A consistent spatial disaggregation of the AROPE indicator for France, Spain, Portugal and the United Kingdom." . Package: r-cran-eiexpand Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3747 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-tidyselect, r-cran-stringr, r-cran-ggplot2, r-cran-ggmap, r-cran-viridis, r-cran-sf, r-cran-magrittr, r-cran-rlang Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eiexpand_1.0.5-1.ca2004.1_all.deb Size: 3801488 MD5sum: 3b74eba703583e1a5b41b43a8b41a215 SHA1: ce4961fcc4a71c08ad45034a23c6e5af4562ea51 SHA256: aa0180016378c3c97003a77fefb56843257c1c2ff74eecafd0ed5253d9ab733e SHA512: ba9d475c8727d8cb4e336f33818ec1ad33a6ddfa78361ba5e2a9350e2704970b6b2d03fe34c302699355cb86f5dc530900b5d4a719735b92916a1094307e2a43 Homepage: https://cran.r-project.org/package=eiExpand Description: CRAN Package 'eiExpand' (Utilities for Expanding Functionality of 'eiCompare') Augments the 'eiCompare' package's Racially Polarized Voting (RPV) functionality to streamline analyses and visualizations used to support voting rights and redistricting litigation. The package implements methods described in Barreto, M., Collingwood, L., Garcia-Rios, S., & Oskooii, K. A. (2022). "Estimating Candidate Support in Voting Rights Act Cases: Comparing Iterative EI and EI-R×C Methods" . Package: r-cran-eigeninv Architecture: all Version: 2011.8-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-eigeninv_2011.8-1-1.ca2004.1_all.deb Size: 17872 MD5sum: f416e601e3af074f7876ffb32952a78d SHA1: 9464a3c9d44a9cae400ce497c42156dc07ac0311 SHA256: 770ae36ec255afc97851e283ad8a5d11c57d4957952991416ca3cc6b7b375253 SHA512: 0ec6c0204dbf9b03343cf9c5569f5ee210cc155af2d8e1f1aa7ed604c0e1b27390264b01e45c09d653fef5be49c3c59b22ad46998697d8ce4aa3958dd6d0dbaa Homepage: https://cran.r-project.org/package=eigeninv Description: CRAN Package 'eigeninv' (Generates (dense) matrices that have a given set of eigenvalues) Solves the ``inverse eigenvalue problem'' which is to generate a real-valued matrix that has the specified real eigenvalue spectrum. It can generate infinitely many dense matrices, symmetric or asymmetric, with the given set of eigenvalues. 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Package: r-cran-eigenmodel Architecture: all Version: 1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-eigenmodel_1.11-1.ca2004.1_all.deb Size: 70976 MD5sum: 859992fe5e633b13a2a4e5875aba97ff SHA1: 44ad75a5a4ff192af5ebb5c4ad17c18e7fa9566a SHA256: 13c595754139b9e797609b9b5f82a88f6655f00f8d2c0168fdf028b5837e3be2 SHA512: 99cdd32389d1b6bb84340b553b9a955a3c42dd99e6a5c9826ef1c6509e864b0a801f0f93318727048cd8ded4d1f8c81953a956165ed07c75df0151db7b94dbaf Homepage: https://cran.r-project.org/package=eigenmodel Description: CRAN Package 'eigenmodel' (Semiparametric Factor and Regression Models for SymmetricRelational Data) Estimation of the parameters in a model for symmetric relational data (e.g., the above-diagonal part of a square matrix), using a model-based eigenvalue decomposition and regression. Missing data is accommodated, and a posterior mean for missing data is calculated under the assumption that the data are missing at random. The marginal distribution of the relational data can be arbitrary, and is fit with an ordered probit specification. See Hoff (2007) for details on the model. Package: r-cran-eigenprcomp Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-eigenprcomp_1.0-1.ca2004.1_all.deb Size: 14932 MD5sum: de9fb9d7f2032a2b37e3374c502498fb SHA1: 450cc4929a10ca707555a9d2277132120b20a2b3 SHA256: 1d37a0b97b79d9927e1a773f1ea6e7ca3a5f6f06f313978bbf6733f24e91aa9a SHA512: a9f3b43e90dca41d243fb1b783aa934271811448193dbc32c7982d95b5406ea7342f40bceb6ee9924052cbc031f2bd37e83b49113b3846976332a04f4646bc08 Homepage: https://cran.r-project.org/package=eigenprcomp Description: CRAN Package 'eigenprcomp' (Computes confidence intervals for principal components) Computes confidence intervals for the proportion explained by the first 1,2,k principal components, and computes confidence intervals for each eigenvalue. Both computations are done via nonparametric bootstrap. Package: r-cran-eikosograms Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4491 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-eikosograms_0.1.1-1.ca2004.1_all.deb Size: 1009260 MD5sum: df1fe0577e211e553d2dc2130194efef SHA1: 2c1dd9a1bada65fa9b59db032b31a0df64fbd15f SHA256: 3d35e565db6cfd7b87c6a09757df906db0617bfcc0cb570c325024d9908419b1 SHA512: e1e7556a3dab3fe26fa04b0f46a9ac4ea5c4f2cd9ccfc86d17e6a674c984feb4c1e85411c0a2e01548e46349c0f26357ee0536736f33e1b01633d50c0cbc93fc Homepage: https://cran.r-project.org/package=eikosograms Description: CRAN Package 'eikosograms' (The Picture of Probability) An eikosogram (ancient Greek for probability picture) divides the unit square into rectangular regions whose areas, sides, and widths, represent various probabilities associated with the values of one or more categorical variates. Rectangle areas are joint probabilities, widths are always marginal (though possibly joint margins, i.e. marginal joint distributions of two or more variates), and heights of rectangles are always conditional probabilities. Eikosograms embed the rules of probability and are useful for introducing elementary probability theory, including axioms, marginal, conditional, and joint probabilities, and their relationships (including Bayes theorem as a completely trivial consequence). They are markedly superior to Venn diagrams for this purpose, especially in distinguishing probabilistic independence, mutually exclusive events, coincident events, and associations. They also are useful for identifying and understanding conditional independence structure. As data analysis tools, eikosograms display categorical data in a manner similar to Mosaic plots, especially when only two variates are involved (the only case in which they are essentially identical, though eikosograms purposely disallow spacing between rectangles). Unlike Mosaic plots, eikosograms do not alternate axes as each new categorical variate (beyond two) is introduced. Instead, only one categorical variate, designated the "response", presents on the vertical axis and all others, designated the "conditioning" variates, appear on the horizontal. In this way, conditional probability appears only as height and marginal probabilities as widths. The eikosogram is therefore much better suited to a response model analysis (e.g. logistic model) than is a Mosaic plot. Mosaic plots are better suited to log-linear style modelling as in discrete multivariate analysis. Of course, eikosograms are also suited to discrete multivariate analysis with each variate in turn appearing as the response. This makes it better suited than Mosaic plots to discrete graphical models based on conditional independence graphs (i.e. "Bayesian Networks" or "BayesNets"). The eikosogram and its superiority to Venn diagrams in teaching probability is described in W.H. Cherry and R.W. Oldford (2003) , its value in exploring conditional independence structure and relation to graphical and log-linear models is described in R.W. Oldford (2003) , and a number of problems, puzzles, and paradoxes that are easily explained with eikosograms are given in R.W. Oldford (2003) . Package: r-cran-eila Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 576 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-class, r-cran-quantreg Filename: pool/dists/focal/main/r-cran-eila_0.1-2-1.ca2004.1_all.deb Size: 556076 MD5sum: 05efa8ec9b09234e25236f18c7a24b59 SHA1: 966fbb93b1d24981db7f65bd391c0b33b29a49b6 SHA256: 850ad2af58810c9113f0e4ff1676150133fdd850954cf46381f62aa9b1a31ddc SHA512: e531ed0df53cfbf5e078cfb9478a63d476df26ead679a7c8ea10e5f4cb3dab031468519e20d4e9fc3187cf75e89748dab3a1df5111399a015211971f3f775f46 Homepage: https://cran.r-project.org/package=EILA Description: CRAN Package 'EILA' (Efficient Inference of Local Ancestry) Implementation of Efficient Inference of Local Ancestry using fused quantile regression and k-means classifier Package: r-cran-einet Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertthat, r-cran-igraph, r-cran-magrittr, r-cran-shiny, r-cran-entropy Suggests: r-cran-testthat, r-cran-rcolorbrewer, r-cran-knitr, r-cran-rmarkdown, r-cran-bench Filename: pool/dists/focal/main/r-cran-einet_0.1.0-1.ca2004.1_all.deb Size: 60636 MD5sum: 06f77a9b9a326b40415b24abf20cd627 SHA1: 77f70e550c582e8021c8ae687c687b0a1b52c8fc SHA256: 1b98b56e894bd11d4cb0f7d22e68fc4378bd79fbaa4cea7cdbdf020291261c31 SHA512: aefac2ce9858841ea7b35a790c450b210720fb30546893ed9f997a7b15b65fc9949fc185cdda32f8a7e602a5247331777939409ec3533bbe6315ca67a363c028 Homepage: https://cran.r-project.org/package=einet Description: CRAN Package 'einet' (Effective Information and Causal Emergence) Methods and utilities for causal emergence. 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Acknowledgements: The authors wish to thank Generalitat Valenciana, Consellería de Educación, Cultura, Universidades y Empleo (grant CIAICO/2023/031) for supporting this research. 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It is free of distribution specification and powerful to locate the true model given large sample size. This package provides several usage of ELCIC with applications in generalized linear model (GLM), generalized estimating equation (GEE) for longitudinal data, and weighted GEE (WGEE) for missing longitudinal data under the mechanism of missing at random and drop-out. Chixaing Chen, Ming Wang, Rongling Wu, Runze Li (2020) . 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There are also functions to generate simulated voting data, including methods to simulation different types of voting errors which allow for simulations for checking the characteristics of these methods. Package: r-cran-elechemr Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 219 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-elechemr_1.2.0-1.ca2004.1_all.deb Size: 188924 MD5sum: b556f77f80be03cd03448810f6b0742c SHA1: 3d6c47807a0792101dcd997da3265da38de2ebc1 SHA256: ef54a84f6faf99627a237e4a5a85799e23786a81c6b9d15a23c713f157c35d87 SHA512: aca66444b6209f8d26252615e740cc40a2ef76610f7265b08856448eb425f0250c5f6292c0d4f843d8256a3aec882d5efd12108fb7e002822ad7f7e39f9e9956 Homepage: https://cran.r-project.org/package=EleChemr Description: CRAN Package 'EleChemr' (Electrochemical Reactions Simulation) Digital simulation of electrochemical processes. Each function allows for implicit and explicit solution of the differential equation using methods like Euler, Backwards implicit, Runge Kutta 4, Crank Nicholson and Backward differentiation formula as well as different number of points for derivative approximation. Several electrochemical processes can be simulated such as: Chronoamperometry, Potential Step, Linear Sweep, Cyclic Voltammetry, Cyclic Voltammetry with electrochemical reaction followed by chemical reaction (EC mechanism) and CV with two following electrochemical reaction (EE mechanism). In update 1.1.0 has been added a general purpose CV function that allow to simulate up to 4 EE mechanism combined with chemical reaction for each species.Update 1.2.0 improved the accuracy of the measurements and allow personalized data resolution for simulation. Bibliography regarding this methods can be found in the following texts. Dieter Britz, Jorg Strutwolf (2016) . Allen J. Bard, Larry R. Faulkner (2000) . Package: r-cran-elect Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-msm, r-cran-nnet Filename: pool/dists/focal/main/r-cran-elect_1.2-1.ca2004.1_all.deb Size: 76516 MD5sum: 2634002a28561c62504098fe862904d1 SHA1: b2b3be95bcc99bad1bb0c735608040f8b6602e31 SHA256: 166432408e73fc866e7c8290608413b256c58dff50847c11e0c7f9462389defd SHA512: 1f4ca1be6ea75e778cdf66101ec21f3c695a390d934b6f3ba205ab49dc40af9be90f5305451806c801bd395cdb7289548de37aa03c4581719060dd58d5960c62 Homepage: https://cran.r-project.org/package=elect Description: CRAN Package 'elect' (Estimation of Life Expectancies Using Multi-State Models) Functions to compute state-specific and marginal life expectancies. The computation is based on a fitted continuous-time multi-state model that includes an absorbing death state; see Van den Hout (2017, ISBN:9781466568402). The fitted multi-state model model should be estimated using the 'msm' package using age as the time-scale. 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References: Kedar, O., Harsgor, L. and Sheinerman, R.A. (2016). . Penades, A and Pavia, J.M. (2025) ''The decomposition of seats-to-votes distortion in elections: mean, variance, malapportionment and participation''. Acknowledgements: The authors wish to thank Consellería de Educación, Cultura, Universidades y Empleo, Generalitat Valenciana (grant CIACO/2023/031) for supporting this research. 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Package: r-cran-electionsbr Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 232 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-data.table, r-cran-haven, r-cran-readr, r-cran-httr, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-electionsbr_0.5.0-1.ca2004.1_all.deb Size: 156228 MD5sum: 0a5a67c7d39396500151b9232d94a31f SHA1: 1dfc2cb28cbba23c982efeabd44a9608901e9c50 SHA256: efab5e267f3ece7651f12be5ad756db1289cf8cca18b2cdb479c33e996066cc7 SHA512: eef793a32a1e4ebba36d1618cbb7808addbcede0c56d59f6bc11fdc2f930af46861db2cce72af2b209b46123d4f8a5feb0a026499e0b4429f928f84379d104f1 Homepage: https://cran.r-project.org/package=electionsBR Description: CRAN Package 'electionsBR' (R Functions to Download and Clean Brazilian Electoral Data) Offers a set of functions to easily download and clean Brazilian electoral data from the Superior Electoral Court and 'CepespData' websites. 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Package: r-cran-electivity Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-usethis Filename: pool/dists/focal/main/r-cran-electivity_1.0.2-1.ca2004.1_all.deb Size: 32400 MD5sum: f66774c90124f4273e4b1582255d90b9 SHA1: c6a38ff25b92be0a1e76cb91f599f19ee551503d SHA256: fc51b41ed27e3d621d7073af81ee75ed63fc7ec1f243aff22efcc793c35ac83c SHA512: e6c5f767142fab735856fc537d9ddb0d368f9b357c6982b4ed99cb75ed8e0e0145d5d2cf50729ac21edd9ea0260cbf9afd7cf13b9c4cf882bc299b2a88f7718f Homepage: https://cran.r-project.org/package=electivity Description: CRAN Package 'electivity' (Algorithms for Electivity Indices) Provides all electivity algorithms (including Vanderploeg and Scavia electivity) that were examined in Lechowicz (1982) , plus the example data that were provided for moth resource utilisation. Package: r-cran-electoral Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-ineq, r-cran-tibble Filename: pool/dists/focal/main/r-cran-electoral_0.1.4-1.ca2004.1_all.deb Size: 45872 MD5sum: 99eb188a511926fad06c70198b52e3a4 SHA1: b5baefc74ccf97544c81d3e9c0c798c522e1b3a3 SHA256: aae51f1e372b5d3f9c97c229a82b79c7e6fe0f7e693b8307f85e489dc1173cae SHA512: 0208c973a232d37220f5b7b86ebe26fc1cbe4a063b5b4ecf3171cd878599e100b0dc89ca7fb0be87387c94b322d3329f340325b969e81789c542a5cb016d33de Homepage: https://cran.r-project.org/package=electoral Description: CRAN Package 'electoral' (Allocating Seats Methods and Party System Scores) Highest averages & largest remainders allocating seats methods and several party system scores. Implemented highest averages allocating seats methods are D'Hondt, Webster, Danish, Imperiali, Hill-Huntington, Dean, Modified Sainte-Lague, equal proportions and Adams. Implemented largest remainders allocating seats methods are Hare, Droop, Hangenbach-Bischoff, Imperial, modified Imperial and quotas & remainders. The main advantage of this package is that ties are always reported and not incorrectly allocated. Party system scores provided are competitiveness, concentration, effective number of parties, party nationalization score, party system nationalization score and volatility. References: Gallagher (1991) . Norris (2004, ISBN:0-521-82977-1). Laakso & Taagepera (1979) . Jones & Mainwaring (2003) . Pedersen (1979) . Golosov (2010) . Golosov (2014) . 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This is a comprehensive collection of p-value based FWER-control stepwise multiple test procedures, including six procedure families and thirty multiple test procedures. In this collection, the conservative Hochberg procedure, linear time Hommel procedures, asymptotic Rom procedure, Gou-Tamhane-Xi-Rom procedures, and Quick procedures are all developed in recent five years since 2014. The package name "elitism" is an acronym of "e"quipment for "l"ogarithmic and l"i"near "ti"me "s"tepwise "m"ultiple hypothesis testing. See Gou, J. (2022), "Quick multiple test procedures and p-value adjustments", Statistics in Biopharmaceutical Research 14(4), 636-650. 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Package: r-cran-em.fuzzy Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fuzzynumbers, r-cran-distrib Filename: pool/dists/focal/main/r-cran-em.fuzzy_1.0-1.ca2004.1_all.deb Size: 59188 MD5sum: 5daff6bed103fea834b07afabdec6806 SHA1: 8d4cf873b7d08eb0d12e0c5352f407b6b021d8a9 SHA256: ee1f307b12860ae70c4f1ef250e551e03c2039fb1585d1888e3c837eb36b25d6 SHA512: cec91d396329ebb9d276c3c2208d63dd7ca0a9d93123f22c797b67804033fc7dae7252ee40f237628d52985cd3e6acce5ea16770af2eb5356a5eeacb2a607400 Homepage: https://cran.r-project.org/package=EM.Fuzzy Description: CRAN Package 'EM.Fuzzy' (EM Algorithm for Maximum Likelihood Estimation by Non-PreciseInformation) The EM algorithm is a powerful tool for computing maximum likelihood estimates with incomplete data. This package will help to applying EM algorithm based on triangular and trapezoidal fuzzy numbers (as two kinds of incomplete data). A method is proposed for estimating the unknown parameter in a parametric statistical model when the observations are triangular or trapezoidal fuzzy numbers. This method is based on maximizing the observed-data likelihood defined as the conditional probability of the fuzzy data; for more details and formulas see Denoeux (2011) . Package: r-cran-emailjsr Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 262 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-shiny.i18n, r-cran-httr, r-cran-shinybrowser Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-emailjsr_0.0.2-1.ca2004.1_all.deb Size: 145208 MD5sum: 5e98c7694037133ec8486e1e31ff7811 SHA1: aa60edf671466841fe12b9aa8fec5c1a32df8a58 SHA256: 3bdb9284c1221fedad2942c6a0ab524a138daf5837fad84c0b66bb3915f01209 SHA512: a72a4de1b5e44c1ff4e881e2040de0913c4b86eb1d1dade1ad2e9e798ffed3713f229071f2a63243a4c995ec9c7a7cfeb852ee40897645b42b0fb61f7651c1c5 Homepage: https://cran.r-project.org/package=emailjsr Description: CRAN Package 'emailjsr' ('emailjs' Support) Use 'emailjs' API easily in 'R'. This package is not official. . You can send e-mail with 'emailjs' with function, based on 'httr'. You can also make a 'shiny' ui and server function. It can be used for making feedback form, inquiry, and so on. Package: r-cran-emailvalidation Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-emailvalidation_0.1.0-1.ca2004.1_all.deb Size: 19628 MD5sum: afd3f907b8f6ee67b6c5f67e2fabd2fb SHA1: a57ca07a36eb4511567cb56e380a8146053b8d7c SHA256: 2b5a5c6617d58bb7db40d04de3b44593f34fdd37828a7bee554ce36d41b35b56 SHA512: 7c784d754751f85b78804d25619e4d3e864cf921dd7e6ba83a1789c673c3ec9788480eb087f10b2abade0276dd8580e2ac0a72b2f3427c79f13b5ff77170aaa9 Homepage: https://cran.r-project.org/package=emailvalidation Description: CRAN Package 'emailvalidation' (Client for the 'emailalvalidation.io' E-Mail Validation API) An R client for the 'emailvalidation.io' e-mail verification API. The API requires registration of an API key. Basic features are free, some require a paid subscription. You can find the full API documentation at . Package: r-cran-emar Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-emar_1.0.0-1.ca2004.1_all.deb Size: 19156 MD5sum: 89dea4fbc0265c7aa0fab90f3081fc77 SHA1: ffab15f4b0fd00bec76ecdfc5c834aee9b2c102c SHA256: 8fedc1ef049614e5036152ed786d59e809596baa057bd19da7e32c9a0ae8fa95 SHA512: bc7591fe52e3950f3e16fdd824e086ffb031ec13d01b8fc415cd8c262ec2a2dff271df4d2f1ecb55e02399209ab0995e333c8dedb819d6b9af97f43159048ac0 Homepage: https://cran.r-project.org/package=EMAR Description: CRAN Package 'EMAR' (Empirical Model Assessment) A tool that allows users to generate various indices for evaluating statistical models. The fitstat() function computes indices based on the fitting data. The valstat() function computes indices based on the validation data set. Both fitstat() and valstat() will return 16 indices SSR: residual sum of squares, TRE: total relative error, Bias: mean bias, MRB: mean relative bias, MAB: mean absolute bias, MAPE: mean absolute percentage error, MSE: mean squared error, RMSE: root mean square error, Percent.RMSE: percentage root mean squared error, R2: coefficient of determination, R2adj: adjusted coefficient of determination, APC: Amemiya's prediction criterion, logL: Log-likelihood, AIC: Akaike information criterion, AICc: corrected Akaike information criterion, BIC: Bayesian information criterion, HQC: Hannan-Quin information criterion. The lower the better for the SSR, TRE, Bias, MRB, MAB, MAPE, MSE, RMSE, Percent.RMSE, APC, AIC, AICc, BIC and HQC indices. The higher the better for R2 and R2adj indices. Petre Stoica, P., Selén, Y. (2004) \n Zhou et al. (2023) \n Ogana, F.N., Ercanli, I. (2021) \n Musabbikhah et al. (2019) . Package: r-cran-emas Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 268 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mediation, r-cran-multilevel, r-bioc-minfi, r-cran-ggplot2, r-cran-qqman, r-cran-lavaan, r-bioc-illuminahumanmethylationepicanno.ilm10b4.hg19, r-bioc-illuminahumanmethylation450kanno.ilmn12.hg19 Filename: pool/dists/focal/main/r-cran-emas_0.2.2-1.ca2004.1_all.deb Size: 239220 MD5sum: 4fac5f0318e6af4bcf832109d31667a7 SHA1: 35f6d9855bc79fe13a080103f8152f5d4ac123f7 SHA256: 75b0a5851945d8e26507f9270571f70f7b0a507671264ce48c97ccb7ef9add5f SHA512: e2e1f1c45955460dd8f7e998d101639623649881b2e919fa310c3fa10b59d14346605b50fb25c53acb9145bbd353c7053a3217523d0a717deeb260b8e7b29377 Homepage: https://cran.r-project.org/package=EMAS Description: CRAN Package 'EMAS' (Epigenome-Wide Mediation Analysis Study) DNA methylation is essential for human, and environment can change the DNA methylation and affect body status. Epigenome-Wide Mediation Analysis Study (EMAS) can find potential mediator CpG sites between exposure (x) and outcome (y) in epigenome-wide. For more information on the methods we used, please see the following references: Tingley, D. (2014) , Turner, S. D. (2018) , Rosseel, D. (2012) . Package: r-cran-ematools Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-datacombine, r-cran-ggplot2, r-cran-lmertest, r-cran-sjstats, r-cran-anytime, r-cran-plyr Filename: pool/dists/focal/main/r-cran-ematools_0.1.4-1.ca2004.1_all.deb Size: 37372 MD5sum: dd3d17af20db62e3849ab09e75d561ef SHA1: 173715bf746f01b4253fdd5a1f2663385396b11d SHA256: 8aaa16837be69e53b275950983e35b3bda80520da96dd40eeef96e2fbcec2ec3 SHA512: 8300245df25543bb86065d64e83f7b335440b3ed7f1b065cf2603daa73f97455b004897f510d9c7080385fc6829d89c3c2e18e9312d9488f0e4834ddc19421f4 Homepage: https://cran.r-project.org/package=EMAtools Description: CRAN Package 'EMAtools' (Data Management Tools for Real-Time Monitoring/EcologicalMomentary Assessment Data) Do data management functions common in real-time monitoring (also called: ecological momentary assessment, experience sampling, micro-longitudinal) data, including creating power curves for multilevel data, centering on participant means and merging event-level data into momentary data sets where you need the events to correspond to the nearest data point in the momentary data. This is VERY early release software, and more features will be added over time. Package: r-cran-emayili Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 623 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-base64enc, r-cran-commonmark, r-cran-curl, r-cran-digest, r-cran-dplyr, r-cran-glue, r-cran-htmltools, r-cran-httr, r-cran-logger, r-cran-magrittr, r-cran-mime, r-cran-purrr, r-cran-rmarkdown, r-cran-rvest, r-cran-stringi, r-cran-stringr, r-cran-tidyr, r-cran-urltools, r-cran-xfun, r-cran-xml2 Suggests: r-cran-cld2, r-cran-cld3, r-cran-gpg, r-cran-here, r-cran-jinjar, r-cran-lintr, r-cran-memoise, r-cran-testthat, r-cran-roxygen2, r-cran-showtext, r-cran-microsoft365r Filename: pool/dists/focal/main/r-cran-emayili_0.9.3-1.ca2004.1_all.deb Size: 559208 MD5sum: cc07ce75f65f15bd507ff9cc9aecd995 SHA1: 274755b1ba5e702c43f8e7e7a3d66816ef7d7cde SHA256: fb593096deb860b755cc0646808087997e943d590fce0a92da9731cf5b542d1f SHA512: 318c8fad303d0b5a7d727db82460da9f8efa83ff0e772b3f9db096bb00893ce5566ae8a12c2e655fcdc7a9726ab8e8e0f3391a9e3bb3f3958baf76cf3597778d Homepage: https://cran.r-project.org/package=emayili Description: CRAN Package 'emayili' (Send Email Messages) A light, simple tool for sending emails with minimal dependencies. Package: r-cran-emba Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2079 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-rje, r-cran-igraph, r-cran-visnetwork, r-cran-ckmeans.1d.dp, r-cran-readr, r-cran-dplyr, r-cran-tidyr, r-cran-tidyselect, r-cran-stringr, r-cran-tibble Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-xfun Filename: pool/dists/focal/main/r-cran-emba_0.1.8-1.ca2004.1_all.deb Size: 1484888 MD5sum: d9f72aad184346dee109120b8ca42795 SHA1: 440b771ec460e6d1aca9bf1b01d0c5caab7806ee SHA256: 5706db473951949f7534af1055efb8d7b70ff35d77d10c893cbafc723ba0a4f4 SHA512: cb93a91baf99d8be25cf5208c1f396dc28ff6cd0f83e6c2e275ffb836fe369bb330f8465cfd7e7c0995ab4999b329ea961d0f1e5976f3ba3038f68d90ac85ab2 Homepage: https://cran.r-project.org/package=emba Description: CRAN Package 'emba' (Ensemble Boolean Model Biomarker Analysis) Analysis and visualization of an ensemble of boolean models for biomarker discovery in cancer cell networks. The package allows to easily load the simulation data results of the DrugLogics software pipeline which predicts synergistic drug combinations in cancer cell lines (developed by the DrugLogics research group in NTNU). It has generic functions that can be used to split a boolean model dataset to model groups with regards to the models predictive performance (number of true positive predictions/Matthews correlation coefficient score) or synergy prediction based on a given set of gold standard synergies and find the average activity difference per network node between all model group pairs. Thus, given user-specific thresholds, important nodes (biomarkers) can be accessed in the sense that they make the models predict specific synergies (synergy biomarkers) or have better performance in general (performance biomarkers). Lastly, if the boolean models have a specific equation form and differ only in their link operator, link operator biomarkers can also be found. Package: r-cran-embed Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 442 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-recipes, r-cran-cli, r-cran-glue, r-cran-dplyr, r-cran-generics, r-cran-lifecycle, r-cran-purrr, r-cran-rlang, r-cran-rsample, r-cran-tibble, r-cran-tidyr, r-cran-uwot, r-cran-withr, r-cran-vctrs Suggests: r-cran-covr, r-cran-dials, r-cran-ggplot2, r-cran-hardhat, r-cran-irlba, r-cran-keras, r-cran-knitr, r-cran-lme4, r-cran-modeldata, r-cran-rmarkdown, r-cran-rpart, r-cran-rstanarm, r-cran-stringdist, r-cran-tensorflow, r-cran-testthat, r-cran-vbsparsepca, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-embed_1.1.5-1.ca2004.1_all.deb Size: 384364 MD5sum: aa0744da687eee10d9aa55b3cec3d20c SHA1: e0f87b3fa61b1f850f38fb3050f85a8504a89645 SHA256: 212262e5f076ceb56e551c1f38fd0d6e53fad89abdf9578ec6d0df57efaf61b9 SHA512: c61cc5f252a07febc5cf9730543076301f47742c8ecc4f533731fc4a1bb6bb2e453ad73f1e9faa6ecd83a76e8883059a77065d999e3208d1aaf33bc25047fc2a Homepage: https://cran.r-project.org/package=embed Description: CRAN Package 'embed' (Extra Recipes for Encoding Predictors) Predictors can be converted to one or more numeric representations using a variety of methods. Effect encodings using simple generalized linear models or nonlinear models can be used. There are also functions for dimension reduction and other approaches. Package: r-cran-embryogrowth Architecture: all Version: 10.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4887 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-desolve, r-cran-optimx, r-cran-numderiv, r-cran-ggplot2, r-cran-helpersmg, r-cran-rdpack Suggests: r-cran-entropy, r-cran-shiny, r-cran-coda, r-cran-polynom, r-cran-car, r-cran-gam, r-cran-pbapply, r-cran-cranlogs, r-cran-mapdata Filename: pool/dists/focal/main/r-cran-embryogrowth_10.2-1.ca2004.1_all.deb Size: 4778096 MD5sum: 6520655b775f6fe010bae5c42e3da5f3 SHA1: 5f90a71e45cc4b526f68218d38edb486685e3b4c SHA256: d6816062a1d4f2cca53dda42e405b9792ec7a23b7c585089f1cada8b62cd0e2c SHA512: 706959b0aee58f1a783e6f5e464fab8c1e7222ad13fc35a213ef2ef5cf591a801cad295059d2b246db3e91f5e6305b07bbf8fe2fa764eacb58509f1de93a20cf Homepage: https://cran.r-project.org/package=embryogrowth Description: CRAN Package 'embryogrowth' (Tools to Analyze the Thermal Reaction Norm of Embryo Growth) Tools to analyze the embryo growth and the sexualisation thermal reaction norms. See for tsd functions; see for thermal reaction norm of embryo growth. Package: r-cran-emdannhybrid Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-emd, r-cran-forecast Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-emdannhybrid_0.2.0-1.ca2004.1_all.deb Size: 22952 MD5sum: 5199c0dbbf09e9d6fa5301cb4de3b836 SHA1: a2f4ec490d24ae9e18273eb2efa3bdc8a202dc3f SHA256: 2da7ffb34600cc4c3f175d75ccbbfd43a06bdfce5d00a037fa6b5d6e1aadce58 SHA512: 879a8617ffb734c499c6ddfbd3a6346499c51d5fee6db3f98d085f130eb40c3db7b4d0edf210a89c8b492b64cdbbe5dc05f5ecc0b2163780077951e1de602403 Homepage: https://cran.r-project.org/package=EMDANNhybrid Description: CRAN Package 'EMDANNhybrid' (Empirical Mode Decomposition Based Artificial Neural NetworkModel) Application of empirical mode decomposition based artificial neural network model for nonlinear and non stationary univariate time series forecasting. For method details see (i) Choudhury (2019) ; (ii) Das (2020) . Package: r-cran-emdbook Architecture: all Version: 1.3.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 285 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-lattice, r-cran-plyr, r-cran-coda, r-cran-bbmle Suggests: r-cran-r2jags, r-cran-ellipse, r-cran-suppdists, r-cran-numderiv, r-cran-testthat, r-cran-rgl Filename: pool/dists/focal/main/r-cran-emdbook_1.3.13-1.ca2004.1_all.deb Size: 197420 MD5sum: 222f08e626116df71451bd25408f61a8 SHA1: d0150988a84051df52a769cbeb369cf641294fea SHA256: a357f43aca55a7cf5f52c27795cd48cb4e6576c53e6f05960fdc0c40dd379aef SHA512: cd2054cd9889e9ff6d9838d46e08a74a8a7578bc10cdfbd621517706bff96e3c0d2bf6eb078e1c263ae3c11bd234abb88edeee3e1a4ac7073b6e36a19e5316dc Homepage: https://cran.r-project.org/package=emdbook Description: CRAN Package 'emdbook' (Support Functions and Data for "Ecological Models and Data") Auxiliary functions and data sets for "Ecological Models and Data", a book presenting maximum likelihood estimation and related topics for ecologists (ISBN 978-0-691-12522-0). Package: r-cran-emdi Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4821 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlme, r-cran-moments, r-cran-ggplot2, r-cran-gridextra, r-cran-openxlsx, r-cran-reshape2, r-cran-stringr, r-cran-parallelmap, r-cran-hlmdiag, r-cran-boot, r-cran-mass, r-cran-readods, r-cran-formula.tools, r-cran-saerobust, r-cran-rlang, r-cran-spdep Suggests: r-cran-testthat, r-cran-r.rsp, r-cran-simframe, r-cran-laeken, r-cran-sf Filename: pool/dists/focal/main/r-cran-emdi_2.2.2-1.ca2004.1_all.deb Size: 4645680 MD5sum: 11f128142512f0081832272f7b13a83e SHA1: 83f1639d7782b71770bf348ffdf990f4b52d7ae2 SHA256: eefcee14ef8986d659fc6a7b7c4f1206cc3c46f54dfdc6cd9a53ea24820ae4c3 SHA512: 35b0032386293784e1150dd1fbe24d1cbe53fdf21f5f4e7b68be0fdf20f1c7991a3ffd3e14661f355a701afc23f9e6b157d6b6c08323b6858bb4244d08b4e0bc Homepage: https://cran.r-project.org/package=emdi Description: CRAN Package 'emdi' (Estimating and Mapping Disaggregated Indicators) Functions that support estimating, assessing and mapping regional disaggregated indicators. So far, estimation methods comprise direct estimation, the model-based unit-level approach Empirical Best Prediction (see "Small area estimation of poverty indicators" by Molina and Rao (2010) ), the area-level model (see "Estimates of income for small places: An application of James-Stein procedures to Census Data" by Fay and Herriot (1979) ) and various extensions of it (adjusted variance estimation methods, log and arcsin transformation, spatial, robust and measurement error models), as well as their precision estimates. The assessment of the used model is supported by a summary and diagnostic plots. For a suitable presentation of estimates, map plots can be easily created. Furthermore, results can easily be exported to excel. For a detailed description of the package and the methods used see "The R Package emdi for Estimating and Mapping Regionally Disaggregated Indicators" by Kreutzmann et al. (2019) and the second package vignette "A Framework for Producing Small Area Estimates Based on Area-Level Models in R". 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For method details see (i) Choudhury (2019) ; (ii) Das (2020) ; (iii) Das (2023) . Package: r-cran-emend Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4679 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-jsonlite, r-cran-rlang, r-cran-ellmer Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-emend_0.1.0-1.ca2004.1_all.deb Size: 3630616 MD5sum: 545c2c7c840e1bac521fdb09dbc311e1 SHA1: 782f960b8bcc635f03bd4d0b9a40a846700c8eae SHA256: b4c7d5512081e5b3dbb1b577bd5f4b936d422ee59b3e8fca4498cd1dc691b451 SHA512: a3b2cd1dea05f05db289f4d9b217d5c3768c894dce1923e38bae136919d26758784fe1c6ace4856964c11ceb9b4f9e951d3de1f678008a64d2136afa70b9ff8d Homepage: https://cran.r-project.org/package=emend Description: CRAN Package 'emend' (Cleaning Text Data with an AI Assistant) Provides functions to clean and standardize messy data, including textual categories and free-text addresses, using Large Language Models. The package corrects typos, expands abbreviations, and maps inconsistent entries to standardized values. Ideal for Bioinformatics, business, and general data cleaning tasks. Package: r-cran-emery Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 538 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-purrr, r-cran-tibble, r-cran-tidyr, r-cran-mvtnorm, r-cran-stringr, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-emery_0.6.0-1.ca2004.1_all.deb Size: 374276 MD5sum: fe100a599a7a49726a84d835eecf78fa SHA1: ae28cac7199e8501a16a4cdcc31f73b525b6e859 SHA256: d6dcabad742f9551d67a728dd9acd088a08ea1371790a0fffbe8778dfde68c13 SHA512: ef99e44efe17f780b8e02b84c54fecb231c9ae351aefcbcdfda858273ea11148074161389ee7c8fc8c3270a9feaae2185ee76a6d9590ce80b008f154814ec808 Homepage: https://cran.r-project.org/package=emery Description: CRAN Package 'emery' (Accuracy Statistic Estimation for Imperfect Gold Standards) Produce maximum likelihood estimates of common accuracy statistics for multiple measurement methods when a gold standard is not available. An R implementation of the expectation maximization algorithms described in Zhou et al. (2011) with additional functions for creating simulated data and visualizing results. Supports binary, ordinal, and continuous measurement methods. Package: r-cran-emf Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-emf_0.1.0-1.ca2004.1_all.deb Size: 78236 MD5sum: a0f0211e1d8acf867a40fd5422b540bb SHA1: 77804341a529f761bd52c95fda469cc96086fda6 SHA256: 34d37058cda25d8f5ffad9418e9488beca3ececa7c88b4627213bcd28015a79e SHA512: c3ec869a467cbc4c80647b46f594af021deae12604c2c01b19e9928b85d20150196cb0f04ae16377c77a3769c13d9915d7b527f87ca5b598830a118e0bee49db Homepage: https://cran.r-project.org/package=emf Description: CRAN Package 'emf' (Ecosystem Multifunctionality: Richness, Divergence, andRegularity) Analyzes and quantifies ecosystem multifunctionality with functions to calculate multifunctionality richness (MFric), multifunctionality divergence (MFdiv), and multifunctionality regularity (MFreg). These indices help assess the relationship between biodiversity and multiple ecosystem functions. For more details, see Byrnes et al. (2014) and Chao et al. (2024) . Package: r-cran-emg Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-moments Filename: pool/dists/focal/main/r-cran-emg_1.0.9-1.ca2004.1_all.deb Size: 36540 MD5sum: 439ab0a6d45b9291d60c674308377715 SHA1: c59208ad35a7db6dc6f03a8fb2821d2ad098a882 SHA256: 51a740d063a6bfb0382c902516444f5efa8d30d0ba7a4849f96de659fdba938f SHA512: 21995591b8551cdbc88c3b8c197acf388d22b655ccb921aeff14c75d24514c09a881e957dc1fd2a73c97b5e1866225f0ccabc7aa7691f3acf940c8ee9c6c2510 Homepage: https://cran.r-project.org/package=emg Description: CRAN Package 'emg' (Exponentially Modified Gaussian (EMG) Distribution) Provides basic distribution functions for a mixture model of a Gaussian and exponential distribution. Package: r-cran-emhawkes Architecture: all Version: 0.9.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 620 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-maxlik Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-misctools, r-cran-v8 Filename: pool/dists/focal/main/r-cran-emhawkes_0.9.7-1.ca2004.1_all.deb Size: 253144 MD5sum: 94ebaaeb04842e37921afde06451a470 SHA1: b34318cc477f735c1edfb2de0ec08a2da91b39c5 SHA256: 1eb920cc703987b800a0923ae55bf70ebedff0afe7bdeadde3294925f12023a7 SHA512: 6dfc84d2b338d660f5eb019abd43a63646e83dec8156704ce1eaa47d6c79085026993cad779583f6b0909958c5ac7a9dde6c08d9620a3812b8de5d870581887e Homepage: https://cran.r-project.org/package=emhawkes Description: CRAN Package 'emhawkes' (Exponential Multivariate Hawkes Model) Simulate and fitting exponential multivariate Hawkes model. This package simulates a multivariate Hawkes model, introduced by Hawkes (1971) , with an exponential kernel and fits the parameters from the data. Models with the constant parameters, as well as complex dependent structures, can also be simulated and estimated. The estimation is based on the maximum likelihood method, introduced by introduced by Ozaki (1979) , with 'maxLik' package. Package: r-cran-emissv Architecture: all Version: 0.665.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2717 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ncdf4, r-cran-units, r-cran-raster, r-cran-sf, r-cran-data.table Suggests: r-cran-testthat, r-cran-covr, r-cran-lwgeom Filename: pool/dists/focal/main/r-cran-emissv_0.665.9.0-1.ca2004.1_all.deb Size: 698788 MD5sum: b5bc2447ce1f156f7d99979bf097b5a7 SHA1: 1efd16924fb577e2451d23e2c5ca0fa16b507acd SHA256: 832e089afc62da1d4c3441cfff7826813ee0a930b3b36144807431f66c40e506 SHA512: b3e233c81741df1cc31388ad473fcdfcc7b8c37ac6034c4e87d7f65e78a07d69621c93f97c891129bf923813ff5ea4122490b448a776a108e410cd867dd965c7 Homepage: https://cran.r-project.org/package=EmissV Description: CRAN Package 'EmissV' (Tools for Create Emissions for Air Quality Models) Processing tools to create emissions for use in numerical air quality models. Emissions can be calculated both using emission factors and activity data (Schuch et al 2018) or using pollutant inventories (Schuch et al., 2018) . Functions to process individual point emissions, line emissions and area emissions of pollutants are available as well as methods to incorporate alternative data for Spatial distribution of emissions such as satellite images (Gavidia-Calderon et. al, 2018) or openstreetmap data (Andrade et al, 2015) . Package: r-cran-emistatr Architecture: all Version: 1.2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 279 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xts, r-cran-zoo, r-cran-foreach, r-cran-lattice, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-emistatr_1.2.3.0-1.ca2004.1_all.deb Size: 164316 MD5sum: e9075d72c3d40259d37df56092689e2f SHA1: fc4764c2621019b932c40c072992301f70da5d09 SHA256: a194f582edb33cef687db2687bfb30a7d4acc131182b58223aa5e72cc52a5d67 SHA512: ac61f4b503a9ccdad319f51710a99c847358d8fb3dd6f8a406d6736dd4967274463ef95a5ad19d6fa6cd3e5380502d32792658308d04a5b809af8496baa61785 Homepage: https://cran.r-project.org/package=EmiStatR Description: CRAN Package 'EmiStatR' (Emissions and Statistics in R for Wastewater and Pollutants inCombined Sewer Systems) Provides a fast and parallelised calculator to estimate combined wastewater emissions. It supports the planning and design of urban drainage systems, without the requirement of extensive simulation tools. The 'EmiStatR' package implements modular R methods. This enables to add new functionalities through the R framework. Package: r-cran-emjmcmc Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 496 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bigmemory, r-cran-glmnet, r-cran-biglm, r-cran-hash, r-cran-bas, r-cran-stringi, r-cran-speedglm, r-cran-withr Suggests: r-cran-testthat, r-cran-bindata, r-cran-clustergeneration, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-emjmcmc_1.5.0-1.ca2004.1_all.deb Size: 355432 MD5sum: d4053cbede599fea7e5870e9824e87b1 SHA1: ad2e936867940e330efa5739e5148a55afe47df0 SHA256: 761716ca3625669fc81135a9a4ea1b6422a8985be880ee20ed627881ce9c6489 SHA512: ee298a988a7676139451b32367c68b5b98f742979c5faeea6a27d9dc94d683427044efbe3fd8b1dbb0f192051433266d12810f70ef73e69f08b6078db28d9336 Homepage: https://cran.r-project.org/package=EMJMCMC Description: CRAN Package 'EMJMCMC' (Evolutionary Mode Jumping Markov Chain Monte Carlo ExpertToolbox) Implementation of the Mode Jumping Markov Chain Monte Carlo algorithm from Hubin, A., Storvik, G. (2018) , Genetically Modified Mode Jumping Markov Chain Monte Carlo from Hubin, A., Storvik, G., & Frommlet, F. (2020) , Hubin, A., Storvik, G., & Frommlet, F. (2021) , and Hubin, A., Heinze, G., & De Bin, R. (2023) , and Reversible Genetically Modified Mode Jumping Markov Chain Monte Carlo from Hubin, A., Frommlet, F., & Storvik, G. (2021) , which allow for estimating posterior model probabilities and Bayesian model averaging across a wide set of Bayesian models including linear, generalized linear, generalized linear mixed, generalized nonlinear, generalized nonlinear mixed, and logic regression models. Package: r-cran-eml Architecture: all Version: 2.0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2358 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-digest, r-cran-emld, r-cran-jqr, r-cran-jsonlite, r-cran-uuid, r-cran-rmarkdown, r-cran-dplyr Suggests: r-cran-knitr, r-cran-taxadb, r-cran-tibble, r-cran-testthat, r-cran-covr, r-cran-units, r-cran-htmlwidgets, r-cran-shiny, r-cran-shinyjs, r-cran-spelling Filename: pool/dists/focal/main/r-cran-eml_2.0.6.1-1.ca2004.1_all.deb Size: 774868 MD5sum: 2ea87ba79559821a8693bbbc68d5a235 SHA1: b67a1625b4f7bfae0d8987d2e0967da41ae0390f SHA256: d3f3a597da95c6c41c360025ffc9acc371e8c2d665c7db02ee46dd86c857d810 SHA512: 52ad90be919a154c92dff84103bbd21522fd913eca6a43b6ffcf56fa01e4d15694f62071d491ba6c829c2faccf7763545d3e153dce4908faa5f966bffb475bd8 Homepage: https://cran.r-project.org/package=EML Description: CRAN Package 'EML' (Read and Write Ecological Metadata Language Files) Work with Ecological Metadata Language ('EML') files. 'EML' is a widely used metadata standard in the ecological and environmental sciences, described in Jones et al. (2006), . Package: r-cran-emld Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4393 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-jsonlite, r-cran-jsonld, r-cran-yaml Suggests: r-cran-spelling, r-cran-testthat, r-cran-magrittr, r-cran-rmarkdown, r-cran-covr, r-cran-knitr, r-cran-rdflib, r-cran-jqr Filename: pool/dists/focal/main/r-cran-emld_0.5.1-1.ca2004.1_all.deb Size: 323868 MD5sum: ca4db00d7ade17567ff54116e4b25223 SHA1: 235da666ee00768a8d0c6c7d380867ce6ff20c84 SHA256: a683d5b7156ebfb5ab9b5179dca484894f4eee35884490773a9172eb0e89c265 SHA512: df10ea617b4706a867057509326dcbb8f5610ee8a4030d8b837fdc8ed99e069fd687b78989bd0f726b7f400dadb67fcc64df493e750f29c2650b3e66fac35e06 Homepage: https://cran.r-project.org/package=emld Description: CRAN Package 'emld' (Ecological Metadata as Linked Data) This is a utility for transforming Ecological Metadata Language ('EML') files into 'JSON-LD' and back into 'EML.' Doing so creates a list-based representation of 'EML' in R, so that 'EML' data can easily be manipulated using standard 'R' tools. This makes this package an effective backend for other 'R'-based tools working with 'EML.' By abstracting away the complexity of 'XML' Schema, developers can build around native 'R' list objects and not have to worry about satisfying many of the additional constraints of set by the schema (such as element ordering, which is handled automatically). Additionally, the 'JSON-LD' representation enables the use of developer-friendly 'JSON' parsing and serialization that may facilitate the use of 'EML' in contexts outside of 'R,' as well as the informatics-friendly serializations such as 'RDF' and 'SPARQL' queries. Package: r-cran-emleloglin Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 323 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolveapi Filename: pool/dists/focal/main/r-cran-emleloglin_1.0.1-1.ca2004.1_all.deb Size: 264764 MD5sum: b208f513ab761fc35843f8a0a068af86 SHA1: 7d35554b12122bca04d5d24876de2a9db5f20be5 SHA256: c774f4fb203f1252eebab8cf2945a39014199829b1f953d406ceb4b8b471f8ab SHA512: 42442b9a5304e75b04289148f240ede0f68d1e88fae4d401aa951dd8c467f070aee63324e68752d30696217f16dcfa25a6802e745ef5549a0c46ba9078d4fd04 Homepage: https://cran.r-project.org/package=eMLEloglin Description: CRAN Package 'eMLEloglin' (Fitting log-Linear Models in Sparse Contingency Tables) Log-linear modeling is a popular method for the analysis of contingency table data. When the table is sparse, the data can fall on the boundary of the convex support, and we say that "the MLE does not exist" in the sense that some parameters cannot be estimated. However, an extended MLE always exists, and a subset of the original parameters will be estimable. The 'eMLEloglin' package determines which sampling zeros contribute to the non-existence of the MLE. These problematic zero cells can be removed from the contingency table and the model can then be fit (as far as is possible) using the glm() function. Package: r-cran-emli Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-emli_0.2.0-1.ca2004.1_all.deb Size: 44656 MD5sum: 305f85ee83b1a45d1e7e50a4872dbe8b SHA1: 9ad4abc6193b2108a8552d27a9dfcb1e3be2be3c SHA256: e922770012decf70c1c45c24e7c2f60599e0abc6106d47b8ebc2603e27497244 SHA512: 37fb42cc23d10fbc10d07d700117a4354e73d44d5c38366bb852e9eea856edf2895ba21e6317830062d9bec3fb325eef4887e0e17ce491432504a4cb6ac6f371 Homepage: https://cran.r-project.org/package=EMLI Description: CRAN Package 'EMLI' (Computationally Efficient Maximum Likelihood Identification ofLinear Dynamical Systems) Provides implementations of computationally efficient maximum likelihood parameter estimation algorithms for models that represent linear dynamical systems. Currently, one such algorithm is implemented for the one-dimensional cumulative structural equation model with shock-error output measurement equation and assumptions of normality and independence. The corresponding scientific paper is yet to be published, therefore the relevant reference will be provided later. Package: r-cran-emmageo Architecture: all Version: 0.9.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 621 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-gparotation, r-cran-nnls, r-cran-catools, r-cran-shiny Filename: pool/dists/focal/main/r-cran-emmageo_0.9.9-1.ca2004.1_all.deb Size: 591212 MD5sum: 35a2e49285ef04e34b5f2f87c1058aac SHA1: e225d219e4496598f5bec8e62f7c6e49a9e72b76 SHA256: 7bae767c5ee4c97e1a0259621e0bd893460c51942eb977a83d675ab1bbcfeb26 SHA512: a8222ea012960811392d69855f36548e626b36e56da107c8ef6d66419a6d4cc4ae8b980ff2c40353bc45d9b1548caa9a253b3c682a27b416fe358a484b6cdfa2 Homepage: https://cran.r-project.org/package=EMMAgeo Description: CRAN Package 'EMMAgeo' (End-Member Modelling of Grain-Size Data) End-member modelling analysis of grain-size data is an approach to unmix a data set's underlying distributions and their contribution to the data set. EMMAgeo provides deterministic and robust protocols for that purpose. Package: r-cran-emme2 Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape Filename: pool/dists/focal/main/r-cran-emme2_0.9-1.ca2004.1_all.deb Size: 46600 MD5sum: 9bc3651bbae38ea04703e729350b2813 SHA1: 14c7a616a61e12e56a23786d3f972ac97dbedf2f SHA256: 7270577522fa5ae4cad0de24a3b6ccdfa3c57ff522386b9b808cf37e82289f27 SHA512: 882ad6c9d846ad87c187c7212a411962f4c8040ed14c9bdf87fdaefafd10e358d0d5d3912051486a2221a785b4dd8e2a2f97c5266bae457762f2c023a775dcf9 Homepage: https://cran.r-project.org/package=emme2 Description: CRAN Package 'emme2' (Read and Write to an EMME/2 databank) This package includes functions to read and write to an EMME/2 databank Package: r-cran-emmeans Architecture: all Version: 1.11.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3187 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-estimability, r-cran-mvtnorm, r-cran-numderiv Suggests: r-cran-bayesplot, r-cran-bayestestr, r-cran-biglm, r-cran-brms, r-cran-car, r-cran-coda, r-cran-compositions, r-cran-ggplot2, r-cran-knitr, r-cran-lattice, r-cran-lme4, r-cran-lmertest, r-cran-logspline, r-cran-mass, r-cran-mediation, r-cran-mgcv, r-cran-multcomp, r-cran-multcompview, r-cran-mumin, r-cran-nlme, r-cran-ordinal, r-cran-pbkrtest, r-cran-rmarkdown, r-cran-rsm, r-cran-sandwich, r-cran-scales, r-cran-testthat, r-cran-tibble, r-cran-xtable Filename: pool/dists/focal/main/r-cran-emmeans_1.11.1-1.ca2004.1_all.deb Size: 2058416 MD5sum: 7f4519bbc8c3a808ae8512473242c81b SHA1: a4790d741337f222c4eb0afded7836236f4d1ab6 SHA256: 436c3fd215a0d80e96def696715630c35a28ea7dcb74966e3a79fbbe44fab381 SHA512: 1aee02804393a5f5bc447728ae04d3f7d285b5da477421131a3c618edeaf09e001bfb2f871e4b840d307a19679198954f5b6800abde694b93645b3e9d5264c41 Homepage: https://cran.r-project.org/package=emmeans Description: CRAN Package 'emmeans' (Estimated Marginal Means, aka Least-Squares Means) Obtain estimated marginal means (EMMs) for many linear, generalized linear, and mixed models. Compute contrasts or linear functions of EMMs, trends, and comparisons of slopes. Plots and other displays. Least-squares means are discussed, and the term "estimated marginal means" is suggested, in Searle, Speed, and Milliken (1980) Population marginal means in the linear model: An alternative to least squares means, The American Statistician 34(4), 216-221 . Package: r-cran-emmixssl Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 335 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-emmixssl_1.1.1-1.ca2004.1_all.deb Size: 302772 MD5sum: cff2f5f591ed4d27ca22d3b3d8f45afc SHA1: 863321ff7df03f96d9ce965db7805a5389dd6caa SHA256: 7c9242c37ca9b26dc0ea902a495dc3f61aad8158db90882e8f6c9820fc039978 SHA512: 5cdff74b2e65353ae67d60af0bd75b7dd7de2623c45f93e461ca4fd74d5b1029c777fea21df775914e44e28511c02fda37efb263acb3de389586f10b017874d8 Homepage: https://cran.r-project.org/package=EMMIXSSL Description: CRAN Package 'EMMIXSSL' (Semi-Supervised Gaussian Mixture Model with a Missing-DataMechanism) The algorithm of semi-supervised learning based on finite Gaussian mixture models with a missing-data mechanism is designed for a fitting g-class Gaussian mixture model via maximum likelihood (ML). It is proposed to treat the labels of the unclassified features as missing-data and to introduce a framework for their missing as in the pioneering work of Rubin (1976) for missing in incomplete data analysis. This dependency in the missingness pattern can be leveraged to provide additional information about the optimal classifier as specified by Bayes’ rule. Package: r-cran-emmli Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 166 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-emmli_0.0.3-1.ca2004.1_all.deb Size: 73348 MD5sum: f9198b2077853f70af9ea15e2b44c1fb SHA1: f825a3f1ac9d116536dfdc1fedd15e7de11c4a76 SHA256: 742596f8142628da6c3ee2cf7eb63d0393c2f9d5a4c341f0b9819feb57d3db90 SHA512: de7d46467684636e811bf5271f42408ebd4902d30d88b73f33b705e13184a973bce57f001cd46c9032950b0428d5f384f3fcbb88680c28825882a272dab4e119 Homepage: https://cran.r-project.org/package=EMMLi Description: CRAN Package 'EMMLi' (A Maximum Likelihood Approach to the Analysis of Modularity) Fit models of modularity to morphological landmarks. Perform model selection on results. Fit models with a single within-module correlation or with separate within-module correlations fitted to each module. 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When some variables are random effects or we use special experimental design such as nested design, repeated-measures design, or split-plot design, it is not easy to find the appropriate test, especially denominator for F-statistic which depends on EMS. 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Package: r-cran-emsnm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-emsnm_1.0-1.ca2004.1_all.deb Size: 64832 MD5sum: b2d7ba3754739c641d5b389a8936f119 SHA1: 3933eafd5fb0b2973a6ff538f8686e9284f69cc7 SHA256: 6a17af3790795a28c7f13e63b7922bcbf5fd6f53192cdcd254ad2f39d2df8b55 SHA512: dc91e227de4031be3d6f1a718f486bc9f83e79f495e7fdb8e2deff6fc47bada90e10985b4144cecd9c4e72a593cc4bbf027a848d9725face4044d1e745db1f97 Homepage: https://cran.r-project.org/package=EMSNM Description: CRAN Package 'EMSNM' (EM Algorithm for Sigmoid Normal Model) It provides a method based on EM algorithm to estimate the parameter of a mixture model, Sigmoid-Normal Model, where the samples come from several normal distributions (also call them subgroups) whose mean is determined by co-variable Z and coefficient alpha while the variance are homogeneous. Meanwhile, the subgroup each item belongs to is determined by co-variables X and coefficient eta through Sigmoid link function which is the extension of Logistic Link function. It uses bootstrap to estimate the standard error of parameters. When sample is indeed separable, removing estimation with abnormal sigma, the estimation of alpha is quite well. I used this method to explore the subgroup structure of HIV patients and it can be used in other domains where exists subgroup structure. Package: r-cran-emss Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sampleselection, r-cran-mvtnorm Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-emss_1.1.1-1.ca2004.1_all.deb Size: 80384 MD5sum: 006c4c8bd81159c7849dc99895866e74 SHA1: 541dbe9309a36a8cd868faf60f615938aae96b8a SHA256: cc1c96ffa11dd58e6136dff85935e00013bbf704002e20df5ec8f6a9571f5d11 SHA512: 741955201e437d272b603a39889384c7b115bf305375158dd7dc625dec05baa199c122612698b6124129c0e8acc223186a53190130e88bc2e0bcad8e6d819c67 Homepage: https://cran.r-project.org/package=EMSS Description: CRAN Package 'EMSS' (Some EM-Type Estimation Methods for the Heckman Selection Model) Some EM-type algorithms to estimate parameters for the well-known Heckman selection model are provided in the package. Such algorithms are as follow: ECM(Expectation/Conditional Maximization), ECM(NR)(the Newton-Raphson method is adapted to the ECM) and ECME(Expectation/Conditional Maximization Either). Since the algorithms are based on the EM algorithm, they also have EM’s main advantages, namely, stability and ease of implementation. Further details and explanations of the algorithms can be found in Zhao et al. (2020) . Package: r-cran-emstreer Architecture: all Version: 3.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mlpack, r-cran-scatterplot3d, r-cran-ggplot2, r-cran-sf Filename: pool/dists/focal/main/r-cran-emstreer_3.1.2-1.ca2004.1_all.deb Size: 48088 MD5sum: c0d3d557e270388fc21d76be675ef83a SHA1: d071b8b65fa66450f18a0ed317f71e99d7b7000c SHA256: 9a8ba8bd50789cd0138e2e2fbcc957a94a42857ee5554c5186b3b1c9920ac161 SHA512: e3e42f92042cedf68d83c221e55e26dc35aafeaedd40079e602c8275d78c20953122947810fce43ea0fbfe0ac36b3362ff894149cb210cd9ac02ef30613be504 Homepage: https://cran.r-project.org/package=emstreeR Description: CRAN Package 'emstreeR' (Tools for Fast Computing and Visualizing Euclidean MinimumSpanning Trees) Fast and easily computes an Euclidean Minimum Spanning Tree (EMST) from data, relying on the R API for 'mlpack' - the C++ Machine Learning Library (Curtin et. al., 2013). 'emstreeR' uses the Dual-Tree Boruvka (March, Ram, Gray, 2010, ), which is theoretically and empirically the fastest algorithm for computing an EMST. This package also provides functions and an S3 method for readily visualizing Minimum Spanning Trees (MST) using either the style of the 'base', 'scatterplot3d', or 'ggplot2' libraries; and functions to export the MST output to shapefiles. Package: r-cran-emt Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-emt_1.3.1-1.ca2004.1_all.deb Size: 37836 MD5sum: 1dbd61ecc349fb9d3089fecbc25e85ce SHA1: ad850cf57b83089d8c1d7fdd734cb4c3495ee39f SHA256: ba003cd75b64541a58127739bb8922669b52f19eb7f0404190cd7e9f1a0eaa5b SHA512: 3eed9a8d65f429c12dcc002809a1b8e5d9230c254c9f552551d56a53524a4413f8d3287fc45c96ce7e28bacea7bf440e08aae614fb864adf554383df970a6883 Homepage: https://cran.r-project.org/package=EMT Description: CRAN Package 'EMT' (Exact Multinomial Test: Goodness-of-Fit Test for DiscreteMultivariate Data) Goodness-of-fit tests for discrete multivariate data. It is tested if a given observation is likely to have occurred under the assumption of an ab-initio model. Monte Carlo methods are provided to make the package capable of solving high-dimensional problems. Package: r-cran-emtscore Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-bioc-aucell, r-bioc-gsva, r-cran-ggpubr, r-bioc-complexheatmap, r-cran-circlize, r-cran-gridextra, r-cran-magrittr, r-cran-gsa, r-cran-nsprcomp, r-cran-stringr, r-cran-foreach, r-cran-doparallel, r-cran-seurat, r-cran-pheatmap, r-cran-paletteer, r-cran-ggthemes, r-cran-curl Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-emtscore_0.1.1-1.ca2004.1_all.deb Size: 58432 MD5sum: f89a2b50d39c597b1525b9e03d18fd91 SHA1: 7d47cd583180a46abe4f385c8a93a0c4c105d548 SHA256: 208922350def1b3669f9bf9ce60f772794583d2c410b692d0436d29aae177da7 SHA512: 2f77248a01b8c0f63aee0a5fed585bb319b7ed09b6bc78eafc6955887139f8e7cd5cfb59da06a5dc871afdae55bf6c5b64f53c8546f27ca6505c1f9f2c838f01 Homepage: https://cran.r-project.org/package=EMTscore Description: CRAN Package 'EMTscore' (Calculate 'EMT' Scores Based on 'Omics' Data) Epithelial-Mesenchymal transition ('EMT') is an important form of cellular plasticity that is fully or partially activated in several biological scenarios including development and disease progression. 'EMT' involves altered expression of hundreds of protein-coding and non-protein-coding genes. Recent studies showed the prevalence of partial 'EMT' in multiple processes such as various cancers and organ fibrosis, which necessitates rigorous quantification of the degree of 'EMT'. While traditional gene set scoring methods such as gene set variation analysis have been used to generate 'EMT' scores from omics data, multiple 'EMT' scoring algorithms and 'EMT' gene sets have been used by different groups without standardization. Furthermore, comparisons of 'EMT' scores computed from different methods and/or different EMT gene sets are generally difficult due to both the context dependent nature of 'EMT' and the lack of tools that comprehensively integrate varying components for 'EMT' scoring. To address this problem, we have built a toolbox named 'EMTscore' that enables users to select scoring methods from a list of previously used algorithms and 'EMT' gene sets from a list of gene sets produced from different experiments. We provided several visualization methods for making publication quality plots of 'EMT' scores from 'omics' data. Furthermore, we showed a unique utility of a method based on principal component analysis for scoring divergent 'EMT' processes from a single dataset. Overall, 'EMTscore' provides an integrated solution for assessing the degree and complexity of 'EMT' from 'omics' data, and it paves the way for standardizing the comparison of EMT programs across multiple contexts. 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The computer program is assumed to be a Gaussian process, whose parameters are estimated using Bayesian techniques that give a PDF of expected program output. This PDF is conditional on a training set of runs, each consisting of a point in parameter space and the model output at that point. The emphasis is on complex codes that take weeks or months to run, and that have a large number of undetermined input parameters; many climate prediction models fall into this class. The emulator essentially determines Bayesian posterior estimates of the PDF of the output of a model, conditioned on results from previous runs and a user-specified prior linear model. The package includes functionality to evaluate quadratic forms efficiently. 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See for more details. Package: r-cran-encdna Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biostrings Filename: pool/dists/focal/main/r-cran-encdna_1.0.2-1.ca2004.1_all.deb Size: 164448 MD5sum: a53b7e58b1d289d6d850e10389298467 SHA1: 68393dff21c5218fca8188721ce15a544a9aa3ea SHA256: 435505c4691a81b50452137d670066d2e46fe1fe094d97d781ff2bdbf40a390b SHA512: 646e3e8e6720c9af31328a210c26c1107ab004c624cd1b421ba5910b9bdf53b5add7dcc6dc11fcf81a0aa5c44457ba0401d2fc558c32e370bb3b875f8c5a622f Homepage: https://cran.r-project.org/package=EncDNA Description: CRAN Package 'EncDNA' (Encoding of Nucleotide Sequences into Numeric Feature Vectors) We describe fifteen different splice site sequence encoding schemes that have been used in earlier studies for mapping of splice site sequences into numeric feature vectors. These encoding schemes will also be helpful for transforming other nucleotide sequences into numeric forms, provided they are of equal length. These encoding schemes will help the computational biologist working in the field of classification (binary or multiclass) or prediction involving nucleic acid sequences of equal length. 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Generics encode() and decode() perform interconversion, while codes() and decodes() extract components of an encoding. The function encoded() checks whether something is interpretable as an encoding. If a vector has an encoded 'guide' attribute, as_factor() uses it to coerce to factor. 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Using the package you can encrypt arbitrary html files and also directly create encrypted 'rmarkdown' html reports. 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Strong RSA encryption using a public/private key pair is used to encrypt data frame or tibble columns. A public key can be shared to allow others to encrypt data to be sent to you. This is particularly aimed a healthcare settings so patient data can be pseudonymised. 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Os métodos de padronização incluem apenas manipulações básicas de strings, não oferecendo suporte a correspondências probabilísticas entre strings. (Standardizes brazilian addresses using different criteria. Standardization methods include only basic string manipulation, not supporting probabilistic matches between strings.) Package: r-cran-endogenous Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-endogenous_1.0-1.ca2004.1_all.deb Size: 56356 MD5sum: 27239b17b03451fa5264476c56525286 SHA1: 4751713a3a98771e9122595afd204d4b941a4162 SHA256: 29ac3dd3bef39240544a0e0cca357e9d0daeb3de13c96978e93a6f11fe09e421 SHA512: acaae22e5474668a36a5095a0672626a9f4e939cfae55b6383555832cfa3ba48a08522574e42e18f6502981c5a96973b8298a853294dda3ebbf177bba3a89598 Homepage: https://cran.r-project.org/package=endogenous Description: CRAN Package 'endogenous' (Classical Simultaneous Equation Models) Likelihood-based approaches to estimate linear regression parameters and treatment effects in the presence of endogeneity. Specifically, this package includes James Heckman's classical simultaneous equation models-the sample selection model for outcome selection bias and hybrid model with structural shift for endogenous treatment. For more information, see the seminal paper of Heckman (1978) in which the details of these models are provided. This package accommodates repeated measures on subjects with a working independence approach. The hybrid model further accommodates treatment effect modification. 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Package: r-cran-endtoend Architecture: all Version: 2.29-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pastecs, r-cran-ggplot2 Suggests: r-cran-hopbyhop, r-cran-opportunistic Filename: pool/dists/focal/main/r-cran-endtoend_2.29-1.ca2004.1_all.deb Size: 36804 MD5sum: 996d1ca662c1809519f1383f916bc433 SHA1: c162a6bc30e73dbf3001890312f755f2b664961c SHA256: ebf006967c242b339b2b6231e26943987fba42ee335ee05b8f6fc8abdaf6ea0f SHA512: 61cfb0a8eed13794f1cfbf1636a5f905d3c9e8956a38ded3cc312526341b682ac25b5d47a91c584f117373fee59292f6b43921d250739cab3d9ca569338cabee Homepage: https://cran.r-project.org/package=endtoend Description: CRAN Package 'endtoend' (Transmissions and Receptions in an End to End Network) Computes the expectation of the number of transmissions and receptions considering an End-to-End transport model with limited number of retransmissions per packet. 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Package: r-cran-energyonlinecpm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-energy, r-cran-mass Filename: pool/dists/focal/main/r-cran-energyonlinecpm_1.0-1.ca2004.1_all.deb Size: 25964 MD5sum: b36cf9c0c489428289ab275d7e7b5c18 SHA1: fe7465c7c691ae791a9af3b05d233156f5bb09c4 SHA256: a5bb810b5c81fb992a7bd9b293d90eb573dc0d9694d5bbf2763e4299a521815f SHA512: 678a5cb13961d1d167e0208a6594882cbaad9221efcb98ce198074bf5843cf25d5518d22c2bf91dfa3ed23e22c87377161b87b3704584e0a40b823e866544fb6 Homepage: https://cran.r-project.org/package=EnergyOnlineCPM Description: CRAN Package 'EnergyOnlineCPM' (Distribution Free Multivariate Control Chart Based on EnergyTest) Provides a function for distribution free control chart based on the change point model, for multivariate statistical process control. The main constituent of the chart is the energy test that focuses on the discrepancy between empirical characteristic functions of two random vectors. This new control chart highlights in three aspects. Firstly, it is distribution free, requiring no knowledge of the random processes. Secondly, this control chart can monitor mean and variance simultaneously. Thirdly it is devised for multivariate time series which is more practical in real data application. Fourthly, it is designed for online detection (Phase II), which is central for real time surveillance of stream data. For more information please refer to O. Okhrin and Y.F. Xu (2017) . 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This package contains Standard cost engineering and engineering economics methods that are applied to convert between present, future, and annualized costs. Newnan D. (2020) “Engineering Economic Analysis”. Package: r-cran-engression Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-torch Filename: pool/dists/focal/main/r-cran-engression_0.1.4-1.ca2004.1_all.deb Size: 44980 MD5sum: ae9640cfa5eeafce5eed7ac8d8555b7b SHA1: 6b83fdda0c0822c3b4c9b054fdad34c5882a86de SHA256: 4441a2b46f4b5b6fbb7815ab7ae95e77dea3fcb7c51093c4c005d1ed2887a28c SHA512: 05ec2188ae220d83bf7144dbc44f49c89476c6e1dbfbe94c3b50907eae9b23f99d81651b85b856b0be43e41350774c1fa8af5a8450a53d40b8f7bb234954d79e Homepage: https://cran.r-project.org/package=engression Description: CRAN Package 'engression' (Engression Modelling) Fits engression models for nonlinear distributional regression. Predictors and targets can be univariate or multivariate. Functionality includes estimation of conditional mean, estimation of conditional quantiles, or sampling from the fitted distribution. Training is done full-batch on CPU (the python version offers GPU-accelerated stochastic gradient descent). Based on "Engression: Extrapolation for nonlinear regression?" by Xinwei Shen and Nicolai Meinshausen (2023). Also supports classification (experimental). . 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Package: r-cran-enmeval Architecture: all Version: 2.0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2700 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-terra, r-cran-maxnet, r-cran-predicts, r-cran-foreach, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-glmnet, r-cran-rangemodelmetadata, r-cran-rlang Suggests: r-cran-rmarkdown, r-cran-testthat, r-cran-knitr, r-cran-rjava, r-cran-spocc, r-cran-rcolorbrewer, r-cran-sf, r-cran-blockcv, r-cran-devtools, r-cran-tibble, r-cran-ecospat, r-cran-geodata, r-cran-usdm Filename: pool/dists/focal/main/r-cran-enmeval_2.0.5.2-1.ca2004.1_all.deb Size: 2510672 MD5sum: 08257ba786de869938b28cdc95e80c6e SHA1: 381a11751e789307f88e500ca3c5606c373a8177 SHA256: b0dd243ebf29537553a873b930a529574502aabe1423a42608a480e33c32dc08 SHA512: 2caf7f152fec9a917692d2418cdb03d5b731b4d33f1899f578c9515877f0be8d7c570629ad68db212f09f771c11c082b83fad49c4429521d819629ba5cbc63c5 Homepage: https://cran.r-project.org/package=ENMeval Description: CRAN Package 'ENMeval' (Automated Tuning and Evaluations of Ecological Niche Models) Runs ecological niche models over all combinations of user-defined settings (i.e., tuning), performs cross validation to evaluate models, and returns data tables to aid in selection of optimal model settings that balance goodness-of-fit and model complexity. Also has functions to partition data spatially (or not) for cross validation, to plot multiple visualizations of results, to run null models to estimate significance and effect sizes of performance metrics, and to calculate range overlap between model predictions, among others. The package was originally built for Maxent models (Phillips et al. 2006, Phillips et al. 2017), but the current version allows possible extensions for any modeling algorithm. The extensive vignette, which guides users through most package functionality but unfortunately has a file size too big for CRAN, can be found here on the package's Github Pages website: . Package: r-cran-enmsdmx Architecture: all Version: 1.2.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2170 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aiccmodavg, r-cran-boot, r-cran-cowplot, r-cran-data.table, r-cran-doparallel, r-cran-dt, r-cran-foreach, r-cran-gbm, r-cran-ggplot2, r-cran-ks, r-cran-maxnet, r-cran-mgcv, r-cran-omnibus, r-cran-predicts, r-cran-ranger, r-cran-rjava, r-cran-scales, r-cran-sf, r-cran-shiny, r-cran-sp, r-cran-statisfactory, r-cran-terra Filename: pool/dists/focal/main/r-cran-enmsdmx_1.2.12-1.ca2004.1_all.deb Size: 1986172 MD5sum: 8ddfb810d87ecc8bf6d2f83f8572044c SHA1: 786efb74afff7d95416507cf6507bf5ff90ec0fb SHA256: 8dc5ea15e97164ba7869f194b150771ad406e2fc022afb88db76842a758be6c4 SHA512: df6f3bb05fb32fc472a357dc9e1c545322371b78d4fd02b1dc2cb3aa0efb3047bedcb10daf1e14d1d0a44ff6149c9b53d1c5f7014aaea0aad9a713e0a3d2dd68 Homepage: https://cran.r-project.org/package=enmSdmX Description: CRAN Package 'enmSdmX' (Species Distribution Modeling and Ecological Niche Modeling) Implements species distribution modeling and ecological niche modeling, including: bias correction, spatial cross-validation, model evaluation, raster interpolation, biotic "velocity" (speed and direction of movement of a "mass" represented by a raster), interpolating across a time series of rasters, and use of spatially imprecise records. The heart of the package is a set of "training" functions which automatically optimize model complexity based number of available occurrences. These algorithms include MaxEnt, MaxNet, boosted regression trees/gradient boosting machines, generalized additive models, generalized linear models, natural splines, and random forests. To enhance interoperability with other modeling packages, no new classes are created. The package works with 'PROJ6' geodetic objects and coordinate reference systems. Package: r-cran-enmtools Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1749 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dismo, r-cran-knitr, r-cran-ggplot2, r-cran-gridextra, r-cran-lhs, r-cran-magrittr, r-cran-enmeval, r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-ggpubr, r-cran-forcats, r-cran-terra, r-cran-raster Suggests: r-cran-testthat, r-cran-hypervolume, r-cran-leaflet, r-cran-mgcv, r-cran-ecospat, r-cran-randomforest, r-cran-ranger, r-cran-caret, r-cran-calibratr, r-cran-ape, r-cran-resourceselection, r-cran-reshape2, r-cran-vip, r-cran-pdp, r-cran-fastshap, r-cran-viridis, r-cran-progress, r-cran-rmarkdown, r-cran-sf Filename: pool/dists/focal/main/r-cran-enmtools_1.1.2-1.ca2004.1_all.deb Size: 1661208 MD5sum: 7974a41071c336d52c0ed542df837c33 SHA1: 9fa3e654bed9c3e7f80135589460e04b615f4c39 SHA256: 38b8fd6b76d21e5f2ca3ef7ef531468a206a96eca65a7673fe32e11ef78c3788 SHA512: d845ab14eb8c6f2815ecab0f9622778e66a64bb9f415fe6f996a8c6c4b16a3d269ba409d14c713d26ef20364d04cb57cd1f96434d5aab30ddde20311a49ffccc Homepage: https://cran.r-project.org/package=ENMTools Description: CRAN Package 'ENMTools' (Analysis of Niche Evolution using Niche and Distribution Models) Constructing niche models and analyzing patterns of niche evolution. Acts as an interface for many popular modeling algorithms, and allows users to conduct Monte Carlo tests to address basic questions in evolutionary ecology and biogeography. Warren, D.L., R.E. Glor, and M. Turelli (2008) Glor, R.E., and D.L. Warren (2011) Warren, D.L., R.E. Glor, and M. Turelli (2010) Cardillo, M., and D.L. Warren (2016) D.L. Warren, L.J. Beaumont, R. Dinnage, and J.B. Baumgartner (2019) . Package: r-cran-enpls Architecture: all Version: 6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3890 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pls, r-cran-spls, r-cran-foreach, r-cran-doparallel, r-cran-ggplot2, r-cran-reshape2, r-cran-plotly Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-enpls_6.1-1.ca2004.1_all.deb Size: 2528016 MD5sum: 701c07f52a1b62606621519660518e31 SHA1: c1a682183141d9407049d7ce076644895f149803 SHA256: a4a5b68aee8d664683ee8e746595f739ebb620568b8bfdada59e39d23a55b7f3 SHA512: 955bfad2ea0f53fc3baf1df91eccdc917b51751929fdf296cb4c2288fae637903cd44da450f70b1af51f81f05517fabdd30ea1ed7135d1dac3f6523a31c36482 Homepage: https://cran.r-project.org/package=enpls Description: CRAN Package 'enpls' (Ensemble Partial Least Squares Regression) An algorithmic framework for measuring feature importance, outlier detection, model applicability domain evaluation, and ensemble predictive modeling with (sparse) partial least squares regressions. Package: r-cran-enrichdo Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3128 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-rgraphviz, r-bioc-clusterprofiler, r-cran-hash, r-bioc-s4vectors, r-cran-dplyr, r-cran-ggplot2, r-bioc-graph, r-cran-magrittr, r-cran-pheatmap, r-cran-purrr, r-cran-readr, r-cran-stringr, r-cran-tidyr, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown, r-bioc-org.hs.eg.db, r-cran-testthat Filename: pool/dists/focal/main/r-cran-enrichdo_0.1-1-1.ca2004.1_all.deb Size: 2707020 MD5sum: 8ee721a1895d37dbad278325541e75a6 SHA1: e310a2107affb1336aad7350ed67da6144254775 SHA256: 4a18c1ff83d7424e17263043eb37f4e8cbc188d980c585c551898e4108ea1271 SHA512: 3cc3d19590193b6ad69d61b677cbf498a9c0025d2ce35490e789334d56f78e6a69c130578352370847e833fa3ad90d5bea8d0721bf30d95626994b72d6adea47 Homepage: https://cran.r-project.org/package=EnrichDO Description: CRAN Package 'EnrichDO' (a Global Weighted Model for Disease Ontology Enrichment Analysis) To implement disease ontology (DO) enrichment analysis, this package is designed and presents a double weighted model based on the latest annotations of the human genome with DO terms, by integrating the DO graph topology on a global scale. This package exhibits high accuracy that it can identify more specific DO terms, which alleviates the over enriched problem. The package includes various statistical models and visualization schemes for discovering the associations between genes and diseases from biological big data. Package: r-cran-enrichintersect Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1387 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-networkd3, r-cran-jsonlite, r-cran-htmlwidgets, r-cran-webshot2 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-enrichintersect_0.7-1.ca2004.1_all.deb Size: 1105756 MD5sum: dd0925c324bff0a2928ecf0ac7617bd4 SHA1: cabbe23268cd52f6266ff272fe207904ab9f06fc SHA256: 449940e06cf7c7226019387d53c9e6b096950e142ca916912f42972177454a81 SHA512: c8fabec66fed48935a34ee7d4ff8791cad8dcbd58df8a219a3770f01778a23024cbd5546f72398cf97ac5543fef078c7f4fa248ab39716f6d5257d543163601d Homepage: https://cran.r-project.org/package=EnrichIntersect Description: CRAN Package 'EnrichIntersect' (Enrichment Analysis and Intersecting Sankey Diagram) A flexible tool for enrichment analysis based on user-defined sets. 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Package: r-cran-enrichr Architecture: all Version: 3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 356 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-curl, r-cran-rjson, r-cran-ggplot2, r-cran-writexls Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-enrichr_3.4-1.ca2004.1_all.deb Size: 255324 MD5sum: 2592a5a4aa3649189df0b29c96409538 SHA1: 09b718a8154186237f3869091ca7d082433c28d2 SHA256: 2e77a396a03fc7b943b0997663bcad1093788d4070a1bea0590717b5d20892dd SHA512: 9df078b771637a68a9e9e91b559322a06e0e9964f2d1153c470b8209443bc52eb4923e3e84d51ac11fa61c3007ae557e744615aeed0bfcf775c49747703c2ee3 Homepage: https://cran.r-project.org/package=enrichR Description: CRAN Package 'enrichR' (Provides an R Interface to 'Enrichr') Provides an R interface to all 'Enrichr' databases. 'Enrichr' is a web-based tool for analysing gene sets and returns any enrichment of common annotated biological features. Quoting from their website 'Enrichment analysis is a computational method for inferring knowledge about an input gene set by comparing it to annotated gene sets representing prior biological knowledge.' See for further details. Package: r-cran-enrichwith Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 473 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-whisker, r-cran-suppdists, r-cran-brglm, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-enrichwith_0.3.1-1.ca2004.1_all.deb Size: 260332 MD5sum: 787c41ee5b3b063a81281c9961f397a0 SHA1: 42555098e5bfab052f237b3aee6322ab3e5a3600 SHA256: e2fd06ad509091b95d2cb06493a0e0b7433e1aef43f407ba0377c55236e97cb7 SHA512: 0ba802e618afab0421e01711d88152a564d37397028c2221ad83e91c0303e677e231ae5a7373a1511d4c9756da6ed9930808c7cdcc16c9728b02cf38d22e3d16 Homepage: https://cran.r-project.org/package=enrichwith Description: CRAN Package 'enrichwith' (Methods to Enrich R Objects with Extra Components) Provides the "enrich" method to enrich list-like R objects with new, relevant components. The current version has methods for enriching objects of class 'family', 'link-glm', 'lm', 'glm' and 'betareg'. The resulting objects preserve their class, so all methods associated with them still apply. The package also provides the 'enriched_glm' function that has the same interface as 'glm' but results in objects of class 'enriched_glm'. In addition to the usual components in a `glm` object, 'enriched_glm' objects carry an object-specific simulate method and functions to compute the scores, the observed and expected information matrix, the first-order bias, as well as model densities, probabilities, and quantiles at arbitrary parameter values. The package can also be used to produce customizable source code templates for the structured implementation of methods to compute new components and enrich arbitrary objects. 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These algorithms constitute a set of 'base learners', which can subsequently be combined together to form ensemble predictions. This package provides cross-validation wrappers to allow for downstream application of ensemble integration techniques, including best-error selection. All base learner estimation objects are retained, allowing for repeated prediction calls without the need for re-training. For large problems, an option is provided to save estimation objects to disk, along with prediction methods that utilize these objects. This allows users to train and predict with large ensembles of base learners without being constrained by system RAM. 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Package: r-cran-ensemblepp Architecture: all Version: 1.0-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 314 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-ensemblebma, r-cran-crch, r-cran-gamlss, r-cran-ensemblemos, r-cran-specsverification, r-cran-scoringrules, r-cran-glmx, r-cran-ordinal, r-cran-proc, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-ensemblepp_1.0-0-1.ca2004.1_all.deb Size: 252164 MD5sum: b803130bc45d7aa284e68946556d18d5 SHA1: 7ff272dacdac570c58a842617b086d537482490d SHA256: 83493f6f9292ed7603d291de3db0f72c4f07da2f99f620586606957f6914f97f SHA512: ed5e8954c8758d7fb0bc4fe4f1b834e91d34ec4b4cf5e36cfcb7cb6bb8e5280ddc6b42cd961d2eaa68731491f4301c314373a5dbdee320154bca4fb782b333a5 Homepage: https://cran.r-project.org/package=ensemblepp Description: CRAN Package 'ensemblepp' (Ensemble Postprocessing Data Sets) Data sets for the chapter "Ensemble Postprocessing with R" of the book Stephane Vannitsem, Daniel S. 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The datasets were originally downloaded from and and converted into the format required by the 'topr' package. See to see the required format. 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But this software is not very friendly to use, I have made some improvements on the basis of this software. You can pass in a words or a vector consisting of multiple words, which will return the corresponding type of Chinese representation and be easy to reuse. 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The first method (Campulova, Michalek, Mikuska and Bokal (2018) ) analyzes the residuals using changepoint analysis, the second method is based on control charts (Campulova, Veselik and Michalek (2017) ) and the third method (Holesovsky, Campulova and Michalek (2018) ) analyzes the residuals using extreme value theory (Holesovsky, Campulova and Michalek (2018) ). 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Major environmental statistical methods found in the literature and regulatory guidance documents, with extensive help that explains what these methods do, how to use them, and where to find them in the literature. Numerous built-in data sets from regulatory guidance documents and environmental statistics literature. Includes scripts reproducing analyses presented in the book "EnvStats: An R Package for Environmental Statistics" (Millard, 2013, Springer, ISBN 978-1-4614-8455-4, ). 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Package: r-cran-epcc Architecture: all Version: 1.4.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 429 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-desolve, r-cran-ggplot2, r-cran-httr, r-cran-cowplot, r-cran-sp, r-cran-nls2, r-cran-readxl, r-cran-raster, r-cran-proto, r-cran-rlang, r-cran-rgdal, r-cran-formattable Filename: pool/dists/focal/main/r-cran-epcc_1.4.7-1.ca2004.1_all.deb Size: 400720 MD5sum: a50e963e9326b51d3348878e2242788a SHA1: 6d646380abff46fd669d6165b0bde1f199ea8907 SHA256: 6d4fe936eed546312596b74eb0baec7e57012e2eba33251e213f8f72a4d9c52e SHA512: 83586a14f02ee70cd8a82c94fcc6eeea4c8bf311a56ee61471c99f0919cd1872895ea58181c457c4357fdedc80f06c674f3d4f8f6cd49c43be2162040218ff31 Homepage: https://cran.r-project.org/package=epcc Description: CRAN Package 'epcc' (Simulating Populations of Ectotherms under Global Warming) Provides several functions that allow model and simulate the effects of thermal sensitivity and the exposition to different trends in environmental temperature on the abundance dynamics of ectotherms populations. It allows an easy implementation of the possible consequences of warming at global and local scales, constituting a useful tool for understanding the extinction risk of populations. (Víctor Saldaña-Núñez, Fernando Córdova-Lepe, & Felipe N. Moreno-Gómez, 2021) . Package: r-cran-epcr Architecture: all Version: 0.11.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4798 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-glmnet, r-cran-hamlet, r-cran-survival, r-cran-timeroc, r-cran-pracma, r-cran-bolstad2, r-bioc-impute Suggests: r-cran-mass, r-cran-rocr, r-cran-c060, r-cran-matrix, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-epcr_0.11.0-1.ca2004.1_all.deb Size: 4724756 MD5sum: 15ba94f33e97729e1c4804351cc975dd SHA1: 2a514e8a97b10bbd7fa3ce273a1eeb57b4eda392 SHA256: 1c874d0a6b48d07ab989a707173bd33d6db77e92e44e9d1c623b2a8bc8fd2df2 SHA512: 41f317aae09b0d85041931547a75faa574b1609453c3a117b175f7ce74aa0eb35ae033735d12caf818c899bc7fc1f025cde78f6af34bbd30be851e3f1862acb0 Homepage: https://cran.r-project.org/package=ePCR Description: CRAN Package 'ePCR' (Ensemble Penalized Cox Regression for Survival Prediction) The top-performing ensemble-based Penalized Cox Regression (ePCR) framework developed during the DREAM 9.5 mCRPC Prostate Cancer Challenge presented in Guinney J, Wang T, Laajala TD, et al. (2017) is provided here-in, together with the corresponding follow-up work. While initially aimed at modeling the most advanced stage of prostate cancer, metastatic Castration-Resistant Prostate Cancer (mCRPC), the modeling framework has subsequently been extended to cover also the non-metastatic form of advanced prostate cancer (CRPC). Readily fitted ensemble-based model S4-objects are provided, and a simulated example dataset based on a real-life cohort is provided from the Turku University Hospital, to illustrate the use of the package. Functionality of the ePCR methodology relies on constructing ensembles of strata in patient cohorts and averaging over them, with each ensemble member consisting of a highly optimized penalized/regularized Cox regression model. Various cross-validation and other modeling schema are provided for constructing novel model objects. Package: r-cran-epe4md Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4671 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-scales, r-cran-purrr, r-cran-tidyr, r-cran-readxl, r-cran-jrvfinance, r-cran-janitor, r-cran-furrr, r-cran-zoo, r-cran-lubridate, r-cran-tsibble, r-cran-stringr, r-cran-fabletools, r-cran-feasts, r-cran-tibble, r-cran-assertthat, r-cran-forcats, r-cran-future, r-cran-magrittr, r-cran-readr, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-epe4md_0.1.4-1.ca2004.1_all.deb Size: 3828884 MD5sum: a24389068e78620d96be9eb9957cdb53 SHA1: 31b47fdf1c7d6d9e30c4a7a87b9248753a583e8c SHA256: 56d8ec38627f5f65d685939e7bffed6222d1f54fdad23ad5229d8eb8adfa6fd8 SHA512: 0eb86b5a149cc312355798d26c55e78e8a92f9ade41340267e98c2a402058a6da438a86abf1a3bd7736bacd7d6e8e6aa8faa37402032f43f27fcce0dc55d8561 Homepage: https://cran.r-project.org/package=epe4md Description: CRAN Package 'epe4md' (EPE's 4MD Model to Forecast the Adoption of DistributedGeneration) EPE's (Empresa de Pesquisa Energética) 4MD (Modelo de Mercado da Micro e Minigeração Distribuída - Micro and Mini Distributed Generation Market Model) model to forecast the adoption of Distributed Generation. Given the user's assumptions, it is possible to estimate how many consumer units will have distributed generation in Brazil over the next 10 years, for example. In addition, it is possible to estimate the installed capacity, the amount of investments that will be made in the country and the monthly energy contribution of this type of generation. . Package: r-cran-epgmr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 163 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-epgmr_1.0.0-1.ca2004.1_all.deb Size: 112052 MD5sum: 8d54e8bf4ab255553b0c2a82d08dba25 SHA1: e92a8211a5c163eebac4b3bcb7256681c347ad3a SHA256: 8a20153ada20dc817e1ef64eece926ed347c03b047583cc8d7065933e541326a SHA512: cba472c4a242d3a925a9cd405d965cabd23e681b355eca8034aaa146a30fd905877c5918cf3f5887844b11b8e9d0109027b7e86cd1c9dc97e0384fc5bd97f40e Homepage: https://cran.r-project.org/package=EPGMr Description: CRAN Package 'EPGMr' (Implementation of the Everglades Phosphorus Gradient Model) Everglades Phosphorus Gradient Model predicts variations in water-column P concentration, peat accretion rate, and soil P concentration along a horizontal gradient imposed by an external phosphorus load and sheet-flow conditions. Potential biological responses are expressed in terms of marsh surface area exceeding threshold criteria for water-column and soil phosphorus concentrations. More information of the model can be found at . 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The implemented methods are based on INDEC (2016) . As this package works with the argentinian Permanent Household Survey and its main audience is from this country, the documentation was written in Spanish. Package: r-cran-epi2me2r Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 938 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-taxonomizr, r-bioc-phyloseq, r-bioc-biobase, r-bioc-metagenomeseq Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-reshape2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-epi2me2r_0.1.0-1.ca2004.1_all.deb Size: 418452 MD5sum: 24a725c87807f6b1fdbd266986bec453 SHA1: e01d24e6b6270b75ea2fad7024447ec51dd52627 SHA256: d7ede312c8db099d2ba59ed313ca8c560e178bdf868e707fabab52e2855c8556 SHA512: 19a159827630e7d3ad20858d5373cb411dbba8f872f400b7d8d126019ba98b047f32f04639a5ed3641413e632882195384afd6015423ba37a3b16c484628ec26 Homepage: https://cran.r-project.org/package=epi2me2r Description: CRAN Package 'epi2me2r' (Process Nanopore EPI2ME Output for Use in R) The functions in this package take WIMP and ARMA data files generated by Oxford Nanopore EPI2ME workflows, read them, clean them, and prepare them for downstream analysis. This package was written by United States federal government employees in their official capacity. Therefore, it is not protected by copyright and is in the public domain. Package: r-cran-epibasix Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-epibasix_1.5-1.ca2004.1_all.deb Size: 91560 MD5sum: f9bf2c798889d397e5d7e16b0540e3f5 SHA1: 8d785038be91c1033f4d37f1ad96d4d4ce9a2a40 SHA256: 687cd8170c62b466da371cfd7f214f943519440096f23bb27211fd468b8bb235 SHA512: dda2da12bc9db178c6ef5ccc6692ea202ab8d92312a70b0a0caee010c9ffe18b9cc1f234b3f0ada6d7f1889610800bbc24717aacc219422c11f2e24625332012 Homepage: https://cran.r-project.org/package=epibasix Description: CRAN Package 'epibasix' (Elementary Epidemiological Functions for Epidemiology andBiostatistics) Contains elementary tools for analysis of common epidemiological problems, ranging from sample size estimation, through 2x2 contingency table analysis and basic measures of agreement (kappa, sensitivity/specificity). Appropriate print and summary statements are also written to facilitate interpretation wherever possible. Source code is commented throughout to facilitate modification. The target audience includes advanced undergraduate and graduate students in epidemiology or biostatistics courses, and clinical researchers. 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Package: r-cran-epidata Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 589 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-httr, r-cran-jsonlite, r-cran-dplyr, r-cran-rvest, r-cran-xml2, r-cran-tidyr, r-cran-readr, r-cran-stringi, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-epidata_0.4.0-1.ca2004.1_all.deb Size: 505284 MD5sum: 98dab1db558b37687568ae6bf76b8e6e SHA1: 7e731c080cf0a7b802b6e5dc5263380bb6dc767b SHA256: 85f21040b33be9b581bc4637093675f7832705958750e142a0244d4e0c7387b5 SHA512: 0f4faef5763b7c856e58986ac405d08a2229a1697877d5fe27deab643a439cbd5c2889552eaad8830fb65037fc3eb4a1cd24af8129804760b9491361e3a0f7ef Homepage: https://cran.r-project.org/package=epidata Description: CRAN Package 'epidata' (Tools to Retrieve Economic Policy Institute Data LibraryExtracts) The Economic Policy Institute () provides researchers, media, and the public with easily accessible, up-to-date, and comprehensive historical data on the American labor force. 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Package: r-cran-epidatr Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 636 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cachem, r-cran-checkmate, r-cran-cli, r-cran-glue, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-mmwrweek, r-cran-openssl, r-cran-purrr, r-cran-rappdirs, r-cran-readr, r-cran-rlang, r-cran-tibble, r-cran-usethis, r-cran-xml2 Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-mapproj, r-cran-maps, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-epidatr_1.2.1-1.ca2004.1_all.deb Size: 412400 MD5sum: de36419b6b0466dd300c82d2b60d6b49 SHA1: 705be9ea15d98c44319e59920999fb5fd028cb27 SHA256: 6ea9b2efddb04f68eb4fd7d8ac21e7262e5e04fc203b298215f19535595c244f SHA512: 24023464f01bfc53c3e2c0849bef31d85e2d972381d629a8a92763e940a5ef83f8763455dad22efb9c2f656c891f8d8f5cabcf8b2ced05274f4a2035b6399d8e Homepage: https://cran.r-project.org/package=epidatr Description: CRAN Package 'epidatr' (Client for Delphi's 'Epidata' API) The Delphi 'Epidata' API provides real-time access to epidemiological surveillance data for influenza, 'COVID-19', and other diseases for the USA at various geographical resolutions, both from official government sources such as the Center for Disease Control (CDC) and Google Trends and private partners such as Facebook and Change 'Healthcare'. It is built and maintained by the Carnegie Mellon University Delphi research group. To cite this API: David C. Farrow, Logan C. Brooks, Aaron 'Rumack', Ryan J. 'Tibshirani', 'Roni' 'Rosenfeld' (2015). Delphi 'Epidata' API. . Package: r-cran-epidisplay Architecture: all Version: 3.5.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 727 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-foreign, r-cran-survival, r-cran-mass, r-cran-nnet Filename: pool/dists/focal/main/r-cran-epidisplay_3.5.0.2-1.ca2004.1_all.deb Size: 648744 MD5sum: 39abc9f0989032320b3990b00103a353 SHA1: 113e653e3eba118eedd0fcfe36c947a4bbbba6c5 SHA256: 264a06aa4544c851ad6b41e347a60efb3bd8c1661d27e129799e1a08a5ea4042 SHA512: a13b4d2d60f8fea82b06cd7b6f1be225432e5b6c348293fbedace94836e3ea461d085b8dcd371b7bb497d961a0f84ed0750b3500c72d9b50b364280993b194f3 Homepage: https://cran.r-project.org/package=epiDisplay Description: CRAN Package 'epiDisplay' (Epidemiological Data Display Package) Package for data exploration and result presentation. Full 'epicalc' package with data management functions is available at ''. Package: r-cran-epidm Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-dbi, r-cran-odbc, r-cran-phonics, r-cran-purrr, r-cran-readr, r-cran-stringi, r-cran-stringr Filename: pool/dists/focal/main/r-cran-epidm_1.0.4-1.ca2004.1_all.deb Size: 104036 MD5sum: e78676ae5422a59273f011b3d3355f80 SHA1: 15a717a28064873d56b7aaaba9da7a0c3f116039 SHA256: 85e335891a7344f6153cda875e097239307c2bbd28c213e8d646c0d1ebe227c4 SHA512: c5678e326b40e4286d55acb0c38483fee1aa7c16bb10f2d49afe6907b53a793075aec3676ee961aafe7957571fec5f508fcd591bc43f594a9da4effa9dfe8e0a Homepage: https://cran.r-project.org/package=epidm Description: CRAN Package 'epidm' (UK Epidemiological Data Management) Contains utilities and functions for the cleaning, processing and management of patient level public health data for surveillance and analysis held by the UK Health Security Agency, UKHSA. 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(2013) and Wallinga and Teunis (2004) . 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Functions for fitting two-parameter population dynamics models (exponential, monomolecular, logistic and Gompertz) to proportion data for single or multiple epidemics using either linear or no-linear regression. Statistical and visual outputs are provided to aid in model selection. Synthetic curves can be simulated for any of the models given the parameters. See Laurence V. Madden, Gareth Hughes, and Frank van den Bosch (2007) for further information on the methods. Package: r-cran-epiflows Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3609 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-epicontacts, r-cran-leaflet, r-cran-ggmap, r-cran-geosphere, r-cran-ggplot2, r-cran-tibble, r-cran-sp, r-cran-htmltools, r-cran-visnetwork Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-knitr, r-cran-outbreaks, r-cran-vdiffr, r-cran-curl, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-epiflows_0.2.1-1.ca2004.1_all.deb Size: 1131592 MD5sum: 8bda009c548e9250e4604b0299143883 SHA1: 5ee6a4de8313fda4cb4a632f60c74e6182a81cb4 SHA256: b5d7e9a7a7f8a16ae35a84ae71c80e44fd0f5337eb2b7c3d6b9e23205b5a9da9 SHA512: 3fd6d8784bbe0a65741736b707e1928d48c8a455b7a08b665dbbe9c156f5a58730303fb17fb5831de35843fea960bab8133ad8a4f8ccc9a6a88cfe8ac5ce9dc4 Homepage: https://cran.r-project.org/package=epiflows Description: CRAN Package 'epiflows' (Predicting Disease Spread from Flow Data) Provides functions and classes designed to handle and visualise epidemiological flows between locations. Also contains a statistical method for predicting disease spread from flow data initially described in Dorigatti et al. (2017) . This package is part of the RECON () toolkit for outbreak analysis. Package: r-cran-epiforsk Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1107 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-broom, r-cran-cowplot, r-cran-data.table, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-glue, r-cran-grf, r-cran-gridextra, r-cran-hmisc, r-cran-matchit, r-cran-nnet, r-cran-patchwork, r-cran-policytree, r-cran-progressr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-survey, r-cran-survival, r-cran-svyvgam, r-cran-tidyr, r-cran-vgam Suggests: r-cran-cli, r-cran-cvxr, r-cran-furrr, r-cran-future, r-cran-ggsci, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-epiforsk_0.1.1-1.ca2004.1_all.deb Size: 901296 MD5sum: 12496d4681b1e9144612e96c4b5235c5 SHA1: af20b2428918cc93c83cdb670012f3edf98e5d24 SHA256: 36a5378caa5ead833ee67d379be02a162079bd21c39ddd013cc9dd7960a936c5 SHA512: 4ddeba5afcb5d07f03f2811fd407402736fe0a1207a4fe17b3df563e1bd0320d3cd94c8631cc3ff133a19de473ba7a365acaa8b97949315924d9fa43681881a1 Homepage: https://cran.r-project.org/package=EpiForsk Description: CRAN Package 'EpiForsk' (Code Sharing at the Department of Epidemiological Research atStatens Serum Institut) This is a collection of assorted functions and examples collected from various projects. Currently we have functionalities for simplifying overlapping time intervals, Charlson comorbidity score constructors for Danish data, getting frequency for multiple variables, getting standardized output from logistic and log-linear regressions, sibling design linear regression functionalities a method for calculating the confidence intervals for functions of parameters from a GLM, Bayes equivalent for hypothesis testing with asymptotic Bayes factor, and several help functions for generalized random forest analysis using 'grf'. 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It provides easy access to the 'EpiGraphDB' platform with functions that query the corresponding REST endpoints on the API and return the response data in the 'tibble' data frame format. 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This is part of the 'R4Epis' project . Package: r-cran-epilogi Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rfast Suggests: r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-epilogi_1.2-1.ca2004.1_all.deb Size: 22540 MD5sum: ecd21ca42ea0018e564c173954da73f8 SHA1: 01fc5248052ae835b198d8ad9ef23f101af7b3e0 SHA256: f38a370bc5181f842df1a1165463737369379f9462eba86ab6851f1c347cae47 SHA512: 7e164092142b23a936c50792cd66d204afe7ed99d2600007c0d2163eed7fd300decaf8f8ec2b1d8df5c880d2c67b6320a8a9e878b6cc8c42537418ec970ce1d6 Homepage: https://cran.r-project.org/package=epilogi Description: CRAN Package 'epilogi' (The 'epilogi' Variable Selection Algorithm for Continuous Data) The 'epilogi' variable selection algorithm is implemented for the case of continuous response and predictor variables. The relevant paper is: Lakiotaki K., Papadovasilakis Z., Lagani V., Fafalios S., Charonyktakis P., Tsagris M. and Tsamardinos I. (2023). "Automated machine learning for Genome Wide Association Studies". Bioinformatics, 39(9): btad545. . Package: r-cran-epimdr2 Architecture: all Version: 1.0-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3496 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-desolve, r-cran-plotly, r-cran-polspline, r-cran-phaser, r-cran-ggplot2 Suggests: r-cran-ade4, r-cran-bbmle, r-cran-fields, r-cran-forecast, r-cran-imputets, r-cran-lme4, r-cran-ncf, r-cran-nleqslv, r-cran-nlme, r-cran-nlts, r-cran-plotrix, r-cran-pomp, r-cran-rootsolve, r-cran-rwave, r-cran-rworldmap, r-cran-statnet, r-cran-scatterplot3d Filename: pool/dists/focal/main/r-cran-epimdr2_1.0-9-1.ca2004.1_all.deb Size: 2357916 MD5sum: 6ee23d1a99e5a04c606c9c9f12d6305f SHA1: 46e839944b19ae1b6099ccfb3bca0ae36eb6f269 SHA256: 48c8b212bb26c6edcc595462c513f0b62de8a2d712d3d330e874f3bf9d39ffdf SHA512: f341bb34d3ef017755bb196c93255f43307d52c43ee13fe6cfd567210a0a3ffdb824d2ef46eca9938ffd4419a6e5350c05290f49bcd20d8eaf7c2222cbf4a297 Homepage: https://cran.r-project.org/package=epimdr2 Description: CRAN Package 'epimdr2' (Functions and Data for "Epidemics: Models and Data in R (2ndEdition)") Functions, data sets and shiny apps for "Epidemics: Models and Data in R (2nd edition)" by Ottar N. 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Bjornstad (ISBN 978-3-319-97487-3) . The package contains functions to study the S(E)IR model, spatial and age-structured SIR models; time-series SIR and chain-binomial stochastic models; catalytic disease models; coupled map lattice models of spatial transmission and network models for social spread of infection. The package is also an advanced quantitative companion to the coursera Epidemics Massive Online Open Course . Package: r-cran-epiomics Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 417 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-ggrepel, r-cran-qgcomp, r-cran-survival Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-epiomics_1.2.0-1.ca2004.1_all.deb Size: 393108 MD5sum: 0bce760b4dbc24b96e7de9fd1feb93ba SHA1: c1b698fb9dcaafa7839d8391cf3eefb8d2ed0a0d SHA256: 4ff377f877770b5b0d0b95d74d786bd411e50b9dccc31d96ef54679b1d6f93d0 SHA512: 81d392fe5bef0abeabec4bd36554f26038695e38479e09fc0080fcef5b5ff299677d28c7a5c46de1039fd3c331c7ed927ed30edc61653be3ca9516652bb10be0 Homepage: https://cran.r-project.org/package=epiomics Description: CRAN Package 'epiomics' (Analysis of Omics Data in Observational Studies) A collection of fast and flexible functions for analyzing omics data in observational studies. Multiple different approaches for integrating multiple environmental/genetic factors, omics data, and/or phenotype data are implemented. This includes functions for performing omics wide association studies with one or more variables of interest as the exposure or outcome; a function for performing a meet in the middle analysis for linking exposures, omics, and outcomes (as described by Chadeau-Hyam et al., (2010) ); and a function for performing a mixtures analysis across all omics features using quantile-based g-Computation (as described by Keil et al., (2019) ). Package: r-cran-epiparameter Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2115 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cachem, r-cran-checkmate, r-cran-cli, r-cran-distcrete, r-cran-distributional, r-cran-epiparameterdb, r-cran-lifecycle, r-cran-pillar, r-cran-rlang Suggests: r-cran-bookdown, r-cran-dt, r-cran-ggplot2, r-cran-knitr, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-vdiffr, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-epiparameter_0.4.1-1.ca2004.1_all.deb Size: 822276 MD5sum: ccca9698bd693ef7e1949dbfd366ac68 SHA1: 5d08a0098b69d37375270346ccb8c29e7c8d3d39 SHA256: c5677234ef8177c88c91efd4727ed5a7096c3d9904e8b6685cc518ff01649ccc SHA512: 90a13d12d1851f53cc9be74faf13a64d3532533e15bb2f9e13e44baf7d5fd9d7d1bc9dc66eab62df132908739190c9f5cf6464250f2978559e2b13e10d5c2d96 Homepage: https://cran.r-project.org/package=epiparameter Description: CRAN Package 'epiparameter' (Classes and Helper Functions for Working with EpidemiologicalParameters) Classes and helper functions for loading, extracting, converting, manipulating, plotting and aggregating epidemiological parameters for infectious diseases. Epidemiological parameters extracted from the literature are loaded from the 'epiparameterDB' R package. Package: r-cran-epiparameterdb Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 854 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-dt, r-cran-jsonlite, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-epiparameterdb_0.1.0-1.ca2004.1_all.deb Size: 177856 MD5sum: 07dd1f1aae0aa245af3ce2d06761c8fe SHA1: ed962f8898aebcf978377f9e44a2214fb71d80c6 SHA256: e436e3d8490d3721826b09842df96a6e040f9ecc2f32dd1e6b041226640c1663 SHA512: 89b121452b0194a50c007dd36516caa8f04fc8b5c7dba727913a79263be6333ae1e39503aaee0dce1c195d1af8ecd91d4c16c31fc3f7ab91ec68b8dc59d9a4d1 Homepage: https://cran.r-project.org/package=epiparameterDB Description: CRAN Package 'epiparameterDB' (Database of Epidemiological Parameters) A data package containing a database of epidemiological parameters. It stores the data for the 'epiparameter' R package. Epidemiological parameter estimates are extracted from the literature. Package: r-cran-epir Architecture: all Version: 2.0.84-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3102 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-survival, r-cran-biasedurn, r-cran-pander, r-cran-sf, r-cran-lubridate, r-cran-zoo, r-cran-flextable, r-cran-officer Suggests: r-cran-mass, r-cran-dplyr, r-cran-foreign, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-plyr, r-cran-rcolorbrewer, r-cran-scales, r-cran-sp, r-cran-spdata, r-cran-spatstat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-epir_2.0.84-1.ca2004.1_all.deb Size: 1554764 MD5sum: b402f4d1a88c965588eb7fcd243aeef8 SHA1: a1ce2ef86df9ed02c79c4193160d8bb40cb90669 SHA256: 97e3af484ed6ddbef4578fdc5f31c6ae03eb650666f0712cf73d66fbd687b09e SHA512: a30b25f3847da00ee3736c4a84b480deb0845e56ed97ffa5b33fe36185d41aca2a6c2b8cc837298f340373398bfa695397eed8690da7b9016eb6151cdefc48b7 Homepage: https://cran.r-project.org/package=epiR Description: CRAN Package 'epiR' (Tools for the Analysis of Epidemiological Data) Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses. Package: r-cran-epireport Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3242 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-officer, r-cran-flextable, r-cran-zoo, r-cran-png, r-cran-dplyr, r-cran-tidyr, r-cran-tidyselect, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-epireport_1.0.4-1.ca2004.1_all.deb Size: 2606400 MD5sum: 71bc26eb020d84075f165473bba45314 SHA1: 069e970fa8980aac0d6b4b63a7177829245353b1 SHA256: 0b64ef38e5e1fb9c0b3bf805da64ce0b04f651ce0ce771c67d683df52cc750eb SHA512: 1efa3314fa657d9db3ed6b9e334eb73d2f288a3717928321f54131ea864cdad6b8cee2ea54c89eed214c11c46c5b530d62e4ef2dda2a3a0b4586920b1c3a0b19 Homepage: https://cran.r-project.org/package=EpiReport Description: CRAN Package 'EpiReport' (Epidemiological Report) Drafting an epidemiological report in 'Microsoft Word' format for a given disease, similar to the Annual Epidemiological Reports published by the European Centre for Disease Prevention and Control. Through standalone functions, it is specifically designed to generate each disease specific output presented in these reports and includes: - Table with the distribution of cases by Member State over the last five years; - Seasonality plot with the distribution of cases at the European Union / European Economic Area level, by month, over the past five years; - Trend plot with the trend and number of cases at the European Union / European Economic Area level, by month, over the past five years; - Age and gender bar graph with the distribution of cases at the European Union / European Economic Area level. Two types of datasets can be used: - The default dataset of dengue 2015-2019 data; - Any dataset specified as described in the vignette. Package: r-cran-episcan Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-episcan_0.0.1-1.ca2004.1_all.deb Size: 67316 MD5sum: c61ab8c3e61cd64665b74d6f3a060fea SHA1: 74c2b80ce127f5c9a4f02fa8dd2c727aefb5c689 SHA256: 8ca86cfdcbf6d2921b3d8d4914c48007f54d140b98119be747d6040cb2e5878b SHA512: 2b820e88009280a85e90bd67197e6ceba8a8b1bd12852c7ed416bf12809bb1d3b8f4cda1bdaf1374bc83ed8b75a59c03f2818a3d1933f4ac4bcc1a9c91fae157 Homepage: https://cran.r-project.org/package=episcan Description: CRAN Package 'episcan' (Scan Pairwise Epistasis) Searching genomic interactions with linear/logistic regression in a high-dimensional dataset is a time-consuming task. This package provides some efficient ways to scan epistasis in genome-wide interaction studies (GWIS). Both case-control status (binary outcome) and quantitative phenotype (continuous outcome) are supported (the main references: 1. Kam-Thong, T., D. Czamara, K. Tsuda, K. Borgwardt, C. M. Lewis, A. Erhardt-Lehmann, B. Hemmer, et al. (2011). . 2. Kam-Thong, T., B. Pütz, N. Karbalai, B. Müller-Myhsok, and K. Borgwardt. (2011). .) Package: r-cran-episemble Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3961 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-devtools, r-cran-tidyverse, r-cran-seqinr, r-bioc-biostrings, r-cran-splitstackshape, r-cran-entropy, r-cran-party, r-cran-stringr, r-cran-tibble, r-cran-doparallel, r-cran-e1071, r-cran-caret, r-cran-randomforest, r-cran-gbm, r-cran-foreach, r-cran-ftrcool, r-cran-iterators Filename: pool/dists/focal/main/r-cran-episemble_0.1.1-1.ca2004.1_all.deb Size: 848288 MD5sum: 05c18aa93d8e3f6944901354bf732ce7 SHA1: 7931cbbe061d3675ebfd792817c462f386f529af SHA256: fa7a34d50d77aff8bd6b9a399d923e1a55adbc80f911c9f5f279d5ef7ada5828 SHA512: 59f058a20fc17456ca4c1bd534467e3781d2d614928d1c68da1e3feaa80bfe477541ab2dc1594365d6d6d713262b7f3fe847fadbbc954a7f8b56e19b7fbe633d Homepage: https://cran.r-project.org/package=EpiSemble Description: CRAN Package 'EpiSemble' (Ensemble Based Machine Learning Approach for PredictingMethylation States) DNA methylation (6mA) is a major epigenetic process by which alteration in gene expression took place without changing the DNA sequence. Predicting these sites in-vitro is laborious, time consuming as well as costly. This 'EpiSemble' package is an in-silico pipeline for predicting DNA sequences containing the 6mA sites. It uses an ensemble-based machine learning approach by combining Support Vector Machine (SVM), Random Forest (RF) and Gradient Boosting approach to predict the sequences with 6mA sites in it. This package has been developed by using the concept of Chen et al. (2019) . Package: r-cran-episensr Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1156 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-actuar, r-cran-boot, r-cran-cli, r-cran-dagitty, r-cran-forcats, r-cran-ggdag, r-cran-magrittr, r-cran-trapezoid, r-cran-triangle, r-cran-truncnorm, r-cran-mass, r-cran-lifecycle Suggests: r-cran-aplore3, r-cran-covr, r-cran-directlabels, r-cran-knitr, r-cran-lattice, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-episensr_2.0.0-1.ca2004.1_all.deb Size: 842852 MD5sum: 9704ad335fb6cd5ef3550644a5c53ad3 SHA1: e80a1c0be4399b1f8c2a1c8c192012a71ef41348 SHA256: c6ae20da1d42af3fa98de1e43f58d390e9cf50b97761990fb59ae643145ce4ef SHA512: a21c9623e4c6048f63c9419419052a682bc56fcadb9dd1fc9fbac4af0c9b338dccadb5773ffbc772a93cc9c1da2a35734ddb73151102c7b674d175b3d91f2990 Homepage: https://cran.r-project.org/package=episensr Description: CRAN Package 'episensr' (Basic Sensitivity Analysis of Epidemiological Results) Basic sensitivity analysis of the observed relative risks adjusting for unmeasured confounding and misclassification of the exposure/outcome, or both. It follows the bias analysis methods and examples from the book by Fox M.P., MacLehose R.F., and Lash T.L. "Applying Quantitative Bias Analysis to Epidemiologic Data, second ed.", ('Springer', 2021). Package: r-cran-episignaldetection Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 764 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-isoweek, r-cran-rmarkdown, r-cran-shiny, r-cran-surveillance Suggests: r-cran-dt, r-cran-ggplot2, r-cran-knitr, r-cran-pander Filename: pool/dists/focal/main/r-cran-episignaldetection_0.1.2-1.ca2004.1_all.deb Size: 485660 MD5sum: 42bc6da4b4ec39c61d387f6f54382cdc SHA1: 0d252a8cb9927c200757c8b7dfd9cb6f041263ee SHA256: f8c03e6261066e669c1378ee703f3b1c350ca856cf2c8df83757473b17306340 SHA512: 0d2b21a71204cf27e8c5606b5e918fbc9457fb59d609eb97ee8f05dce0fed0f99e00afc8f3f7ece50641aedd37a519a0feb18a98d03fe9c963c3a3c9de6f2ee7 Homepage: https://cran.r-project.org/package=EpiSignalDetection Description: CRAN Package 'EpiSignalDetection' (Signal Detection Analysis) Exploring time series for signal detection. It is specifically designed to detect possible outbreaks using infectious disease surveillance data at the European Union / European Economic Area or country level. Automatic detection tools used are presented in the paper "Monitoring count time series in R: aberration detection in public health surveillance", by Salmon (2016) . The package includes: - Signal Detection tool, an interactive 'shiny' application in which the user can import external data and perform basic signal detection analyses; - An automated report in HTML format, presenting the results of the time series analysis in tables and graphs. This report can also be stratified by population characteristics (see 'Population' variable). This project was funded by the European Centre for Disease Prevention and Control. Package: r-cran-episimr Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-desolve, r-cran-openxlsx, r-cran-dplyr, r-cran-dt, r-cran-shinythemes Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-episimr_1.1-1.ca2004.1_all.deb Size: 24056 MD5sum: 11d99570406a90bb4cb10851e6c0d338 SHA1: c8c8f7fe3c3b10fd3e4385a5fadd9c34ae1d75ee SHA256: d64f825e4ed697681d0da8b2c2f0091c7e67a31afe076183a259efcbf23070dd SHA512: dc34fc8ec296f8b13be32d8010961c5a906c2a43706cd07bbeb81635c9775f16038a99a7216d31adb28b82a2d1f11111a06cf78801f5677946d78f05dd7b4537 Homepage: https://cran.r-project.org/package=EpiSimR Description: CRAN Package 'EpiSimR' (A 'Shiny' App to Simulate the Dynamics of Epidemic and EndemicDiseases Spread) The 'EpiSimR' package provides an interactive 'shiny' app based on deterministic compartmental mathematical modeling for simulating and visualizing the dynamics of epidemic and endemic disease spread. It allows users to explore various intervention strategies, including vaccination and isolation, by adjusting key epidemiological parameters. The methodology follows the approach described by Brauer (2008) . Thanks to 'shiny' package. Package: r-cran-episplinedensity Architecture: all Version: 0.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nloptr, r-cran-pracma Filename: pool/dists/focal/main/r-cran-episplinedensity_0.0-1-1.ca2004.1_all.deb Size: 82152 MD5sum: 1fe0a37fa3af151e79dc22c47fa6c3c9 SHA1: ce5fd4a7ffc8fae268c8d5137d6ba2c865ad776f SHA256: 1c5adae75b21d8cdf2a124b5ed4c10752e0eafcf25e95e2865bf39c4f488def6 SHA512: de41bc635c2b6f5d7ffc324808f2303a0c44c557ecc7d56c303a3714a493a2171be4e631dea8cf953295735c46a84439d1c6afba4262deba028aee7ea0e97b1b Homepage: https://cran.r-project.org/package=episplineDensity Description: CRAN Package 'episplineDensity' (Density Estimation with Soft Information by ExponentialEpi-splines) Produce one-dimensional density estimates using exponential epi-splines. The user may incorporate soft information, by imposing constraints that (i) require unimodality; (ii) require that the density be monotone non-increase or non-decreasing; (iii) put upper bounds on first or second moments; (iv) bound the density's values at mesh points; (v) require that the estimate be continuous or continuously differentiable; and more. Package: r-cran-epistasis Architecture: all Version: 0.0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 230 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-glasso, r-cran-tmvtnorm, r-cran-igraph Filename: pool/dists/focal/main/r-cran-epistasis_0.0.1-1-1.ca2004.1_all.deb Size: 194136 MD5sum: 0f3a023e37f8d7d1215439b0262128a9 SHA1: 4dc5cf04375852a62ebdcc47b2dc6e2e906f5f01 SHA256: 6851655acab6bd0eded0294bd2df732ab8de0f93456c21cec75fe270ba4d6605 SHA512: bf77dc7cb63eb6750bdedf62efd31ae4ebabdfabfcad16208e0468ddb6e94061799a9d20e209e8a123fda77c697d5b8bf75f9980a48cc3142f9f8d26682125ef Homepage: https://cran.r-project.org/package=epistasis Description: CRAN Package 'epistasis' (Detecting Epistatic Selection with Partially Observed GenotypeData) An efficient multi-core package to reconstruct an underlying network of genomic signatures of high-dimensional epistatic selection from partially observed genotype data. The phenotype that we consider is viability. The network captures the conditional dependent short- and long-range linkage disequilibrium structure of genomes and thus reveals aberrant marker-marker associations that are due to epistatic selection. We target on high-dimensional genotype data where number of variables (markers) is larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output. Package: r-cran-epistats Architecture: all Version: 1.6-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 455 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-epir, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-epistats_1.6-2-1.ca2004.1_all.deb Size: 402352 MD5sum: ee45ca06b48234d4a683b8d8e9381656 SHA1: bce102bf8e366baee62dbe4e6b4843fecd232933 SHA256: 14727a1ad7f7fdcd0c57b53be69c058f4d335e7166dce2a1612537c1df2cc5ba SHA512: ebae6da65bd5bbc5ad559166dc8d8137c937e015e9e3f5b25c339ab0d430903b37671c5ec292a0dfe0aa3e43b1ce7528dfb485aa6d572c0a49286dfe5b920f92 Homepage: https://cran.r-project.org/package=EpiStats Description: CRAN Package 'EpiStats' (Tools for Epidemiologists) Provides set of functions aimed at epidemiologists. The package includes commands for measures of association and impact for case control studies and cohort studies. It may be particularly useful for outbreak investigations including univariable analysis and stratified analysis. The functions for cohort studies include the CS(), CSTable() and CSInter() commands. The functions for case control studies include the CC(), CCTable() and CCInter() commands. References - Cornfield, J. 1956. A statistical problem arising from retrospective studies. In Vol. 4 of Proceedings of the Third Berkeley Symposium, ed. J. Neyman, 135-148. Berkeley, CA - University of California Press. Woolf, B. 1955. On estimating the relation between blood group disease. Annals of Human Genetics 19 251-253. Reprinted in Evolution of Epidemiologic Ideas Annotated Readings on Concepts and Methods, ed. S. Greenland, pp. 108-110. Newton Lower Falls, MA Epidemiology Resources. Gilles Desve & Peter Makary, 2007. 'CSTABLE Stata module to calculate summary table for cohort study' Statistical Software Components S456879, Boston College Department of Economics. Gilles Desve & Peter Makary, 2007. 'CCTABLE Stata module to calculate summary table for case-control study' Statistical Software Components S456878, Boston College Department of Economics. Package: r-cran-epistemicgametheory Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-epistemicgametheory_0.1.2-1.ca2004.1_all.deb Size: 33480 MD5sum: f1b709666484fe4525c4a9268d838a8b SHA1: e96b913a96a0da8d42367173dee696541b913b61 SHA256: 5a1cb8b7abef407c5b1ac939be0f72053427d554b8ca23597daf545c1ca00ceb SHA512: 8c4c64ef54af15c7d7b68cf30eedfdb236b3fa1809d41c4d64783cd5de741a8619fd6ddbaa3c5a0bead76940d2b0c276cebafbb0b7e8c89baa21bae348a1c356 Homepage: https://cran.r-project.org/package=EpistemicGameTheory Description: CRAN Package 'EpistemicGameTheory' (Constructing an Epistemic Model for the Games with Two Players) Constructing an epistemic model such that, for every player i and for every choice c(i) which is optimal, there is one type that expresses common belief in rationality. Package: r-cran-epitab Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 318 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kableextra, r-cran-knitr, r-cran-mass, r-cran-survival, r-cran-xml2 Suggests: r-cran-dplyr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-epitab_0.2.2-1.ca2004.1_all.deb Size: 152800 MD5sum: e4fa6b538e8b2492898123c3e7069c75 SHA1: f0e432bf7b18b98aae3a989018a2b69e95e7eeb1 SHA256: e228b2c185228f5c347ce6a54c16203983c3bcbc2bc7eac60802676fd738d449 SHA512: 35ee85fb37a4623e82408946094dda1bc5f0be01d3778ecb76ad7c88c4d342ffac67efaa4a19c9add10c262ee8518ee1e43e6c5dfaaafe81d838f766761a81d5 Homepage: https://cran.r-project.org/package=epitab Description: CRAN Package 'epitab' (Flexible Contingency Tables for Epidemiology) Builds contingency tables that cross-tabulate multiple categorical variables and also calculates various summary measures. Export to a variety of formats is supported, including: 'HTML', 'LaTeX', and 'Excel'. Package: r-cran-epitest Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 264 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggrepel, r-cran-magrittr, r-cran-mm4lmm, r-cran-purrr, r-cran-stringr Filename: pool/dists/focal/main/r-cran-epitest_1.0.0-1.ca2004.1_all.deb Size: 218280 MD5sum: 3d75eab9cf5d1d9a27f4f323dcb17462 SHA1: eb823b0a237b333c4fa4ac69b0bbeb8471d533ec SHA256: dc7ebc477da03ef28e25f57ce676184f1ecb17fab9045639aa28bf27ad54f42c SHA512: ac3c5737e5cc3fa7375285ed6ea6d35ac671ab7cbccaf5fd80fde5c92fe76279ec647267030a55c11cef06d1153ef17fbceaf6aec24b143b7b08e4b4d4c0d3c3 Homepage: https://cran.r-project.org/package=EpiTest Description: CRAN Package 'EpiTest' (Test for Gene x Gene Interactions in Bi-Parental Populations) Provides functions to test for gene x gene interactions in a bi-parental population of inbred lines. The data are fitted with the mixed linear model described in Rio et al. (2022) , that accounts for gene x gene interactions at both the fixed effect and variance levels. The package also provides graphical tools to display the gene x gene interaction trend at the mean level and the variance component analysis. Package: r-cran-epitools Architecture: all Version: 0.5-10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 358 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-epitools_0.5-10.1-1.ca2004.1_all.deb Size: 313064 MD5sum: bf65232977fb843b45906d04be947335 SHA1: 63636212ee9cc20131f565dff09a644feacb07eb SHA256: cc9dbfe054555fd687101b2dfd4765cde1ec1301f9046fb982f59a557f744e57 SHA512: 0cc6adff006a0fae10a053f91b175bffd77ea6fe2abb259386f1f4b2bfbeb740e30aae7926e95df3ac83c389c101c2b34f897a7865e92c3ff3c7578c2d0a7d4d Homepage: https://cran.r-project.org/package=epitools Description: CRAN Package 'epitools' (Epidemiology Tools) Tools for training and practicing epidemiologists including methods for two-way and multi-way contingency tables. Package: r-cran-epitoper Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1550 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-fs, r-cran-httr, r-cran-janitor, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyverse, r-cran-readr, r-bioc-biostrings, r-cran-seqinr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggseqlogo, r-cran-ggvenndiagram Filename: pool/dists/focal/main/r-cran-epitoper_1.0.0-1.ca2004.1_all.deb Size: 1136332 MD5sum: dcee5f093475b9d1e70eba69fd71c690 SHA1: 0b38d88777789b11571fd9f143ebf1e7730c540e SHA256: 58c5d5ba24ecf49e67adf5491df9d3c4c485a1bb521d466eed01bfe4cf8e8ab1 SHA512: eea81fabba9de25539f97bdc757bb488a9524960ae282a6205c41f775190f1b7826574af4295f3267bdba9647d21ee5fa84852ad0d6539ca33c0f4f0dfb3fe21 Homepage: https://cran.r-project.org/package=epitopeR Description: CRAN Package 'epitopeR' (Predict Peptide-MHC Binding) A suite of tools to predict peptide MHC (major histocompatibility complex) presentation in the context of both human and mouse. Polymorphic peptides between self and foreign proteins are identified. The ability of peptides to bind self MHC is assessed and scored. Based on half maximal inhibitory concentration as queried through the immune epitope database API using user defined methods, the foreign peptides most likely to be presented are output along with their predicted binding strength, amino acid position, the protein from which each peptide was derived, and the presenting allele. "References:" Vita R, Mahajan S, Overton JA, Dhanda SK, Martini S, Cantrell JR, Wheeler DK, Sette A, Peters B. . 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Polymorphic peptides between self and foreign proteins are identified. The ability of peptides to bind self MHC is assessed and scored. Based on half maximal inhibitory concentration as queried through the immune epitope database API using user defined methods, the foreign peptides most likely to be presented are output along with their predicted binding strength, amino acid position, the protein from which each peptide was derived, and the presenting allele. "References:" Vita R, Mahajan S, Overton JA, Dhanda SK, Martini S, Cantrell JR, Wheeler DK, Sette A, Peters B. . Package: r-cran-epitrix Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 320 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sodium, r-cran-distcrete, r-cran-stringi, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-outbreaks, r-cran-incidence, r-cran-knitr, r-cran-rmarkdown, r-cran-magrittr, r-cran-ggplot2, r-cran-tibble, r-cran-covr Filename: pool/dists/focal/main/r-cran-epitrix_0.4.0-1.ca2004.1_all.deb Size: 184796 MD5sum: 103975b7713434227c0d5bc72c6d6312 SHA1: 5fb7d084f12b1f98009a6f99b136e0dea24c5bdc SHA256: 662974c6fb1229972729360724f46e34426b12a2ccddc9320279b3df4ffd634d SHA512: b8fbf0d41dc0f463ba594fb8d1d89b8fcf857ba32025db814b38c634f631d95e7a1a98198d09e39a52c084a9d71f24c942cf3c871ff71bd803f61c53dc8181fe Homepage: https://cran.r-project.org/package=epitrix Description: CRAN Package 'epitrix' (Small Helpers and Tricks for Epidemics Analysis) A collection of small functions useful for epidemics analysis and infectious disease modelling. This includes computation of basic reproduction numbers from growth rates, generation of hashed labels to anonymize data, and fitting discretized Gamma distributions. Package: r-cran-epitweetr Architecture: all Version: 2.2.16-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4772 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bit64, r-cran-dplyr, r-cran-crul, r-cran-curl, r-cran-dt, r-cran-emayili, r-cran-future, r-cran-httpuv, r-cran-httr, r-cran-htmltools, r-cran-jsonlite, r-cran-keyring, r-cran-knitr, r-cran-lifecycle, r-cran-ggplot2, r-cran-janitor, r-cran-magrittr, r-cran-plotly, r-cran-processx, r-cran-rtweet, r-cran-readxl, r-cran-rlang, r-cran-rmarkdown, r-cran-rnaturalearthdata, r-cran-openxlsx, r-cran-plyr, r-cran-shiny, r-cran-sp, r-cran-stringr, r-cran-tibble, r-cran-tidyverse, r-cran-tidytext, r-cran-xtable, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-epitweetr_2.2.16-1.ca2004.1_all.deb Size: 3411352 MD5sum: 4df7e0f21feaf50847794830866dc005 SHA1: ac21e33aae84bc8f4ca05524bd1a4c278bda80f0 SHA256: a3383084020ef6a3199739c8c833eba1a6f5ccad650f7482b8a26bd9f57fe8d6 SHA512: 2e5db9c63c31e2213673cbecb7febddb218e8cd92104b21da4540ff8e532640d7e5085a30289779fb714a520ddf0f0d858894949f3225fd78b72243cdacf834b Homepage: https://cran.r-project.org/package=epitweetr Description: CRAN Package 'epitweetr' (Early Detection of Public Health Threats from 'Twitter' Data) It allows you to automatically monitor trends of tweets by time, place and topic aiming at detecting public health threats early through the detection of signals (e.g. an unusual increase in the number of tweets). 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Package: r-cran-epiworldrshiny Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 393 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-shiny, r-cran-dt, r-cran-ggplot2, r-cran-epiworldr, r-cran-plotly, r-cran-bslib Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-epiworldrshiny_0.2.3-1.ca2004.1_all.deb Size: 283236 MD5sum: cfc3efc4726af645236026966e762ebf SHA1: 32a85f92959dea8574105cde52577aae8179348f SHA256: a3a26baed858227667ac58292cc6b2ab82ff9d48460d8f523b4d2e6be4b4aa5d SHA512: ee3b822f66e1645fc1384227dfe17653b325b791f84fea26c1c92da5bd3638fc3cc9334b10b9f572fe6dc9a6eb9b5249721f0aabae8154c8a28ea0035f1ec50a Homepage: https://cran.r-project.org/package=epiworldRShiny Description: CRAN Package 'epiworldRShiny' (A 'shiny' Wrapper of the R Package 'epiworldR') R 'shiny' web apps for epidemiological Agent-Based Models. It provides a user-friendly interface to the Agent-Based Modeling (ABM) R package 'epiworldR' (Meyer et al., 2023) . Some of the main features of the package include the Susceptible-Infected-Susceptible (SIS), Susceptible-Infected-Recovered (SIR), and Susceptible-Exposed-Infected-Recovered (SEIR) models. 'epiworldRShiny' provides a web-based user interface for running various epidemiological ABMs, simulating interventions, and visualizing results interactively. Package: r-cran-eplot Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-eplot_1.0-1.ca2004.1_all.deb Size: 33320 MD5sum: 96957a15c041290c34537116d6aba414 SHA1: f4002becc77e1ecc0f9997c885405d3353669356 SHA256: 0fea824cdf2e614eb34ad483da085ee055097a3fa8274e29ea3420c731f149ef SHA512: 959cf02438c1264d99ccd450eb1a27281e15d528aeceb5667b3d4da4a8d1c49619db8a6353b40429b9484b2d8a1c5f9d5356cb82b11c41d4bbdc9e478182e938 Homepage: https://cran.r-project.org/package=Eplot Description: CRAN Package 'Eplot' (Plotting longitudinal series) Aim: Adjust the graphical parameters to create nicer longitudinal series plots. The default set of graphical parameters is very general, and can be improved upon when we are interested in plotting data points observed over time. 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Package: r-cran-eplsim Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 173 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-mass, r-cran-citools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eplsim_0.1.1-1.ca2004.1_all.deb Size: 129852 MD5sum: 40694ef91650521d3be7e1939c6c8a15 SHA1: 2ed94ebc5b50fc7e34fac5b2b8b2fec270bbee7b SHA256: ba68b4b8b99002a93a4bd26df1ee8c0f909109f6bf6995fc9f919ddca06f7ab0 SHA512: 3fd71031935979aaf4b460dbbfc4f224c1f4093e444a2fa67c2e4fa59597c030cd7369357777c25e28ab8c71ba849176949fa84dbfee99844d04571496db30c4 Homepage: https://cran.r-project.org/package=EPLSIM Description: CRAN Package 'EPLSIM' (Partial Linear Single Index Models for Environmental MixtureAnalysis) Collection of ancillary functions and utilities for Partial Linear Single Index Models for Environmental mixture analyses, which currently provides functions for scalar outcomes. The outputs of these functions include the single index function, single index coefficients, partial linear coefficients, mixture overall effect, exposure main and interaction effects, and differences of quartile effects. In the future, we will add functions for binary, ordinal, Poisson, survival, and longitudinal outcomes, as well as models for time-dependent exposures. See Wang et al (2020) for an overview. 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Two models are provided, EPoC A where AY + U + R = 0 and EPoC G where Y = GU + E, the matrices R and E are so far treated as noise. For details see the manual page of 'lassoshooting' and the article Rebecka Jörnsten, Tobias Abenius, Teresia Kling, Linnéa Schmidt, Erik Johansson, Torbjörn E M Nordling, Bodil Nordlander, Chris Sander, Peter Gennemark, Keiko Funa, Björn Nilsson, Linda Lindahl, Sven Nelander (2011) . 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The 'epubr' package provides functions supporting the reading and parsing of internal e-book content from EPUB files. E-book metadata and text content are parsed separately and joined together in a tidy, nested tibble data frame. E-book formatting is not completely standardized across all literature. It can be challenging to curate parsed e-book content across an arbitrary collection of e-books perfectly and in completely general form, to yield a singular, consistently formatted output. Many EPUB files do not even contain all the same pieces of information in their respective metadata. EPUB file parsing functionality in this package is intended for relatively general application to arbitrary EPUB e-books. However, poorly formatted e-books or e-books with highly uncommon formatting may not work with this package. There may even be cases where an EPUB file has DRM or some other property that makes it impossible to read with 'epubr'. Text is read 'as is' for the most part. The only nominal changes are minor substitutions, for example curly quotes changed to straight quotes. Substantive changes are expected to be performed subsequently by the user as part of their text analysis. Additional text cleaning can be performed at the user's discretion, such as with functions from packages like 'tm' or 'qdap'. 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Package: r-cran-eq5d Architecture: all Version: 0.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3722 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lifecycle, r-cran-rlang Suggests: r-cran-testthat, r-cran-shiny, r-cran-dt, r-cran-mime, r-cran-readxl, r-cran-ggplot2, r-cran-ggiraph, r-cran-ggiraphextra, r-cran-shinycssloaders, r-cran-shinywidgets, r-cran-fsa, r-cran-pmcmrplus, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-eq5d_0.16.0-1.ca2004.1_all.deb Size: 3039072 MD5sum: f2dcc88df6b493d8e3fa3a261435b255 SHA1: 385359124c212cf77102ea3d5aa8e89eaa9acd2c SHA256: 9e871cee173868dddd8b717182c608bacf9ea27c1fcd4c0a9dee512541e9f392 SHA512: 2487e66f49142981fc62331bfb58e684ec5395af1b3c9de12694070bfed6a1dceed9b5780f7b48605ec472a0114aff944deb8c5d5a4e8f2c1ea9acdfeccda302 Homepage: https://cran.r-project.org/package=eq5d Description: CRAN Package 'eq5d' (Methods for Analysing 'EQ-5D' Data and Calculating 'EQ-5D' IndexScores) EQ-5D is a popular health related quality of life instrument used in the clinical and economic evaluation of health care. Developed by the EuroQol group , the instrument consists of two components: health state description and evaluation. For the description component a subject self-rates their health in terms of five dimensions; mobility, self-care, usual activities, pain/discomfort, and anxiety/depression using either a three-level (EQ-5D-3L, ) or a five-level (EQ-5D-5L, ) scale. Frequently the scores on these five dimensions are converted to a single utility index using country specific value sets, which can be used in the clinical and economic evaluation of health care as well as in population health surveys. The eq5d package provides methods to calculate index scores from a subject's dimension scores. 32 TTO and 11 VAS EQ-5D-3L value sets including those for countries in Szende et al (2007) and Szende et al (2014) , 47 EQ-5D-5L EQ-VT value sets, the EQ-5D-5L crosswalk value sets developed by van Hout et al. (2012) , the crosswalk value sets for Bermuda, Jordan and Russia and the van Hout (2021) reverse crosswalk value sets. 10 EQ-5D-Y value sets are also included as are the NICE 'DSU' age-sex based EQ-5D-3L to EQ-5D-5L and EQ-5D-5L to EQ-5D-3L mappings. Methods are also included for the analysis of EQ-5D profiles, including those from the book "Methods for Analyzing and Reporting EQ-5D data" by Devlin et al. (2020) . Additionally a shiny web tool is included to enable the calculation, visualisation and automated statistical analysis of EQ-5D data via a web browser using EQ-5D dimension scores stored in CSV or Excel files. 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It assesses five dimensions; mobility, self-care, usual activities, pain/discomfort, and anxiety/depression, using either a three-level (EQ-5D-3L) or five-level (EQ-5D-5L) scale. Scores from these dimensions are commonly converted into a single utility index using country-specific value sets, which are critical in clinical and economic evaluations of healthcare and in population health surveys. The eq5dsuite package enables users to calculate utility index values for the EQ-5D instruments, including crosswalk utilities using the original crosswalk developed by van Hout et al. (2012) (mapping EQ-5D-5L responses to EQ-5D-3L index values), or the recently developed reverse crosswalk by van Hout et al. (2021) (mapping EQ-5D-3L responses to EQ-5D-5L index values). Users are allowed to add and/or remove user-defined value sets. Additionally, the package provides tools to analyze EQ-5D data according to the recommended guidelines outlined in "Methods for Analyzing and Reporting EQ-5D data" by Devlin et al. (2020) . 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Package: r-cran-eqrn Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 461 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coro, r-cran-dofuture, r-cran-evd, r-cran-foreach, r-cran-future, r-cran-ismev, r-cran-magrittr, r-cran-torch Filename: pool/dists/focal/main/r-cran-eqrn_0.1.1-1.ca2004.1_all.deb Size: 417236 MD5sum: 34cd688370cf762d7882c49b0da81a50 SHA1: 6c9205cfca70b546b225a1cdad824cf03da85512 SHA256: 26c751a5ca3e20b170d4356fd713f83da4df7b607c4c4406bf35ad78009eb6e7 SHA512: ad42e51e5f14ddac233e9785d66e7d503488672c0e18e52d603bde1ed2faf6c3c9e2a89b0fcc761d467e262c6818739ecb5c55df2c994767ccfb36849b97da8d Homepage: https://cran.r-project.org/package=EQRN Description: CRAN Package 'EQRN' (Extreme Quantile Regression Neural Networks for Risk Forecasting) This framework enables forecasting and extrapolating measures of conditional risk (e.g. of extreme or unprecedented events), including quantiles and exceedance probabilities, using extreme value statistics and flexible neural network architectures. It allows for capturing complex multivariate dependencies, including dependencies between observations, such as sequential dependence (time-series). The methodology was introduced in Pasche and Engelke (2024) (also available in preprint: Pasche and Engelke (2022) ). 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Other functions parse descriptive statistics and the covariance matrix from an EQS .out file. A heat map plot of a covariance matrix is also included. Package: r-cran-eqtesting Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-rdd Filename: pool/dists/focal/main/r-cran-eqtesting_0.1.0-1.ca2004.1_all.deb Size: 48220 MD5sum: 32b319368ee7dc24cc0a7ebe5841efed SHA1: cb979908eab29f995fcfa8d23c94cc03d1db464f SHA256: c2c4bb2c4c5b1a07045f49d326020bd1988009d82a6a2a5200bc0e5dfd85a125 SHA512: f5765279fb8fcb5ba825d899aadd71d02c3a80a39d0ff460a96e7cf347215b9d46e533923a6d5bcbdc12ca0f5f4862d0810a860c2d68f81d4ff533ad64906057 Homepage: https://cran.r-project.org/package=eqtesting Description: CRAN Package 'eqtesting' (Equivalence Testing Functions) Contains several functions for equivalence testing and practical significance testing. First, the tsti() command provides an automatic computation of three-sided testing results for a given estimate, standard error, and region of practical equivalence. For details, see Goeman, Solari, & Stijnen (2010) and Isager & Fitzgerald (2024) . Second, the lddtest() command performs logarithmic density discontinuity equivalence testing for regression discontinuity designs. For reference, see Fitzgerald (2025) . 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'EQUAL-STATS' software is a shiny application with an user-friendly interface to perform complex statistical analysis. Gurusamy,K (2024). 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The traditionally used RMSEA (Root Mean Square Error of Approximation) cutoff values are adjusted based on simulation results. In addition, a projection-based method is implemented to test the equality of latent factor means across groups without assuming the equality of intercepts. For more information, see Yuan, K. H., & Chan, W. (2016) , Deng, L., & Yuan, K. H. (2016) , and Jiang, G., Mai, Y., & Yuan, K. H. (2017) . 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The 'XML' result can then be included in 'HTML', 'Microsoft Word' documents or 'Microsoft PowerPoint' presentations by using a 'Markdown' document or the R package 'officer'. 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Equating types include identity, mean, linear, general linear, equipercentile, circle-arc, and composites of these. Equating methods include synthetic, nominal weights, Tucker, Levine observed score, Levine true score, Braun/Holland, frequency estimation, and chained equating. Plotting and summary methods, and methods for multivariate presmoothing and bootstrap error estimation are also provided. 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Test scoring can be performed by true score equating and observed score equating methods. DIF detection can be performed using a Wald-type test (Battauz (2019) ). The package includes tests to assess the stability of the equating transformations (Battauz(2022) ). 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The primary function of the package, extract_eq(), takes a fitted model object as its input and returns the corresponding 'LaTeX' code for the model. 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This is due to the fact that one or more factors may be expensive or time consuming to change i.e. hard-to-change factors. These factors restrict the use of complete randomization as it may make the experiment expensive and time consuming. Split plot designs can be used for such situations. In general model estimation of split plot designs require the use of generalized least squares (GLS). However for some split-plot designs ordinary least squares (OLS) estimates are equivalent to generalized least squares (GLS) estimates. These types of designs are known in literature as equivalent-estimation split-plot design. For method details see, Macharia, H. and Goos, P.(2010) .Balanced split plot designs are designs which have an equal number of subplots within every whole plot. This package used to construct equivalent estimation balanced split plot designs for different experimental set ups along with different statistical criteria to measure the performance of these designs. It consist of the function equivalent_BSPD(). Package: r-cran-equil2 Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-units Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-equil2_1.0.0-1.ca2004.1_all.deb Size: 56832 MD5sum: f80cac280a2cfbcca187318c0060581d SHA1: 6941b44daccc5b2e0f328d82574667630a33615c SHA256: 78d8a7224a156a2319c7e82acb05b8d3bf72427223884036ce4ac510e96cf753 SHA512: a488f6a01745f0c06a61a8d948da8000c8aca52ae98c557d0022c61876d46458de6835f3199fd34569c17a4bf6e035e2528a2e29fae746d5a4bdc3ac4f839f9d Homepage: https://cran.r-project.org/package=equil2 Description: CRAN Package 'equil2' (Calculate Urinary Saturation with the EQUIL2 Algorithm) Saturation of ionic substances in urine is calculated based on sodium, potassium, calcium, magnesium, ammonia, chloride, phosphate, sulfate, oxalate, citrate, ph, and urate. This program is intended for research use, only. The code within is translated from EQUIL2 Visual Basic code based on Werness, et al (1985) "EQUIL2: a BASIC computer program for the calculation of urinary saturation" to R. The Visual Basic code was kindly provided by Dr. John Lieske of the Mayo Clinic. Package: r-cran-equisurv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-eha Filename: pool/dists/focal/main/r-cran-equisurv_0.1.0-1.ca2004.1_all.deb Size: 53816 MD5sum: ae77241fb39dbf1b6059a4f7260d7504 SHA1: ecd7e07776f60636b8dea7565f016e942b7cf56c SHA256: 4f3ca6de933d6d7549055bcfb9c2c16ca6b607a91325d8a55074e64350e9b9c5 SHA512: 4757d5ed8347a6c91806f0ee2a3d8d8f8ac3c75e5acd30039b520f859c722e8d6515e7ca9853dd621460c77fe5c4d66d51b9803bf4b93c664ccc0d51b23c009e Homepage: https://cran.r-project.org/package=EquiSurv Description: CRAN Package 'EquiSurv' (Modeling, Confidence Intervals and Equivalence of SurvivalCurves) We provide a non-parametric and a parametric approach to investigate the equivalence (or non-inferiority) of two survival curves, obtained from two given datasets. The test is based on the creation of confidence intervals at pre-specified time points. For the non-parametric approach, the curves are given by Kaplan-Meier curves and the variance for calculating the confidence intervals is obtained by Greenwood's formula. The parametric approach is based on estimating the underlying distribution, where the user can choose between a Weibull, Exponential, Gaussian, Logistic, Log-normal or a Log-logistic distribution. Estimates for the variance for calculating the confidence bands are obtained by a (parametric) bootstrap approach. For this bootstrap censoring is assumed to be exponentially distributed and estimates are obtained from the datasets under consideration. All details can be found in K.Moellenhoff and A.Tresch: Survival analysis under non-proportional hazards: investigating non-inferiority or equivalence in time-to-event data . Package: r-cran-equivalencetest Architecture: all Version: 0.0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-polynom, r-cran-rootsolve, r-cran-cubature, r-cran-rdpack Filename: pool/dists/focal/main/r-cran-equivalencetest_0.0.1.1-1.ca2004.1_all.deb Size: 58240 MD5sum: 2de6ae1a0c1ad7c1f56415afde65f3ac SHA1: d1a327382e473e176d07c0b1fd7afbefcd268e27 SHA256: 979a8242bfaf35e304222268855fb53ed43bb84bbc3d9c6bcb4c1a70cde172f0 SHA512: 25ddab3e76f39b182abc34fc21c9db65b51ccc529030422e3953c625cb13e7d82c9163ee3080ae4a4cffcfdf2114254fc7acb470f875ce1331b5d651435efcbe Homepage: https://cran.r-project.org/package=equivalenceTest Description: CRAN Package 'equivalenceTest' (Equivalence Test for the Means of Two Normal Distributions) Two methods for performing equivalence test for the means of two (test and reference) normal distributions are implemented. The null hypothesis of the equivalence test is that the absolute difference between the two means are greater than or equal to the equivalence margin and the alternative is that the absolute difference is less than the margin. Given that the margin is often difficult to obtain a priori, it is assumed to be a constant multiple of the standard deviation of the reference distribution. The first method assumes a fixed margin which is a constant multiple of the estimated standard deviation of the reference data and whose variability is ignored. The second method takes into account the margin variability. In addition, some tools to summarize and illustrate the data and test results are included to facilitate the evaluation of the data and interpretation of the results. 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Includes functions to conduct mediation and moderation analyses and to diagnose multicollinearity. URL: . BugReports: . Duxbury, Scott W (2021) . Long, J. Scott, and Sarah Mustillo (2018) . Mize, Trenton D. (2019) . Karlson, Kristian Bernt, Anders Holm, and Richard Breen (2012) . Duxbury, Scott W (2018) . Duxbury, Scott W, Jenna Wertsching (2023) . Huang, Peng, Carter Butts (2023) . 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The trajectory generation is based on empirical distribution functions extracted from observed trajectories (training data) and thus reflects the geometrical movement characteristics of the mover. A digital elevation model (DEM), representing the Earth's surface, and a background layer of probabilities (e.g. food sources, uplift potential, waterbodies, etc.) can be used to influence the trajectories. Unterfinger M (2018). "3-D Trajectory Simulation in Movement Ecology: Conditional Empirical Random Walk". Master's thesis, University of Zurich. . Technitis G, Weibel R, Kranstauber B, Safi K (2016). "An algorithm for empirically informed random trajectory generation between two endpoints". GIScience 2016: Ninth International Conference on Geographic Information Science, 9, online. . 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It tries to first estimate the number of factors using bi-cross-validation and then estimate the latent factor matrix and the noise variances. For more information about the method, see Art B. Owen and Jingshu Wang 2015 archived article on factor model (). 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Indicators of electoral volatility, electoral disproportionality, party nationalization and the effective number of parties are included. Package: r-cran-esback Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-esreg Filename: pool/dists/focal/main/r-cran-esback_0.3.1-1.ca2004.1_all.deb Size: 108188 MD5sum: 2751cc586f601fab7b759ea1896505d8 SHA1: d37ac4f55bb98f93c6223839ee9c3048d9c2848e SHA256: 0a7afc9efb1bee8a1314b753aa73f3cc80d330a303b329e452bbd87b233ad473 SHA512: 989408a0feb37f29aa081c64584a804eb06afd75c559eb6c3265728f39e6378827ce5e2f578dd00a9a5ab1883fc7eac9b80a5484409ba23623f76b96c02521f0 Homepage: https://cran.r-project.org/package=esback Description: CRAN Package 'esback' (Expected Shortfall Backtesting) Implementations of the expected shortfall backtests of Bayer and Dimitriadis (2020) as well as other well known backtests from the literature. Can be used to assess the correctness of forecasts of the expected shortfall risk measure which is e.g. used in the banking and finance industry for quantifying the market risk of investments. A special feature of the backtests of Bayer and Dimitriadis (2020) is that they only require forecasts of the expected shortfall, which is in striking contrast to all other existing backtests, making them particularly attractive for practitioners. Package: r-cran-esc Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-esc_0.5.1-1.ca2004.1_all.deb Size: 161964 MD5sum: 2592a1d7b526c452175189bf5ea487d7 SHA1: a7639cfe4707b0db7b975bdeea72fbdafdeb8075 SHA256: ba08776070b038d2c2950638939b93c2f0e38221b872b10d44bd090f03233b21 SHA512: 52e4841121c9c6a60f5177b3d46c09078fcdf5e94e54f0f76acc362c7e9ee191c86d1e3ee0a6daa431f25666ae32266abd1c31bc3d850dbe10f326865081d3d3 Homepage: https://cran.r-project.org/package=esc Description: CRAN Package 'esc' (Effect Size Computation for Meta Analysis) Implementation of the web-based 'Practical Meta-Analysis Effect Size Calculator' from David B. Wilson () in R. Based on the input, the effect size can be returned as standardized mean difference, Cohen's f, Hedges' g, Pearson's r or Fisher's transformation z, odds ratio or log odds, or eta squared effect size. 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We provide implementations of many dose-finding clinical trial designs, including the continual reassessment method (CRM) by O'Quigley et al. (1990) , the toxicity probability interval (TPI) design by Ji et al. (2007) , the modified TPI (mTPI) design by Ji et al. (2010) , the Bayesian optimal interval design (BOIN) by Liu & Yuan (2015) , EffTox by Thall & Cook (2004) ; the design of Wages & Tait (2015) , and the 3+3 described by Korn et al. (1994) . All designs are implemented with a common interface. We also offer optional additional classes to tailor the behaviour of all designs, including avoiding skipping doses, stopping after n patients have been treated at the recommended dose, stopping when a toxicity condition is met, or demanding that n patients are treated before stopping is allowed. By daisy-chaining together these classes using the pipe operator from 'magrittr', it is simple to tailor the behaviour of a dose-finding design so it behaves how the trialist wants. Having provided a flexible interface for specifying designs, we then provide functions to run simulations and calculate dose-paths for future cohorts of patients. Package: r-cran-esci Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3538 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jmvcore, r-cran-r6, r-cran-rlang, r-cran-multcomp, r-cran-sadists, r-cran-statpsych, r-cran-metafor, r-cran-ggplot2, r-cran-ggdist, r-cran-ggtext, r-cran-ggbeeswarm, r-cran-glue, r-cran-rdpack, r-cran-stringr, r-cran-mathjaxr, r-cran-legendry Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-esci_1.0.7-1.ca2004.1_all.deb Size: 3030904 MD5sum: b9bfc7cdd64b863dbf6086076e247e0c SHA1: 059967c066614c1242fba53c2be6b310cd4cce30 SHA256: bd4c4d11e675125812306f98678d9865887e1bf0c62e3ec2afbaf8a8defda0f9 SHA512: 1b6eb760bcbd607514bfb590c402bf0e7e4e876ee6e2e41470bb9e9fca4050ec28a6093cdf5fe2438593388d9d4d69bebf265790aa1595e28934e97ef2a9d917 Homepage: https://cran.r-project.org/package=esci Description: CRAN Package 'esci' (Estimation Statistics with Confidence Intervals) A collection of functions and 'jamovi' module for the estimation approach to inferential statistics, the approach which emphasizes effect sizes, interval estimates, and meta-analysis. Nearly all functions are based on 'statpsych' and 'metafor'. This package is still under active development, and breaking changes are likely, especially with the plot and hypothesis test functions. Data sets are included for all examples from Cumming & Calin-Jageman (2024) . Package: r-cran-escvtmle Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-superlearner, r-cran-origami, r-cran-dplyr, r-cran-tidyselect, r-cran-mass, r-cran-stringr, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-escvtmle_0.0.2-1.ca2004.1_all.deb Size: 124068 MD5sum: 2fca14bd4d08a836c88f3e35b2a3879f SHA1: 44b99e5d91346f890dd59103ac28ddd8155dfc85 SHA256: 144a813fc1631378db5d823009ae88d75cde643449d49f8127f40f47082e023b SHA512: 19313742c24d00c18b5e3eb0582f44458069ef452f9885b10c5e5e52af2b20a67ad13baf2e7a8eb7661cb17ac7c6b4600a55f03688e71706cb4d43640d211260 Homepage: https://cran.r-project.org/package=EScvtmle Description: CRAN Package 'EScvtmle' (Experiment-Selector CV-TMLE for Integration of Observational andRCT Data) The experiment selector cross-validated targeted maximum likelihood estimator (ES-CVTMLE) aims to select the experiment that optimizes the bias-variance tradeoff for estimating a causal average treatment effect (ATE) where different experiments may include a randomized controlled trial (RCT) alone or an RCT combined with real-world data. Using cross-validation, the ES-CVTMLE separates the selection of the optimal experiment from the estimation of the ATE for the chosen experiment. The estimated bias term in the selector is a function of the difference in conditional mean outcome under control for the RCT compared to the combined experiment. In order to help include truly unbiased external data in the analysis, the estimated average treatment effect on a negative control outcome may be added to the bias term in the selector. For more details about this method, please see Dang et al. (2022) . Package: r-cran-esdesign Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-esdesign_1.0.3-1.ca2004.1_all.deb Size: 120088 MD5sum: de8a9f4395e886d5f86b28a5363aa362 SHA1: 398e9582f6a78e25ddf101046b2fc26e31f71a4c SHA256: 285c96f64288fcf614b691d6d08be9dcb9a3887da67a5a77bc7c0d55adb36379 SHA512: 2f55fc6d756bb6f34a5824b1796be056619717ab9ec9c5a9bcdce966879f7fa92148cfa546742f38211df3dd5435b1fa0e0c50c4aff2b22694e2ba660956b676 Homepage: https://cran.r-project.org/package=esDesign Description: CRAN Package 'esDesign' (Adaptive Enrichment Designs with Sample Size Re-Estimation) Software of 'esDesign' is developed to implement the adaptive enrichment designs with sample size re-estimation presented in Lin et al. (2021) . In details, three-proposed trial designs are provided, including the AED1-SSR (or ES1-SSR), AED2-SSR (or ES2-SSR) and AED3-SSR (or ES3-SSR). In addition, this package also contains several widely used adaptive designs, such as the Marker Sequential Test (MaST) design proposed Freidlin et al. (2014) , the adaptive enrichment designs without early stopping (AED or ES), the sample size re-estimation procedure (SSR) based on the conditional power proposed by Proschan and Hunsberger (1995), and some useful functions. In details, we can calculate the futility and/or efficacy stopping boundaries, the sample size required, calibrate the value of the threshold of the difference between subgroup-specific test statistics, conduct the simulation studies in AED, SSR, AED1-SSR, AED2-SSR and AED3-SSR. Package: r-cran-esdm Architecture: all Version: 0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4634 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-rocr, r-cran-sf, r-cran-shiny, r-cran-units Suggests: r-cran-colorramps, r-cran-colourpicker, r-cran-dichromat, r-cran-dt, r-cran-knitr, r-cran-leafem, r-cran-leaflet, r-cran-maps, r-cran-raster, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-shinybusy, r-cran-shinydashboard, r-cran-shinyjs, r-cran-testthat, r-cran-tmap, r-cran-viridis, r-cran-zip Filename: pool/dists/focal/main/r-cran-esdm_0.4.4-1.ca2004.1_all.deb Size: 3701396 MD5sum: c5c083286600a3e36b3f4079adca2775 SHA1: 673228aff3e0fb97d4102feb694bb5fccb37488a SHA256: 78bfacaa503fdf6e3655ac99f059ec0fa046616787f24378f1079f42cbf8011d SHA512: c27974f413a1fa590e408bccbf233d0388b5e497cda8e6baaf59338418f83a8caf915bd1ecf79b373c926b3bd8edcd1712dd2e6b55bdb460357343339314a320 Homepage: https://cran.r-project.org/package=eSDM Description: CRAN Package 'eSDM' (Ensemble Tool for Predictions from Species Distribution Models) A tool which allows users to create and evaluate ensembles of species distribution model (SDM) predictions. Functionality is offered through R functions or a GUI (R Shiny app). This tool can assist users in identifying spatial uncertainties and making informed conservation and management decisions. The package is further described in Woodman et al (2019) . Package: r-cran-esea Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4890 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-xml, r-cran-parmigene Suggests: r-cran-matrix, r-bioc-graph Filename: pool/dists/focal/main/r-cran-esea_1.0-1.ca2004.1_all.deb Size: 4287016 MD5sum: 05c965efd9fccb0c1b9b37ecf5b4f784 SHA1: c0a47ee1e061f86b0a0506080e7c746e8b45bb1f SHA256: 6a32e08a02b245433d8556876053f559f9203e2e0cd5202699339edc1c21900c SHA512: 20563aab09a0e0c7e42752fb8080d09e561242c0dcd92d2022486149bf61669553d2d9771497e506a0324152b1266c77b398caaec27acd8b863333799b9adc9f Homepage: https://cran.r-project.org/package=ESEA Description: CRAN Package 'ESEA' (ESEA: Discovering the Dysregulated Pathways based on Edge SetEnrichment Analysis) The package can identify the dysregulated canonical pathways by investigating the changes of biological relationships of pathways in the context of gene expression data. (1) The ESEA package constructs a background set of edges by extracting pathway structure (e.g. interaction, regulation, modification, and binding etc.) from the seven public databases (KEGG; Reactome; Biocarta; NCI; SPIKE; HumanCyc; Panther) and the edge sets of pathways for each of the above databases. (2) The ESEA package can can quantify the change of correlation between genes for each edge based on gene expression data with cases and controls. (3) The ESEA package uses the weighted Kolmogorov-Smirnov statistic to calculate an edge enrichment score (EES), which reflects the degree to which a given pathway is associated the specific phenotype. (4) The ESEA package can provide the visualization of the results. Package: r-cran-eselect Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-comparedesign Filename: pool/dists/focal/main/r-cran-eselect_1.1-1.ca2004.1_all.deb Size: 65472 MD5sum: c44d971c8500ec9d319f52a188925dc7 SHA1: a305b4c676ade20df3c0df8ff2b971a0d391e83f SHA256: 132dc51823a1895475bb0a9223b94415a7778c3a58a98655f11f5314940be0f5 SHA512: cc2176e177b39f9fced1cc1c5da43a0fcae5fe83b3902c2c4d5336868769966dabea6b23780d1c6b318336e18935e1a83cef93e69a85ffcede09f20e54d8e5cc Homepage: https://cran.r-project.org/package=eselect Description: CRAN Package 'eselect' (Adaptive Clinical Trial Designs with Endpoint Selection andSample Size Reassessment) Endpoint selection and sample size reassessment for multiple binary endpoints based on blinded and/or unblinded data. Trial design that allows an adaptive modification of the primary endpoint based on blinded information obtained at an interim analysis. The decision rule chooses the endpoint with the lower estimated required sample size. Additionally, the sample size is reassessed using the estimated event probabilities and correlation between endpoints. The implemented design is proposed in Bofill Roig, M., Gómez Melis, G., Posch, M., and Koenig, F. (2022). . Package: r-cran-esem Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gparotation, r-cran-lavaan, r-cran-magrittr, r-cran-psych, r-cran-tidyr, r-cran-dplyr, r-cran-rlang, r-cran-tibble Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-esem_2.0.0-1.ca2004.1_all.deb Size: 107664 MD5sum: 10ec166adc5f77e199e919a10429d34a SHA1: 83e892a1554dd76d63b22c3aaebbfc2248774c6e SHA256: 219207123475d56ab04f4ecad19b9c9f05152731f3fc59ca7a06a00e7f468c1d SHA512: 6e83c2ef5107e8c1da4ce288a48bf6d1177293fadae8fee1c21fac65e5d6553348126f83bae8c301f21a622f013f75f8443700ba1d82f29e47ba588305c844c9 Homepage: https://cran.r-project.org/package=esem Description: CRAN Package 'esem' (Exploratory Structural Equation Modeling ESEM) A collection of functions developed to support the tutorial on using Exploratory Structural Equiation Modeling (ESEM) (Asparouhov & Muthén, 2009) ) with Longitudinal Study of Australian Children (LSAC) dataset (Mohal et al., 2023) . The package uses 'tidyverse','psych', 'lavaan','semPlot' and provides additional functions to conduct ESEM. The package provides general functions to complete ESEM, including esem_c(), creation of target matrix (if it is used) make_target(), generation of the Confirmatory Factor Analysis (CFA) model syntax esem_cfa_syntax(). A sample data is provided - the package includes a sample data of the Strengths and Difficulties Questionnaire of the Longitudinal Study of Australian Children (SDQ LSAC) in sdq_lsac(). 'ESEM' package vignette presents the tutorial demonstrating the use of ESEM on SDQ LSAC data. Package: r-cran-esg Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 325 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-esg_1.3-1.ca2004.1_all.deb Size: 173892 MD5sum: 79c1284c75acb90a0ff89eccf3029370 SHA1: 159dd22ea643a6d6e477e1d8b5e65c476990edaa SHA256: 0377c51dde6657edfb2a16e9ace77160d3020b30f8286307a10afde145a7e66c SHA512: bb80801bb2d1a45b93ada192cfed32559c9cef34b250b0fa34a713bc362e7a31199a5ac64e7bc8c4632be1eefe72447d7bd03fdab409a338d70f0f1d8da543bf Homepage: https://cran.r-project.org/package=ESG Description: CRAN Package 'ESG' (A Package for Asset Projection) Presents a "Scenarios" class containing general parameters, risk parameters and projection results. Risk parameters are gathered together into a ParamsScenarios sub-object. The general process for using this package is to set all needed parameters in a Scenarios object, use the customPathsGeneration method to proceed to the projection, then use xxx_PriceDistribution() methods to get asset prices. Package: r-cran-eshrink Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-eshrink_0.1.2-1.ca2004.1_all.deb Size: 65516 MD5sum: fd0dea43df7f04e9870d2e96a9d1202e SHA1: 9f0f2c5966933dac42afb2ded45e76e05982f919 SHA256: ac450f35c5c706870eb17cf73a8aaf60298e516aebc578bca1cc7cfefcbca34d SHA512: efeaef28151badcffe04e9ba1d5f29ab291611d4681c892edca615d432d9b481eaf7edc5a24bc7c29d78d5bf475ccb03b581b955e5681544fb7136706d57322c Homepage: https://cran.r-project.org/package=eshrink Description: CRAN Package 'eshrink' (Shrinkage for Effect Estimation) Computes shrinkage estimators for regression problems. Selects penalty parameter by minimizing bias and variance in the effect estimate, where bias and variance are estimated from the posterior predictive distribution. See Keller and Rice (2017) for more details. Package: r-cran-esir Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3085 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-chron, r-cran-data.table, r-cran-ggplot2, r-cran-gtools, r-cran-scales, r-cran-reshape2, r-cran-rjags Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-esir_0.4.2-1.ca2004.1_all.deb Size: 2800028 MD5sum: 4a3da684705ae3f89c74fe9242d2baf2 SHA1: ce30090c7f48119a0c9a9478d94c58bfbba48ab8 SHA256: 5df5409aa5600f0a41be8f862ed8486a24a32afe2d2a98ef22f65ded0462c2fd SHA512: 66b91b62af2b94811634dda2d7332c1500470dbfd9947e9139852fa81a7e05cd367f180e6e358f82774a686b54d9a75c4fc8098739fbe1fadd1564ac5403d1e7 Homepage: https://cran.r-project.org/package=eSIR Description: CRAN Package 'eSIR' (Extended State-Space SIR Models) An implementation of extended state-space SIR models developed by Song Lab at UM school of Public Health. There are several functions available by 1) including a time-varying transmission modifier, 2) adding a time-dependent quarantine compartment, 3) adding a time-dependent antibody-immunization compartment. Wang L. (2020) . Package: r-cran-esmisc Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 440 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-ggplot2, r-cran-readr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-esmisc_0.0.3-1.ca2004.1_all.deb Size: 416316 MD5sum: 7f1713660705501c1f45f90a2bf15616 SHA1: 4ea405073c2bd13b0553735e9993efa767d2d0fd SHA256: a273508914b317f6d5510fc09abd5b7db667fd1f7b64d07499af1915f7598d4e SHA512: 2194d9f90bdc1265fcd799128372be575cf794286da81828e57bf8fa77a42cb3ba46bf9b992b107b6e3a9d4a13b7777feacc4782012db8ee3b57af17e1c78368 Homepage: https://cran.r-project.org/package=esmisc Description: CRAN Package 'esmisc' (Misc Functions of Eduard Szöcs) Misc functions programmed by Eduard Szöcs. Provides read_regnie() to read gridded precipitation data from German Weather Service (DWD, see for more information). Package: r-cran-esmtools Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2472 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-base64enc, r-cran-dplyr, r-cran-dt, r-cran-fs, r-cran-ggplot2, r-cran-ggpubr, r-cran-htmltools, r-cran-jsonlite, r-cran-kableextra, r-cran-knitr, r-cran-lubridate, r-cran-stringr, r-cran-tidyr Suggests: r-cran-readxl, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-esmtools_1.0.1-1.ca2004.1_all.deb Size: 497016 MD5sum: 8f253c67142df94f459f5ee65d1ed6dc SHA1: b7f79fa10b1d33a37b655aa34f7e51eba3f1ce9d SHA256: a73d0628368708f53bf3d7659d15d7533b52e6799da19983c82ae3587a584381 SHA512: 3ad511fbeb9665e3201b09ed1249358773e5ae3659ed9694fc44f15ae4a6342c0102612b66796ac76270ae289f2f99d08dbff999cc20c9a8629d3124eaed599e Homepage: https://cran.r-project.org/package=esmtools Description: CRAN Package 'esmtools' (Preprocessing Experience Sampling Method (ESM) Data) Tailored explicitly for Experience Sampling Method (ESM) data, it contains a suite of functions designed to simplify preprocessing steps and create subsequent reporting. It empowers users with capabilities to extract critical insights during preprocessing, conducts thorough data quality assessments (e.g., design and sampling scheme checks, compliance rate, careless responses), and generates visualizations and concise summary tables tailored specifically for ESM data. Additionally, it streamlines the creation of informative and interactive preprocessing reports, enabling researchers to transparently share their dataset preprocessing methodologies. Finally, it is part of a larger ecosystem which includes a framework and a web gallery (). Package: r-cran-esquisse Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2429 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bslib, r-cran-datamods, r-cran-downlit, r-cran-ggplot2, r-cran-htmltools, r-cran-jsonlite, r-cran-phosphoricons, r-cran-rlang, r-cran-rstudioapi, r-cran-scales, r-cran-shiny, r-cran-shinybusy, r-cran-shinywidgets, r-cran-zip Suggests: r-cran-officer, r-cran-rvg, r-cran-rio, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggthemes, r-cran-hrbrthemes, r-cran-plotly Filename: pool/dists/focal/main/r-cran-esquisse_2.1.0-1.ca2004.1_all.deb Size: 1539252 MD5sum: 0674b138a24c0a6372065660c656e938 SHA1: 5f8068e3525a00d004fa31c8e51e5dc7ade94d85 SHA256: 0eea90392c240916a5460de87151b915ca702dd650bcb5de0b7534cebed17b77 SHA512: e4caa4cfb637114948f43943d62837d860d7d69dd97524298df6b220230be0cad3be7d4366d702cd1503de95f168de30aa2623ae90f504edb0961b4a1009d8ba Homepage: https://cran.r-project.org/package=esquisse Description: CRAN Package 'esquisse' (Explore and Visualize Your Data Interactively) A 'shiny' gadget to create 'ggplot2' figures interactively with drag-and-drop to map your variables to different aesthetics. You can quickly visualize your data accordingly to their type, export in various formats, and retrieve the code to reproduce the plot. Package: r-cran-essurvey Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 192 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-httr, r-cran-haven, r-cran-rvest, r-cran-tibble Suggests: r-cran-foreign, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-essurvey_1.0.8-1.ca2004.1_all.deb Size: 125268 MD5sum: 2519f355076296094688960c6acb153e SHA1: 31a859bc2cd05d29da2fc142596292cb8bfd4956 SHA256: 4ee73531a19bad8ae23215dc02dc0847decfa55920460ea3b47b6cb992a23a62 SHA512: e91231c4fc7be0aff41c0e43c1a20a73db678f8e831cf5c4e880e1547b4c88b20c20c3c7da1890c111388dd625e9b4380a9f7bd42a10d2ea18ad1998e0c7023c Homepage: https://cran.r-project.org/package=essurvey Description: CRAN Package 'essurvey' (Download Data from the European Social Survey on the Fly) Download data from the European Social Survey directly from their website . There are two families of functions that allow you to download and interactively check all countries and rounds available. 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Las funciones contenidas en el paquete 'estadistica' cubren los conceptos básicos estudiados en un curso introductorio. Muchos conceptos son ilustrados con gráficos dinámicos o web apps para facilitar su comprensión. This package aims to help the teaching-learning process of descriptive and inferential statistics. The functions contained in the package 'estadistica' cover the basic concepts studied in a statistics introductory course. Many concepts are illustrated with dynamic graphs or web apps to make the understanding easier. See: Esteban et al. (2005, ISBN: 9788497323741), Newbold et al.(2019, ISBN:9781292315034 ), Murgui et al. (2002, ISBN:9788484424673) . 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These weights correspond either to Akaike weights computed from the Akaike Information Criterion (AIC) or the Bayesian Information Criterion (BIC) and following Burnham & Anderson (2004, ) recommendations, or to pseudo-BMA weights computed from the WAIC or the LOO-IC of models fitted with 'brms' and following Yao et al. (2017, ). 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It has two main functionalities, the first being about prediction models of covariates and environmental processes, while the second deals with the estimation of genetic parameters and selection strategies. Designed for researchers and professionals in genetics and environmental sciences, the package combines statistical methods for modeling and data analysis. This includes the plastochron estimate proposed by Porta et al. (2024) , Stress indices for genotype selection referenced by Ghazvini et al. (2024) , the Environmental Stress Index described by Tazzo et al. (2024) , industrial quality indices of wheat genotypes (Szareski et al., 2019), , Ear Indexes estimation (Rigotti et al., 2024), , Selection index for protein and grain yield (de Pelegrin et al., 2017), , Estimation of the ISGR - Genetic Selection Index for Resilience for environmental resilience (Bandeira et al., 2024) , estimation of Leaf Area Index (Meira et al., 2015) , Restriction of control variability (Carvalho et al., 2023) , Risk of Disease Occurrence in Soybeans described by Engers et al. (2024) and estimation of genetic parameters for selection based on balanced experiments (Yadav et al., 2024) . 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It is implemented thinking on parametric survival analysis, but it feasible to use in parameter estimation of probability density or mass functions in any field. The main routines 'maxlogL' and 'maxlogLreg' are wrapper functions specifically developed for ML estimation. There are included optimization procedures such as 'nlminb' and 'optim' from base package, and 'DEoptim' Mullen (2011) . Standard errors are estimated with 'numDeriv' Gilbert (2011) or the option 'Hessian = TRUE' of 'optim' function. 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While raw data can be useful for doing meta-analysis, such data is often not provided by primary studies (with summary statistics being solely presented). Therefore, based on summary statistics (namely, risk ratios, risk differences and odds ratios), this package estimates the value of each cell in a 2x2 table according to the equations described in Di Pietrantonj C (2006) . 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The first was originally proposed by Olley, G.S. and Pakes, A. (1996) . The second by Levinsohn, J. and Petrin, A. (2003) . And the third by Wooldridge (2009) . Package: r-cran-estsimpdmp Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-estsimpdmp_1.2-1.ca2004.1_all.deb Size: 56364 MD5sum: 700dfc0b666cee77591ced8565812fb7 SHA1: 589c168971b404f423c4c1881aaeebae2ad91307 SHA256: 0572107ed0d0164c05a9bf17218cac70a1b7af7022e9ccc9374bf58a68d967a5 SHA512: 27cb5fbb32043a98e54ad44e6dd06eeea799ca62c4cffb351a1f0d83e333ec3fcf8f4aa12b4e88f8370a2d3c899f104d34b60637208402b8cf0151bdbbd59ec0 Homepage: https://cran.r-project.org/package=EstSimPDMP Description: CRAN Package 'EstSimPDMP' (Estimation and Simulation for PDMPs) This package deals with the estimation of the jump rate for piecewise-deterministic Markov processes (PDMPs), from only one observation of the process within a long time. The main functions provide an estimate of this function. The state space may be discrete or continuous. The associated paper has been published in Scandinavian Journal of Statistics and is given in references. Other functions provide a method to simulate random variables from their (conditional) hazard rate, and then to simulate PDMPs. Package: r-cran-esvis Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1246 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sfsmisc, r-cran-ggplot2, r-cran-magrittr, r-cran-dplyr, r-cran-rlang, r-cran-tidyr, r-cran-purrr, r-cran-hmisc, r-cran-tibble Suggests: r-cran-testthat, r-cran-viridislite Filename: pool/dists/focal/main/r-cran-esvis_0.3.1-1.ca2004.1_all.deb Size: 1194508 MD5sum: ace778a6524013e824a949ab0880fd81 SHA1: 99b2541d9a49fc9e1074f3f8b8eba74288bbb563 SHA256: 613927dd638180910205707168b350bf384f5f316bf748e0d4f30ce7ce965caf SHA512: 247f7c64831087c098ae77dc8f79020115b05ccc50f3a238d1e4d4d9ab466b9ebdcfdb608ea76d0a8c0223ea3df9f5d827b0e41c463565c27186d79547fb436c Homepage: https://cran.r-project.org/package=esvis Description: CRAN Package 'esvis' (Visualization and Estimation of Effect Sizes) A variety of methods are provided to estimate and visualize distributional differences in terms of effect sizes. Particular emphasis is upon evaluating differences between two or more distributions across the entire scale, rather than at a single point (e.g., differences in means). For example, Probability-Probability (PP) plots display the difference between two or more distributions, matched by their empirical CDFs (see Ho and Reardon, 2012; ), allowing for examinations of where on the scale distributional differences are largest or smallest. The area under the PP curve (AUC) is an effect-size metric, corresponding to the probability that a randomly selected observation from the x-axis distribution will have a higher value than a randomly selected observation from the y-axis distribution. Binned effect size plots are also available, in which the distributions are split into bins (set by the user) and separate effect sizes (Cohen's d) are produced for each bin - again providing a means to evaluate the consistency (or lack thereof) of the difference between two or more distributions at different points on the scale. Evaluation of empirical CDFs is also provided, with built-in arguments for providing annotations to help evaluate distributional differences at specific points (e.g., semi-transparent shading). All function take a consistent argument structure. Calculation of specific effect sizes is also possible. The following effect sizes are estimable: (a) Cohen's d, (b) Hedges' g, (c) percentage above a cut, (d) transformed (normalized) percentage above a cut, (e) area under the PP curve, and (f) the V statistic (see Ho, 2009; ), which essentially transforms the area under the curve to standard deviation units. By default, effect sizes are calculated for all possible pairwise comparisons, but a reference group (distribution) can be specified. Package: r-cran-et.nwfva Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1689 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-et.nwfva_0.2.0-1.ca2004.1_all.deb Size: 1241872 MD5sum: 0a4b22b73f93020545dfdbfd291be204 SHA1: 78667ed1fe02284498a2a1854d910b4dcaacb947 SHA256: 0ea7e63adce881450a6c7ef79108aea9439de2b1ffc257b735c07dafe4e33b0b SHA512: 0e375e0357719784448fcad6c48f53b98c72b50766f7efbf3820d6b893186fdde23d8016f6d78d1dfc7245558c67ce15c7091daf3961ec58ed6b5ada9cd0e8d4 Homepage: https://cran.r-project.org/package=et.nwfva Description: CRAN Package 'et.nwfva' (Forest Yield Tables for Northwest Germany and their Application) The new yield tables developed by the Northwest German Forest Research Institute (NW-FVA) provide a forest management tool for the five main commercial tree species oak, beech, spruce, Douglas-fir and pine for northwestern Germany. The new method applied for deriving yield tables combines measurements of growth and yield trials with growth simulations using a state-of-the-art single-tree growth simulator. By doing so, the new yield tables reflect the current increment level and the recommended graduated thinning from above is the underlying management concept. The yield tables are provided along with methods for deriving the site index and for interpolating between age and site indices and extrapolating beyond age and site index ranges. The inter-/extrapolations are performed traditionally by the rule of proportion or with a functional approach. Package: r-cran-etable Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-etable_1.3.1-1.ca2004.1_all.deb Size: 136384 MD5sum: 2ab76c881d838a9a77f016f66ca57e81 SHA1: e999b14f0b8c588abef06d871a20e97e125d1e5a SHA256: 64f490820d0b687ae29dd505fdd2fe798c16b8c8cb007e4d69853dbdfc6ab5ee SHA512: 5eaa755f4cbe92ade7b5d5ef94f4341c4189137e1874b02da59704d09114dcb6b1661403c3a202ab7f7e3d03163d93c45393c2236b540d19465a519d6f9ccec0 Homepage: https://cran.r-project.org/package=etable Description: CRAN Package 'etable' (Easy Table) Creates simple to highly customized tables for a wide selection of descriptive statistics, with or without weighting the data. Package: r-cran-etasbootstrap Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 453 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-etas, r-cran-mass, r-cran-spatstat.geom Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-etasbootstrap_0.2.0-1.ca2004.1_all.deb Size: 418364 MD5sum: b537217bbf91d3210d285847468a3d0a SHA1: cc9760545d6939a290405893a08beafc110595e0 SHA256: e4c2913848529748f5c8d4572b41ac973faba0c9ad9c3ae3324d5da041cf5cdd SHA512: 3b688e6c42554a75342b223ce418c6b2f8791fff9cdc3afd774145948c871210d4510b0b61e92e3b2b3a763ff1c9a3e931ec94296f810d9287c038834a095725 Homepage: https://cran.r-project.org/package=ETASbootstrap Description: CRAN Package 'ETASbootstrap' (Bootstrap Confidence Interval Estimation for 'ETAS' ModelParameters) The 2-D spatial and temporal Epidemic Type Aftershock Sequence ('ETAS') Model is widely used to 'decluster' earthquake data catalogs. Usually, the calculation of standard errors of the 'ETAS' model parameter estimates is based on the Hessian matrix derived from the log-likelihood function of the fitted model. However, when an 'ETAS' model is fitted to a local data set over a time period that is limited or short, the standard errors based on the Hessian matrix may be inaccurate. It follows that the asymptotic confidence intervals for parameters may not always be reliable. As an alternative, this package allows for the construction of bootstrap confidence intervals based on empirical quantiles for the parameters of the 2-D spatial and temporal 'ETAS' model. This version improves on Version 0.1.0 of the package by enabling the study space window (renamed 'study region') to be polygonal rather than merely rectangular. A Japan earthquake data catalog is used in a second example to illustrate this new feature. Package: r-cran-etc Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-simcomp, r-cran-multcomp, r-cran-mratios Filename: pool/dists/focal/main/r-cran-etc_1.5-1.ca2004.1_all.deb Size: 54556 MD5sum: 68ff582b0bfd08825a450702c95b6cba SHA1: 3b1c05b8727e8ed2fc370493f46f4bea5c7f50e0 SHA256: 182c6d0c259681f21db4fe550499193041c4df49087b7e04f35435fc8a291f7b SHA512: c619565097a8f2b6771a1b41732cafcfd21510d06d368e05638f6b0f74cff961d85cce89d6dc0a1f14c83b5315b3b921c7280db6825aece227b7e531a1e4bce0 Homepage: https://cran.r-project.org/package=ETC Description: CRAN Package 'ETC' (Equivalence to Control) Treatments of a one-way layout, being equivalent to a control, can be selected with this package. Bonferroni adjusted "two one-sided t-tests" (TOST) and related simultaneous confidence intervals are given for both differences or ratios of means of normally distributed data. For the case of equal variances and balanced sample sizes for the treatment groups, the single-step procedure of Bofinger and Bofinger (1995) can be chosen. For non-normal data, the Wilcoxon test is applied. Package: r-cran-ether Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-rmpfr Suggests: r-cran-testthat, r-cran-httptest Filename: pool/dists/focal/main/r-cran-ether_0.1.6-1.ca2004.1_all.deb Size: 66972 MD5sum: 690a1788803731419d6fb1f33a9856a7 SHA1: 31fd18d1c2e0d830cc066473f24f7f62a705823a SHA256: dd6ef477f89cd728a5233a28c5c1c8927d59d46029f87b3979e5c1e521f0d0d1 SHA512: b72c9cb141c449965b4d68428fabf687e8256a6f5153af02b62c92b683bf9fb89fdc5b79072357483a05baf3394d2be02b81017516f845039b2fd8bfa1824c4c Homepage: https://cran.r-project.org/package=ether Description: CRAN Package 'ether' (Interaction with the 'Ethereum' Blockchain) Interacts with the open-source, public 'Ethereum' blockchain. It provides a distributed computing platform via smart contracts. This package provides functions which interrogate blocks and transactions in the 'Ethereum' blockchain. Package: r-cran-ethnobotanyr Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4425 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-circlize, r-cran-cowplot, r-cran-dplyr, r-cran-ggalluvial, r-cran-ggplot2, r-cran-ggridges, r-cran-reshape2, r-cran-magrittr Suggests: r-cran-broom, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr, r-cran-stringr Filename: pool/dists/focal/main/r-cran-ethnobotanyr_0.1.9-1.ca2004.1_all.deb Size: 2538612 MD5sum: 15b05ed35b9197dbf8c2507260afc3d9 SHA1: 7ada0a8143a276c0196eca2df26fae2218d75ddd SHA256: 200ba4dc314901173f49b6250cd634d6f88f06bc91663e1e3671eaf3b60d21ab SHA512: 90a6e0f869756ad26754dda24c63417df3a4a1faebf4ea280f279ef03a2f27003292dd84bdca7cdff60bda785b440e15849a7d903b59f76083c7db62be28f97e Homepage: https://cran.r-project.org/package=ethnobotanyR Description: CRAN Package 'ethnobotanyR' (Calculate Quantitative Ethnobotany Indices) An implementation of the quantitative ethnobotany indices in R. The goal is to provide an easy-to-use platform for ethnobotanists to assess the cultural significance of plant species based on informant consensus. The package closely follows the paper by Tardio and Pardo-de-Santayana (2008). Tardio, J., and M. Pardo-de-Santayana, 2008. Cultural Importance Indices: A Comparative Analysis Based on the Useful Wild Plants of Southern Cantabria (Northern Spain) 1. Economic Botany, 62(1), 24-39. . Package: r-cran-etl Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 253 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-dbi, r-cran-dbplyr, r-cran-downloader, r-cran-fs, r-cran-janitor, r-cran-lubridate, r-cran-readr, r-cran-rlang, r-cran-rvest, r-cran-tibble, r-cran-usethis, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rsqlite, r-cran-rpostgresql, r-cran-rmysql, r-cran-ggplot2, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-etl_0.4.1-1.ca2004.1_all.deb Size: 124680 MD5sum: 1a46ab5ed60419603729632729a6d546 SHA1: 5bf78b43b5cde42dbafe35a84f06be04c5d7884a SHA256: a26a4b8f81ee11be1d2672b0e393d89d04b1c4f1c158066c5f0c09b673067693 SHA512: 11c1e8fa4a295995a84deaba0be008529f9a859815cfa593cbb0f380c1f7b7082f9091480f2b3444709d3c5adbd8afbb1ef3bebd2960c7632a01905086f90763 Homepage: https://cran.r-project.org/package=etl Description: CRAN Package 'etl' (Extract-Transform-Load Framework for Medium Data) A predictable and pipeable framework for performing ETL (extract-transform-load) operations on publicly-accessible medium-sized data set. This package sets up the method structure and implements generic functions. Packages that depend on this package download specific data sets from the Internet, clean them up, and import them into a local or remote relational database management system. Package: r-cran-etlutils Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 286 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ff, r-cran-bit Suggests: r-cran-rsqlite, r-cran-zoo, r-cran-dbi, r-cran-rodbc, r-cran-rjdbc Filename: pool/dists/focal/main/r-cran-etlutils_1.5-1.ca2004.1_all.deb Size: 96808 MD5sum: 11b433bbc0e5e53a88eac0a3df533f82 SHA1: f3964e84fab92031c52bee1fb9612a179be8b58b SHA256: 8bbdfa418dad19254f84ba4839677947ae305a54bc3a4d1ca3973ce74fcee599 SHA512: 32ce0a71484b2646ee47ee165a011a76a0f44184ff51eaf5b0435f7928bab571141feee7e051713d78ed6bec770938ca7c9a3e3fa8d35b45c60518dbd1e40f0c Homepage: https://cran.r-project.org/package=ETLUtils Description: CRAN Package 'ETLUtils' (Utility Functions to Execute Standard Extract/Transform/LoadOperations (using Package 'ff') on Large Data) Provides functions to facilitate the use of the 'ff' package in interaction with big data in 'SQL' databases (e.g. in 'Oracle', 'MySQL', 'PostgreSQL', 'Hive') by allowing easy importing directly into 'ffdf' objects using 'DBI', 'RODBC' and 'RJDBC'. Also contains some basic utility functions to do fast left outer join merging based on 'match', factorisation of data and a basic function for re-coding vectors. Package: r-cran-etma Architecture: all Version: 1.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-etma_1.1-1-1.ca2004.1_all.deb Size: 80696 MD5sum: 618afac75af15d8fd04cba44a33887cf SHA1: 8d084a3931790a8266eb09c59eb0e92b0e837753 SHA256: 14a04ded07e3c7c8610dd08df2bad368ddd631f2a0ae61ffca53168042d4ab2e SHA512: 64b13ad30095990efef120613465fe32785fb4119a438002163f7014cf1cdd91328b73be3a26bbbd161438ca39a2e96bc51d0872c9f825033795b881d74b2743 Homepage: https://cran.r-project.org/package=etma Description: CRAN Package 'etma' (Epistasis Test in Meta-Analysis) Traditional meta-regression based method has been developed for using meta-analysis data, but it faced the challenge of inconsistent estimates. This package purpose a new statistical method to detect epistasis using incomplete information summary, and have proven it not only successfully let consistency of evidence, but also increase the power compared with traditional method (Detailed tutorial is shown in website). Package: r-cran-etrader Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr, r-cran-httr, r-cran-urltools, r-cran-dplyr, r-cran-rvest, r-cran-purrr, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-etrader_0.1.5-1.ca2004.1_all.deb Size: 111460 MD5sum: 5dcfa2bd1e9b1abf04eda91752221036 SHA1: 511b8b79baf58efad6b4387ad965d9551d75f8eb SHA256: c8c02bcb62ae4190a1c8ff73be87a769131f7517eb464fb05e0ba3dbcceb8a33 SHA512: 469c39570c229675b8ea105c68c23a834d7817fa28d6e853c1cf76d1c5127606a7e0ce20116f1281b5c661e66a7875d9241cc2704b59866bccf2ab7ea4201c61 Homepage: https://cran.r-project.org/package=etrader Description: CRAN Package 'etrader' ('ETRADE' API Interface for R) Use R to interface with the 'ETRADE' API . Functions include authentication, trading, quote requests, account information, and option chains. A user will need an ETRADE brokerage account and 'ETRADE' API approval. See README for authentication process and examples. Package: r-cran-etree Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4464 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-braingraph, r-cran-cluster, r-cran-energy, r-cran-fda.usc, r-cran-igraph, r-cran-networkdistance, r-cran-partykit, r-cran-survival, r-cran-tda, r-cran-usedist Suggests: r-cran-knitr, r-cran-mlmetrics, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-etree_0.1.0-1.ca2004.1_all.deb Size: 3179092 MD5sum: 1cd51cf8377a16c02fdda1fdd1c86b4a SHA1: 15df9b0dbe38a204dca4a4f5c40298adc9811c21 SHA256: 3c849967ef7a0907fa388a661181491f8aa2f929137e216c9ba97b403df37b96 SHA512: fe19104fdc81bd3b5aa6337925e71416993ef76ef6db1a4cfc0619b5d6beaa89cfabdcc35b6311e2ff463f56d3e6141b7ed5ba91e31967265223b51633e26c7b Homepage: https://cran.r-project.org/package=etree Description: CRAN Package 'etree' (Classification and Regression with Structured and Mixed-TypeData) Implementation of Energy Trees, a statistical model to perform classification and regression with structured and mixed-type data. The model has a similar structure to Conditional Trees, but brings in Energy Statistics to test independence between variables that are possibly structured and of different nature. Currently, the package covers functions and graphs as structured covariates. It builds upon 'partykit' to provide functionalities for fitting, printing, plotting, and predicting with Energy Trees. Energy Trees are described in Giubilei et al. (2022) . Package: r-cran-etrep Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1906 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rgl, r-cran-shapes, r-cran-morpho, r-cran-matlib, r-cran-rspincalc, r-cran-rotations, r-cran-rvcg, r-cran-fields, r-cran-truncnorm Filename: pool/dists/focal/main/r-cran-etrep_1.2.0-1.ca2004.1_all.deb Size: 1907352 MD5sum: cd7e17f59478edc8a8b9dce76082ea92 SHA1: d206c41b2e0b1c868e17ff63bc9591d5a97970c6 SHA256: c3d7c8eeecbbeb66b104418a0a1325962787784421c784cb1598395e34fbd9d4 SHA512: 76e39eac2bff160d91f0a4d4d95a28e6fcc43e79daf699d2d1e53613df80d8c7c479115dcd83044af6832f02e60a3e2ef0fff3b4cffcf11dbb71cc4143e122e6 Homepage: https://cran.r-project.org/package=ETRep Description: CRAN Package 'ETRep' (Analysis of Elliptical Tubes Under the Relative CurvatureCondition) Analysis of elliptical tubes with applications in biological modeling. The package is based on the references: Taheri, M., Pizer, S. M., & Schulz, J. (2024) "The Mean Shape under the Relative Curvature Condition." arXiv . Mohsen Taheri Shalmani (2024) "Shape Statistics via Skeletal Structures", PhD Thesis, University of Stavanger, Norway . Key features include constructing discrete elliptical tubes, calculating transformations, validating structures under the Relative Curvature Condition (RCC), computing means, and generating simulations. Supports intrinsic and non-intrinsic mean calculations and transformations, size estimation, plotting, and random sample generation based on a reference tube. The intrinsic approach relies on the interior path of the original non-convex space, incorporating the RCC, while the non-intrinsic approach uses a basic robotic arm transformation that disregards the RCC. Package: r-cran-etrm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 918 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-markdown Filename: pool/dists/focal/main/r-cran-etrm_1.0.1-1.ca2004.1_all.deb Size: 708220 MD5sum: cf9fbdcef69a67b85929fefc1c7c0b8a SHA1: e8d3802f98d46f7fdea5879eebc595c3b707ab23 SHA256: a84d98286bf920c7c5cb755bb87850304d480014904f7b720b97e97d68cbd66e SHA512: 55f0e33e370787c1bdf86182b8fba547b70fb7fef49478cf784dbc1cb88250221ae7c8fc41e1d217bd7ae64ae23d6d26eab6645b2e9241534e8817a74734d305 Homepage: https://cran.r-project.org/package=etrm Description: CRAN Package 'etrm' (Energy Trading and Risk Management) Provides a collection of functions to perform core tasks within Energy Trading and Risk Management (ETRM). Calculation of maximum smoothness forward price curves for electricity and natural gas contracts with flow delivery, as presented in F. E. Benth, S. Koekebakker, and F. Ollmar (2007) and F. E. Benth, J. S. Benth, and S. Koekebakker (2008) . Portfolio insurance trading strategies for price risk management in the forward market, see F. Black (1976) , T. Bjork (2009) , F. Black and R. W. Jones (1987) and H. E. Leland (1980) . Package: r-cran-etrunct Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-etrunct_0.1-1.ca2004.1_all.deb Size: 11848 MD5sum: 117faa41a02d79b508a682ca96e5003a SHA1: a4ec112622231f79b10f6ba4ecd11c77d21fc35d SHA256: 363c8dab318d7ab4760bbc8a7f64821786621402665756ec1328649ff4f3929b SHA512: 03ad9521c2b656c6717c5203c8c3d69c22cf573aa6340b4194288b1c805898a1ab735f44403991d3140c5b7afb9070f341f3e3c3fb5aaf18b077473c76bab5ce Homepage: https://cran.r-project.org/package=etrunct Description: CRAN Package 'etrunct' (Computes Moments of Univariate Truncated t Distribution) Computes moments of univariate truncated t distribution. There is only one exported function, e_trunct(), which should be seen for details. Package: r-cran-etwfe Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 466 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fixest, r-cran-data.table, r-cran-formula, r-cran-marginaleffects, r-cran-tinyplot Suggests: r-cran-did, r-cran-broom, r-cran-modelsummary, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-etwfe_0.5.0-1.ca2004.1_all.deb Size: 195524 MD5sum: 666c82c9537d38a20af379cbfc855ee7 SHA1: 0defdea385d317b5aae3498ad0f4130da5d439a0 SHA256: d64a22ebbd5c83c189595acf83314fea660a32bcdf78aea3c30e18ef0e272337 SHA512: 7d60e22704e874224da7802958a8753586b55637b0719ab7300514f1595b587cacff7e0244350a158898759805581acfe61602459e1dfd87927c8460bd3b6094 Homepage: https://cran.r-project.org/package=etwfe Description: CRAN Package 'etwfe' (Extended Two-Way Fixed Effects) Convenience functions for implementing extended two-way fixed effect regressions a la Wooldridge (2021, 2023) , . Package: r-cran-euclideansd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny Filename: pool/dists/focal/main/r-cran-euclideansd_0.1.0-1.ca2004.1_all.deb Size: 22276 MD5sum: 2a4b9f7ea8b6d2e4822fef445c57c0f8 SHA1: 9c19b2661b9882a4d7db94b9a31302490efbeb56 SHA256: 5b59e68e5124e879c13c8abf9ac51080f6e3f59a6521eb0fc9ed6cac95603789 SHA512: 8323e2b69b0a5aa17bb9c3c8499e26022abb771bc8a799bc512c73f13bb3f834025cce3f20019cf1704cf74e6859518400ec3283e760d518a9ec9b524cfc378d Homepage: https://cran.r-project.org/package=EuclideanSD Description: CRAN Package 'EuclideanSD' (An Euclidean View of Center and Spread) Illustrates the concepts developed in Sarkar and Rashid (2019, ISSN:0025-5742) . This package helps a user guess four things (mean, MD, scaled MSD, and RMSD) before they get the SD. 1) The package displays the Empirical Cumulative Distribution Function (ECDF) of the given data. The user must choose the value of the mean by equating the areas of two colored (blue and green) regions. The package gives feedback to improve the choice until it is correct. Alternatively, the reader may continue with a different guess for the center (not necessarily the mean). 2) The user chooses the values of the Mean Deviation (MD) based on the ECDF of the deviations by equating the areas of two newly colored (blue and green) regions, with feedback from the package until the user guesses correctly. 3) The user chooses the Scaled Mean Squared Deviation (MSD) based on the ECDF of the scaled square deviations by equating the areas of two newly colored (blue and green) regions, with feedback from the package until the user guesses correctly. 4) The user chooses the Root Mean Squared Deviation (RMSD) by ensuring that its intersection with the ECDF of the deviations is at the same height as the intersection between the scaled MSD and the ECDF of the scaled squared deviations. Additionally, the intersection of two blue lines (the green dot) should fall on the vertical line at the maximum deviation. 5) Finally, if the mean is chosen correctly, only then the user can view the population SD (the same as the RMSD) and the sample SD (sqrt(n/(n-1))*RMSD) by clicking the respective buttons. If the mean is chosen incorrectly, the user is asked to correct it. Package: r-cran-eudract Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 677 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-httr, r-cran-magrittr, r-cran-patchwork, r-cran-scales, r-cran-tidyr, r-cran-xml2, r-cran-xslt Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-eudract_1.0.4-1.ca2004.1_all.deb Size: 303860 MD5sum: a76bea2b3b45e8bfd7541d4b9004950c SHA1: 9d1c804a66a3ea4f6177af9efe78f3eaf31c3bbe SHA256: 769e292e75c5bc106fadea260c1d9fea8ebb9ffe61340c182bb5387ae8f8fa04 SHA512: 09a76727e6ee4f5c01bfedf2b58782ac88b8302d7712bfa1d95d0cf1650b01db5a047282354a31273905cf5d2e08157b859ff50bb5de761cd05adbab4746cd68 Homepage: https://cran.r-project.org/package=eudract Description: CRAN Package 'eudract' (Creates Safety Results Summary in XML to Upload to EudraCT, orClinicalTrials.gov) The remit of the European Clinical Trials Data Base (EudraCT ), or ClinicalTrials.gov , is to provide open access to summaries of all registered clinical trial results; thus aiming to prevent non-reporting of negative results and provide open-access to results to inform future research. The amount of information required and the format of the results, however, imposes a large extra workload at the end of studies on clinical trial units. In particular, the adverse-event-reporting component requires entering: each unique combination of treatment group and safety event; for every such event above, a further 4 pieces of information (body system, number of occurrences, number of subjects, number exposed) for non-serious events, plus an extra three pieces of data for serious adverse events (numbers of causally related events, deaths, causally related deaths). This package prepares the required statistics needed by EudraCT and formats them into the precise requirements to directly upload an XML file into the web portal, with no further data entry by hand. Package: r-cran-eufmdis.adapt Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 388 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rlang, r-cran-magrittr, r-cran-dplyr, r-cran-tibble, r-cran-tidyselect, r-cran-ggplot2, r-cran-shiny, r-cran-shinydashboard, r-cran-shinywidgets, r-cran-htmltools, r-cran-dt Filename: pool/dists/focal/main/r-cran-eufmdis.adapt_0.1.0-1.ca2004.1_all.deb Size: 209788 MD5sum: a383e3d44680b4207f330d05cd2da380 SHA1: f73bf03833b6f84bf2c6a0fc1a9b4d9acadcece5 SHA256: efc54dd0e834ebb6f8b53467ea76be55caf5343a99dcfc4fb5fcff9dfa45f634 SHA512: 80c80155b0b38fd5a0af7fce4057a021dd7f0c8b118940cd77ed2b146d2d30a8f5527d63438228374e754696ff13f9c2b2c52b7fd506c192dbece966d3751c48 Homepage: https://cran.r-project.org/package=eufmdis.adapt Description: CRAN Package 'eufmdis.adapt' (Analyse 'EuFMDiS' Output Files via a Shiny App) Analyses 'EuFMDiS' output files in a Shiny App. The distributions of relevant output parameters are described in form of tables (quantiles) and plots. 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Includes Seasons 2010/2011 until 2019/2020 and a set of interesting covariates. Can be used all purposes. Package: r-cran-eulerian Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-graph Filename: pool/dists/focal/main/r-cran-eulerian_1.0-1.ca2004.1_all.deb Size: 28696 MD5sum: 1a601d0c6fd0ea3ad4b247a5a2b31d54 SHA1: 5cd0eff9cfcc295ff33739ad7f254ef31dfb78d6 SHA256: a9b0ddcb880a24571e68786e060cdc339aecaa762149164d76f04edb340109ac SHA512: e428fe92d308cbd6366c98d80c0a108317178fe5a5adcffb3fd3201ebf314e74f7b58b2ddece00b40bbfc3ba10516251dd414d85cd5ba34b0f54008dde51c228 Homepage: https://cran.r-project.org/package=eulerian Description: CRAN Package 'eulerian' (eulerian: A package to find eulerian paths from graphs) An eulerian path is a path in a graph which visits every edge exactly once. This package provides methods to handle eulerian paths or cycles. Package: r-cran-eunis.habitats Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2020 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-tibble Filename: pool/dists/focal/main/r-cran-eunis.habitats_0.1.0-1.ca2004.1_all.deb Size: 1743016 MD5sum: 5661ad3ec26f38cd4f0ed0913d499a61 SHA1: 4278c540dcf8195c93855b1901ad4773cd12ef29 SHA256: 3428f0e2e016922c4bed64dfb90f0f80b4c3df7f530b53736d7ee488de8eff54 SHA512: 929086197c3fff504a78135ce61187084a8640df2e70a7cbfb07b51172d6a3ab57d06ba573370bd2da38639de9b675eb4eb83a59f163f45bd8b7cbe9ee0746a4 Homepage: https://cran.r-project.org/package=eunis.habitats Description: CRAN Package 'eunis.habitats' (EUNIS Habitat Classification) The EUNIS habitat classification is a comprehensive pan-European system for habitat identification . This is an R data package providing the EUNIS classification system. The classification is hierarchical and covers all types of habitats from natural to artificial, from terrestrial to freshwater and marine. The habitat types are identified by specific codes, names and descriptions and come with schema crosswalks to other habitat typologies. Package: r-cran-eunomia Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-readr, r-cran-rlang, r-cran-rsqlite, r-cran-dbi, r-cran-arrow, r-cran-commondatamodel Suggests: r-cran-testthat, r-cran-withr, r-cran-duckdb, r-cran-databaseconnector Filename: pool/dists/focal/main/r-cran-eunomia_2.0.0-1.ca2004.1_all.deb Size: 45544 MD5sum: d17a59fe5f0c71bbdf0d3f2439710a24 SHA1: 182a1fb4ff60c809fe310e041d5aa93c5c4fc011 SHA256: 5f1be8cdf286e05b497f7ed364ab5b60832be0daa358059ad268de74a94fdc82 SHA512: f44f97907c80c5ff472aa4ca898cf185f4ee0a173f43cae27f5456803d3a07cb0840d4b59c2e257e3b2245d93470f96d7a5a0ee40a9774188b9d707342c45a28 Homepage: https://cran.r-project.org/package=Eunomia Description: CRAN Package 'Eunomia' (Standard Dataset Manager for Observational Medical OutcomesPartnership Common Data Model Sample Datasets) Facilitates access to sample datasets from the 'EunomiaDatasets' repository (). Package: r-cran-eurlex Architecture: all Version: 0.4.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 419 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-xml2, r-cran-tidyr, r-cran-httr, r-cran-curl, r-cran-rvest, r-cran-rlang, r-cran-stringr, r-cran-pdftools, r-cran-antiword Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tidytext, r-cran-wordcloud, r-cran-purrr, r-cran-ggplot2, r-cran-ggiraph, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eurlex_0.4.8-1.ca2004.1_all.deb Size: 349260 MD5sum: 9f86ae1c694c26378df0a0a4211ff9e5 SHA1: 787c076ae0872303e458a51ef9656686a8433a74 SHA256: c8d1ff46f61b9463caae5c1c9fa8785919617048b59b8fba059382aad709bc5d SHA512: bd04746bce95144bf38c2d6b09c30be341166a963508ef2515677f64d8b8abfd5296e10a053ff88ff222d62bd3b8c8dbbbf0866619335f682f15a763919d4c9c Homepage: https://cran.r-project.org/package=eurlex Description: CRAN Package 'eurlex' (Retrieve Data on European Union Law) Access to data on European Union laws and court decisions made easy with pre-defined 'SPARQL' queries and 'GET' requests. See Ovadek (2021) . Package: r-cran-eurocordexr Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1767 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-magrittr, r-cran-ncdf4, r-cran-ncdf4.helpers, r-cran-rnetcdf, r-cran-fs, r-cran-pcict, r-cran-lubridate Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-eurocordexr_0.2.5-1.ca2004.1_all.deb Size: 752776 MD5sum: 99ceee00fd35fcd956e6658a60dd4ea9 SHA1: 910f0c14a71570de4f8e64c4f363f3b88a0c9690 SHA256: 5f5a12cbe1edaf7dc2d7977ad2fb453a6e085ebda04460c8475b382e71bba3af SHA512: df6cecbe6ec5cbaa01c9bf750504086727c2c41c06117ff7bf92e3063ad1311f659b014fa2fa8a5783788a6000733ca7d68a73a31940315e6748439ef466a218 Homepage: https://cran.r-project.org/package=eurocordexr Description: CRAN Package 'eurocordexr' (Makes it Easier to Work with Daily 'netCDF' from EURO-CORDEXRCMs) Daily 'netCDF' data from e.g. regional climate models (RCMs) are not trivial to work with. This package, which relies on 'data.table', makes it easier to deal with large data from RCMs, such as from EURO-CORDEX (, ). It has functions to extract single grid cells from rotated pole grids as well as the whole array in long format. Can handle non-standard calendars (360, noleap) and interpolate them to a standard one. Potentially works with many CF-conform 'netCDF' files. Package: r-cran-euroleaguer Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3298 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-httr, r-cran-jsonlite, r-cran-lubridate, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-euroleaguer_0.2.0-1.ca2004.1_all.deb Size: 3232012 MD5sum: 9990da3b60d4ef1d89df1b133ac12aec SHA1: 974868fa3829d62db8f75bb2c5aefc5e95a07243 SHA256: 74711a60462f6421c7c686369127b11a4efce52ff3dcda3fe49b070caf27ceee SHA512: 3a97c902905346abb26b2d6e786a7f5dc8b4feb62304340b063ac10f7b877ff09466986bcc3fa3ce4cbd7793a79f7bb531ce89f4010640dd269fb1259aa5ccde Homepage: https://cran.r-project.org/package=euroleaguer Description: CRAN Package 'euroleaguer' ('Euroleague basketball API') Unofficial API wrapper for 'Euroleague' and 'Eurocup' basketball API (), it allows to retrieve real-time and historical standard and advanced statistics about competitions, teams, players and games. Package: r-cran-euronext Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 289 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-magrittr, r-cran-stringr, r-cran-jsonlite, r-cran-rlang, r-cran-rvest, r-cran-httr2, r-cran-xts, r-cran-dplyr, r-cran-flextable, r-cran-highcharter Suggests: r-cran-lubridate Filename: pool/dists/focal/main/r-cran-euronext_2.0.2-1.ca2004.1_all.deb Size: 256252 MD5sum: d2e5deacf7edbf5c12318f0561b1c800 SHA1: 54193ccf9567c225fa0de368be611033776555b6 SHA256: b65cf934e2168112ee09f55bedb770355597d41a6a752a4ac576c3434e8467a0 SHA512: 9d0d09ede80de03f18271fcc9a447d68f068ca07f1003f42314c82090f926491be850e515817d2eacc645ad57b49ba97e37672cf8a9ae952f8677eb508ab32cb Homepage: https://cran.r-project.org/package=Euronext Description: CRAN Package 'Euronext' (Retrieve Historical Data of Companies Listed on the 'Euronext'Stock Exchange) Provides seamless access to historical data of companies listed on the 'Euronext' Stock Exchange (), enabling users to retrieve real-time information directly within the R environment. With functions tailored for data retrieval and manipulation, users can effortlessly access a wide range of financial data, including stock prices, trading volumes, and more. Leveraging the power of R, this package facilitates efficient analysis and visualization of stock market trends, aiding investors, analysts, and researchers in making informed decisions. By combining ease of use with comprehensive data access, 'Euronext' empowers R users to delve deep into the dynamics of European financial markets, offering valuable insights for various financial applications. Package: r-cran-europeanar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-rdpack Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-europeanar_0.1.0-1.ca2004.1_all.deb Size: 52588 MD5sum: ad3330a07362ae694c0304e1a045dd9c SHA1: 288976e86d3407cf3f3b64e2d3dbc21c8cabff51 SHA256: f72cf898ae2dd2f9cd6f08054781899de3d3f3cfad3edc196cdb2a33fa34a34b SHA512: 1b76d8c9a07f05b5028e49c2f7094ea5d6071ed3fe850ebf0c38a9616d84aa4069119189b51a799ae92d50d0b8b6e9c25fcb88686711eb20dd5bff6454415a1e Homepage: https://cran.r-project.org/package=europeanaR Description: CRAN Package 'europeanaR' (Interact with Metadata Records and Media on the EuropeanaRepository) Interact with the Europeana Data Model via a variety of API endpoints that contains digital collections from thousands of institutions around Europe. This translates to millions of Cultural Heritage Objects in the form of image, text, video, sound and 3D, accompanied by rich metadata. The Data Model design principles are based on the core principles and best practices of the Semantic Web and Linked Data efforts to which Europeana contributes (see, e.g., Doerr, Martin, et al. The europeana data model (edm). World Library and Information Congress: 76th IFLA general conference and assembly. Vol. 10. 2010.). The package also provides methods for bulk downloads of specific subsets of items, including both their metadata and their associated media files. Package: r-cran-europepmc Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 785 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-plyr, r-cran-dplyr, r-cran-progress, r-cran-urltools, r-cran-purrr, r-cran-xml2, r-cran-tibble, r-cran-tidyr, r-cran-rlang Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-europepmc_0.4.3-1.ca2004.1_all.deb Size: 422832 MD5sum: fe3906d826c76ec5aa5fb9bc434d3009 SHA1: fe7db1e7ee79d1a93051814335e96c0a09a0c6af SHA256: a983c94ad68eda2d19104304a464bf2ea9e950e6006c6dbacc5b478b5a0361fb SHA512: 0536d0a3ad9565548dbe5214cc3ff73c0e509fd226d3ded15cbee3d5bffdcaf9043b2af42c1a2d66d64eeb54b01c069e040d8aee45ea01fda03c37a6b51ded1f Homepage: https://cran.r-project.org/package=europepmc Description: CRAN Package 'europepmc' (R Interface to the Europe PubMed Central RESTful Web Service) An R Client for the Europe PubMed Central RESTful Web Service (see for more information). It gives access to both metadata on life science literature and open access full texts. Europe PMC indexes all PubMed content and other literature sources including Agricola, a bibliographic database of citations to the agricultural literature, or Biological Patents. In addition to bibliographic metadata, the client allows users to fetch citations and reference lists. Links between life-science literature and other EBI databases, including ENA, PDB or ChEMBL are also accessible. No registration or API key is required. See the vignettes for usage examples. Package: r-cran-europop Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-tidyr, r-cran-readr Filename: pool/dists/focal/main/r-cran-europop_0.3.1-1.ca2004.1_all.deb Size: 26668 MD5sum: 07eb9f2a610f4cabe09fcf2a63b7859a SHA1: 700bc42746349adcf404b59870713fafbda6fc18 SHA256: 59e90f6b707888fac6e3b2065939b5e47d46729db85f7a34f221ffcb584228f2 SHA512: 16b94c684056c888bfe0173610291757a751064ea24f94e0ba946ef13facdb156b20e186e8f99d331d2ee05ce0c7259b8556696cdc593400bb4dd36d66a3b82f Homepage: https://cran.r-project.org/package=europop Description: CRAN Package 'europop' (Historical Populations of European Cities, 1500-1800) This dataset contains population estimates of all European cities with at least 10,000 inhabitants during the period 1500-1800. These data are adapted from Jan De Vries, "European Urbanization, 1500-1800" (1984). Package: r-cran-eurosarcbayes Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 876 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-vgam, r-cran-data.table, r-cran-plyr, r-cran-clinfun Filename: pool/dists/focal/main/r-cran-eurosarcbayes_1.1-1.ca2004.1_all.deb Size: 354224 MD5sum: 7a5c9b7610b472eb042f9c64a8d7edd9 SHA1: bb4d7507b70ad0459413467743be0442bd00cf3a SHA256: 3fc39858535f88505cbcd24634bd2993d6c9de82c43d2bfade06b2471768ad1a SHA512: 321dca8f6b53be53c754ce578576379e7227a8ddeb7566b3df238827652ac49d3fc0529f90fc1aa59b9500754862e740a5c5ed305d2da066685c36abbaf35367 Homepage: https://cran.r-project.org/package=EurosarcBayes Description: CRAN Package 'EurosarcBayes' (Bayesian Single Arm Sample Size Calculation Software) Bayesian sample size calculation software and examples for EuroSARC clinical trials which utilise Bayesian methodology. 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Random number generation and density functions for the GEVr distribution. Profile likelihood for return level estimation using the GEVr and Generalized Pareto distributions. P-value adjustments for sequential, multiple testing error control. Non-stationary fitting of GEVr and GPD. Bader, B., Yan, J. & Zhang, X. (2016) . Bader, B., Yan, J. & Zhang, X. (2018) . 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Two references describe the methodology: Fahimeh Nezhadmoghadam, and Jose Tamez-Pena (2021), and Fahimeh Nezhadmoghadam, et al.(2021). Package: r-cran-evalest Architecture: all Version: 2024.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 318 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tfplot, r-cran-dse, r-cran-setrng, r-cran-tframe Filename: pool/dists/focal/main/r-cran-evalest_2024.2-1-1.ca2004.1_all.deb Size: 219288 MD5sum: 59b247e2f843a9e4b515e3363a02b280 SHA1: c320af55ebdd89a1f1b77149d3eb2294e95fcebf SHA256: e67258ce6498cdfe9536a0e99c13c0eb7a51a063fac7c4efe03340f3ae3b8457 SHA512: c905ed50fc702ad8a4321ce447f8ef6162fabcb58a19d8f18f09d995e9556e0c76645c4d975979324094476a11042964816c67e6de126c150c88560933094e21 Homepage: https://cran.r-project.org/package=EvalEst Description: CRAN Package 'EvalEst' (Dynamic Systems Estimation - Extensions) Provides functions for evaluating (time series) model estimation methods. 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(2015) . Package: r-cran-evaluationmeasures Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-evaluationmeasures_1.1.0-1.ca2004.1_all.deb Size: 56192 MD5sum: 4355e452062fc5dca96a37ce88bb14a3 SHA1: be2927990ff3f1f55526c90ce6313e1ba7327706 SHA256: 50dad0464ba832c729b680fa7b12e5c99824dcb8e9398632ba77c0ff0a67a3fa SHA512: 52edf800c15a5ed34186942670bb3d34d28a1e7131d731d33a2bdceb1524a76556627701f81ab0c76ba59feda9cf6bf7a313d196f4b31dfe7c61743af5fedf7f Homepage: https://cran.r-project.org/package=EvaluationMeasures Description: CRAN Package 'EvaluationMeasures' (Collection of Model Evaluation Measure Functions) Provides Some of the most important evaluation measures for evaluating a model. Just by giving the real and predicted class, measures such as accuracy, sensitivity, specificity, ppv, npv, fmeasure, mcc and ... will be returned. Package: r-cran-evalue Architecture: all Version: 4.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4238 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-metafor, r-cran-metadat, r-cran-boot, r-cran-metautility, r-cran-dplyr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-evalue_4.1.3-1.ca2004.1_all.deb Size: 831828 MD5sum: 12b604776ab208d0e9b05cbdf961dc7f SHA1: ba3506361373e927202bbe3f3081cb8319de07f5 SHA256: 71aaeb464a76be9aa5d1470545bc3b682714cb2a10a823e795a5cbc12137e815 SHA512: 3fe97bb6760cee168b4632494e27bbf376598cbc4ec2d47fcc9b4335e7533d784140878fe795bd195ee98dbfc249316ac25c3fa52ca5af834e91771edcae3fab Homepage: https://cran.r-project.org/package=EValue Description: CRAN Package 'EValue' (Sensitivity Analyses for Unmeasured Confounding and Other Biasesin Observational Studies and Meta-Analyses) Conducts sensitivity analyses for unmeasured confounding, selection bias, and measurement error (individually or in combination; VanderWeele & Ding (2017) ; Smith & VanderWeele (2019) ; VanderWeele & Li (2019) ; Smith & VanderWeele (2021) ). 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'evapoRe' enables users to download, validate, visualize, and analyze multi-source ET data across various spatio-temporal scales. Also, the package offers calculation methods for estimating potential ET (PET), including temperature-based, combined type, and radiation-based approaches described in : Oudin et al., (2005) . 'evapoRe' supports hydrological modeling, climate studies, agricultural research, and other data-driven fields by facilitating access to ET data and offering powerful analysis capabilities. Users can seamlessly integrate the package into their research applications and explore diverse ET data at different resolutions. Package: r-cran-evapotranspiration Architecture: all Version: 1.16-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 619 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-zoo Filename: pool/dists/focal/main/r-cran-evapotranspiration_1.16-1.ca2004.1_all.deb Size: 583952 MD5sum: f691f99502686d59b4e94ff67a7a7411 SHA1: c1289395847c3589de02adc851d5b92d87d0f26b SHA256: 9bdfc0351c6f7f31cb0a011dd907b5936a9030f868eb039c596cf2f8390c3caf SHA512: 1344c3f57b786d7ccabdf81012219d60cfa9607f8e7582b74cdfcadb62e7a0491a0c0fa74d6fdaf00749f440205943f4a592d720a2c03cea3f81ede5540b8bc1 Homepage: https://cran.r-project.org/package=Evapotranspiration Description: CRAN Package 'Evapotranspiration' (Modelling Actual, Potential and Reference CropEvapotranspiration) Uses data and constants to calculate potential evapotranspiration (PET) and actual evapotranspiration (AET) from 21 different formulations including Penman, Penman-Monteith FAO 56, Priestley-Taylor and Morton formulations. Package: r-cran-evchargcost Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-cowplot Filename: pool/dists/focal/main/r-cran-evchargcost_0.1.0-1.ca2004.1_all.deb Size: 23068 MD5sum: 6b2e599556174ea2ec78c5a8cfeff840 SHA1: 5ba3bb6fa6d16d46eeb6e1bdbfc7ee18f80967c4 SHA256: cb91446eb65ba9a1bead4671fa99602fb2fc478c524f2370300bd850c2b75030 SHA512: f280dbbafdce14ac36248470d78a3145ff19b05d164909dc5d44062cd7623398c314d033e1f9bb2bf4e415ce7f1908a50c35a6a6322fec7eac3677711f53a308 Homepage: https://cran.r-project.org/package=EVchargcost Description: CRAN Package 'EVchargcost' (Computes and Plot the Optimal Charging Strategy for ElectricVehicles) The purpose of this library is to compute the optimal charging cost function for a electric vehicle (EV). It is well known that the charging function of a EV is a concave function that can be approximated by a piece-wise linear function, so bigger the state of charge, slower the charging process is. Moreover, the other important function is the one that gives the electricity price. This function is usually step-wise, since depending on the time of the day, the price of the electricity is different. Then, the problem of charging an EV to a certain state of charge is not trivial. This library implements an algorithm to compute the optimal charging cost function, that is, it plots for a given state of charge r (between 0 and 1) the minimum cost we need to pay in order to charge the EV to that state of charge r. The details of the algorithm are described in González-Rodríguez et at (2023) . Package: r-cran-evclass Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 468 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fnn, r-cran-ibelief, r-cran-r.utils Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-nnet Filename: pool/dists/focal/main/r-cran-evclass_2.0.2-1.ca2004.1_all.deb Size: 318700 MD5sum: 89493065cfa46feb3b5b3fd75c6156c9 SHA1: 215883097712359616c59c21187ccf5bc255d37c SHA256: 6ab6c2cade204feb4d4f873507413615ef0f8601f6628db1e8bce599e581d0d7 SHA512: 03046751498fb6efcb9589b4ab74cc27cad3d517895c4f104c02f9485efaad93c9cd1046b8bccd69791aec9230290a3e2b08250c3df1785e2124dbe5d049baac Homepage: https://cran.r-project.org/package=evclass Description: CRAN Package 'evclass' (Evidential Distance-Based Classification) Different evidential classifiers, which provide outputs in the form of Dempster-Shafer mass functions. The methods are: the evidential K-nearest neighbor rule, the evidential neural network, radial basis function neural networks, logistic regression, feed-forward neural networks. Package: r-cran-evclust Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3109 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fnn, r-cran-r.utils, r-cran-limsolve, r-cran-matrix, r-cran-mclust, r-cran-quadprog, r-cran-plyr Suggests: r-cran-kernlab, r-cran-mass Filename: pool/dists/focal/main/r-cran-evclust_2.0.3-1.ca2004.1_all.deb Size: 2962008 MD5sum: 654a83a172c91deaf545a1530bf5e1bf SHA1: c149249a75d66cd0df60d8cb3c77a9248a883f21 SHA256: 4b89c311070483f141a9125861dc3d06de7a4f10c54998069fd24a88e4e147bb SHA512: 728d3a976041353e44982169349f7adf05f29e3027c9bbdcbdf85083a54a2e63a6e5329b987fac8c2f90ed75e0a3c98693bd2813c75c847e2e1ac8d27b8b0a69 Homepage: https://cran.r-project.org/package=evclust Description: CRAN Package 'evclust' (Evidential Clustering) Various clustering algorithms that produce a credal partition, i.e., a set of Dempster-Shafer mass functions representing the membership of objects to clusters. The mass functions quantify the cluster-membership uncertainty of the objects. The algorithms are: Evidential c-Means, Relational Evidential c-Means, Constrained Evidential c-Means, Evidential Clustering, Constrained Evidential Clustering, Evidential K-nearest-neighbor-based Clustering, Bootstrap Model-Based Evidential Clustering, Belief Peak Evidential Clustering, Neural-Network-based Evidential Clustering. Package: r-cran-evcombr Architecture: all Version: 0.1-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-evcombr_0.1-4-1.ca2004.1_all.deb Size: 131028 MD5sum: 124f00eb983c80ba61134932e88a411d SHA1: df99e4326ecbf07d10c83a7a743e0cd6921eaaf9 SHA256: e284fd4352a57a497d6e865639d6fab7b112d4186661b04b539dd1d403a596d9 SHA512: 3a707728606f27da4d30dd67722017d4a40f906ea379260ea3d2da639a6aa8100fb3336973608a70d118f2ce0f7bb40471c2e4932de02e44998a625dab847498 Homepage: https://cran.r-project.org/package=EvCombR Description: CRAN Package 'EvCombR' (Evidence Combination in R) Combine pieces of evidence in the form of uncertainty representations. Package: r-cran-evenbreak Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 355 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-combinat Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-evenbreak_1.0-1.ca2004.1_all.deb Size: 268932 MD5sum: 60a6bb666e7effb793ee1681a63f23f5 SHA1: 5106e0c6b40fa89d6dfdce414b41e7bfd6e9a6cd SHA256: 3d6de6a93d0cc55714064f0ff4187d95b4c64ca361e210482114a9e2f68ea9f6 SHA512: 4d8e46f9828c8d05d28a633d969ab91d6d5942ef69be9554bc7340ab6748c4272fa18f6d4b9a32da6bff93c4d25caea937b5fcd08bdfd4cb989fb18fb00fbbc4 Homepage: https://cran.r-project.org/package=evenBreak Description: CRAN Package 'evenBreak' (A Posteriori Probs of Suits Breaking Evenly Across Four Hands) We quantitatively evaluated the assertion that says if one suit is found to be evenly distributed among the 4 players, the rest of the suits are more likely to be evenly distributed. Our mathematical analyses show that, if one suit is found to be evenly distributed, then a second suit has a slightly elevated probability (ranging between 10% to 15%) of being evenly distributed. If two suits are found to be evenly distributed, then a third suit has a substantially elevated probability (ranging between 30% to 50%) of being evenly distributed.This package refers to methods and authentic data from Ely Culbertson , Gregory Stoll , and details of performing the probability calculations from Jeremy L. Martin , Emile Borel and Andre Cheron (1954) "The Mathematical Theory of Bridge",Antonio Vivaldi and Gianni Barracho (2001, ISBN:0 7134 8663 5) "Probabilities and Alternatives in Bridge", Ken Monzingo (2005) "Hand and Suit Patterns" Ken Monzingo (2005) "Hand and Suit Patterns" . Package: r-cran-eventdatar Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2642 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-eventdatar_0.3.1-1.ca2004.1_all.deb Size: 1341348 MD5sum: d42b2e0957c242fc4441933870f8d600 SHA1: a2e1fbe510cc52948d39447be2e7b1aae138ed8d SHA256: d5b444423a86b7069985b609446ad9a087f21ffba337153ba7b9602e181933ba SHA512: 9f27833d3fa36d19e7230ac2efa9617c989790b98a06e5e7193570ed6f21a67fb18e25c9a3ecd48fad99fd328da55299e9f6c02d180738f2836c019b0519652a Homepage: https://cran.r-project.org/package=eventdataR Description: CRAN Package 'eventdataR' (Event Data Repository) Event dataset repository including both real-life and artificial event logs. They can be used in combination with functionalities provided by the 'bupaR' packages. Janssenswillen et al. (2020) . 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Package: r-cran-eventdetectr Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2382 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-imputets, r-cran-forecast, r-cran-ggplot2, r-cran-gridextra, r-cran-neuralnet Suggests: r-cran-testthat, r-cran-caret, r-cran-e1071 Filename: pool/dists/focal/main/r-cran-eventdetectr_0.3.5-1.ca2004.1_all.deb Size: 1425212 MD5sum: 2e8efa868fc17cb9aec5f79e4ceefb08 SHA1: f2a1b589c6a2050da788f391b8b1f6fad43f232f SHA256: 9b8b6ed3c18d2160468fd2dee6498d9b9f1a38ea3442285b614c39b9b295d3df SHA512: f008ee08c80155efce7a97e57fc87c6a605247123db38a1bc6739ba9070a6d8137b1863e05ef8100c63ab8ce9cddf266b549857009fbb008686a03b37dfefdb5 Homepage: https://cran.r-project.org/package=EventDetectR Description: CRAN Package 'EventDetectR' (Event Detection Framework) Detect events in time-series data. Combines multiple well-known R packages like 'forecast' and 'neuralnet' to deliver an easily configurable tool for multivariate event detection. Package: r-cran-eventinterval Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-eventinterval_1.3-1.ca2004.1_all.deb Size: 36888 MD5sum: a92d3fdeb0310798b5de236905b4107f SHA1: 1b5d841d4274c865ad62f6a609ca93165718d06c SHA256: 971ae56110e10f02885c04fd063e5d90234a58dd924cb4a66ee17e0136941b02 SHA512: ded22a925d2ce9fbc92cfaf7a709b7134786e033ad5747861c1aa360d96e44abd3ce0ca69be33534ba254db2ba7ae533a5e99945d0d2c23e6b92f5e71563a553 Homepage: https://cran.r-project.org/package=eventInterval Description: CRAN Package 'eventInterval' (Sequential Event Interval Analysis) Functions for analysis of rate changes in sequential events. 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Package: r-cran-eventr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-eventr_1.0.0-1.ca2004.1_all.deb Size: 60732 MD5sum: 7fdc3dedbd487a99eeefe46e3ee59415 SHA1: 88d478bede5e1cf9788eb886606b1ae56877e5d9 SHA256: 4d044d1b211899b2b4097874c3b16b10900618a7a1153e8f96d1ed7b688d55e1 SHA512: db4aff4e34cca5256215b00a9baa56a06f58cc4b75fa5a02879a4e10d6bd98e21b2588d030346f80d00943c4a5e971839a912b66bfffb5489dbe1e1296a2137f Homepage: https://cran.r-project.org/package=eventr Description: CRAN Package 'eventr' (Create Event Based Data Architectures) Event-driven programming is a programming paradigm where the flow of execution is defined by event. In this paradigm an event can be defined as "a change in the state" of an object. 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Package: r-cran-eventstream Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4555 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-abind, r-cran-tensora, r-cran-glmnet, r-cran-dbscan, r-cran-mass, r-cran-changepoint, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-eventstream_0.1.1-1.ca2004.1_all.deb Size: 4541932 MD5sum: a194a0e880c736e2d35823555948abdb SHA1: ebfd39946f91223a0e02fcc05895c3a274eeea28 SHA256: 16655ceb97bbe826a8a1e33bf0106528a7f7f5a556bbee61907cd95f7e9a9bc0 SHA512: 8b817ddaf2e5ae6ceddb4d2c8addbccbe58d79b177c5e2f8a01bf117e6cd07c87e8d7c2c8a860dd47b6bfde17a3223bb3b9568736ff81c13119eb804c4a9e73d Homepage: https://cran.r-project.org/package=eventstream Description: CRAN Package 'eventstream' (Streaming Events and their Early Classification) Implements event extraction and early classification of events in data streams in R. It has the functionality to generate 2-dimensional data streams with events belonging to 2 classes. These events can be extracted and features computed. The event features extracted from incomplete-events can be classified using a partial-observations-classifier (Kandanaarachchi et al. 2018) . 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Package: r-cran-eventstudyr Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 310 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-car, r-cran-data.table, r-cran-dplyr, r-cran-estimatr, r-cran-ggplot2, r-cran-mass, r-cran-rlang, r-cran-pracma, r-cran-stringr Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eventstudyr_1.1.3-1.ca2004.1_all.deb Size: 234640 MD5sum: 63fb3740390de68774b4efb95dce0851 SHA1: d0942c78f93a099a0fbe5a87477ca08acf85fbc6 SHA256: 668b93dc35e3d0aa45955accb0ce4ca360d7618263d0643daf99b4dda5726dfd SHA512: 5f262e9418598b291b0dc4282129a9b5c1d2f2dde56e437d6129d430b6e42ebebaf051fa9c4aa971211ade0a1b2c5557b0a4ef6bf143abce266c4e2e380bcefb Homepage: https://cran.r-project.org/package=eventstudyr Description: CRAN Package 'eventstudyr' (Estimation and Visualization of Linear Panel Event Studies) Estimates linear panel event study models. Plots coefficients following the recommendations in Freyaldenhoven et al. (2021) . Includes sup-t bands, testing for key hypotheses, least wiggly path through the Wald region. Allows instrumental variables estimation following Freyaldenhoven et al. (2019) . Package: r-cran-eventtrack Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 307 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-muhaz Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rpact, r-cran-fitdistrplus, r-cran-gestate Filename: pool/dists/focal/main/r-cran-eventtrack_1.0.4-1.ca2004.1_all.deb Size: 119728 MD5sum: fa3c43f122e5692f01e7159b774a0c07 SHA1: 2fb566253c4dca23fdb59197542a99c88305202a SHA256: 4d0942ff56ae31106bb1c499ae932a0ac5c7995a5ee896bcf6f172c07d6418bc SHA512: 785c3df86f213985ed97dd960baeff29c61cd125f6aa0ad480f0924c48870e5e89f2f29936a23aa07415ff6e4ef5eb120cafa3f128f8a89baf6fdca0486bd0e5 Homepage: https://cran.r-project.org/package=eventTrack Description: CRAN Package 'eventTrack' (Event Prediction for Time-to-Event Endpoints) Implements the hybrid framework for event prediction described in Fang & Zheng (2011, ). To estimate the survival function the event prediction is based on, a piecewise exponential hazard function is fit to the time-to-event data to infer the potential change points. Prior to the last identified change point, the survival function is estimated using Kaplan-Meier, and the tail after the change point is fit using piecewise exponential. Package: r-cran-eventwinratios Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-eventwinratios_1.0.0-1.ca2004.1_all.deb Size: 101480 MD5sum: ce1498b58c7d2028d86dbc058d6c5264 SHA1: 775c4b9b7a299d55a469c22f35720bb6d0da6dff SHA256: 509ccc24215267af8a0410c6d6d19b04b0bb49a8d19ad59cc4beb03f9be4d1a3 SHA512: bd073a770ace078a33eae88fc13f677bca746425f8305f4d5f5c1029111a997b57a90c3b0b37b52b1870ea0306fbf14b2693ea0749f3e44a2d8e1d6f1006589d Homepage: https://cran.r-project.org/package=EventWinRatios Description: CRAN Package 'EventWinRatios' (Event-Specific Win Ratios for Terminal and Non-Terminal Events) Provides several confidence interval and testing procedures using event-specific win ratios for semi-competing risks data with non-terminal and terminal events, as developed in Yang et al. (2021). Compared with conventional methods for survival data, these procedures are designed to utilize more data for improved inference procedures with semi-competing risks data. The event-specific win ratios were introduced in Yang and Troendle (2021). In this package, the event-specific win ratios and confidence intervals are obtained for each event type, and several testing procedures are developed for the global null of no treatment effect on either terminal or non-terminal events. Furthermore, a test of proportional hazard assumptions, under which the event-specific win ratios converge to the hazard ratios, and a test of equal hazard ratios are provided. For summarizing the treatment effect on all events, confidence intervals for linear combinations of the event-specific win ratios are available using pre-determined or data-driven weights. Asymptotic properties of these inference procedures are discussed in Yang et al (2021). Also, transformations are used to yield better control of the type one error rates for moderately sized data sets. Package: r-cran-evi Architecture: all Version: 0.2.0-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-cowplot Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-evi_0.2.0-0-1.ca2004.1_all.deb Size: 89560 MD5sum: 7cfc1e764ead5b33681f45336994eba5 SHA1: 2634a3af1b49c53a3ada0d3824cae74a75159417 SHA256: 0d25f6f86b0ee47201b177b0f86743b36a6a3f12459ac96a6b89151965eed74c SHA512: 2bfa85d49c88d7a54406ecca600bc6b3010c386c145f83426ec9bf3c5d2a898c8b60039383eaad3706b8a0b99a741896860b1f2637d417d6db9220af7c1b88a1 Homepage: https://cran.r-project.org/package=EVI Description: CRAN Package 'EVI' (Epidemic Volatility Index as an Early-Warning Tool) This is an R package implementing the epidemic volatility index (EVI), as discussed by Kostoulas et. al. (2021) and variations by Pateras et. al. (2023). EVI is a new, conceptually simple, early warning tool for oncoming epidemic waves. EVI is based on the volatility of newly reported cases per unit of time, ideally per day, and issues an early warning when the volatility change rate exceeds a threshold. 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N., & Rohde, C. (2010) . Strug, L. J., & Hodge, S. E. (2006) . Royall, R. (1997) . Package: r-cran-evidence Architecture: all Version: 0.8.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 284 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstan, r-cran-rstanarm, r-cran-loo, r-cran-lattice, r-cran-learnbayes, r-cran-laplacesdemon Filename: pool/dists/focal/main/r-cran-evidence_0.8.10-1.ca2004.1_all.deb Size: 234792 MD5sum: 76a9ef76651e230f7afaf38bf8642d09 SHA1: 231b25f46c4eb136de6f8b2c1dcf566aa3a48f6d SHA256: a50edcb34125119760c8f19369ad06862860d6ca8c67c3f5c102722ebab549d2 SHA512: b5be82f07c99eddc417d4925bea2f92800974380423963f4df815fba05b0dfcbf52cbb367f9018dc2a343961d529100af1bfa0647863d6230ab10192eac81f08 Homepage: https://cran.r-project.org/package=evidence Description: CRAN Package 'evidence' (Analysis of Scientific Evidence Using Bayesian and LikelihoodMethods) Bayesian (and some likelihoodist) functions as alternatives to hypothesis-testing functions in R base using a user interface patterned after those of R's hypothesis testing functions. See McElreath (2016, ISBN: 978-1-4822-5344-3), Gelman and Hill (2007, ISBN: 0-521-68689-X) (new edition in preparation) and Albert (2009, ISBN: 978-0-387-71384-7) for good introductions to Bayesian analysis and Pawitan (2002, ISBN: 0-19-850765-8) for the Likelihood approach. The functions in the package also make extensive use of graphical displays for data exploration and model comparison. Package: r-cran-evidencefactors Architecture: all Version: 1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sensitivitymv Filename: pool/dists/focal/main/r-cran-evidencefactors_1.8-1.ca2004.1_all.deb Size: 46676 MD5sum: a8f7d2dd0cc6f6a9b7d70807c9fdeb60 SHA1: 40e7185e902aac295c7ce5eafdfe748d421d980d SHA256: ed12642571c4a683e02f0b517b5caa8f59ff73ac6e0a13c32c6a150c7c20733c SHA512: 3fff0c5f4ffa187a088947794d660e8059f2ad23f90fe141c54ae0325ac0963df37df53ae3d42d86f00a710f609ddecbefbd487f307fbf144d57fb9ba3b6d922 Homepage: https://cran.r-project.org/package=evidenceFactors Description: CRAN Package 'evidenceFactors' (Reporting Tools for Sensitivity Analysis of Evidence Factors inObservational Studies) Provides tools for integrated sensitivity analysis of evidence factors in observational studies. When an observational study allows for multiple independent or nearly independent inferences which, if vulnerable, are vulnerable to different biases, we have multiple evidence factors. This package provides methods that respect type I error rate control. Examples are provided of integrated evidence factors analysis in a longitudinal study with continuous outcome and in a case-control study. Karmakar, B., French, B., and Small, D. S. (2019). 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Allows for normal and non-normal approximations of the data-site likelihood of the effect parameter. Package: r-cran-evident Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-sensitivity2x2xk, r-cran-sensitivitymult, r-cran-sensitivitymv, r-cran-senstrat, r-cran-dos2 Filename: pool/dists/focal/main/r-cran-evident_1.0.4-1.ca2004.1_all.deb Size: 113308 MD5sum: c1dd3927bc29d325f8ae131c07443aa7 SHA1: 866de64831bab53a535dc8c83dd06cdead36e5c3 SHA256: 33c62aa2edb2e228fd2c01af3449bb4e8a0a89679b7fa93d164411beae818595 SHA512: 34f19b90a22c2e3f4419d456d121c853307cc126002274b7a0eabc941c55d077c75369afcc58b3bfc0454303067987dce00efd84b9804dd2a56c4c914ea07c2c Homepage: https://cran.r-project.org/package=evident Description: CRAN Package 'evident' (Evidence Factors in Observational Studies) Contains a collection of examples of evidence factors in observational studies from the book Replication and Evidence Factors in Observational Studies by Paul R. 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Package: r-cran-evmix Architecture: all Version: 2.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4998 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-gsl, r-cran-sparsem Filename: pool/dists/focal/main/r-cran-evmix_2.12-1.ca2004.1_all.deb Size: 4829512 MD5sum: 8a6e3198673a6f8c227cd0a8a542643c SHA1: 8f936e1af379e7323d85123e5c8bd269407a236e SHA256: 152cd5ffd89a96e3916de91e6b885ca199d744d2c83f9ec17cd7fee6d5219835 SHA512: c9226b3948c988cb6ce97a789df712e1ea78b25fbf298cf9fdc2473581bee91a21b021156204a5ba41f82ab880fae97cfee5e6ff0e7412782cef4a76aa38d1ac Homepage: https://cran.r-project.org/package=evmix Description: CRAN Package 'evmix' (Extreme Value Mixture Modelling, Threshold Estimation andBoundary Corrected Kernel Density Estimation) The usual distribution functions, maximum likelihood inference and model diagnostics for univariate stationary extreme value mixture models are provided. Kernel density estimation including various boundary corrected kernel density estimation methods and a wide choice of kernels, with cross-validation likelihood based bandwidth estimator. Reasonable consistency with the base functions in the 'evd' package is provided, so that users can safely interchange most code. 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Wright-Fisher, phylogenetic tree, and statistical distribution Shiny interactive simulations for use in teaching. Package: r-cran-evolmap Architecture: all Version: 1.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1906 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite, r-cran-curl, r-cran-sf Filename: pool/dists/focal/main/r-cran-evolmap_1.3.8-1.ca2004.1_all.deb Size: 1150804 MD5sum: fb4b193e88eaa283d99cd618f16d21fd SHA1: 1c192a730d214dd83fdb4cda150c2b3e7d12dfa0 SHA256: c1a322756515460250f993168c24af1d764808a8b9a318e0985aaf8d3595dc86 SHA512: d73936d9c4c7d20ae3ab58d64a335ae193cfe9fe24a5eb22d9a90cde9f390f83ca0c8d884af31a101c290d3c2185602b833e2092d38cbcfaeb51bb13a72ad496 Homepage: https://cran.r-project.org/package=evolMap Description: CRAN Package 'evolMap' (Dynamic and Interactive Maps) Dynamic and Interactive Maps with R, powered by 'leaflet' . 'evolMap' generates a web page with interactive and dynamic maps to which you can add geometric entities (points, lines or colored geographic areas), and/or markers with optional links between them. The dynamic ability of these maps allows their components to evolve over a continuous period of time or by periods. Package: r-cran-evolutionarygames Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4190 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-desolve, r-cran-geometry, r-cran-ggplot2, r-cran-interp, r-cran-mass, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rgl Filename: pool/dists/focal/main/r-cran-evolutionarygames_0.1.2-1.ca2004.1_all.deb Size: 2943408 MD5sum: 7094b57aca33af7d678c9ecc17c4f932 SHA1: 2427951ff291eb5bc1e95192f796799abc0b2d39 SHA256: f1f85fefbe20b566b68506859e3a5ddd66006aff68345bb9028b20acb7be9e5e SHA512: dddd6d69a2544ac3016d1158a821f93a44013b5c93a9924972b3123b3b741b0e8a62ce9d93a936a8e53d3502351ceb8ca158792924701400fe9bc1ec337a179d Homepage: https://cran.r-project.org/package=EvolutionaryGames Description: CRAN Package 'EvolutionaryGames' (Important Concepts of Evolutionary Game Theory) Evolutionary game theory applies game theory to evolving populations in biology, see e.g. one of the books by Weibull (1994, ISBN:978-0262731218) or by Sandholm (2010, ISBN:978-0262195874) for more details. A comprehensive set of tools to illustrate the core concepts of evolutionary game theory, such as evolutionary stability or various evolutionary dynamics, for teaching and academic research is provided. Package: r-cran-evolvability Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 496 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-coda, r-cran-matrix, r-cran-ape, r-cran-lme4 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-evolvability_2.0.1-1.ca2004.1_all.deb Size: 307344 MD5sum: 2fbcde1d1d0cb50ccd7fe8f4b88adfce SHA1: d9617c5ce98e5b5534a190e58a72ecb1c9f6b151 SHA256: a41268957d014114927c70560ea8f946d9f443b558acbcab9d876571ec8e6aa2 SHA512: 7039e9cf28bb72dfe3f5606b846759589361e55b571bddace693557c9450d8ce6b69774894167c2c2e31f71460ca31a4a2a5fac5cc9dfa117f1dad28e4d03a84 Homepage: https://cran.r-project.org/package=evolvability Description: CRAN Package 'evolvability' (Calculation of Evolvability Parameters) Provides tools for calculating evolvability parameters from estimated G-matrices as defined in Hansen and Houle (2008) and fits phylogenetic comparative models that link the rate of evolution of a trait to the state of another evolving trait (see Hansen et al. 2021 Systematic Biology ). The package was released with Bolstad et al. (2014) , which contains some examples of use. Package: r-cran-evolved Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4582 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-diversitree, r-cran-phytools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-lsd, r-cran-paleobiodb, r-cran-bammtools, r-cran-plot3d Filename: pool/dists/focal/main/r-cran-evolved_1.0.0-1.ca2004.1_all.deb Size: 3048616 MD5sum: 41b687169ebd7c08d6cd778213ab150d SHA1: a9bb9c0fa97d3998c951fc96870734fb29835cb7 SHA256: 4827fa3eff5ddf85eeb47fe3bce0b7f099573dae5334b8a221dc34e3de5fb341 SHA512: 7249262370451b2f01d1e4e3e4acf4e24e4ded3fac897ee65b33d56abc6bd8f4d1ea174f9f06883dc786f8875d01233f2241c6cac8477ff032881d0a282dca31 Homepage: https://cran.r-project.org/package=evolved Description: CRAN Package 'evolved' (Open Software for Teaching Evolutionary Biology at MultipleScales Through Virtual Inquiries) "Evolutionary Virtual Education" - 'evolved' - provides multiple tools to help educators (especially at the graduate level or in advanced undergraduate level courses) apply inquiry-based learning in general evolution classes. In particular, the tools provided include functions that simulate evolutionary processes (e.g., genetic drift, natural selection within a single locus) or concepts (e.g. Hardy-Weinberg equilibrium, phylogenetic distribution of traits). More than only simulating, the package also provides tools for students to analyze (e.g., measuring, testing, visualizing) datasets with characteristics that are common to many fields related to evolutionary biology. Importantly, the package is heavily oriented towards providing tools for inquiry-based learning - where students follow scientific practices to actively construct knowledge. For additional details, see package's vignettes. 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EWS are a toolbox for policymakers to prevent or attenuate the impact of economic downturns. Modern EWS are based on the econometric framework of Kauppi and Saikkonen (2008) . Specifically, this framework includes four dichotomous models, relying on a logit approach to model the relationship between yield spreads and future recessions, controlling for recession risk factors. These models can be estimated in a univariate or a balanced panel framework as in Candelon, Dumitrescu and Hurlin (2014) . This package provides both methods for estimating these models and a dataset covering 13 OECD countries over a period of 45 years. In addition, this package also provides methods for the analysis of the propagation mechanisms of an exogenous shock, as well as robust confidence intervals for these response functions using a block-bootstrap method as in Lajaunie (2021). This package constitutes a useful toolbox (data and functions) for scholars as well as policymakers. 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See Dakos et al. (2012) , Deb et al. (2022) , Drake and Griffen (2010) , Ushio et al. (2018) and Weinans et al. (2021) for methodological details. Graphical presentation of the outputs are also provided for clear and publishable figures. Visit the 'EWSmethods' website for more information, and tutorials. Package: r-cran-exact.n Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4749 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr Filename: pool/dists/focal/main/r-cran-exact.n_1.1.1-1.ca2004.1_all.deb Size: 4341072 MD5sum: 4eda7b840db081165c4415956df8ca09 SHA1: 524fec000e667ad82453d952fc9cd7342e852303 SHA256: 3c079575508df676fd3db6ab5bdb32745772566f240738a56fc131ca01f92693 SHA512: 0a2a92562b53fd68ef5aa5467d20d8f325e2f0f75a4f3f6142082dd13c372e17baa257c2a0eef910af9b27eec992d2abf17d2540f7e5c8e1549bc94fe1606b7a Homepage: https://cran.r-project.org/package=exact.n Description: CRAN Package 'exact.n' (Exact Samples Sizes and Inference for Clinical Trials withBinary Endpoint) Allows the user to determine minimum sample sizes that achieve target size and power at a specified alternative. For more information, see “Exact samples sizes for clinical trials subject to size and power constraints” by Lloyd, C.J. (2022) Preprint . 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Gives melded confidence intervals for the binomial case (Fay, et al, 2015, ). Gives boundary-optimized rejection region test (Gabriel, et al, 2018, ), an unconditional exact test for the situation where the controls are all expected to fail. Gives confidence intervals compatible with exact McNemar's or sign tests (Fay and Lumbard, 2021, ). For review of these kinds of exact tests see Fay and Hunsberger (2021, ). Package: r-cran-exact Architecture: all Version: 3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 237 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rootsolve Filename: pool/dists/focal/main/r-cran-exact_3.3-1.ca2004.1_all.deb Size: 204056 MD5sum: 9f5f549b254ccc68521d036038e8d61a SHA1: f88b905aa9787a6844b9cccd028bea2ab89e21cc SHA256: 0373a1ca968c7b0f60fb43388fc63c447e0a1c5856356c6bdd661bcfcb739453 SHA512: 6a448c0d27022e0d87aa302810e7ea461fdb489973283726df857a2a6328ce6aa68a577440b1f2aed93c5dbb21f09d1d95c793a15bb0a1e75d1754db85eddb93 Homepage: https://cran.r-project.org/package=Exact Description: CRAN Package 'Exact' (Unconditional Exact Test) Performs unconditional exact tests and power calculations for 2x2 contingency tables. For comparing two independent proportions, performs Barnard's test (1945) using the original CSM test (Barnard, 1947 ), using Fisher's p-value referred to as Boschloo's test (1970) , or using a Z-statistic (Suissa and Shuster, 1985, ). For comparing two binary proportions, performs unconditional exact test using McNemar's Z-statistic (Berger and Sidik, 2003, ), using McNemar's conditional p-value, using McNemar's Z-statistic with continuity correction, or using CSM test. Calculates confidence intervals for the difference in proportion. This package interacts with pre-computed data available through the ExactData R package, which is available in a 'drat' repository. Install the ExactData R package from GitHub at . The ExactData R package is approximately 85 MB. Package: r-cran-exactamente Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-shiny, r-cran-shinythemes Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-exactamente_0.1.1-1.ca2004.1_all.deb Size: 73724 MD5sum: 93734aa78fc1fcace89073d338bc495d SHA1: dfc3d140068c9818e0ba3a47657f6673833f65ff SHA256: 45f77b31e384d37fbe3fd06c3dc3fca1f353ca5211a5da1f6f57aaa67acc32d9 SHA512: 3bbea007914b461fa3217601e817f061b41edadc4606f6e174570978ba4314e3dd3dc94f13ba0ba0304569bc72711eddeb9cb74cdf631d63d6b372549b604b18 Homepage: https://cran.r-project.org/package=exactamente Description: CRAN Package 'exactamente' (Explore the Exact Bootstrap Method) Researchers often use the bootstrap to understand a sample drawn from a population with unknown distribution. The exact bootstrap method is a practical tool for exploring the distribution of small sample size data. For a sample of size n, the exact bootstrap method generates the entire space of n to the power of n resamples and calculates all realizations of the selected statistic. The 'exactamente' package includes functions for implementing two bootstrap methods, the exact bootstrap and the regular bootstrap. The exact_bootstrap() function applies the exact bootstrap method following methodologies outlined in Kisielinska (2013) . The regular_bootstrap() function offers a more traditional bootstrap approach, where users can determine the number of resamples. The e_vs_r() function allows users to directly compare results from these bootstrap methods. To augment user experience, 'exactamente' includes the function exactamente_app() which launches an interactive 'shiny' web application. 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Both one-sided and two-sided intervals are of interest. This package can be used to calculate the intervals constructed methods developed by Wang (2014) and Wang (2015) . 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The purpose is to quantify how the difference or variance in vital rates (stage-specific survival, growth, and fertility) among populations contributes to difference or variance in the population growth rate, "lambda." We provide functions for one-way fixed design and random design LTRE, using either the classical methods that have been in use for several decades, or an fANOVA-based exact method that directly calculates the impact on lambda of changes in matrix elements, for matrix elements and their interactions. The equations and descriptions for the classical methods of LTRE analysis can be found in Caswell (2001, ISBN: 0878930965), and the fANOVA-based exact methods are described in Hernandez et al. (2023) . We also provide some demographic functions, including generation time from Bienvenu and Legendre (2015) . For implementation of exactLTRE where all possible interactions are calculated, we use an operator matrix presented in Poelwijk, Krishna, and Ranganathan (2016) . 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Provides statistical techniques for engineering and processing test data: Classical Test Theory (CTT) with reliability coefficients for continuous ability assessment; Item Response Theory (IRT) including Rasch, 2PL, and 3PL models with item/test information functions; Latent Class Analysis (LCA) for nominal clustering; Latent Rank Analysis (LRA) for ordinal clustering with automatic determination of cluster numbers; Biclustering methods including infinite relational models for simultaneous clustering of examinees and items without predefined cluster numbers; and Bayesian Network Models (BNM) for visualizing inter-item dependencies. Features local dependence analysis through LRA and biclustering, parameter estimation, dimensionality assessment, and network structure visualization for educational, psychological, and social science research. 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Sort of like python 'doctests' for R. Package: r-cran-exams.forge.data Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1758 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-exams.forge.data_0.1.0-1.ca2004.1_all.deb Size: 1710772 MD5sum: 9935bd22b5408d2719cb9433744d6419 SHA1: 9070e8b48c14f93d05b1b84b909b86654a961f00 SHA256: 89b5b0eb5d08f49dbbe52ad2271e1edd131a108a1350a85c7c31d10e5d9fcf5e SHA512: 304cbf71628a07af27c6c4e6a6ad862cb4215b921014cc48913ff85cca429c79ae4062cbf3543b3a62465d716c12553edbaea07da472eef33a4b3f6044d26a6b Homepage: https://cran.r-project.org/package=exams.forge.data Description: CRAN Package 'exams.forge.data' (Precomputed Dataset Collection Used in 'exams.forge') The dataset collection supports Pearson correlation and linear regression analysis, with datasets for n=100,200,400,800,1000, where n is the sum of squared values in x. 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Package: r-cran-exde Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 962 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-desolve, r-cran-expm, r-cran-mass Suggests: r-cran-ggplot2, r-cran-data.table, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-exde_1.0.0-1.ca2004.1_all.deb Size: 467940 MD5sum: 2aa3c36c89d814f78cdf2f031e32b102 SHA1: c1b4077bb9c2e6eaebce24d8f7aef93e58df1e54 SHA256: 1c9649b658f18cf0c12fca4027eb08787239c62dce6502b91a1fff1ba3033bf7 SHA512: 038592140fddeaf2dd18c98604e3422d40b4b53b79c4070f8c1ac039d7d580e6f531133e819b370c39a77a2d8b8135905b5e0d7256e8019a7539318e5891d2f1 Homepage: https://cran.r-project.org/package=exDE Description: CRAN Package 'exDE' (Extensible Differential Equations for Mosquito-Borne PathogenModeling) Provides tools to set up modular ordinary and delay differential equation models for mosquito-borne pathogens, focusing on malaria. 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Package: r-cran-exdqlm Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 432 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dlm, r-cran-coda, r-cran-tictoc, r-cran-magic, r-cran-crch, r-cran-truncnorm, r-cran-hyperbolicdist, r-cran-generalizedhyperbolic, r-cran-brms, r-cran-fnn, r-cran-laplacesdemon Filename: pool/dists/focal/main/r-cran-exdqlm_0.1.3-1.ca2004.1_all.deb Size: 405892 MD5sum: eeabb811591d5dffaa4a45e495635995 SHA1: d99e1d59ad45c552072e838de2c558108d0a7348 SHA256: a73568a2c5322c27deb3149bc2b3e881f510d7eb0405b1bc8f41a8367555efcf SHA512: ea426de1fe4b90c97241e79f32a907470b61f397b68bc03b8c1aeb8e1f5940a7b2888029533d122ac4ea2ec9d35101cdd91546d062ff1e00b5eb247282e36df2 Homepage: https://cran.r-project.org/package=exdqlm Description: CRAN Package 'exdqlm' (Extended Dynamic Quantile Linear Models) Routines for Bayesian estimation and analysis of dynamic quantile linear models utilizing the extended asymmetric Laplace error distribution, also known as extended dynamic quantile linear models (exDQLM) described in Barata et al (2020) . Package: r-cran-executablepacker Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-automagic, r-cran-cli, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-executablepacker_0.0.2-1.ca2004.1_all.deb Size: 47484 MD5sum: 88775becb9e07d0561601d305f7ac13c SHA1: 1518edcdf9ccc0089b3e428aec35614f3f81ae27 SHA256: 3a021c0b9e66abcd0b04f1bfea57db5725a4c7d8cc10790de1cc1b278f22bcfc SHA512: 351a107f62dbc6e033fc4d72d5b3c8ac5ff674d2c8232363dc99dff2bab549b69d39c59d91178aef8adda7befe7160398b033add34486907150f519328c4efda Homepage: https://cran.r-project.org/package=executablePackeR Description: CRAN Package 'executablePackeR' (Make 'shiny' App to Executable Program) Make your 'shiny' application as executable program. Users do not need to install 'R' and 'shiny' on their system. Package: r-cran-exgaussestim Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pracma, r-cran-nloptr, r-cran-invgamma, r-cran-dlm, r-cran-fitdistrplus, r-cran-gamlss.dist Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-exgaussestim_0.1.2-1.ca2004.1_all.deb Size: 33840 MD5sum: 06257eb792d89d78b89054f82e9ceb2f SHA1: ae074064e1d4c094cef17de93a92f91d71918345 SHA256: 813f9b49e0f141d469ca0a0be0db17cb94cff3fd1326440c67bc406f4c122076 SHA512: 1cdd0d05d951473f0459ab7b34fa0b6863b58975a31ec230be8ced4836740aa2e90cd246ab54b4f7583e08360a1803c700ec2830fb0f137b37e00fca8ef531ef Homepage: https://cran.r-project.org/package=ExGaussEstim Description: CRAN Package 'ExGaussEstim' (Quantile Maximization Likelihood Estimation and BayesianEx-Gaussian Estimation) Presents two methods to estimate the parameters 'mu', 'sigma', and 'tau' of an ex-Gaussian distribution. Those methods are Quantile Maximization Likelihood Estimation ('QMLE') and Bayesian. The 'QMLE' method allows a choice between three different estimation algorithms for these parameters : 'neldermead' ('NEMD'), 'fminsearch' ('FMIN'), and 'nlminb' ('NLMI'). For more details about the methods you can refer at the following list: Brown, S., & Heathcote, A. (2003) ; McCormack, P. D., & Wright, N. M. (1964) ; Van Zandt, T. (2000) ; El Haj, A., Slaoui, Y., Solier, C., & Perret, C. (2021) ; Gilks, W. R., Best, N. G., & Tan, K. K. C. (1995) . Package: r-cran-exhaustiverasch Architecture: all Version: 0.3.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 411 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-erm, r-cran-psychotree, r-cran-psych, r-cran-tictoc, r-cran-psychotools, r-cran-pairwise, r-cran-arrangements, r-cran-pbapply Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-exhaustiverasch_0.3.7-1.ca2004.1_all.deb Size: 253044 MD5sum: e057a12f535ea9b90ca43d5f9e2becaf SHA1: f2ee62589130412bd283f2374271d5a3cfaa95e7 SHA256: d0b5e6c109c2b4c745b4a1ccee08edb882088e5ce9ba5eafd8f5b549daade22f SHA512: 7f75b083ed38fdf938a7fb326fae5cfa0b41f5a536e973caa2c894273b5ab3940c1c2cc3e92c8e6fc163d4ea1ffa52d2521f519b11c1304f44310230391b40e9 Homepage: https://cran.r-project.org/package=exhaustiveRasch Description: CRAN Package 'exhaustiveRasch' (Item Selection and Exhaustive Search for Rasch Models) Automation of the item selection processes for Rasch scales by means of exhaustive search for suitable Rasch models (dichotomous, partial credit, rating-scale) in a list of item-combinations. 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Package: r-cran-exnruleensemble Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fnn Filename: pool/dists/focal/main/r-cran-exnruleensemble_0.1.1-1.ca2004.1_all.deb Size: 26072 MD5sum: 26a07b268d6184cc4b79eeb6df4a9fbc SHA1: 0dcf38668109f427a2e33a4a67e832e5cbc5fc02 SHA256: 782b0e159434706e6f9d3da26d1751905fe4f991ac41af4e8bae4dc386da4e77 SHA512: 5f93495ef9f986a2d3485ded7bd3f3804174ea644bc61eb75316b1677678fb188ec29fdab7cc0333fc3d9a8f84ef3d446dcd0266643aa7d47e19fa7107167686 Homepage: https://cran.r-project.org/package=ExNRuleEnsemble Description: CRAN Package 'ExNRuleEnsemble' (A k Nearest Neibour Ensemble Based on Extended NeighbourhoodRule) The extended neighbourhood rule for the k nearest neighbour ensemble where the neighbours are determined in k steps. Starting from the first nearest observation of the test point, the algorithm identifies a single observation that is closest to the observation at the previous step. At each base learner in the ensemble, this search is extended to k steps on a random bootstrap sample with a random subset of features selected from the feature space. The final predicted class of the test point is determined by using a majority vote in the predicted classes given by all base models. Amjad Ali, Muhammad Hamraz, Naz Gul, Dost Muhammad Khan, Saeed Aldahmani, Zardad Khan (2022) . 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Package: r-cran-expandfunctions Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-orthopolynom, r-cran-polynom, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-expandfunctions_0.1.0-1.ca2004.1_all.deb Size: 74924 MD5sum: e365dc3e3724c55155f31f2d653ab6dc SHA1: b9e9a604dd8a5d03c191d573777a91b053b5c415 SHA256: 46abd092de6e23287b150f6ed3ad0937c5ee0c1fd0d85ce7feaa459c2dc93921 SHA512: 3f023bb513350c0ad28d908b47a7cdff5c456ee4149d34c02196538e564de0f90abdab7585406121eeba319944ade8eaeaaf09ae511e94ea11b60a59c8f48716 Homepage: https://cran.r-project.org/package=expandFunctions Description: CRAN Package 'expandFunctions' (Feature Matrix Builder) Generates feature matrix outputs from R object inputs using a variety of expansion functions. The generated feature matrices have applications as inputs for a variety of machine learning algorithms. The expansion functions are based on coercing the input to a matrix, treating the columns as features and converting individual columns or combinations into blocks of columns. Currently these include expansion of columns by efficient sparse embedding by vectors of lags, quadratic expansion into squares and unique products, powers by vectors of degree, vectors of orthogonal polynomials functions, and block random affine projection transformations (RAPTs). The transformations are magrittr- and cbind-friendly, and can be used in a building block fashion. For instance, taking the cos() of the output of the RAPT transformation generates a stationary kernel expansion via Bochner's theorem, and this expansion can then be cbind-ed with other features. 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Throughout various studies, the model has been found to adequately capture the cyclical nature of datasets. Parameter estimation of such family of models has been tackled by the approach of minimizing the residual sum of squares (RSS). Model selection among various candidate orders has been implemented using various information criteria, viz., Akaike information criteria (AIC), corrected Akaike information criteria (AICc) and Bayesian information criteria (BIC). An illustration utilizing data of egg price indices has also been provided. 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Experimental designs can be formed on the basis of orthogonal arrays or search methods for optimal designs (Federov or mixed integer programs). Various methods for converting these experimental designs into a discrete choice experiment. Many efficiency measures! Draws from literature of Kuhfeld (2010) and Street et. al (2005) . 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And the package is suitable for RNA-seq and small RNA sequencing data. Besides, two methods of non-additive expression analysis were provided. One is the calculation of the additive (a) and dominant (d), the other is the evaluation of expression level dominance by comparing the total expression of the gene in hybrid offspring with the expression level in parents. For non-additive expression analysis of RNA-seq data, it is only applicable to hybrid offspring (including two sub-genomes) species for the time being. 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Package: r-cran-explainprediction Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-corelearn, r-cran-semiartificial Suggests: r-cran-nnet, r-cran-e1071, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-explainprediction_1.3.0-1.ca2004.1_all.deb Size: 79124 MD5sum: fef77c0b3dab7b097ec9a6bca732cdb3 SHA1: f81dc07fdea2634565bb439623fbb5d5fc9761df SHA256: d7f022f2f726920b72322f3beadb4efa5ffa427b6ff22b178a36162c677d5f29 SHA512: dec51b4eb8022f0cccacd4168f685194322f4cf9d8ec57bed22d0654dbe858311a05c5147ac37e2a0269efb183d1bc79161f3f96a65032e2c97cc5d813f985be Homepage: https://cran.r-project.org/package=ExplainPrediction Description: CRAN Package 'ExplainPrediction' (Explanation of Predictions for Classification and RegressionModels) Generates explanations for classification and regression models and visualizes them. Explanations are generated for individual predictions as well as for models as a whole. Two explanation methods are included, EXPLAIN and IME. The EXPLAIN method is fast but might miss explanations expressed redundantly in the model. The IME method is slower as it samples from all feature subsets. For the EXPLAIN method see Robnik-Sikonja and Kononenko (2008) , and the IME method is described in Strumbelj and Kononenko (2010, JMLR, vol. 11:1-18). All models in package 'CORElearn' are natively supported, for other prediction models a wrapper function is provided and illustrated for models from packages 'randomForest', 'nnet', and 'e1071'. Package: r-cran-explodelayout Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-explodelayout_0.1.3-1.ca2004.1_all.deb Size: 72136 MD5sum: c15f9a7d0f3ca894356f094d7114ad98 SHA1: 137f4c27c199d192f3804e459ffd9cc66387ed74 SHA256: 694caf7ac117b1922dec68813f13c4b14dfed1948e6413bf4d4622cf48d8f4a3 SHA512: 46641ea3b43cdeee73a93ef3073e67cf43b9efccb5cda5846d643fb2ac4711603160f670f9b768b0fadf30da5cd87d4fd2db12ae00876170c2fc5e9217b8feaa Homepage: https://cran.r-project.org/package=ExplodeLayout Description: CRAN Package 'ExplodeLayout' (Calculate Exploded Coordinates Based on Original NodeCoordinates and Node Clustering Membership) Current layout algorithms such as Kamada Kawai do not take into consideration disjoint clusters in a network, often resulting in a high overlap among the clusters, resulting in a visual “hairball” that often is uninterpretable. The ExplodeLayout algorithm takes as input (1) an edge list of a unipartite or bipartite network, (2) node layout coordinates (x, y) generated by a layout algorithm such as Kamada Kawai, (3) node cluster membership generated from a clustering algorithm such as modularity maximization, and (4) a radius to enable the node clusters to be “exploded” to reduce their overlap. The algorithm uses these inputs to generate new layout coordinates of the nodes which “explodes” the clusters apart, such that the edge lengths within the clusters are preserved, while the edge lengths between clusters are recalculated. The modified network layout with nodes and edges are displayed in two dimensions. The user can experiment with different explode radii to generate a layout which has sufficient separation of clusters, while reducing the overall layout size of the network. This package is a basic version of an earlier version called [epl] that searched for an optimal explode radius, and offered multiple ways to separate clusters in a network (Bhavnani et al(2017) ). The example dataset is for a bipartite network, but the algorithm can work also for unipartite networks. Package: r-cran-explor Architecture: all Version: 0.3.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 615 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-dt, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-highr, r-cran-formatr, r-cran-scatterd3, r-cran-rcolorbrewer Suggests: r-cran-factominer, r-cran-ade4, r-cran-gdatools, r-cran-mass, r-cran-quanteda, r-cran-quanteda.textmodels, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-explor_0.3.10-1.ca2004.1_all.deb Size: 479436 MD5sum: 332e7e3010587990864048ae89eb992f SHA1: dcf83519f5f2b5fd027008c3bd946f07d934449c SHA256: b849fdcdc2c149f481bbdea3207321ca4be440c4e41230a59c472a23ec65e84e SHA512: f5832cf9e551dca1cd0c2447dc3ed21ed1712e1906200f1b444847b26f4b515daeb2ab6775ae194cf4da3f93e659bea9184da1d714b15d0a6496f23cc03e2b77 Homepage: https://cran.r-project.org/package=explor Description: CRAN Package 'explor' (Interactive Interfaces for Results Exploration) Shiny interfaces and graphical functions for multivariate analysis results exploration. Package: r-cran-exploratory Architecture: all Version: 0.3.31-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 223 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-dt, r-cran-ggplot2, r-cran-ggridges, r-cran-lemon, r-cran-lm.beta, r-cran-mediation, r-cran-remotes, r-cran-shiny, r-cran-shinydashboard, r-cran-weights Suggests: r-cran-moments Filename: pool/dists/focal/main/r-cran-exploratory_0.3.31-1.ca2004.1_all.deb Size: 193948 MD5sum: 295fa0a63005bdb13462fae092e7a342 SHA1: 460e05cb49900124a1690f7c742dddc91874f4e1 SHA256: 8fece970ab839410ce9e78266af76dcaef8695546f82d66bb98cbec7fa384909 SHA512: 38437b2e32bb45a2fa7d78ab13975711b709f70e6f4432dcdecfa2ee916be6b23983de595644a150e2ba121724256904639c76a9e46f21d3cf6187a20827f6a7 Homepage: https://cran.r-project.org/package=exploratory Description: CRAN Package 'exploratory' (A Tool for Large-Scale Exploratory Analyses) Conduct numerous exploratory analyses in an instant with a point-and-click interface. With one simple command, this tool launches a Shiny App on the local machine. Drag and drop variables in a data set to categorize them as possible independent, dependent, moderating, or mediating variables. Then run dozens (or hundreds) of analyses instantly to uncover any statistically significant relationships among variables. Any relationship thus uncovered should be tested in follow-up studies. This tool is designed only to facilitate exploratory analyses and should NEVER be used for p-hacking. Many of the functions used in this package are previous versions of functions in the R Packages 'kim' and 'ezr'. Selected References: Chang et al. (2021) . Dowle et al. (2021) . Kim (2023) . Kim (2021) . Kim (2020) . Simmons et al. (2011) Tingley et al. (2019) . Wickham et al. (2020) . 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Package: r-cran-explorer Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-explorer_0.1-1.ca2004.1_all.deb Size: 38536 MD5sum: 66fef3c51fcf7eff2fa33f096b00ccdf SHA1: 5b95d086a25058967ea66351b2bc0adc23819da0 SHA256: 3e9c02c83b8447d4194c981f92c1cac9370054176ee06feeee9d03f002ed04dd SHA512: f1e5c02e0ec57d7165bf3a31c6ef17926795c9197a5c8cb339576090eefa9a7b61bbefdfefc94a0583405b2b0b3af52a7d481abd29ae302117019e797e2757b1 Homepage: https://cran.r-project.org/package=exploreR Description: CRAN Package 'exploreR' (Tools for Quickly Exploring Data) Simplifies some complicated and labor intensive processes involved in exploring and explaining data. 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Package: r-cran-export Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 537 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-officer, r-cran-rvg, r-cran-xtable, r-cran-flextable, r-cran-rgl, r-cran-xml2, r-cran-stargazer, r-cran-openxlsx, r-cran-broom, r-cran-devemf Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-export_0.3.0-1.ca2004.1_all.deb Size: 264120 MD5sum: 9353a275a964374118da51c11ab5f00e SHA1: 2f607fb3e5f01821aa7206a3cd1f5c9390ef636c SHA256: ff1f43de032c419d2bd45a3eb0017e51056e3439f1625355593b119d971637de SHA512: f60c4efed99ec78625cce2cca745136db5c2aef4fb47acaff924e6f22c6d258d5dd4bb66df5b68b8531eda8849e4a83a5b3619bbe3845b07326ac2dd5c1a5f26 Homepage: https://cran.r-project.org/package=export Description: CRAN Package 'export' (Streamlined Export of Graphs and Data Tables) Easily export 'R' graphs and statistical output to 'Microsoft Office' / 'LibreOffice', 'Latex' and 'HTML' Documents, using sensible defaults that result in publication-quality output with simple, straightforward commands. Output to 'Microsoft Office' is in editable 'DrawingML' vector format for graphs, and can use corporate template documents for styling. This enables the production of standardized reports and also allows for manual tidy-up of the layout of 'R' graphs in 'Powerpoint' before final publication. Export of graphs is flexible, and functions enable the currently showing R graph or the currently showing 'R' stats object to be exported, but also allow the graphical or tabular output to be passed as objects. The package relies on package 'officer' for export to 'Office' documents,and output files are also fully compatible with 'LibreOffice'. Base 'R', 'ggplot2' and 'lattice' plots are supported, as well as a wide variety of 'R' stats objects, via wrappers to xtable(), broom::tidy() and stargazer(), including aov(), lm(), glm(), lme(), glmnet() and coxph() as well as matrices and data frames and many more... 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Spatial patterns of extra-pair paternity: beyond paternity gains and losses. Journal of Animal Ecology, 84(2), 518-531. 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We aim to characterize how the lengths of selected edges vary between two phenotypes based on t tests results. Two statistics, AT1 and AT2, are computed to summarize the t tests results and distinguish the differentially expressed patterns of the sub-network. 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The package can also adds empirical confidence bands to each of the extremogram plots via a permutation procedure under the assumption that the data are independent. Finally, the stationary bootstrap allows us to construct credible confidence bands for the extremograms. 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Package: r-cran-exvatools Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 538 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-data.table, r-cran-openxlsx, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-exvatools_0.9.0-1.ca2004.1_all.deb Size: 404968 MD5sum: 877d0b0167d4bca04100529e6da37c4f SHA1: e364657d1f837358d415988addc66ce6eb773fdb SHA256: e6cb7d30cd96e4ab6071b1710eb68ef2c5cc901e6ea44be91b3c089951289c1d SHA512: 5b1c05c66bc47e91a80f9fbf3da8fc60a6a8bd9968db6c7ac4d8a4dbca6dc463faaf8f6d6c55480fc5afa204adf2a843d3bf09d5fcc2ee07f77799131d8a3b6a Homepage: https://cran.r-project.org/package=exvatools Description: CRAN Package 'exvatools' (Value Added in Exports and Other Input-Output Table AnalysisTools) Analysis of trade in value added with international input-output tables. Includes commands for easy data extraction, matrix manipulation, decomposition of value added in gross exports and calculation of value added indicators, with full geographical and sector customization. Decomposition methods include Borin and Mancini (2023) , Miroudot and Ye (2021) , Wang et al. (2013) and Koopman et al. (2014) . Package: r-cran-eye Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 350 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-english, r-cran-lubridate, r-cran-magrittr, r-cran-pillar, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-eyedata, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eye_1.2.1-1.ca2004.1_all.deb Size: 190564 MD5sum: ea0406969cf0ed1b78a06e3b4328edd7 SHA1: 67b73860ecfe36ad73d37068e5c0d635ee5371b7 SHA256: 7656f6dfe5c7d5e43338ca95a0a00a973f91f94deeda631ec2a1898e7fcf1ab4 SHA512: d50f2429e80840669d8c60293cdfc94efbc5210398d941f07c94ec3d57207365fe238c7e3b34884260a813f8bbbb4a047f0b2cb595d8c3659d44e3107bb2b613 Homepage: https://cran.r-project.org/package=eye Description: CRAN Package 'eye' (Analysis of Eye Data) There is no ophthalmic researcher who has not had headaches from the handling of visual acuity entries. Different notations, untidy entries. This shall now be a matter of the past. Eye makes it as easy as pie to work with VA data - easy cleaning, easy conversion between Snellen, logMAR, ETDRS letters, and qualitative visual acuity shall never pester you again. The eye package automates the pesky task to count number of patients and eyes, and can help to clean data with easy re-coding for right and left eyes. It also contains functions to help reshaping eye side specific variables between wide and long format. Visual acuity conversion is based on Schulze-Bonsel et al. (2006) , Gregori et al. (2010) , Beck et al. (2003) and Bach (2007) . Package: r-cran-eyedata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 984 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-eyedata_0.1.0-1.ca2004.1_all.deb Size: 950080 MD5sum: b834580fe1e95d9a650fb9c0f75e201c SHA1: 88749fc94acb43f8d9ca31498d586a597398884b SHA256: c3d7808326aa4804df1b40f63187dbadf021d9f1e8ccc63d8a8be25ca0605135 SHA512: de1337587d4981e6c4914872357707ebc2f01d661ba91254b7ec2a770e3f58577d8f38e7db2198260dc1837a1a48ce11a2babfbaddc8c332c69dcb78192456ea Homepage: https://cran.r-project.org/package=eyedata Description: CRAN Package 'eyedata' (Open Source Ophthalmic Data Sets Curated for R) Open source data allows for reproducible research and helps advance our knowledge. The purpose of this package is to collate open source ophthalmic data sets curated for direct use. This is real life data of people with intravitreal injections with anti-vascular endothelial growth factor (anti-VEGF), due to age-related macular degeneration or diabetic macular edema. Associated publications of the data sets: Fu et al. (2020) , Moraes et al (2020) , Fasler et al. (2019) , Arpa et al. (2020) , Kern et al. 2020, . Package: r-cran-eyelinker Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1845 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringi, r-cran-stringr, r-cran-tibble, r-cran-readr, r-cran-intervals Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-covr Filename: pool/dists/focal/main/r-cran-eyelinker_0.2.1-1.ca2004.1_all.deb Size: 1560572 MD5sum: 2aeabaa13af9ef63b56b2022cd80997f SHA1: 564b6263feadf7cd86312581e93591ddcdfcfe41 SHA256: 9a0008b5605d161434fdecbfba25649c9372cd81eee9cac78b74aaf65b4658fd SHA512: ccc31fcba901cec81dd3e27674194c54ea0dc7ab09f93e1e5a22cc6effc320cb314d888dd75393a3596bb009284bb2686b578aadb219b211d0be86985fee950c Homepage: https://cran.r-project.org/package=eyelinker Description: CRAN Package 'eyelinker' (Import ASC Files from EyeLink Eye Trackers) Imports plain-text ASC data files from EyeLink eye trackers into (relatively) tidy data frames for analysis and visualization. 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First passes can be further devided into forward and reading. The package further allows for aggregating fixation times per AOI or per AOI and per type of pass (first forward, first rereading, second). These methods are based on Hyönä, Lorch, and Rinck (2003) and Hyönä, and Lorch (2004) . It is also possible to convert between metric length and visual degrees. Package: r-cran-eyeris Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4895 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-eyelinker, r-cran-dplyr, r-cran-gsignal, r-cran-purrr, r-cran-zoo, r-cran-cli, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-progress, r-cran-data.table, r-cran-withr, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eyeris_1.2.1-1.ca2004.1_all.deb Size: 2935780 MD5sum: 0dfec486436a729003eb701f91a72b98 SHA1: aee55a911ab216f2519c34391ba678a016d0604b SHA256: 4eef68781d1f6f2a772aff6a2967d199f62a3a55f225f3f0fffdd03008f4d21f SHA512: 606f320ead8505cb289babf99116e282c61f2afad6d5a4434a4b07b3cd413fe3e9fa42c1f499057cd0f6d2da330ad0828dbf4db4727a8ec745a455304a25282f Homepage: https://cran.r-project.org/package=eyeris Description: CRAN Package 'eyeris' (Flexible, Extensible, & Reproducible Pupillometry Preprocessing) Pupillometry offers a non-invasive window into the mind and has been used extensively as a psychophysiological readout of arousal signals linked with cognitive processes like attention, stress, and emotional states [Clewett et al. (2020) ; Kret & Sjak-Shie (2018) ; Strauch (2024) ]. Yet, despite decades of pupillometry research, many established packages and workflows to date unfortunately lack design patterns based on Findability, Accessibility, Interoperability, and Reusability (FAIR) principles [see Wilkinson et al. (2016) ]. 'eyeris', on the other hand, follows a design philosophy that provides users with an intuitive, modular, performant, and extensible pupillometry data preprocessing framework out-of-the-box. 'eyeris' introduces a Brain Imaging Data Structure (BIDS)-like organization for derivative (i.e., preprocessed) pupillometry data as well as an intuitive workflow for inspecting preprocessed pupil epochs using interactive output report files [Esteban et al. (2019) ; Gorgolewski et al. (2016) ]. Package: r-cran-eyetools Architecture: all Version: 0.9.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4065 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggforce, r-cran-ggplot2, r-cran-viridis, r-cran-glue, r-cran-hdf5r, r-cran-lifecycle, r-cran-magick, r-cran-pbapply, r-cran-rlang, r-cran-zoo, r-cran-png Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-eyetools_0.9.2-1.ca2004.1_all.deb Size: 3654916 MD5sum: d7deae86b63d3764d34b8fb88092c001 SHA1: 74fe9a9921d2041d7a229265360afb336381510c SHA256: ca0af38fcd23c12bfc068ec214ae75ce6bb41ed313b67a5beea90fe8915314ce SHA512: 9ae9b296af1b406523ff086fb71ce68d58eb4d0611d1c310a42b22315513e4dd94ab06f8161deeebf37cd64f2ee28573dc742119ca5df4b304208b84776e12a3 Homepage: https://cran.r-project.org/package=eyetools Description: CRAN Package 'eyetools' (Analyse Eye Data) Enables the automation of actions across the pipeline, including initial steps of transforming binocular data and gap repair to event-based processing such as fixations, saccades, and entry/duration in Areas of Interest (AOIs). It also offers visualisation of eye movement and AOI entries. These tools take relatively raw (trial, time, x, and y form) data and can be used to return fixations, saccades, and AOI entries and time spent in AOIs. As the tools rely on this basic data format, the functions can work with data from any eye tracking device. Implements fixation and saccade detection using methods proposed by Salvucci and Goldberg (2000) . Package: r-cran-eyetracking Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-eyetracking_1.1-1.ca2004.1_all.deb Size: 14976 MD5sum: d364e24e3bd181f7cf8c85a9c6e67c70 SHA1: 88d557082c1bfd7850b33697a67db8cd6cd06823 SHA256: a09f00963766593ae60d1f83a151548ea0da1da5170ec9d28ce30d4edad35f3a SHA512: 6c59831e43960e20a5a3cf1fdf180b240963436e4d19f4f8cbb8f16caba70d6482e384d9451ca45bf12b2744bdbff1d3e91255bff865776d8aca453f8d5bb6b0 Homepage: https://cran.r-project.org/package=eyetracking Description: CRAN Package 'eyetracking' (Eyetracking Helper Functions) Misc function for working with eyetracking data Package: r-cran-eyetrackingr Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1784 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-broom, r-cran-broom.mixed, r-cran-ggplot2, r-cran-lazyeval, r-cran-rlang, r-cran-zoo, r-cran-tidyr, r-cran-purrr Suggests: r-cran-pbapply, r-cran-knitr, r-cran-lme4, r-cran-glmmtmb, r-cran-mass, r-cran-matrix, r-cran-testthat, r-cran-rmarkdown, r-cran-domc, r-cran-foreach Filename: pool/dists/focal/main/r-cran-eyetrackingr_0.2.2-1.ca2004.1_all.deb Size: 893556 MD5sum: c1ee39fa7fc2529fd63c27b562e8817b SHA1: 699b162066b36568d8ccc9c06cb53a3ea22c6d51 SHA256: 3860390501b9b5afd870e7615dd3abc7b49dbe9bd2839cda286a491e2ae1f0a9 SHA512: 258f430b7c4732549d98aa8190f035a3056396cd099f616454a87f639a5c19762d27c309b4c4b3edba7d2975d4dd8648f79b002d8b0184a05dd97696fba890d0 Homepage: https://cran.r-project.org/package=eyetrackingR Description: CRAN Package 'eyetrackingR' (Eye-Tracking Data Analysis) Addresses tasks along the pipeline from raw data to analysis and visualization for eye-tracking data. Offers several popular types of analyses, including linear and growth curve time analyses, onset-contingent reaction time analyses, as well as several non-parametric bootstrapping approaches. For references to the approach see Mirman, Dixon & Magnuson (2008) , and Barr (2008) . Package: r-cran-eyetrackr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2906 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-stringr, r-cran-plyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-eyetrackr_1.0.1-1.ca2004.1_all.deb Size: 2938848 MD5sum: 52098f001513a252a9f57412a448ef08 SHA1: 55d67a1e490f0272d3450af76cdadb8b596a1ba4 SHA256: 01c0cee27dbd8a94599f1c1ab07e647bb46ce5d0244d62ea6f4aa2924153fd31 SHA512: 66e3063b910d20d102043bd2f851e7b18f9da9feae967ecde89ed232a2ec83bcac4078023c2b4da2b51f9d639658d0558364638e6edc1ea4d6232c81646f5740 Homepage: https://cran.r-project.org/package=eyeTrackR Description: CRAN Package 'eyeTrackR' (Organising and Analysing Eye-Tracking Data) A set of functions for organising and analysing datasets from experiments run using 'Eyelink' eye-trackers. Organising functions help to clean and prepare eye-tracking datasets for analysis, and mark up key events such as display changes and responses made by participants. Analysing functions help to create means for a wide range of standard measures (such as 'mean fixation durations'), which can then be fed into the appropriate statistical analyses and graphing packages as necessary. Package: r-cran-ez.combat Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ez.combat_1.0.0-1.ca2004.1_all.deb Size: 28728 MD5sum: 2dfe5d450801f37b4f802ada57618be8 SHA1: c559a23297232fa515c67aff80abdbe223e9a17d SHA256: 393bbb86f027cb08686e58201f888334bbdca3ba7b7d9bbc9d7e247542b29471 SHA512: 6fca04833be0c1b550429c0930c84488ac6bb3f6558e279d39c4dc2cc47d9c9c4d08bb7fbd4b1665355934e2ea138a0b60e24b9323045d97858e6df8a0aee1ca Homepage: https://cran.r-project.org/package=ez.combat Description: CRAN Package 'ez.combat' (Easy ComBat Harmonization) A dataframe-friendly implementation of ComBat Harmonization which uses an empirical Bayesian framework to remove batch effects. Johnson WE & Li C (2007) "Adjusting batch effects in microarray expression data using empirical Bayes methods." Fortin J-P, Cullen N, Sheline YI, Taylor WD, Aselcioglu I, Cook PA, Adams P, Cooper C, Fava M, McGrath PJ, McInnes M, Phillips ML, Trivedi MH, Weissman MM, & Shinohara RT (2017) "Harmonization of cortical thickness measurements across scanners and sites." Fortin J-P, Parker D, Tun B, Watanabe T, Elliott MA, Ruparel K, Roalf DR, Satterthwaite TD, Gur RC, Gur RE, Schultz RT, Verma R, & Shinohara RT (2017) "Harmonization of multi-site diffusion tensor imaging data." Package: r-cran-ez Architecture: all Version: 4.4-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 373 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car, r-cran-ggplot2, r-cran-lme4, r-cran-mass, r-cran-matrix, r-cran-mgcv, r-cran-plyr, r-cran-reshape2, r-cran-scales, r-cran-stringr Filename: pool/dists/focal/main/r-cran-ez_4.4-0-1.ca2004.1_all.deb Size: 331220 MD5sum: 7be0aa7eacb3d458880cdff16cd4911d SHA1: e030090b450f6b5750c6f3dfd819271dd2ba6482 SHA256: 47420790344ed9361de563490eb7b27a246608f12c22263e7f70888958c3eb4a SHA512: 8a81002606b08a77342817275cf69916ebfb3870d60d30e911328f5a67d7219a90993aa768dc897695bd86ec5c5633d74a4e3e58a077a1b94915e6f474c51e17 Homepage: https://cran.r-project.org/package=ez Description: CRAN Package 'ez' (Easy Analysis and Visualization of Factorial Experiments) Facilitates easy analysis of factorial experiments, including purely within-Ss designs (a.k.a. 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Package: r-cran-fabci Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-fabci_0.2-1.ca2004.1_all.deb Size: 67264 MD5sum: 8a6bf3dcb85c5888aee5c6fa5931e55b SHA1: 68c213316bc8d8b568640187dd02049cfb197048 SHA256: 0f4c34363f9885c995026dba3b136b09d22400e405c3c74ca9adba77833bdd87 SHA512: 164787e4ab1757860aeea30357308d7201a60f72b836826e79ae5257e2cc3676e8fe7535dff2a3c7ebfb9b7f5894abafe01d648d7e68c1d70b7531957d1de42a Homepage: https://cran.r-project.org/package=fabCI Description: CRAN Package 'fabCI' (FAB Confidence Intervals) Frequentist assisted by Bayes (FAB) confidence interval construction. See 'Adaptive multigroup confidence intervals with constant coverage' by Yu and Hoff and 'Exact adaptive confidence intervals for linear regression coefficients' by Hoff and Yu . 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See Hoff (2019) "Smaller p-values via indirect information", Hoff and Yu (2019) "Exact adaptive confidence intervals for linear regression coefficients", and Yu and Hoff (2018) "Adaptive multigroup confidence intervals with constant coverage". Package: r-cran-fabisearch Architecture: all Version: 0.0.4.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4409 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-nmf, r-cran-rgl, r-cran-reshape2, r-cran-foreach, r-cran-doparallel, r-cran-dorng Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fabisearch_0.0.4.5-1.ca2004.1_all.deb Size: 4434468 MD5sum: 130c9d1b2cbc4ae110213055536cd215 SHA1: 75110938b1ea4b64d253bc3d03943c5ee00d33ee SHA256: 8b0c22c390944da583f5319caadbeb63ceec4393c879d69919ce3175e19485c6 SHA512: 18d6a508744c86146cfe45f52ca7297c92249ca0030758a5327bf8c7ec79abba3e81eadeb56c87359c945960bfd1dbdbf05547e2055cdba3b54611185abd0327 Homepage: https://cran.r-project.org/package=fabisearch Description: CRAN Package 'fabisearch' (Change Point Detection in High-Dimensional Time Series Networks) Implementation of the Factorized Binary Search (FaBiSearch) methodology for the estimation of the number and the location of multiple change points in the network (or clustering) structure of multivariate high-dimensional time series. The method is motivated by the detection of change points in functional connectivity networks for functional magnetic resonance imaging (fMRI) data. FaBiSearch uses non-negative matrix factorization (NMF), an unsupervised dimension reduction technique, and a new binary search algorithm to identify multiple change points. It requires minimal assumptions. Lastly, we provide interactive, 3-dimensional, brain-specific network visualization capability in a flexible, stand-alone function. This function can be conveniently used with any node coordinate atlas, and nodes can be color coded according to community membership, if applicable. The output is an elegantly displayed network laid over a cortical surface, which can be rotated in the 3-dimensional space. The main routines of the package are detect.cps(), for multiple change point detection, est.net(), for estimating a network between stationary multivariate time series, net.3dplot(), for plotting the estimated functional connectivity networks, and opt.rank(), for finding the optimal rank in NMF for a given data set. The functions have been extensively tested on simulated multivariate high-dimensional time series data and fMRI data. For details on the FaBiSearch methodology, please see Ondrus et al. (2021) . For a more detailed explanation and applied examples of the fabisearch package, please see Ondrus and Cribben (2022), preprint. Package: r-cran-fable.ata Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fabletools, r-cran-ataforecasting, r-cran-rlang, r-cran-tibble, r-cran-dplyr, r-cran-tsibble, r-cran-distributional, r-cran-tsbox, r-cran-lubridate Filename: pool/dists/focal/main/r-cran-fable.ata_0.0.6-1.ca2004.1_all.deb Size: 63392 MD5sum: e247543daa188c614320be36f8e9c413 SHA1: aa01fbd8365d643178f7c146173873200cf2594c SHA256: 50d7025a546864b66f88d567ea4c8dc578f22fb1070720e25f8df506420eed12 SHA512: 20d801384072aa960239e89331814bf39618278399aff04cee74184cd80c1b65f9a01e428aeff7192c911492c230755259438a722ea9a86d68e6c14a8b30f459 Homepage: https://cran.r-project.org/package=fable.ata Description: CRAN Package 'fable.ata' ('ATAforecasting' Modelling Interface for 'fable' Framework) Allows ATA (Automatic Time series analysis using the Ata method) models from the 'ATAforecasting' package to be used in a tidy workflow with the modeling interface of 'fabletools'. This extends 'ATAforecasting' to provide enhanced model specification and management, performance evaluation methods, and model combination tools. The Ata method (Yapar et al. (2019) ), an alternative to exponential smoothing (described in Yapar (2016) , Yapar et al. (2017) ), is a new univariate time series forecasting method which provides innovative solutions to issues faced during the initialization and optimization stages of existing forecasting methods. Forecasting performance of the Ata method is superior to existing methods both in terms of easy implementation and accurate forecasting. It can be applied to non-seasonal or seasonal time series which can be decomposed into four components (remainder, level, trend and seasonal). Package: r-cran-fable.prophet Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 639 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcpp, r-cran-fabletools, r-cran-rlang, r-cran-tsibble, r-cran-lubridate, r-cran-prophet, r-cran-dplyr, r-cran-distributional Suggests: r-cran-tsibbledata, r-cran-testthat, r-cran-ggplot2, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fable.prophet_0.1.0-1.ca2004.1_all.deb Size: 508300 MD5sum: 5c00d6dc89d5347754b0bac8c5ba0457 SHA1: 310dd7c3c8707d50e4d0dd617f8d4547c14cde40 SHA256: 3dc8f1a0e79c7f39c55052fbd32b8623f1c104df88d05b503a0d7df0bec66a1e SHA512: 9d505ee49de7c41c175ff4b5cfdde581f6411e8ab914a336e8a4f481ef5a5b5ec449665a2a9023506684d86280938b1a8b7ba870af39c5ad3834e7dd4ddd9ac5 Homepage: https://cran.r-project.org/package=fable.prophet Description: CRAN Package 'fable.prophet' (Prophet Modelling Interface for 'fable') Allows prophet models from the 'prophet' package to be used in a tidy workflow with the modelling interface of 'fabletools'. 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The user can create shapes, images and text elements within the canvas which can also be used as a drawing tool for taking notes. The package relies on the 'fabricjs' 'JavaScript' library. See . 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Package: r-cran-facebookadsr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-curl Filename: pool/dists/focal/main/r-cran-facebookadsr_0.1.0-1.ca2004.1_all.deb Size: 22224 MD5sum: 305696620a5963da1d099ef893517140 SHA1: b7f08b4e13d81f1e4ff377b9936d9c33db8975bb SHA256: b568b34ae9c36609053c229771709bc8a1c92ed400a20687f99f28d110eeef96 SHA512: ebca5e4b47f09145258c2443c7f13a5ac1f5a6c1dbaaf4f6e6c534c8ae64a8eb0caa7b2f426337217be308312a6da5889cbffc12e9bbcde614c95711c778f206 Homepage: https://cran.r-project.org/package=facebookadsR Description: CRAN Package 'facebookadsR' (Access to Facebook Ads via the 'Windsor.ai' API) Collect marketing data from facebook Ads using the 'Windsor.ai' API . Use four spaces when indenting paragraphs within the Description. 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Package: r-cran-facilityepimath Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-facilityepimath_0.1.0-1.ca2004.1_all.deb Size: 68292 MD5sum: acb0a405eb55516cde878959c84119af SHA1: d4b5702ae954f8a435ffdfeb2f1afcb5a4586bf2 SHA256: 3ecfbe1751d4cbcf87054a82922050fc1365bdf7f0209f95f9a93982b29a72b3 SHA512: 896a6a35f9f9843e65b53f73c6f0e248c4ad4d72686f9085c3d9603a5232e6308771efd74931e2def8a32b69ee13bb17ef095741d5fc0587f868dae72f905b61 Homepage: https://cran.r-project.org/package=facilityepimath Description: CRAN Package 'facilityepimath' (Analyze Mathematical Models of Healthcare Facility Transmission) Calculate useful quantities for a user-defined differential equation model of infectious disease transmission among individuals in a healthcare facility. Input rates of transition between states of individuals with and without the disease-causing organism, distributions of states at facility admission, relative infectivity of transmissible states, and the facility length of stay distribution. Calculate the model equilibrium and the basic facility reproduction number, as described in Toth et al. (2025) . Package: r-cran-facmodcs Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 628 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-xts, r-cran-zoo, r-cran-performanceanalytics, r-cran-lattice, r-cran-sn, r-cran-tseries, r-cran-robustbase, r-cran-robstattm Suggests: r-cran-pcra, r-cran-corrplot, r-cran-lmtest, r-cran-rugarch, r-cran-hh Filename: pool/dists/focal/main/r-cran-facmodcs_1.0-1.ca2004.1_all.deb Size: 419960 MD5sum: 06cf31e740333f60da56a11639cb6c95 SHA1: 068c59571c6f7eb09aa8ceb9e3d4e716f3677eaa SHA256: fcac436f62dc3a07bb68ec8524e205cdccb795e6293fbd91bd849b32440e69db SHA512: 4a661ab4ae7717a98fcbbaec9b1dda680b1685664085fd16c2791e3ee8469b8cf6e9003425e9746a19cc4937a53669668e0bcd6dae0b1e58641ff18e345545e2 Homepage: https://cran.r-project.org/package=facmodCS Description: CRAN Package 'facmodCS' (Cross-Section Factor Models) Linear cross-section factor model fitting with least-squares and robust fitting the 'lmrobdetMM()' function from 'RobStatTM'; related volatility, Value at Risk and Expected Shortfall risk and performance attribution (factor-contributed vs idiosyncratic returns); tabular displays of risk and performance reports; factor model Monte Carlo. The package authors would like to thank Chicago Research on Security Prices,LLC for the cross-section of about 300 CRSP stocks data (in the data.table object 'stocksCRSP', and S&P GLOBAL MARKET INTELLIGENCE for contributing 14 factor scores (a.k.a "alpha factors".and "factor exposures") fundamental data on the 300 companies in the data.table object 'factorSPGMI'. The 'stocksCRSP' and 'factorsSPGMI' data are not covered by the GPL-2 license, are not provided as open source of any kind, and they are not to be redistributed in any form. Package: r-cran-facmodts Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-data.table, r-cran-lars, r-cran-lattice, r-cran-leaps, r-cran-performanceanalytics, r-cran-portfolioanalytics, r-cran-r.cache, r-cran-corpcor, r-cran-quadprog, r-cran-robstattm, r-cran-robustbase, r-cran-sandwich, r-cran-sn, r-cran-xts, r-cran-zoo Suggests: r-cran-corrplot, r-cran-hh, r-cran-lmtest, r-cran-r.rsp, r-cran-rugarch, r-cran-strucchange, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-facmodts_1.0-1.ca2004.1_all.deb Size: 245676 MD5sum: 45574f046c4584e44e772ae596c6817b SHA1: aee3d39c64498a7776805ae03049d505869c51b7 SHA256: cce328e0fe450bcf1fab7c9adce4050ad7854d9cc0a4c92cc1c303a8cc13c0d8 SHA512: 4881bb701889903d158f58232630b60fd0da839b050806f1b52ef5be737ec9880ea2128c07beb0ea942c41dfe2fa449b309752f543db3b549916476932b0bdc3 Homepage: https://cran.r-project.org/package=facmodTS Description: CRAN Package 'facmodTS' (Time Series Factor Models for Asset Returns) Supports teaching methods of estimating and testing time series factor models for use in robust portfolio construction and analysis. Unique in providing not only classical least squares, but also modern robust model fitting methods which are not much influenced by outliers. Includes returns and risk decompositions, with user choice of standard deviation, value-at-risk, and expected shortfall risk measures. "Robust Statistics Theory and Methods (with R)", R. A. Maronna, R. D. Martin, V. J. Yohai, M. Salibian-Barrera (2019) . Package: r-cran-facpad Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rlab, r-cran-mass Filename: pool/dists/focal/main/r-cran-facpad_3.0-1.ca2004.1_all.deb Size: 35892 MD5sum: d06440032853723c4af995ba325a6fd1 SHA1: c32f6708026c36c37e82660aa33e9c47a51a8bed SHA256: dc964d308f8374f1fd82473b2de34786603cdf92073afd8e93d5c11866ec44f2 SHA512: 6aa811a72728ad0ac0ddf22a50eb86739f95d0a70902a586bbd8b7fba4f377ace57b396c11c0cafeac1399dc2a7f9e0432c42a55e9f68b558611692cb7978799 Homepage: https://cran.r-project.org/package=FacPad Description: CRAN Package 'FacPad' (Bayesian Sparse Factor Analysis model for the inference ofpathways responsive to drug treatment) This method tries to explain the gene-wise treatment response ratios in terms of the latent pathways. It uses bayesian sparse factor modeling to infer the loadings (weights) of each pathway on its associated probesets as well as the latent factor activity levels for each treatment. Package: r-cran-fact Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-ggplot2, r-cran-gridextra, r-cran-r6, r-cran-iml Suggests: r-cran-testthat, r-cran-caret, r-cran-covr, r-cran-knitr, r-cran-mlr3, r-cran-mlr3cluster, r-cran-rmarkdown, r-cran-fuzzydbscan, r-cran-factoextra, r-cran-patchwork, r-cran-spelling Filename: pool/dists/focal/main/r-cran-fact_0.1.1-1.ca2004.1_all.deb Size: 206348 MD5sum: b9516d4ffae7d5f9acbcfa484279ad68 SHA1: d733bd1566a6d2bd6256d1f441ee257aaf9fc4ec SHA256: 393b4f7f2c58bc43eec5a556bf6e3394488ccb6c39cbffd4d6e1267e8552d70f SHA512: b96b43b692cc13206cdbb38d836c387d1187e5eb57768959cf853636890ac0f105636133135fcdcb149bb48f16876ff0cd232dee088924938225f54d2bce59a0 Homepage: https://cran.r-project.org/package=FACT Description: CRAN Package 'FACT' (Feature Attributions for ClusTering) We present 'FACT' (Feature Attributions for ClusTering), a framework for unsupervised interpretation methods that can be used with an arbitrary clustering algorithm. The package is capable of re-assigning instances to clusters (algorithm agnostic), preserves the integrity of the data and does not introduce additional models. 'FACT' is inspired by the principles of model-agnostic interpretation in supervised learning. Therefore, some of the methods presented are based on 'iml', a R Package for Interpretable Machine Learning by Christoph Molnar, Giuseppe Casalicchio, and Bernd Bischl (2018) . Package: r-cran-factiv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 217 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-generics, r-cran-formula Suggests: r-cran-tibble, r-cran-dplyr, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-factiv_0.1.0-1.ca2004.1_all.deb Size: 150892 MD5sum: 57b8ddc291580f8dd6ef14aea43ce823 SHA1: 73685c06b409c95341167143d4a7a47c77141586 SHA256: 4d1c1a54c6170bfe77b23dc9a032920cc3bea0e33bb8ce17c0a6ba177fb72573 SHA512: 26560c36ebf83fad96d2e69aaa5dc766a1b12730dda5dd5011d589813209d05675937dcc812652272c3b7824b3a993356c5f64af0368849b103658dff062b44b Homepage: https://cran.r-project.org/package=factiv Description: CRAN Package 'factiv' (Instrumental Variables Estimation for 2^k Factorial Experiments) Implements instrumental variable estimators for 2^K factorial experiments with noncompliance. Package: r-cran-factmixtanalysis Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-factmixtanalysis_1.0-1.ca2004.1_all.deb Size: 43400 MD5sum: b7aceaa0b47a6572691e5319efaa0c92 SHA1: b90855422651c56f3746a8393f55ab894d6f4039 SHA256: 91f609e4d9a23da576f6943ed72a7e16262a7d7e726c397af166762dd990c31a SHA512: 8b4b4753f4a77d539574b757f2b4f114eed14accacd0fc3bdc4bf1a07fd23b671c61da87fd6515fe43620631a6fd93f466efa53d1b64bed4f8adee5a7d884346 Homepage: https://cran.r-project.org/package=FactMixtAnalysis Description: CRAN Package 'FactMixtAnalysis' (Factor Mixture Analysis with covariates) The package estimates Factor Mixture Analysis via the EM algorithm Package: r-cran-factmle Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rarpack Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-factmle_1.1-1.ca2004.1_all.deb Size: 21196 MD5sum: 02c25a0f37ac0afe166cf52e71e62e59 SHA1: 47a672c117f76d037327fc586baf15ee53967a52 SHA256: c4d6887220578ea31a8d4b408adb3f517777aee15905505bfdc30f7c30ae70f7 SHA512: 45cedeb0f4096878d9f251bf8085fd03eb369346fffbc0f4293da71ce202edf1da2d2342558d56d8c1581ae7ef573e351e3f939044e7dfe6a583292af53290aa Homepage: https://cran.r-project.org/package=FACTMLE Description: CRAN Package 'FACTMLE' (Maximum Likelihood Factor Analysis) Perform Maximum Likelihood Factor analysis on a covariance matrix or data matrix. Package: r-cran-factoextra Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 460 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-abind, r-cran-cluster, r-cran-dendextend, r-cran-factominer, r-cran-reshape2, r-cran-ggrepel, r-cran-tidyr Suggests: r-cran-ade4, r-cran-ca, r-cran-igraph, r-cran-mass, r-cran-knitr, r-cran-mclust Filename: pool/dists/focal/main/r-cran-factoextra_1.0.7-1.ca2004.1_all.deb Size: 415320 MD5sum: 8637385ce63cfc8208f4d13c860c604e SHA1: 27ce44336194c7d2164c8a6016a69a577626076e SHA256: f7e12b043a1c9c7cc63ef58fae728d88e37304dd432464b49ecab45c9d079349 SHA512: 550cf14de7cd3e840241d0ffe02cf7dcdc67fa377328faeec6ff9995232d9fdb2527ba12c9dee8f644716a8841af74e2ec180f8060de2c4d13ef0af869f04f7f Homepage: https://cran.r-project.org/package=factoextra Description: CRAN Package 'factoextra' (Extract and Visualize the Results of Multivariate Data Analyses) Provides some easy-to-use functions to extract and visualize the output of multivariate data analyses, including 'PCA' (Principal Component Analysis), 'CA' (Correspondence Analysis), 'MCA' (Multiple Correspondence Analysis), 'FAMD' (Factor Analysis of Mixed Data), 'MFA' (Multiple Factor Analysis) and 'HMFA' (Hierarchical Multiple Factor Analysis) functions from different R packages. It contains also functions for simplifying some clustering analysis steps and provides 'ggplot2' - based elegant data visualization. Package: r-cran-factoinvestigate Architecture: all Version: 1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 331 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-factominer, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-factoinvestigate_1.9-1.ca2004.1_all.deb Size: 262656 MD5sum: f4584b87487c41f802ac55cb490ff051 SHA1: 04a6925a41dc1e8a13198059a86c4de7a12cdef4 SHA256: a7bef2adf9a7bf34dc160d32790ae373a1c95d8c17c73aa6df2f71761aa3b879 SHA512: e90a4981856cb38087c695b3bc4c2886a32c78593b858acee91d7008107ea67c2b0a1f236ab559d5cb146b38601023a8dd2ed884f53c5478945c9096856773d5 Homepage: https://cran.r-project.org/package=FactoInvestigate Description: CRAN Package 'FactoInvestigate' (Automatic Description of Factorial Analysis) Brings a set of tools to help and automatically realise the description of principal component analyses (from 'FactoMineR' functions). Detection of existing outliers, identification of the informative components, graphical views and dimensions description are performed threw dedicated functions. The Investigate() function performs all these functions in one, and returns the result as a report document (Word, PDF or HTML). Package: r-cran-factoptd Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-partitions Filename: pool/dists/focal/main/r-cran-factoptd_1.0.3-1.ca2004.1_all.deb Size: 20584 MD5sum: 97a92b40206d6145857fdaaa367e5cc2 SHA1: 631a2950672b41335b99324298bf47b6f2fffe76 SHA256: b8667c9c62f8ea482ea19ddae025b443ef476460ba071334898ab02eb21b7611 SHA512: f2fcdddb63ef76519a67a17c666ec71a8975650ecf071ffea356c6ff9707b073e751df8106d5129031d96cad7c39ade01fe1b3da9ba7172dce9be762fa7399cb Homepage: https://cran.r-project.org/package=factoptd Description: CRAN Package 'factoptd' (Factorial Optimal Designs for Two-Colour cDNA MicroarrayExperiments) Computes factorial A-, D- and E-optimal designs for two-colour cDNA microarray experiments. Package: r-cran-factor.switching Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-coda, r-cran-hdinterval, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-factor.switching_1.4-1.ca2004.1_all.deb Size: 99200 MD5sum: acbf79ea045af5696f3e1b063bf993cc SHA1: aff38cfea4d4601fa397648609a3e9e7f96abb56 SHA256: 4ac7ae5a37a8838210c78504e017b073ad7e36e825b08c65ebd0de0ccedb7277 SHA512: 4a6297e299be3d460dda0920598173095097c08df3c9cc8a49b636d19381af43429ae8e30fb202447fa2a09d3ebe1f583261ed8900579f87a8e8aca10a11971e Homepage: https://cran.r-project.org/package=factor.switching Description: CRAN Package 'factor.switching' (Post-Processing MCMC Outputs of Bayesian Factor Analytic Models) A well known identifiability issue in factor analytic models is the invariance with respect to orthogonal transformations. This problem burdens the inference under a Bayesian setup, where Markov chain Monte Carlo (MCMC) methods are used to generate samples from the posterior distribution. The package applies a series of rotation, sign and permutation transformations (Papastamoulis and Ntzoufras (2022) ) into raw MCMC samples of factor loadings, which are provided by the user. The post-processed output is identifiable and can be used for MCMC inference on any parametric function of factor loadings. Comparison of multiple MCMC chains is also possible. Package: r-cran-factorassumptions Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-psych Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-factorassumptions_2.0.1-1.ca2004.1_all.deb Size: 31016 MD5sum: 728a42a33e55f68a52f70f72d79a414f SHA1: 829d4c76b5bc5c2ef16f9cb50569c372f1ba6bba SHA256: 94d75fbec3d4b4bdab34260752f3bef05567caaa81ad6ff147acc4bec43dba19 SHA512: 6e7bbcd13bd204a1b84fb891531547058764d37cc6ccc61c01b3f28b8bbd6fd9689fdc6f09c60eab540fab311e24d64ba655bbbc464c5fbd8cc9d292087a2cb9 Homepage: https://cran.r-project.org/package=FactorAssumptions Description: CRAN Package 'FactorAssumptions' (Set of Assumptions for Factor and Principal Component Analysis) Tests for Kaiser-Meyer-Olkin (KMO) and communalities in a dataset. It provides a final sample by removing variables in a iterable manner while keeping account of the variables that were removed in each step. It follows the best practices and assumptions according to Hair, Black, Babin & Anderson (2018, ISBN:9781473756540). Package: r-cran-factorex Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 619 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-arm, r-cran-genlasso, r-cran-prodlim, r-cran-sandwich, r-cran-igraph, r-cran-pbmcapply, r-cran-pbapply, r-cran-mvtnorm, r-cran-stringr, r-cran-doparallel, r-cran-foreach, r-cran-estimatr Filename: pool/dists/focal/main/r-cran-factorex_1.0.1-1.ca2004.1_all.deb Size: 477860 MD5sum: 64661b14ef7c0ce89734bd9556c5f933 SHA1: 6b5d11be03d75f5f16222548a5df37827ac4d0ec SHA256: 9aa645fdcdf1d140f6b135b840291130a148760e0a1c398aa4ddacd24f01a455 SHA512: 13c202f0cc2f72583e5b4269546d70cb48cab620573d579416e25e7457c8365ca6008137baebfb5e10ab136d0b520c082b253a22ec92e3f29693b1ff15a07da6 Homepage: https://cran.r-project.org/package=factorEx Description: CRAN Package 'factorEx' (Design and Analysis for Factorial Experiments) Provides design-based and model-based estimators for the population average marginal component effects in general factorial experiments, including conjoint analysis. The package also implements a series of recommendations offered in de la Cuesta, Egami, and Imai (2019+), and Egami and Imai (2019) . Package: r-cran-factorial2x2 Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-factorial2x2_0.2.0-1.ca2004.1_all.deb Size: 143708 MD5sum: a630e23e9b932c370e4e6916bcfe6790 SHA1: 02d4d3df53b417cd2473deeb24fd229652b60f65 SHA256: 013b7c12eea5326a493bb207a491513e75992d51d0aaaf2e1481af07a2d8ac15 SHA512: b9b7f97c4a08854de1b744c27d85965379be9a1f880521e91b4ad7920b99e4a6c3699c95e2f73e8096eb01cd57a8863a11707dbd616de1a4c0e8de6d32769a7f Homepage: https://cran.r-project.org/package=factorial2x2 Description: CRAN Package 'factorial2x2' (Design and Analysis of a 2x2 Factorial Trial) Used for the design and analysis of a 2x2 factorial trial for a time-to-event endpoint. It performs power calculations and significance testing as well as providing estimates of the relevant hazard ratios and the corresponding 95% confidence intervals. Important reference papers include Slud EV. (1994) Lin DY, Gong J, Gallo P, Bunn PH, Couper D. (2016) Leifer ES, Troendle JF, Kolecki A, Follmann DA. (2020) . Package: r-cran-factormerger Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2961 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-reshape2, r-cran-colorramps, r-cran-proxy, r-cran-mass, r-cran-ggpubr, r-cran-scales, r-cran-mvtnorm, r-cran-knitr, r-cran-magrittr, r-cran-survival, r-cran-agricolae, r-cran-forcats, r-cran-formula.tools Suggests: r-cran-survminer, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-factormerger_0.4.0-1.ca2004.1_all.deb Size: 2265480 MD5sum: d021571ee37b321a38290955f63b4e81 SHA1: 9810f6122d2827a360007ad54d724a3054ab317d SHA256: 415d0e2009ba9cc185f61c18bf6b46aa0155e8b727b3fe874d7d241e5010c740 SHA512: e69958d170e0e97059156ce5d7179f73d89f42fe4d6c67c50705a7257766c996a0ecb9cf1fe457c788dad9837583032de4fbdf21089e4a920d6827f328431d5e Homepage: https://cran.r-project.org/package=factorMerger Description: CRAN Package 'factorMerger' (The Merging Path Plot) The Merging Path Plot is a methodology for adaptive fusing of k-groups with likelihood-based model selection. This package contains tools for exploration and visualization of k-group dissimilarities. Comparison of k-groups is one of the most important issues in exploratory analyses and it has zillions of applications. The traditional approach is to use pairwise post hoc tests in order to verify which groups differ significantly. However, this approach fails with a large number of groups in both interpretation and visualization layer. The Merging Path Plot solves this problem by using an easy-to-understand description of dissimilarity among groups based on Likelihood Ratio Test (LRT) statistic (Sitko, Biecek 2017) . 'factorMerger' is a part of the 'DrWhy.AI' universe (Biecek 2018) . Work on this package was financially supported by the 'NCN Opus grant 2016/21/B/ST6/02176'. 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The adaptation procedure uses the specified causal graph to pre-process the given training and testing data in such a way to remove the bias caused by the protected attribute. The procedure uses tree ensembles for quantile regression. Instructions for using the methods are further elaborated in the corresponding JSS manuscript, see . 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Package: r-cran-fairmclus Architecture: all Version: 2.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-irr, r-cran-rlist, r-cran-tidyr, r-cran-magrittr, r-cran-cluster, r-cran-data.table, r-cran-foreach, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-fairmclus_2.2.1-1.ca2004.1_all.deb Size: 26884 MD5sum: 800a3a32d6f105243ed3290ecf9a8e24 SHA1: 04e1b26c9ef9061b0c969f3a09cd4628c1e4486a SHA256: d6b539082cdae0b49684cdc7b0ed61cc407bbc66c178ea6b5899fcd6ddbc21be SHA512: dfe55321cc81c10fd56cea7e85b89e8836eb24e6bb1fc330fe914447aac8ea5fea5e4ba26c2208afd8d52f7b3119dfb7e4b1ce61243eb31a1bb38357de823ae5 Homepage: https://cran.r-project.org/package=FairMclus Description: CRAN Package 'FairMclus' (Clustering for Data with Sensitive Attribute) Clustering for categorical and mixed-type of data, to preventing classification biases due to race, gender or others sensitive attributes. 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The package supports the evaluation of group-level fairness criterion commonly used in fairness research, particularly in healthcare. It is based on the overview of fairness in machine learning written by Gao et al (2024) . 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Fair machine learning is an emerging topic with the overarching aim to critically assess whether ML algorithms reinforce existing social biases. Unfair algorithms can propagate such biases and produce predictions with a disparate impact on various sensitive groups of individuals (defined by sex, gender, ethnicity, religion, income, socioeconomic status, physical or mental disabilities). Fair algorithms possess the underlying foundation that these groups should be treated similarly or have similar prediction outcomes. The fairness R package offers the calculation and comparisons of commonly and less commonly used fairness metrics in population subgroups. These methods are described by Calders and Verwer (2010) , Chouldechova (2017) , Feldman et al. (2015) , Friedler et al. (2018) and Zafar et al. (2017) . The package also offers convenient visualizations to help understand fairness metrics. 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Methods also model heterogeneity of disease risk across families by fitting a mixture model, allowing for high and low risk families. Package: r-cran-fam2r Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 445 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-familias, r-cran-paramlink Filename: pool/dists/focal/main/r-cran-fam2r_1.2-1.ca2004.1_all.deb Size: 396228 MD5sum: bd0a82a4174c13eca73eb51abbd215e9 SHA1: fddf3cd501a6bda68f3e418f43167b41a0f0e39b SHA256: 23fee940f64646c7d45255b293a1529febe640b237561b8540fbba3528940727 SHA512: 1d260ba23a5a5e346d0e57b8daef7ef9b0cbf56cefe824a279cd8ff11b95eabe801a8ded4baca7c34216fd888c2e02f5d4588916d21f3e4eeefab1019d6cb0c8 Homepage: https://cran.r-project.org/package=fam2r Description: CRAN Package 'fam2r' (From 'Familias' to R) Functionality provided for conditional simulation, likelihoods and plotting of pedigrees, mostly as a wrapper for 'paramlink'. Users typically start by exporting from the Windows version of 'Familias'. Package: r-cran-fameta Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 591 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lipidms, r-cran-rmarkdown, r-cran-knitr, r-cran-accucor, r-cran-scales, r-cran-gtools, r-cran-minpack.lm, r-cran-tidyr, r-cran-plyr, r-cran-gplots Filename: pool/dists/focal/main/r-cran-fameta_0.1.6-1.ca2004.1_all.deb Size: 411192 MD5sum: e48e9b534283045e8a8d71e8e58fc63b SHA1: 31631d82fdb5f86ab4fb08e91dbe79e6962e1bbc SHA256: dd5861ce6ade0ae59d0ec9efb198ac61bb9ef26319e51d500cb1148de4438e72 SHA512: 95d2942e39dcff6798c52b5e6c94bdabdae834255c6fb0490107000c123ceadfefba8ab8d119ca0b01f4c27664e4c64da1f8a5bacddf4f5e969aaf460464e346 Homepage: https://cran.r-project.org/package=FAMetA Description: CRAN Package 'FAMetA' (Fatty Acid Metabolic Analysis) Fatty acid metabolic analysis aimed to the estimation of FA import (I), de novo synthesis (S), fractional contribution of the 13C-tracers (D0, D1, D2), elongation (E) and desaturation (Des) based on mass isotopologue data. Package: r-cran-famevent Architecture: all Version: 3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 596 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-mass, r-cran-kinship2, r-cran-truncnorm, r-cran-eha, r-cran-pracma, r-cran-cmprsk, r-cran-matrixcalc Filename: pool/dists/focal/main/r-cran-famevent_3.2-1.ca2004.1_all.deb Size: 550152 MD5sum: 18a210ec042bebd1b2f362b93840120a SHA1: c1dd3470b503b2e5fbb6b9753273df972614d782 SHA256: 3a61cd8003d19f4f273c87680c7d0c113eb8a8f8010a028432a4dcc78001c286 SHA512: 8c91272afe127a78cbcc66834db06aa032880addb3241ded6f6e04240ed7560fda708f867e4acd500ce077ade750c3f98e8fddf7204e0e58bd4073edf9cb9571 Homepage: https://cran.r-project.org/package=FamEvent Description: CRAN Package 'FamEvent' (Family Age-at-Onset Data Simulation and Penetrance Estimation) Simulates age-at-onset traits associated with a segregating major gene in family data obtained from population-based, clinic-based, or multi-stage designs. Appropriate ascertainment correction is utilized to estimate age-dependent penetrance functions either parametrically from the fitted model or nonparametrically from the data. The Expectation and Maximization algorithm can infer missing genotypes and carrier probabilities estimated from family's genotype and phenotype information or from a fitted model. Plot functions include pedigrees of simulated families and predicted penetrance curves based on specified parameter values. For more information see Choi, Y.-H., Briollais, L., He, W. and Kopciuk, K. (2021) FamEvent: An R Package for Generating and Modeling Time-to-Event Data in Family Designs, Journal of Statistical Software 97 (7), 1-30. Package: r-cran-familial Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-depthproc, r-cran-matrixstats Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-mass Filename: pool/dists/focal/main/r-cran-familial_1.0.7-1.ca2004.1_all.deb Size: 76412 MD5sum: 83a513c39493270231f732167fffd087 SHA1: 5bb8c31bcbc21293b499f6849454760078de670f SHA256: 58998fe899bb6d27dcff58680333309c155db2aeebdb4d69f1922755d7d45169 SHA512: 191b245b600e0bee9eab366595958b524fa0eabf415d0345c8792ddd7a1d61974cd59637379f3854a5b461585211f5944f17d8d4eaeec3511fc4dcaace3d838f Homepage: https://cran.r-project.org/package=familial Description: CRAN Package 'familial' (Statistical Tests of Familial Hypotheses) Provides functionality for testing familial hypotheses. Supports testing centers belonging to the Huber family. Testing is carried out using the Bayesian bootstrap. One- and two-sample tests are supported, as are directional tests. Methods for visualizing output are provided. Package: r-cran-familiar Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5858 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-rlang, r-cran-rstream, r-cran-survival Suggests: r-cran-bart, r-cran-callr, r-cran-cluster, r-cran-corelearn, r-cran-coro, r-cran-dynamictreecut, r-cran-e1071, r-cran-ecdat, r-cran-fastcluster, r-cran-fastglm, r-cran-ggplot2, r-cran-glmnet, r-cran-gtable, r-cran-harmonicmeanp, r-cran-isotree, r-cran-knitr, r-cran-labeling, r-cran-lagp, r-cran-mass, r-cran-maxstat, r-cran-mboost, r-cran-microbenchmark, r-cran-nnet, r-cran-partykit, r-cran-power.transform, r-cran-praznik, r-cran-proxy, r-bioc-qvalue, r-cran-randomforestsrc, r-cran-ranger, r-cran-rmarkdown, r-cran-scales, r-cran-testthat, r-cran-xml2, r-cran-vgam, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-familiar_1.5.0-1.ca2004.1_all.deb Size: 4048972 MD5sum: ad331ea0d39bfcfaf6d9e39a0e7c2563 SHA1: 8845fe74a74b56f14d0c626f140a6f433ffc47b8 SHA256: e28911cb87e6e3eefde54e6d589fd1c868d65e5f21420af3e55a288b09f761d8 SHA512: 3f2981b60cc6379fd0926ef5cb4f2209f19cdc6efdd245421af3b74a3bc2311bade046e3bd992ac7ed209a0a8d7b65da631444184bd2515d154db8192381acb0 Homepage: https://cran.r-project.org/package=familiar Description: CRAN Package 'familiar' (End-to-End Automated Machine Learning and Model Evaluation) Single unified interface for end-to-end modelling of regression, categorical and time-to-event (survival) outcomes. Models created using familiar are self-containing, and their use does not require additional information such as baseline survival, feature clustering, or feature transformation and normalisation parameters. Model performance, calibration, risk group stratification, (permutation) variable importance, individual conditional expectation, partial dependence, and more, are assessed automatically as part of the evaluation process and exported in tabular format and plotted, and may also be computed manually using export and plot functions. Where possible, metrics and values obtained during the evaluation process come with confidence intervals. Package: r-cran-families Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 566 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-msm, r-cran-reshape, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-lubridate, r-cran-xml2, r-cran-plyr, r-cran-virtualpop Filename: pool/dists/focal/main/r-cran-families_2.0.2-1.ca2004.1_all.deb Size: 478832 MD5sum: f5de76bed1d9a689b7f9b091ea507bcd SHA1: 2d373d9aee476070cb071a17d01242feb3e529e3 SHA256: 38e8fcbf1ef2c09268b63c604c4eacad7e48eb88ed9e11931a962f2dd4682378 SHA512: 089f14709188dcf7bc306cfc8702b6bb4b8763da91189c061625f573dd712346dbbfb6adc96279dbed5ed3bf0e931c90fab9dfe020d7a413f7371cb9238a2393 Homepage: https://cran.r-project.org/package=Families Description: CRAN Package 'Families' (Kinship Ties in (Virtual) Multi-Generation Populations) Tools to study lineages, grandparenthood, loss of close relatives, kinship networks and other topics in multi-generation populations. Package: r-cran-family Architecture: all Version: 0.1.19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pheatmap, r-cran-proc Filename: pool/dists/focal/main/r-cran-family_0.1.19-1.ca2004.1_all.deb Size: 93064 MD5sum: 164f1c606cba43ffb4e805c7033d1b24 SHA1: d0fa3379e24be115ab92b32137feaed9ba4d5d54 SHA256: 3a1802996ee8d6d67958602c14b2af33df04167b2e79b7fe3f5c735e9ee4eb16 SHA512: 6a5f64b00e84acb350b807adf7e64ab018a8a9aa41b961b5b8841808549470c64b72b42b38ef4b86eea0591f2f50864782287ab2b0381f476085315393e8b1cc Homepage: https://cran.r-project.org/package=FAMILY Description: CRAN Package 'FAMILY' (A Convex Formulation for Modeling Interactions with StrongHeredity) Fits penalized linear and logistic regression models with pairwise interaction terms. Package: r-cran-famos Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-future, r-cran-r.utils Suggests: r-cran-future.batchtools, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-famos_0.3.1-1.ca2004.1_all.deb Size: 152156 MD5sum: 8776919ab9261d21c84cf75e0f0cbaa9 SHA1: 191d5c2ad19c014351137a77c006a55ecdb6ef23 SHA256: 9bcc318c299594f3bb4beec4f6c1ebb5495d38fc33299e4fc978bfd8cbf52573 SHA512: 9892d97b271e66858f61a5cee6cf56fa831a7f795360789a85464061f8e886368b2e0cfee239e68c728437443b479ff3658e78c063f19ba0436cb95f40207a7a Homepage: https://cran.r-project.org/package=FAMoS Description: CRAN Package 'FAMoS' (A Flexible Algorithm for Model Selection) Given a set of parameters describing model dynamics and a corresponding cost function, FAMoS performs a dynamic forward-backward model selection on a specified selection criterion. It also applies a non-local swap search method. Works on any cost function. For detailed information see Gabel et al. (2019) . Package: r-cran-famskatrc Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-compquadform, r-cran-kinship2, r-cran-coxme, r-cran-bdsmatrix Filename: pool/dists/focal/main/r-cran-famskatrc_1.1.0-1.ca2004.1_all.deb Size: 40380 MD5sum: 9508f49c02ae9815328f8e8b352d03a7 SHA1: 72b6743b222cd900d57ece1602873cb3a32a5e41 SHA256: 1cc0e8554e85a5808d73668fc44305830afa4e4977ce68ee202093ac3c979ab6 SHA512: 02006eca2b0fc19da1f9f4b4db58365acaf11c1957aa9894c186f7d7749bd54d206a424ab82ceaf7979c9be396b2f96bcb05ccf1fdfa319e9ddfe1291d1dffc5 Homepage: https://cran.r-project.org/package=famSKATRC Description: CRAN Package 'famSKATRC' (Family Sequence Kernel Association Test for Rare and CommonVariants) FamSKAT-RC is a family-based association kernel test for both rare and common variants. This test is general and several special cases are known as other methods: famSKAT, which only focuses on rare variants in family-based data, SKAT, which focuses on rare variants in population-based data (unrelated individuals), and SKAT-RC, which focuses on both rare and common variants in population-based data. When one applies famSKAT-RC and sets the value of phi to 1, famSKAT-RC becomes famSKAT. When one applies famSKAT-RC and set the value of phi to 1 and the kinship matrix to the identity matrix, famSKAT-RC becomes SKAT. When one applies famSKAT-RC and set the kinship matrix (fullkins) to the identity matrix (and phi is not equal to 1), famSKAT-RC becomes SKAT-RC. We also include a small sample synthetic pedigree to demonstrate the method with. For more details see Saad M and Wijsman EM (2014) . Package: r-cran-famt Architecture: all Version: 2.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3448 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mnormt, r-bioc-impute Filename: pool/dists/focal/main/r-cran-famt_2.6-1.ca2004.1_all.deb Size: 3440076 MD5sum: 39ebeee556fb1ec372d746105a8b2fb0 SHA1: 6ad73bc7636e054b7a9479084eaf211226fef898 SHA256: 9551eb61a137903338a05cf3d52756e597cc88ae373ceb5f5fb99c2fb613d407 SHA512: 46841bf3347dea25bf183bba22276a8578a7303a7205f83a170005e9641b8ab63904cba712ad1cc9bcb0e84f39a86f0d0209e1c728b3182d2d9d058632070407 Homepage: https://cran.r-project.org/package=FAMT Description: CRAN Package 'FAMT' (Factor Analysis for Multiple Testing (FAMT) : Simultaneous Testsunder Dependence in High-Dimensional Data) The method proposed in this package takes into account the impact of dependence on the multiple testing procedures for high-throughput data as proposed by Friguet et al. (2009). The common information shared by all the variables is modeled by a factor analysis structure. The number of factors considered in the model is chosen to reduce the false discoveries variance in multiple tests. The model parameters are estimated thanks to an EM algorithm. Adjusted tests statistics are derived, as well as the associated p-values. The proportion of true null hypotheses (an important parameter when controlling the false discovery rate) is also estimated from the FAMT model. Graphics are proposed to interpret and describe the factors. Package: r-cran-fancova Architecture: all Version: 0.6-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fancova_0.6-1-1.ca2004.1_all.deb Size: 98140 MD5sum: f8f9f716fe5b7b8f5fad8e4bdcc60c3c SHA1: 58580d984e928b4eb6ce260b1525ec77a7733b2d SHA256: 318cdab1cdca7acf7d09463d64f53d0c01d207e990b18703e6f812ad8fc02e3f SHA512: 337d65ce0b202a1286f08c1c226c50eb87078fee198cfed4fe87b9b99d32d4c92df817846677c3553015003df6be2925cde050e975e07265901db03c27eb02f2 Homepage: https://cran.r-project.org/package=fANCOVA Description: CRAN Package 'fANCOVA' (Nonparametric Analysis of Covariance) A collection of R functions to perform nonparametric analysis of covariance for regression curves or surfaces. 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The interactive function plotManipulate() can only be run on the 'RStudio IDE' with 'RStudio' package 'manipulate' loaded. 'RStudio' is freely available (), and includes package 'manipulate'. The equivalent function plotTk() bases on CRAN Repository packages only. For further information on the method see Fruth, J., Roustant, O., Kuhnt, S. (2014) . 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For example, by translating error messages and descriptive analysis results into a language familiar to the user, it enables a better understanding of the information, thereby reducing the barriers caused by language. It offers several helper functions to query gene information to help interpretation of interested genes (e.g., marker genes, differential expression genes), and provides utilities to translate 'ggplot' graphics. This package is not affiliated with any of the online translators. The developers do not take responsibility for the invoice it incurs when using this package, especially for exceeding the free quota. 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B., LaBrish, C. & Chalmers, R. P., 2012, ). Package: r-cran-faq Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-faq_0.1.1-1.ca2004.1_all.deb Size: 28008 MD5sum: 8a7cc670f998a7507645e2f7358524bd SHA1: 8bf6c7fc9a4671c6a35b0f6acdd205f19a95ed29 SHA256: 81722f308d2de242fe75b0a652a46a1fcc67fcb498d0a11c19468e6dbd89535a SHA512: 1d95b919066c9485de3218279ab3a6872a041cb036e415ea6ca14d11735045750aede2579245269cc1e32cb3c3964546f6bdef8ca7e0d63ff43c4eb009f96afc Homepage: https://cran.r-project.org/package=faq Description: CRAN Package 'faq' (Create FAQ Page) Create Frequently Asked Questions page for Shiny application. Package: r-cran-faraway Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 892 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-nlme Suggests: r-cran-leaps Filename: pool/dists/focal/main/r-cran-faraway_1.0.9-1.ca2004.1_all.deb Size: 767364 MD5sum: 19185ed03c22c940e40e8c8e85e4caca SHA1: 831c5006f443cc35ae915c84d6fe1486e9d70e61 SHA256: 35cba42396305d734094c5052c793af289a12932c0630cdce5b28fc0f743c3c7 SHA512: 8794b775f6d750e52a2ef7c67f398e8eb3a4a718055675e0cd09f40679f799be0c42b8d2654eae5c7a38d3c9a167e3f14421e21df4d7d74137a9f5b29561fd58 Homepage: https://cran.r-project.org/package=faraway Description: CRAN Package 'faraway' (Datasets and Functions for Books by Julian Faraway) Books are "Linear Models with R" published 1st Ed. August 2004, 2nd Ed. July 2014, 3rd Ed. February 2025 by CRC press, ISBN 9781439887332, and "Extending the Linear Model with R" published by CRC press in 1st Ed. December 2005 and 2nd Ed. March 2016, ISBN 9781584884248 and "Practical Regression and ANOVA in R" contributed documentation on CRAN (now very dated). 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Package: r-cran-fastlogitme Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fastlogitme_0.1.0-1.ca2004.1_all.deb Size: 24756 MD5sum: 7e76f5f197d74fd1f7297f0ad2c93502 SHA1: e8f9d0db8d792cd741e3fe4e33e9e442b357e4f4 SHA256: 82e72b3042d336a2d01c70a2cd1711d2f569feeeaf6b8ec707bd3f1e4b74dbeb SHA512: c88a693d070ca42463c40298e0a5c9860b76c9373465662512f09bee04409c9f7af3412bc12b56853bd8bfcb9943296e4724bdcba1a4395423e3e41fab0cd600 Homepage: https://cran.r-project.org/package=fastlogitME Description: CRAN Package 'fastlogitME' (Basic Marginal Effects for Logit Models) Calculates marginal effects based on logistic model objects such as 'glm' or 'speedglm' at the average (default) or at given values using finite differences. It also returns confidence intervals for said marginal effects and the p-values, which can easily be used as input in stargazer. The function only returns the essentials and is therefore much faster but not as detailed as other functions available to calculate marginal effects. As a result, it is highly suitable for large datasets for which other packages may require too much time or calculating power. Package: r-cran-fastmarching Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp, r-cran-raster, r-cran-rgdal Filename: pool/dists/focal/main/r-cran-fastmarching_1.1.0-1.ca2004.1_all.deb Size: 31188 MD5sum: f0d3b1f5c9c54fe6352ca3d417a02fd2 SHA1: 42eef63c6697fe9c4a29c801e9dd1a1b35e9b053 SHA256: f96db6eb4568364b439a80f3d12aaca0648fd2d5ca254391e67dd06b06336783 SHA512: aaca4dfa96903fe7545ca52add8ff617c3931453fa27378a9f0b7420dceb04345b2441414d84f856cb2067495f91916cbafc27b87c71e3aa53de2956a6d57296 Homepage: https://cran.r-project.org/package=fastmaRching Description: CRAN Package 'fastmaRching' (Fast Marching Method for Modelling Evolving Boundaries) Fast Marching Method (FMM) first developed by Sethian (1996) , and further extended by including a second-order approximation, the first-arrival rule, additive weights, and non-homogeneous domains following Silva and Steele (2012) and Silva and Steele (2014) . Package: r-cran-fastml Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 344 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-recipes, r-cran-dplyr, r-cran-ggplot2, r-cran-reshape2, r-cran-rsample, r-cran-parsnip, r-cran-tune, r-cran-workflows, r-cran-yardstick, r-cran-tibble, r-cran-rlang, r-cran-dials, r-cran-rcolorbrewer, r-cran-baguette, r-cran-bonsai, r-cran-discrim, r-cran-dofuture, r-cran-finetune, r-cran-future, r-cran-plsmod, r-cran-probably, r-cran-viridislite, r-cran-dalex, r-cran-magrittr, r-cran-patchwork, r-cran-proc, r-cran-janitor, r-cran-stringr, r-cran-dt, r-cran-ggally, r-cran-upsetr, r-cran-vim, r-cran-broom, r-cran-dbscan, r-cran-ggpubr, r-cran-gridextra, r-cran-htmlwidgets, r-cran-kableextra, r-cran-moments, r-cran-naniar, r-cran-plotly, r-cran-scales, r-cran-skimr, r-cran-tidyr, r-cran-knitr, r-cran-rmarkdown, r-cran-purrr, r-cran-mice, r-cran-missforest Suggests: r-cran-testthat, r-cran-c50, r-cran-glmnet, r-cran-xgboost, r-cran-ranger, r-cran-crayon, r-cran-kernlab, r-cran-klar, r-cran-kknn, r-cran-keras, r-cran-lightgbm, r-cran-rstanarm, r-bioc-mixomics Filename: pool/dists/focal/main/r-cran-fastml_0.6.1-1.ca2004.1_all.deb Size: 308872 MD5sum: 4fa2cdc00462e4d7e787c485eb8733b2 SHA1: 10fbf8c7095a81aae94c281f33522f542345cc47 SHA256: abb8700f1ff2cb9bc49f68c80659acf1b9e67afcc1b8b57c36e220b720777ee5 SHA512: 216d739bdd00ec6f3a3be365e47451a89d07f3d54e3256194988e0c80029d1abd37816f52b8ac2c6f2b330db58494b3df8a0a072ce99cbc1f597a0bda99283cb Homepage: https://cran.r-project.org/package=fastml Description: CRAN Package 'fastml' (Fast Machine Learning Model Training and Evaluation) Streamlines the training, evaluation, and comparison of multiple machine learning models with minimal code by providing comprehensive data preprocessing and support for a wide range of algorithms with hyperparameter tuning. It offers performance metrics and visualization tools to facilitate efficient and effective machine learning workflows. Package: r-cran-fastnaivebayes Architecture: all Version: 2.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1468 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fastnaivebayes_2.2.1-1.ca2004.1_all.deb Size: 1147740 MD5sum: 8e0680464f3e7db25962255e53b77f9c SHA1: b4a00a11c450da74a2c7443d07e966133eeee8ec SHA256: f921073703d3c8dec962bff9fb50c46f87191a2b60a1afa66c2d4abfced691d2 SHA512: 58eee0aa48d80b445437584d875a1f8fd9930d859daa282d9f47f39f59cc1004e83b2b8df371780c5780c1f32a7c0ca9722567b71cc08208c8f0d24aa59bae6f Homepage: https://cran.r-project.org/package=fastNaiveBayes Description: CRAN Package 'fastNaiveBayes' (Extremely Fast Implementation of a Naive Bayes Classifier) This is an extremely fast implementation of a Naive Bayes classifier. This package is currently the only package that supports a Bernoulli distribution, a Multinomial distribution, and a Gaussian distribution, making it suitable for both binary features, frequency counts, and numerical features. Another feature is the support of a mix of different event models. Only numerical variables are allowed, however, categorical variables can be transformed into dummies and used with the Bernoulli distribution. The implementation is largely based on the paper "A comparison of event models for Naive Bayes anti-spam e-mail filtering" written by K.M. Schneider (2003) . Any issues can be submitted to: . Package: r-cran-fastnet Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-igraph Filename: pool/dists/focal/main/r-cran-fastnet_1.0.0-1.ca2004.1_all.deb Size: 178132 MD5sum: 19d4615925651f7f17061fa0fb382fb6 SHA1: db7f7b482e9d00cdcb033168fc82842f1f389c32 SHA256: 740205f12b1cffe480c7ff3cd6eec399ca03085695a0449860555f506551d2b2 SHA512: 2d6aabd15a95d0612a80339fd9653e213cb0437583b9c93f9d821f7ddaae997cc1cbb08659f7960d32609705b8f2504f52aeb66a592e2ec3b3af890537db69b9 Homepage: https://cran.r-project.org/package=fastnet Description: CRAN Package 'fastnet' (Large-Scale Social Network Analysis) We present an implementation of the algorithms required to simulate large-scale social networks and retrieve their most relevant metrics. Details can be found in the accompanying scientific paper on the Journal of Statistical Software, . 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The algorithm is based on a modified cusum statistic and guarantees control of the type I error on any false discoveries, while featuring O(1) time and O(1) memory updates per series as well as a proven detection delay. Package: r-cran-fastpseudo Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-geepack Filename: pool/dists/focal/main/r-cran-fastpseudo_0.1-1.ca2004.1_all.deb Size: 14172 MD5sum: 8603d84d3c110c7e04ebe2abfe1ec387 SHA1: c8f9bb0632a4aa70759a8e1b2815b5e405c938b3 SHA256: 8885cdc909ec34e2c61096de7b0a38aea9f10442f237c861a7bb69cca935cd7a SHA512: 11bca00324631e8fe4c73bdb126344b29a45173f8bddff7911a9f23ce240ea00b10d05f50a5877ecc50dea0e21a8a0e29a3ef15f73d2db1e83cce89adfb89f7c Homepage: https://cran.r-project.org/package=fastpseudo Description: CRAN Package 'fastpseudo' (Fast Pseudo Observations) Computes pseudo-observations for survival analysis on right-censored data based on restricted mean survival time. 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It produces, for each sample, an html report and a compressed file containing the raw data. If you have hundreds of samples, you are not going to open up each 'HTML' page. You need some way of looking at these data in aggregate. 'fastqcr' Provides helper functions to easily parse, aggregate and analyze 'FastQC' reports for large numbers of samples. It provides a convenient solution for building a 'Multi-QC' report, as well as, a 'one-sample' report with result interpretations. 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Package: r-cran-fastrep Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 211 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-janitor, r-cran-kableextra, r-cran-lifecycle, r-cran-magrittr, r-cran-purrr, r-cran-tidyr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fastrep_0.7-1.ca2004.1_all.deb Size: 116632 MD5sum: b1bcad56b34d71f2ae2b17cf6c12849c SHA1: 28ec3dff473d1c28645e35aa169479ddd437cc6b SHA256: 28f1ef0786c541f748608e85dc1923193149aa82eb3dc51ad432498278da74ba SHA512: cafa7da2644dad46f9ebf99f6d258846408088bcf19ee7693411e217e7bfbb4723cdbd6f3312d75c41eec43d2616de9542ac79f009176f49a1bb36655a47e702 Homepage: https://cran.r-project.org/package=fastrep Description: CRAN Package 'fastrep' (Time-Saving Package for Creating Reports) Provides templates for reports in 'rmarkdown' and functions to create tables and summaries of data. 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Using a 'JAX' backend, the package enables exact rerandomization inference even for large experiments with hundreds of billions of possible randomizations. Key functionalities include generating pools of acceptable rerandomizations based on covariate balance, conducting exact randomization tests, and performing pre-analysis evaluations to determine optimal rerandomization acceptance thresholds. The package supports various hardware acceleration frameworks including 'CPU', 'CUDA', and 'METAL', making it versatile across accelerated computing environments. This allows researchers to efficiently implement stringent rerandomization designs and conduct valid inference even with large sample sizes. The package is partly based on Jerzak and Goldstein (2023) . Package: r-cran-fastret Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3074 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bslib, r-cran-caret, r-cran-cluster, r-cran-data.table, r-cran-digest, r-cran-dt, r-cran-future, r-cran-ggplot2, r-cran-glmnet, r-cran-htmltools, r-cran-promises, r-cran-rcdk, r-cran-readxl, r-cran-shiny, r-cran-shinybusy, r-cran-shinyhelper, r-cran-shinyjs, r-cran-xgboost, r-cran-xlsx Suggests: r-cran-cli, r-cran-devtools, r-cran-knitr, r-cran-languageserver, r-cran-lintr, r-cran-pkgdown, r-cran-pkgbuild, r-cran-pkgload, r-cran-rlang, r-cran-rmarkdown, r-cran-servr, r-cran-tibble, r-cran-testthat, r-cran-toscutil, r-cran-usethis, r-cran-withr Filename: pool/dists/focal/main/r-cran-fastret_1.1.4-1.ca2004.1_all.deb Size: 3024312 MD5sum: ce804bf4a4819f3f715ded7e3857900f SHA1: 52506dec4b023909ea410390e2252f4854e1829e SHA256: fd62cb566a46072c77529d100366a6fb95d7b6f3d816a0d7fcdf9a3fc329549e SHA512: 4cd2de4d1c22dfdc209ca29c7ced78e7f354a83147999b2c3943f83f76b707fca41656928d12dad8e1c4529f8cd7cacfdb09e4faaf3514058c498a3897ac0730 Homepage: https://cran.r-project.org/package=FastRet Description: CRAN Package 'FastRet' (Retention Time Prediction in Liquid Chromatography) A framework for predicting retention times in liquid chromatography. Users can train custom models for specific chromatography columns, predict retention times using existing models, or adjust existing models to account for altered experimental conditions. The provided functionalities can be accessed either via the R console or via a graphical user interface. Related work: Bonini et al. (2020) . Package: r-cran-fastrg Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 355 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix, r-cran-dplyr, r-cran-ellipsis, r-cran-ggplot2, r-cran-glue, r-cran-igraph, r-cran-rspectra, r-cran-tibble, r-cran-tidygraph, r-cran-tidyr Suggests: r-cran-covr, r-cran-knitr, r-cran-magrittr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fastrg_0.3.2-1.ca2004.1_all.deb Size: 297248 MD5sum: 300293a138429253fb30b9f5d45525e9 SHA1: f4083465f0bd8474428a53828ffeaf65d0fec109 SHA256: 1d8a27262f6bf499da54b2e0fb77984352e438183e0c7b230b2d0d34c1bb860c SHA512: b1accc7199b8b213e46d2d337ce539fcdd5e9d58f7b450ce6ac3c3e6fd201630e0dc49d383585a98402a8f71b55b60c8bf0807727a128c028ab47ebd0b1731a4 Homepage: https://cran.r-project.org/package=fastRG Description: CRAN Package 'fastRG' (Sample Generalized Random Dot Product Graphs in Linear Time) Samples generalized random product graphs, a generalization of a broad class of network models. Given matrices X, S, and Y with with non-negative entries, samples a matrix with expectation X S Y^T and independent Poisson or Bernoulli entries using the fastRG algorithm of Rohe et al. (2017) . The algorithm first samples the number of edges and then puts them down one-by-one. As a result it is O(m) where m is the number of edges, a dramatic improvement over element-wise algorithms that which require O(n^2) operations to sample a random graph, where n is the number of nodes. Package: r-cran-fastrhockey Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2091 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cli, r-cran-data.table, r-cran-dplyr, r-cran-glue, r-cran-httr, r-cran-janitor, r-cran-jsonlite, r-cran-lubridate, r-cran-magrittr, r-cran-progressr, r-cran-purrr, r-cran-rcpp, r-cran-rcppparallel, r-cran-rlang, r-cran-rvest, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-crayon, r-cran-curl, r-cran-dbi, r-cran-furrr, r-cran-future, r-cran-ggplot2, r-cran-ggrepel, r-cran-qs, r-cran-rmarkdown, r-cran-rsqlite, r-cran-stringi, r-cran-testthat, r-cran-usethis, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-fastrhockey_0.4.0-1.ca2004.1_all.deb Size: 2078660 MD5sum: a2db1635787c24997df0ad4eb310ca28 SHA1: 4accb678b17b22e5e2208a8e2f4be21f4c649e64 SHA256: 28710a60e36c0c793c6754103cf101eac7c7519da0d80e9601b7049563817d20 SHA512: b9379c52f042bc021015452dbe1e0731392e6160fed7ae48e134bafc244e781c745711a17e4fdf586fcb55c39a96aca45cbd84442a46d58dd86743b73c301e29 Homepage: https://cran.r-project.org/package=fastRhockey Description: CRAN Package 'fastRhockey' (Functions to Access Premier Hockey Federation and NationalHockey League Play by Play Data) A utility to scrape and load play-by-play data and statistics from the Premier Hockey Federation (PHF) , formerly known as the National Women's Hockey League (NWHL). Additionally, allows access to the National Hockey League's stats API . Package: r-cran-fastrmodels Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 16092 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-fastrmodels_2.0.0-1.ca2004.1_all.deb Size: 16444532 MD5sum: 699318821dac5f768ca58496c0ffba64 SHA1: ff16c66c6c6ba6680921e92dedf8af7cc4867423 SHA256: 123dd56645e6891a0cdb56c08468b51a84b61450af4bfbc3fd2aa135a9ad91c2 SHA512: dda30256fb05c477428f76bdec7459e6d48c695c7002d66f2b3feec4ab781bbc91b5b8f4be5dbc9fd2355b4148645de07a94af4b3a09b934f3e04a65e4df9246 Homepage: https://cran.r-project.org/package=fastrmodels Description: CRAN Package 'fastrmodels' (Models for the 'nflfastR' Package) A data package that hosts all models for the 'nflfastR' package. Package: r-cran-faststepgraph Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 367 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-faststepgraph_0.1.1-1.ca2004.1_all.deb Size: 328736 MD5sum: 8aada17d9d9c6ec521feb04801ededed SHA1: f18bd53e863fc095575a750e698de845b7d17199 SHA256: cecb31f4709d36808b7d7442b9ec67837b0b2860589a52ce99438ac7ac3970c5 SHA512: b32627638ce588152c1e546b05c305b1669035de794f5b38cd8019abd472498653a510a8088fea7fdcda32ee299b8a3b79a87bb71c5f6f1aab393274112b3a7d Homepage: https://cran.r-project.org/package=FastStepGraph Description: CRAN Package 'FastStepGraph' (A Fast Algorithm for Sparse Precision Matrix Estimation) It implements an improved and computationally faster version of the original Stepwise Gaussian Graphical Algorithm for estimating the Omega precision matrix from high-dimensional data. Zamar, R., Ruiz, M., Lafit, G. and Nogales, J. (2021) . Package: r-cran-fastts Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 690 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ncvreg, r-cran-rcpproll, r-cran-rlang, r-cran-yardstick Suggests: r-cran-covr, r-cran-kableextra, r-cran-knitr, r-cran-magrittr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-fastts_1.0.2-1.ca2004.1_all.deb Size: 393224 MD5sum: b6e9fd9fe502bd928052626d71d7436b SHA1: 85fd1682b9bc86c0a326af47743bfa4fb50c268e SHA256: ccf15417786522928727f19438499572bc699ba533a0ffb0735e5a78470eaa1c SHA512: 28848309cdda88aa1bfc13f8991c4288b3b3d510de9684ff73af636cb880bad7d63d28566e1e3ed42a4006cb552be3de9f7ea7af8481a11e314d147e3a47be06 Homepage: https://cran.r-project.org/package=fastTS Description: CRAN Package 'fastTS' (Fast Time Series Modeling for Seasonal Series with ExogenousVariables) An implementation of sparsity-ranked lasso and related methods for time series data. This methodology is especially useful for large time series with exogenous features and/or complex seasonality. Originally described in Peterson and Cavanaugh (2022) in the context of variable selection with interactions and/or polynomials, ranked sparsity is a philosophy with methods useful for variable selection in the presence of prior informational asymmetry. This situation exists for time series data with complex seasonality, as shown in Peterson and Cavanaugh (2024) , which also describes this package in greater detail. The sparsity-ranked penalization methods for time series implemented in 'fastTS' can fit large/complex/high-frequency time series quickly, even with a high-dimensional exogenous feature set. The method is considerably faster than its competitors, while often producing more accurate predictions. Also included is a long hourly series of arrivals into the University of Iowa Emergency Department with concurrent local temperature. 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Package: r-cran-fcircsec Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 682 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biostrings, r-cran-seqrflp, r-cran-stringi Filename: pool/dists/focal/main/r-cran-fcircsec_1.0.0-1.ca2004.1_all.deb Size: 661404 MD5sum: ab37ed06d6494cbd19ce0097697f0743 SHA1: 4d62b2c1e037a18db309274db53c8887676d1118 SHA256: d512462a931f433973066d8c112f8a1cc5da2618e87fedebb428066e38b6e878 SHA512: fa778e36c85d085476b549359102f8818d2343d1cb36a0c750daf332715a1aa66c164cc58480b8e7cf4d3689c038c8419233ea091ecf0863b641998f3495a164 Homepage: https://cran.r-project.org/package=FcircSEC Description: CRAN Package 'FcircSEC' (Full Length Circular RNA Sequence Extraction and Classification) Extract full length circular RNA sequences and classify circular RNA using the output of circular RNA prediction tools, reference genome and the annotation file corresponding to the reference genome. This package uses the output of circular RNA prediction tools such as 'CIRI', 'CIRCExplorer' and the output of other state-of-the-art circular RNA prediction tools. Details about the circular RNA prediction procedure can be found in 'Yuan Gao, Jinfeng Wang and Fangqing Zhao' (2015) and 'Zhang XO, Wang HB, Zhang Y, Lu X, Chen LL and Yang L' (2014) . Package: r-cran-fcm Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fcm_0.1.3-1.ca2004.1_all.deb Size: 45624 MD5sum: f0532c71f6132766708fd9309b656100 SHA1: 6fbc22e67e4a4169e543e129cb301c96aff75dce SHA256: d793f511e0d0931d435aaad98657879a6b12f7dcf1d90b3e510cc8ef9b2881d7 SHA512: 8c413a2adb97af451041f37c831b48d1bfd46068b64567d6a460c20d5ef7e85c16fef07a748ff7fab6cd2ab26a5aa920e73c4728925003bf379daf6dd8064d7a Homepage: https://cran.r-project.org/package=fcm Description: CRAN Package 'fcm' (Inference of Fuzzy Cognitive Maps (FCMs)) Provides a selection of 3 different inference rules (including additionally the clamped types of the referred inference rules) and 4 threshold functions in order to obtain the inference of the FCM (Fuzzy Cognitive Map). Moreover, the 'fcm' package returns a data frame of the concepts' values of each state after the inference procedure. Fuzzy cognitive maps were introduced by Kosko (1986) providing ideal causal cognition tools for modeling and simulating dynamic systems. Package: r-cran-fcmapper Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph Filename: pool/dists/focal/main/r-cran-fcmapper_1.1-1.ca2004.1_all.deb Size: 45480 MD5sum: e5491ca6e93e3a2082e92a0883f182ca SHA1: d6d337c5e48d13e858e03fb74d732a8a9664dbf4 SHA256: d8afd71097ec9eeeba80c8f2bd015c17de341ee770c1d108eb831ba9846bddd7 SHA512: 74c2b5b9f886a001e222dbf16eb21c0a617fdea8528100ea0cf3684cdf9e22a212e7913fb37f3af914c78531f0a0152057da7513565cb41b08d22a7cd25244a4 Homepage: https://cran.r-project.org/package=FCMapper Description: CRAN Package 'FCMapper' (Fuzzy Cognitive Mapping) Provides several functions to create and manipulate fuzzy cognitive maps. It is based on 'FCMapper' for Excel, distributed at , developed by Michael Bachhofer and Martin Wildenberg. Maps are inputted as adjacency matrices. Attributes of the maps and the equilibrium values of the concepts (including with user-defined constrained values) can be calculated. The maps can be graphed with a function that calls 'igraph'. Multiple maps with shared concepts can be aggregated. 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Flexible cutoffs are an alternative to fixed cutoffs - rules-of-thumb - regarding an appropriate cutoff for fit indices such as 'CFI' or 'SRMR'. It has been demonstrated that these flexible cutoffs perform better than fixed cutoffs in grey areas where misspecification is not easy to detect. The package provides an alternative to the tool at as it allows to tailor flexible cutoffs to a given dataset and model, which is so far not available in the tool. The package simulates fit indices based on a given dataset and model and then estimates the flexible cutoffs. Some useful functions, e.g., to determine the 'GoF-' or 'BoF-nature' of a fit index, are provided. So far, additional options for a relative use (is a model better than another?) are provided in an exploratory manner. Package: r-cran-fcopulae Architecture: all Version: 4022.85-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 715 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-timedate, r-cran-timeseries, r-cran-fbasics, r-cran-fmultivar Suggests: r-cran-runit, r-cran-mvtnorm, r-cran-sn Filename: pool/dists/focal/main/r-cran-fcopulae_4022.85-1.ca2004.1_all.deb Size: 584612 MD5sum: e4970f8028b3c19987643af15291902e SHA1: 5e6c5fb13b7686b63a84128d86c74c95c11ccb02 SHA256: f7d0390b8a83382a8c895a38477c49fca732796a2d0f3476d6be5b2aae8f7cb8 SHA512: 5b25be4372bc4fcb172d881930f7753c9852da52a4c3f7afb86fa0bddcd86092107a95818eea116e6ba76b59fc7cff52e118709a8356bef7ba50d2bfd0802a1c Homepage: https://cran.r-project.org/package=fCopulae Description: CRAN Package 'fCopulae' (Rmetrics - Bivariate Dependence Structures with Copulae) Provides a collection of functions to manage, to investigate and to analyze bivariate financial returns by Copulae. Included are the families of Archemedean, Elliptical, Extreme Value, and Empirical Copulae. Package: r-cran-fcp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fcp_0.1.0-1.ca2004.1_all.deb Size: 14952 MD5sum: 4a12efb4e0b5c4d4eb8951ceb0d194a5 SHA1: dd35b89197785cd871652a732586a9b9bef945c9 SHA256: b9d00e431864e5329ad4819dc3877240b68a8abfa58e31b7507818509bb0703d SHA512: b296bd0ccf2744d29bae937080ddb9019d83c0df32c9a33ff4671893866e3b15b8c75c72a53a781b43d133ef525d1a4eac598add7f19b7589b9f97a430d9c3ed Homepage: https://cran.r-project.org/package=fcp Description: CRAN Package 'fcp' (Function Composition) A function composition operator to chain a series of calls into a single function, mimicking the math notion of (f o g o h)(x) = h(g(f(x))). Inspired by 'pipeOp' ('|>') since R4.1 and 'magrittr pipe' ('%>%'), the operator build a pipe without putting data through, which is best for anonymous function accepted by utilities such as apply() and lapply(). 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Additionally, 26 statistical approaches for the estimation of the number of clusters as well as the mirrored density plot (MD-plot) of clusterability are implemented. The packages is published in Thrun, M.C., Stier Q.: "Fundamental Clustering Algorithms Suite" (2021), SoftwareX, . Moreover, the fundamental clustering problems suite (FCPS) offers a variety of clustering challenges any algorithm should handle when facing real world data, see Thrun, M.C., Ultsch A.: "Clustering Benchmark Datasets Exploiting the Fundamental Clustering Problems" (2020), Data in Brief, . Package: r-cran-fcr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 730 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-face, r-cran-mgcv, r-cran-fields Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fcr_1.0-1.ca2004.1_all.deb Size: 531612 MD5sum: 80e52ff368da8148bccda59a37cd6be6 SHA1: 9b5ac5cb856cb53dba61848d854bc688cf13f50a SHA256: 40b9e5f0b5c145ead1c328bc994e5903c934e5cbfff2175ec6234b8a8fa250df SHA512: 52a2ca75e38c00df751894d30764012343d304fc2ff88056ba27785337bd56e6993a4663672a275a61093028513c355016c3ce93a4ea15d5a6f4ecd3e573d9d1 Homepage: https://cran.r-project.org/package=fcr Description: CRAN Package 'fcr' (Functional Concurrent Regression for Sparse Data) Dynamic prediction in functional concurrent regression with an application to child growth. 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Package: r-cran-fda Architecture: all Version: 6.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4761 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fds, r-cran-desolve Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-lattice Filename: pool/dists/focal/main/r-cran-fda_6.3.0-1.ca2004.1_all.deb Size: 2567060 MD5sum: 82d4ba7790fe71347fca3530377d8514 SHA1: dc1ed895e41bee5081b7601384ed38d941308ec0 SHA256: 06ce51ca857f6243feccdd59457276892664f6297474e55fd6b5aef8bc8ab47d SHA512: 3798fad80f94eb3793e32858bec09074f22854e99ea0fbeb2ea6bf52cb340082cdc16884518ad7a8ef5b5311751bd818302a62a42b6d39fcd8d02c8328d37302 Homepage: https://cran.r-project.org/package=fda Description: CRAN Package 'fda' (Functional Data Analysis) These functions were developed to support functional data analysis as described in Ramsay, J. O. and Silverman, B. W. (2005) Functional Data Analysis. New York: Springer and in Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009). Functional Data Analysis with R and Matlab (Springer). The package includes data sets and script files working many examples including all but one of the 76 figures in this latter book. Matlab versions are available by ftp from . 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(2021) . The autocorrelation functions are based on the L2 norm of the lagged covariance operators of the series. Functions are available for estimating the distribution of the autocorrelation functions under the assumption of strong functional white noise. 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Package: r-cran-fdamocca Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1435 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-foreach, r-cran-doparallel, r-cran-mvtnorm, r-cran-fda Filename: pool/dists/focal/main/r-cran-fdamocca_0.1-2-1.ca2004.1_all.deb Size: 1436784 MD5sum: d2440b82625e79897acb5beb34f01e4b SHA1: 580061158bebece2c153894482ac8ef911bae50c SHA256: 72693b3a5ee1665ca4c76edc87833343a9a1a97a8f8668b48eb20ea8aaee553e SHA512: e0c11d369db9e553e9bb2f69f377f77e567a208d9eefa71aa81ac1371464dba7b1cc9907845fb901a00f4b094f6fc9a2cbfc12c3c61db35274e7ddac95a95da6 Homepage: https://cran.r-project.org/package=fdaMocca Description: CRAN Package 'fdaMocca' (Model-Based Clustering for Functional Data with Covariates) Routines for model-based functional cluster analysis for functional data with optional covariates. The idea is to cluster functional subjects (often called functional objects) into homogenous groups by using spline smoothers (for functional data) together with scalar covariates. The spline coefficients and the covariates are modelled as a multivariate Gaussian mixture model, where the number of mixtures corresponds to the number of clusters. The parameters of the model are estimated by maximizing the observed mixture likelihood via an EM algorithm (Arnqvist and Sjöstedt de Luna, 2019) . The clustering method is used to analyze annual lake sediment from lake Kassjön (Northern Sweden) which cover more than 6400 years and can be seen as historical records of weather and climate. Package: r-cran-fdanova Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 593 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fda, r-cran-doparallel, r-cran-ggplot2, r-cran-doby, r-cran-mass, r-cran-magic, r-cran-foreach Filename: pool/dists/focal/main/r-cran-fdanova_0.1.2-1.ca2004.1_all.deb Size: 523320 MD5sum: 1aee614c858d3a50c62509fce828beda SHA1: 726dc756264758700bc8d92f0b59d42362621abc SHA256: f8e136d212020e24cf6ab5dd862482876e3c613e86d3cf5af8dcfc86dd1dcf45 SHA512: 7114f3b521af8bad8d8ad28eba15aabdd9faa294da9d10c360aec92a7e0716508f2a9e43a6b459b67ff0a5eff0f3ccad22ea77f384ac39fd5cd7e4257b90ae45 Homepage: https://cran.r-project.org/package=fdANOVA Description: CRAN Package 'fdANOVA' (Analysis of Variance for Univariate and Multivariate FunctionalData) Performs analysis of variance testing procedures for univariate and multivariate functional data (Cuesta-Albertos and Febrero-Bande (2010) , Gorecki and Smaga (2015) , Gorecki and Smaga (2017) , Zhang et al. 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It implements the methods proposed in: Elías, A., Jiménez, R., Paganoni, A. M. and Sangalli, L. M., (2023), "Integrated Depth for Partially Observed Functional Data", Journal of Computational and Graphical Statistics, . Elías, A., Jiménez, R., & Shang, H. L. (2023), "Depth-based reconstruction method for incomplete functional data", Computational Statistics, . Elías, A., Nagy, S. (2024), "Statistical properties of partially observed integrated functional depths", TEST, . Package: r-cran-fdatest Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-fda Filename: pool/dists/focal/main/r-cran-fdatest_2.1.1-1.ca2004.1_all.deb Size: 246808 MD5sum: 039353b6523fdad9375a428eb219901c SHA1: 841eb804fbbfbfe6bd0de2dce4144e86de17e46f SHA256: 5f1b75d34e06abaa9f5165fe57e5f976c820b0290cd9988f5b91e04c732aba5a SHA512: a07f41dafa5a9290a2d1a7bf6f1fd816dd5afbcaac03b757479bef2948950df83c0c82e8a8c1829717ebd95b956a5770ae15c5a1fc29015d0c608c1ed41121c1 Homepage: https://cran.r-project.org/package=fdatest Description: CRAN Package 'fdatest' (Interval Testing Procedure for Functional Data) Implementation of the Interval Testing Procedure for functional data in different frameworks (i.e., one or two-population frameworks, functional linear models) by means of different basis expansions (i.e., B-spline, Fourier, and phase-amplitude Fourier). The current version of the package requires functional data evaluated on a uniform grid; it automatically projects each function on a chosen functional basis; it performs the entire family of multivariate tests; and, finally, it provides the matrix of the p-values of the previous tests and the vector of the corrected p-values. The functional basis, the coupled or uncoupled scenario, and the kind of test can be chosen by the user. The package provides also a plotting function creating a graphical output of the procedure: the p-value heat-map, the plot of the corrected p-values, and the plot of the functional data. 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The package contains functions to: - compute 2-Wasserstein distances between Gaussian Processes as in Masarotto, Panaretos & Zemel (2019) ; - compute the Wasserstein barycenter (Frechet mean) as in Masarotto, Panaretos & Zemel (2019) ; - perform analysis of variance testing procedures for functional covariances and tangent space principal component analysis of covariance operators as in Masarotto, Panaretos & Zemel (2022) . - perform a soft-clustering based on the Wasserstein distance where functional data are classified based on their covariance structure as in Masarotto & Masarotto (2023) . Package: r-cran-fea Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 290 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-geometry, r-cran-geosphere, r-cran-ptinpoly, r-cran-sp, r-cran-mass Filename: pool/dists/focal/main/r-cran-fea_0.0.2-1.ca2004.1_all.deb Size: 233508 MD5sum: 28e3f2d4eecd393e825da0595e9adb15 SHA1: 936b3ea32971379d519f171eed66a71114cee2b8 SHA256: 6567d51ece06119db09a654bfb8cb64bfb290fa5dd10e963c60eabafdc22c0bb SHA512: ae23442169ff20ff03438dfb23a380456046e6f05fde6877d40a0643671f114ba86a610a859ac032702a26c9fcb08f10b5f2de086dd6b20dec70884d3b02c1a5 Homepage: https://cran.r-project.org/package=FEA Description: CRAN Package 'FEA' (Finite Element Modeling for R) Finite element modeling of beam structures and 2D geometries using constant strain triangles. Applies material properties and boundary conditions (load and constraint) to generate a finite element model. The model produces stress, strain, and nodal displacements; a heat map is available to demonstrate regions where output variables are high or low. Also provides options for creating a triangular mesh of 2D geometries. Package developed with reference to: Bathe, K. J. (1996). Finite Element Procedures.[ISBN 978-0-9790049-5-7] -- Seshu, P. (2012). Textbook of Finite Element Analysis. [ISBN-978-81-203-2315-5] -- Mustapha, K. B. (2018). Finite Element Computations in Mechanics with R. [ISBN 9781315144474]. 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A score is assigned to each feature based on the tendency of LASSO in including that feature in the models.Finally, the average score and the models are returned as the output. The features with relatively low scores are recommended to be ignored because they can lead to overfitting of the model to the training data. Moreover, for each random subset, the best set of features in terms of global error is returned. They are useful for applying Bolasso, the alternative feature selection method that recommends the intersection of features subsets. Package: r-cran-feamir Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3089 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-randomforest, r-cran-rpart, r-cran-rpart.plot, r-cran-ga, r-cran-e1071, r-cran-ggplot2, r-cran-magrittr, r-cran-tibble, r-cran-dplyr, r-cran-reticulate Suggests: r-cran-doparallel Filename: pool/dists/focal/main/r-cran-feamir_0.1.0-1.ca2004.1_all.deb Size: 167216 MD5sum: 7491f98ff196e31ea5cc56387a3417f0 SHA1: 025c549bd231ba4d84a73fb0f3cbdf6ddc6fcf8c SHA256: 6424e61637e541aa628c5d72fafb25673cb4430e2bd36145e3e962e785e54e3f SHA512: 06ed0e248cd10fa226b1e91d89af2333776d68d7f7da05139f97bf6fde3d131402bb4a65c7f6c491820dc3c4fbe3d68e16b07ee12d6d9a416585331b7a63b7d3 Homepage: https://cran.r-project.org/package=feamiR Description: CRAN Package 'feamiR' (Classification and Feature Selection for microRNA/mRNAInteractions) Comprises a pipeline for predicting microRNA/mRNA interactions, as detailed in Williams, Calinescu, Mohorianu (2020) . Its input consists of [a] a messenger RNA (mRNA) dataset (either in fasta format, focused on 3' UTRs or in gtf format; for the latter, the sequences of the 3’ UTRs are generated using the genomic coordinates), [b] a microRNA dataset (in fasta format, retrieved from miRBase, ) and [c] an interaction dataset (in csv format, from miRTarBase ). To characterise and predict microRNA/mRNA interactions, we use [a] statistical analyses based on Chi-squared and Fisher exact tests and [b] Machine Learning classifiers (decision trees, random forests and support vector machines). To enhance the accuracy of the classifiers we also employ feature selection approaches used in on conjunction with the classifiers. The feature selection approaches include a voting scheme for decision trees, a measure based on Gini index for random forests, forward feature selection and Genetic Algorithms on SVMs. The pipeline also includes a novel approach based on embryonic Genetic Algorithms which combines and optimises the forward feature selection and Genetic Algorithms. All analyses, including the classification and feature selection, are applicable on the microRNA seed features (default), on the full microRNA features and/or flanking features on the mRNA. The sets of features can be combined. 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Importance of a feature is measured by the misclassification rate relative to the baseline cluster assignment due to a random permutation of feature values. An explanation of permutation feature importance in general can be found here: . 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Some of the key features include mean value, first and second derivatives, critical points (i.e. local maxima and minima), curvature of cunction at critical points, wiggliness of the function, noise in data, and outliers in data. Package: r-cran-featureterminator Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 217 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-caret, r-cran-tibble, r-cran-dplyr, r-cran-lattice, r-cran-e1071, r-cran-randomforest Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-featureterminator_1.0.0-1.ca2004.1_all.deb Size: 124396 MD5sum: ff60c3fe50b68306181c54d8fe21c086 SHA1: bf3f946a3c6f2fc01c1995eb3f85b9407a80e60f SHA256: 7d6549e61ba279ba2d0ed1dcc23ae72a73281a87dc3a778fb05fb9d58c33ce24 SHA512: 525278162ce913db45128d5bb09b0d4514892806557076b8a24427df166d088007370fee92fa2d5b5b1a3ac6689109d7c53650697f582b7ff695470a2ee05eb3 Homepage: https://cran.r-project.org/package=FeatureTerminatoR Description: CRAN Package 'FeatureTerminatoR' (Feature Selection Engine to Remove Features with MinimalPredictive Power) The aim is to take in data.frame inputs and utilises methods, such as recursive feature engineering, to enable the features to be removed. What this does differently from the other packages, is that it gives you the choice to remove the variables manually, or it automated this process. Feature selection is a concept in machine learning, and statistical pipelines, whereby unimportant, or less predictive variables are eliminated from the analysis, see Boughaci (2018) . Package: r-cran-featuretoolsr Architecture: all Version: 0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reticulate, r-cran-caret, r-cran-dplyr, r-cran-purrr, r-cran-stringr, r-cran-tibble, r-cran-magrittr, r-cran-cli, r-cran-testthat, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-featuretoolsr_0.4.4-1.ca2004.1_all.deb Size: 47944 MD5sum: f35e8f6c0eb87e7e9a007497c1c08483 SHA1: f3eb125080d8c894ca9aa0879070738b634f1db8 SHA256: 890fd04097e5ced19b4ffb75059eef5f4d15f39f8509605d3029e7f0eb33e4f1 SHA512: 197b2b1781517d047a69f77e28366bc61bf0c0bb23333d748911995129cb85fe763ca9e40518d3433ff6d650093ec93034497cfd25cff581f4b55fe4d75d2233 Homepage: https://cran.r-project.org/package=featuretoolsR Description: CRAN Package 'featuretoolsR' (Interact with the 'Python' Module 'Featuretools') A 'reticulate'-based interface to the 'Python' module 'Featuretools'. The package grants functionality to interact with 'Pythons' 'Featuretools' module, which allows for automated feature engineering on any data frame. Valid features and new data sets can, after feature synthesis, easily be extracted. Package: r-cran-featurizer Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-featurizer_0.2-1.ca2004.1_all.deb Size: 33316 MD5sum: ee0f484d46b381d5e340028f563ed254 SHA1: 424f9a7974d48860a811c26837fca3e6a0f88c6e SHA256: b7380016f5faea37813a6796d60695c96f1883f361dac74e4bb1aaf841fbb4c7 SHA512: fe09e0d0f8ae55722bd9a4e465d704078cb3a118f0bbd48b1ff39d795829d6147d7c4efcf96cb176bb33fe3394629e740e849c3c824eabc6428a9cd1a9d0bb03 Homepage: https://cran.r-project.org/package=featurizer Description: CRAN Package 'featurizer' (Some Helper Functions that Help Create Features from Data) A collection of functions that would help one to build features based on external data. Very useful for Data Scientists in data to day work. Many functions create features using parallel computation. 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Package: r-cran-fec16 Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2330 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-readr, r-cran-vroom, r-cran-usethis Suggests: r-cran-testthat, r-cran-scales, r-cran-knitr, r-cran-rmarkdown, r-cran-fs, r-cran-lubridate, r-cran-ggplot2, r-cran-stringr, r-cran-utf8 Filename: pool/dists/focal/main/r-cran-fec16_0.1.4-1.ca2004.1_all.deb Size: 2196828 MD5sum: bb4961d396f0e4a5b3b00f5f3b02775b SHA1: 432c463dd5de251108721c1c2826dd3f5b5543ee SHA256: 33efe4f23ce790b4b6f0042e67710c12483f9f91b35846e44359421542d2c8f2 SHA512: bb4abb98f07360c520689c1e8f38fd968f4bf7afecf903b8649fe1f810cc2ec6e7b5f7783c8db6a6203bc6f64e4a99ce316ee8d132ba52879ceae3c067c0d627 Homepage: https://cran.r-project.org/package=fec16 Description: CRAN Package 'fec16' (Data Package for the 2016 United States Federal Elections) Easily analyze relational data from the United States 2016 federal election cycle as reported by the Federal Election Commission. 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Currently, the package enables extraction from nine datasets: The National Elevation Dataset digital elevation models ( 1 and 1/3 arc-second; USGS); The National Hydrography Dataset (; USGS); The Soil Survey Geographic (SSURGO) database from the National Cooperative Soil Survey (; NCSS), which is led by the Natural Resources Conservation Service (NRCS) under the USDA; the Global Historical Climatology Network (; GHCN), coordinated by National Climatic Data Center at NOAA; the Daymet gridded estimates of daily weather parameters for North America, version 4, available from the Oak Ridge National Laboratory's Distributed Active Archive Center (; DAAC); the International Tree Ring Data Bank; the National Land Cover Database (; NLCD); the Cropland Data Layer from the National Agricultural Statistics Service (; NASS); and the PAD-US dataset of protected area boundaries (; USGS). 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Package: r-cran-fedirt Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-purrr, r-cran-pracma, r-cran-shiny, r-cran-httr, r-cran-callr, r-cran-dt, r-cran-ggplot2, r-cran-shinyjs Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fedirt_1.1.0-1.ca2004.1_all.deb Size: 146452 MD5sum: f97a0d618df46e0e5f5cb14af5934099 SHA1: a163c78e5084a9a36210b35b86b60da10722e8cd SHA256: 9a20fa158f200a7ce48890c85616e724a5c048b7d47898ff819cb889c0a389e8 SHA512: 185fbabda7ee7c1f17dd4d7224cd0793a0a1f2b75e6d704733f92b89b2571c922ad8f37aee1f5c079cea88f5d9e362c368a7d3a5d43a6738188700ab9052991d Homepage: https://cran.r-project.org/package=FedIRT Description: CRAN Package 'FedIRT' (Federated Item Response Theory Models) Integrate Item Response Theory (IRT) and Federated Learning to estimate traditional IRT models, including the 2-Parameter Logistic (2PL) and the Graded Response Models, with enhanced privacy. 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The FEIS model constitutes a more general version of the often-used fixed effects (FE) panel model, as implemented in the package 'plm' by Croissant and Millo (2008) . In FEIS models, data are not only person demeaned like in conventional FE models, but detrended by the predicted individual slope of each person or group. Estimation is performed by applying least squares lm() to the transformed data. For more details on FEIS models see Bruederl and Ludwig (2015, ISBN:1446252442); Frees (2001) ; Polachek and Kim (1994) ; Ruettenauer and Ludwig (2020) ; Wooldridge (2010, ISBN:0262294354). To test consistency of conventional FE and random effects estimators against heterogeneous slopes, the package also provides the functions feistest() for an artificial regression test and bsfeistest() for a bootstrapped version of the Hausman test. 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Package: r-cran-fence Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 183 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-lme4, r-cran-ggplot2, r-cran-sae, r-cran-fields, r-cran-snowfall, r-cran-snow Suggests: r-cran-pscl Filename: pool/dists/focal/main/r-cran-fence_1.0-1.ca2004.1_all.deb Size: 148256 MD5sum: 965990350218661c95742b507c4f889b SHA1: d8a6d8d335ce67d946f7b77e2f52e1b0059897a9 SHA256: 4465ad3f3bbf4fa5d0010b4d17c89dba8b61808f6c7c06ee0b8607e396a7fef8 SHA512: 84d4ef69c76ca1c5db798db1bff23de3839d6ddb710e264d0aa98502edce06549dafa6976bc84663103f83dfb99da5a61d9f2a3b2b2a4267270d1bc0cf579e73 Homepage: https://cran.r-project.org/package=fence Description: CRAN Package 'fence' (Using Fence Methods for Model Selection) This method is a new class of model selection strategies, for mixed model selection, which includes linear and generalized linear mixed models. The idea involves a procedure to isolate a subgroup of what are known as correct models (of which the optimal model is a member). This is accomplished by constructing a statistical fence, or barrier, to carefully eliminate incorrect models. Once the fence is constructed, the optimal model is selected from among those within the fence according to a criterion which can be made flexible. References: 1. Jiang J., Rao J.S., Gu Z., Nguyen T. (2008), Fence Methods for Mixed Model Selection. The Annals of Statistics, 36(4): 1669-1692. . 2. Jiang J., Nguyen T., Rao J.S. (2009), A Simplified Adaptive Fence Procedure. Statistics and Probability Letters, 79, 625-629. 3. Jiang J., Nguyen T., Rao J.S. (2010), Fence Method for Nonparametric Small Area Estimation. Survey Methodology, 36(1), 3-11. . 4. Jiming Jiang, Thuan Nguyen and J. Sunil Rao (2011), Invisible fence methods and the identification of differentially expressed gene sets. Statistics and Its Interface, Volume 4, 403-415. . 5. Thuan Nguyen & Jiming Jiang (2012), Restricted fence method for covariate selection in longitudinal data analysis. Biostatistics, 13(2), 303-314. . 6. Thuan Nguyen, Jie Peng, Jiming Jiang (2014), Fence Methods for Backcross Experiments. Statistical Computation and Simulation, 84(3), 644-662. . 7. Jiang, J. (2014), The fence methods, in Advances in Statistics, Hindawi Publishing Corp., Cairo. . 8. Jiming Jiang and Thuan Nguyen (2015), The Fence Methods, World Scientific, Singapore. . 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Marine fisheries governance and management practices are very essential to ensure the sustainability of the marine resources. A widely accepted resource management strategy towards this is to derive sustainable fish harvest levels based on the status of marine fish stock. Various fish stock assessment models that describe the biomass dynamics using time series data on fish catch and fishing effort are generally used for this purpose. In the scenario of complex multi-species marine fishery in which different species are caught by a number of fishing gears and each gear harvests a number of species make it difficult to obtain the fishing effort corresponding to each fish species. Since the capacity of the gears varies, the effort made to catch a resource cannot be considered as the sum of efforts expended by different fishing gears. This necessitates standardisation of fishing effort in unit base. 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This package, in particular, helps you to implement analyses of plot species distributions, topography, demography, and biomass. It also includes a torus translation test to determine habitat associations of tree species as described by Zuleta et al. (2018) . To learn more about ForestGEO visit . 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This package, in particular, helps you to plot ForestGEO data. To learn more about ForestGEO visit . 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This package, in particular, helps you to easily import, filter, and modify 'ForestGEO' data. To learn more about 'ForestGEO' visit . Package: r-cran-fgeo.x Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 480 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-memoise Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fgeo.x_1.1.4-1.ca2004.1_all.deb Size: 164816 MD5sum: 2e70f1b92545416110064813e2da6c2b SHA1: 44aa66368db88acedcd066246e13dbb0a1f9969f SHA256: 346caa74ebbb57042f14f9f840b9b9fe99983cbaf81f831d6559c07b99d90499 SHA512: 8a18d60efe96e03832ab0c22c60eed33cb5fad21fc6d9017c2624beec672c871f1b1e9f235d25566840ecc3e5ce8204fc37098e14cbbbf6dd163191c9b19e031 Homepage: https://cran.r-project.org/package=fgeo.x Description: CRAN Package 'fgeo.x' (Access Small ForestGEO Datasets For Examples) Access small example datasets from Luquillo, a ForestGEO site in Puerto Rico (). 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This package, in particular, helps you to install and load the entire package-collection with a single R command, and provides convenient ways to find relevant documentation. Most commonly, you should not worry about the individual packages that make up the package-collection as you can access all features via this package. To learn more about ForestGEO visit . 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Package: r-cran-fglsnet Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-network, r-cran-sna, r-cran-matrixcalc, r-cran-matrix, r-cran-mass, r-cran-sandwich, r-cran-lmtest Filename: pool/dists/focal/main/r-cran-fglsnet_1.1-1.ca2004.1_all.deb Size: 77316 MD5sum: 0026318145f444b9e34d8fcddd5d9580 SHA1: fc5ed0599ecc4e95cdc4fb06e52e494f3c7fbeb0 SHA256: 10527e37b4de1aab9d396b3ba690da36d8558ce2d91d1190e36b979154a95f1f SHA512: 55e6c30a4b14f177b9c73a7d0d6c7bf2f8c0b09d690b276b308464840f7a8c79309f9e65a888303862291959990a8470c292a6d6120c515c5f7276a779500aab Homepage: https://cran.r-project.org/package=fglsnet Description: CRAN Package 'fglsnet' (A Feasible Generalized Least Squares Estimator for RegressionAnalysis of Outcomes with Network Dependence) The function estimates a multivariate regression model for outcomes with network dependence. Package: r-cran-fgm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jgl, r-cran-fdapace Suggests: r-cran-mvtnorm, r-cran-fda, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fgm_1.0-1.ca2004.1_all.deb Size: 30580 MD5sum: f3c3433e394538cfaa92096d0e64acea SHA1: 454e3ffecc7e62b5a5a266721bf02954935b3b7e SHA256: 3b605609012df0d249e84be7f76126b0910f2cc610e0c9163671c8ec514f39ec SHA512: 87cf3960e8775af2a68dad751ee89bf66b2d39a7481dbe1de07aa2afe1a1a21bc3b841ab31ecbbe5add57fb49a2da466ed4f748ab96925debb26c466fcb69caf Homepage: https://cran.r-project.org/package=fgm Description: CRAN Package 'fgm' (Partial Separability and Functional Gaussian Graphical Models) Estimates a functional graphical model and a partially separable Karhunen-Loève decomposition for a multivariate Gaussian process. See Zapata J., Oh S. and Petersen A. (2019) . Package: r-cran-fgmutils Architecture: all Version: 0.9.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 278 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sqldf, r-cran-stringr, r-cran-plyr, r-cran-data.table, r-cran-devemf, r-cran-png, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fgmutils_0.9.5-1.ca2004.1_all.deb Size: 235252 MD5sum: 1097092008c2c7bd105cb0b3270e6b9d SHA1: 37efe6628e461848c6215909667ed09bb3613f52 SHA256: af787abc14c1df201d5d4abed38aac19308f78ee049daeaf9dc58a99ceb7efd0 SHA512: ac54c1bb6c1bf527db3cd0e5bec6c1e3ced3fdc224607719aa372d477cbb79e03086eed93c5adf688dce97e5378dc58e1420273cc325e0b30c90b724343adc66 Homepage: https://cran.r-project.org/package=Fgmutils Description: CRAN Package 'Fgmutils' (Forest Growth Model Utilities) Growth models and forest production require existing data manipulation and the creation of new data, structured from basic forest inventory data. The purpose of this package is provide functions to support these activities. Package: r-cran-fgpt Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2799 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-fgpt_2.3-1.ca2004.1_all.deb Size: 2553480 MD5sum: c27f59af03499a59e9bf22ce233ce54c SHA1: 2657057c6b14bf8d82ce50ffebb714f4f36c86cb SHA256: 65d90a4490a91c76198fb0e1450d52772b57610097270f17d8a8de83f01cbc4a SHA512: 36fe1041f0d1c13fbabcf1b6054f5065d36a493fc676fa7b6627b5216c82c691e6a87b893de59644807a81186f9b389a34ab09ee7246170eeb8f0a91bb30214f Homepage: https://cran.r-project.org/package=fgpt Description: CRAN Package 'fgpt' (Floating Grid Permutation Technique) A permutation technique to explore and control for spatial autocorrelation. This package contains low level functions for performing permutations and calculating statistics as well as higher level functions. Higher level functions are an easy to use function for performing spatially restricted permutation tests and summarize and plot results. Package: r-cran-fgrepo Architecture: all Version: 1.3.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5071 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fgrepo_1.3.2.0-1.ca2004.1_all.deb Size: 5159164 MD5sum: 00760ab010f0b8b671848ded8440900e SHA1: d2d9363078d5ed09bd09a0c0d64f6e37a733373f SHA256: ee7fcc8dace99a7cb921c935770c6a36fa710269fe2043359026811bf48f727f SHA512: b50461871210e4693705a0f7620df0739d43ffb211a3a8e5380301e3bd1806b298048a78a90e3c072c5e2b5cfaed30fa37cdfa5cbf8db53b02f87f54e68ce594 Homepage: https://cran.r-project.org/package=FGRepo Description: CRAN Package 'FGRepo' (Functional Genomics Repository for POST-GWAS Analysis) A collection of datasets essential for functional genomic analysis. Gene names, gene positions, cytoband information, sourced from Ensembl and phenotypes association graph prepared from GWAScatalog are included. Data is available in both GRCh37 and 38 builds. These datasets facilitate a wide range of genomic studies, including the identification of genetic variants, exploration of genomic features, and post-GWAS functional analysis. Package: r-cran-fgui Architecture: all Version: 1.0-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 511 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fgui_1.0-8-1.ca2004.1_all.deb Size: 439036 MD5sum: 51bd728988f77f3d2cdc9b3bb01f2970 SHA1: ce001f8012d54a65ff8e009011c940dc2b061020 SHA256: 69da3ed8e41a597e08b361df047fcf48eec421da341c57c5a2165db19df2908f SHA512: a0d067a301dc07cbccc649dbff6be72866467a166586b8fffc47e13c8c0c029e66447e5bdd531238300b0b57ffe3512e5888780067eaf75b7cb26a8857f6a734 Homepage: https://cran.r-project.org/package=fgui Description: CRAN Package 'fgui' (Function GUI) Rapidly create a GUI interface for a function you created by automatically creating widgets for arguments of the function. Automatically parses help routines for context-sensitive help to these arguments. The interface essentially a wrapper to some Tcl/Tk routines to both simplify and facilitate GUI creation. More advanced Tcl/Tk routines/GUI objects can be incorporated into the interface for greater customization for the more experienced. Package: r-cran-fhircrackr Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1318 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xml2, r-cran-stringr, r-cran-httr, r-cran-data.table, r-cran-lifecycle, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fhircrackr_2.3.0-1.ca2004.1_all.deb Size: 643468 MD5sum: bacece725aae88282ad3008b9c131c60 SHA1: e03299a7da11472ae9ce55d2cbd63a407a50422f SHA256: a9e5c6457af80ef9c9f4eea588a34147cf8e9e1c276573e6ab6eff2da386168d SHA512: a258b890d3138ef8a33c6896163b426236358412b5c6b93eedcfb4202ebe8d9e2a49160add0b2baac97b00c51dfd3fbdbf458692cf37c793300b3081daac5264 Homepage: https://cran.r-project.org/package=fhircrackr Description: CRAN Package 'fhircrackr' (Handling HL7 FHIR® Resources in R) Useful tools for conveniently downloading FHIR resources in xml format and converting them to R data.frames. The package uses FHIR-search to download bundles from a FHIR server, provides functions to save and read xml-files containing such bundles and allows flattening the bundles to data.frames using XPath expressions. FHIR® is the registered trademark of HL7 and is used with the permission of HL7. Use of the FHIR trademark does not constitute endorsement of this product by HL7. Package: r-cran-fhtest Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-interval, r-cran-kmsurv, r-cran-survival, r-cran-perm, r-cran-mass Filename: pool/dists/focal/main/r-cran-fhtest_1.5.1-1.ca2004.1_all.deb Size: 131448 MD5sum: 88020897f45b4f395875328818e8a6e8 SHA1: 061d9d84442cb7fb719898159aa763bbee2f031f SHA256: 3a4a1336cd22a2336e4af19bff2a6fc9937b5f533b477d47ad9af142222a10af SHA512: 4066d1409d45dabe73e2c1adfe76b575467a5d37d606b518c6322987a63ea57fdaa62068783890c163f499a845a4e79baed10ec8b020fceeff8131e87885bf5f Homepage: https://cran.r-project.org/package=FHtest Description: CRAN Package 'FHtest' (Tests for Right and Interval-Censored Survival Data Based on theFleming-Harrington Class) Functions to compare two or more survival curves with: a) The Fleming-Harrington test for right-censored data based on permutations and on counting processes. b) An extension of the Fleming-Harrington test for interval-censored data based on a permutation distribution and on a score vector distribution. Package: r-cran-fi Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fi_1.1-1.ca2004.1_all.deb Size: 20028 MD5sum: 45340ba3b0c7a28c497b8e418c9104a6 SHA1: 987da8fdf0be10d7a39d668287d9b4cce3c56690 SHA256: 9fa25ee686689d785cfb9c41688b51ad385231d3252b2e96ad5c1ce2156dfe55 SHA512: ac9f849c293c3923777c40805fd8549e80920cd73ec9932d3398194de90ba0566b805fd9076ccfeedec2bdd775d867d91954b92b37d0b6b7e3a9588b9e93b0a7 Homepage: https://cran.r-project.org/package=FI Description: CRAN Package 'FI' (Provide Functions for Forest Inventory Calculations) Provide functions for forest inventory calculations. Common volumetric equations (Smalian, Newton and Huber) as well stacking factor and form. Package: r-cran-fibos Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fs, r-cran-dplyr, r-cran-readr, r-cran-stringr, r-cran-tidyr, r-cran-reticulate, r-cran-glue Filename: pool/dists/focal/main/r-cran-fibos_2.0.1-1.ca2004.1_all.deb Size: 40324 MD5sum: 892bc1811bff69ed5da4fd8363a7f135 SHA1: ee45fd7aa10ed90797b510b046ae523fecfc62d3 SHA256: 8b36e6c57e395f607386ed5071b9214729f929585574a3e44e0f9e95512fdc4f SHA512: ccdfe526b847d209006ea2a2b90968929134b0f2a74aa81e168b73da414bc9400c18dd0d51d7a092795f794f5cff3811ae8314ac6279d48289dadbb564ad7a00 Homepage: https://cran.r-project.org/package=fibos Description: CRAN Package 'fibos' (Occlusion Surface Using the Occluded Surface and FibonacciOccluded Surface) The Occluded Surface (OS) algorithm is a widely used approach for analyzing atomic packing in biomolecules as described by Pattabiraman N, Ward KB, Fleming PJ (1995) . Here, we introduce 'fibos', an 'R' and 'Python' package that extends the 'OS' methodology, as presented in Soares HHM, Romanelli JPR, Fleming PJ, da Silveira CH (2024) . 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Package: r-cran-fingraph Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 550 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-spectralgraphtopology, r-cran-mass, r-cran-progress, r-cran-mvtnorm Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fingraph_0.1.0-1.ca2004.1_all.deb Size: 496848 MD5sum: 8a56cbe4c47545a14e916c0d3557b088 SHA1: e05078b54bb2bff27579e38eb99dda0dfdb304ef SHA256: c8ff8b243412eb02e6a289297af9371e04987d2c9c75e152439d2886c3601e0b SHA512: 860bf4a402bd2ffa62d71847546cff3d2949b4aacc95d0e47a9278efcc5dba8dfae4b54b48feec53e7423d1acb776049fd9052afff474d394447618d67a99107 Homepage: https://cran.r-project.org/package=fingraph Description: CRAN Package 'fingraph' (Learning Graphs for Financial Markets) Learning graphs for financial markets with optimization algorithms. 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Package: r-cran-finnishgrid Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 671 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-finnishgrid_0.2.0-1.ca2004.1_all.deb Size: 482020 MD5sum: 41943b003d634c7cd19dae6ab1d235fb SHA1: 61678073bebbe04f64ce217e29a1ab86014aa5d1 SHA256: 86644f4806647c9d3989f179a35519cc3d9223fc18e7930936ae5aba4261633f SHA512: 3db6efc9f1a3d06132dc11211f86eafcd506bb50eec20aeb563c7809d6e3547adc19bc21ac7a5feb43d3596bcb288b33e885bbdb551a3f06aa36f348a344464c Homepage: https://cran.r-project.org/package=finnishgrid Description: CRAN Package 'finnishgrid' ('Fingrid Open Data API' R Client) R API client package for 'Fingrid Open Data' on the electricity market and the power system. get_data() function holds the main application logic to retrieve time-series data. 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Package: r-cran-finnts Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1434 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-modeltime, r-cran-cli, r-cran-cubist, r-cran-dials, r-cran-digest, r-cran-doparallel, r-cran-dplyr, r-cran-earth, r-cran-feasts, r-cran-foreach, r-cran-fs, r-cran-generics, r-cran-glue, r-cran-glmnet, r-cran-gtools, r-cran-hts, r-cran-kernlab, r-cran-lubridate, r-cran-magrittr, r-cran-parsnip, r-cran-plyr, r-cran-purrr, r-cran-recipes, r-cran-rlang, r-cran-rsample, r-cran-rules, r-cran-snakecase, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-timetk, r-cran-tune, r-cran-vroom, r-cran-workflows Suggests: r-cran-arrow, r-cran-azurestor, r-cran-boruta, r-cran-corrr, r-cran-knitr, r-cran-microsoft365r, r-cran-notebookutils, r-cran-qs, r-cran-reactable, r-cran-rmarkdown, r-cran-sparklyr, r-cran-testthat, r-cran-vip Filename: pool/dists/focal/main/r-cran-finnts_0.5.0-1.ca2004.1_all.deb Size: 831016 MD5sum: 0a83ef0553f5bbfd755970a65557fe66 SHA1: 8d55cef9143da74e491652fb2a9ec69664e51186 SHA256: 37a93a7c48e0faa609343734de9ad9bcc9688d1e2b9313a3baafa65ee160497b SHA512: 3dc9597b9471dba25a6030efd63fb296624a0ecdfa1f945cc850d559a1e556193c6275d533942cbdcd4a7fa541ad620870e36bacbd225cee1b5ded90fe97aa36 Homepage: https://cran.r-project.org/package=finnts Description: CRAN Package 'finnts' (Microsoft Finance Time Series Forecasting Framework) Automated time series forecasting developed by Microsoft Finance. 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Includes data sets, functions and script files required to work some of the examples. Version 0.3-x includes R objects for all data files used in the text and script files to recreate most of the analyses in chapters 1-3 and 9 plus parts of chapters 4 and 11. 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(2018) . Package: r-cran-fishproxcompanalyzer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fishproxcompanalyzer_0.1.0-1.ca2004.1_all.deb Size: 21620 MD5sum: 133a90266cda81720c4c577174962d64 SHA1: a6f90cb79af8ad08e0161b5b3081a86abc2f6b4e SHA256: f2bbe75da088bf1f5030c2b02b8f90c3cac608c8d9f820318490c6422db73b8d SHA512: 5e402707adf6a5f8d4a14e8fced0c60b5a7548b4f12a644fc3ac034865b213140741f81f76ffe9be90b9814af1e90840c77622841c651724ff7ed7d0790b5bcc Homepage: https://cran.r-project.org/package=FishProxCompAnalyzer Description: CRAN Package 'FishProxCompAnalyzer' (Proximate Composition Analysis of Fish and Feed Ingredients) The proximate composition analysis is the quantification of main components that constitutes nutritional profile of any food and food products including fish, shellfish, fish feed and their ingredients. Understanding this composition is essential for evaluating their nutritional value and for making informed dietary choices. The primary components typically analyzed include; moisture/ water in foods, crude protein, crude fat/ lipid, total ash, fiber and carbohydrates AOAC(2005,ISBN:0-935584-77-3). In case of fish, shellfish and its products, the proximate composition consists of four primary constituents - water, protein, fat, and ash (mostly minerals). Fish exhibit significant variation in their chemical makeup based on age, sex, environment, and season, both within the same species and between individual fish. There is minimal fluctuation in the content of ash and protein. The lipid concentration varies remarkably and is inversely correlated with the water content. In case of fish, carbohydrates are present in minor quantity so that are quantified by subtracting total of other components from 100 to get percentage of carbohydrates. Package: r-cran-fishresp Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5584 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-chron, r-cran-lattice, r-cran-mclust, r-cran-rmr, r-cran-respirometry Filename: pool/dists/focal/main/r-cran-fishresp_1.1.2-1.ca2004.1_all.deb Size: 3723128 MD5sum: 40b72e9cbcc4e171ced499f96bd0a56b SHA1: 28122ef0d2d36ec09f4e0ee866d8a297bb666627 SHA256: ab3e32ceb95d4f89b3e2e60cf51812fe81e586c5b479b383cd01a05862ed20bd SHA512: cd30fb4900948184f2256307eff12344dcecaf9e96737f10688df775ac37559d65df143aacebae5b36440512c0339f748ff32f00fad1dc3425c15db9a0fd929b Homepage: https://cran.r-project.org/package=FishResp Description: CRAN Package 'FishResp' (Analytical Tool for Aquatic Respirometry) Calculates metabolic rate of fish and other aquatic organisms measured using an intermittent-flow respirometry approach. The tool is used to run a set of graphical QC tests of raw respirometry data, correct it for background respiration and chamber effect, filter and extract target values of absolute and mass-specific metabolic rate. Experimental design should include background respiration tests and measuring of one or more metabolic rate traits. The R package is ideally integrated with the pump controller 'PumpResp' and the DO meter 'SensResp' (open-source hardware by FishResp). Raw respirometry data can be also imported from 'AquaResp' (free software), 'AutoResp' ('LoligoSystems'), 'OxyView' ('PreSens'), 'Pyro Oxygen Logger' ('PyroScience') and 'Q-box Aqua' ('QubitSystems'). More information about the R package 'FishResp'is available in the publication by Morozov et al. (2019) . Package: r-cran-fishrman Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 920 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-config, r-cran-countrycode, r-cran-dplyr, r-cran-ggplot2, r-cran-golem, r-cran-httr, r-cran-jsonlite, r-cran-maps, r-cran-sf, r-cran-shiny, r-cran-shinybs, r-cran-shinyjs, r-cran-shinywidgets, r-cran-viridis Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fishrman_1.2.3-1.ca2004.1_all.deb Size: 597180 MD5sum: 85821519ab5411aaf89c7f5a646420db SHA1: 5a556f47216ec78d9ac6c0af0344cc2d8dcc441a SHA256: a80905010a5ef80cb6a5060309652d58a27020a3b83f545a1de18488113338c8 SHA512: d8749eca469307f715686dbbdcb83c97b5d41a01b7c9ee4fa09cd5cb62f71374dc0e43850663498e643b67d814c8fd7749486aa857afecec271c185d832079d3 Homepage: https://cran.r-project.org/package=fishRman Description: CRAN Package 'fishRman' (The Fisheries Scientist's Toolbox) A bundle of analytics tools for fisheries scientists. A 'shiny' R App is included for a 'no-code' solution for retrieval, analysis, and visualization. Package: r-cran-fishstat Architecture: all Version: 2025.1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4719 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-areaplot Filename: pool/dists/focal/main/r-cran-fishstat_2025.1.0.1-1.ca2004.1_all.deb Size: 4615136 MD5sum: 3bd4f82dc4291c64ae88eae0fea52a78 SHA1: 6c44e0889c016aaaad081eccf8cd8fcad79238c2 SHA256: 77fd308c7b6830d19bbcd2fab56e69d57e4a43c0a8944ae8c4d54430fba080f9 SHA512: ff8c60995a8ed296c406c3a799e0ce20d8112966926662d65b47034b268659a7dcbd5fe082a2c1ebc3107c5e0e8b10a5c430f79fd025a99b6e0d5a4b4c3ed222 Homepage: https://cran.r-project.org/package=fishstat Description: CRAN Package 'fishstat' (Global Fishery and Aquaculture Statistics) The Food and Agriculture Organization of the United Nations (FAO) FishStat database is the leading source of global fishery and aquaculture statistics and provides unique information for sector analysis and monitoring. This package provides the global production data from all fisheries and aquaculture in R format, ready for analysis. Package: r-cran-fishtree Architecture: all Version: 0.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 636 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-jsonlite, r-cran-memoise, r-cran-rlang Suggests: r-cran-diversitree, r-cran-geiger, r-cran-hisse, r-cran-knitr, r-cran-markdown, r-cran-phytools, r-cran-picante, r-cran-rfishbase, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fishtree_0.3.4-1.ca2004.1_all.deb Size: 387788 MD5sum: d16a27d43b7d3ebcfb371de1b50519ad SHA1: 3eceec3b19be0e79bca864fa7680464fc9dcd9b6 SHA256: d0a99556671d2d833087979d5b299f81b8c8636147ed406707282999b08bacc4 SHA512: 5811878dbd3e9cbeb8b99765ec7a15cf1fca6ec243a4b6ec435e16e3f437f9d5ea44f319172baf6f70c0f025f13f40df938ef322ace29e62cfeced2fd9002a42 Homepage: https://cran.r-project.org/package=fishtree Description: CRAN Package 'fishtree' (Interface to the Fish Tree of Life API) An interface to the Fish Tree of Life API to download taxonomies, phylogenies, fossil calibrations, and diversification rate information for ray-finned fishes. Package: r-cran-fishualize Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1455 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-png, r-cran-downloader, r-cran-httr, r-cran-magrittr, r-cran-stringr, r-cran-dplyr, r-cran-tidyr, r-cran-scales, r-cran-rlang, r-cran-curl Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rfishbase, r-cran-rnaturalearth, r-cran-pkgdown Filename: pool/dists/focal/main/r-cran-fishualize_0.2.3-1.ca2004.1_all.deb Size: 1017644 MD5sum: d0d0473635c92358abceb484fbf128d0 SHA1: a20f9db144696ad3d05fe95c7d1f4ecf0c163a44 SHA256: db17f54bf09fdf0121cc623fa4b3e75e1d5e6a357f63f0928872286726365700 SHA512: a689813576180f0f99957acf681c54d2b55400de9f566fe7fbb31d0bdc63ff0b2362422c79b3fdda36afb5bcbbc82db85231fb7e958d05268021a69cd3a9a0d1 Homepage: https://cran.r-project.org/package=fishualize Description: CRAN Package 'fishualize' (Color Palettes Based on Fish Species) Implementation of color palettes based on fish species. Package: r-cran-fit.models Architecture: all Version: 0.64-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 162 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-fit.models_0.64-1.ca2004.1_all.deb Size: 133872 MD5sum: fbd9cc676437e2f8fd61db741205382c SHA1: 8752bcb1589aa128e847030e4f8b553f3a977cf1 SHA256: 1a1e4c6ca028fcdc11e7612953b60dc18e8cfc89d49277dcccfffd704b2ec854 SHA512: e71f0e44e08204258431e08e55708f4d2209da0e8c4685eaa70e3db1ceb9e2baee59c9374a86beb9bbb5fd4a7353fbb6c5e57628b6e0e14591527d69eef798c9 Homepage: https://cran.r-project.org/package=fit.models Description: CRAN Package 'fit.models' (Compare Fitted Models) The fit.models function and its associated methods (coefficients, print, summary, plot, etc.) were originally provided in the robust package to compare robustly and classically fitted model objects. See chapters 2, 3, and 5 in Insightful (2002) 'Robust Library User's Guide' ). The aim of the fit.models package is to separate this fitted model object comparison functionality from the robust package and to extend it to support fitting methods (e.g., classical, robust, Bayesian, regularized, etc.) more generally. Package: r-cran-fitbitr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 512 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-janitor, r-cran-jsonlite, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-checkmate, r-cran-devtools, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fitbitr_0.3.0-1.ca2004.1_all.deb Size: 443204 MD5sum: 985021250f24fe84bfdb9ecc2eae87a5 SHA1: 04558e597c6009a313aa45f1d4f9d1bf18b10c7e SHA256: b1b0aaaeeca89faf827e562b8c962bf6f697866933652a0d75bc3b87e5fba59f SHA512: 0046f1ea88999e512c480aa1b6bfc7c9df38e360272230c2760eb3f5001d4fa5a510486f3447b926db956482304c26c250dc38599901ed4756e3d5f9d92dd0ea Homepage: https://cran.r-project.org/package=fitbitr Description: CRAN Package 'fitbitr' (Interface with the 'Fitbit' API) Many 'Fitbit' users, and R-friendly 'Fitbit' users especially, have found themselves curious about their 'Fitbit' data. 'Fitbit' aggregates a large amount of personal data, much of which is interesting for personal research and to satisfy curiosity, and is even potentially useful in medical settings. The goal of 'fitbitr' is to make interfacing with the 'Fitbit' API as streamlined as possible, to make it simple for R users of all backgrounds and comfort levels to analyze their 'Fitbit' data and do whatever they want with it! Currently, 'fitbitr' includes methods for pulling data on activity, sleep, and heart rate, but this list is likely to grow in the future as the package gains more traction and more requests for new methods to be implemented come in. You can find details on the 'Fitbit' API at . Package: r-cran-fitbitscraper Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-stringr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-ggthemes Filename: pool/dists/focal/main/r-cran-fitbitscraper_0.1.8-1.ca2004.1_all.deb Size: 57744 MD5sum: dd7b721719c6089522217372d2a29b3a SHA1: dd16f0a98506e753ae81a235172d949e00aac01a SHA256: 0f3466ca06125909b9589a5a3e4aca8594959e4e718ad4a54d16b821209589ad SHA512: e9df511087619477a2606d01999dca598a4b598ab92c276465942995a5443ab101237c369e4d45d0275d449f37418a10fc3edde64810c353442386b641ce8a87 Homepage: https://cran.r-project.org/package=fitbitScraper Description: CRAN Package 'fitbitScraper' (Scrapes Data from Fitbit) Scrapes data from Fitbit . This does not use the official API, but instead uses the API that the web dashboard uses to generate the graphs displayed on the dashboard after login at . Package: r-cran-fitbitviz Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5706 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-glue, r-cran-httr, r-cran-jsonlite, r-cran-ggplot2, r-cran-lubridate, r-cran-patchwork, r-cran-data.table, r-cran-viridis, r-cran-scales, r-cran-ggthemes, r-cran-varian, r-cran-paletteer, r-cran-xml, r-cran-hms, r-cran-leaflet, r-cran-sf, r-cran-rstudioapi, r-cran-leafgl, r-cran-raster, r-cran-terra, r-cran-magrittr, r-cran-rayshader, r-cran-base64enc, r-cran-lifecycle, r-cran-reshape2 Suggests: r-cran-copernicusdem, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-dt, r-cran-rgl, r-cran-magick Filename: pool/dists/focal/main/r-cran-fitbitviz_1.0.7-1.ca2004.1_all.deb Size: 2791744 MD5sum: 5c222a317db83fb5274bc3713438c5c6 SHA1: 6dfddbffcbc27fe737589ca715080f8294da3605 SHA256: ba019cacaab2932a44814794476b75438c2ea473291266f7c5ef245747b5688d SHA512: 5749759126febc1658b417bc8d62ed85256799aa8515ab3ec04ebe752d28b10ada6f3c62a1cc82cfe005c42eef5c1ca5db7be8fabaf2970773199bd0d0e7d221 Homepage: https://cran.r-project.org/package=fitbitViz Description: CRAN Package 'fitbitViz' ('Fitbit' Visualizations) Connection to the 'Fitbit' Web API by including 'ggplot2' Visualizations, 'Leaflet' and 3-dimensional 'Rayshader' Maps. The 3-dimensional 'Rayshader' Map requires the installation of the 'CopernicusDEM' R package which includes the 30- and 90-meter elevation data. Package: r-cran-fitconic Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-fitconic_1.2.1-1.ca2004.1_all.deb Size: 91212 MD5sum: 7b01a77125c857c50662b331e52e71fd SHA1: d6db30e429d83ae5849ece7d9273f75c719a4717 SHA256: e9166fca9ae09f01e38d50a5a199a639afc3c7374b35828b7f2e732f7fc1a4fe SHA512: ba6ca702f1ca0f3d50f8687cddd0591b9ca267f69ac1e02c847b9556b87fba62b01a52ce97fdc924773181b3cdeae3a62222dc2ea29025fea4390f565162db86 Homepage: https://cran.r-project.org/package=fitConic Description: CRAN Package 'fitConic' (Fit Data to Any Conic Section) Fit data to an ellipse, hyperbola, or parabola. Bootstrapping is available when needed. The conic curve can be rotated through an arbitrary angle and the fit will still succeed. Helper functions are provided to convert generator coefficients from one style to another, generate test data sets, rotate conic section parameters, and so on. References include Nikolai Chernov (2014) "Fitting ellipses, circles, and lines by least squares" ; A. W. Fitzgibbon, M. Pilu, R. B. Fisher (1999) "Direct Least Squares Fitting of Ellipses" IEEE Trans. PAMI, Vol. 21, pages 476-48; N. Chernov, Q. Huang, and H. Ma (2014) "Fitting quadratic curves to data points", British Journal of Mathematics & Computer Science, 4, 33-60; N. Chernov and H. Ma (2011) "Least squares fitting of quadratic curves and surfaces", Computer Vision, Editor S. R. Yoshida, Nova Science Publishers, pp. 285-302. Package: r-cran-fitdistcp Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4576 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mev, r-cran-extradistr, r-cran-gnorm, r-cran-fdrtool, r-cran-pracma, r-cran-rust, r-cran-actuar, r-cran-fextremes Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fitdistcp_0.1.1-1.ca2004.1_all.deb Size: 3859888 MD5sum: dd223a77ddc71a5449cf0c1af8287903 SHA1: c4c5e13ee06826b21c6ac7a4d7f43fed903ba1f3 SHA256: 38579fcb7772ddb1808818c10a2f5cc1825bc67464f20372b83d138d832359f5 SHA512: 6925bf3f3948aa1e7106ff88fae8e507f0eea130f1cee131a2111dc76b78da79d78dd1db7dec014abcf822705687ff9778524f49caeeb8f88540c77efff3e19f Homepage: https://cran.r-project.org/package=fitdistcp Description: CRAN Package 'fitdistcp' (Distribution Fitting with Calibrating Priors for Commonly UsedDistributions) Generates predictive distributions based on calibrating priors for various commonly used statistical models, including models with predictors. Routines for densities, probabilities, quantiles, random deviates and the parameter posterior are provided. The predictions are generated from the Bayesian prediction integral, with priors chosen to give good reliability (also known as calibration). For homogeneous models, the prior is set to the right Haar prior, giving predictions which are exactly reliable. As a result, in repeated testing, the frequencies of out-of-sample outcomes and the probabilities from the predictions agree. For other models, the prior is chosen to give good reliability. Where possible, the Bayesian prediction integral is solved exactly. Where exact solutions are not possible, the Bayesian prediction integral is solved using the Datta-Mukerjee-Ghosh-Sweeting (DMGS) asymptotic expansion. Optionally, the prediction integral can also be solved using posterior samples generated using Paul Northrop's ratio of uniforms sampling package ('rust'). Results are also generated based on maximum likelihood, for comparison purposes. Various model selection diagnostics and testing routines are included. Based on "Reducing reliability bias in assessments of extreme weather risk using calibrating priors", Jewson, S., Sweeting, T. and Jewson, L. (2024); . Package: r-cran-fitdistrplus Architecture: all Version: 1.2-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3487 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-survival, r-cran-rlang Suggests: r-cran-actuar, r-cran-rgenoud, r-cran-mc2d, r-cran-gamlss.dist, r-cran-knitr, r-cran-ggplot2, r-cran-generalizedhyperbolic, r-cran-rmarkdown, r-cran-hmisc, r-cran-bookdown Filename: pool/dists/focal/main/r-cran-fitdistrplus_1.2-2-1.ca2004.1_all.deb Size: 2356696 MD5sum: c5be0d9d2e061a346321f4e34cc7b657 SHA1: 68bdcc1e6e6dcca43b1ee4ddba21f9d8f7dfb773 SHA256: 00a1633330c6f6ddf0bb9c81f6b7d1264eb412f86c1fb4f6a3d34bd9153521a8 SHA512: a880f191f2b0b2fef0b6e5bfbde72c2342da8523921d66030d611797d40811035d7738749cc132cc9286999b7dfc6fc5858fa1a5a8a335cc86764fb6772f248b Homepage: https://cran.r-project.org/package=fitdistrplus Description: CRAN Package 'fitdistrplus' (Help to Fit of a Parametric Distribution to Non-Censored orCensored Data) Extends the fitdistr() function (of the MASS package) with several functions to help the fit of a parametric distribution to non-censored or censored data. Censored data may contain left censored, right censored and interval censored values, with several lower and upper bounds. In addition to maximum likelihood estimation (MLE), the package provides moment matching (MME), quantile matching (QME), maximum goodness-of-fit estimation (MGE) and maximum spacing estimation (MSE) methods (available only for non-censored data). Weighted versions of MLE, MME, QME and MSE are available. See e.g. Casella & Berger (2002), Statistical inference, Pacific Grove, for a general introduction to parametric estimation. Package: r-cran-fitdynmix Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 167 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-evir, r-cran-mass, r-cran-pracma, r-cran-rdpack, r-cran-ks Filename: pool/dists/focal/main/r-cran-fitdynmix_1.0.1-1.ca2004.1_all.deb Size: 106092 MD5sum: 0c045b6698c3636a1cd3e3c419a82e03 SHA1: 5f39b80a60a15011c17d71085bcb936f63c356f7 SHA256: ed589130047c87623a3867383dd95222efc4b2f2ddae5bfb86ddfdcbc96b8998 SHA512: 1c7d82e939811aa0982fb3d58390e8d1129eb8215649640c6d04e839107968c0c2fcadfb21826ec75125188d2e81bc55cb255dd8527e9a53b65b2f91c553dd40 Homepage: https://cran.r-project.org/package=FitDynMix Description: CRAN Package 'FitDynMix' (Estimation of Dynamic Mixtures) Estimation of a dynamic lognormal - Generalized Pareto mixture via the Approximate Maximum Likelihood and the Cross-Entropy methods. See Bee, M. (2023) . Package: r-cran-fitheavytail Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1332 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-icsnp, r-cran-mvtnorm, r-cran-ghyp, r-cran-numderiv Suggests: r-cran-ggplot2, r-cran-reshape2, r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fitheavytail_0.2.0-1.ca2004.1_all.deb Size: 729788 MD5sum: 85b88893adda90a3fe16dc4cdcbed5df SHA1: 74b1fba80c12c39177ea6c11802636d0e8f41e21 SHA256: 0a909df1d5ac97f51c90afc50553092b789e9f863d5b77839389c4ba1a03c9f7 SHA512: 0f3ce50501d7c8641add4c124d75cec1ae731167f3c3dbb4851b3641a9c8393392b07b3a72222e9ffd514c4ebbe6d37bb0200e4e8ba253b523245961cfc9d415 Homepage: https://cran.r-project.org/package=fitHeavyTail Description: CRAN Package 'fitHeavyTail' (Mean and Covariance Matrix Estimation under Heavy Tails) Robust estimation methods for the mean vector, scatter matrix, and covariance matrix (if it exists) from data (possibly containing NAs) under multivariate heavy-tailed distributions such as angular Gaussian (via Tyler's method), Cauchy, and Student's t distributions. Additionally, a factor model structure can be specified for the covariance matrix. The latest revision also includes the multivariate skewed t distribution. The package is based on the papers: Sun, Babu, and Palomar (2014); Sun, Babu, and Palomar (2015); Liu and Rubin (1995); Zhou, Liu, Kumar, and Palomar (2019); Pascal, Ollila, and Palomar (2021). Package: r-cran-fitlandr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 322 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-furrr, r-cran-future.apply, r-cran-ggplot2, r-cran-glue, r-cran-magrittr, r-cran-mass, r-cran-numderiv, r-cran-plotly, r-cran-r.utils, r-cran-rfast, r-cran-rlang, r-cran-rootsolve, r-cran-simlandr, r-cran-sparsevfc, r-cran-tidyr Suggests: r-cran-akima, r-cran-colorramps, r-cran-future Filename: pool/dists/focal/main/r-cran-fitlandr_0.1.0-1.ca2004.1_all.deb Size: 220884 MD5sum: 17d9460cf9c1784322dc7903107cb0ef SHA1: fd24d79352c4fbc10caddb9e0dd9f35173a6c1d5 SHA256: d3f6d7a90a3a16f4bcd64d0af7d1baa062787f48e87f28cfd3d91657d33c6a98 SHA512: 77d635ce0a30fcecc0f8a6cea060942345f33c6d45a2ae79a79c9564691ed68a5bd121df4a868bc742ab35d1982514c5fdd1d83a09cdda6c3f5724d14a6be5ae Homepage: https://cran.r-project.org/package=fitlandr Description: CRAN Package 'fitlandr' (Fit Vector Fields and Potential Landscapes from IntensiveLongitudinal Data) A toolbox for estimating vector fields from intensive longitudinal data, and construct potential landscapes thereafter. The vector fields can be estimated with two nonparametric methods: the Multivariate Vector Field Kernel Estimator (MVKE) by Bandi & Moloche (2018) and the Sparse Vector Field Consensus (SparseVFC) algorithm by Ma et al. (2013) . The potential landscapes can be constructed with a simulation-based approach with the 'simlandr' package (Cui et al., 2021) , or the Bhattacharya et al. (2011) method for path integration . Package: r-cran-fitmix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-fitmix_0.1.0-1.ca2004.1_all.deb Size: 43308 MD5sum: 866eb6a48423439238ba2a5af9eff6b8 SHA1: 02c35ffbaa839430346d40f82062eb7be12bace3 SHA256: ccff170e9a8acfe8777619fb39aeb9d11a67a64d7bdca566ea9030ce3fe7f779 SHA512: 6bb461ce7a132e06ef4c3a69290b032885532e934d68bef52106316b1e2921f2acee96f95fcd2078df5e8fb38210ebfe70241e40ea9e521098e84e72ccd0bdcd Homepage: https://cran.r-project.org/package=fitmix Description: CRAN Package 'fitmix' (Finite Mixture Model Fitting of Lifespan Datasets) Fits the lifespan datasets of biological systems such as yeast, fruit flies, and other similar biological units with well-known finite mixture models introduced by Farewell V. (1982) and Al-Hussaini et al. (2000) . Estimates parameter space fitting of a lifespan dataset with finite mixtures of parametric distributions. Computes the following tasks; 1) Estimates parameter space of the finite mixture model by implementing the expectation maximization (EM) algorithm. 2) Finds a sequence of four goodness-of-fit measures consist of Akaike Information Criterion (AIC), Bayesian Information Criterion (BIC), Kolmogorov-Smirnov (KS), and log-likelihood (log-likelihood) statistics. 3)The initial values is determined by k-means clustering. Package: r-cran-fitodbod Architecture: all Version: 1.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 810 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bbmle, r-cran-hypergeo, r-cran-mass, r-cran-mvtnorm, r-cran-rdpack Suggests: r-cran-flextable, r-cran-ggplot2, r-cran-ggthemes, r-cran-gridextra, r-cran-knitr, r-cran-reshape2, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-viridis Filename: pool/dists/focal/main/r-cran-fitodbod_1.5.4-1.ca2004.1_all.deb Size: 721476 MD5sum: b5e3a61617599aad45b0c3b961f06f5f SHA1: 511bc07f452a7a39693540a2508e1afc474de86e SHA256: 19455639ef3db15a1a38a1fa8bf12d776a7f57fd8c098ff19425d112f81637b2 SHA512: 0f3d5b7baf960f70c43f2b744a9c98185124a277834b24661cf9a93f95de938d4a44e71ff9a3e07fdef1e715bd101948952c7e165e5db2c75fae8d3a5c643d53 Homepage: https://cran.r-project.org/package=fitODBOD Description: CRAN Package 'fitODBOD' (Modeling Over Dispersed Binomial Outcome Data Using BMD and ABD) Contains Probability Mass Functions, Cumulative Mass Functions, Negative Log Likelihood value, parameter estimation and modeling data using Binomial Mixture Distributions (BMD) (Manoj et al (2013) ) and Alternate Binomial Distributions (ABD) (Paul (1985) ), also Journal article to use the package(). Package: r-cran-fitodbodrshiny Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5556 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bslib, r-cran-config, r-cran-flextable, r-cran-ggplot2, r-cran-golem, r-cran-shiny, r-cran-shinydashboard, r-cran-shinyscreenshot Filename: pool/dists/focal/main/r-cran-fitodbodrshiny_1.0.2-1.ca2004.1_all.deb Size: 2832320 MD5sum: 73cd09122006d7326577257337170eb6 SHA1: f737b87233ee28d88363ffe5145be9f96a787d90 SHA256: 1d982a52fcc7a6c4061ed08faa240c5e2926a2dbdb3201429d5cd68ff1b1e3d2 SHA512: 5d214a868668b969f34114311c9e8fd029009654cbbce6953879c8587f8d8dc5fbcce90d02a833f3bff55b534c7171408ae9943cf80e730e10d171bb19808f85 Homepage: https://cran.r-project.org/package=fitODBODRshiny Description: CRAN Package 'fitODBODRshiny' ('Shiny' Application for R Package 'fitODBOD') For binomial outcome data Alternate Binomial Distributions and Binomial Mixture Distributions are fitted when overdispersion is available. Package: r-cran-fitode Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 867 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-bbmle, r-cran-desolve, r-cran-deriv, r-cran-mass, r-cran-numderiv, r-cran-mvtnorm, r-cran-coda Suggests: r-cran-knitr, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fitode_0.1.1-1.ca2004.1_all.deb Size: 678436 MD5sum: 8e74f2e36da9d92dd06c12aaee178b74 SHA1: 9890c229106cf6beba716a2a1948a587c8929bd3 SHA256: fe1e9a558f6d8f452f0d2a92dcfdf4d7c7ace619bc23f8ebbcbf7e05716dddf1 SHA512: ea7666b5c9cdd0d6058eb1db16e83bd09f39f91dcfb0553b6c1163db9de486fe60feeca826e06df410f1c24d64efaf5e1bcdf9d30e6aaf23ec7dd797b6cb77fe Homepage: https://cran.r-project.org/package=fitode Description: CRAN Package 'fitode' (Tools for Ordinary Differential Equations Model Fitting) Methods and functions for fitting ordinary differential equations (ODE) model in 'R'. Sensitivity equations are used to compute the gradients of ODE trajectories with respect to underlying parameters, which in turn allows for more stable fitting. Other fitting methods, such as MCMC (Markov chain Monte Carlo), are also available. Package: r-cran-fitplc Architecture: all Version: 1.2-3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlme, r-cran-car Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fitplc_1.2-3.1-1.ca2004.1_all.deb Size: 88692 MD5sum: 6d684b1a1756bc8151cf4c37e716bc6f SHA1: cca554005da8327574404b26295fe4c0d73b35a1 SHA256: 0419f56a52a31038babe14645c6c5a4e10548dfe92488b4dc1d9b9e4ee7eca7d SHA512: d99e5c20a2f005db7411c0019ceb521aafe3363034982f303f0e0774ffacddd50da983c374d79c9f3d224b9103f452219a9582a59fc0f32f070596d8df984be5 Homepage: https://cran.r-project.org/package=fitplc Description: CRAN Package 'fitplc' (Fit Hydraulic Vulnerability Curves) Fits Weibull or sigmoidal models to percent loss conductivity (plc) curves as a function of plant water potential, computes confidence intervals of parameter estimates and predictions with bootstrap or parametric methods, and provides convenient plotting methods. Package: r-cran-fitpoly Architecture: all Version: 4.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2001 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-foreach, r-cran-devemf, r-cran-doparallel Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fitpoly_4.0.0-1.ca2004.1_all.deb Size: 1863512 MD5sum: d3702cef1cfc184a23e639572ce1a7b2 SHA1: 790bb73785bbe156495275381899d4c6895ce666 SHA256: 77bc40a815b0dabac77299303e6ac1a58d61a0b0f5bb02cc2a448e2ee84bbe93 SHA512: 1210b721228ad0cf9cdced65012b4aaed2f23717f8de9787a32f8ef1785f28752fa4b0c98ae25092652b88ae6e7c3ec8bcd4a8ee717b454ad3744f90a7db9d08 Homepage: https://cran.r-project.org/package=fitPoly Description: CRAN Package 'fitPoly' (Genotype Calling for Bi-Allelic Marker Assays) Genotyping assays for bi-allelic markers (e.g. SNPs) produce signal intensities for the two alleles. 'fitPoly' assigns genotypes (allele dosages) to a collection of polyploid samples based on these signal intensities. 'fitPoly' replaces the older package 'fitTetra' that was limited (a.o.) to only tetraploid populations whereas 'fitPoly' accepts any ploidy level. Reference: Voorrips RE, Gort G, Vosman B (2011) . New functions added on conversion of data from SNP array software formats, drawing of XY-scatterplots with or without genotype colors, checking against expected F1 segregation patterns, comparing results from two different assays (probes) for the same SNP, recovery from a saveMarkerModels() crash. Package: r-cran-fitps Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 610 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-foreach, r-cran-doparallel, r-cran-dplyr, r-cran-hmisc, r-cran-iterators, r-cran-knitr, r-cran-ks, r-cran-pbapply, r-cran-rdpack, r-cran-readxl, r-cran-vgam Suggests: r-cran-sp, r-cran-xtable Filename: pool/dists/focal/main/r-cran-fitps_1.0.1-1.ca2004.1_all.deb Size: 485552 MD5sum: c3e6d7fb49b725ff8b3071bcd4a724ad SHA1: f5aac13ba737e55b03864d468ec0b86fcb36184e SHA256: 7f18e54ddb704ad2f79d7bea6267537e94341732b0c58f687c5bc829fd86522e SHA512: 44f1123adc2f38761ab3273161c52129ed1c6da06f95fbf69eb7d32fcecd765cf3fb5cd322c83f3a3f6f54e2ba23c17e9d0bd72bd4f75f7a69806cc31144fa74 Homepage: https://cran.r-project.org/package=fitPS Description: CRAN Package 'fitPS' (Fit Zeta Distributions to Forensic Data) Fits Zeta distributions (discrete power laws) to data that arises from forensic surveys of clothing on the presence of glass and paint in various populations. The general method is described to some extent in Coulson, S.A., Buckleton, J.S., Gummer, A.B., and Triggs, C.M. (2001) , although the implementation differs. Package: r-cran-fitscape Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fitscape_0.1.0-1.ca2004.1_all.deb Size: 23916 MD5sum: 4b0b697b04e832de50e18c4303e195cc SHA1: 720aee5305ba85c65992b5fa23c871b1f0526321 SHA256: 0d799a1af95a0d3f09bc808a7d572a469d1b2a7eeeecf079548aa36c9587176b SHA512: f770bd6ceb5eaf28563cc7aa1cb41e27f9bf00c15de562a53af8ea295f9429cb41a7ce393c51b1a221b64f740d9155ee54b6af0fdba1a5b9878a23d11df3ee0c Homepage: https://cran.r-project.org/package=fitscape Description: CRAN Package 'fitscape' (Classes for Fitness Landscapes and Seascapes) Convenient classes to model fitness landscapes and fitness seascapes. A low-level package with which most users will not interact but upon which other packages modeling fitness landscapes and fitness seascapes will depend. Package: r-cran-fitsio Architecture: all Version: 2.1-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 261 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fitsio_2.1-6-1.ca2004.1_all.deb Size: 132864 MD5sum: 5b1c50f7517041ef85856c235d07d6db SHA1: ca511111f621c6fadc9cc1566ababd1435d4441c SHA256: 24e48e8c846eb807a9f9c3eb7102c1d9b0a24eb2d96b516c1058c7f6eddde91a SHA512: da24f9c89e643146a8ca17d070889eb148c9c7621c103e2eaf7462cabfcbac93a83d7740c49f4b468dc7afc8e961a7f8635fb6afbdadba48927bdbba9b002adb Homepage: https://cran.r-project.org/package=FITSio Description: CRAN Package 'FITSio' (FITS (Flexible Image Transport System) Utilities) Utilities to read and write files in the FITS (Flexible Image Transport System) format, a standard format in astronomy (see e.g. for more information). Present low-level routines allow: reading, parsing, and modifying FITS headers; reading FITS images (multi-dimensional arrays); reading FITS binary and ASCII tables; and writing FITS images (multi-dimensional arrays). Higher-level functions allow: reading files composed of one or more headers and a single (perhaps multidimensional) image or single table; reading tables into data frames; generating vectors for image array axes; scaling and writing images as 16-bit integers. Known incompletenesses are reading random group extensions, as well as complex and array descriptor data types in binary tables. Package: r-cran-fitter Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dt, r-cran-shiny, r-cran-dplyr, r-cran-maxlik, r-cran-r.utils Suggests: r-cran-actuar, r-cran-ald, r-cran-benchden, r-cran-biasedurn, r-cran-bridgedist, r-cran-davies, r-cran-discreteinverseweibull, r-cran-discretelaplace, r-cran-discreteweibull, r-cran-emdbook, r-cran-emg, r-cran-envstats, r-cran-evd, r-cran-evir, r-cran-extdist, r-cran-extremefit, r-cran-fadist, r-cran-fattailsr, r-cran-fbasics, r-cran-fextremes, r-cran-flexsurv, r-cran-gambin, r-cran-gb, r-cran-genbinomapps, r-cran-generalizedhyperbolic, r-cran-gld, r-cran-gldex, r-cran-glogis, r-cran-gsm, r-cran-hermite, r-cran-hyperbolicdist, r-cran-kscorrect, r-cran-loglognorm, r-cran-marg, r-cran-mc2d, r-cran-minimax, r-cran-msm, r-cran-ncdunnett, r-cran-normallaplace, r-cran-normalp, r-cran-paretoposstable, r-cran-pearsonds, r-cran-poistweedie, r-cran-polyaaeppli, r-cran-qmap, r-cran-qrm, r-cran-reins, r-cran-renext, r-cran-revdbayes, r-cran-rmkdiscrete, r-cran-rmtstat, r-cran-sadists, r-cran-skellam, r-cran-skewhyperbolic, r-cran-skewt, r-cran-smr, r-cran-sn, r-cran-stabledist, r-cran-star, r-cran-statmod, r-cran-trapezoid, r-cran-triangle, r-cran-truncnorm, r-cran-variancegamma Filename: pool/dists/focal/main/r-cran-fitter_0.2.0-1.ca2004.1_all.deb Size: 72876 MD5sum: d3b3b6e33c3578ef50a76f4a63cb4a6b SHA1: 93cfe46fab5a7058f2fb5ff9af338fc301d48a38 SHA256: 64e47bf9cb999d29f7e84006fed2872f946478eb41cfb1f3d3027a9eb6932037 SHA512: 91863687301b11943a9b51ac1a6648de2783c78db6de34bab038a0bd4cc0c27d5e12d6cff22a3a332cd1624e26ef4a1b9c79d668274235bcaa82427f052f2639 Homepage: https://cran.r-project.org/package=fitteR Description: CRAN Package 'fitteR' (Fit Hundreds of Theoretical Distributions to Empirical Data) Systematic fit of hundreds of theoretical univariate distributions to empirical data via maximum likelihood estimation. Fits are reported and summarized by a data.frame, a csv file or a 'shiny' app (here with additional features like visual representation of fits). All output formats provide assessment of goodness-of-fit by the following methods: Kolmogorov-Smirnov test, Shapiro-Wilks test, Anderson-Darling test. Package: r-cran-fittetra Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 894 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-domc, r-cran-foreach, r-cran-devemf Filename: pool/dists/focal/main/r-cran-fittetra_1.0-1.ca2004.1_all.deb Size: 883676 MD5sum: 7d75f6a56bf34bcc0b43aa198838051e SHA1: d6037dc21b978f685c829c2f1094a8fa22147783 SHA256: 5832e8dcc5db41409b0625d45606a2a759d43dd75819f571a570ccc64bfcf091 SHA512: ef505e6b952b5d2d47eb9d5c53ea1e770e2253ab6de7d3c740902d0fbb65b94363d9c20462fc35966fdc9b20ec4b71d312a756b412b5cdfaf085827b78b7967b Homepage: https://cran.r-project.org/package=fitTetra Description: CRAN Package 'fitTetra' (fitTetra is an R package for assigning tetraploid genotypescores) Package fitTetra contains three functions that can be used to assign genotypes to a collection of tetraploid samples based on bialleleic marker assays. Functions fitTetra (to fit several models for one marker from the data and select the best fitting) or saveMarkerModels (calls fitTetra for multiple markers and saves the results to files) will probably be the most convenient to use. Function CodomMarker offers more control and fits one specified model for a given marker. Package: r-cran-fitultd Architecture: all Version: 3.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mclust, r-cran-adgoftest, r-cran-fitdistrplus, r-cran-assertthat, r-cran-mass, r-cran-purrr, r-cran-ggplot2, r-cran-cowplot Filename: pool/dists/focal/main/r-cran-fitultd_3.1.0-1.ca2004.1_all.deb Size: 60764 MD5sum: a1c144e8da75eb8a9255b9ec3c97edd0 SHA1: 4e2cf51fbaa74e0d4d2e967752657f5632e31bc3 SHA256: e74e238ca210606c1f4fb73fddc8cf071e56389c157ea11bdd54b4fee96f823c SHA512: bcb85878256592bcb63a3c379f99fc5dd205a1b75fbb272327482d188b8825b5ca61b92908a76150a3b65747dcfee5ac8290c8500ac576619770aefb86c1f429 Homepage: https://cran.r-project.org/package=FitUltD Description: CRAN Package 'FitUltD' (Fit Univariate Mixed and Usual Distributions) Extends the fitdist() (from 'fitdistrplus') adding the Anderson-Darling ad.test() (from 'ADGofTest') and Kolmogorov Smirnov Test ks.test() inside, trying the distributions from 'stats' package by default and offering a second function which uses mixed distributions to fit, this distributions are split with unsupervised learning, with Mclust() function (from 'mclust'). Package: r-cran-fitur Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fitdistrplus, r-cran-actuar, r-cran-e1071, r-cran-ggplot2, r-cran-goftest, r-cran-miniui, r-cran-rstudioapi, r-cran-dt Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fitur_0.6.2-1.ca2004.1_all.deb Size: 122736 MD5sum: 3e7bc132393676d26c2f9df3d6ee282b SHA1: 492c0e0128db9a078e319a7b91b1863a5548154a SHA256: 6fde9c902bc620ada20eb5e21e316d11400f0e5ec9193ade9ea9107e0a961a89 SHA512: a070d467da79b0b32c4db94a57cc3191b90aade775d8902ef8c63bc8f237106ad9fa5eadf4107e432454f2aa739aeb1e7a483dd76fb8cb6fb66d1087aa92e334 Homepage: https://cran.r-project.org/package=fitur Description: CRAN Package 'fitur' (Fit Univariate Distributions) Wrapper for computing parameters for univariate distributions using MLE. 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Package: r-cran-flashmm Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-flashmm_1.2.1-1.ca2004.1_all.deb Size: 75208 MD5sum: 3e456bfc7550869abe0823c5d03310a8 SHA1: 70a2f922a000521c59d763f90715f6b2355a7784 SHA256: f3a5a9dc7b6bef36f575ee9296bc169a939bb6a1610913c3c815ae1d5589d9ed SHA512: 55f74b9d763ce29dc40f08930f4317ed5923cc8821d74f5b6487ef74c156d054189c200560088aa15da6184973678e955e9b969f033a0e7be0d1b8ddb21fb61e Homepage: https://cran.r-project.org/package=FLASHMM Description: CRAN Package 'FLASHMM' (Fast and Scalable Single Cell Differential Expression Analysisusing Mixed-Effects Models) A fast and scalable linear mixed-effects model (LMM) estimation algorithm for analysis of single-cell differential expression. 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The package's name derives from a play on the fact that lipid scrambling is also sometimes referred to as 'flipping'. The package is originally published as Cotton, R.J., Ploier, B., Goren, M.A., Menon, A.K., and Graumann, J. (2017). "flippant–An R package for the automated analysis of fluorescence-based scramblase assays." BMC Bioinformatics 18, 146. . 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Package: r-cran-flower Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-flower_1.0-1.ca2004.1_all.deb Size: 54620 MD5sum: 46161ccd831ea8b7667ae81e089e0c23 SHA1: fc0c0cd4a896ebbf22a03ad55d2e05448469abac SHA256: 5b1b20379293976050e3d30af7a95db1fa795443c0c678a4fef9d08501b2de3c SHA512: b3ca796918191c32ef4d59ca3bdcac07ebef528183a37a2944ad53cfdaa9fbd63da494931ce3b45339fb91701b008ac830f38b7e3c9b657eeb753935ce3f5943 Homepage: https://cran.r-project.org/package=flower Description: CRAN Package 'flower' (Tools for characterizing flowering traits) Flowering is an important life history trait of flowering plants. It has been mainly analyzed with respect to flowering onset and duration of flowering. 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Package: r-cran-flowml Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 382 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-abcanalysis, r-cran-caret, r-cran-data.table, r-cran-dplyr, r-cran-fastshap, r-cran-furrr, r-cran-future, r-cran-magrittr, r-cran-optparse, r-cran-purrr, r-cran-r6, r-cran-readr, r-cran-rjson, r-cran-rlang, r-cran-rsample, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-vip Suggests: r-cran-ada, r-cran-adabag, r-cran-arm, r-cran-bartmachine, r-cran-bst, r-cran-c50, r-cran-catools, r-cran-class, r-cran-cubist, r-cran-e1071, r-cran-earth, r-cran-elasticnet, r-cran-evtree, r-cran-fastica, r-cran-foreach, r-cran-frbs, r-cran-gam, r-cran-gbm, r-cran-ggplot2, r-cran-glmnet, r-cran-h2o, r-cran-hda, r-cran-ipred, r-cran-keras, r-cran-kernlab, r-cran-kknn, r-cran-klar, r-cran-knitr, r-cran-kohonen, r-cran-lars, r-cran-leaps, r-cran-liblinear, r-cran-logicreg, r-cran-mass, r-cran-matrix, r-cran-mboost, r-cran-mda, r-cran-mgcv, r-cran-monomvn, r-cran-neuralnet, r-cran-nnet, r-cran-nnls, r-cran-pamr, r-cran-partdsa, r-cran-party, r-cran-partykit, r-cran-penalized, r-cran-pls, r-cran-plyr, r-cran-proxy, r-cran-quantregforest, r-cran-randomforest, r-cran-ranger, r-cran-rferns, r-cran-rmarkdown, r-cran-rpart, r-cran-rrcov, r-cran-rrcovhd, r-cran-rsnns, r-cran-rweka, r-cran-sda, r-cran-shapviz, r-cran-spls, r-cran-superpc, r-cran-vgam, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-flowml_0.1.3-1.ca2004.1_all.deb Size: 304928 MD5sum: a4e9e63156345e6fe8ad8e2cf8818a23 SHA1: 87be033f9dc8e010ff4e057988d49a60ff64ea22 SHA256: ba98365d9c7214eaacf8f7a536c54cea970acdbb09442e5772848d66c8d3327e SHA512: b3848cf580c403b239cb1c74dc117649c793ce6bc649176275b098c87b8efc8f2556fb06526c0e77ab50ed59e4098dc16337030fe720c8225fedee787d98c8cd Homepage: https://cran.r-project.org/package=flowml Description: CRAN Package 'flowml' (A Backend for a 'nextflow' Pipeline that PerformsMachine-Learning-Based Modeling of Biomedical Data) Provides functionality to perform machine-learning-based modeling in a computation pipeline. Its functions contain the basic steps of machine-learning-based knowledge discovery workflows, including model training and optimization, model evaluation, and model testing. To perform these tasks, the package builds heavily on existing machine-learning packages, such as 'caret' and associated packages. The package can train multiple models, optimize model hyperparameters by performing a grid search or a random search, and evaluates model performance by different metrics. Models can be validated either on a test data set, or in case of a small sample size by k-fold cross validation or repeated bootstrapping. It also allows for 0-Hypotheses generation by performing permutation experiments. Additionally, it offers methods of model interpretation and item categorization to identify the most informative features from a high dimensional data space. The functions of this package can easily be integrated into computation pipelines (e.g. 'nextflow' ) and hereby improve scalability, standardization, and re-producibility in the context of machine-learning. Package: r-cran-flowr Architecture: all Version: 0.9.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2872 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-params, r-cran-diagram, r-cran-whisker, r-cran-readr Suggests: r-cran-reshape2, r-cran-knitr, r-cran-testthat, r-cran-funr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-flowr_0.9.11-1.ca2004.1_all.deb Size: 615780 MD5sum: 75e8abde652543e4960c42aa5912521d SHA1: dcfb0056de966f6187a4c1fc68f44261fbb5883a SHA256: 3b07b064b7bbe78856e87a0496cc0841ff2bc67f3e26bf460fd7880fb6bb0761 SHA512: 8364691b5874f46fc597f9f514460bedf513692f82b595c43a3cf54cfb57d79629f7eded31bfa763333d86fb4736ade8cfa6039d8259a0dfe7f147a8317d3577 Homepage: https://cran.r-project.org/package=flowr Description: CRAN Package 'flowr' (Streamlining Design and Deployment of Complex Workflows) This framework allows you to design and implement complex pipelines, and deploy them on your institution's computing cluster. This has been built keeping in mind the needs of bioinformatics workflows. However, it is easily extendable to any field where a series of steps (shell commands) are to be executed in a (work)flow. Package: r-cran-flowregenvcost Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-zoo Filename: pool/dists/focal/main/r-cran-flowregenvcost_0.1.1-1.ca2004.1_all.deb Size: 114124 MD5sum: 3f659cf2857ea5a8a7443d3cd906dd2d SHA1: b98f91882991e7358e0570a4db63e70f79bf89e5 SHA256: 30a3eee564634d260bedef223f376fcf9225debfeffd67600507dce660e8e4e4 SHA512: f006bd5680f6b5fc17bc0a4c87b406b663297cf9f877dd62b838504d23b24c35321c537000d8cb3f926340618ebcbcdad346fc3c079429a1cc59a6b10d110927 Homepage: https://cran.r-project.org/package=FlowRegEnvCost Description: CRAN Package 'FlowRegEnvCost' (The Environmental Costs of Flow Regulation) An application to calculate the daily environmental costs of river flow regulation by dams based on García de Jalon et al. 2017 . Package: r-cran-flowscreen Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3310 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-zyp, r-cran-changepoint, r-cran-evir Filename: pool/dists/focal/main/r-cran-flowscreen_2.0-1.ca2004.1_all.deb Size: 1582304 MD5sum: caba9a0c445f3ea1bd3bd527cfab66c9 SHA1: f18288258be791bfcf80e7113f3587ee9954c37c SHA256: 72a32acf7220d301ea0afbe68c1e77ba619afb6d9a22ad9b8b35aa2a25f98fa6 SHA512: a6ca3f04c23a64874e82f75776c0f9cc53d0221011ed3b4db8ac180da1c07f1e4081fbfe04fbd8af7d6eb22200246b4f5650ca6824acb2b575df2d10d3f9a42f Homepage: https://cran.r-project.org/package=FlowScreen Description: CRAN Package 'FlowScreen' (Daily Streamflow Trend and Change Point Screening) Screens daily streamflow time series for temporal trends and change-points. This package has been primarily developed for assessing the quality of daily streamflow time series. It also contains tools for plotting and calculating many different streamflow metrics. The package can be used to produce summary screening plots showing change-points and significant temporal trends for high flow, low flow, and/or baseflow statistics, or it can be used to perform more detailed hydrological time series analyses. The package was designed for screening daily streamflow time series from Water Survey Canada and the United States Geological Survey but will also work with streamflow time series from many other agencies. Package update to version 2.0 made updates to read.flows function to allow loading of GRDC and ROBIN streamflow record formats. This package uses the `changepoint` package for change point detection. For more information on change point methods, see the changepoint package at . Package: r-cran-flowtracer Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 378 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-comprehenr, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-data.table, r-cran-kableextra, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-flowtracer_0.1.1-1.ca2004.1_all.deb Size: 236000 MD5sum: 24f662c28c20ff8843d9dff686de69ec SHA1: e6dbf19b9a03fc8ba72e3b3c356583f8058c53fe SHA256: 11e6c54b8640cf6744b59693b824477aaa49bbebf512506a781caf990a6df690 SHA512: 5bf8f7614ff88f117e1117636189e3b5b8c9e06994f5f45b0f9e787563c633b61d4d4c5f5d58cdd29f234a2414a4aacf1712f5af123d3c466481a09bedbdc612 Homepage: https://cran.r-project.org/package=flowTraceR Description: CRAN Package 'flowTraceR' (Tracing Information Flow for Inter-Software Comparisons in MassSpectrometry-Based Bottom-Up Proteomics) Useful functions to standardize software outputs from ProteomeDiscoverer, Spectronaut, DIA-NN and MaxQuant on precursor, modified peptide and proteingroup level and to trace software differences for identifications such as varying proteingroup denotations for common precursor. Package: r-cran-flps Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1223 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rstan, r-cran-rcpp, r-cran-mirt, r-cran-mass, r-cran-mvtnorm, r-cran-ggplot2, r-cran-glue Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-lavaan, r-cran-data.table Filename: pool/dists/focal/main/r-cran-flps_1.1.0-1.ca2004.1_all.deb Size: 838680 MD5sum: 6a896c40e3ca53d0bf11197f4b61ec5f SHA1: c201dc953b92a02703b3eaf531073d91928aef9d SHA256: 0fb7d34991c7902d191e532514c84619182f67ccaa6d6014263ec22d8f87392a SHA512: 12919fec7c5e4f6de8f94e865d16b29dfbb27fd5b200400ed98ab05fd67222e7ee9c605456ac62bf4e55c35bfa3909458929b168b95ff2914d7d36e8e7fd40a7 Homepage: https://cran.r-project.org/package=flps Description: CRAN Package 'flps' (Fully-Latent Principal Stratification) Simulation and analysis of Fully-Latent Principal Stratification (FLPS) with measurement models. Lee, Adam, Kang, & Whittaker (2023). . This package is supported by the Institute of Education Sciences, U.S. Department of Education, through Grant R305D210036. Package: r-cran-flr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-combinat Filename: pool/dists/focal/main/r-cran-flr_1.0-1.ca2004.1_all.deb Size: 69564 MD5sum: 0b5db80ae019d454cd7c01a049d6127c SHA1: 02d2a4d9ce262c22eab990b424853d7478e391c5 SHA256: 0b973a15fa5c3c4f3dfed2a9e365b7e48d0bebee5fee7d4779b2f3e92d9b1b24 SHA512: dd09af025024c5897c594a52cd2b315ec499617da4752f475524354a76ac20cf310abe898a10f02f7f339e63fe0f0f5a6ba5e375314a77e46e97e01730c38a15 Homepage: https://cran.r-project.org/package=FLR Description: CRAN Package 'FLR' (Fuzzy Logic Rule Classifier) FLR algorithm for classification Package: r-cran-fluidigm Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1859 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-reshape Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-digest Filename: pool/dists/focal/main/r-cran-fluidigm_0.2-1.ca2004.1_all.deb Size: 414140 MD5sum: 71e81fb1fca7624c82459ffc3e69358f SHA1: a92a7c3623e1bc44cadc3eb07ee1f1b252f4cc29 SHA256: fbd915ece40a4e307e9562f3c5cd7e89110237ac14c431e80002fee7891a8631 SHA512: d14fa9b3fefc1f78840a0e82bc00c2cc00fe363f41ff698dfb4a569e391aef96f5de364664037a5bd297ee0c5a2e0ba518d1527dbb7e4a36298102b909dcb41d Homepage: https://cran.r-project.org/package=Fluidigm Description: CRAN Package 'Fluidigm' (Handling Fluidigm Data) Designed to streamline the process of analyzing genotyping data from Fluidigm machines, this package offers a suite of tools for data handling and analysis. It includes functions for converting Fluidigm data to format used by 'PLINK', estimating errors, calculating pairwise similarities, determining pairwise similarity loci, and generating a similarity matrix. Package: r-cran-flumodl Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 219 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dlnm, r-cran-mvmeta, r-cran-tsmodel Filename: pool/dists/focal/main/r-cran-flumodl_0.0.3-1.ca2004.1_all.deb Size: 182892 MD5sum: 6217a613b422b8fc7f7975efe25cf264 SHA1: fd5eb1e2f4ba2db0fddbb9897674c6f7ffb45990 SHA256: e779e5743209e384dcda2fb215178dd290c603633193dfac68e6c9e2293f8298 SHA512: 0fa397cbd15948a48c4d4f17930f4d8d1ce548568ede4cc627cf76c8bc5911c595d076875b8699d47b9635e7a61e6eaf6306df901f45ed18d5fdd8599b627275 Homepage: https://cran.r-project.org/package=FluMoDL Description: CRAN Package 'FluMoDL' (Influenza-Attributable Mortality with Distributed-Lag Models) Functions to estimate the mortality attributable to influenza and temperature, using distributed-lag nonlinear models (DLNMs), as first implemented in Lytras et al. (2019) . Full descriptions of underlying DLNM methodology in Gasparrini et al. (DLNMs), (attributable risk from DLNMs) and (multivariate meta-analysis). Package: r-cran-fluosurv Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1984 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-survival Filename: pool/dists/focal/main/r-cran-fluosurv_1.0.0-1.ca2004.1_all.deb Size: 988748 MD5sum: 4b0ee50abe45c1bdaf1af22106053c78 SHA1: 27dc356cd5dda214af62008d893c153ad583f1b7 SHA256: ee671edae1a86661968f45a973b53e812bbfc7a45ba5f8fc72177cf772a88571 SHA512: 5a64e8ecffbab08a37d1a4657e221265d33d8af770a7fc1981a499f96fc205a5b5e955b76074f9cd804a71eaa624fc467d7ebba32fce11a735c4fda4aa60f3dc Homepage: https://cran.r-project.org/package=fluoSurv Description: CRAN Package 'fluoSurv' (Estimate Insect Survival from Fluorescence Data) Use spectrophotometry measurements performed on insects as a way to infer pathogens virulence. Insect movements cause fluctuations in fluorescence signal, and functions are provided to estimate when the insect has died as the moment when variance in autofluorescence signal drops to zero. The package provides functions to obtain this estimate together with functions to import spectrophotometry data from a Biotek microplate reader. Details of the method are given in Parthuisot et al. (2018) . Package: r-cran-fluspect Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-fluspect_1.0.0-1.ca2004.1_all.deb Size: 55392 MD5sum: ea8f2163fb85df81fe49cb89bf9bf46d SHA1: c3738c52a1065a74d92174646a2aa13a011050a1 SHA256: a1b324cbcb61435b2f233aa9cb867adb94536eb2f58102402d47d3a33d0fb271 SHA512: a0589fd9bfa54338e20868794c4a6f440a4ca818ee8dfc01342e5f1fb3496c9747d1e610746a3e33b788dc957a42971511cff551110b02a8fb91d1b7ed43ac66 Homepage: https://cran.r-project.org/package=fluspect Description: CRAN Package 'fluspect' (Fluspect-B) A model for leaf fluorescence, reflectance and transmittance spectra. It implements the model introduced by Vilfan et al. (2016) . Fluspect-B calculates the emission of ChlF on both the illuminated and shaded side of the leaf. Other input parameters are chlorophyll and carotenoid concentrations, leaf water, dry matter and senescent material (brown pigments) content, leaf mesophyll structure parameter and ChlF quantum efficiency for the two photosystems, PS-I and PS-II. Package: r-cran-flux Architecture: all Version: 0.3-0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 625 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-catools Filename: pool/dists/focal/main/r-cran-flux_0.3-0.1-1.ca2004.1_all.deb Size: 599420 MD5sum: 57e2096ad8122d908cb4569190b95c1d SHA1: caf088eef85236191c92ff231dcb17fbc8606156 SHA256: 239ae25f88ba5590ac7cddac78180dedf260df7629d1f27043adbb8677243318 SHA512: 46df00247d4907e82128c69eab3ec6f70358f3c6fd424d5b3729345c1c526072f2d0aac60599a1adef508c14163dd1b10cbdb7c143af31a40639e977848d24b2 Homepage: https://cran.r-project.org/package=flux Description: CRAN Package 'flux' (Flux Rate Calculation from Dynamic Closed Chamber Measurements) Functions for the calculation of greenhouse gas flux rates from closed chamber concentration measurements. The package follows a modular concept: Fluxes can be calculated in just two simple steps or in several steps if more control in details is wanted. Additionally plot and preparation functions as well as functions for modelling gpp and reco are provided. Package: r-cran-fluxfinder Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 562 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-jsonlite, r-cran-lubridate, r-cran-mass Suggests: r-cran-gasfluxes, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-fluxfinder_1.1.0-1.ca2004.1_all.deb Size: 183428 MD5sum: 2dd6ed7f2f13d2c666a2f551dc65965b SHA1: f2af5cbf855124e63879aade3bb2b4d17fe1ce51 SHA256: a141449d82520d37afaf7700f0ec91fdc847f4c49ddefd1ef8a7a444bf60bdbe SHA512: 503710f6249144bbcb122cf619d529eded7e4e2851b36a9eb5b6404cc6b7615938fb1b70d4d7f1a713a1ee78a7399ac1bafd434961339d2448d574d6b89b9983 Homepage: https://cran.r-project.org/package=fluxfinder Description: CRAN Package 'fluxfinder' (Parsing, Computation, and Diagnostics for Greenhouse GasMeasurements) Parse static-chamber greenhouse gas measurement files generated by a variety of instruments; compute flux rates using multi-observation metadata; and generate diagnostic metrics and plots. Designed to be easy to integrate into reproducible scientific workflows. Package: r-cran-fluxible Architecture: all Version: 1.2.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3049 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-dplyr, r-cran-ggforce, r-cran-ggplot2, r-cran-haven, r-cran-lubridate, r-cran-rlang, r-cran-purrr, r-cran-stringr, r-cran-tidyr, r-cran-zoo, r-cran-progress, r-cran-purrrlyr, r-cran-tidyselect, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-forcats, r-cran-tidyverse, r-cran-fs Filename: pool/dists/focal/main/r-cran-fluxible_1.2.6-1.ca2004.1_all.deb Size: 2192568 MD5sum: b5fd603d3d0fa0c838b06fdb90755176 SHA1: 8d78b4747277751bf114e2f5efae6bed3bd279a1 SHA256: b6095f693d0768115bbc44c127f174741f8bf0d7af2bb624a535c7e40970de7b SHA512: 0c0d533e2c08c3e672d54249f056201a0884b4a31c22c4f9fc0dee07d1122cf6ddd520070f7624a26922517607004f03286bc03c3560e40abdff85a9b46899b7 Homepage: https://cran.r-project.org/package=fluxible Description: CRAN Package 'fluxible' (Ecosystem Gas Fluxes Calculations for Closed Loop Chamber Setup) Processes the raw data from closed loop flux chamber (or tent) setups into ecosystem gas fluxes usable for analysis. It goes from a data frame of gas concentration over time (which can contain several measurements) and a meta data file indicating which measurement was done when, to a data frame of ecosystem gas fluxes including quality diagnostics. Functions provided include different models (exponential as described in Zhao et al (2018) , quadratic and linear) to estimate the fluxes from the raw data, quality assessment, plotting for visual check and calculation of fluxes based on the setup specific parameters (chamber size, plot area, ...). Package: r-cran-fluxweb Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 337 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-fluxweb_2.0.0-1.ca2004.1_all.deb Size: 265820 MD5sum: 149ea5ce5526f73fcfd833f4c145cc72 SHA1: 50981930430f524b2f90086c86c15c7b4ae252c1 SHA256: b0c06fe8536011f4b8c950327d358c2203141aaebbad589968a9206dc9f1a348 SHA512: 6e79149aa8db3b9676e2bb093387a16b558925a905a287ae3361859d9182385538993aeb4e3f26db41c8f710a1e5799822ac0f78c0e997f53ca8c77f5a817b08 Homepage: https://cran.r-project.org/package=fluxweb Description: CRAN Package 'fluxweb' (Estimate Energy Fluxes in Food Webs) Compute energy fluxes in trophic networks, from resources to their consumers, and can be applied to systems ranging from simple two-species interactions to highly complex food webs. It implements the approach described in Gauzens et al. (2017) to calculate energy fluxes, which are also used to calculate equilibrium stability. 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Can perform confidence-interval bootstrap inference with mutual information or maximal information coefficient. Based on my Master 1 internship at the Bordeaux Population Health center. References : Reshef et al. (2011) , Meyer et al. (2008) , Liu et al. (2016) . Package: r-cran-foodquotient Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-foodquotient_0.1.1-1.ca2004.1_all.deb Size: 64328 MD5sum: 5da1a169fa319802f1a42298ba647c5a SHA1: 3f6eb27d811c5b206d9ae74a3b18b842cd1e2785 SHA256: 7df1eae36251efaefd84038c69c56db3d7e0e532cf7b84ff1a4b5827dc56ff6f SHA512: 2dee33df03fa0e22b44f6615e99fe267ed5d6f105b305700fba53b25bc3454189036f48a4171c415f2fac1109230aa9b70d5d56a6d811578ed847785ff18606a Homepage: https://cran.r-project.org/package=foodquotient Description: CRAN Package 'foodquotient' (Food Quotient and Nutrient Analysis for HSFFQ) Aids in analysing data from a food frequency questionnaire known as the Harvard Service Food Frequency Questionnaire (HSFFQ). Functions from this package use answers from the HSFFQ to generate estimates of daily consumed micronutrients, calories, macronutrients on an individual level. The package also calculates food quotients on individual and group levels. Foodquotient calculation is an often tedious step in the calculation of total human energy expenditure (TEE) using the doubly labeled water method, which is the gold standard for measuring TEE. Package: r-cran-foodweb Architecture: all Version: 1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 444 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rgl Filename: pool/dists/focal/main/r-cran-foodweb_1-0-1.ca2004.1_all.deb Size: 392768 MD5sum: 8b07eb0555db82f216cea5eb9abe96ed SHA1: 964074d83be2a56f41d5264e03cd7a1296b5bc47 SHA256: e60f0e7473c1f60a2642533220c8ca584c05a7a4fb0e6385e627d23dbc3699a1 SHA512: 3397265dcd9c13a7293ac1543149078db621bb91fea96c63f48b50cb0db647010ec5cc66ffd2ab7157f5f7fa51d8158a5a145a72aae9b311b76139b2fe6dc6c7 Homepage: https://cran.r-project.org/package=foodweb Description: CRAN Package 'foodweb' (visualisation and analysis of food web networks) Calculates twelve commonly-used, basic measures of food web network structure from binary, predator-prey matrices: species richness, connectance, total number of links, link density, number of trophic positions, predator:prey ratio, and fraction of carnivores, herbivores, top species and intermediate species. Employs food web language in the code and output, translates between a couple of common food web formats, can handle food webs consisting of multiple levels, and can automate the analysis for a large number of webs. The program produces 3-dimensional graphs of high quality that can be customized by the user. 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The matrix-format output of the original program contains identical row names and column names, each name representing a retrieved function. This format is enhanced by using the find_funs() program [see Sebastian (2017) ] to concatenate the package name to the function name. Each package is assigned a unique color, that is used to color code the text naming the packages and the functions. This color coding is extended to the entries of value "1" within the matrix, indicating the pattern of ancestor and descendent functions. 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Package: r-cran-footballpenaltiesbl Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-footballpenaltiesbl_1.0.0-1.ca2004.1_all.deb Size: 102904 MD5sum: 90454211c49d455998b5d0d0007f3a66 SHA1: 82ae8b9844fbccf2871f43d264459eb83356ade1 SHA256: 97b50bc8af5fc786e62abeaa0898d1ba47773180952ffd2256be6f3e650d9d47 SHA512: b01cc27c126aefbdae5cb4284a7e8c35d6087e1af4275403708101e28117a2d2a270f4a87c0d76cb309ea614ef12002bd849d3380710047e084253b24a6b74a7 Homepage: https://cran.r-project.org/package=footballpenaltiesBL Description: CRAN Package 'footballpenaltiesBL' (Penalties in the German Men's Football Bundesliga) Basic analysis of all penalties taken in the German men's Bundesliga between the start of its inaugural season and May 2017. The main functions are suitable printing and plotting functions. 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Package: r-cran-footbayes Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2562 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rstan, r-cran-arm, r-cran-reshape2, r-cran-ggplot2, r-cran-ggridges, r-cran-bayesplot, r-cran-matrixstats, r-cran-extradistr, r-cran-metrology, r-cran-dplyr, r-cran-tidyr, r-cran-numderiv, r-cran-magrittr, r-cran-rlang Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-loo Filename: pool/dists/focal/main/r-cran-footbayes_1.0.0-1.ca2004.1_all.deb Size: 2118400 MD5sum: e5864e9f7653e70e400398af78244c0a SHA1: c485c1ae6c651421612b771c41abdad7353a7913 SHA256: 2a6343b6ff1be73d2e525d30bca4fb2656d52a1df3c0e2ef6aa6f1cffb15fbcf SHA512: 3994a1f887f12aeae2c666cd26f8ff4afd25be965868025eb0a7b3a1df74c4701786938663d077e767788ea58ef95560511989a2295c793c84602c16524d3b92 Homepage: https://cran.r-project.org/package=footBayes Description: CRAN Package 'footBayes' (Fitting Bayesian and MLE Football Models) This is the first package allowing for the estimation, visualization and prediction of the most well-known football models: double Poisson, bivariate Poisson, Skellam, student_t, diagonal-inflated bivariate Poisson, and zero-inflated Skellam. 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This tools contain functions that facilitate analysis in atmospheric chemistry (especially in ozone pollution). Some functions of time series are also applicable to other fields. For detail please view homepage. Scientific Reference: 1. The Hydroxyl Radical (OH) Reactivity: Roger Atkinson and Janet Arey (2003) . 2. Ozone Formation Potential (OFP): , Zhang et al.(2021) . 3. Aerosol Formation Potential (AFP): Wenjing Wu et al. (2016) . 4. TUV model: . 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Forecasting methods are compared using different error metrics. Proposed forecasting methods and alternative error metrics can be used. Detailed discussion is provided in the vignette. 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A typical HAR inference is involved with non-parametric estimation of the long-run variance, and one of its tuning parameters, the truncation parameter, trades off a size and power. Lazarus, Lewis, and Stock (2021) theoretically characterize the size-power frontier for the Gaussian multivariate location model. 'ForeComp' computes and visualizes the finite-sample size-power frontier of the Diebold-Mariano test based on fixed-b asymptotics together with the Bartlett kernel. To compute the finite-sample size and power, it works with the best approximating ARMA process to the given dataset. It informs the user how their choice of the truncation parameter performs and how robust the testing outcomes are. 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Includes published population frequency data from the US National Institute of Standards and Technology, Federal Bureau of Investigation and the UK government. 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By leveraging information theory metrics, it enables accurate assessment of kinship, particularly when limited genetic evidence is available. With a focus on optimizing statistical power, 'forensIT' empowers investigators to effectively prioritize family members, enhancing the reliability and efficiency of missing person investigations. Package: r-cran-forestat Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1356 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-nlme, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-forestat_1.1.0-1.ca2004.1_all.deb Size: 953368 MD5sum: a739d120df3d450249d787f538fdd747 SHA1: 490b6635d2984275bd24ee1ffef240a48bbb3d3b SHA256: acf0fbc9bd41edf9caea0f0c13378fa4d865733c3b16d7226eb349c85111ddc5 SHA512: f2d5a893499c9fc89ab0369c0c5e40f6045febc81ac2a92a2293498dd2125016630f36a696a8ef2e4636d47a5981f1c57cdfd9aae4b8f19c905d415d74413101 Homepage: https://cran.r-project.org/package=forestat Description: CRAN Package 'forestat' (Forest Carbon Sequestration and Potential ProductivityCalculation) Include assessing site classes based on the stand height growth and establishing a nonlinear mixed-effect biomass model under different site classes based on the whole stand model to achieve more accurate estimation of carbon sequestration. In particular, a carbon sequestration potential productivity calculation method based on the potential mean annual increment is proposed. This package is applicable to both natural forests and plantations. It can quantitatively assess stand’s potential productivity, realized productivity, and possible improvement under certain site, and can be used in many aspects such as site quality assessment, tree species suitability evaluation, and forest degradation evaluation. Reference: Lei X, Fu L, Li H, et al (2018) . Fu L, Sharma R P, Zhu G, et al (2017) . Package: r-cran-forestdata Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1714 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-sf, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-dplyr, r-cran-purrr, r-cran-terra, r-cran-stringi, r-cran-archive, r-cran-foreign, r-cran-lifecycle, r-cran-cli, r-cran-glue, r-cran-countrycode Suggests: r-cran-aws.s3, r-cran-rodbc, r-cran-odbc, r-cran-giscor, r-cran-testthat, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tidyterra Filename: pool/dists/focal/main/r-cran-forestdata_0.3.1-1.ca2004.1_all.deb Size: 1507584 MD5sum: fe8fa6e7e3c0fe4f580680cada14fd56 SHA1: 0a1de5eacbff4be2e3df19863ea32bed2a703057 SHA256: a8ec6b5a0bfc9a65ba4461d219f3d4ab8afd92e473b47fd077a7d617cde3cb69 SHA512: a57e0631eee195cc4aebc83be5cd09d5b4090ed9a2834aaf7e4118b9bd2fe1296d6df160da2a22cb7e067fc33f5600ec15577d1a04c4d27d7ef2f340261195b2 Homepage: https://cran.r-project.org/package=forestdata Description: CRAN Package 'forestdata' (Download Forestry Data) Functions for downloading forestry and land use data for use in spatial analysis. This packages offers a user-friendly solution to quickly obtain datasets such as forest height, forest types, tree species under various climate change scenarios, or land use data among others. 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This version of the algorithm relies on random forest algorithm to learn a large set of split points that conserves the relationship between attributes and the target class, and on moment matching optimization to transform this set into a reduced number of cut points matching as well as possible statistical properties of the initial set of split points. For each attribute to be discretized, the set S of its related split points extracted through random forest is mapped to a reduced set C of cut points of size k. This mapping relies on minimizing, for each continuous attribute to be discretized, the distance between the four first moments of S and the four first moments of C subject to some constraints. This non-linear optimization problem is performed using k values ranging from 2 to 'max_splits', and the best solution returned correspond to the value k which optimum solution is the lowest one over the different realizations. ForestDisc is a generalization of RFDisc discretization method initially proposed by Berrado and Runger (2009) , and improved by Berrado et al. in 2012 by adopting the idea of moment matching optimization related by Hoyland and Wallace (2001) . 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Important notes are a) The 'forest_df' argument (data) must contain the columns 'plot' (plot identification), 'spp' (species identification), DBH_1 (Diameter at breast height in first year of measure) and DBH_2 (Diameter at breast height in second year of measure). DBH_1 and DBH_2 must be numeric values; b) example input file in 'data(forest_df_example)'; c) The argument 'inv_time' represents the time between inventories, in years; d) The 'coord' argument must be of the type 'c(longitude, latitude)', with decimal degree values; e) Argument 'add_wd' represents a dataframe with wood density values (g cm-3) format with three columns ('genus', 'species', 'wd'). This argument is set to NULL by default, and if isn't provided, the wood density will be estimated with the getWoodDensity() function from the 'BIOMASS' package. Package: r-cran-forestecology Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1718 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-rlang, r-cran-glue, r-cran-ggplot2, r-cran-stringr, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-ggridges, r-cran-mvnfast, r-cran-sf, r-cran-sfheaders, r-cran-snakecase, r-cran-tibble, r-cran-yardstick, r-cran-blockcv, r-cran-forcats, r-cran-patchwork Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-forestecology_0.2.0-1.ca2004.1_all.deb Size: 1356720 MD5sum: 30a3de93b8b72ad63060aef1483bc556 SHA1: 72e6e62f08d4319d35e2c36774c86b646364fa84 SHA256: d6a6a2708eba00a24a53477f572ccffaac97c0246249d0b69e73e6fc5a351c79 SHA512: ccc612d01b092a2875983e96591790170602fb8ba7ba55728c82d13beeef11927767d1e6e43b3b2fee748b0957856857a547684008b500f801197e54ceb82630 Homepage: https://cran.r-project.org/package=forestecology Description: CRAN Package 'forestecology' (Fitting and Assessing Neighborhood Models of the Effect ofInterspecific Competition on the Growth of Trees) Code for fitting and assessing models for the growth of trees. 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Package: r-cran-forested Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 509 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-forested_0.1.0-1.ca2004.1_all.deb Size: 477728 MD5sum: 3c26beaca78625c9966bcd4018e03e4d SHA1: bdf0a8a835e6b081d34449ec5d6814c3443de895 SHA256: b05c16b232bd7fe82b4d043e902597dfb5500c8996a41bd373d34eee0c71c11e SHA512: 858b9d33f1dc3bfc08a1a0b73b43a812b451aa9f6ad0afc4218bc4f8963f4abc9f07dda4d467503a1daf95f1d6a1087e15b7093579d0a211f97794fe648b3454 Homepage: https://cran.r-project.org/package=forested Description: CRAN Package 'forested' (Forest Attributes in Washington State) A small subset of plots in Washington State are sampled and assessed "on-the-ground" as forested or non-forested by the U.S. Department of Agriculture, Forest Service, Forest Inventory and Analysis (FIA) Program, but the FIA also has access to remotely sensed data for all land in the state. The 'forested' package contains a data frame by the same name intended for use in predictive modeling applications where the more easily-accessible remotely sensed data can be used to predict whether a plot is forested or non-forested. 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The functions and objects included are a collection of broadly applicable tools. More specialized applications should be implemented in separate packages that build on this foundation. Documentation about 'ForestElementsR' is provided by three vignettes included in this package. For an introduction to the field of forest mensuration, refer to the textbooks by Kershaw et al. (2017) , and van Laar and Akca (2007) . Package: r-cran-foresterror Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-purrr Suggests: r-cran-randomforest Filename: pool/dists/focal/main/r-cran-foresterror_1.1.0-1.ca2004.1_all.deb Size: 53140 MD5sum: 27a936191f6d178220e45e789f7c8e4f SHA1: 2f95b7a142ef244ee806dd42f8995587be433209 SHA256: 4416573c7670e3583a30737975e1587ab349b95a43746c1c27128e16802a224d SHA512: a6e13b24dc7ccc4c1e480f83750134259fafe740844012e4b81f8f5a6b950647c20694683843b23fc2492ac09fd25f4ac550f4c101f5f27ebdc3315b65e80479 Homepage: https://cran.r-project.org/package=forestError Description: CRAN Package 'forestError' (A Unified Framework for Random Forest Prediction ErrorEstimation) Estimates the conditional error distributions of random forest predictions and common parameters of those distributions, including conditional misclassification rates, conditional mean squared prediction errors, conditional biases, and conditional quantiles, by out-of-bag weighting of out-of-bag prediction errors as proposed by Lu and Hardin (2021). This package is compatible with several existing packages that implement random forests in R. Package: r-cran-forestfit Architecture: all Version: 2.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 512 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ars, r-cran-pracma Filename: pool/dists/focal/main/r-cran-forestfit_2.4.3-1.ca2004.1_all.deb Size: 455232 MD5sum: fbeb1b62e23ad9f48bdb637a69992a2d SHA1: 69fb2687636f7140419af8575b5893e991238315 SHA256: 5241cbfd202ac7e0a409fe3b85405033d23b090ccad2d911d061e8b61c4a43ba SHA512: 0ed91aefe1dcf3d357e4c20c40cf342b5ca8fe50bcca864e3be346d4d1f6aa059b4e11e34a51b693a5aead5dd97d8ff37bade034266a8357704a5b3d1cdaf867 Homepage: https://cran.r-project.org/package=ForestFit Description: CRAN Package 'ForestFit' (Statistical Modelling for Plant Size Distributions) Developed for the following tasks. 1 ) Computing the probability density function, cumulative distribution function, random generation, and estimating the parameters of the eleven mixture models. 2 ) Point estimation of the parameters of two - parameter Weibull distribution using twelve methods and three - parameter Weibull distribution using nine methods. 3 ) The Bayesian inference for the three - parameter Weibull distribution. 4 ) Estimating parameters of the three - parameter Birnbaum - Saunders, generalized exponential, and Weibull distributions fitted to grouped data using three methods including approximated maximum likelihood, expectation maximization, and maximum likelihood. 5 ) Estimating the parameters of the gamma, log-normal, and Weibull mixture models fitted to the grouped data through the EM algorithm, 6 ) Estimating parameters of the nonlinear height curve fitted to the height - diameter observation, 7 ) Estimating parameters, computing probability density function, cumulative distribution function, and generating realizations from gamma shape mixture model introduced by Venturini et al. (2008) , 8 ) The Bayesian inference, computing probability density function, cumulative distribution function, and generating realizations from univariate and bivariate Johnson SB distribution, 9 ) Robust multiple linear regression analysis when error term follows skewed t distribution, 10 ) Estimating parameters of a given distribution fitted to grouped data using method of maximum likelihood, and 11 ) Estimating parameters of the Johnson SB distribution through the Bayesian, method of moment, conditional maximum likelihood, and two - percentile method. Package: r-cran-forestgapr Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 566 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-igraph, r-cran-powerlaw, r-cran-raster, r-cran-sp, r-cran-spatstat.explore, r-cran-spatstat.geom, r-cran-vgam, r-cran-viridis Filename: pool/dists/focal/main/r-cran-forestgapr_0.1.7-1.ca2004.1_all.deb Size: 529700 MD5sum: cdb8102a24a79f249bee711eff05e39a SHA1: 32ffec0a28c2ce7f460d659348601c86479cd8e1 SHA256: 8e49d5951738b96876d702c10bfcdabf9222d43baddf6b195cbefe47c7377cc7 SHA512: c1624219a58f3a226d81461c9fd3dd17468f7ab67a213e017170f9c6d7f0d8f61a1fd89b5d9e2b1e8f02c8bd93e8ceb73405d6a3128370cc6dec35faa75d4e9c Homepage: https://cran.r-project.org/package=ForestGapR Description: CRAN Package 'ForestGapR' (Tropical Forest Canopy Gaps Analysis) Set of tools for detecting and analyzing Airborne Laser Scanning-derived Tropical Forest Canopy Gaps. Details were published in Silva and others (2019) . Package: r-cran-forestgym Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gtools Filename: pool/dists/focal/main/r-cran-forestgym_1.0.0-1.ca2004.1_all.deb Size: 44244 MD5sum: 094c2244a376e38ced8036d7f39566f4 SHA1: 265772794b82e20c05cd35f51599a2ebeb7f2497 SHA256: 1632607a693470ff256b0372533aa134a51351613b9197ea4b44b3ec1ec08e31 SHA512: 2036f902de781ef85aa796cea1ed7264eade7930f402084a7345c5935324120988bfba1c1b2adf0a057e43418388c404462defc01dfc31e229a80cfc54172a3b Homepage: https://cran.r-project.org/package=forestGYM Description: CRAN Package 'forestGYM' (Forest Growth and Yield Model Based on Clutter Model) The Clutter model is a significant forest growth simulation tool. Grounded on individual trees and comprehensively considering factors such as competition among trees and the impact of environmental elements on growth, it can accurately reflect the growth process of forest stands. It can be applied in areas like forest resource management, harvesting planning, and ecological research. With the help of the Clutter model, people can better understand the dynamic changes of forests and provide a scientific basis for rational forest management and protecting the ecological environment. This R package can effectively realize the construction of forest growth and harvest models based on the Clutter model and achieve optimized forest management.References: Farias A, Soares C, Leite H et al(2021). Guera O, Silva J, Ferreira R, et al(2019). Package: r-cran-foresthes Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-foresthes_2.0.1-1.ca2004.1_all.deb Size: 66988 MD5sum: 48917e9408a2d3dc81b5211322420fb2 SHA1: 1ac358b9018ea8eb43de591b8ddc2a9d9030367a SHA256: 6216253d51f5ed59a25c450c0883570392386cc8ce3a20274aac8431ea3614bc SHA512: 8b5221852048dfc2e96f377b3e729f99933386067c93ccbba4f236fdf358da7707fcd567f20cba939b1c4ad52423e0a404a47bd17fde8042af04764fc82c429c Homepage: https://cran.r-project.org/package=forestHES Description: CRAN Package 'forestHES' (Forest Health Evaluation System at the Forest Stand Level) Assessing forest ecosystem health is an effective way for forest resource management.The national forest health evaluation system at the forest stand level using analytic hierarchy process, has a high application value and practical significance. The package can effectively and easily realize the total assessment process, and help foresters to further assess and management forest resources. Package: r-cran-forestinventory Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1398 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-tidyr, r-cran-ggplot2 Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-forestinventory_1.0.0-1.ca2004.1_all.deb Size: 1353592 MD5sum: 6db3b3fe886edb3a55c278fa8d7a6875 SHA1: fe0ea20bcd98a50aa7cefc0b5d8ec3c919914d74 SHA256: 9b554c24b9f7345dd4c86fd2e0619f8b353c9afc2e202854449ab129130c7fc0 SHA512: bef80f9a3c7cb17af7bbf23d92d43ff4a3b78ec2f70a2ae4c7f08243bfb5264abd7b3fbf5725da68b11b22a8cd1510b0c1cdf6ebdbf53f005dbabf63c5413d45 Homepage: https://cran.r-project.org/package=forestinventory Description: CRAN Package 'forestinventory' (Design-Based Global and Small-Area Estimations for MultiphaseForest Inventories) Extensive global and small-area estimation procedures for multiphase forest inventories under the design-based Monte-Carlo approach are provided. The implementation has been published in the Journal of Statistical Software () and includes estimators for simple and cluster sampling published by Daniel Mandallaz in 2007 (), 2013 (, , , ) and 2016 (). It provides point estimates, their external- and design-based variances and confidence intervals, as well as a set of functions to analyze and visualize the produced estimates. The procedures have also been optimized for the use of remote sensing data as auxiliary information, as demonstrated in 2018 by Hill et al. (). 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There are also functions for yield and growth predictions and model fitting, linear and nonlinear grouped data fitting, and statistical tests. References: Kershaw Jr., Ducey, Beers and Husch (2016). . Package: r-cran-forestmodel Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-broom, r-cran-rlang Suggests: r-cran-survival, r-cran-metafor, r-cran-labelled Filename: pool/dists/focal/main/r-cran-forestmodel_0.6.2-1.ca2004.1_all.deb Size: 115644 MD5sum: a228372abfdf7797166dbd99ffbd4bdd SHA1: b50fa7604bbb01c7e02203d929484fdb65d04ff2 SHA256: 1dede88f2ff61e6babd96fe42af3b57d35024626abb9d1acce5c28db1f7f718f SHA512: e17d0c5f36af4d6e70e7cc227a235381d0fa5f324f69df81e242d252c94682ca417d8929fb3427478f83728e6d71512ccb25ca875c5c0d2ddf2cef2522622ad5 Homepage: https://cran.r-project.org/package=forestmodel Description: CRAN Package 'forestmodel' (Forest Plots from Regression Models) Produces forest plots using 'ggplot2' from models produced by functions such as stats::lm(), stats::glm() and survival::coxph(). 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It also supports mixing text with mathematical expressions. The package extends the application of forest plots beyond traditional meta-analyses, offering a more general version of the original 'rmeta' package’s forestplot() function. It relies heavily on the 'grid' package for rendering the plots. 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Editing the plot, inserting/adding text, applying a theme to the plot, and much more. Package: r-cran-forestpsd Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-reshape2, r-cran-ttr, r-cran-modelr, r-cran-minpack.lm Filename: pool/dists/focal/main/r-cran-forestpsd_1.0.0-1.ca2004.1_all.deb Size: 29632 MD5sum: 5c0e30a3af1c22c4a789bafdebbe8843 SHA1: 28d40c3ace559d95814887b9a17156c429377355 SHA256: 4d4ab3a591e6aff09c8579d4fa2f6ec671fca6239723739efc59f2ddb43d1068 SHA512: 18bc95e02963ec94c07824edbcf0f21473e2b50b7ab8d5df2e949c70b4f47a000bc78c479761ec770b2205e25f0aef42be7c8867a5f2d3788dcceaf12df22d71 Homepage: https://cran.r-project.org/package=forestPSD Description: CRAN Package 'forestPSD' (Forest Population Structure and Numeric Dynamics) Analysis of forest population structure and quantitative dynamics is the research and evaluation of the composition, distribution, age structure and changes in quantity over time of various populations in the forest. By deeply understanding these characteristics of forest populations, scientific basis can be provided for the management, protection and sustainable utilization of forest resources. This R package conducts a systematic analysis of forest population structure and quantitative dynamics through analyzing age structure, compiling life tables, population quantitative dynamic change indices and time series models, in order to provide support for forest population protection and sustainable management. References: Zhang Y, Wang J, Wang X, et al(2024). Yuan G, Guo Q, Xie N, et al(2023). Package: r-cran-forestr Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3227 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plyr, r-cran-dplyr, r-cran-viridis, r-cran-tidyr, r-cran-moments, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-forestr_2.0.2-1.ca2004.1_all.deb Size: 1135396 MD5sum: 0839a1b62e7f67a6952213f143919097 SHA1: f4f16b898b0f4cba178c531b0fbaa2b84f7c5c10 SHA256: 067ecac56c7d27a7e48300ef622351b945948a77e1463858b1fb2e405265ba8d SHA512: c58519790ee572849534896e31c8ee487905aac778a9c980a2ee7b5303c9cd28e8bb96d49cfd51bd54992047681d432f2294c5a3e9e09422678eb004e61bdf93 Homepage: https://cran.r-project.org/package=forestr Description: CRAN Package 'forestr' (Ecosystem and Canopy Structural Complexity Metrics from LiDAR) Provides a toolkit for calculating forest and canopy structural complexity metrics from terrestrial LiDAR (light detection and ranging). References: Atkins et al. 2018 ; Hardiman et al. 2013 ; Parker et al. 2004 . Package: r-cran-forestrk Architecture: all Version: 0.0-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 562 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-ggplot2, r-cran-rapportools, r-cran-partykit, r-cran-pkgkitten, r-cran-knitr, r-cran-mlbench Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-forestrk_0.0-5-1.ca2004.1_all.deb Size: 373896 MD5sum: 2cb481e2e6ef30234e55f9146952047d SHA1: 08e67d2740c7a190736f34129a15ea56ae2e5241 SHA256: a5467e87ddb54c6eb1ceee1463dcabdb39c35dd3758b3ab56377925f5676b6ea SHA512: 79ed7bccc52bd56cd3def97dd0404d9cec2a80e49e0ef9074dd91f326f61fd22ae2e4c5aaaee685fc87ee05254007a902473d4f9991e64bcc986ac2bddf50267 Homepage: https://cran.r-project.org/package=forestRK Description: CRAN Package 'forestRK' (Implements the Forest-R.K. Algorithm for Classification Problems) Provides functions that calculates common types of splitting criteria used in random forests for classification problems, as well as functions that make predictions based on a single tree or a Forest-R.K. model; the package also provides functions to generate importance plot for a Forest-R.K. model, as well as the 2D multidimensional-scaling plot of data points that are colour coded by their predicted class types by the Forest-R.K. model. This package is based on: Bernard, S., Heutte, L., Adam, S., (2008, ISBN:978-3-540-85983-3) "Forest-R.K.: A New Random Forest Induction Method", Fourth International Conference on Intelligent Computing, September 2008, Shanghai, China, pp.430-437. Package: r-cran-forestry Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.tree Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-forestry_0.1.1-1.ca2004.1_all.deb Size: 45268 MD5sum: 79b703381cdcfca397ad5f29a3cd7c16 SHA1: 164b2550eb9268ec54a63b9771a95b812e6177d2 SHA256: 9e982820fdd679773013cdfc72c6aae448694faf72a9ef3848c24f47180e348d SHA512: a128792cfcb36c62541855ee922cdea50efd53532159034570d06bd94315ffc1ce14f5ef727f82efe421ef2ea9cbaef9755f773f3eea45aea0549a10e93ee17c Homepage: https://cran.r-project.org/package=forestry Description: CRAN Package 'forestry' (Reshape Data Tree) A series of utility functions to help with reshaping hierarchy of data tree, and reform the structure of data tree. 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Package: r-cran-fourgametep Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fourgametep_0.1.0-1.ca2004.1_all.deb Size: 20596 MD5sum: b0c9336ef88692250120f8e951aa8493 SHA1: f7e0a28a44c073d6c9deacbbd8928907379b18f9 SHA256: 2e3c63bbbd13908ff6dfe3b10bafecf7eb0383a7d3358a5c405a2e1faf12ad82 SHA512: 17ab082e81d068b9207ee7808131b8d5d54d9bd9ddf06dcf02cecc5ca60e9ce63c5c3292c19e72efb1cb1ad54dc3015e087201f4c71bf8e9a69a818450e2f78c Homepage: https://cran.r-project.org/package=FourgameteP Description: CRAN Package 'FourgameteP' (FourGamete Test) The four-gamete test is based on the infinite-sites model which assumes that the probability of the same mutation occurring twice (recurrent or parallel mutations) and the probability of a mutation back to the original state (reverse mutations) are close to zero. Without these types of mutations, the only explanation for observing the four dilocus genotypes (example below) is recombination (Hudson and Kaplan 1985, Genetics 111:147-164). Thus, the presence of all four gametes is also called phylogenetic incompatibility. Package: r-cran-fourscores Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fourscores_1.5.1-1.ca2004.1_all.deb Size: 55120 MD5sum: 3600694c970c174f73554c6841fd636f SHA1: 66044754a999eee9a228b046abae810d0ac4257d SHA256: 71bbe87a2375de9a4cb65681e659873f63dacde16c892b648320c2f6e0821c3e SHA512: ed4503112731c39aad2f04b0f28cbc9e7571e58ac221044c5ca8714356e5ae6b65eb695991ac5a65388fb09c98c66ef0ea7e0266826711fb75ca72f0926f7ed5 Homepage: https://cran.r-project.org/package=FourScores Description: CRAN Package 'FourScores' (A Game for Human vs. Human or Human vs. AI) A game for two players: Who gets first four in a row (horizontal, vertical or diagonal) wins. As board game published by Milton Bradley, designed by Howard Wexler and Ned Strongin. 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Package: r-cran-fpa Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape, r-cran-fields Filename: pool/dists/focal/main/r-cran-fpa_1.0-1.ca2004.1_all.deb Size: 59088 MD5sum: fba5b8b7c5b390c5cca66e557edd7fd2 SHA1: eba2926efae50f13d292534a5eba91ddafcfefa2 SHA256: 43f6b2f4af7e716e4c06dc9a2f0015eba22df71b6832769880ea4451ef606c3b SHA512: 56de70d59192c3cbaf5759fbaf4632ed9f494bfcdc1b3d47363b03e8b852abb3136b7c0bd777193dffeb8e3976d6a39c17c42f2bc229a63b402e9baf73feb93d Homepage: https://cran.r-project.org/package=fpa Description: CRAN Package 'fpa' (Spatio-Temporal Fixation Pattern Analysis) Spatio-temporal Fixation Pattern Analysis (FPA) is a new method of analyzing eye movement data, developed by Mr. Jinlu Cao under the supervision of Prof. Chen Hsuan-Chih at The Chinese University of Hong Kong, and Prof. Wang Suiping at the South China Normal Univeristy. 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Package: r-cran-fpc Architecture: all Version: 2.2-13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 880 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-cluster, r-cran-mclust, r-cran-flexmix, r-cran-prabclus, r-cran-class, r-cran-diptest, r-cran-robustbase, r-cran-kernlab Suggests: r-cran-tclust, r-cran-pdfcluster, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-fpc_2.2-13-1.ca2004.1_all.deb Size: 830776 MD5sum: 4a75ee83a8640d678635e911bdc90e3c SHA1: 705accfdedafe3d99da0ed261f33ceadd62f309d SHA256: 7a8fd46460cb0f8f359140bb8d230258c8ef717ae8dcdc7714bfdcbab0b49fc6 SHA512: 8c085799933953c1557a28dcc482498463a3e8b342481e0b038a54bb504db52c918d2795b76c2eb4148c72d81d60d5096bba069b0d51abcb0ccba6f7721ac3df Homepage: https://cran.r-project.org/package=fpc Description: CRAN Package 'fpc' (Flexible Procedures for Clustering) Various methods for clustering and cluster validation. Fixed point clustering. Linear regression clustering. Clustering by merging Gaussian mixture components. Symmetric and asymmetric discriminant projections for visualisation of the separation of groupings. Cluster validation statistics for distance based clustering including corrected Rand index. Standardisation of cluster validation statistics by random clusterings and comparison between many clustering methods and numbers of clusters based on this. Cluster-wise cluster stability assessment. Methods for estimation of the number of clusters: Calinski-Harabasz, Tibshirani and Walther's prediction strength, Fang and Wang's bootstrap stability. Gaussian/multinomial mixture fitting for mixed continuous/categorical variables. Variable-wise statistics for cluster interpretation. DBSCAN clustering. Interface functions for many clustering methods implemented in R, including estimating the number of clusters with kmeans, pam and clara. Modality diagnosis for Gaussian mixtures. For an overview see package?fpc. Package: r-cran-fpca2d Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-corpcor Filename: pool/dists/focal/main/r-cran-fpca2d_1.0-1.ca2004.1_all.deb Size: 23316 MD5sum: d2e17d1b53e1f2ba55aea9e252daccee SHA1: 4c5104b77fbcaf0394a65db0098fb1fb666a20c5 SHA256: 439d1247c67563f048ba9f6700ebb6eb670689a3b87db7b8ca2976f7c467bfda SHA512: 23609ac2ff941a51e6323927bfb9347c2c8966c8e6ec4c0267106bc6448005ddc2f60000f3ed3bdaea49cb9d6966c4d62174eab32e53712de4f45e8506932cfe Homepage: https://cran.r-project.org/package=FPCA2D Description: CRAN Package 'FPCA2D' (Two Dimensional Functional Principal Component Analysis) Compute the two dimension functional principal component scores for a series of two dimension images. Package: r-cran-fpca3d Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fpca3d_1.0-1.ca2004.1_all.deb Size: 22500 MD5sum: 910260eaa12b7a6ba26c0bde925348ff SHA1: 49b9c4aa7b36e955bdf29bdb03c3325b42651331 SHA256: 59c2dc1cc71663bb465563083feeec7cf6ec3878794183d8ea0cc449119080fd SHA512: b7fb49a29f2c77d76ac2eac2f6cb56380871c515053a97188a9a674b414acb479d03f01ad86edbdc52d51bc1ef4dfd3d329aedee5088409015202dd6a685a842 Homepage: https://cran.r-project.org/package=FPCA3D Description: CRAN Package 'FPCA3D' (Three Dimensional Functional Component Analysis) Run three dimensional functional principal component analysis and return the three dimensional functional principal component scores. The details of the method are explained in Lin et al.(2015) . 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Despite being aware of these problems, people still use numerical methods that fail to account for these and other rounding errors (this pitfall is the first to be highlighted in Circle 1 of Burns (2012) 'The R Inferno' ). This package provides new relational operators useful for performing floating point number comparisons with a set tolerance. 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PD-clustering assigns units to a cluster according to their probability of membership under the constraint that the product of the probability and the distance of each point to any cluster center is a constant. PD-clustering is a flexible method that can be used with elliptical clusters, outliers, or noisy data. PDQ is an extension of the algorithm for clusters of different sizes. GPDC and TPDC use a dissimilarity measure based on densities. Factor PD-clustering (FPDC) is a factor clustering method that involves a linear transformation of variables and a cluster optimizing the PD-clustering criterion. It works on high-dimensional data sets. Package: r-cran-fpest Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 40 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fpest_0.1.1-1.ca2004.1_all.deb Size: 9600 MD5sum: ef56a1b3e2a4938214b329717c362e0f SHA1: e1f4decd191dbfee2911dd4e11b0ace1bac38508 SHA256: d80bf492a4435c9423ab02404cc3476f31122bc76d36b97b5f30f098859ce3e8 SHA512: a10f5ec0548135c1173252ffd70f31b70e6ef0cb54b1aa3df8c4e2db21f0d4541c09863aefaee741a0eff258d6fb0cd91e0ccdd2366fdb2d74df9caccbdf2ad8 Homepage: https://cran.r-project.org/package=fpest Description: CRAN Package 'fpest' (Estimating Finite Population Total) Given the values of sampled units and selection probabilities the desraj function in the package computes the estimated value of the total as well as estimated variance. 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The included functions are designed to: 1) calculate the fragility index (i.e., the minimal event status modifications that can alter the significance or non-significance of the original result) and fragility quotient (i.e., fragility index divided by sample size) at a specific significance level; 2) give the cases of event status modifications for altering the result's significance or non-significance and visualize these cases; 3) visualize the trend of statistical significance as event status is modified; 4) efficiently derive fragility indexes and fragility quotients at multiple significance levels, and visualize the relationship between these fragility measures against the significance levels; and 5) calculate fragility indexes and fragility quotients of multiple datasets (e.g., a collection of clinical trials or meta-analyses) and produce plots of their overall distributions. The outputs from these functions may inform the robustness of clinical results in terms of statistical significance and aid the interpretation of fragility measures. The usage of this package is illustrated in Lin et al. (2023 ) and detailed in Lin and Chu (2022 ). 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(2004) ; Day, Charles A. (2012) . Package: r-cran-frb Architecture: all Version: 2.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 658 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rrcov, r-cran-corpcor Suggests: r-cran-robustbase Filename: pool/dists/focal/main/r-cran-frb_2.0-1-1.ca2004.1_all.deb Size: 617888 MD5sum: 6fe453102d018ede0bb4814067abd197 SHA1: cff41768344ed5288676252a89c46b9b8bb16931 SHA256: f310e54958c9fbc869ef2cad8dce50be2551770567d699bd956f8f0fceec9ec0 SHA512: 28a4bf42ba4121d45a828730f319d7d2ca661d19d73fa6766f00830469321c255fb3726f99d11d6411c9ad068957ae0e884038951e305cfb96975e719e28ae42 Homepage: https://cran.r-project.org/package=FRB Description: CRAN Package 'FRB' (Fast and Robust Bootstrap) Perform robust inference based on applying Fast and Robust Bootstrap on robust estimators (Van Aelst and Willems (2013) ). This method constitutes an alternative to ordinary bootstrap or asymptotic inference. procedures when using robust estimators such as S-, MM- or GS-estimators. The available methods are multivariate regression, principal component analysis and one-sample and two-sample Hotelling tests. It provides both the robust point estimates and uncertainty measures based on the fast and robust bootstrap. 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Moreover, it allows to construct an FRBS model defined by human experts. FRBSs are based on the concept of fuzzy sets, proposed by Zadeh in 1965, which aims at representing the reasoning of human experts in a set of IF-THEN rules, to handle real-life problems in, e.g., control, prediction and inference, data mining, bioinformatics data processing, and robotics. FRBSs are also known as fuzzy inference systems and fuzzy models. During the modeling of an FRBS, there are two important steps that need to be conducted: structure identification and parameter estimation. Nowadays, there exists a wide variety of algorithms to generate fuzzy IF-THEN rules automatically from numerical data, covering both steps. Approaches that have been used in the past are, e.g., heuristic procedures, neuro-fuzzy techniques, clustering methods, genetic algorithms, squares methods, etc. Furthermore, in this version we provide a universal framework named 'frbsPMML', which is adopted from the Predictive Model Markup Language (PMML), for representing FRBS models. PMML is an XML-based language to provide a standard for describing models produced by data mining and machine learning algorithms. Therefore, we are allowed to export and import an FRBS model to/from 'frbsPMML'. Finally, this package aims to implement the most widely used standard procedures, thus offering a standard package for FRBS modeling to the R community. 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Please see the following for details: Raul Cruz-Cano, Mei-Ling Ting Lee, Fast regularized canonical correlation analysis, Computational Statistics & Data Analysis, Volume 70, 2014, Pages 88-100, ISSN 0167-9473 . 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These functions use variables such as environmental temperature, relative humidity, and dew point. See for details. Package: r-cran-frostr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-frostr_0.2.0-1.ca2004.1_all.deb Size: 52932 MD5sum: a7ca432c5862bdbee3dd1f6b99f107a4 SHA1: 38fe05504150cadda729b7ff533948e1ed846f3f SHA256: bd24254b2b8cb98cd0256e7e81c3ed50efb7c9e5ab9f935c5e8d92adeea8c3c5 SHA512: 45e1e587199277fefed7d85694fc2f62fb78796cf1e8a179cf090b6e9c05de065ea146ac609fb5127393c6f1c5e4987a47a7dbafd88db7ebb87cabd801241e9c Homepage: https://cran.r-project.org/package=frostr Description: CRAN Package 'frostr' (R API to MET Norway's 'Frost' API) An R API to MET Norway's 'Frost' API to retrieve data as data frames. 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Procedures in the package allow to i) downscale daily meteorological variables to hourly values (Forster et al (2016) ), ii) estimate chilling and forcing heat accumulation (Miranda et al (2019) ), iii) estimate plant phenology (Schwartz (2012) ), iv) calculate bioclimatic indices to evaluate fruit tree and grapevine adaptation (e.g. Badr et al (2017) ), v) estimate the incidence of weather-related disorders in fruits (e.g. Snyder and de Melo-Abreu (2005, ISBN:92-5-105328-6) and vi) estimate plant water requirements (Allen et al (1998, ISBN:92-5-104219-5)). 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Application to Reverse-Transcriptase Multiplex Ligation-dependent Probe Amplification (RT-MLPA) gene-expression profiling and classification is illustrated in Mareschal, Ruminy et al (2015) . Gene-fusion detection and Sanger sequencing are illustrated in Mareschal, Palau et al (2021) . Examples are provided for genotyping applications as well. 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Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'. 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Package: r-cran-fscaret Architecture: all Version: 0.9.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 339 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-gsubfn, r-cran-hmeasure Suggests: r-cran-ada, r-cran-arm, r-cran-boruta, r-cran-bst, r-cran-c50, r-cran-car, r-cran-catools, r-cran-class, r-cran-cubist, r-cran-e1071, r-cran-earth, r-cran-elasticnet, r-cran-ellipse, r-cran-evtree, r-cran-extratrees, r-cran-fastica, r-cran-gam, r-cran-gbm, r-cran-glmnet, r-cran-hda, r-cran-hdclassif, r-cran-hmisc, r-cran-ipred, r-cran-kernlab, r-cran-kknn, r-cran-klar, r-cran-kohonen, r-cran-krls, r-cran-lars, r-cran-leaps, r-cran-logicreg, r-cran-mass, r-cran-mboost, r-cran-mda, r-cran-mgcv, r-cran-mlbench, r-cran-neuralnet, r-cran-nnet, r-cran-nodeharvest, r-cran-obliquerf, r-cran-pamr, r-cran-partdsa, r-cran-penalized, r-cran-penalizedlda, r-cran-pls, r-cran-proc, r-cran-proxy, r-cran-qrnn, r-cran-quantregforest, r-cran-randomforest, r-cran-rann, r-cran-relaxo, r-cran-rferns, r-cran-rocc, r-cran-rpart, r-cran-rrcov, r-cran-rrf, r-cran-rsnns, r-cran-rweka, r-cran-sda, r-cran-sparselda, r-cran-spls, r-cran-stepplr, r-cran-superpc Filename: pool/dists/focal/main/r-cran-fscaret_0.9.4.4-1.ca2004.1_all.deb Size: 281812 MD5sum: 43309d33f9266f1106954d6c606548e8 SHA1: 6c0095e0fa6ce78563d0b4c79e44bb57b668524a SHA256: 27e4d5e40f5e12bd4f4ffbb0cb611fb4d151e5264a62c9735451362e8272e1d9 SHA512: e2f360910e330da1460356ae6da5518ae9dc0e1f6ee0e454420e1158304ed39c23a4875dbc9ead412c59fafc1b95b3372f3cb215a89f7f4a7b6e4fbdfcbcc8dd Homepage: https://cran.r-project.org/package=fscaret Description: CRAN Package 'fscaret' (Automated Feature Selection from 'caret') Automated feature selection using variety of models provided by 'caret' package. This work was funded by Poland-Singapore bilateral cooperation project no 2/3/POL-SIN/2012. Package: r-cran-fsdam Architecture: all Version: 2024.7-30-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-kyotil, r-cran-reticulate Suggests: r-cran-r.rsp, r-cran-runit Filename: pool/dists/focal/main/r-cran-fsdam_2024.7-30-1.ca2004.1_all.deb Size: 68332 MD5sum: 1c152a2928a92fd7fba6893c81b92f6f SHA1: 229ba06e9e280f2c673ece394ddb1f42eb998c8e SHA256: d14de7faf02ebf59f1a28fcdb316f2e6a209330f251c3c235bb273b00639174b SHA512: 6eec9fcffe9d40724df981ae7425e5d60f9fe7bac889d2fe274ed56fb49805482678b2282bb05f6f9076a0a84175bda18c4256578b85d1b95cdeee32d78c7fa0 Homepage: https://cran.r-project.org/package=FSDAM Description: CRAN Package 'FSDAM' (Forward Stepwise Deep Autoencoder-Based Monotone NLDR) FS-DAM performs feature extraction through latent variables identification. Implementation is based on autoencoders with monotonicity and orthogonality constraints. Package: r-cran-fsdar Architecture: all Version: 0.9-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2959 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rjava, r-cran-ggplot2 Suggests: r-cran-robustbase, r-cran-rrcov, r-cran-mass Filename: pool/dists/focal/main/r-cran-fsdar_0.9-0-1.ca2004.1_all.deb Size: 2169236 MD5sum: d5f66cf7d017358356c350a786edaaf6 SHA1: 6f37cfe9c3a36d595988e318e142be90f03aab59 SHA256: 4d95d0597b2c3c68e79c2bc8d17c0de58683eca44a1b710c011d7a508cb09f89 SHA512: b3cb7d74d610b486d160813b04b2c0beb5bd1ece4b75bcaefa59e605c8e1af59d2de1fc0a4dc75afa94b0fbf4693140065664924f4d904dea14a37da903c1414 Homepage: https://cran.r-project.org/package=fsdaR Description: CRAN Package 'fsdaR' (Robust Data Analysis Through Monitoring and DynamicVisualization) Provides interface to the 'MATLAB' toolbox 'Flexible Statistical Data Analysis (FSDA)' which is comprehensive and computationally efficient software package for robust statistics in regression, multivariate and categorical data analysis. The current R version implements tools for regression: (forward search, S- and MM-estimation, least trimmed squares (LTS) and least median of squares (LMS)), for multivariate analysis (forward search, S- and MM-estimation), for cluster analysis and cluster-wise regression. The distinctive feature of our package is the possibility of monitoring the statistics of interest as a function of breakdown point, efficiency or subset size, depending on the estimator. This is accompanied by a rich set of graphical features, such as dynamic brushing, linking, particularly useful for exploratory data analysis. Package: r-cran-fselector Architecture: all Version: 0.34-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-digest, r-cran-entropy, r-cran-randomforest, r-cran-rweka Suggests: r-cran-mlbench, r-cran-rpart Filename: pool/dists/focal/main/r-cran-fselector_0.34-1.ca2004.1_all.deb Size: 93516 MD5sum: 84482d5ec3467ea76b3c942bfe02651c SHA1: e452beb617409176595fed4cf32e7ed98bc4a0c9 SHA256: b63280e93d46efb020d5dc0e61e927da13b9076e5fae7e687259b940b7599d61 SHA512: b55a4be2ef8a3338b4f86768d444b6a145588ac3b51d4e73e928a902a72a5f885c9d2f8cdb6d32b9a66a84ae3c371cdbfb197eb2ac036d4a71afa398d37f9b37 Homepage: https://cran.r-project.org/package=FSelector Description: CRAN Package 'FSelector' (Selecting Attributes) Functions for selecting attributes from a given dataset. Attribute subset selection is the process of identifying and removing as much of the irrelevant and redundant information as possible. 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These models include the functional single-index model, the semi-functional partial linear model, and the semi-functional partial linear single-index model. Additionally, the package offers algorithms for handling scalar covariates with linear effects that originate from the discretization of a curve. This functionality is applicable in the context of the linear model, the multi-functional partial linear model, and the multi-functional partial linear single-index model. Package: r-cran-fsia Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 635 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fsia_1.1.1-1.ca2004.1_all.deb Size: 553640 MD5sum: 39825cc8088c100f26fbdc1c300727bb SHA1: 852d512244da6015d3adf01590093303923d0b16 SHA256: 68103e09dec4deea6b16ef52046cab5fbe8bc63e1e2231b829a03b8066494dfd SHA512: 15d0685c0caeb831fba549166da4d04b24c0c5652c6bc4e4629f9d3f98cc2ae4ca932710e01e46fe2d8ef51805134e3337adb888f39004dcfb87c0f965be0db4 Homepage: https://cran.r-project.org/package=fsia Description: CRAN Package 'fsia' (Import and Analysis of OMR Data from FormScanner) Import data of tests and questionnaires from FormScanner. FormScanner is an open source software that converts scanned images to data using optical mark recognition (OMR) and it can be downloaded from . 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The goal is to be able to interface with 'FSL' completely in R, where you pass R objects of class 'nifti', implemented by package 'oro.nifti', and the function executes an 'FSL' command and returns an R object of class 'nifti' if desired. Package: r-cran-fsm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fsm_1.0.0-1.ca2004.1_all.deb Size: 97588 MD5sum: 1c83ae50be49fb0144e6f0494e220cda SHA1: 2f01820aa30c95b71a7f348d0710802e1b80a722 SHA256: 1b9575c8a02389748202e8dd90f58cbb9c6802e018ce2beec34de11796e73aef SHA512: 723065bbebd2139a6eacecb7c60a6520b31b7e57f0e4d59c38ecf13b827ea7e31432849139f234ecd296c65896d5f0ed7d49561f194c36d9305cf261b73bf5d1 Homepage: https://cran.r-project.org/package=FSM Description: CRAN Package 'FSM' (Finite Selection Model) Randomized and balanced allocation of units to treatment groups using the Finite Selection Model (FSM). The FSM was originally proposed and developed at the RAND corporation by Carl Morris to enhance the experimental design for the now famous Health Insurance Experiment. See Morris (1979) for details on the original version of the FSM. 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The list of implemented algorithms includes: own lags (independent MTS components), distance-based (using external structure, e.g. Pfeifer and Deutsch (1980) ), cross-correlation (see Schelter et al. (2006, ISBN:9783527406234)), graphical LASSO (see Haworth and Cheng (2014) ), random forest (see Pavlyuk (2020) "Random Forest Variable Selection for Sparse Vector Autoregressive Models" in Contributions to Statistics, in production), least angle regression (see Gelper and Croux (2008) ), mutual information (see Schelter et al. (2006, ISBN:9783527406234), Liu et al. (2016) ), and partial spectral coherence (see Davis et al.(2016) ). In addition, the package implements functions for ensemble feature selection (using feature ranking and majority voting). The package is implemented within Dmitry Pavlyuk's research project No. 1.1.1.2/VIAA/1/16/112 "Spatiotemporal urban traffic modelling using big data". 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It contains all required functions to create large missing consecutive values within time series and then fill these gaps, according to the paper Phan et al. (2018), . Performance indicators are also provided to compare similarity between two univariate signals (incomplete signal and imputed signal). Package: r-cran-fsn Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rfast Suggests: r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-fsn_0.4-1.ca2004.1_all.deb Size: 40132 MD5sum: 1c4cbb2fca9e941116df30f38caa735f SHA1: e6e1277b8ee8faf311b00e16556eee18cfcab825 SHA256: 286cc9b5e08b4e3489bb6f95dc08da2d0a39caf88f310c894d7de8b6712fec05 SHA512: ede35079e51dc4692270fd902a85eb8bbe61dda648a6f35b317d0b127b1b40e4c3c195c2f2c368755153d9e15c0dbd0fd6cbe999fb9b19870b450173a2497d99 Homepage: https://cran.r-project.org/package=fsn Description: CRAN Package 'fsn' (Rosenthal's Fail Safe Number and Related Functions) Estimation of Rosenthal's fail safe number including confidence intervals. The relevant papers are the following. Konstantinos C. Fragkos, Michail Tsagris and Christos C. Frangos (2014). "Publication Bias in Meta-Analysis: Confidence Intervals for Rosenthal's Fail-Safe Number". International Scholarly Research Notices, Volume 2014. . Konstantinos C. Fragkos, Michail Tsagris and Christos C. Frangos (2017). "Exploring the distribution for the estimator of Rosenthal's fail-safe number of unpublished studies in meta-analysis". Communications in Statistics-Theory and Methods, 46(11):5672--5684. . 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It employs fuzzy set theory and fuzzy logic as foundation to deal with spatial fuzziness. It mainly implements underlying concepts defined in the following research papers: (i) "Spatial Plateau Algebra: An Executable Type System for Fuzzy Spatial Data Types" ; (ii) "A Systematic Approach to Creating Fuzzy Region Objects from Real Spatial Data Sets" ; (iii) "Spatial Data Types for Heterogeneously Structured Fuzzy Spatial Collections and Compositions" ; (iv) "Fuzzy Inference on Fuzzy Spatial Objects (FIFUS) for Spatial Decision Support Systems" ; (v) "Evaluating Region Inference Methods by Using Fuzzy Spatial Inference Models" . Package: r-cran-fsrm Architecture: all Version: 0.6.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 617 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lavaan, r-cran-plyr, r-cran-reshape2, r-cran-ggplot2, r-cran-scales, r-cran-foreign, r-cran-tcltk2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-fsrm_0.6.5-1.ca2004.1_all.deb Size: 221768 MD5sum: 62928aa70fb06c4c9fb575f86a1b6121 SHA1: cf4dc67b62957766a255b1004f5342a003285215 SHA256: 7eb4befdbf209b3ba8b2994d7c9bec173f6e9422f8ae4e98b571051ac069178e SHA512: 940380181ef7532a45a9344a47165c4db08156f61b3b55a22646b62d498fe5d7578588dca314ff38a2401b8d09ce41ff4880a636b8b6045950e6ac04f0403a1e Homepage: https://cran.r-project.org/package=fSRM Description: CRAN Package 'fSRM' (Social Relations Analyses with Roles ("Family SRM")) Social Relations Analysis with roles ("Family SRM") are computed, using a structural equation modeling approach. 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Here, a fault tree is provided in terms of its minimal cut sets, along with reliability and maintainability distribution functions of the basic events. All the methods are derived from Horton (2002, ISBN: 3-936150-21-4), Niloofar and Lazarova-Molnar (2022). Package: r-cran-ftdk Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-pbapply, r-cran-purrr, r-cran-dplyr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-ftdk_1.0-1.ca2004.1_all.deb Size: 18788 MD5sum: ba9cc27485073f67c3317aadbadde841 SHA1: e56d10d672e901acac16149c3e1f045ba2d70d16 SHA256: fcf6fe21152454d29c62968e60522992c9dd1da608d52fe39849b7d426726671 SHA512: d4d80b1206efc32e22ce126f5549e7278e58cb6baa2ba9bdbc88d973a4e72f43e98eb1e404c7f831afbb8920e3e3311b8bc6c02fd85c99c0e246771aa08695a9 Homepage: https://cran.r-project.org/package=ftDK Description: CRAN Package 'ftDK' (A Wrapper for the API of the Danish Parliament) A wrapper for the API of the Danish Parliament. It makes it possible to get data from the API easily into a data frame. Learn more at . 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Features include spanning header, grouping rows, parsing markdown and so on. Package: r-cran-ftrading Architecture: all Version: 3042.79-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-timedate, r-cran-timeseries, r-cran-fbasics Suggests: r-cran-runit Filename: pool/dists/focal/main/r-cran-ftrading_3042.79-1.ca2004.1_all.deb Size: 98316 MD5sum: 475553201824e0d469b6fbbc425894e6 SHA1: 656f61d1d993f0a5a4d1f2716c3135e73c8dc0b6 SHA256: d91d8299e406f5ffeadf431bb3063f1c826f92f3333ab4e07d38d49620ef69f3 SHA512: 295ca3f866b64a2cbac961be8f185e35a52981b2e75cdb22b4eeed427769d87f6f62b76cc78b49d71b976d73a51ec3422045a321456aad8b1da2636bc2a11ed2 Homepage: https://cran.r-project.org/package=fTrading Description: CRAN Package 'fTrading' (Rmetrics - Trading and Rebalancing Financial Instruments) A collection of functions for trading and rebalancing financial instruments. It implements various technical indicators to analyse time series such as moving averages or stochastic oscillators. Package: r-cran-ftrcool Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2773 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ftrcool_2.0.0-1.ca2004.1_all.deb Size: 1410188 MD5sum: 0dc8ec384fa93974323d8cf1e08a8a86 SHA1: 275c34852841bcc8b1d41fd798ac0fc369a0ac53 SHA256: f4c43e19781b01b4da4daadba6ab3388acb0e7c65694e18f56d24a086cad98ff SHA512: 1d1f47d17b949960c8d9dfbed82b651afc53dc3ff9d3a450dddf2f456d02494f0dc34329dba535b74accbca41aef4eaff8b3c13e4fe1ea6c6593ad0b6db88601 Homepage: https://cran.r-project.org/package=ftrCOOL Description: CRAN Package 'ftrCOOL' (Feature Extraction from Biological Sequences) Extracts features from biological sequences. It contains most features which are presented in related work and also includes features which have never been introduced before. It extracts numerous features from nucleotide and peptide sequences. Each feature converts the input sequences to discrete numbers in order to use them as predictors in machine learning models. There are many features and information which are hidden inside a sequence. Utilizing the package, users can convert biological sequences to discrete models based on chosen properties. References: 'iLearn' 'Z. Chen et al.' (2019) . 'iFeature' 'Z. Chen et al.' (2018) . . 'PseKRAAC' 'Y. Zuo et al.' 'PseKRAAC: a flexible web server for generating pseudo K-tuple reduced amino acids composition' (2017) . 'iDNA6mA-PseKNC' 'P. Feng et al.' 'iDNA6mA-PseKNC: Identifying DNA N6-methyladenosine sites by incorporating nucleotide physicochemical properties into PseKNC' (2019) . 'I. Dubchak et al.' 'Prediction of protein folding class using global description of amino acid sequence' (1995) . 'W. Chen et al.' 'Identification and analysis of the N6-methyladenosine in the Saccharomyces cerevisiae transcriptome' (2015) . Package: r-cran-ftsa Architecture: all Version: 6.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2246 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-forecast, r-cran-rainbow, r-cran-sde, r-cran-colorspace, r-cran-mass, r-cran-pcapp, r-cran-fda, r-cran-pdfcluster, r-cran-ecp, r-cran-strucchange, r-cran-e1071, r-cran-psych, r-cran-fgarch, r-cran-kernsmooth, r-cran-vars, r-cran-boot, r-cran-fdapace, r-cran-laplacesdemon, r-cran-evgam, r-cran-roopsd, r-cran-glue Suggests: r-cran-fds, r-cran-r2jags, r-cran-meboot Filename: pool/dists/focal/main/r-cran-ftsa_6.6-1.ca2004.1_all.deb Size: 2250040 MD5sum: a3cf1c94f8118e24bd10c42cedf0c01a SHA1: 3c54caca48169422970abf557dc07d8add8148f5 SHA256: 3e9ad1993dd6d17fc79c6c32fc3cf94e6c29b024d146274dbe74d4a516936f0e SHA512: 5daf77c010202d2fe0977962503bbd558f25f9f022cfea98cc9db6b34c58cb82687b771f279dddf94c541fc43bd1e74d28cc020325fe3ed5d368366688318848 Homepage: https://cran.r-project.org/package=ftsa Description: CRAN Package 'ftsa' (Functional Time Series Analysis) Functions for visualizing, modeling, forecasting and hypothesis testing of functional time series. 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These methods are described in Kokoszka, Rice, and Shang (2017) , Yeh, Rice, and Dubin (2023) , Kim, Kokoszka, and Rice (2023) , and Rice, Wirjanto, and Zhao (2020) . 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The intended use is for one-hot encoded design matrices that should be used in linear models to ensure that significant associations can be correctly interpreted. However, 'fullRankMatrix' can be applied to any matrix to make it full rank. It removes columns with only 0's, merges duplicated columns and discovers linearly dependent columns and replaces them with linearly independent columns that span the space of the original columns. Columns are renamed to reflect those modifications. This results in a full rank matrix that can be used as a design matrix in linear models. The algorithm and some functions are inspired by Kuhn, M. (2008) . 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"fullROC: An R package for generating and analyzing eyewitness-lineup ROC curves". , Andrew Smith, Yueran Yang, & Gary Wells. (2020). "Distinguishing between investigator discriminability and eyewitness discriminability: A method for creating full receiver operating characteristic curves of lineup identification performance". Perspectives on Psychological Science, 15(3), 589-607. . 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Package: r-cran-funchir Architecture: all Version: 0.3.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-funchir_0.3.0-1-1.ca2004.1_all.deb Size: 31328 MD5sum: 391a867a14e0573e0d3e9d5885822743 SHA1: 753c702a260597b7353e19ea411b73ea6bf6e35c SHA256: 1deffd3781e492792f06cb25099550accb5911265919d836ced688cb241eedb9 SHA512: 0440adb47936e7e1a7496a14f1053b731bdaeaba704f662be327758f9d23cf6afb5743e4ff09298379afd1a2f5656967d36180a2851645c242d430a5fbbe62c8 Homepage: https://cran.r-project.org/package=funchir Description: CRAN Package 'funchir' (Convenience Functions by Michael Chirico) YACFP (Yet Another Convenience Function Package). get_age() is a fast & accurate tool for measuring fractional years between two dates. stale_package_check() tries to identify any library() calls to unused packages. Package: r-cran-funcmap Architecture: all Version: 1.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvbutils Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-funcmap_1.0.10-1.ca2004.1_all.deb Size: 30012 MD5sum: 0b87e1ca446b9abf411ae804638aa800 SHA1: c1642801ff2a5640248c92f3ef9e8b316927a633 SHA256: f7f3982587fe639506dda1dc55b054eb876fe0f35c3538b80653e44958457992 SHA512: be6a395a86e8866262c7ae3a3b3b44862bed70597131d62fef2da1cf488f02ec2fbae6f8465dd38f71f412cddb63e1efe3a537f4ee9c40bdc0cbc9051c2da62c Homepage: https://cran.r-project.org/package=FuncMap Description: CRAN Package 'FuncMap' (Hive Plots of R Package Function Calls) Analyzes the function calls in an R package and creates a hive plot of the calls, dividing them among functions that only make outgoing calls (sources), functions that have only incoming calls (sinks), and those that have both incoming calls and make outgoing calls (managers). Function calls can be mapped by their absolute numbers, their normalized absolute numbers, or their rank. FuncMap should be useful for comparing packages at a high level for their overall design. Plus, it's just plain fun. The hive plot concept was developed by Martin Krzywinski (www.hiveplot.com) and inspired this package. Note: this package is maintained for historical reasons. HiveR is a full package for creating hive plots. 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In other words, this package will allow users to build deep learning models that have either functional or scalar responses paired with functional and scalar covariates. We implement the theoretical discussion found in Thind, Multani and Cao (2020) through the help of a main fitting and prediction function as well as a number of helper functions to assist with cross-validation, tuning, and the display of estimated functional weights. Package: r-cran-functansnp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-caret, r-cran-glmnet, r-cran-lava, r-cran-mass, r-cran-fda, r-cran-fundata Filename: pool/dists/focal/main/r-cran-functansnp_0.1.0-1.ca2004.1_all.deb Size: 99820 MD5sum: 1fedcdddaec00938295aa8cee7c1aa16 SHA1: 713def39806146707b09b2dae2e1d66b9ce5ffb5 SHA256: 4ac8217a10b6ebb0726e018856c8db137be16d4a417cc2a95be533ffd16ac5df SHA512: 77e764d12629789b6b68640cfeedcb79fc3e657ce44264982975e3b7daf45ad2a598f637cde02a5121bf8c1a6dd0f3a7d91452af1247aa6bf96ef648c76198ad Homepage: https://cran.r-project.org/package=FunctanSNP Description: CRAN Package 'FunctanSNP' (Functional Analysis (with Interactions) for Dense SNP Data) An implementation of revised functional regression models for multiple genetic variation data, such as single nucleotide polymorphism (SNP) data, which provides revised functional linear regression models, partially functional interaction regression analysis with penalty-based techniques and corresponding drawing functions, etc.(Ruzong Fan, Yifan Wang, James L. Mills, Alexander F. Wilson, Joan E. Bailey-Wilson, and Momiao Xiong (2013) ). Package: r-cran-functclust Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4095 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-multcompview, r-cran-clustercrit Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-knitr, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-functclust_0.1.6-1.ca2004.1_all.deb Size: 2823968 MD5sum: fd8b69d3b8b1e0e5860d93a3d6b8aeb9 SHA1: eb5212276c9d49ea896d40e9f87e49e5ca825274 SHA256: 07c8fd76a557d9bfc8b97207982340b0a6b38348f8a366798b2ac74ef68b99d8 SHA512: 2c443219254964027ca75592377d4d112af64406510195657fa1b2963390e11ca395d09d25d3546e3a737e767a435b27554d047780076196295899a0aad943c6 Homepage: https://cran.r-project.org/package=functClust Description: CRAN Package 'functClust' (Functional Clustering of Redundant Components of a System) Cluster together the components that make up an interactive system on the basis of their functional redundancy for one or more collective, systemic performances. Plot the hierarchical tree of component clusters, the modelled and predicted performances of component assemblages, and other results associated with a functional clustering. Test and prioritize the significance of the different components that make up the interactive system, of the different assemblages of components that make up the dataset, and of the different performances observed on the component assemblages. The method finds application in ecology, for instance, where the system is an ecosystem, the components are organisms or species, and the systemic performance is the production of biomass or the respiration of the ecosystem. The method is extensively described in Jaillard B, Deleporte P, Loreau M, Violle C (2018) "A combinatorial analysis using observational data identifies species that govern ecosystem functioning" . 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Each aggregated curve is modeled as a linear combination of component functions and known weights. The component functions are estimated using wavelets or splines. The package is based on dos Santos Sousa (2024) and Saraiva and Dias (2009) . 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Underlying theory for these functions is described in the following publications: Waller, N. (2008). Fungible Weights in Multiple Regression. Psychometrika, 73(4), 691-703, . Waller, N. & Jones, J. (2009). Locating the Extrema of Fungible Regression Weights. Psychometrika, 74(4), 589-602, . Waller, N. G. (2016). Fungible Correlation Matrices: A Method for Generating Nonsingular, Singular, and Improper Correlation Matrices for Monte Carlo Research. Multivariate Behavioral Research, 51(4), 554-568. Jones, J. A. & Waller, N. G. (2015). The normal-theory and asymptotic distribution-free (ADF) covariance matrix of standardized regression coefficients: theoretical extensions and finite sample behavior. Psychometrika, 80, 365-378, . Waller, N. G. (2018). Direct Schmid-Leiman transformations and rank-deficient loadings matrices. Psychometrika, 83, 858-870. . 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The approach generally follows the ideas of Goldsmith, Bobb, Crainiceanu, Caffo, and Reich (2011) and the approach taken in their sample code, but with some modifications to make it more feasible to use with long rather than wide, non-rectangular longitudinal datasets with unequal and potentially random measurement times. It also allows easy plotting of the correlation between the smoothed covariate and the outcome as a function of time, which can add additional insights on how to interpret a functional regression. Additionally, it also provides several permutation tests for the significance of the functional predictor. The heuristic interpretation of ``time'' is used to describe the index of the functional predictor, but the same methods can equally be used for another unidimensional continuous index, such as space along a north-south axis. Note that most of the functionality of this package has been superseded by added features after 2016 in the 'pfr' function by Jonathan Gellar, Mathew W. McLean, Jeff Goldsmith, and Fabian Scheipl, in the 'refund' package built by Jeff Goldsmith and co-authors and maintained by Julia Wrobel. The development of the funreg package in 2015 and 2016 was part of a research project supported by Award R03 CA171809-01 from the National Cancer Institute and Award P50 DA010075 from the National Institute on Drug Abuse. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institute on Drug Abuse, the National Cancer Institute, or the National Institutes of Health. 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These furniture-themed functions are designed to simplify common tasks in quantitative analysis. Other data summary and cleaning tools are also available. 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The tests can be performed easily from within R or from outside of R from the command line making it straightforward to include them in package tests and in Continuous Integration (CI) pipelines. 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The simplest way to evaluate an expression in parallel is to use `x %<-% { expression }` with `plan(multisession)`. This package implements sequential, multicore, multisession, and cluster futures. With these, R expressions can be evaluated on the local machine, in parallel a set of local machines, or distributed on a mix of local and remote machines. Extensions to this package implement additional backends for processing futures via compute cluster schedulers, etc. Because of its unified API, there is no need to modify any code in order switch from sequential on the local machine to, say, distributed processing on a remote compute cluster. Another strength of this package is that global variables and functions are automatically identified and exported as needed, making it straightforward to tweak existing code to make use of futures. Package: r-cran-futureverse Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-future, r-cran-future.apply, r-cran-furrr, r-cran-dofuture, r-cran-progressr Suggests: r-cran-future.batchtools, r-cran-future.callr, r-cran-future.mirai Filename: pool/dists/focal/main/r-cran-futureverse_0.1.0-1.ca2004.1_all.deb Size: 19180 MD5sum: 379b4991808fec7e695f6478c9aa8b8a SHA1: 80a52b78a19a9dc609ba2d1b8ded6e892231836a SHA256: 5ed8e57411753025bc1098490ba24d38cedfad08aeb9a963ff978cbd3f48503e SHA512: 121102e262a2c914b014067b0cc878e9cb71802d828896b1453eac3fa3bcd7e84e591aeb251d3e54e7e81f5f809bdb538b987c6c20f8e59b2d2e1307ecd54535 Homepage: https://cran.r-project.org/package=futureverse Description: CRAN Package 'futureverse' (Easily Install and Load the 'Futureverse') The 'Futureverse' is a set of packages for parallel and distributed process with the 'future' package at its core, cf. Bengtsson (2021) . This package is designed to make it easy to install and load multiple 'Futureverse' packages in a single step. This package is intended for end-users, interactive use, and R scripts. Packages must not list it as a dependency - instead, explicitly declare each 'Futureverse' package as a dependency as needed. Package: r-cran-fuzzr Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertthat, r-cran-progress, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fuzzr_0.2.2-1.ca2004.1_all.deb Size: 48016 MD5sum: c38de1772cff2d2b71ba9ab26239dedb SHA1: bdc8c84d66e74100336ecd721df0b46572dd59a3 SHA256: ba7cd0b778aee5ea8371afd7321345c1837aeb8b5f240acec3e7d09565370d40 SHA512: a593a8a5fed1d1c8e8ee1e904309e015fcf996c3d207dc81bae53c895f48de17ea0b65fdd0f6e62c894afd63e61996c6260eb305bd45445ebbb1cd30099720ec Homepage: https://cran.r-project.org/package=fuzzr Description: CRAN Package 'fuzzr' (Fuzz-Test R Functions) Test function arguments with a wide array of inputs, and produce reports summarizing messages, warnings, errors, and returned values. Package: r-cran-fuzzy.p.value Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fuzzynumbers Filename: pool/dists/focal/main/r-cran-fuzzy.p.value_1.1-1.ca2004.1_all.deb Size: 50336 MD5sum: 3721802079dc10601c83f40f643fe1bd SHA1: fe290ae2a8b9645247d874be4abdbed9a1666dd8 SHA256: 81af37307c12af214e81f78b5b53a4c0992cb89696e3089088edc5d02041eae5 SHA512: 5c8a3681dbd0a1d0d5a09eb5bc7b3c37f0931606cc2e41482c27c902be12868736cfdf74fe195fddc03ce908586581335a272ca584b49cd7a21ac30b345d9c57 Homepage: https://cran.r-project.org/package=Fuzzy.p.value Description: CRAN Package 'Fuzzy.p.value' (Computing Fuzzy p-Value) The main goal of this package is drawing the membership function of the fuzzy p-value which is defined as a fuzzy set on the unit interval for three following problems: (1) testing crisp hypotheses based on fuzzy data, (2) testing fuzzy hypotheses based on crisp data, and (3) testing fuzzy hypotheses based on fuzzy data. In all cases, the fuzziness of data or/and the fuzziness of the boundary of null fuzzy hypothesis transported via the p-value function and causes to produce the fuzzy p-value. If the p-value is fuzzy, it is more appropriate to consider a fuzzy significance level for the problem. Therefore, the comparison of the fuzzy p-value and the fuzzy significance level is evaluated by a fuzzy ranking method in this package. Package: r-cran-fuzzyahp Architecture: all Version: 0.9.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 422 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fuzzyahp_0.9.5-1.ca2004.1_all.deb Size: 185000 MD5sum: 11475bdd2d8ae13b0ec275c68c8165fc SHA1: 7bf3d23e6d27c8c310efabeffa4b4e7a7435e721 SHA256: b06a1edb6ca574fb203aa2e1b4da9e813fb7abcacdf6c83d58e5486b23b3bfac SHA512: 8778bf9608c9da21026af35aa93aa67b04fc23e5d473b1f29442658653b955403a0ff874f43493329a4b9d154373b7514395808d51dafc72c8f40575d3e92076 Homepage: https://cran.r-project.org/package=FuzzyAHP Description: CRAN Package 'FuzzyAHP' ((Fuzzy) AHP Calculation) Calculation of AHP (Analytic Hierarchy Process - ) with classic and fuzzy weights based on Saaty's pairwise comparison method for determination of weights. 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Those methods were developed by researchers belong to the 'Laboratory of Technologies for Virtual Teaching and Statistics (LabTEVE)' and 'Laboratory of Applied Statistics to Image Processing and Geoprocessing (LEAPIG)' at 'Federal University of Paraiba, Brazil'. They considered some statistical distributions and their papers were published in the scientific literature, as for instance, the Gaussian classifier using fuzzy parameters, proposed by 'Moraes, Ferreira and Machado' (2021) . Package: r-cran-fuzzydbscan Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 318 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-r6, r-cran-data.table, r-cran-dbscan, r-cran-checkmate Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-factoextra, r-cran-spelling Filename: pool/dists/focal/main/r-cran-fuzzydbscan_0.0.3-1.ca2004.1_all.deb Size: 289276 MD5sum: 17fd8243331bcec72618002142d34357 SHA1: c48c31b585b09aabb2699b4709196e6f98810b9e SHA256: 977c5a898b33375076f8248a72fed6375cf59748e4e0378bd13f91bdd2a0fbf6 SHA512: 93f5e6bfc26351baaca863f29714e3081a7e7217f8f4b9bb82b9d03feeb6a7dfd7ede606524a379430e8e305d4dc31f73d0c11d78477bc94b4b17ae94d973636 Homepage: https://cran.r-project.org/package=FuzzyDBScan Description: CRAN Package 'FuzzyDBScan' (Run and Predict a Fuzzy DBScan) An interface for training Fuzzy DBScan with both Fuzzy Core and Fuzzy Border. Therefore, the package provides a method to initialize and run the algorithm and a function to predict new data w.t.h. of 'R6'. The package is build upon the paper "Fuzzy Extensions of the DBScan algorithm" from Ienco and Bordogna (2018) . A predict function assigns new data according to the same criteria as the algorithm itself. However, the prediction function freezes the algorithm to preserve the trained cluster structure and treats each new prediction object individually. Package: r-cran-fuzzyforest Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 858 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-randomforest, r-cran-foreach, r-cran-doparallel, r-cran-ggplot2, r-cran-mvtnorm Suggests: r-cran-wgcna, r-cran-testthat Filename: pool/dists/focal/main/r-cran-fuzzyforest_1.0.8-1.ca2004.1_all.deb Size: 830280 MD5sum: bec164b70192f8745aebb431ab3118bc SHA1: 79c2621ce27df946ec8e9576199c507ec4b20419 SHA256: 875f441c2a439998f478b2d6ad41738d252f8eef5e73e9ccf033b04d4b3b4266 SHA512: cb08b41666264eac98b3390750a1ded6b8541608549a3fcab1fbfd5ba675deb05c4c3ea12af27e2d8c30a3a2aa5bdd83634b86b97248f87a96983a6bda1fba81 Homepage: https://cran.r-project.org/package=fuzzyforest Description: CRAN Package 'fuzzyforest' (Fuzzy Forests) Fuzzy forests, a new algorithm based on random forests, is designed to reduce the bias seen in random forest feature selection caused by the presence of correlated features. 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Package: r-cran-fuzzyimputationtest Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fuzzysimres, r-cran-fuzzynumbers, r-cran-missforest, r-cran-miceranger, r-cran-vim, r-cran-fuzzyresampling, r-cran-mice Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fuzzyimputationtest_0.5.1-1.ca2004.1_all.deb Size: 141040 MD5sum: cae1a2ecbcd39b117c61699d3c7bb33a SHA1: 30e466aa1a779d7ddfed9c20a514e5550709e49c SHA256: 41cf8243356c3aa84aa67fb7c19aaf245e82e145eadee0eff93839972ab6b202 SHA512: 588d849db72340b8a0314be5f30588abc6905a6983240b1653f0fd0bba754636c31ea054c95a42d2ed80d4d9c59354e9b44d4d5ba7f37de9d4545517c8604719 Homepage: https://cran.r-project.org/package=FuzzyImputationTest Description: CRAN Package 'FuzzyImputationTest' (Imputation Procedures and Quality Tests for Fuzzy Data) Special procedures for the imputation of missing fuzzy numbers are still underdeveloped. The goal of the package is to provide the new d-imputation method (DIMP for short, Romaniuk, M. and Grzegorzewski, P. (2023) "Fuzzy Data Imputation with DIMP and FGAIN" RB/23/2023) and covert some classical ones applied in R packages ('missForest','miceRanger','knn') for use with fuzzy datasets. Additionally, specially tailored benchmarking tests are provided to check and compare these imputation procedures with fuzzy datasets. 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Implementations include string distance and regular expression matching. Package: r-cran-fuzzylink Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-rfast, r-cran-reshape2, r-cran-stringdist, r-cran-stringr, r-cran-httr, r-cran-jsonlite, r-cran-httr2, r-cran-ranger Filename: pool/dists/focal/main/r-cran-fuzzylink_0.2.1-1.ca2004.1_all.deb Size: 66476 MD5sum: a781ce8068a972605d0f8305cc129590 SHA1: 03fe3994d84c654c4277f3cabda1bb3fa387d7f9 SHA256: 44426d5f98e4d42eb719d4a28a69dc5b40e0e9439a4317944f800a0194abe7fc SHA512: 41b2acb776aaad2c15fe1e133a9558163ca9618c38bac210c5056ece51d7fbe9fc8ceaa32e68af30b845ecb57af0ec7b7df78918b6e75f2c2b741b72bb99eed0 Homepage: https://cran.r-project.org/package=fuzzylink Description: CRAN Package 'fuzzylink' (Probabilistic Record Linkage Using Pretrained Text Embeddings) Links datasets through fuzzy string matching using pretrained text embeddings. Produces more accurate record linkage when lexical string distance metrics are a poor guide to match quality (e.g., "Patricia" is more lexically similar to "Patrick" than it is to "Trish"). Capable of performing multilingual record linkage. Methods are described in Ornstein (2025) . Package: r-cran-fuzzylp Architecture: all Version: 0.1-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 450 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-roi, r-cran-fuzzynumbers, r-cran-roi.plugin.glpk Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-fuzzylp_0.1-7-1.ca2004.1_all.deb Size: 422072 MD5sum: 0794eca7da16f421ed46c143f0a9ee61 SHA1: cbbc2fc8af7cc34080f4270cbb408eb910d57ab9 SHA256: 6ea36c7cb0889caaf2ab19b43e46df49af3772aaae44229afbdc8c9460db1c2f SHA512: d52878aba9f97fdba3c3a5ff81e2a844a5b20818dc68a1a595c62577e06450e6bab9f246d52cb6389112ea7da0d5e1fddc6a67f1cf6e80d6767f9da4c282399b Homepage: https://cran.r-project.org/package=FuzzyLP Description: CRAN Package 'FuzzyLP' (Fuzzy Linear Programming) Provides methods to solve Fuzzy Linear Programming Problems with fuzzy constraints (following different approaches proposed by Verdegay, Zimmermann, Werners and Tanaka), fuzzy costs, and fuzzy technological matrix. Package: r-cran-fuzzym Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1341 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-fuzzym_0.1.0-1.ca2004.1_all.deb Size: 631540 MD5sum: 7dc357d27874aa837275980fee7ba0c6 SHA1: 852523bb12e2be844950e65c209237be6235b123 SHA256: 0630096c11d50485eeb3777eebc67b868941788d6e278a4f4de073fa80b3516b SHA512: 8941207374b1fcd9ad8e3454ba7c5ae06100ce9f991ccb413e0d973931bc1f04a0d4bb82cc38434c7ca07374d3de6290f27e85012602db64ba89b4a2e56aa4d1 Homepage: https://cran.r-project.org/package=FuzzyM Description: CRAN Package 'FuzzyM' (Fuzzy Cognitive Maps Operations) Contains functions for operations with fuzzy cognitive maps using t-norm and s-norm operators. T-norms and S-norms are described by Dov M. Gabbay and George Metcalfe (2007) . System indicators are described by Cox, Earl D. (1995) . Executable examples are provided in the "inst/examples" folder. Package: r-cran-fuzzymcdm Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rankaggreg Filename: pool/dists/focal/main/r-cran-fuzzymcdm_1.1-1.ca2004.1_all.deb Size: 61072 MD5sum: b8cdf022e0940af2b47a75672f63f767 SHA1: 934593e2f9bb2db7f83741f900648d24e1c5f073 SHA256: 00285c11a8677a0305eb5fca5147abd67d1b619de16aae382e30b95132d032bf SHA512: 7a0bbdf6c05589d7276db0413c1e9975a3b1a38f43981f8e580aea4a24f0675259b81ea89a6d13261b6129534d1daae16edcea05a8a1a04337bebbe66da6eac6 Homepage: https://cran.r-project.org/package=FuzzyMCDM Description: CRAN Package 'FuzzyMCDM' (Multi-Criteria Decision Making Methods for Fuzzy Data) Implementation of several MCDM methods for fuzzy data (triangular fuzzy numbers) for decision making problems. The methods that are implemented in this package are Fuzzy TOPSIS (with two normalization procedures), Fuzzy VIKOR, Fuzzy Multi-MOORA and Fuzzy WASPAS. In addition, function MetaRanking() calculates a new ranking from the sum of the rankings calculated, as well as an aggregated ranking. 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This work is possible using function f2apply() which is an extension of function fapply() from Package 'FuzzyNumbers' for two-variable monotone functions. Moreover, this package has the ability of computing the core, support and alpha-cuts of the fuzzy-valued final result. Package: r-cran-fuzzynumbers Architecture: all Version: 0.4-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1021 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-digest Filename: pool/dists/focal/main/r-cran-fuzzynumbers_0.4-7-1.ca2004.1_all.deb Size: 764844 MD5sum: 87ba5bf64008cf91e916641c9c4c5278 SHA1: 1994b8629e549cb72923eaf0d9e53639b9a59736 SHA256: 426db809a304ddb1588e60c1a599f981dedfd0278066ae691cb69a3fcdb002ae SHA512: 7f11e7af9015b8c30c6bebffea52004e55611b089b17ae9e84f6f3f9ecf4e443ff260aee9b748c64dad73ca171f8d5f8bf5763b2094a58dac90692639fd6967d Homepage: https://cran.r-project.org/package=FuzzyNumbers Description: CRAN Package 'FuzzyNumbers' (Tools to Deal with Fuzzy Numbers) S4 classes and methods to deal with fuzzy numbers. They allow for computing any arithmetic operations (e.g., by using the Zadeh extension principle), performing approximation of arbitrary fuzzy numbers by trapezoidal and piecewise linear ones, preparing plots for publications, computing possibility and necessity values for comparisons, etc. Package: r-cran-fuzzypovertyr Architecture: all Version: 3.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 961 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-sampling, r-cran-ecp Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-spelling Filename: pool/dists/focal/main/r-cran-fuzzypovertyr_3.0.2-1.ca2004.1_all.deb Size: 637496 MD5sum: e631745b17d32f2cb20b8fa56fa465e3 SHA1: f04970d50eade0a770e45af46d7312a7f76122cc SHA256: 00fa8c059913aa5d771672930ceea9bf7d5385efe8872350e0be8375bbbd3e8c SHA512: 7ade80f928aca24ec6ca529bf3825fc1efd31d97e58b532edfb097d49e3d30e474d72a047e80be82f8e3c594cbbc631fdb60f795c702c1636ecdbf4528e6727d Homepage: https://cran.r-project.org/package=FuzzyPovertyR Description: CRAN Package 'FuzzyPovertyR' (Estimation of Fuzzy Poverty Measures) Estimates fuzzy measures of poverty and deprivation. It also estimates the sampling variance of these measures using bootstrap or jackknife repeated replications. Package: r-cran-fuzzyq Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster Filename: pool/dists/focal/main/r-cran-fuzzyq_0.1.0-1.ca2004.1_all.deb Size: 57832 MD5sum: 32cb909172c00d42d240f16f92f32279 SHA1: b7f4ed9602c7909b175a64d04a98d3784df1deb2 SHA256: 3e050ec6d5762d25d095a8b64cbc6cb757bdb5b4ff47632b5ce52a0f78622bfc SHA512: 33e2c61df54e2fee918654486f2dff4972858659e26a5f45a4239bcd06509fd1ca1edc77c37d2264a5aa945e2be0b34dae8ebb3eb27d60dbf7cff1725cba591c Homepage: https://cran.r-project.org/package=FuzzyQ Description: CRAN Package 'FuzzyQ' (Fuzzy Quantification of Common and Rare Species) Fuzzy clustering of species in an ecological community as common or rare based on their abundance and occupancy. It also includes functions to compute confidence intervals of classification metrics and plot results. See Balbuena et al. (2020, ). Package: r-cran-fuzzyr Architecture: all Version: 2.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 359 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-plyr Filename: pool/dists/focal/main/r-cran-fuzzyr_2.3.2-1.ca2004.1_all.deb Size: 317292 MD5sum: a7a31ab94a83ac6fdd89803360101497 SHA1: ff987a446b95372f9df112dd2dc92fa2e969bc30 SHA256: 25118a60dbb90e40456ae3dde8f2ce54430714a09fdf5c91fe2968d9ae59be9a SHA512: 3817312dbc8dbb432265bd5c9d3822765409365f0db261a3267131eebc9815c7f1ce7abea3f866a88c138b36961ddb6099d0a18decbb8527b8fc998fb86fba68 Homepage: https://cran.r-project.org/package=FuzzyR Description: CRAN Package 'FuzzyR' (Fuzzy Logic Toolkit for R) Design and simulate fuzzy logic systems using Type-1 and Interval Type-2 Fuzzy Logic. This toolkit includes with graphical user interface (GUI) and an adaptive neuro- fuzzy inference system (ANFIS). This toolkit is a continuation from the previous package ('FuzzyToolkitUoN'). Produced by the Intelligent Modelling & Analysis Group (IMA) and Lab for UnCertainty In Data and decision making (LUCID), University of Nottingham. A big thank you to the many people who have contributed to the development/evaluation of the toolbox. Please cite the toolbox and the corresponding paper when using it. More related papers can be found in the NEWS. Package: r-cran-fuzzyreg Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 517 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-limsolve, r-cran-quadprog Suggests: r-cran-testthat, r-cran-fuzzynumbers, r-cran-knitr, r-cran-rmarkdown, r-cran-bookdown Filename: pool/dists/focal/main/r-cran-fuzzyreg_0.6.2-1.ca2004.1_all.deb Size: 341848 MD5sum: dc5b0f03ef21c703e4af1a5364845002 SHA1: 45aeb625b972ecdc24006a7a07f240cabff28743 SHA256: 8880bef6f1ae4f7c748cf18c5b64ec5e3d293f5d7eb9caba01add990460112bd SHA512: 7dde41036410c862dc3f72d2a668d1fdf878d096f01e087ce259731b529bda3c460e6f565eda4d3283077cd26bd6d4f4d7402972c577629aaa7635397676ea73 Homepage: https://cran.r-project.org/package=fuzzyreg Description: CRAN Package 'fuzzyreg' (Fuzzy Linear Regression) Estimators for fuzzy linear regression. The functions estimate parameters of fuzzy linear regression models with crisp or fuzzy independent variables (triangular fuzzy numbers are supported). Implements multiple methods for parameter estimation and algebraic operations with triangular fuzzy numbers. Includes functions for summarising, printing and plotting the model fit. Calculates predictions from the model and total error of fit. Individual methods are described in Diamond (1988) , Hung & Yang (2006) , Lee & Tanaka (1999) , Nasrabadi, Nasrabadi & Nasrabady (2005) , Skrabanek, Marek & Pozdilkova (2021) , Tanaka, Hayashi & Watada (1989) , Zeng, Feng & Li (2017) . Package: r-cran-fuzzyresampling Architecture: all Version: 0.6.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 461 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-fuzzyresampling_0.6.4-1.ca2004.1_all.deb Size: 415740 MD5sum: 4b12ad8bed9f1835d80b2f2feace84cd SHA1: 17951d07270ec477a9a1e8d3328e64c335502870 SHA256: 8cb5d2b1e4c8d39ec4a8e8b08b776edbed724041253aed8e77299d7fcdb68c66 SHA512: 6059c7813bf79639eab530f9bd55b1590d36cf89eca38b9f81aec1fe7f7ca130b000edd97044cfb4e988cdcdcf30d75cd882f1df9660d1ad0822fe9dbd52f74b Homepage: https://cran.r-project.org/package=FuzzyResampling Description: CRAN Package 'FuzzyResampling' (Resampling Methods for Triangular and Trapezoidal Fuzzy Numbers) The classical (i.e. Efron's, see Efron and Tibshirani (1994, ISBN:978-0412042317) "An Introduction to the Bootstrap") bootstrap is widely used for both the real (i.e. "crisp") and fuzzy data. The main aim of the algorithms implemented in this package is to overcome a problem with repetition of a few distinct values and to create fuzzy numbers, which are "similar" (but not the same) to values from the initial sample. To do this, different characteristics of triangular/trapezoidal numbers are kept (like the value, the ambiguity, etc., see Grzegorzewski et al. , Grzegorzewski et al. (2020) , Grzegorzewski et al. (2020) , Grzegorzewski and Romaniuk (2022) , Romaniuk and Hryniewicz (2019) ). Some additional procedures related to these resampling methods are also provided, like calculation of the Bertoluzza et al.'s distance (aka the mid/spread distance, see Bertoluzza et al. (1995) "On a new class of distances between fuzzy numbers") and estimation of the p-value of the one- and two- sample bootstrapped test for the mean (see Lubiano et al. (2016, )). Additionally, there are procedures which randomly generate trapezoidal fuzzy numbers using some well-known statistical distributions. Package: r-cran-fuzzysim Architecture: all Version: 4.33-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 470 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-modeva, r-cran-stringi Suggests: r-cran-aod, r-cran-geodist, r-cran-phylolm, r-cran-raster, r-cran-terra Filename: pool/dists/focal/main/r-cran-fuzzysim_4.33-1.ca2004.1_all.deb Size: 412500 MD5sum: 5cdddf7cfc3a4c1a597a60d6c1ccff05 SHA1: c2fcefc1daafd5dcd6da1f10c677f987d9b5ee30 SHA256: 5d2c90227e520481c64d41d893acb94bda16b2d470467bf5e6138bbdbf4b8f22 SHA512: 54cacb5646f9dc05953e4819b6c2a108b6be951809fcd5c42098147ab956813d175c390a4422fe3bdcd8c0462ee43623a94d3049683a0f95601bd6f107864edc Homepage: https://cran.r-project.org/package=fuzzySim Description: CRAN Package 'fuzzySim' (Fuzzy Similarity in Species Distributions) Functions to compute fuzzy versions of species occurrence patterns based on presence-absence data (including inverse distance interpolation, trend surface analysis, and prevalence-independent favourability obtained from probability of presence), as well as pair-wise fuzzy similarity (based on fuzzy logic versions of commonly used similarity indices) among those occurrence patterns. Includes also functions for model consensus and comparison (overlap and fuzzy similarity, fuzzy loss, fuzzy gain), and for data preparation, such as obtaining unique abbreviations of species names, defining the background region, cleaning and gridding (thinning) point occurrence data onto raster maps, selecting among (pseudo)absences to address survey bias, converting species lists (long format) to presence-absence tables (wide format), transposing part of a data frame, selecting relevant variables for models, assessing the false discovery rate, or analysing and dealing with multicollinearity. Initially described in Barbosa (2015) . Package: r-cran-fuzzystatprob Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 758 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-multinomialci, r-cran-fuzzynumbers, r-cran-deoptim Suggests: r-cran-markovchain, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-fuzzystatprob_2.0.4-1.ca2004.1_all.deb Size: 713680 MD5sum: 654e3348e245111b6311f096e089ec8c SHA1: ea02ce4439968a11c0512a7602b081329212d24b SHA256: 690cb6d29052c0e97ff53b1d6266c50c813b1c5563e0e26afcced681bd1dce19 SHA512: 0c91b2cd83061a739f88ff74491deb4a6a1549646e689ba89a8281a6600dec1843fad8adf69917469e834986117411daa774d5a10775d4328a39d012b0f0566a Homepage: https://cran.r-project.org/package=FuzzyStatProb Description: CRAN Package 'FuzzyStatProb' (Fuzzy Stationary Probabilities from a Sequence of Observationsof an Unknown Markov Chain) An implementation of a method for computing fuzzy numbers representing stationary probabilities of an unknown Markov chain, from which a sequence of observations along time has been obtained. The algorithm is based on the proposal presented by James Buckley in his book on Fuzzy probabilities (Springer, 2005), chapter 6. Package 'FuzzyNumbers' is used to represent the output probabilities. Package: r-cran-fuzzystattra Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 199 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-fuzzystattra_1.0-1.ca2004.1_all.deb Size: 157600 MD5sum: 3d2ada70c638b2739c8e4cda35e17cee SHA1: 72dcf2c01b07a0113471790fd5424e4010778c8e SHA256: e5b6fce7fd45a6d555456398afcaf2c8f658c160a4a3190321967a8c2b03f41a SHA512: 70f53af3a26edc33f1ff71bfceca4877ff803b06830a9b31be56980f9a1b9101d5bb7a371b730b850f2272ab154ac0894072c2452a03cdb365b3247aea2ee852 Homepage: https://cran.r-project.org/package=FuzzyStatTra Description: CRAN Package 'FuzzyStatTra' (Statistical Methods for Trapezoidal Fuzzy Numbers) The aim of the package is to provide some basic functions for doing statistics with trapezoidal fuzzy numbers. In particular, the package contains several functions for simulating trapezoidal fuzzy numbers, as well as for calculating some central tendency measures (mean and two types of median), some scale measures (variance, ADD, MDD, Sn, Qn, Tn and some M-estimators) and one diversity index and one inequality index. Moreover, functions for calculating the 1-norm distance, the mid/spr distance and the (phi,theta)-wabl/ldev/rdev distance between fuzzy numbers are included, and a function to calculate the value phi-wabl given a sample of trapezoidal fuzzy numbers. Package: r-cran-fuzzystattraeoo Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 428 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-r6 Suggests: r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-fuzzystattraeoo_1.0-1.ca2004.1_all.deb Size: 385308 MD5sum: 95dd9eb7f7fdd3f25ab33f71acb304e8 SHA1: 2e065dab3a2d87e75befcedbad105fb2f217b6ae SHA256: a28b8edc87e5a9c9c9271ea745b946e0efe0fb8e8ed58f2aa1bd8d66bc5fdf9f SHA512: b78d2ccb93a9fa3e569ae1a442887ba8d50dc251ded021107bbf654cd0f29181cc61b429f4c8dc0c760b68b8295e7629b4d54ba4647171fa859f8febb29a8a1c Homepage: https://cran.r-project.org/package=FuzzyStatTraEOO Description: CRAN Package 'FuzzyStatTraEOO' (Package 'FuzzyStatTra' in Encapsulated Object OrientedProgramming) The aim of the package is to contain the package 'FuzzyStatTra' in Encapsulated Object Oriented Programming using R6. 'FuzzyStatTra' contains Statistical Methods for Trapezoidal Fuzzy Numbers, whose aim is to provide some basic functions for doing statistical analysis with trapezoidal fuzzy numbers. For more details, you can visit the website of the SMIRE+CoDiRE (Statistical Methods with Imprecise Random Elements and Comparison of Distributions of Random Elements) Research Group (). The most related paper can be found in References. Now, those functions are organized in specific classes and methods. This object-based approach is an important step in making statistical computing more accessible to users. Package: r-cran-fuzzysts Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1261 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fuzzynumbers, r-cran-polynom Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-fuzzysts_0.3-1.ca2004.1_all.deb Size: 834028 MD5sum: 140569219210b5ffb8ca88e2f301d202 SHA1: b40bd05e7c2932726c6222b5264ca64dcccc3fc1 SHA256: 799266754a78b035c9c3c1f0fb025304812e0ed00e9d254020cacc070085d39c SHA512: 5cc049981e89db48d837cf5e28ec0b8450d9eb4d230cf40987fce489116da4fa8a630d2d1d6c9b009855c055929262e242284447cc159bd8c0f47e381c9266c1 Homepage: https://cran.r-project.org/package=FuzzySTs Description: CRAN Package 'FuzzySTs' (Fuzzy Statistical Tools) The main goal of this package is to present various fuzzy statistical tools. It intends to provide an implementation of the theoretical and empirical approaches presented in the book entitled "The signed distance measure in fuzzy statistical analysis. Some theoretical, empirical and programming advances" . For the theoretical approaches, see Berkachy R. and Donze L. (2019) . For the empirical approaches, see Berkachy R. and Donze L. (2016) ). Important (non-exhaustive) implementation highlights of this package are as follows: (1) a numerical procedure to estimate the fuzzy difference and the fuzzy square. (2) two numerical methods of fuzzification. (3) a function performing different possibilities of distances, including the signed distance and the generalized signed distance for instance with all its properties. (4) numerical estimations of fuzzy statistical measures such as the variance, the moment, etc. (5) two methods of estimation of the bootstrap distribution of the likelihood ratio in the fuzzy context. (6) an estimation of a fuzzy confidence interval by the likelihood ratio method. (7) testing fuzzy hypotheses and/or fuzzy data by fuzzy confidence intervals in the Kwakernaak - Kruse and Meyer sense. (8) a general method to estimate the fuzzy p-value with fuzzy hypotheses and/or fuzzy data. (9) a method of estimation of global and individual evaluations of linguistic questionnaires. (10) numerical estimations of multi-ways analysis of variance models in the fuzzy context. The unbalance in the considered designs are also foreseen. 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Inputs are : data frame, RDA (package 'vegan') and PCA (package 'FactoMineR') objects. Outputs are : synthesized results of RDA, displayed in console and saved in tables ; displayed and saved objects of PCA graphic visualization of individuals and variables projections with multiple graphic parameters. Package: r-cran-gabi Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hash Filename: pool/dists/focal/main/r-cran-gabi_0.1-1.ca2004.1_all.deb Size: 56952 MD5sum: 7678401a2b07d08f6b002fad420522f2 SHA1: 27768394bfdf428fbf58789b1a688d95fbdd0fb0 SHA256: 811ca81aec6163de0170a1d81365698d5426e275f514cc129d385f27c6b70134 SHA512: 1577226c7a9b0c894de7bb54cc097b4d750c238533291baabef39624e37f89504e25e6f1ba62c3ac1f9b916e9814da341c53b5ad6f01d2cdcf67851c1c7c3cea Homepage: https://cran.r-project.org/package=GABi Description: CRAN Package 'GABi' (Framework for Generalized Subspace Pattern Mining) Generalized subspace pattern mining in data arrays, using a genetic algorithm framework. Package: r-cran-gacff Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gacff_1.0-1.ca2004.1_all.deb Size: 77424 MD5sum: 8fd1229df7c3e7fa49c6ee94630d81e4 SHA1: f6f3ce9ff0e0890885ac8d618ae6871d2560aa8a SHA256: 52a315255014861cff26eff1a4b680b30604758385bf65f3358cfdcd24e9ff8d SHA512: 011c60f4a2810fbf6f559548f9185e141d5c9936b675831b03d6e362aca4e62b86e37f7445d9e834222fa209eda403e94b2af2c110ff8aaa5a06be9877a39b8b Homepage: https://cran.r-project.org/package=GACFF Description: CRAN Package 'GACFF' (Genetic Similarity in User-Based Collaborative Filtering) The genetic algorithm can be used directly to find the similarity of users and more effectively to increase the efficiency of the collaborative filtering method. By identifying the nearest neighbors to the active user, before the genetic algorithm, and by identifying suitable starting points, an effective method for user-based collaborative filtering method has been developed. This package uses an optimization algorithm (continuous genetic algorithm) to directly find the optimal similarities between active users (users for whom current recommendations are made) and others. First, by determining the nearest neighbor and their number, the number of genes in a chromosome is determined. Each gene represents the neighbor's similarity to the active user. By estimating the starting points of the genetic algorithm, it quickly converges to the optimal solutions. The positive point is the independence of the genetic algorithm on the number of data that for big data is an effective help in solving the problem. Package: r-cran-gad Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrixstats Filename: pool/dists/focal/main/r-cran-gad_2.0-1.ca2004.1_all.deb Size: 125376 MD5sum: 5fb831629ddfabe35b3110a266a7dfbe SHA1: fc2b00ef90576ee6a37e67dfec6c938b1fd6c6a2 SHA256: 3f5de2a82195baf547e209a5f050d4753e07fd0587e6679d2226add50ecf00f3 SHA512: f9b55d898bcbe2c09bf867afb258cf38530a7e52c2a968a9cd4ab7592ff68b51b2956b403cd27f24f698581837699e830ba5bb6c88715eee6b9c1dfc3e6cdf86 Homepage: https://cran.r-project.org/package=GAD Description: CRAN Package 'GAD' (Analysis of Variance from General Principles) Analysis of complex ANOVA models with any combination of orthogonal/nested and fixed/random factors, as described by Underwood (1997). There are two restrictions: (i) data must be balanced; (ii) fixed nested factors are not allowed. 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Package: r-cran-gadget3 Architecture: all Version: 0.13-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2003 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-digest, r-cran-rlang, r-cran-tmb Suggests: r-cran-dplyr, r-cran-knitr, r-cran-magrittr, r-cran-rmarkdown, r-cran-unittest Filename: pool/dists/focal/main/r-cran-gadget3_0.13-0-1.ca2004.1_all.deb Size: 1043076 MD5sum: 0fdb60e743b4a07402ae703e09c53d6d SHA1: 4b2168f8c9fdcbd7fdfe67eb407c992d49d233ab SHA256: 5c6a15ace3082bbde78c422f9af4c095c6eacfdd1e7ff024c776784d92ec9556 SHA512: 8c91b6261b80574396278f45fd41c66c708d2e34bef3fe311cda9386ecc90eda53902dfe563a67ed91fdadf8bdb9257cb0dcc6ab3183dea61461e51fcbafda0c Homepage: https://cran.r-project.org/package=gadget3 Description: CRAN Package 'gadget3' (Globally-Applicable Area Disaggregated General Ecosystem ToolboxV3) A framework to assist creation of marine ecosystem models, generating either 'R' or 'C++' code which can then be optimised using the 'TMB' package and standard 'R' tools. Principally designed to reproduce gadget2 models in 'TMB', but can be extended beyond gadget2's capabilities. Kasper Kristensen, Anders Nielsen, Casper W. Berg, Hans Skaug, Bradley M. Bell (2016) "TMB: Automatic Differentiation and Laplace Approximation.". Begley, J., & Howell, D. (2004) "An overview of Gadget, the globally applicable area-disaggregated general ecosystem toolbox. ICES.". Package: r-cran-gadifpt Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gadifpt_1.0-1.ca2004.1_all.deb Size: 64352 MD5sum: 64354d6ba1ef5db9136e4e2077731cd5 SHA1: ea73a4f4f8f10436d440133d1652fb50f20d5d70 SHA256: 1c513a2f21e40f98ac1f02c46b7e477389fda6a5b18bcb82726156d119dd22d2 SHA512: 5c9c765e31daf3cf632d19c3dd90a1ba683ba5cdda391cc89764ee1feb6d1830937a6082f508984303e29ddcb05af95bc3f6163ad77fadebd20250adea941ee2 Homepage: https://cran.r-project.org/package=GaDiFPT Description: CRAN Package 'GaDiFPT' (First Passage Time Simulation for Gaussian Diffusion Processes) In this package we consider Gaussian Diffusion processes and smooth thresholds. After evaluating the mean of the process to check the subthreshold regimen hypothesis, the FPT density function is reconstructed via the numerical quadrature of the integral equation in (Buonocore 1987); first passage times are also generated by the method in (Buonocore 2014) and results are compared. The timestep of the simulations can iteratively be refined. User should provide the functional form for the drift and the infinitesimal variance in the script 'userfunc.R' and for the threshold in the script 'userthresh.R'. All the parameters required by the implementation are to be set in the script 'userparam.R'. Example scripts for common drifts and thresholds are given. 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Create 'choropleth', 'isopleth', dots plot, proportional dots, dot-density and more. Package: r-cran-gagblup Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1604 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ga, r-cran-foreach, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-gagblup_1.0-1.ca2004.1_all.deb Size: 1566792 MD5sum: fcde3684e25235b4ae4ae4431fc12316 SHA1: 588a258045c809949d6cca21099362a4b011505e SHA256: 3f72d524c50d89c30d20a9a1d23573e40b7a988063271e2db9a2b0d04d26505d SHA512: 0055b96e991ba9c2e4e87ab6e870a7a414ec58f92606cc12d602a7c03645bae48adb943f3efecdc3ed0905b748917fe6a3f719c47bc03955f174d714648af56c Homepage: https://cran.r-project.org/package=GAGBLUP Description: CRAN Package 'GAGBLUP' (Genetic Algorithm Assisted Genomic Best Liner UnbiasedPrediction) Performs genetic algorithm (Scrucca, L (2013) ) assisted genomic best liner unbiased prediction for genomic selection. 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Ding, and D. Cabezon (2019) . Package: r-cran-gains Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2037 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gains_1.2-1.ca2004.1_all.deb Size: 1897700 MD5sum: 35b688aab2ff6d13c9b5556c014868a8 SHA1: 34f2f296a5ccecf3398c53b5109b7d8ff45add44 SHA256: 8b9e8dcbc6c8103086d14fbc02b040a43268b56bd6b36eb22cc77282e4186bb1 SHA512: 5d3461431f98794be133628d76b06180d013853ae37532302b78a9a8f338a5e9b5037cdcd7cdc4d3a4d95aa4a91a456986a1ac6729b94e3e0b7d51a5c84c2dd7 Homepage: https://cran.r-project.org/package=gains Description: CRAN Package 'gains' (Lift (Gains) Tables and Charts) Constructs gains tables and lift charts for prediction algorithms. Gains tables and lift charts are commonly used in direct marketing applications. The method is described in Drozdenko and Drake (2002), "Optimal Database Marketing", Chapter 11. Package: r-cran-gaipe Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gaipe_1.1-1.ca2004.1_all.deb Size: 37592 MD5sum: e94c80aa0141321d3a656109da0f5be0 SHA1: 2a935935c91d14dca8ff71d527d974217a7e9c39 SHA256: 1bcd930698d75eff7df979c5a3ceba946c8481a6cc49ac050be8371c20f696d5 SHA512: 91cd1a0122f7a06d1b8e5a788fde2da6aff3ae57d2ecdf8b0646d3dbb9e530e66581f91f3a586472fdf1aa4a3718f5126cb68d81877c47e913c6ff15b8a6064b Homepage: https://cran.r-project.org/package=GAIPE Description: CRAN Package 'GAIPE' (Graphical Extension with Accuracy in Parameter Estimation(GAIPE)) Implements graphical extension with accuracy in parameter estimation (AIPE) on RMSEA for sample size planning in structural equation modeling based on Lin, T.-Z. & Weng, L.-J. (2014) . And, it can also implement AIPE on RMSEA and power analysis on RMSEA. 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Several of these nodes - the "living atlases" () - maintain their own web services using software originally developed by the Atlas of Living Australia ('ALA', ). 'galah' enables the R community to directly access data and resources hosted by 'GBIF' and its partner nodes. 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This packages allows you loading data from ads account and manage your ads materials. Package: r-cran-gallery Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 204 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-pracma Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gallery_1.0.0-1.ca2004.1_all.deb Size: 168172 MD5sum: 1824215e38ac95f0f1b98fb06a0c0717 SHA1: 842875762522e1f64250af30bb2c4ddbec00cfad SHA256: afc0798899983f1843512472cb648207b3e82fc479819aa78099516cca3bc505 SHA512: 6c24876c64edc6cac81222e2709c10e74cbfe2095720b67f356c031355d56ae2227f648853d8a75e5ea8e07195403ecb8d621f25b4b76616d2c5f5fa98891e50 Homepage: https://cran.r-project.org/package=gallery Description: CRAN Package 'gallery' (Generate Test Matrices for Numerical Experiments) Generates a variety of structured test matrices commonly used in numerical linear algebra and computational experiments. 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The Genomic Annotation in Livestock for positional candidate LOci (GALLO) is an R package designed to provide an intuitive and straightforward environment to annotate positional candidate genes and QTLs from high-throughput genetic studies in livestock. Moreover, GALLO allows the graphical visualization of gene and QTL annotation results, data comparison among different grouping factors (e.g., methods, breeds, tissues, statistical models, studies, etc.), and QTL enrichment in different livestock species including cattle, pigs, sheep, and chicken, among others. 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OLS (Ordinary Least Squares) regression is known to be sensitive to outliers. A single outlying observation can change the values of estimated parameters. LTS is a resistant estimator even the number of outliers is up to half of the data. This package is for estimating the LTS parameters with lower bias and variance in a reasonable time. Version >=1.3 includes the function medmad for fast outlier detection in linear regression. 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Package: r-cran-gam.hp Architecture: all Version: 0.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-gam.hp_0.0-3-1.ca2004.1_all.deb Size: 48580 MD5sum: f1f2287518471bf7baadbbd9e201aba3 SHA1: a8f343c568c22f5dfeba03d327dff6c31e29efb5 SHA256: 80c640c1532c2fffc3189da70463cf32de26ddd566258a76ae1a695586847bb0 SHA512: 2c1952e311a3565b4b0a812edc8e286e89cfa4f7a7c1b01ff0f0a79d85b0469b29a900828e0d2b6aa71f16830752fb8deae2d0a66307e395e4c68a83b04f0e65 Homepage: https://cran.r-project.org/package=gam.hp Description: CRAN Package 'gam.hp' (Hierarchical Partitioning of Adjusted R2 and Explained Deviancefor Generalized Additive Models) Conducts hierarchical partitioning to calculate individual contributions of each predictor towards adjusted R2 and explained deviance for generalized additive models based on output of gam()in 'mgcv' package, applying the algorithm in this paper: Lai(2024) . Package: r-cran-gamabiomd Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-traits, r-cran-dplyr, r-cran-magrittr, r-cran-ggplot2, r-bioc-biostrings, r-cran-heatmaply, r-cran-reshape2, r-cran-dendextend, r-cran-ape Filename: pool/dists/focal/main/r-cran-gamabiomd_0.2.0-1.ca2004.1_all.deb Size: 86488 MD5sum: dcf21caab71381d6fe69318082f9477d SHA1: 28823917ae87430deb343ddade9f2f84c677abeb SHA256: 2dc48a62b6b68f712b6b1e853dac808ee5d5bcfb74cdcbf091af6baf2924deb7 SHA512: 18a078d78047a56c688142893897e3f1fa87be248fdaa1b925e362d246fdb7feaee9ab76f3846cb29d2e0c034c6815e822043f88d1cafda6a62ff83b73b4489b Homepage: https://cran.r-project.org/package=GaMaBioMD Description: CRAN Package 'GaMaBioMD' (Diversity Analysis for Sequence Data) The full form is Garai and Mantri Biological Material Diversity. It is an R package designed for the calculation of biological diversity using sequence data. It simplifies the process by requiring only sample IDs and accession numbers. Whether you're analyzing genetic or microbial diversity, It provides efficient tools for diversity analysis. Serially one should go for the functions as presented here expand_accession_ranges(), get_sequence_information(), preprocess_for_alignment(), write_fasta(), SampleID_vs_NumSequences(), data_sampling(), alignment_info(), compute_average_similarity_matrix(), generate_heatmaps(), clustering_average_similarity(), clustering_percent_similarity(), bubble_plot_count(), bubble_plot_percentage(), tree_average_similarity(), tree_percent_similarity(). Till date there are total 15 functions. More details can be found in Faith (1992) . 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Includes methods for fitting single-species logistic growth, and multi-species interaction models, e.g. of competition, predator/prey relationships, or mutualism. See documentation for individual functions for examples. In general, see the lv_optim() function for examples of how to fit parameter values in multi-species systems. Note that the general methods applied here, as well as the form of the differential equations that we use, are described in detail in the Quantitative Ecology textbook by Lehman et al., available at , and in Lina K. Mühlbauer, Maximilienne Schulze, W. Stanley Harpole, and Adam T. Clark. 'gauseR': Simple methods for fitting Lotka-Volterra models describing Gause's 'Struggle for Existence' in the journal Ecology and Evolution. 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The lack of awareness among users of vegetation indices about this non-Gaussian nature could lead to incorrect statistical modeling and interpretation. This package provides tools to accurately handle and analyse such ratios: density function, parameter estimation, simulation. An example on the study of chlorophyll fluorescence can be found in A. El Ghaziri et al. (2023) and another method for parameter estimation is given in Bouhlel et al. (2023) . 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A suggestion is to start by working with functions SuppressSmallCounts() and SuppressDominantCells(). These functions use primary suppression functions for the minimum frequency rule and the dominance rule, respectively. Novel functionality for suppression of disclosive cells is also included. General primary suppression functions can be supplied as input to the general working horse function, GaussSuppressionFromData(). Suppressed frequencies can be replaced by synthetic decimal numbers as described in Langsrud (2019) . 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(2021) presented the approach based on minimizing the differences in the correlation between the dissimilarity of each trait, or groups of traits, and the multi-trait dissimilarity. This is done using either an analytic or a numerical solution, both available in the function. 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The method is especially useful when there are large differences in data quality, as the thresholds are adjusted accordingly. The same pre-processing procedure can be applied to all participants, while accounting for individual differences in data quality. Package: r-cran-gb2 Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 286 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cubature, r-cran-hypergeo, r-cran-laeken, r-cran-numderiv, r-cran-survey Suggests: r-cran-simframe Filename: pool/dists/focal/main/r-cran-gb2_2.1.1-1.ca2004.1_all.deb Size: 241092 MD5sum: 4e059b743bd068fc24f1fcc4d2f70f33 SHA1: e09f1f9ddd1b72a92c146bfab3b6169c44517ebc SHA256: d6964a80ecf52214dc991f49de69c0f40de0c4eaf4d9bb1b7fc8390edd311891 SHA512: bf9999e391baa848886ddeb963bfd6545a04035fd0aa0fb0df5dfd593aad59826a869a829f7b14a04b5aadab04df1545380830482f1177fa4915d1f7d653dec8 Homepage: https://cran.r-project.org/package=GB2 Description: CRAN Package 'GB2' (Generalized Beta Distribution of the Second Kind: Properties,Likelihood, Estimation) Package GB2 explores the Generalized Beta distribution of the second kind. Density, cumulative distribution function, quantiles and moments of the distributions are given. Functions for the full log-likelihood, the profile log-likelihood and the scores are provided. Formulas for various indicators of inequality and poverty under the GB2 are implemented. The GB2 is fitted by the methods of maximum pseudo-likelihood estimation using the full and profile log-likelihood, and non-linear least squares estimation of the model parameters. Various plots for the visualization and analysis of the results are provided. Variance estimation of the parameters is provided for the method of maximum pseudo-likelihood estimation. A mixture distribution based on the compounding property of the GB2 is presented (denoted as "compound" in the documentation). This mixture distribution is based on the discretization of the distribution of the underlying random scale parameter. The discretization can be left or right tail. Density, cumulative distribution function, moments and quantiles for the mixture distribution are provided. The compound mixture distribution is fitted using the method of maximum pseudo-likelihood estimation. The fit can also incorporate the use of auxiliary information. In this new version of the package, the mixture case is complemented with new functions for variance estimation by linearization and comparative density plots. Package: r-cran-gb2group Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gb2, r-cran-minpack.lm, r-cran-ineq, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-gb2group_0.3.0-1.ca2004.1_all.deb Size: 183116 MD5sum: 49a38474d7244a9ac4aff2ce64bc27ba SHA1: 93fca6e34c5be50d5a760a8d13c82610b477d1cc SHA256: d3b071e424ee294b4130e73c6e5b3763697ad138b3b362d82466b0da6077ec2d SHA512: ddbd8deca96fbd8bd3e941d3a8060f2507df1d36f320348325c370d7b8dbe5314d20d2f3d2d954e36cdc88b3ca80571ab7fd9c8316c1538e88ec26853d787047 Homepage: https://cran.r-project.org/package=GB2group Description: CRAN Package 'GB2group' (Estimation of the Generalised Beta Distribution of the SecondKind from Grouped Data) Estimation of the generalized beta distribution of the second kind (GB2) and related models using grouped data in form of income shares. The GB2 family is a general class of distributions that provides an accurate fit to income data. 'GB2group' includes functions to estimate the GB2, the Singh-Maddala, the Dagum, the Beta 2, the Lognormal and the Fisk distributions. 'GB2group' deploys two different econometric strategies to estimate these parametric distributions, the equally weighted minimum distance (EWMD) estimator and the optimally weighted minimum distance (OMD) estimator. Asymptotic standard errors are reported for the OMD estimates. Standard errors of the EWMD estimates are obtained by Monte Carlo simulation. See Jorda et al. (2018) for a detailed description of the estimation procedure. Package: r-cran-gb5mcpred Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4599 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-devtools, r-cran-tidyverse, r-cran-seqinr, r-bioc-biostrings, r-cran-splitstackshape, r-cran-entropy, r-cran-party, r-cran-stringr, r-cran-tibble, r-cran-doparallel, r-cran-e1071, r-cran-caret, r-cran-randomforest, r-cran-gbm, r-cran-foreach, r-cran-ftrcool, r-cran-iterators Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gb5mcpred_0.1.0-1.ca2004.1_all.deb Size: 2457668 MD5sum: 6a8d36d7424c3ef9a5240c23b2861ec3 SHA1: 6a9c5e1bc6aeb85523c874b7c4a0b68ac0cc772c SHA256: a92f091f07ed08865e79ecb18ff82ab685f2a111da0adde6900f23f103a3e9d5 SHA512: 33e8fe6ac4a5656659b33fc63d2812d7e508a385d3299462e9a251b0485fda6304d2b355b2d93c7309b701a9fc3c4d9930d73f1deeb4ac9dc640c9438de8b1ea Homepage: https://cran.r-project.org/package=GB5mcPred Description: CRAN Package 'GB5mcPred' (Gradient Boosting Algorithm for Predicting Methylation States) DNA methylation of 5-methylcytosine (5mC) is the result of a multi-step, enzyme-dependent process. 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Package: r-cran-gbfs Architecture: all Version: 1.3.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-readr, r-cran-stringr, r-cran-jsonlite, r-cran-lubridate, r-cran-httr, r-cran-purrr, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-gbfs_1.3.10-1.ca2004.1_all.deb Size: 69968 MD5sum: 01727a4cc176d95822a126ddc3448957 SHA1: fca190ab3679af67928db51182fbbfd0d120087c SHA256: 2d7c29aa7da8d52bec8ddd3edf9750b7d3a4242d68d8236135f4b5760f94801f SHA512: 723a2e4415c8dc0faa37769162071fc7d23e28875a8c13703b778325d38cb6820e0bf5cc06df90cf377f651ae827590a7aecf7265208aabdac8182a9f69847d2 Homepage: https://cran.r-project.org/package=gbfs Description: CRAN Package 'gbfs' (Interface with Live Bikeshare Data) Supplies a set of functions to interface with bikeshare data following the General Bikeshare Feed Specification, allowing users to query and accumulate tidy datasets for specified cities/bikeshare programs. Package: r-cran-gbifdb Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 549 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-arrow, r-cran-dplyr, r-cran-duckdbfs Suggests: r-cran-spelling, r-cran-dbplyr, r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-minioclient Filename: pool/dists/focal/main/r-cran-gbifdb_1.0.0-1.ca2004.1_all.deb Size: 288012 MD5sum: fb81667518e310ed7eef14d230a2a67e SHA1: f882b8081a72cce51594ab91765cf3ae05a4bd03 SHA256: 9cfcca6f961f325e15e68b8b28b24486eca0f863a0432f878f85565509696ee8 SHA512: 2c1b471363845cb2480e6a525ac99a344179d0255437c1975e9426c61a3c77385911ad81066237e0938497ebd61c859df777f6f77e941cbdac49e1904781f98d Homepage: https://cran.r-project.org/package=gbifdb Description: CRAN Package 'gbifdb' (High Performance Interface to 'GBIF') A high performance interface to the Global Biodiversity Information Facility, 'GBIF'. In contrast to 'rgbif', which can access small subsets of 'GBIF' data through web-based queries to a central server, 'gbifdb' provides enhanced performance for R users performing large-scale analyses on servers and cloud computing providers, providing full support for arbitrary 'SQL' or 'dplyr' operations on the complete 'GBIF' data tables (now over 1 billion records, and over a terabyte in size). 'gbifdb' accesses a copy of the 'GBIF' data in 'parquet' format, which is already readily available in commercial computing clouds such as the Amazon Open Data portal and the Microsoft Planetary Computer, or can be accessed directly without downloading, or downloaded to any server with suitable bandwidth and storage space. The high-performance techniques for local and remote access are described in and respectively. Package: r-cran-gbm.auto Architecture: all Version: 2024.10.01-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3849 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-beepr, r-cran-dismo, r-cran-dplyr, r-cran-gbm, r-cran-ggmap, r-cran-ggplot2, r-cran-ggspatial, r-cran-lifecycle, r-cran-lubridate, r-cran-mapplots, r-cran-metrics, r-cran-readr, r-cran-sf, r-cran-stars, r-cran-starsextra, r-cran-stringi, r-cran-tidyselect, r-cran-viridis Filename: pool/dists/focal/main/r-cran-gbm.auto_2024.10.01-1.ca2004.1_all.deb Size: 3837116 MD5sum: ff1ba2d93dabb66b3eaa2ad710205929 SHA1: 58d03c914c1903691235fa1aab1722139533e735 SHA256: 80a6c429d6e3ea9e5542b258974238d761dc111fc983ef415052be37c43569b8 SHA512: 9f71ae35d9d8a1b3cfc0fb046086e17ef8ad68a6276c3033104b254b9973cedface1b5d568ae39f69674e9176b3545ea4bf876fe2e72e9225b735be50b02107c Homepage: https://cran.r-project.org/package=gbm.auto Description: CRAN Package 'gbm.auto' (Automated Boosted Regression Tree Modelling and Mapping Suite) Automates delta log-normal boosted regression tree abundance prediction. Loops through parameters provided (LR (learning rate), TC (tree complexity), BF (bag fraction)), chooses best, simplifies, & generates line, dot & bar plots, & outputs these & predictions & a report, makes predicted abundance maps, and Unrepresentativeness surfaces. Package core built around 'gbm' (gradient boosting machine) functions in 'dismo' (Hijmans, Phillips, Leathwick & Jane Elith, 2020 & ongoing), itself built around 'gbm' (Greenwell, Boehmke, Cunningham & Metcalfe, 2020 & ongoing, originally by Ridgeway). Indebted to Elith/Leathwick/Hastie 2008 'Working Guide' ; workflow follows Appendix S3. See for published guides and papers using this package. 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Simulate real and complex numbers from distributions of their magnitude and arguments. Optionally, the magnitudes and/or arguments may be fixed in almost arbitrary ways. Create polynomials from roots given in Cartesian or polar form. Small programming utilities: check if an object is identical to NA, count positional arguments in a call, set intersection of more than two sets, check if an argument is unnamed, compute the graph of S4 classes in packages. 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Details can be found in "Generalised Canonical Correlation Estimation of the Multilevel Factor Model." Lin and Shin (2025) . Package: r-cran-gcd Architecture: all Version: 4.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1430 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster Suggests: r-cran-paleofire Filename: pool/dists/focal/main/r-cran-gcd_4.0.7-1.ca2004.1_all.deb Size: 1417568 MD5sum: 57253d88b8597552a1b574956ac97b57 SHA1: a782fff83f212a65423ce7baf78f311b344f6741 SHA256: 4f324e23b36d1a71886f4b56a6a6759187ebd8a59fc8229a0e5c72e7ba0e6215 SHA512: 2559328a95c81b8353615c0e58de291b24915ea71d6ee514d1d411529821baad923fc0479b8b6198f01aafa84c0ace208b32fdae604e62d4caed19ef2493e102 Homepage: https://cran.r-project.org/package=GCD Description: CRAN Package 'GCD' (Global Charcoal Database) Contains the Global Charcoal database data. 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Carmona R, Gulaya S, Murphy JD, Rose BS, Wu J, Noticewala S,McHale MT, Yashar CM, Vaida F, and Mell LK (2014) . 2. Carmona R, Zakeri K, Green G, Hwang L, Gulaya S, Xu B, Verma R, Williamson CW, Triplett DP, Rose BS, Shen H, Vaida F, Murphy JD, and Mell LK (2016) . 3. Lunn, Mary, and Don McNeil (1995) . 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To facilitate the applications of population-averaged models in CRTs, the package implements the generalized estimating equations (GEE) and matrix-adjusted estimating equations (MAEE) approaches to jointly estimate the marginal mean models correlation models both for general CRTs and stepped wedge CRTs. Despite the general GEE/MAEE approach, the package also implements a fast cluster-period GEE method by Li et al. (2022) specifically for stepped wedge CRTs with large and variable cluster-period sizes and gives a simple and efficient estimating equations approach based on the cluster-period means to estimate the intervention effects as well as correlation parameters. In addition, the package also provides functions for generating correlated binary data with specific mean vector and correlation matrix based on the multivariate probit method in Emrich and Piedmonte (1991) or the conditional linear family method in Qaqish (2003) . 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A reference is Yi Niu and Yingwei Peng (2014) . Package: r-cran-geem Architecture: all Version: 0.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Suggests: r-cran-geepack, r-cran-testthat, r-cran-mumin Filename: pool/dists/focal/main/r-cran-geem_0.10.1-1.ca2004.1_all.deb Size: 81380 MD5sum: 808cf30bd9cfc7870194b5b1aabc0892 SHA1: cb1b0a564993216ab4d60a34603835edccb748a1 SHA256: a57b1bc47e3d3dd8ce1a85fa8e86c3565a56f4153569535b7438bcbe9d5d6566 SHA512: 0704c2c4fb00e9e3c64d5bddaaecf37aca1b0a693d50bea051b74bca30be046975d9c115297b368fbfdba0c95ee5a55af5a23d5c622afb5fcacc036f214dcb2b Homepage: https://cran.r-project.org/package=geeM Description: CRAN Package 'geeM' (Solve Generalized Estimating Equations) GEE estimation of the parameters in mean structures with possible correlation between the outcomes. User-specified mean link and variance functions are allowed, along with observation weighting. The 'M' in the name 'geeM' is meant to emphasize the use of the Matrix package, which allows for an implementation based fully in R. 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The package implements the difference method and provides point and interval estimates as well as testing for the natural direct and indirect effects and the mediation proportion. Nevo, Xiao and Spiegelman (2017) . 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Package: r-cran-geess Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-geess_0.1.2-1.ca2004.1_all.deb Size: 57964 MD5sum: 1c8fe55267d3079a37100d6bf86e0b3d SHA1: 44e0f0472812147152e7715a2bfada17532378ad SHA256: cfe42e7c6206eb7f8de55f6d926c7c960a091695254a631fc83639e9c52694b6 SHA512: ae5bcd1eecee530835ffaba3ca03541e07135c25f5df6e113113f052ba5f57f69db75ea9ebd982bd06cd8c931af229a641f0484e3f805fb2ecc697357d665a7f Homepage: https://cran.r-project.org/package=geess Description: CRAN Package 'geess' (Modified Generalized Estimating Equations for Small-Sample Data) Analyze small-sample clustered or longitudinal data using modified generalized estimating equations with bias-adjusted covariance estimator. The package provides any combination of three modified generalized estimating equations and 11 bias-adjusted covariance estimators. 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The package provides any combination of three GEE methods and 12 covariance estimators. 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All examples from Stefanski & Boos (2002) are published in the corresponding Journal of Statistical Software paper "The Calculus of M-Estimation in R with geex" by Saul & Hudgens (2020) . Also provides an API to compute finite-sample variance corrections. 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All of them adopt Sparse Group Minimax Concave Penalty to identify important G variables and G-E interactions, and simultaneously respect the hierarchy between main G and G-E interaction effects. All the three approaches are available for Linear, Logistic, and Poisson regression. Also realize to mine and construct prior information for G variables and G-E interactions. Package: r-cran-geint Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 304 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mvtnorm, r-cran-bindata, r-cran-nleqslv, r-cran-pracma, r-cran-speedglm, r-cran-rje, r-cran-geepack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-geint_1.0-1.ca2004.1_all.deb Size: 235528 MD5sum: 4144f4d259c5626d23241c32c8b3989c SHA1: cae723d438b9783a94882fcf192992b5574aaddc SHA256: d9008edebf477eedb17347468c8169b83ca2a3129b2658ce2da38385eed09c79 SHA512: 866d8560807c084884e9a31ae8578d1ea0a0f526a529bf2b650ceb9f40077938777925673a90046c4c1d9bd981fefe2ea45bba9458a5fc072776f07f186e6f33 Homepage: https://cran.r-project.org/package=GEint Description: CRAN Package 'GEint' (Misspecified Models for Gene-Environment Interaction) The first major functionality is to compute the bias in misspecified linear gene-environment interaction models. The most generalized function for this objective is GE_bias(). However GE_bias() requires specification of many higher order moments of covariates in the model. If users are unsure about how to calculate/estimate these higher order moments, it may be easier to use GE_bias_normal_squaredmis(). This function places many more assumptions on the covariates (most notably that they are all jointly generated from a multivariate normal distribution) and is thus able to automatically calculate many of the higher order moments automatically, necessitating only that the user specify some covariances. There are also functions to solve for the bias through simulation and non-linear equation solvers, these can be used to check your work. Second major functionality is to implement the Bootstrap Inference with Correct Sandwich (BICS) testing procedure, which we have found to provide better finite-sample performance than other inference procedures for testing GxE interaction. More details on these functions are available in Sun, Carroll, Christiani, and Lin (2018) . Package: r-cran-geinter Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3122 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-pcapp, r-cran-hmisc, r-cran-survival, r-cran-quantreg, r-cran-reshape2, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-geinter_0.3.2-1.ca2004.1_all.deb Size: 3119864 MD5sum: e621c69bfe12d821539d807e79e24253 SHA1: eeb3e9fa28551f800308f4d67c502509033f59d3 SHA256: b3c35a3faaa782e8c9052b49ebbf0b2964b868a7242024d59aa817a01d8ceed2 SHA512: 2f425e9676f93850e350fa3890dd3eda54db42d0600cd952f5c714e1375791cd6cb609fadab5f3b075fdc7cb2353cb8cad09a1a2922ec92c7c3af36c0230fc94 Homepage: https://cran.r-project.org/package=GEInter Description: CRAN Package 'GEInter' (Robust Gene-Environment Interaction Analysis) Description: For the risk, progression, and response to treatment of many complex diseases, it has been increasingly recognized that gene-environment interactions play important roles beyond the main genetic and environmental effects. In practical interaction analyses, outliers in response variables and covariates are not uncommon. In addition, missingness in environmental factors is routinely encountered in epidemiological studies. The developed package consists of five robust approaches to address the outliers problems, among which two approaches can also accommodate missingness in environmental factors. Both continuous and right censored responses are considered. The proposed approaches are based on penalization and sparse boosting techniques for identifying important interactions, which are realized using efficient algorithms. Beyond the gene-environment analysis, the developed package can also be adopted to conduct analysis on interactions between other types of low-dimensional and high-dimensional data. (Mengyun Wu et al (2017), ; Mengyun Wu et al (2017), ; Yaqing Xu et al (2018), ; Yaqing Xu et al (2019), ; Mengyun Wu et al (2021), ). Package: r-cran-gellipsoid Architecture: all Version: 0.7.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 310 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rgl Filename: pool/dists/focal/main/r-cran-gellipsoid_0.7.3-1.ca2004.1_all.deb Size: 278064 MD5sum: 90be6a0e241f6df7c783cee82e310cea SHA1: 5081bea790a73f7393b9a6f3fa84e8b35957df6b SHA256: e2192aea840a983e110436d1e43729b619dad9e7485a4bf104a8042c695c11b9 SHA512: 834db39a449309b5bd7f528856bc9b7e5e4e182c14b5b3e6b9e14316c31205c8eb799aab5407805bcc96b055b2d0ec89ad6e245cdb6ab231d81776731b68f105 Homepage: https://cran.r-project.org/package=gellipsoid Description: CRAN Package 'gellipsoid' (Generalized Ellipsoids) Represents generalized geometric ellipsoids with the "(U,D)" representation. It allows degenerate and/or unbounded ellipsoids, together with methods for linear and duality transformations, and for plotting. 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The Gem infrasound logger is a low-cost, lightweight, low-power instrument for recording infrasound in field campaigns; email the maintainer for more information. 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Of particular interest is the estimation of variance components with restricted maximum likelihood (REML) methods. Genome-wide efficient mixed-model association (GEMMA), as implemented in the package 'gemma2', uses an expectation-maximization algorithm for variance components inference for use in quantitative trait locus studies. 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Also includes extracted secondary example datasets for practice and learning purposes, which were obtained from the UNDP Human Development Reports Data Center and the World Bank Gender Data Portal by the author the dataset is available on . References: Miller, Kevin; Vagins, Deborah J. (2021) . Jacques Charmes & Saskia Wieringa (2003) . Gaëlle Ferrant (2010) . 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Package: r-cran-geneclusternet Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-g1dbn, r-cran-igraph Filename: pool/dists/focal/main/r-cran-geneclusternet_1.0.1-1.ca2004.1_all.deb Size: 88680 MD5sum: 059118d51ecd09c062a9f61175541a0c SHA1: 52fcece359df053d35fcf2571d528375c29c909b SHA256: 0f3950be264b9afec7e92cd2272532170eccdfbf0312594fcd2128cbc92e6628 SHA512: 44c08aec0b8584b8837b83e8b110b70c08e4d29d33ced87238b88a6982fe7e62a05497ad8cbb031b6ba3de9fecb321b9f84013db440e44246f28bd965118b7ae Homepage: https://cran.r-project.org/package=GeneClusterNet Description: CRAN Package 'GeneClusterNet' (Gene Expression Clustering and Gene Network) Functions for clustering time-course gene expression and reconstructing of gene regulatory network based on Dynamic Bayesian Network. 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Package: r-cran-geneexpressionfromgeo Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xml2, r-bioc-biobase, r-bioc-annotate, r-bioc-geoquery, r-cran-qpdf Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-geneexpressionfromgeo_1.2-1.ca2004.1_all.deb Size: 25400 MD5sum: e191caf921cef4693fc068137db2c49b SHA1: d13694baa1831aa010736b53a19e46f1b63f6e80 SHA256: 04d389015f691766f936b4c02c02280a18d8f34a765f47ba7497eb1d20ee3e2d SHA512: a34da6655542e31f7520daf32812aaafd1cb9af8eab05b5065fba2a7f84978d0fc22885243cbd226fed3d48c81d8a35d33593f995e023083a35f736290eb6a0e Homepage: https://cran.r-project.org/package=geneExpressionFromGEO Description: CRAN Package 'geneExpressionFromGEO' (Easily Downloads a Gene Expression Dataset from a GEO Code andRetrieves the Gene Symbols of Its Probesets) A function that reads in the GEO code of a gene expression dataset, retrieves its data from GEO, (optionally) retrieves the gene symbols of the dataset, and returns a simple dataframe table containing all the data. Platforms available: GPL11532, GPL23126, GPL6244, GPL8300, GPL80, GPL96, GPL570, GPL571, GPL20115, GPL1293, GPL6102, GPL6104, GPL6883, GPL6884, GPL13497, GPL14550, GPL17077, GPL6480. GEO: Gene Expression Omnibus. ID: identifier code. The GEO datasets are downloaded from the URL . More information can be found in the following manuscript: Davide Chicco, "geneExpressionFromGEO: an R package to facilitate data reading from Gene Expression Omnibus (GEO)". Microarray Data Analysis, Methods in Molecular Biology, volume 2401, chapter 12, pages 187-194, Springer Protocols, 2021, . Package: r-cran-genef Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-genef_1.0.1-1.ca2004.1_all.deb Size: 33820 MD5sum: 57c022f546c16ded352937e00aacc839 SHA1: b8a5884f9636880e2adcc69495d89c433648992e SHA256: 9dc9925d6a6678563a61aef0bd287dcd01a68d839701edef9a3b61fe6a610a2b SHA512: b8f0c0a4fc3990068ca0750a731c5f45172ed64a52b49830874872c8ba2b48b389a71c02f0d72313a36a182cb7a4f4f848154439a4d19ac74928e53eeabf67b8 Homepage: https://cran.r-project.org/package=GeneF Description: CRAN Package 'GeneF' (Package for Generalized F-Statistics) Implementation of several generalized F-statistics. The current version includes a generalized F-statistic based on the flexible isotonic/monotonic regression or order restricted hypothesis testing. Based on: Y. Lai (2011) . 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Package: r-cran-genehummus Architecture: all Version: 1.0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rentrez, r-cran-stringr, r-cran-dplyr, r-cran-httr, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-genehummus_1.0.11-1.ca2004.1_all.deb Size: 94168 MD5sum: b54c38fa23e68aa8a4dd5757467bb632 SHA1: 1919755eec6ac013e5115fb0b41b8bd943b9aa51 SHA256: f23658ce65a9eeabcf9054676dcd92c064b075f734d99d070f6f60b4a02bed9c SHA512: 0366b68514ed472e8470d434b896372e60edf668d71720e18e515b238f5d8ec004bae25c04b0e173e29af846309766bad956944d2f764d4faf0d66514973be23 Homepage: https://cran.r-project.org/package=geneHummus Description: CRAN Package 'geneHummus' (A Pipeline to Define Gene Families in Legumes and Beyond) A pipeline with high specificity and sensitivity in extracting proteins from the RefSeq database (National Center for Biotechnology Information). Manual identification of gene families is highly time-consuming and laborious, requiring an iterative process of manual and computational analysis to identify members of a given family. The pipelines implements an automatic approach for the identification of gene families based on the conserved domains that specifically define that family. See Die et al. (2018) for more information and examples. Package: r-cran-genekitr Architecture: all Version: 1.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2850 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-clusterprofiler, r-cran-dplyr, r-cran-europepmc, r-cran-fst, r-cran-geneset, r-cran-ggplot2, r-cran-ggraph, r-cran-ggvenn, r-cran-igraph, r-cran-magrittr, r-cran-openxlsx, r-cran-stringr, r-cran-stringi, r-cran-tidyr, r-cran-rlang Suggests: r-bioc-annotationdbi, r-cran-cowplot, r-cran-complexupset, r-cran-forcats, r-bioc-fgsea, r-cran-futile.logger, r-cran-ggplotify, r-cran-ggsci, r-cran-ggrepel, r-cran-ggridges, r-cran-ggnewscale, r-cran-goplot, r-bioc-gosemsim, r-cran-labeling, r-cran-pheatmap, r-cran-tm, r-cran-treemap, r-cran-rcolorbrewer, r-cran-rcurl, r-cran-reshape2, r-cran-rio, r-bioc-rrvgo, r-cran-testthat, r-cran-wordcloud, r-cran-knitr, r-cran-rmarkdown, r-cran-xml, r-cran-xml2, r-cran-httr Filename: pool/dists/focal/main/r-cran-genekitr_1.2.8-1.ca2004.1_all.deb Size: 2834248 MD5sum: d10252e68cfe3edc964f45e974b53050 SHA1: 2b61522fe3af54ddae619186890c5191997f18ec SHA256: 54adebf9e0a96a53718df477cacb3b3ccfb614b9a1a3f79e4295fc8c5d293127 SHA512: c6f939a60ec286db2c80ac266c4ab01dd93dc24987eee9f4ea56b17827ee5f62eccf9cecee92c8e71a83d9a77b6dbca2dff571370a2eecea12e149bab77c8817 Homepage: https://cran.r-project.org/package=genekitr Description: CRAN Package 'genekitr' (Gene Analysis Toolkit) Provides features for searching, converting, analyzing, plotting, and exporting data effortlessly by inputting feature IDs. Enables easy retrieval of feature information, conversion of ID types, gene enrichment analysis, publication-level figures, group interaction plotting, and result export in one Excel file for seamless sharing and communication. Package: r-cran-genelistpie Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 865 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-plotrix Filename: pool/dists/focal/main/r-cran-genelistpie_1.0-1.ca2004.1_all.deb Size: 849064 MD5sum: 580cb9d6fe26c270bc93e23fc34dd952 SHA1: 9a8a51c2baa75bc1f27ceec06a14355a2de45391 SHA256: 5fa73fabb6506ffc4d118f394ba99727766e7a384bde11b50302db557d83cf1a SHA512: 6a4ab0d71b50f16c3f10e5e162281c017e2fcb54af92657f223609c385052d620b26f2ab8c0e216736af83a90477c10cd0ab9783d4a9beb972c4ad299b1c2445 Homepage: https://cran.r-project.org/package=geneListPie Description: CRAN Package 'geneListPie' (Profiling a gene list into GOslim or KEGG function pie) "geneListPie" package is for mapping a gene list to function categories defined in GOSlim or Kegg. The results can be plotted as a pie chart to provide a quick view of the genes distribution of the gene list among the function categories. The gene list must contain a list of gene symbols. The package contains a set of pre-processed gene sets obtained from Gene Ontology and MSigDB including human, mouse, rat and yeast. To provide a high level concise view, only GO slim and kegg are provided. The gene sets are regulared updated. User can also use customized gene sets. User can use the R Pie() or Pie3D() function for plotting the pie chart. Users can also choose to output the gene function mapping results and use external software such as Excel(R) for ploting. Package: r-cran-genemodel Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 223 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-genemodel_1.1.0-1.ca2004.1_all.deb Size: 119876 MD5sum: fdd0a67847ddae07a33d5ec7701a233d SHA1: fd699a2aaf32af849fef69fca043059ef9af53df SHA256: a0d0afddac5e7adf79dbea7c7436b05d42c75716c2f373fc0fc10731039aacb9 SHA512: ba18d12a364cefc883c2073c3b4a09e2ac17d94b2dd27a93d769d2d4f07a84db564df341b8f8fdcde1e445a5150bd0a895f5853ebf8263f9db4216c2246afe73 Homepage: https://cran.r-project.org/package=genemodel Description: CRAN Package 'genemodel' (Gene Model Plotting in R) Using simple input, this package creates plots of gene models. Users can create plots of alternatively spliced gene variants and the positions of mutations and other gene features. 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In particular, GeneNet implements the methods of Schaefer and Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007) for learning large-scale gene association networks (including assignment of putative directions). Package: r-cran-genenmf Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 911 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcppml, r-cran-matrix, r-cran-seurat, r-cran-cluster, r-cran-lsa, r-cran-irlba, r-cran-pheatmap, r-cran-dendextend, r-cran-viridis Suggests: r-cran-knitr, r-cran-rmarkdown, r-bioc-fgsea, r-cran-msigdbr Filename: pool/dists/focal/main/r-cran-genenmf_0.8.0-1.ca2004.1_all.deb Size: 873476 MD5sum: 45feeba62aecf373928ff90e9580f921 SHA1: 98d3021dbdd039a883ee9bdb41c0185d5747c647 SHA256: 52fd8cabde3a0e30880c373454a3d0a6349cd568a7fa54ac2c90e860456111c6 SHA512: d6003eb6724827869fee6ed5501c32fb52d1111d575263ab93370b62428e3b452ff7e02752a5f964d9ec6cafefb92421678952adab31b197cf44e06672df12c2 Homepage: https://cran.r-project.org/package=GeneNMF Description: CRAN Package 'GeneNMF' (Non-Negative Matrix Factorization for Single-Cell Omics) A collection of methods to extract gene programs from single-cell gene expression data using non-negative matrix factorization (NMF). 'GeneNMF' contains functions to directly interact with the 'Seurat' toolkit and derive interpretable gene program signatures. Package: r-cran-genenr Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 417 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readr, r-cran-stringr, r-cran-httr, r-cran-rvest, r-cran-xml2, r-cran-writexl, r-cran-vcfr, r-cran-ggplot2, r-cran-ggrepel Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-genenr_2.0.1-1.ca2004.1_all.deb Size: 111400 MD5sum: 4580c686fd2ce5c98928f590ff20e1f2 SHA1: e474f03daeeeabec93c7cb9699a403722cafdc1c SHA256: cd54ef537be8d19957aad8c93a9db84a9b8aae1f2e8176a2583780ef1ee347aa SHA512: f73551f332cfe1f7473b39719cc940b30ab094e3df62173bec9b274527266ca41b8a544242513786964bc239039715b399d6af1c5a82ef023b2868ccda4f1b14 Homepage: https://cran.r-project.org/package=geneNR Description: CRAN Package 'geneNR' (Automated Gene Identification for Post-GWAS and QTL Analysis) Facilitates the post-Genome Wide Association Studies (GWAS) and Quantitative Trait Loci (QTL) analysis of identifying candidate genes within user-defined search window, based on the identified Single Nucleotide Polymorphisms (SNPs) as given by Mazumder AK (2024) . It supports candidate gene analysis for wheat and rice. Just import your GWAS result as explained in the sample_data file and the function does all the manual search and retrieve candidate genes for you, while exporting the results into ready-to-use output. Package: r-cran-generalcorr Architecture: all Version: 1.2.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3026 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-np, r-cran-xtable, r-cran-meboot, r-cran-psych, r-cran-lattice Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-generalcorr_1.2.6-1.ca2004.1_all.deb Size: 2647036 MD5sum: d2a5b67467754e57ff67b3313811c713 SHA1: 006356519d11185087781af2365d060297ccfba4 SHA256: 4c6339bd00d16b7fe31e9ec0b0d2080bfabe23f78a7d2144be1af3df8f8dfa09 SHA512: 464e236cfcdf2ad38982b9dcb9d06e62e8c504acafbbf81d1a565aecf7a5e00bd452a235ef024f68b041608b1c6f35b10b1f56bbdaef27679e30591d7504069f Homepage: https://cran.r-project.org/package=generalCorr Description: CRAN Package 'generalCorr' (Generalized Correlations, Causal Paths and Portfolio Selection) Function gmcmtx0() computes a more reliable (general) correlation matrix. Since causal paths from data are important for all sciences, the package provides many sophisticated functions. causeSummBlk() and causeSum2Blk() give easy-to-interpret causal paths. Let Z denote control variables and compare two flipped kernel regressions: X=f(Y, Z)+e1 and Y=g(X, Z)+e2. Our criterion Cr1 says that if |e1*Y|>|e2*X| then variation in X is more "exogenous or independent" than in Y, and the causal path is X to Y. Criterion Cr2 requires |e2|<|e1|. These inequalities between many absolute values are quantified by four orders of stochastic dominance. Our third criterion Cr3, for the causal path X to Y, requires new generalized partial correlations to satisfy |r*(x|y,z)|< |r*(y|x,z)|. The function parcorVec() reports generalized partials between the first variable and all others. The package provides several R functions including get0outliers() for outlier detection, bigfp() for numerical integration by the trapezoidal rule, stochdom2() for stochastic dominance, pillar3D() for 3D charts, canonRho() for generalized canonical correlations, depMeas() measures nonlinear dependence, and causeSummary(mtx) reports summary of causal paths among matrix columns. Portfolio selection: decileVote(), momentVote(), dif4mtx(), exactSdMtx() can rank several stocks. Functions whose names begin with 'boot' provide bootstrap statistical inference, including a new bootGcRsq() test for "Granger-causality" allowing nonlinear relations. A new tool for evaluation of out-of-sample portfolio performance is outOFsamp(). Panel data implementation is now included. See eight vignettes of the package for theory, examples, and usage tips. See Vinod (2019) \doi{10.1080/03610918.2015.1122048}. Package: r-cran-generalhoslem Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape, r-cran-mass Suggests: r-cran-nnet, r-cran-mlogit, r-cran-ordinal Filename: pool/dists/focal/main/r-cran-generalhoslem_1.3.4-1.ca2004.1_all.deb Size: 53844 MD5sum: 69eda30a5b26d3205b2ceab03086fcc6 SHA1: 7aa8543208aa51038617cf3d3893b9be59436295 SHA256: 28a49d2fdc5b7874349d4e85cea8a1d16d73523bea8f142973848602a52a6dfe SHA512: 3ac2fd94a57b6cd0c555ec00f56521682cbbcf93c7fae4c3e32ff144356a346ffbf65e3c32d4d6c4f7b1b9847245d54dc77d29eb6e66b69c2bf27fa992656d07 Homepage: https://cran.r-project.org/package=generalhoslem Description: CRAN Package 'generalhoslem' (Goodness of Fit Tests for Logistic Regression Models) Functions to assess the goodness of fit of binary, multinomial and ordinal logistic models. Included are the Hosmer-Lemeshow tests (binary, multinomial and ordinal) and the Lipsitz and Pulkstenis-Robinson tests (ordinal). 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The mathematical methods implemented are described by Kim et al. (2018) . 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Package: r-cran-geneset Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 396 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-rcurl, r-cran-fst, r-cran-stringi, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-geneset_0.2.7-1.ca2004.1_all.deb Size: 367300 MD5sum: b1b776ebcbc8485a3572c98d2faec2cd SHA1: 91f4224fccee88ee6331511d31ccb8b86711d521 SHA256: a5fafef3a9056968d36e7a6d7842c0fc3dcc746091624775d02570028ea598ab SHA512: c43abcabc9f8b66f7952df62948e5b44328086e5bd0d4e7b65e53f31b8bb1c7687ef0c2d6254b153c93124c5faff4ba31503df8e55a3ef4b256a56620778b833 Homepage: https://cran.r-project.org/package=geneset Description: CRAN Package 'geneset' (Get Gene Sets for Gene Enrichment Analysis) Gene sets are fundamental for gene enrichment analysis. The package 'geneset' enables querying gene sets from public databases including 'GO' (Gene Ontology Consortium. (2004) ), 'KEGG' (Minoru et al. (2000) ), 'WikiPathway' (Marvin et al. (2020) ), 'MsigDb' (Arthur et al. (2015) ), 'Reactome' (David et al. (2011) ), 'MeSH' (Ish et al. (2014) ), 'DisGeNET' (Janet et al. (2017) ), 'Disease Ontology' (Lynn et al. (2011) ), 'Network of Cancer Genes' (Dimitra et al. (2019) ) and 'COVID-19' (Maxim et al. (2020) ). Gene sets are stored in the list object which provides data frame of 'geneset' and 'geneset_name'. The 'geneset' has two columns of term ID and gene ID. The 'geneset_name' has two columns of terms ID and term description. 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It estimates the effects of each variable while fully adjusting for all other variables that are measured in at least one of the studies. Using algebraic relationships between regression parameters in different dimensions, a set of moment equations is specified for estimating the parameters of a maximal model through information available on sets of parameter estimates from a series of reduced models available from the different studies. The specification of the equations requires a reference dataset to estimate the joint distribution of the covariates. These equations are solved using the generalized method of moments approach, with the optimal weighting of the equations taking into account uncertainty associated with estimates of the parameters of the reduced models. The proposed framework is implemented using iterated reweighted least squares algorithm for fitting generalized linear regression models. For more details about the method, please see pre-print version of the manuscript on generalized meta-analysis by Prosenjit Kundu, Runlong Tang and Nilanjan Chatterjee (2018) .The current version (0.2.0) is updated to address some of the stability issues in the previous version (0.1). Package: r-cran-geno2proteo Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2045 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-bioc-s4vectors, r-bioc-biocgenerics, r-bioc-genomicranges, r-bioc-iranges, r-cran-r.utils, r-cran-runit Filename: pool/dists/focal/main/r-cran-geno2proteo_0.0.6-1.ca2004.1_all.deb Size: 1994384 MD5sum: 907571c2d6b1a2e682ec95925816b451 SHA1: b808f2e5fe5ee51e4ee96da89b621640129c71c4 SHA256: 2b60df4c9882913324b1c776af33d2f32d79c43522f70882b45a9264c21c0002 SHA512: 8d03dcd92ba35bbaeb76eb19cbd48b43c14366bd821eee21fde60c9c661c73c83cbd23a2934c248acae5c77473eb9fb4a336b82e6782f15a2734163ec3ae494e Homepage: https://cran.r-project.org/package=geno2proteo Description: CRAN Package 'geno2proteo' (Finding the DNA and Protein Sequences of Any Genomic orProteomic Loci) Using the DNA sequence and gene annotation files provided in 'ENSEMBL' , the functions implemented in the package try to find the DNA sequences and protein sequences of any given genomic loci, and to find the genomic coordinates and protein sequences of any given protein locations, which are the frequent tasks in the analysis of genomic and proteomic data. Package: r-cran-genogeographer Architecture: all Version: 0.1.19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-leaflet, r-cran-shiny, r-cran-shinyjs, r-cran-knitr, r-cran-dt, r-cran-shinycssloaders, r-cran-purrr, r-cran-dplyr, r-cran-magrittr, r-cran-tidyr, r-cran-ggplot2, r-cran-tibble, r-cran-forcats, r-cran-readr, r-cran-rmarkdown, r-cran-rio, r-cran-maps, r-cran-shinywidgets, r-cran-rlang Suggests: r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-genogeographer_0.1.19-1.ca2004.1_all.deb Size: 170076 MD5sum: 31a319fb960e57b846911f489eb1fcea SHA1: d99faa49d94bb8493c4abeedced9709553f181f8 SHA256: e421c2ad91dc9a55170becc124d9837bc3bc6a06858aceed24c5ff13b2ac531a SHA512: a75e024f410cf462117c4ee54b6082dc898e58a0e6b82f23850d43344d49cf9b20372450ccbb081b0015dc59c116a7ac7e6d2bdff3b9c320689952c706b14877 Homepage: https://cran.r-project.org/package=genogeographer Description: CRAN Package 'genogeographer' (Methods for Analysing Forensic Ancestry Informative Markers) Evaluates likelihood ratio tests for alleged ancestry. Implements the methods of Tvedebrink et al (2018) . Package: r-cran-genomeadapt Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-qvalue, r-cran-robust, r-bioc-snprelate, r-bioc-gdsfmt Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-genomeadapt_1.0.0-1.ca2004.1_all.deb Size: 122500 MD5sum: 8e755bb013cf1d8fed947cceb6e68683 SHA1: 76164f6fca7e69196754bb49bbaaf150d359c964 SHA256: e5065158223d8027818c60085ff8020c011e18de0cab6c7f6b11e0fb72829dd3 SHA512: 897ea7e0bf54681a72eb1071322cf0d11ce1aba253a57b402e28d13f24874963072c6245d2ffc97b0b2ed0621489b7a0d0ea5bb81b485ae923b41efa227344ef Homepage: https://cran.r-project.org/package=GenomeAdapt Description: CRAN Package 'GenomeAdapt' (Detecting Signatures of Local Adaptation Based on AncestryTrajectories) Portable, scalable and highly computationally efficient tool for detecting signatures of local adaptation based on multidimensional ancestry map ( _n_ X _n_ ancestry genetic trajectories, _n_ is the number of individuals). If n samples are included in the analysis, there will be n dimensional spaces that represent the common ancestry maps based on the identity-by-descent (IBD). The package calculates the correlations of loci with the common ancestry genetic maps adopting the Genomic Data Structure (GDS, Zheng et al., 2012) and suitable for millions of SNP data. Loci sharing a greater level of most recent common ancestor (MRCA) (large Z-scores) indicates a large number of individuals descend from recent common ancestors, which signals the rapid increase in frequency of a beneficial allele due to recent positive selection. The rationale underlying this package is somewhat analogous to KLFDAPT (Qin, 2021) (). It combines the concept of IBD-based genome scan (Albrechtsen et al., 2010) , iHS (Voight, 2006) , and eigenanalysis of SNP data with an identity by descent interpretation (Zheng & Weir, 2016) . It can also be interpreted as spatial varying selection as ancestry genetic maps reflect geographic origins. Besides the detection of local adaptation, this package also estimates the population admixtures and plots its geographic genetic structure. Package: r-cran-genomeplot Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 425 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-genomeplot_1.0-1.ca2004.1_all.deb Size: 401112 MD5sum: 35ec6116c56466a9c8d6edefb8afce7f SHA1: a9202735e448196680c853e1acd779c654f50254 SHA256: 58a103967b6b568d7ddb3118b4d699bd641f3c3f072110fdd1ab7dc1352e1967 SHA512: f6e950bbf955cee6d7e24dd0f48ba63630801a45faf1cddc42d7c29e61732ba718ab5a4e31a54083a9a32b29a02389ae3c64efd3fee99d19d5a37416e172f546 Homepage: https://cran.r-project.org/package=genomeplot Description: CRAN Package 'genomeplot' ('Plot genome wide values for all chromosomes') Plot values of markers(SNPs, expression, genes, RNA,...) for all chromosomes. Package: r-cran-genomic.autocorr Architecture: all Version: 1.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-magrittr, r-cran-reshape Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-genomic.autocorr_1.0-1-1.ca2004.1_all.deb Size: 24104 MD5sum: af76fbaf7513d8af38dae8d6ff736001 SHA1: 502eeded4ab8719beafc23cfdefa181d29e3132a SHA256: 98228d9e1d18e3f84d8cf60330e7bfb3db5df98ac9b74d9ffc6e1e9d62996037 SHA512: 781e5d97e2d2758c5d4243a2a0e179bd9e57b450a59c62c0b81ee57043b58e48e2d07a7e510b04908c6dabee8070cf14e2b6beb5d7a6ce2f4ad229c2b7c68fc7 Homepage: https://cran.r-project.org/package=genomic.autocorr Description: CRAN Package 'genomic.autocorr' (Models Dealing with Spatial Dependency in Genomic Data) Local structure in genomic data often induces dependence between observations taken at different genomic locations. Ignoring this dependence leads to underestimation of the standard error of parameter estimates. This package uses block bootstrapping to estimate asymptotically correct standard errors of parameters from any standard generalised linear model that may be fit by the glm() function. Package: r-cran-genomicper Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dbi, r-bioc-reactome.db, r-bioc-annotationdbi Filename: pool/dists/focal/main/r-cran-genomicper_1.7-1.ca2004.1_all.deb Size: 176592 MD5sum: 7a432a24a8f4ed37937025669d424d21 SHA1: f24ea71d7ba42a698e8b6f7578d616f86aefe1ac SHA256: cdbddde71f1ce9377c1313508183e3308ccb9846cc291bb0e42662ea3089faae SHA512: fc36f9b851027bb084bd267ed4b4143b81818b8fe305ff934598c794081687bae8b275c1f7b9ab7f6cf57695d6b383323fe50853e8fa1624bcfb971f80586205 Homepage: https://cran.r-project.org/package=genomicper Description: CRAN Package 'genomicper' (Circular Genomic Permutation using Genome Wide Associationp-Values) Circular genomic permutation approach uses genome wide association studies (GWAS) results to establish the significance of pathway/gene-set associations whilst accounting for genomic structure(Cabrera et al (2012) ). All single nucleotide polymorphisms (SNPs) in the GWAS are placed in a 'circular genome' according to their location. Then the complete set of SNP association p-values are permuted by rotation with respect to the SNPs' genomic locations. Two testing frameworks are available: permutations at the gene level, and permutations at the SNP level. The permutation at the gene level uses Fisher's combination test to calculate a single gene p-value, followed by the hypergeometric test. The SNP count methodology maps each SNP to pathways/gene-sets and calculates the proportion of SNPs for the real and the permutated datasets above a pre-defined threshold. Genomicper requires a matrix of GWAS association p-values and SNPs annotation to genes. Pathways can be obtained from within the package or can be provided by the user. Package: r-cran-genomicsig Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-kaos, r-bioc-biostrings, r-cran-entropy, r-cran-seqinr Filename: pool/dists/focal/main/r-cran-genomicsig_0.1.0-1.ca2004.1_all.deb Size: 48300 MD5sum: d6de6e86c6054d8d61380b16faef8899 SHA1: 1041c177c001b43300fa1215f455a36e8f75a94a SHA256: 0f31577425be3363dbe362836bb0a4776262f5389f7bb1bd4ab11a15ef070cbb SHA512: e218c733f41d32818a7badf66354be9dbacc3cda2670e5af9235bb0c49fbd8e0476f819964adfd9ef4822de2f2c7c900cbbaa99d7f955f23c47580604a5c390d Homepage: https://cran.r-project.org/package=GenomicSig Description: CRAN Package 'GenomicSig' (Computation of Genomic Signatures) Genomic signatures represent unique features within a species' DNA, enabling the differentiation of species and offering broad applications across various fields. This package provides essential tools for calculating these specific signatures, streamlining the process for researchers and offering a comprehensive and time-saving solution for genomic analysis.The amino acid contents are identified based on the work published by Sandberg et al. (2003) and Xiao et al. (2015) . The Average Mutual Information Profiles (AMIP) values are calculated based on the work of Bauer et al. (2008) . The Chaos Game Representation (CGR) plot visualization was done based on the work of Deschavanne et al. (1999) and Jeffrey et al. (1990) . The GC content is calculated based on the work published by Nakabachi et al. (2006) and Barbu et al. (1956) . The Oligonucleotide Frequency Derived Error Gradient (OFDEG) values are computed based on the work published by Saeed et al. (2009) . The Relative Synonymous Codon Usage (RSCU) values are calculated based on the work published by Elek (2018) . 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Package: r-cran-genoplotr Architecture: all Version: 0.8.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1231 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ade4 Filename: pool/dists/focal/main/r-cran-genoplotr_0.8.11-1.ca2004.1_all.deb Size: 875308 MD5sum: 0f4e02d28c06bd1b1b553d04cd931c7e SHA1: ac08608d22f0db5f62cd499f3b17817e95179c4e SHA256: 8579f5ff2682d28055bd6d30c630f6f6dc761d7769030e4923451484a278f9d1 SHA512: 2224161504c1c0b9a19f40bddfc8807a206638b2b5c6d5f77bff67c7fd9259ad14f03bf95465b725c17af58e7049854df4678a3a3eb916db054d2758773aafc0 Homepage: https://cran.r-project.org/package=genoPlotR Description: CRAN Package 'genoPlotR' (Plot Publication-Grade Gene and Genome Maps) Draws gene or genome maps and comparisons between these, in a publication-grade manner. Starting from simple, common files, it will draw postscript or PDF files that can be sent as such to journals. Package: r-cran-genopop Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 193 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-rsamtools, r-bioc-genomicranges, r-cran-foreach, r-cran-doparallel, r-cran-missforest, r-bioc-iranges Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-genopop_1.0.0-1.ca2004.1_all.deb Size: 134068 MD5sum: 4854fb66c245e4a19602297f3784a017 SHA1: 266e234ea3cb92482ef6da6bc6a0540c5d90daf0 SHA256: 8772bb1a1f324f63e529b3c6f364cbfd139febb38085e2b7edc814db19f9892e SHA512: 936f300722d92086e668f75944b8f16df3b5855ebd828b444aa26190359a241b555e919fd807593d0a0db25dbc69cd4fd5600ffb67532d2e4d902b29650a567e Homepage: https://cran.r-project.org/package=GenoPop Description: CRAN Package 'GenoPop' (Genotype Imputation and Population Genomics Efficiently fromVariant Call Formatted (VCF) Files) Tools for efficient processing of large, whole genome genotype data sets in variant call format (VCF). It includes several functions to calculate commonly used population genomic metrics and a method for reference panel free genotype imputation, which is described in the preprint Gurke & Mayer (2024) . 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Package: r-cran-genoscan Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-skat, r-cran-matrix, r-cran-mass, r-cran-seqminer, r-cran-data.table Filename: pool/dists/focal/main/r-cran-genoscan_0.1-1.ca2004.1_all.deb Size: 108424 MD5sum: da1e5cb2359021fd130a85508145c920 SHA1: 026a0b7d85ae9909d905f5604e62ba6bca017166 SHA256: 1251888b8ad11c523fe2213dfcde8a6c7a28ba4a2ef1328a481cfa8011364bc5 SHA512: 9749ca894d7ddcfc0c41bf0fc4ac6efd6da668fd2d6b3e24da7ab7035cc730db79cd23158959f40492021eab4506b9d79093a666ef066e9823a5295609a30ddd Homepage: https://cran.r-project.org/package=GenoScan Description: CRAN Package 'GenoScan' (A Genome-Wide Scan Statistic Framework for Whole-Genome SequenceData Analysis) Functions for whole-genome sequencing studies, including genome-wide scan, candidate region scan and single window test. Package: r-cran-genotriplo Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 392 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shinybs, r-cran-cowplot, r-cran-doparallel, r-cran-dplyr, r-cran-dt, r-cran-foreach, r-cran-ggplot2, r-cran-htmltools, r-cran-processx, r-cran-rlang, r-cran-rmixmod, r-cran-shiny, r-cran-shinythemes, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-genotriplo_1.1.3-1.ca2004.1_all.deb Size: 352108 MD5sum: a32c723db43b37cbdd5107dfbb560c79 SHA1: cb74be783f6bc05985dc99678381c5c973fa5e85 SHA256: 553493d3ddbc5c3ab6103dd2ed3130b89958d959c68c405b107bbd09a1c35338 SHA512: c0235de6b621703a4f54da76f6c51489b6583df302a6958370e4610521faaf78b30b932b7e7c11923f5cb2a534b6b3636de6381c8997e3339a74458df69d71bb Homepage: https://cran.r-project.org/package=GenoTriplo Description: CRAN Package 'GenoTriplo' (Genotyping Triploids (or Diploids) from Luminescence Data) Genotyping of triploid individuals from luminescence data (marker probeset A and B). Works also for diploids. Two main functions: Run_Clustering() that regroups individuals with a same genotype based on proximity and Run_Genotyping() that assigns a genotype to each cluster. For Shiny interface use: launch_GenoShiny(). Package: r-cran-genotyper Architecture: all Version: 0.0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2529 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-plyr, r-cran-doby, r-cran-zoo, r-cran-colorspace Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-qtl Filename: pool/dists/focal/main/r-cran-genotyper_0.0.1.8-1.ca2004.1_all.deb Size: 197116 MD5sum: 6f44062feec37717822a5ddfcf081dab SHA1: ea2332a11b7157640ee64fdd4aec01f1342ebbb7 SHA256: 139f4ab5c4083a6a41eaf0ee880cb40c04889db5b39e6809bec58e88edbec1be SHA512: bf875085b5e0d83c0d0be771de43f5a15bf166de216f1567feb733b79d9862b56ff9f82994a8bfab5caee006159f987a5e81afe961b2bb236e40c39eb06219c6 Homepage: https://cran.r-project.org/package=genotypeR Description: CRAN Package 'genotypeR' (SNP Genotype Marker Design and Analysis) We implement a common genotyping workflow with a standardized software interface. 'genotypeR' designs genotyping markers from vcf files, outputs markers for multiplexing suitability on various platforms (Sequenom and Illumina GoldenGate), and provides various QA/QC and analysis functions. We developed this package to analyze data in Stevison LS, SA Sefick, CA Rushton, and RM Graze. 2017. Invited Review: Recombination rate plasticity: revealing mechanisms by design. Philosophical Transactions Royal Society London B Biol Sci 372:1-14. , and have published it here Sefick, S.A., M.A. Castronova, and L.S. Stevison. 2017. GENOTYPER: An integrated R packages for single nuleotide polymorphism genotype marker design and data analysis. Methods in Ecology and Evolution 9: 1318-1323. . Package: r-cran-genpathmox Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 269 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-csem, r-cran-diagram, r-cran-matrixcalc Filename: pool/dists/focal/main/r-cran-genpathmox_1.1-1.ca2004.1_all.deb Size: 238152 MD5sum: d46a06318e179b2c05ed6be3ad625cea SHA1: 79ab22b52b2621f14a390b8e5a56d3478834940c SHA256: 912cb8051876a380c5643219029b07b3975e00736cd91d8e4455ee8536a71b9f SHA512: 52d5dcfd0c719282020cbb17e856fece26146ebdbe7c1505e761c4daf48c40a88e16f235a04c42fd5c2c8d7e28a4c4fb484ffd3522b8307f6a88b0c129a1b32c Homepage: https://cran.r-project.org/package=genpathmox Description: CRAN Package 'genpathmox' (Pathmox Approach Segmentation Tree Analysis) It provides an interesting solution for handling a high number of segmentation variables in partial least squares structural equation modeling. The package implements the "Pathmox" algorithm (Lamberti, Sanchez, and Aluja,(2016)) including the F-coefficient test (Lamberti, Sanchez, and Aluja,(2017)) to detect the path coefficients responsible for the identified differences). The package also allows running the hybrid multi-group approach (Lamberti (2021) ). Package: r-cran-genpwr Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 620 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-nleqslv, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-genpwr_1.0.4-1.ca2004.1_all.deb Size: 499016 MD5sum: 27416e80443a35c65b98475a11df22e9 SHA1: eeba3fb8c26f56b6c49e5a909ed434ed27c40aff SHA256: b5b76c007bb4f07cf9f06354e5f2bd81c96e5e27c49b97c3804b547523e0cf1a SHA512: b3ae5550bf1589d53eb7676c653fdfd661d96fa7a4c1bc8b4a359ec6914465ffdbb3dcdbc650e806ed33eeed21111264d6bc11f0e832a9f8ee9cbc62bb1f18c2 Homepage: https://cran.r-project.org/package=genpwr Description: CRAN Package 'genpwr' (Power Calculations Under Genetic Model Misspecification) Power and sample size calculations for genetic association studies allowing for misspecification of the model of genetic susceptibility. "Hum Hered. 2019;84(6):256-271.. Epub 2020 Jul 28." Power and/or sample size can be calculated for logistic (case/control study design) and linear (continuous phenotype) regression models, using additive, dominant, recessive or degree of freedom coding of the genetic covariate while assuming a true dominant, recessive or additive genetic effect. In addition, power and sample size calculations can be performed for gene by environment interactions. These methods are extensions of Gauderman (2002) and Gauderman (2002) and are described in: Moore CM, Jacobson S, Fingerlin TE. Power and Sample Size Calculations for Genetic Association Studies in the Presence of Genetic Model Misspecification. American Society of Human Genetics. October 2018, San Diego. 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These graphical methods show both bias (actually, shrinkage) and precision, by plotting the covariance ellipsoids of the estimated coefficients, rather than just the estimates themselves. 2D and 3D plotting methods are provided, both in the space of the predictor variables and in the transformed space of the PCA/SVD of the predictors. 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The genset function generates a data set from an initial data set to have the same summary statistics (mean, median, and standard deviation) but opposing regression results. 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The function stab.mean() provides the genotypic means and ranks including their corresponding confidence intervals. The function stab.var() provides the genotypic variances over environments including their corresponding confidence intervals. The function stab.fw() is an extended method from the Finlay-Wilkinson method (1963). This method can include several other factors that might impact yield stability. Resampling technique is integrated into this method. A few missing data points or unbalanced data are allowed too. The function stab.fw.check() is an extended method from the Finlay-Wilkinson method (1963). The yield stability is evaluated via common check line(s). Resampling technique is integrated. Package: r-cran-gentag Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gentag_1.0-1.ca2004.1_all.deb Size: 69304 MD5sum: 997d3492eb5aec4f4300367f35acf136 SHA1: a094bac00ccda9eb96c050e2f25ad0f13aa9854f SHA256: 8618436cd3ab4b697ab19f75abb5df22133cf1a4358435268516802e74d5e22d SHA512: 5312c81a861871dcd578361e6ad0700908a7a1ffb7d3b7032d79e02061c3c2466ad60e4bb057079f2c792673c1aad92fc2b469c2a133b7f62de440dfa85f25e4 Homepage: https://cran.r-project.org/package=GenTag Description: CRAN Package 'GenTag' (Generate Color Tag Sequences) Implement a coherent and flexible protocol for animal color tagging. 'GenTag' provides a simple computational routine with low CPU usage to create color sequences for animal tag. 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The calculation is based on the type of endpoints(continuous/binary/time-to-event/ordinal), design (parallel/crossover), hypothesis tests (equality/noninferiority/superiority/equivalence), trial arms noncompliance rates and expected loss of follow-up. Methods are described in: Chow SC, Shao J, Wang H, Lokhnygina Y (2017) , Wittes, J (2002) , Sato, T (2000) , Lachin J M, Foulkes, M A (1986) , Whitehead J(1993) , Julious SA (2023) . Package: r-cran-genular Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-dplyr, r-cran-tidyr Suggests: r-cran-plyr, r-cran-purrr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-genular_1.0.1-1.ca2004.1_all.deb Size: 77528 MD5sum: ff361d335ee705639504c53723c4f3fc SHA1: 02ba1295bf0e49e728d6d794517eddb40b94a682 SHA256: 5bc5bda5eec72f5ca2ec48fd7e42cc1918e4abd6200e711dd3302a3a8a04bc65 SHA512: 163ac1518b03db2de59e14d03416fb7db9ab144099bab5748521744fb33456ec31b3575e4fcaf2957688b3bb91847fb5fc4c968ffd48736ba9752d88cb779423 Homepage: https://cran.r-project.org/package=genular Description: CRAN Package 'genular' ('Genular' Database API) Provides an interface to the 'Genular' database API (), allowing efficient retrieval and integration of genomic, proteomic, and single-cell data. 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Package: r-cran-genwin Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1236 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pspline Filename: pool/dists/focal/main/r-cran-genwin_1.0-1.ca2004.1_all.deb Size: 1048072 MD5sum: 50c915328172988b6a088cc8bcb91378 SHA1: 0f7370438549ae6cb23f5ff1cf7f4da4d0e1175c SHA256: d85e1366ce5f59bd3560ce2f6019cff18cf601947d5f534085780f3748f0bd59 SHA512: 4de4f9e0ec054e0c1ee2bfcb4de730475547ef123ebe54fa36ba9daedd944679e986c919366e31a300a77022325a8f86d386d07bf4884cbc7cae3c23e195e4c7 Homepage: https://cran.r-project.org/package=GenWin Description: CRAN Package 'GenWin' (Spline Based Window Boundaries for Genomic Analyses) Defines window or bin boundaries for the analysis of genomic data. Boundaries are based on the inflection points of a cubic smoothing spline fitted to the raw data. 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You provide the raw data of locations and timings of treatment and outcome events, specify counterfactual scenarios, and the package estimates causal effects over specified spatial and temporal windows. See Papadogeorgou, et al. (2022) and Mukaigawara, et al. (2024) . 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O pacote é baseado em conjuntos de dados espaciais abertos de endereços brasileiros, utilizando principalmente o Cadastro Nacional de Endereços para Fins Estatísticos (CNEFE). O CNEFE é publicado pelo Instituto Brasileiro de Geografia e Estatística (IBGE), órgão oficial de estatísticas e geografia do Brasil. (A simple and efficient method for geolocating data in Brazil. The package is based on open spatial datasets of Brazilian addresses, primarily using the Cadastro Nacional de Endereços para Fins Estatísticos (CNEFE), published by the Instituto Brasileiro de Geografia e Estatística (IBGE), Brazil's official statistics and geography agency.) Package: r-cran-geodadata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3480 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-sf Filename: pool/dists/focal/main/r-cran-geodadata_0.1.0-1.ca2004.1_all.deb Size: 3521736 MD5sum: 3ef4a758e5ce67776b4edbb9c8e7b9b9 SHA1: 43271ca3b6bfbb1e6a32c7d3c34164d740094e13 SHA256: 159e85de5fed6d8912d21358c80375a6baa5c50ec0750617c59e08b9df293020 SHA512: 48edadfc29760bd9f2e2845a9d59e1465a1e71a68711c7a065839d09133b28e93b50c818f8684f7794e0718626ffffb90b856e5791b6b4aacff3290c637084e5 Homepage: https://cran.r-project.org/package=geodaData Description: CRAN Package 'geodaData' (Spatial Analysis Datasets for Teaching) Stores small spatial datasets used to teach basic spatial analysis concepts. Datasets are based off of the 'GeoDa' software workbook and data site developed by Luc Anselin and team at the University of Chicago. Datasets are stored as 'sf' objects. Package: r-cran-geodata Architecture: all Version: 0.6-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 268 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-terra Suggests: r-cran-jsonlite, r-cran-r.utils, r-cran-httr, r-cran-archive Filename: pool/dists/focal/main/r-cran-geodata_0.6-2-1.ca2004.1_all.deb Size: 239916 MD5sum: 5a31c8014ac9131da972d346d3cc4037 SHA1: 22820499c5edc83c96f32fc20f37250a2a8f0438 SHA256: a68f054f2bd8320f791161410122d66bd2e0f6abf3a91ee62c8c7b19ed4e6f71 SHA512: 46f24942f2ce0e1cdacefe66b99311c508582144c5292991407aa34fe14f2ed659c50bbf4bb8fb81df3fa4b934f24b37b66a9f3043137ca579d9df0b2f492809 Homepage: https://cran.r-project.org/package=geodata Description: CRAN Package 'geodata' (Download Geographic Data) Functions for downloading of geographic data for use in spatial analysis and mapping. The package facilitates access to climate, crops, elevation, land use, soil, species occurrence, accessibility, administrative boundaries and other data. Package: r-cran-geode Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4435 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-mass Filename: pool/dists/focal/main/r-cran-geode_1.0-1.ca2004.1_all.deb Size: 4505800 MD5sum: f8ad40d022e9132aec58c9e6520191b7 SHA1: 12b3d6b3f7ef85f60f126a8b0ae8c511fd010122 SHA256: a4cc0cbf8e3b86a06e79fcaef816539f4330a5284b3065c65e9bdba23a0133b7 SHA512: af86e1c935293e457c58529b75479cdae8b60e49a6711ea9363862f65ac24a9c272395566f62792c2c9950c80093c710c1872906da36e927c609d2cea54afb55 Homepage: https://cran.r-project.org/package=GeoDE Description: CRAN Package 'GeoDE' (A geometrical Approach to Differential expression and gene-setenrichment) Given expression data this package calculate a multivariate geometrical characterization of the differential expression and can also perform gene-set enrichment. Package: r-cran-geodesicl Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp, r-cran-readr, r-cran-dplyr, r-cran-rgdal, r-cran-magrittr, r-cran-tibble, r-cran-leafpop, r-cran-htmltools, r-cran-leaflet, r-cran-profvis, r-cran-mapview Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-knitr, r-cran-covr Filename: pool/dists/focal/main/r-cran-geodesicl_1.0.0-1.ca2004.1_all.deb Size: 228608 MD5sum: 09afb1144b67a8327e52cb9cada8594d SHA1: cf09eb0f7d4237c84b5e700815e3c9ef442c6dc7 SHA256: a9f6ff78a16491ce9671ab986bef2eb647cb938e66aaeccd2cf9bb6d32fc95db SHA512: 76db5f9438559578ed373a43ff0d9c3f913b15623dff6fff7ef49b68fa3fee7edb94416de89ea75a0b0c3008f3a3c4f0f34a56673837ee877eaa66a6f1cdd3c5 Homepage: https://cran.r-project.org/package=GeodesiCL Description: CRAN Package 'GeodesiCL' (Geometric Geodesy Functions) Geometric geodesy functions applied to most common ellipsoids. This package was created to streamline and facilitate their work for surveyors, geographers, and everything related to geosciences. Package: r-cran-geodetector Architecture: all Version: 1.0-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2654 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-geodetector_1.0-5-1.ca2004.1_all.deb Size: 1692516 MD5sum: 2ec165db520781509db627f25132a771 SHA1: 43d6b9d80d2a2545814da8dadc083b17c74e9e8b SHA256: 7ce3abbb511116d32b5154865deb6ebf9eed13b49d66ac042582f6654436b2f2 SHA512: 5128fbc9795d4a603d549dffe098131e3824e87522adf84ba7cd2c681fcdf6d664051a52a76ac3b106bf573059260742e4bff4799aa3e08e809d6d9c50d12e0d Homepage: https://cran.r-project.org/package=geodetector Description: CRAN Package 'geodetector' (Stratified Heterogeneity Measure, Dominant Driving ForceDetection, Interaction Relationship Investigation) Spatial stratified heterogeneity (SSH), referring to the within strata are more similar than the between strata, a model with global parameters would be confounded if input data is SSH. Note that the "spatial" here can be either geospatial or the space in mathematical meaning. Geographical detector is a novel tool to investigate SSH: (1) measure and find SSH of a variable Y; (2) test the power of determinant X of a dependent variable Y according to the consistency between their spatial distributions; and (3) investigate the interaction between two explanatory variables X1 and X2 to a dependent variable Y (Wang et al 2014 , Wang, Zhang, and Fu 2016 ). Package: r-cran-geodimension Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3075 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-sf, r-cran-snakecase, r-cran-tibble, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-pander, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-geodimension_2.0.0-1.ca2004.1_all.deb Size: 3027020 MD5sum: f6193b3aea29c7615223b37d3396d69e SHA1: 336e7efa8a323ee9a3025b80228ea5471c8f7789 SHA256: 00402b9a4a712fae482b5513ad36a903177823dcd95eb511abd3851994fcc6cf SHA512: 54c5ef378a1bf44844e76215e42b9535dd7f2a88cc619aafadb9921b865e96f7fbe36b0d0a14d3d0e2f1cfcaa3f2a04dd97aa6aa4f0867cbef117133ee5541c2 Homepage: https://cran.r-project.org/package=geodimension Description: CRAN Package 'geodimension' (Definition of Geographic Dimensions) The geographic dimension plays a fundamental role in multidimensional systems. To define a geographic dimension in a star schema, we need a table with attributes corresponding to the levels of the dimension. Additionally, we will also need one or more geographic layers to represent the data using this dimension. The goal of this package is to support the definition of geographic dimensions from layers of geographic information related to each other. It makes it easy to define relationships between layers and obtain the necessary data from them. Package: r-cran-geodl Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2165 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-torch, r-cran-torchvision, r-cran-dplyr, r-cran-terra, r-cran-luz, r-cran-multiscaledtm, r-cran-psych, r-cran-coro, r-cran-r6, r-cran-readr, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-geodl_0.2.0-1.ca2004.1_all.deb Size: 1175508 MD5sum: c5ee6228f02993a50c44f85aeb5c4e85 SHA1: 27d4ada66961b792b0728b8e1ca2249ef6f252bd SHA256: 6c51486752c620734f46c190dadbf938618de5176abf06b836dfb6cf7f379170 SHA512: d9a12a3026156807b076a56d5ffd4537351bcc805a43e4347669156adf45b656698290f4d085ae7273d28d706147bdd6518e65f92e9af1b87d1ef76acd9a95f5 Homepage: https://cran.r-project.org/package=geodl Description: CRAN Package 'geodl' (Geospatial Semantic Segmentation with Torch and Terra) Provides tools for semantic segmentation of geospatial data using convolutional neural network-based deep learning. Utility functions allow for creating masks, image chips, data frames listing image chips in a directory, and DataSets for use within DataLoaders. Additional functions are provided to serve as checks during the data preparation and training process. A UNet architecture can be defined with 4 blocks in the encoder, a bottleneck block, and 4 blocks in the decoder. The UNet can accept a variable number of input channels, and the user can define the number of feature maps produced in each encoder and decoder block and the bottleneck. Users can also choose to (1) replace all rectified linear unit (ReLU) activation functions with leaky ReLU or swish, (2) implement attention gates along the skip connections, (3) implement squeeze and excitation modules within the encoder blocks, (4) add residual connections within all blocks, (5) replace the bottleneck with a modified atrous spatial pyramid pooling (ASPP) module, and/or (6) implement deep supervision using predictions generated at each stage in the decoder. A unified focal loss framework is implemented after Yeung et al. (2022) . We have also implemented assessment metrics using the 'luz' package including F1-score, recall, and precision. Trained models can be used to predict to spatial data without the need to generate chips from larger spatial extents. Functions are available for performing accuracy assessment. The package relies on 'torch' for implementing deep learning, which does not require the installation of a 'Python' environment. Raster geospatial data are handled with 'terra'. Models can be trained using a Compute Unified Device Architecture (CUDA)-enabled graphics processing unit (GPU); however, multi-GPU training is not supported by 'torch' in 'R'. Package: r-cran-geodrawr Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sf, r-cran-leaflet, r-cran-shiny, r-cran-shinydashboard Filename: pool/dists/focal/main/r-cran-geodrawr_2.0.0-1.ca2004.1_all.deb Size: 29752 MD5sum: c666e74fb308c336c744fdeca4cedcb7 SHA1: b449d9c748218248f1c21bc701c3421856754001 SHA256: ead4da8298b859fa164d5b844bb68541c7a7c9d34723eb678e230e72df1a0c4e SHA512: 525e6a483f7394ed14ac70231912e09de93f2d7d986964d14e4fd542d9c134a8cef7eddc995f285f948cac60d9fa34a74b0955b8a84a950aba9eb7f7303b3fab Homepage: https://cran.r-project.org/package=geodrawr Description: CRAN Package 'geodrawr' (Making Geospatial Objects) Draw geospatial objects by clicks on the map. This packages can help data analyst who want to check their own geospatial hypothesis but has no ready-made geospatial objects. Package: r-cran-geodregr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-zipfr Filename: pool/dists/focal/main/r-cran-geodregr_0.2.0-1.ca2004.1_all.deb Size: 145416 MD5sum: 7c8bab85bd619a2116ab548a2a2b8325 SHA1: 86be2e1600b27c4dad0a2d2132a0c634ed26b07a SHA256: 0d962f905f1d85641fb799b078aab81926edd2480fc46cacf157ee23d6e61c99 SHA512: dc5fc221d9d9b628b21c799082a98ae070314934e8b914aa88543b75a1467499fe7cc477935398c047ea9cc62b29984a9ce532ff72b0ce232615f0a37fe83fb7 Homepage: https://cran.r-project.org/package=GeodRegr Description: CRAN Package 'GeodRegr' (Geodesic Regression) Provides a gradient descent algorithm to find a geodesic relationship between real-valued independent variables and a manifold-valued dependent variable (i.e. geodesic regression). Available manifolds are Euclidean space, the sphere, hyperbolic space, and Kendall's 2-dimensional shape space. Besides the standard least-squares loss, the least absolute deviations, Huber, and Tukey biweight loss functions can also be used to perform robust geodesic regression. Functions to help choose appropriate cutoff parameters to maintain high efficiency for the Huber and Tukey biweight estimators are included, as are functions for generating random tangent vectors from the Riemannian normal distributions on the sphere and hyperbolic space. The n-sphere is a n-dimensional manifold: we represent it as a sphere of radius 1 and center 0 embedded in (n+1)-dimensional space. Using the hyperboloid model of hyperbolic space, n-dimensional hyperbolic space is embedded in (n+1)-dimensional Minkowski space as the upper sheet of a hyperboloid of two sheets. Kendall's 2D shape space with K landmarks is of real dimension 2K-4; preshapes are represented as complex K-vectors with mean 0 and magnitude 1. Details are described in Shin, H.-Y. and Oh, H.-S. (2020) . Also see Fletcher, P. T. (2013) . Package: r-cran-geoelectrics Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3446 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lattice, r-cran-rgl, r-cran-fields Suggests: r-cran-testthat, r-cran-tkrplot Filename: pool/dists/focal/main/r-cran-geoelectrics_0.2.2-1.ca2004.1_all.deb Size: 848488 MD5sum: 2481b208624ee3adbddcaeaeeadd18c8 SHA1: 59cc3c95e9aecd3893075e0f6a3f411cea3a7041 SHA256: 27c921733e2d9268b94e25f8f8b1bf0df25d7b8b0c2d8636e3ab90bf61264f51 SHA512: cbaf430d9572552af59e2053e85d71fbb9cc376e2803cdcaf55e9caa56c2ae3d11104d029ec0f3a8ef8b7fc44948cfd18a5add2b9cd7fbcf22929b11e8145b5a Homepage: https://cran.r-project.org/package=geoelectrics Description: CRAN Package 'geoelectrics' (3D-Visualization of Geoelectric Resistivity Measurement Profiles) Visualizes two-dimensional geoelectric resistivity measurement profiles in three dimensions. Package: r-cran-geofabrik Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-geofabrik_0.1.0-1.ca2004.1_all.deb Size: 28600 MD5sum: 25d8549fdea49f57b4665a07343b4a50 SHA1: 5c29e61bb936744c909ff0f8dedd9ffa75c304fa SHA256: dd76939bc1f3482822cd27465ba8ff0845237fb381838fe1e567cdbd268ef545 SHA512: 2b1b2309802a32a8cd7015b9fcc381efb5a8fe75f0e8eb5516b1f552bf3ac07717266f965f38014a1da2e549ba9b0d5ed71c954535e1c93c964982b3245f3f29 Homepage: https://cran.r-project.org/package=geofabrik Description: CRAN Package 'geofabrik' (Downloading Open Street Map Data) Download 'OpenStreetMap' data from 'geofabrik' servers . This approach uses only the direct link downloads. Besides, this package does not import any external package. 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Geographical faceting arranges a sequence of plots of data for different geographical entities into a grid that preserves some of the geographical orientation. Package: r-cran-geofd Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 170 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fda Filename: pool/dists/focal/main/r-cran-geofd_2.0-1.ca2004.1_all.deb Size: 139920 MD5sum: cc64a0ba821cdc32e52e0f7c2f3cb1d5 SHA1: f6b91b1a5b3e52d34558f079d85bc6f15e366580 SHA256: d91bf04dedfcb9659231dca9f50567a8171c6fdbaec905508cafc0b5a02a3c38 SHA512: 90f38209e86cd0a9b8db2b6fe84e83355e76f0cac553e57f6878f57b0d5d99a8738ff64bf5a580b63411a25852759db958e7973f13ff98469a9f6679dd7b5dd3 Homepage: https://cran.r-project.org/package=geofd Description: CRAN Package 'geofd' (Spatial Prediction for Function Value Data) Kriging based methods are used for predicting functional data (curves) with spatial dependence. 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The package contains annually updated time series of municipality key datasets that can be used for data aggregation and language translations. Package: r-cran-geogam Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4787 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mboost, r-cran-mgcv, r-cran-grpreg, r-cran-mass Suggests: r-cran-raster, r-cran-sp Filename: pool/dists/focal/main/r-cran-geogam_0.1-3-1.ca2004.1_all.deb Size: 4841576 MD5sum: 51d929bfc9520e09d992e44121c6dc52 SHA1: 6fb23f8e5835c9471c4334bdd42707435741bc9f SHA256: 3459159a667e6719215175feae924cfa8cb426a00357cc257494b1e4c6a01e98 SHA512: 0f0dd87c7ba4c3ef3b0f1174fa141c9ca5990a5b5b103c00b68693c96250684da55f091c5195ef04788969060b42fcff5c5d7d3f7249ef2845a895c2d10c1d27 Homepage: https://cran.r-project.org/package=geoGAM Description: CRAN Package 'geoGAM' (Select Sparse Geoadditive Models for Spatial Prediction) A model building procedure to build parsimonious geoadditive model from a large number of covariates. Continuous, binary and ordered categorical responses are supported. The model building is based on component wise gradient boosting with linear effects, smoothing splines and a smooth spatial surface to model spatial autocorrelation. The resulting covariate set after gradient boosting is further reduced through backward elimination and aggregation of factor levels. The package provides a model based bootstrap method to simulate prediction intervals for point predictions. A test data set of a soil mapping case study in Berne (Switzerland) is provided. Nussbaum, M., Walthert, L., Fraefel, M., Greiner, L., and Papritz, A. (2017) . Package: r-cran-geogenr Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6896 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-geomultistar, r-cran-httr, r-cran-readr, r-cran-rolap, r-cran-sf, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-dbi, r-cran-dbplyr, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-dm, r-cran-knitr, r-cran-pander, r-cran-rmarkdown, r-cran-rsqlite, r-cran-snakecase, r-cran-testthat Filename: pool/dists/focal/main/r-cran-geogenr_2.0.1-1.ca2004.1_all.deb Size: 4852232 MD5sum: c1b94336f71fb5d8c393ca83adcf479e SHA1: b77c7ec7b2e284f5f60c8a3893b1282ad675a67d SHA256: c8173060bb3f78f45cef89fb6ebdd7a06667d6e96cecc9334a63c0cc35dd497e SHA512: 551485763ea26445b26e05dcd5ddddb4bc70d507eb3951208b4f4f8aa76308729f02f96b37abddb84def7b68252b192985ef7acb5c99e9ab1f3d69b9a432e3c1 Homepage: https://cran.r-project.org/package=geogenr Description: CRAN Package 'geogenr' (Generator from American Community Survey Geodatabases) The American Community Survey (ACS) offers geodatabases with geographic information and associated data of interest to researchers in the area. The goal of this package is to generate objects that allow us to access and consult the information available in various formats, such as in 'GeoPackage' format or in multidimensional 'ROLAP' (Relational On-Line Analytical Processing) star format. Package: r-cran-geohabnet Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2523 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-config, r-cran-geosphere, r-cran-igraph, r-cran-terra, r-cran-yaml, r-cran-stringr, r-cran-memoise, r-cran-viridislite, r-cran-beepr, r-cran-rnaturalearth, r-cran-future.apply, r-cran-future, r-cran-magrittr, r-cran-ggplot2, r-cran-patchwork Suggests: r-cran-devtools, r-cran-knitr, r-cran-lintr, r-cran-mockthat, r-cran-pkgdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-geohabnet_2.2-1.ca2004.1_all.deb Size: 781748 MD5sum: 748af50c825808c47158d7a5759840ed SHA1: 98055c478a8a4b1527b0ff95f21fab9691514a7e SHA256: 23487d712031a9126eb5d2388145ab24354edd9a077cd4f9de89d59140afa476 SHA512: 57f8cde39eda99a26504542643cdf7f01aea3f96f77ef21f3e27fbf0c819280a41dee10ea954ba97e238968820e7b3700ffa1bb42f452b88d15ed1a1842f3d93 Homepage: https://cran.r-project.org/package=geohabnet Description: CRAN Package 'geohabnet' (Geographical Risk Analysis Based on Habitat Connectivity) The 'geohabnet' package is designed to perform a geographically or spatially explicit risk analysis of habitat connectivity. Xing et al (2021) proposed the concept of cropland connectivity as a risk factor for plant pathogen or pest invasions. As the functions in 'geohabnet' were initially developed thinking on cropland connectivity, users are recommended to first be familiar with the concept by looking at the Xing et al paper. In a nutshell, a habitat connectivity analysis combines information from maps of host density, estimates the relative likelihood of pathogen movement between habitat locations in the area of interest, and applies network analysis to calculate the connectivity of habitat locations. The functions of 'geohabnet' are built to conduct a habitat connectivity analysis relying on geographic parameters (spatial resolution and spatial extent), dispersal parameters (in two commonly used dispersal kernels: inverse power law and negative exponential models), and network parameters (link weight thresholds and network metrics). The functionality and main extensions provided by the functions in 'geohabnet' to habitat connectivity analysis are a) Capability to easily calculate the connectivity of locations in a landscape using a single function, such as sensitivity_analysis() or msean(). b) As backbone datasets, the 'geohabnet' package supports the use of two publicly available global datasets to calculate cropland density. The backbone datasets in the 'geohabnet' package include crop distribution maps from Monfreda, C., N. Ramankutty, and J. A. Foley (2008) "Farming the planet: 2. Geographic distribution of crop areas, yields, physiological types, and net primary production in the year 2000, Global Biogeochem. Cycles, 22, GB1022" and International Food Policy Research Institute (2019) "Global Spatially-Disaggregated Crop Production Statistics Data for 2010 Version 2.0, Harvard Dataverse, V4". Users can also provide any other geographic dataset that represents host density. c) Because the 'geohabnet' package allows R users to provide maps of host density (as originally in Xing et al (2021)), host landscape density (representing the geographic distribution of either crops or wild species), or habitat distribution (such as host landscape density adjusted by climate suitability) as inputs, we propose the term habitat connectivity. d) The 'geohabnet' package allows R users to customize parameter values in the habitat connectivity analysis, facilitating context-specific (pathogen- or pest-specific) analyses. e) The 'geohabnet' package allows users to automatically visualize maps of the habitat connectivity of locations resulting from a sensitivity analysis across all customized parameter combinations. The primary functions are msean() and sensitivity analysis(). Most functions in 'geohabnet' provide three main outcomes: i) A map of mean habitat connectivity across parameters selected by the user, ii) a map of variance of habitat connectivity across the selected parameters, and iii) a map of the difference between the ranks of habitat connectivity and habitat density. Each function can be used to generate these maps as 'final' outcomes. Each function can also provide intermediate outcomes, such as the adjacency matrices built to perform the analysis, which can be used in other network analysis. Refer to article at to see examples of each function and how to access each of these outcome types. To change parameter values, the file called 'parameters.yaml' stores the parameters and their values, can be accessed using 'get_parameters()' and set new parameter values with 'set_parameters()'. Users can modify up to ten parameters. Package: r-cran-geoheatmap Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4944 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-geofacet, r-cran-statebins, r-cran-ggplot2, r-cran-plotly, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-viridislite, r-cran-testthat, r-cran-htmltools Filename: pool/dists/focal/main/r-cran-geoheatmap_0.1.0-1.ca2004.1_all.deb Size: 1766936 MD5sum: 9c8d80dd6e49158496e9ab58981c5e55 SHA1: 8ec012255b5cbccaad849c377cf31313c5aecd64 SHA256: a6f9be81be961ac08dc50288dc35540203f8df595ef9a52560e9c29765100360 SHA512: d4a73e5c238765e6763f91399e9e1a7961cb64d1509bbd1056485f57d93d5a37e3349a9022c93455df61970b45bec341172c1b8e1dc1d1184e248f21ffd71ae5 Homepage: https://cran.r-project.org/package=geoheatmap Description: CRAN Package 'geoheatmap' (Create Geospatial Cartogram Heatmaps) The functionality provided by this package is an expansion of the code of the 'statebins' package, created by B. Rudis (2022), . It allows for the creation of square choropleths for the entire world, provided an appropriate specified grid is supplied. Package: r-cran-geoidep Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4371 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-sf, r-cran-archive, r-cran-tidyr, r-cran-cli, r-cran-jsonlite, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-leaflet, r-cran-leaflet.extras, r-cran-testthat Filename: pool/dists/focal/main/r-cran-geoidep_0.3.0-1.ca2004.1_all.deb Size: 1455416 MD5sum: 5b6cc26db6f95399e801ae382902972f SHA1: 494182be60b029c058fc2f19360de817e61a0d0a SHA256: 517cbff76219a177f065ece27a7a114f062b0bb1f4d85c7d1a81e622af353ec2 SHA512: 5bb0af66b93244e3dacf74cca697f1b86b946d5990b1b7844a48f3188965cafb7db7ec4f444e714430c584603588e6b9a0d4f265d9e36157bff700586019c486 Homepage: https://cran.r-project.org/package=geoidep Description: CRAN Package 'geoidep' (Download Geographic Data on Various Topics Provided and Managedby the Spatial Data Infrastructure of Peru) Provides R users with easy access to official cartographic data from Peru across a range of topics, including society, transport, environment, agriculture, climate, and more. It also includes data from regional government entities and technical-scientific institutions, all managed by Peru's Spatial Data Infrastructure. For more information, please visit: . Package: r-cran-geojson Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2167 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sp, r-cran-jsonlite, r-cran-protolite, r-cran-jqr, r-cran-magrittr, r-cran-lazyeval Suggests: r-cran-tibble, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-stringi, r-cran-covr Filename: pool/dists/focal/main/r-cran-geojson_0.3.5-1.ca2004.1_all.deb Size: 1029512 MD5sum: 64d7797ecbe308a6c07ea5664203deaa SHA1: 8ddaf6b6fc45f31a13daa5b55ffc168b82d0eb92 SHA256: 5aca3de574497b433121924cf75cb0b8a1c68755f0ffe5db524f729acdff5d1b SHA512: b80b184a58b4171cd2a7a01770ca826e877adf544e9e17010c37ebba3ebfa2ac0c812c5d9fac44ba0dfac11bf1ad5a757eb24e080efec50e1c1ebbe83ee04ad1 Homepage: https://cran.r-project.org/package=geojson Description: CRAN Package 'geojson' (Classes for 'GeoJSON') Classes for 'GeoJSON' to make working with 'GeoJSON' easier. Includes S3 classes for 'GeoJSON' classes with brief summary output, and a few methods such as extracting and adding bounding boxes, properties, and coordinate reference systems; working with newline delimited 'GeoJSON'; and serializing to/from 'Geobuf' binary 'GeoJSON' format. Package: r-cran-geojsonio Architecture: all Version: 0.11.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2522 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-crul, r-cran-geojson, r-cran-geojsonsf, r-cran-jqr, r-cran-jsonlite, r-cran-magrittr, r-cran-readr, r-cran-sf, r-cran-sp, r-cran-v8 Suggests: r-cran-covr, r-cran-dbi, r-cran-gistr, r-cran-leaflet, r-cran-maps, r-cran-rpostgres, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-geojsonio_0.11.3-1.ca2004.1_all.deb Size: 711740 MD5sum: b32a1b18b3097bacc7c5cb16607d3305 SHA1: 425074bbf15ff9f08f872b1f61f4eef5528ba91f SHA256: 8c57050511eda97fac45eddf3814c5b4595044404df2ccd06ade773aa2994947 SHA512: c6fa14a85e5eabc060e5d4ff9ed189017fb1738304f32a2734741d6f2ec1a765b07df32d51290b66b8db7b69d554f6c6f0031ef3dd5363092b3b9c6f7cffe0fd Homepage: https://cran.r-project.org/package=geojsonio Description: CRAN Package 'geojsonio' (Convert Data from and to 'GeoJSON' or 'TopoJSON') Convert data to 'GeoJSON' or 'TopoJSON' from various R classes, including vectors, lists, data frames, shape files, and spatial classes. 'geojsonio' does not aim to replace packages like 'sp', 'rgdal', 'rgeos', but rather aims to be a high level client to simplify conversions of data from and to 'GeoJSON' and 'TopoJSON'. Package: r-cran-geojsonlint Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2371 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crul, r-cran-jsonlite, r-cran-jsonvalidate, r-cran-v8 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-geojsonlint_0.4.0-1.ca2004.1_all.deb Size: 700908 MD5sum: 8a97c8062a82a734fcea10be90f72dd0 SHA1: 855cd0047d044e01a22b221d5691214015447496 SHA256: 9320090db1d504e149acc6385519a64282490aebc1044a86533f85407d3e29b9 SHA512: c3f491dcdf63c7e7dd27bbccaa522c96a3318eecbae0be6a38d7d2c80019eedeeb378e3137e2f2fa4a5c6ecc4dbf861617f32861720a5375b30e152ba7eab428 Homepage: https://cran.r-project.org/package=geojsonlint Description: CRAN Package 'geojsonlint' (Tools for Validating 'GeoJSON') Tools for linting 'GeoJSON'. Includes tools for interacting with the online tool , the 'Javascript' library 'geojsonhint' (), and validating against a 'GeoJSON' schema via the 'Javascript' library (). Some tools work locally while others require an internet connection. Package: r-cran-geoknife Architecture: all Version: 1.6.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1542 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-whisker, r-cran-xml2, r-cran-httr, r-cran-curl, r-cran-progress, r-cran-sf Suggests: r-cran-testthat, r-cran-xtable, r-cran-knitr, r-cran-rmarkdown, r-cran-ggmap, r-cran-dplyr, r-cran-rastervis, r-cran-ggplot2, r-cran-sp, r-cran-raster Filename: pool/dists/focal/main/r-cran-geoknife_1.6.11-1.ca2004.1_all.deb Size: 601208 MD5sum: 0c70ac3204ddc538c76dd4f163e43759 SHA1: 6e6e5e5834bfd979f22d9479b21956c756e83714 SHA256: b4e55b8805fc89a72166ff20d916072495c4bda95cf4e23fefdc6bd4bdc03d32 SHA512: 00bfa87fd18cf9b84bf8b80a481fad609465b0de91164c1caea93e78be7cdc89b2c2f41b86b50f655ac3d20a0fce0737e0e2dc335c09e83ab8414e51006ca534 Homepage: https://cran.r-project.org/package=geoknife Description: CRAN Package 'geoknife' (Web-Processing of Large Gridded Datasets) Processes gridded datasets found on the U.S. Geological Survey Geo Data Portal web application or elsewhere, using a web-enabled workflow that eliminates the need to download and store large datasets that are reliably hosted on the Internet. The package provides access to several data subset and summarization algorithms that are available on remote web processing servers (Read et al. (2015) ). Package: r-cran-geomapdata Architecture: all Version: 2.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1277 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-geomap Filename: pool/dists/focal/main/r-cran-geomapdata_2.0-2-1.ca2004.1_all.deb Size: 1273964 MD5sum: d85054a4a65d695f239ac0f5a371c1b7 SHA1: 565947438c8c24e8f46bd0c0f18d83f5aac75cf1 SHA256: 039e25a9bd7175bc9238ae2807fe5a976cee414df8eb655d70a45af9856e267f SHA512: d9044f4f44351278e8d29285aecf55e9ba2e545ebfc4dccc6986ab0c5be2771c722866f3ae49ec73d654a36facf2958fed6265a03d7748cf5f3a6b15c3020fff Homepage: https://cran.r-project.org/package=geomapdata Description: CRAN Package 'geomapdata' (Data for Topographic and Geologic Mapping) Data sets included here are for use with package GEOmap. These include world map, USA map, Coso map, Japan Map. Package: r-cran-geomarchetypal Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 640 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-geometry, r-cran-archetypal, r-cran-doparallel, r-cran-plot3d, r-cran-distances, r-cran-rlang, r-cran-magrittr, r-cran-dplyr, r-cran-mirai, r-cran-abind, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-geomarchetypal_1.0.3-1.ca2004.1_all.deb Size: 571648 MD5sum: 9254842728fc11dc898ed1567de1bc56 SHA1: aed9a87943e8a319739dd5216ade10cb19a45a72 SHA256: 1052aff003baaefa692e15d6c8f77f83f7a4c5bb99670efcb431b6c2499dffd1 SHA512: 2132bf387cc73aeef6b798ca1ff00c18bca56464e1d2502d5a769d6df986ad793fc0ad0f14e6a6a56230edaae8affb84416f1cfde4090436ed94c4ddc33d5433 Homepage: https://cran.r-project.org/package=GeomArchetypal Description: CRAN Package 'GeomArchetypal' (Finds the Geometrical Archetypal Analysis of a Data Frame) Performs Geometrical Archetypal Analysis after creating Grid Archetypes which are the Cartesian Product of all minimum, maximum variable values. Since the archetypes are fixed now, we have the ability to compute the convex composition coefficients for all our available data points much faster by using the half part of Principal Convex Hull Archetypal method. Additionally we can decide to keep as archetypes the closer to the Grid Archetypes ones. Finally the number of archetypes is always 2 to the power of the dimension of our data points if we consider them as a vector space. Cutler, A., Breiman, L. (1994) . Morup, M., Hansen, LK. (2012) . Christopoulos, DT. (2024) . Package: r-cran-geomaroc Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-sf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-geomaroc_0.1.1-1.ca2004.1_all.deb Size: 37896 MD5sum: c08ff5c67b5afa6045776923c234efe2 SHA1: f50041f74632c9c751cc0b3c3481e5d3a8069ca7 SHA256: f2ae938ad9f90d0e1693a8d90293f58a9f2f8f21f945aa5ffb102339badb138d SHA512: 2a40f0dc617675c691bed72a46c5a9b5770a257c35f1b981ceb520b443a8d520b9697cc6faf0433e639ef1cb4e7fc8ddfc9b6386b8618e6270641fc4fe8e99c8 Homepage: https://cran.r-project.org/package=geomaroc Description: CRAN Package 'geomaroc' (Easily Visualize Geographic Data of Morocco) Tools to easily visualize geographic data of Morocco. This package interacts with data available through the 'geomarocdata' package, which is available in a 'drat' repository. The size of the 'geomarocdata' package is approximately 12 MB. Package: r-cran-geomcomb Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-forecast, r-cran-forecastcombinations, r-cran-ggplot2, r-cran-matrix, r-cran-mtsdi, r-cran-psych Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-geomcomb_1.0-1.ca2004.1_all.deb Size: 162628 MD5sum: 2b63d9bf83fe5c284a8e3903eea4ed00 SHA1: 25513c654c261135d69ef06f2805a27976be8ca9 SHA256: 6dd5ca59f2ac072b18c27f62e80a5d17ca2eb68e4ed11770a0f09065f6357140 SHA512: 024b437eb805ee6d76f72b4bfd2a6e578f74657a25f25ba368c1f8e479768fd14a8db8d8cb6eb3dc58a9c5d3f2786759661c903bc32c5df64475f0ecbb7edca1 Homepage: https://cran.r-project.org/package=GeomComb Description: CRAN Package 'GeomComb' ((Geometric) Forecast Combination Methods) Provides eigenvector-based (geometric) forecast combination methods; also includes simple approaches (simple average, median, trimmed and winsorized mean, inverse rank method) and regression-based combination. Tools for data pre-processing are available in order to deal with common problems in forecast combination (missingness, collinearity). Package: r-cran-geomedb Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-geomedb_2.0.1-1.ca2004.1_all.deb Size: 53596 MD5sum: 64511bef97fe858e889110f2d563bbc6 SHA1: 1b1c1dd4da3e962c84a9e0d28b8a05c4b339602b SHA256: 04d5a32d41c889f2edfc33b330bf9f300a68b648c9221c79d0c7ca6b2d4faf19 SHA512: 4561ac894a754eff5da49df25b8ccb58e85a90ffc85678eff351f61a8a17d421afa5297b70c251b0cb4ca160f07fe41692eab60e111b0731817779a90b0cbe9d Homepage: https://cran.r-project.org/package=geomedb Description: CRAN Package 'geomedb' (Functions for Fetching 'GeOMe-db' Data) The Genomic Observatory Metadatabase (GeOMe Database) is an open access repository for geographic and ecological metadata associated with sequenced samples. This package is used to retrieve GeOMe data for analysis. See for more information regarding GeOMe. 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(2011) ) and Gaussian (Harville (1977) ) (Restricted) Maximum Likelihood and for computing robust and customary point and block external-drift Kriging predictions (Cressie (1993) ), along with utility functions for variogram modelling in ad hoc geostatistical analyses, model building, model evaluation by cross-validation, (conditional) simulation of Gaussian processes (Davies and Bryant (2013) ), unbiased back-transformation of Kriging predictions of log-transformed data (Cressie (2006) ). 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This package refers to J.N.K Rao and Isabel Molina (2015, ISBN: 978-1-118-73578-7), Bocci, C., & Petrucci, A. (2016), and Ardiansyah, M., Djuraidah, A., & Kurnia, A. (2018). 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Geographically optimal similarity (GOS) model is an effective method for spatial prediction, as described in Yongze Song (2022) . GOS was developed based on the geographical similarity principle, as described in Axing Zhu (2018) . GOS has advantages in more accurate spatial prediction using fewer samples and critically reduced prediction uncertainty. Package: r-cran-geospark Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sparklyr, r-cran-dplyr, r-cran-dbplyr Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-geospark_0.3.1-1.ca2004.1_all.deb Size: 19520 MD5sum: d5357570e7717d12e0e3b2998bd68f29 SHA1: 4f8b88148ce9eb564d477b9f076deedd9d0b64b7 SHA256: 9fa14905b2d775834a18b6ca625cfbc9039a6dcfa12246ac5ad3f6f6a76a7e00 SHA512: bda2c4a332f3c804f0e61f86aaf34450e686c2d4ce56593ed9466eb21a53b1daef8528ca317fa98d9af43a9a72b28d6a8453a9a1079c75db39500796f8c23f70 Homepage: https://cran.r-project.org/package=geospark Description: CRAN Package 'geospark' (Bring Local Sf to Spark) R binds 'GeoSpark' extending 'sparklyr' R package to make distributed 'geocomputing' easier. Sf is a package that provides [simple features] access for R and which is a leading 'geospatial' data processing tool. 'Geospark' R package bring the same simple features access like sf but running on Spark distributed system. 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Package: r-cran-geostats Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 926 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-geostats_1.6-1.ca2004.1_all.deb Size: 891064 MD5sum: eacde0b8e459c38ba44fdce1b62785e7 SHA1: f4ab1556cff55c850fefd7aeba965ba1ef0455d7 SHA256: 534832cf9b37b04e23c97c7705b64d4597838d68899e67d1d8599d6f1d172913 SHA512: b404e7d1e6919913a7707c8fd3eee1ca3971525c9af6980a987665c8fa0135e06947077708e09c295a22202d7891f007fc72976108ca26cd54cfe3006c7ba92a Homepage: https://cran.r-project.org/package=geostats Description: CRAN Package 'geostats' (An Introduction to Statistics for Geoscientists) A collection of datasets and simplified functions for an introductory (geo)statistics module at University College London. Provides functionality for compositional, directional and spatial data, including ternary diagrams, Wulff and Schmidt stereonets, and ordinary kriging interpolation. Implements logistic and (additive and centred) logratio transformations. Computes vector averages and concentration parameters for the von-Mises distribution. Includes a collection of natural and synthetic fractals, and a simulator for deterministic chaos using a magnetic pendulum example. The main purpose of these functions is pedagogical. Researchers can find more complete alternatives for these tools in other packages such as 'compositions', 'robCompositions', 'sp', 'gstat' and 'RFOC'. All the functions are written in plain R, with no compiled code and a minimal number of dependencies. Theoretical background and worked examples are available at . 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It's easy to download data from TCGA using the gdc tool, but processing these data into a format suitable for bioinformatics analysis requires more work. This R package was developed to handle these data. 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Contains methods described by Brunsdon et al., 1996 , Brunsdon et al., 2002 , Harris et al., 2011 , Brunsdon et al., 2007 . Package: r-cran-geozoo Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bitops Suggests: r-cran-tourr, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-geozoo_0.5.1-1.ca2004.1_all.deb Size: 91484 MD5sum: d1d21c7668effaa231902521321654eb SHA1: 797ab9d7f6727ca5612bf633a61ff64e240b878d SHA256: 6b5c0b0c4ac9ecd4ddfa622bf5dd38a8882a08cb67bd50e08e09eb2128a9f3dd SHA512: ffa8141d26ed5959dcdf1ad0ba49b431c4b2b3072eb8fcefa92d04c9ab7b0bcb306c599856376a678094b5ea72fb368b9540eb7d9852b80e938ebd4ab4df4ec9 Homepage: https://cran.r-project.org/package=geozoo Description: CRAN Package 'geozoo' (Zoo of Geometric Objects) Geometric objects defined in 'geozoo' can be simulated or displayed in the R package 'tourr'. 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Package: r-cran-geppe Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-geppe_1.0-1.ca2004.1_all.deb Size: 36808 MD5sum: 364a07d296e63765f82498f23104677d SHA1: 8ebb6aa502ebf889eeb343e3aac7dc70406a8fe2 SHA256: 933110e624aa13cd5807b556ac6f556f93655d1efcbe6cfce9bb28b14a01481b SHA512: 869dd3d4e333049b34dc2d1e2068bf8057882347ac7751cba7cacd035aa4060a9f7cba9eb34b83c7747e95bdbde25cb214b590ce47350906cf895ea8282e220d Homepage: https://cran.r-project.org/package=geppe Description: CRAN Package 'geppe' (Generalised Exponential Poisson and Poisson ExponentialDistributions) Maximum likelihood estimation, random values generation, density computation and other functions for the exponential-Poisson generalised exponential-Poisson and Poisson-exponential distributions. References include: Rodrigues G. C., Louzada F. and Ramos P. L. (2018). "Poisson-exponential distribution: different methods of estimation". Journal of Applied Statistics, 45(1): 128--144. . Louzada F., Ramos, P. L. and Ferreira, H. P. (2020). "Exponential-Poisson distribution: estimation and applications to rainfall and aircraft data with zero occurrence". Communications in Statistics--Simulation and Computation, 49(4): 1024--1043. . Barreto-Souza W. and Cribari-Neto F. (2009). "A generalization of the exponential-Poisson distribution". Statistics and Probability Letters, 79(24): 2493--2500. . 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This model is constructed using a sequence of flexible conditional linear models that enables the resulting procedure to be efficiently implemented on high dimensional datasets in practice. See Robbins (2021) . 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The package facilitates access to data on turnout, vote shares for major parties, and demographic information across different levels of government (municipal, state, and federal). It offers access to geographically harmonized datasets that account for changes in municipal boundaries over time and incorporate mail-in voting districts. Users can easily retrieve, clean, and standardize German electoral data, making it ready for analysis. Data is sourced from . Package: r-cran-gerefer Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1924 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bibliorefer Filename: pool/dists/focal/main/r-cran-gerefer_0.1.2-1.ca2004.1_all.deb Size: 491596 MD5sum: 1933e32b86c78eead1f7fad996dae008 SHA1: e6fea30de75d9fab6a337f134530e0225c42ce6a SHA256: 5d3b09f3370a5d69b9ea292b1d85bcb585617264bbbce6a8ea7f6d673290312f SHA512: 72976d09aaec0e987b9e35bc4741b4bfa9e86ecdfa86e29dc6ff3342b4d3d6de70ad884650b1bc60d38f1b841ff956ebad71cb6608fc7a40920ef30fd0086950 Homepage: https://cran.r-project.org/package=gerefer Description: CRAN Package 'gerefer' (Preparer of Main Scientific References for Automatic Insertionin Academic Papers) Generates a file, containing the main scientific references, prepared to be automatically inserted into an academic paper. The articles present in the list are chosen from the main references generated, by function principal_lister(), of the package 'bibliorefer'. The generated file contains the list of metadata of the principal references in 'BibTex' format. Massimo Aria, Corrado Cuccurullo. (2017) . Caibo Zhou, Wenyan Song. (2021) . Hamid Derviş. (2019) . 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Package: r-cran-gernika Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6114 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.tree, r-cran-purrr, r-cran-reshape2, r-cran-diagrammer, r-cran-colorspace, r-cran-dplyr, r-cran-vctrs, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-knitcitations, r-cran-ggpubr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-gernika_1.1.0-1.ca2004.1_all.deb Size: 2290480 MD5sum: 92d3b1c586c314b83d92c07f75f12dc4 SHA1: d137088d224fcc276f0a054e9fab4243046db735 SHA256: 92a5b73122d1160e57b5814d108ae3492d4c7ce84eea770aec185e60b512933c SHA512: 81d62099fdd7014a431ba052315f6c3a7fb168ad74cd868551cfa853b330cc1dd76556752814da05ef307cbc3c505d673a5443dbf8264e7303754343e834d157 Homepage: https://cran.r-project.org/package=GeRnika Description: CRAN Package 'GeRnika' (Simulation, Visualization and Comparison of Tumor Evolution Data) Simulating, visualizing and comparing tumor clonal data by using simple commands. 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Package: r-cran-gesca Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gesca_1.0.5-1.ca2004.1_all.deb Size: 149996 MD5sum: 6f68a9af8a03a2b5226e065e8813138c SHA1: 5c9f8413675acda519668a13f4e7ba3a31b01fc6 SHA256: 1a570f9ec159d79d48807b37be95281617a60dc338182d2d7ed8f781b9cb65bd SHA512: 371d9c69adb57902323faf88d5053c1ff36d563542ceea39d03c5d4aa80064d3942988185dc36e91885c95a75de46b3772cda94b25e9e1903a9b1ce0421b4606 Homepage: https://cran.r-project.org/package=gesca Description: CRAN Package 'gesca' (Generalized Structured Component Analysis Structural EquationModeling) Implementing generalized structured component analysis (GSCA) and its basic extensions, including constrained single and multiple group analysis, and second order latent variable modeling. 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Package: r-cran-gestalt Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 398 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rlang Suggests: r-cran-magrittr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gestalt_0.2.0-1.ca2004.1_all.deb Size: 188644 MD5sum: 66c84f5810b9d18d9af4928eb32b03f9 SHA1: 53adf00d6b4971dded91e4cb25b55ffdae7a4589 SHA256: d230a95f6cbc0a40ea722572f6a927b51c6c9c89294604e4f707fc58015dfcbf SHA512: 103cb285f2836cfb3721c8ce78f615da142d340107b9bb1d38dd6b43780328503dc6d949191379ac881410e3256f4f210fd3ab78075fc69b5e8ffc4d19245b60 Homepage: https://cran.r-project.org/package=gestalt Description: CRAN Package 'gestalt' (Tools for Making and Combining Functions) Provides a suite of function-building tools centered around a (forward) composition operator, %>>>%, which extends the semantics of the 'magrittr' %>% operator and supports 'Tidyverse' quasiquotation. 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Package: r-cran-getbcbdata Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-curl, r-cran-dplyr, r-cran-future, r-cran-furrr, r-cran-jsonlite, r-cran-memoise, r-cran-purrr, r-cran-cli Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-getbcbdata_0.9.0-1.ca2004.1_all.deb Size: 39072 MD5sum: 3ced46568b59b4b9c08b2003f17ff415 SHA1: 97e2fdfb66ddf40d9310badbb30f9b06db90968d SHA256: 9d26c354308714463c4ca649ca0f62537d06b9fd2a0017d227f2baa0fa96db7f SHA512: 87c7af1d7c47ff2dce2d622a6fc0826f582637c9d15821fda44b8a418a93c2f664a95bb520208fc553ffca593b7a25a69f10282eb783671fbc80201ab3954854 Homepage: https://cran.r-project.org/package=GetBCBData Description: CRAN Package 'GetBCBData' (Imports Datasets from BCB (Central Bank of Brazil) using ItsOfficial API) Downloads and organizes datasets using BCB's API . Offers options for caching with the 'memoise' package and , multicore/multisession with 'furrr' and format of output data (long/wide). Package: r-cran-getcrucldata Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 695 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-data.table, r-cran-hoardr, r-cran-rlang, r-cran-terra Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rappdirs, r-cran-rmarkdown, r-cran-roxygen2, r-cran-roxyglobals, r-cran-spelling, r-cran-testthat, r-cran-viridis, r-cran-withr Filename: pool/dists/focal/main/r-cran-getcrucldata_1.0.3-1.ca2004.1_all.deb Size: 595616 MD5sum: adeb26691b79ccad2359492f499dbb97 SHA1: c682481395ca5db31eef336764ed7479c45b59f0 SHA256: 661586e34e93bfb404714e5c490aef500cc7a0392483b996c637c6658b43712c SHA512: c1c4b00c5b4f49b3ff5db02b08f9f44733ba6306c218f468e1f98746ed566ec7db7de8c92eb676ccc0f3e1898c6cc39a5812de5400d56fda75e49d2ab1c2bdce Homepage: https://cran.r-project.org/package=getCRUCLdata Description: CRAN Package 'getCRUCLdata' ('CRU' 'CL' v. 2.0 Climatology Client) Provides functions that automate downloading and importing University of East Anglia Climate Research Unit ('CRU') 'CL' v. 2.0 climatology data, facilitates the calculation of minimum temperature and maximum temperature and formats the data into a data.table object or a list of 'terra' 'rast' objects for use. 'CRU' 'CL' v. 2.0 data are a gridded climatology of 1961-1990 monthly means released in 2002 and cover all land areas (excluding Antarctica) at 10 arc minutes (0.1666667 degree) resolution. For more information see the description of the data provided by the University of East Anglia Climate Research Unit, . Package: r-cran-getdesigns Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-getdesigns_1.2.0-1.ca2004.1_all.deb Size: 20780 MD5sum: 0dcc20ff19fdd9d3df8d5b5145e99635 SHA1: b90d9dfe7f5ff5ecfc1cc2e5059ee48a77d5d5eb SHA256: bd3ad2e70fa5ea6d62f2c0b8f114fc2e0062a2a8ed3d8c1df15342a6ca4f88d2 SHA512: 1bd2a48fb4174ad7ad7cd90ed67786dfdc62bf52656fbd77107d8088b1e144101c56030b52c409d5c9b26ebe764076d3489195cd4a90f56582b00efcff9336d2 Homepage: https://cran.r-project.org/package=GETdesigns Description: CRAN Package 'GETdesigns' (Generalized Extended Triangular Designs ('GETdesigns')) Since their introduction by Bose and Nair (1939) , partially balanced incomplete block (PBIB) designs remain an important class of incomplete block designs. The concept of association scheme was used by Bose and Shimamoto (1952) for the classification of these designs. The constraint of resources always motivates the experimenter to advance towards PBIB designs, more specifically to higher associate class PBIB designs from balanced incomplete block designs. It is interesting to note that many times higher associate PBIB designs perform better than their counterpart lower associate PBIB designs for the same set of parameters v, b, r, k and lambda_i (i=1,2...m). This package contains functions named GETD() for generating m-associate (m>=2) class PBIB designs along with parameters (v, b, r, k and lambda_i, i = 1, 2,…,m) based on Generalized Triangular (GT) Association Scheme. It also calculates the Information matrix, Average variance factor and canonical efficiency factor of the generated design. These designs, besides having good efficiency, require smaller number of replications and smallest possible concurrence of treatment pairs. Package: r-cran-getdfpdata2 Architecture: all Version: 0.6.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-stringr, r-cran-xml2, r-cran-dplyr, r-cran-readr, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-memoise, r-cran-rvest, r-cran-tidyr, r-cran-rcurl, r-cran-shiny, r-cran-writexl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggplot2, r-cran-covr, r-cran-fs Filename: pool/dists/focal/main/r-cran-getdfpdata2_0.6.3-1.ca2004.1_all.deb Size: 52276 MD5sum: 828b25246649d46701961cef8da98020 SHA1: 2ce0cfe375f5c938f2b01a71198ccf807eabf351 SHA256: bb8047c23e3c1d6f9bd72eceae438b42cb0ea1a6d43b868b3db4e79d3b2e4586 SHA512: 2995b297eeeee1b39f35728931c600d31e7acf52868566210e170a432e47483ec6ce649e06101fc5573f3144651b8ea3fcdd81eac4db0d54b4e85328b4ba5a28 Homepage: https://cran.r-project.org/package=GetDFPData2 Description: CRAN Package 'GetDFPData2' (Reading Annual and Quarterly Financial Reports from B3) Reads annual and quarterly financial reports from companies traded at B3, the Brazilian exchange . All data is downloaded and imported from CVM's public ftp site . 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These are web based interfaces for all financial reports of companies traded at Bovespa. The package is specially designed for large scale data importation, keeping a tabular (long) structure for easier processing. Package: r-cran-getdteval Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 840 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-formulaic, r-cran-microbenchmark Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-testthat, r-cran-covr, r-cran-devtools Filename: pool/dists/focal/main/r-cran-getdteval_0.0.2-1.ca2004.1_all.deb Size: 244832 MD5sum: 66b7bc39b41007f8edb88a63072262ad SHA1: e5a14080b4bc282ce70fe01b45103a718dd1f7d9 SHA256: 2a4f7fb5da83488f9b1228f1268f3010d7156ca916eb3ce8ad40dfb7a1b91d84 SHA512: 313cf45d1c3dd8cc57fe395681ba11bd00be294262ae14e8b0306d55a24e6e6399d8914a889820961833b8c3c934a931076348c8a56ffa557511f7fcfd2f7572 Homepage: https://cran.r-project.org/package=getDTeval Description: CRAN Package 'getDTeval' (Translating Coding Statements using get() and eval() forImproved Run-Time Coding Efficiency) The getDTeval() function facilitates the translation of the original coding statement to an optimized form for improved runtime efficiency without compromising on the programmatic coding design. 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All data is downloaded and imported from the ftp site . Package: r-cran-gethr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 510 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-httr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gethr_0.1.0-1.ca2004.1_all.deb Size: 425772 MD5sum: bcaeb907835020926da691bf7cdaa9f1 SHA1: 168f0a63e7676d2eed8d4d6a89d00350f2939908 SHA256: 5967ca7fc3fa6e99edf5e8c905317895215ea6241ce73fd0aba6bc3f69f7a879 SHA512: 6f81df0b877d22293ebc4c75fa85be90106a0b249f6a32a21a9e4e557a028cd49f3853a486fb6d93609c3d85e0d1d661061244efc672a003234e92028c0e33d7 Homepage: https://cran.r-project.org/package=gethr Description: CRAN Package 'gethr' (Access to Ethereum-Based Blockchains Through Geth Nodes) Full access to the Geth command line interface for running full Ethereum nodes. With gethr it is possible to carry out different tasks such as mine ether, transfer funds, create contacts, explore block history, etc. The package also provides access to all the available APIs. The officially exposed by Ethereum blockchains (eth, shh, web3, net) and some provided directly by Geth (admin, debug, miner, personal, txpool). For more details on Ethereum, access the project website . For more details on the Geth client, access the project website . Package: r-cran-getlandsat Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1607 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-readr, r-cran-crul, r-cran-xml2, r-cran-data.table, r-cran-tibble, r-cran-rappdirs Suggests: r-cran-roxygen2, r-cran-testthat, r-cran-knitr, r-cran-raster Filename: pool/dists/focal/main/r-cran-getlandsat_0.2.0-1.ca2004.1_all.deb Size: 617348 MD5sum: a095faa4338cb03f83d13ca953b2f2c2 SHA1: 26fda0298595ceb0641db32ea50ebf87b0ba7266 SHA256: a44b6051961b4170b9ba18b2e588e04fd9f4ae9f004d65cba258176bd95c290f SHA512: cc5ba7fb6d69404a5da18c1cacf93d614e73900990d68a87caa0e9dbfc4dbbce899aa57f639b770cfb686d29e4f8d30045a9c45ac36cb2082b4c74e85e463124 Homepage: https://cran.r-project.org/package=getlandsat Description: CRAN Package 'getlandsat' (Get Landsat 8 Data from Amazon Public Data Sets) Get Landsat 8 Data from Amazon Web Services ('AWS') public data sets (). Includes functions for listing images and fetching them, and handles caching to prevent unnecessary additional requests. Package: r-cran-getlattes Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3739 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-dplyr, r-cran-tibble, r-cran-piper, r-cran-rlang, r-cran-janitor, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-getlattes_0.2.0-1.ca2004.1_all.deb Size: 2831272 MD5sum: a5ac9fc0a610b26b46225df7cb50c459 SHA1: 5ba92c58727199557fbc4705d168a26194ef8855 SHA256: eade9587d970665e01fe1e1cb106385bf3003c2fc824e2cca49d021b901de02f SHA512: 0ecd3b6288de0abebacd56a1c61472b9504601fed80199c2fff4184f6797149f4f890fa3e700a60958bccdd9a8ba0c900c7448f9a881924a5ed67d138469dcf7 Homepage: https://cran.r-project.org/package=getLattes Description: CRAN Package 'getLattes' (Import and Process Data from the 'Lattes' Curriculum Platform) Tool for import and process data from 'Lattes' curriculum platform (). The Brazilian government keeps an extensive base of curricula for academics from all over the country, with over 5 million registrations. The academic life of the Brazilian researcher, or related to Brazilian universities, is documented in 'Lattes'. Some information that can be obtained: professional formation, research area, publications, academics advisories, projects, etc. 'getLattes' package allows work with 'Lattes' data exported to XML format. 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Package: r-cran-getmet Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ecohydrology, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-getmet_0.3.2-1.ca2004.1_all.deb Size: 41688 MD5sum: 752bdda8b95848f67048bccdacbfc6d7 SHA1: 0dd4896d1baf23623635cf61804123ab72ae90d3 SHA256: 0cd3dba31c0c6d3870c5521128378567c79d7581dc05bf973c44789375fa032d SHA512: 8fcd05dc949ccce17b6a382ccbddcdcfb80b56b0e7e49e196f64d212eea85dec99d50759b66c64e909b1dacbf310ae613cf3c9c1140778d560276617d904dd3c Homepage: https://cran.r-project.org/package=getMet Description: CRAN Package 'getMet' (Get Meteorological Data for Hydrologic Models) Hydrologic models often require users to collect and format input meteorological data. This package contains functions for sourcing, formatting, and editing meteorological data for hydrologic models. Package: r-cran-getmstatistic Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 597 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-gtable, r-cran-metafor, r-cran-psych, r-cran-stargazer Suggests: r-cran-foreign, r-cran-knitr, r-cran-testthat, r-cran-covr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-getmstatistic_0.2.2-1.ca2004.1_all.deb Size: 416732 MD5sum: bf37b5096f73b268ebcf6998ffc437f1 SHA1: d06651454572cfbf2f719451e1fb661c4a3735d4 SHA256: 7f75f112aa1ec34dfd6d8dcbe21d7e0139f90b4c160332d91ce9ba815ecf32b1 SHA512: a600e07043b951dae1387d5d17100c5eae4375626aa4d1d808aaa78084979989d5237a1845ca44c9b4f8fe5894b85558e3693948b2ccbe519ebc1cc552453216 Homepage: https://cran.r-project.org/package=getmstatistic Description: CRAN Package 'getmstatistic' (Quantifying Systematic Heterogeneity in Meta-Analysis) Quantifying systematic heterogeneity in meta-analysis using R. The M statistic aggregates heterogeneity information across multiple variants to, identify systematic heterogeneity patterns and their direction of effect in meta-analysis. It's primary use is to identify outlier studies, which either show "null" effects or consistently show stronger or weaker genetic effects than average across, the panel of variants examined in a GWAS meta-analysis. In contrast to conventional heterogeneity metrics (Q-statistic, I-squared and tau-squared) which measure random heterogeneity at individual variants, M measures systematic (non-random) heterogeneity across multiple independently associated variants. Systematic heterogeneity can arise in a meta-analysis due to differences in the study characteristics of participating studies. Some of the differences may include: ancestry, allele frequencies, phenotype definition, age-of-disease onset, family-history, gender, linkage disequilibrium and quality control thresholds. See for statistical statistical theory, documentation and examples. Package: r-cran-getopt Architecture: all Version: 1.20.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-getopt_1.20.4-1.ca2004.1_all.deb Size: 37740 MD5sum: 19d074f374459ecdc05dd8d556dd1f19 SHA1: 09fa793f5293977f611ea7c0cf03d980143ca48b SHA256: 8539dfc3ada685caef27acfb4cb85b8161f54bf4f5876d7c8c27d4c76b6cd526 SHA512: 20112e206ffe460eed64beeaf1bc28d1f174f708f27a5086ca83365bcc7e7bd26e7f78fdf80de36ba005e15be114cc7bd22a80f9b420e3c3a171b497ef15c1c4 Homepage: https://cran.r-project.org/package=getopt Description: CRAN Package 'getopt' (C-Like 'getopt' Behavior) Package designed to be used with Rscript to write '#!' shebang scripts that accept short and long flags/options. 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Package: r-cran-ggalluvial Architecture: all Version: 0.12.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2293 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-lazyeval, r-cran-rlang, r-cran-tidyselect Suggests: r-cran-alluvial, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-babynames, r-cran-sessioninfo, r-cran-ggrepel, r-cran-shiny, r-cran-htmltools, r-cran-sp, r-cran-ggfittext, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggalluvial_0.12.5-1.ca2004.1_all.deb Size: 1497440 MD5sum: ce47dfa1a5e7b5f2924cd9dddcfe4a64 SHA1: 0b3e0de81a8e481af3e7c833aae3dafac813bb6f SHA256: 402e77acf1b2a260b8d8199a7d91a6c5ddc1b5b0e0fdac61380e83fe58e0a80f SHA512: 8b8eb8be0603edad01a3b5e18fd41f301b2f331777b361b8be33afa983de4ffb5fd47d95bf099435551a2f983275cf2170fb72983619d2103bca40a900603d7b Homepage: https://cran.r-project.org/package=ggalluvial Description: CRAN Package 'ggalluvial' (Alluvial Plots in 'ggplot2') Alluvial plots use variable-width ribbons and stacked bar plots to represent multi-dimensional or repeated-measures data with categorical or ordinal variables; see Riehmann, Hanfler, and Froehlich (2005) and Rosvall and Bergstrom (2010) . 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Package: r-cran-ggally Architecture: all Version: 2.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2066 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-ggstats, r-cran-gtable, r-cran-lifecycle, r-cran-plyr, r-cran-progress, r-cran-rcolorbrewer, r-cran-rlang, r-cran-scales, r-cran-magrittr Suggests: r-cran-broom, r-cran-broom.helpers, r-cran-chemometrics, r-cran-geosphere, r-cran-ggforce, r-cran-hmisc, r-cran-igraph, r-cran-intergraph, r-cran-labelled, r-cran-maps, r-cran-mapproj, r-cran-nnet, r-cran-network, r-cran-scagnostics, r-cran-sna, r-cran-survival, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat, r-cran-crosstalk, r-cran-knitr, r-cran-spelling, r-cran-emmeans, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggally_2.2.1-1.ca2004.1_all.deb Size: 1977436 MD5sum: a24f512808749a2b48c7420720fad204 SHA1: 970252889be659fc9c83b4c6dae5a81d675d5226 SHA256: e3781951e5ed381ec717a352eb93139cdc951ad38273cfb77d0e673f8ca6b0a5 SHA512: ff5e7d4a698de1840d562b3a745ac01948ab947d75ea48579862bf8fdf5341a09e8834a7d0b497027457b65dc7f62d69fba9c6d12ec3381f61c3eff9c9f17b13 Homepage: https://cran.r-project.org/package=GGally Description: CRAN Package 'GGally' (Extension to 'ggplot2') The R package 'ggplot2' is a plotting system based on the grammar of graphics. 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Cleveland's book 'Visualizing Data' is a classic piece of literature on Exploratory Data Analysis. Although it was written several decades ago, its content is still relevant as it proposes several tools which are useful to discover patterns and relationships among the data under study, and also to assess the goodness of fit o a model. This package provides functions to produce the 'ggplot2' versions of the visualization tools described in this book and is thought to be used in the context of courses on Exploratory Data Analysis. Package: r-cran-ggcompare Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-ggcompare_0.0.3-1.ca2004.1_all.deb Size: 132380 MD5sum: c4ecde7c22f1729babf554450d08776f SHA1: 80992c65f53c03dc37c95fb87a775c16e0929a2c SHA256: a270fd2b943dd21e574f6f21607ec7d381e460e77529de22068fdf0680e4e09f SHA512: 17d57e10d72e1bacfd83fa98c6d5c0dceed6507abedccba8a8f5def18de8406fd6516f0a711f26bd1cfc4e2d8dd54855d8db26833e61a231124642c493dd17e4 Homepage: https://cran.r-project.org/package=ggcompare Description: CRAN Package 'ggcompare' (Mean Comparison in 'ggplot2') Add mean comparison annotations to a 'ggplot'. This package provides an easy way to indicate if two or more groups are significantly different in a 'ggplot'. Usually you do not need to specify the test method, you only need to tell stat_compare() whether you want to perform a parametric test or a nonparametric test, and stat_compare() will automatically choose the appropriate test method based on your data. For comparisons between two groups, the p-value is calculated by t-test (parametric) or Wilcoxon rank sum test (nonparametric). For comparisons among more than two groups, the p-value is calculated by One-way ANOVA (parametric) or Kruskal-Wallis test (nonparametric). 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Package: r-cran-ggcorrplot Architecture: all Version: 0.1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-spelling, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggcorrplot_0.1.4.1-1.ca2004.1_all.deb Size: 29624 MD5sum: d2d0662b167a5e234fce6ba7f7dbb640 SHA1: 73825e1d2aead0291c5ffc7d2ec6d6622b6a6ee3 SHA256: 95b475a123fc308086112b0d1e96b9ad378ccbea82177bea74a4bddf7a742535 SHA512: 34816328e08810545a525616665e19e68f04cf72e2845a299ac816761aafa16174a898d438c9b0d96241dd7b9c6fa0b211a725e1abb26aa1800ff18f6cf51561 Homepage: https://cran.r-project.org/package=ggcorrplot Description: CRAN Package 'ggcorrplot' (Visualization of a Correlation Matrix using 'ggplot2') The 'ggcorrplot' package can be used to visualize easily a correlation matrix using 'ggplot2'. 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The distribution of measurements are visualized at each time point, whilst the trajectories of individual change are visualized by connecting the pre- and post- values linearly. These lines can be coloured to represent the magnitude of change, or other user-defined value. This method of visualization is ideal for showing the heterogeneity of data, including differences by sub-groups. The package relies on 'ggplot2' allowing for easy integration so that users can customize their visualizations as required. Users can create corset plots using data in either wide or long format using the functions gg_corset() or gg_corset_elongated(), respectively. Package: r-cran-ggcoverage Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7174 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-bioc-genomicranges, r-bioc-ggbio, r-cran-ggh4x, r-cran-ggplot2, r-cran-ggrepel, r-bioc-iranges, r-cran-magrittr, r-cran-patchwork, r-cran-rcolorbrewer, r-cran-rlang, r-bioc-rsamtools, r-bioc-rtracklayer, r-cran-scales, r-bioc-genomeinfodb, r-bioc-s4vectors, r-bioc-biostrings, r-bioc-bsgenome, r-bioc-genomicalignments, r-cran-reshape2, r-cran-seqinr Suggests: r-cran-rmarkdown, r-cran-knitr, r-bioc-biocstyle, r-cran-htmltools, r-bioc-bsgenome.hsapiens.ucsc.hg19 Filename: pool/dists/focal/main/r-cran-ggcoverage_0.7.1-1.ca2004.1_all.deb Size: 2530104 MD5sum: 499654b9f3e46316626e67216b110f31 SHA1: 7f26e17f644ce89b278d48ec834d9ab607d32ec6 SHA256: 4916594f43eef6e6569d8a478d617b43d925eafdf9aa419e49a80804ff69b8b1 SHA512: c4174e318d05bfd5dda9036dfee550b134c8edee90a1b1c723b1156fd3dc257b2edd48374597d271594030827783827f1b1a1e84de0b7076cb3f23840bb95c91 Homepage: https://cran.r-project.org/package=ggcoverage Description: CRAN Package 'ggcoverage' (Visualize Genome Coverage with Various Annotations) The goal of 'ggcoverage' is to simplify the process of visualizing genome coverage. 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Package: r-cran-ggdark Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1595 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggdark_0.2.1-1.ca2004.1_all.deb Size: 1517504 MD5sum: a2d6066cb09483eb7e6893875760e981 SHA1: e932896332eb7ef6cca8a62458fa61961bf25e42 SHA256: ef8d75c97a7700436703667a024efaceae7486a7e7bacb4f31da6c59ed3220fe SHA512: a68a6ea5b225138f661ef1eec5fed028838a493ed9760298a2a6aaa337f6bd0285d28d5091ca8a0475c47cde0fd833e5af63492574a646dcb4c460342ea2e795 Homepage: https://cran.r-project.org/package=ggdark Description: CRAN Package 'ggdark' (Dark Mode for 'ggplot2' Themes) Activate dark mode on your favorite 'ggplot2' theme with dark_mode() or use the dark versions of 'ggplot2' themes, including dark_theme_gray(), dark_theme_minimal(), and others. 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Package: r-cran-ggdemetra Architecture: all Version: 0.2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4088 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-rjdemetra, r-cran-ggrepel, r-cran-gridextra Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggdemetra_0.2.9-1.ca2004.1_all.deb Size: 2434892 MD5sum: 2e7ca063af3c48e10cc76448ac3b3ecf SHA1: 17699ded718d115530b766a2085776bf51a376a1 SHA256: 0d5edfafe187d12af79d793040ec6109991a09827a859d94fd4b6beaca8a05b6 SHA512: e14801e361f71809a8f20fcfbb81a2b016aa1fbe10eead18209037276ce4f25b0090ab2205646abe03f69c2e5a771738ee747c646564c98f3d286087522778c9 Homepage: https://cran.r-project.org/package=ggdemetra Description: CRAN Package 'ggdemetra' ('ggplot2' Extension for Seasonal and Trading Day Adjustment with'RJDemetra') Provides 'ggplot2' functions to return the results of seasonal and trading day adjustment made by 'RJDemetra'. 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Package: r-cran-ggdensity Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 817 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-isoband, r-cran-vctrs, r-cran-tibble, r-cran-mass, r-cran-scales Suggests: r-cran-vdiffr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggdensity_1.0.0-1.ca2004.1_all.deb Size: 427508 MD5sum: 98847f1598dadfa193d800f0bb684e61 SHA1: 84d12bdeb3eb6ac06541b71f9e593f9275529d53 SHA256: 4ba9e9fa8a1da70b5f315ec219414af56056c768097f3571eb48daccb068f41d SHA512: 414781a23184533c1d4fbecd11aa99ee2bc08569509af10ae577f806d05a3a01fade23aa0d71d5453af84c91e6e0b08960f0f3634af4bade1793102e60c9e70b Homepage: https://cran.r-project.org/package=ggdensity Description: CRAN Package 'ggdensity' (Interpretable Bivariate Density Visualization with 'ggplot2') The 'ggplot2' package provides simple functions for visualizing contours of 2-d kernel density estimates. 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Package: r-cran-ggpca Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1072 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-config, r-cran-golem, r-cran-shiny, r-cran-rlang, r-cran-rtsne, r-cran-cowplot, r-cran-dplyr, r-cran-ggplot2, r-cran-umap Suggests: r-cran-knitr, r-cran-tibble, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggpca_0.1.3-1.ca2004.1_all.deb Size: 534432 MD5sum: 98b2bee8f4fe962d881bfdb95a97d69e SHA1: 59aad09324a398b49649ec5de88d94f321a85b17 SHA256: 3133cb41cc2b8153d77b104dc56743facadca4bf3c27a658515379c91f85e988 SHA512: 6f99c4191129ed1ca4adf29eafb742d587630ae691e588ce3bf9b61211326ceef4b999498fd3c5a71f5201ce933a9f6d57101bd3021a6664d471aeebc93d6171 Homepage: https://cran.r-project.org/package=ggpca Description: CRAN Package 'ggpca' (Publication-Ready PCA, t-SNE, and UMAP Plots) Provides tools for creating publication-ready dimensionality reduction plots, including Principal Component Analysis (PCA), t-Distributed Stochastic Neighbor Embedding (t-SNE), and Uniform Manifold Approximation and Projection (UMAP). 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Package: r-cran-ggpedigree Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3526 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bgmisc, r-cran-kinship2, r-cran-ggplot2, r-cran-ggrepel, r-cran-rlang, r-cran-dplyr, r-cran-stringr, r-cran-plotly, r-cran-reshape2, r-cran-scales, r-cran-tidyr, r-cran-paletteer Suggests: r-cran-mockery, r-cran-patchwork, r-cran-viridis, r-cran-knitr, r-cran-tidyverse, r-cran-purrr, r-cran-data.table, r-cran-discord, r-cran-openmx, r-cran-nlsylinks, r-cran-rmarkdown, r-cran-tibble, r-cran-corrplot, r-cran-readxl, r-cran-htmlwidgets, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggpedigree_0.7.0-1.ca2004.1_all.deb Size: 825416 MD5sum: 0de8732a03defa2aaaf9de6a73e110f3 SHA1: 88c4d9759bb55c0cf5186a7820bd98ff74826bcf SHA256: 86e79b8730ce58e0df7960b65f09d372cfede9e642c238951189b877e7aba522 SHA512: 4beacf1b25639b4003d907409b14d8275b9f79cf9bfecb4daf4b5d739f678781f5447bef24d33027894f944aa903add0ca88455a11fb13557bee93308794c7f4 Homepage: https://cran.r-project.org/package=ggpedigree Description: CRAN Package 'ggpedigree' (Visualizing Pedigrees with 'ggplot2' and 'plotly') Provides plotting functions for visualizing pedigrees in behavior genetics and kinship research. The package complements 'BGmisc' [Garrison et al. (2024) ] by rendering pedigrees using the 'ggplot2' framework and offers a modern alternative to the base-graphics pedigree plot in 'kinship2' [Sinnwell et al. (2014) ]. Features include support for duplicated individuals, complex mating structures, integration with simulated pedigrees, and layout customization. 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Package: r-cran-ggpicrust2 Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2193 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aplot, r-cran-dplyr, r-cran-ggplot2, r-cran-ggh4x, r-cran-readr, r-cran-tibble, r-cran-tidyr, r-cran-ggprism, r-cran-patchwork, r-cran-ggplotify, r-cran-magrittr, r-cran-progress, r-cran-tidygraph, r-cran-ggraph Suggests: r-bioc-biobase, r-bioc-keggrest, r-bioc-complexheatmap, r-bioc-biocgenerics, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-aldex2, r-bioc-deseq2, r-bioc-edger, r-cran-ggally, r-bioc-limma, r-bioc-maaslin2, r-bioc-metagenomeseq, r-cran-microbiomestat, r-bioc-summarizedexperiment, r-cran-circlize, r-bioc-lefser, r-bioc-fgsea, r-bioc-clusterprofiler, r-bioc-enrichplot, r-bioc-dose, r-bioc-pathview, r-cran-ggvenndiagram, r-cran-upsetr, r-cran-igraph Filename: pool/dists/focal/main/r-cran-ggpicrust2_2.1.2-1.ca2004.1_all.deb Size: 2140848 MD5sum: 0e8de31b1d89a20d69e5a55d04343d26 SHA1: ce71492f6e43c340df2e4a1628a6a66f114d77a6 SHA256: b9d07679257b666442755cbcdad7b29b138f79fb9844cfe52636695f5071516d SHA512: 895ccc5af5b9bd3e9cc6c0d6ff34753f2f62e65aad2e29fb13903e6fb9eaa85a5c8acb79547bcfd4ab836fb9e678812e7e85f2703a87f6463aa1869972f020bf Homepage: https://cran.r-project.org/package=ggpicrust2 Description: CRAN Package 'ggpicrust2' (Make 'PICRUSt2' Output Analysis and Visualization Easier) Provides a convenient way to analyze and visualize 'PICRUSt2' output with pre-defined plots and functions. Allows for generating statistical plots about microbiome functional predictions and offers customization options. Features a one-click option for creating publication-level plots, saving time and effort in producing professional-grade figures. Streamlines the 'PICRUSt2' analysis and visualization process. For more details, see Yang et al. (2023) . Package: r-cran-ggpie Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2694 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-scales, r-cran-tibble, r-cran-ggnewscale, r-cran-ggplot2, r-cran-ggrepel, r-cran-magrittr, r-cran-rlang, r-cran-stringr Suggests: r-cran-rmarkdown, r-cran-cowplot, r-cran-prettydoc, r-cran-knitr Filename: pool/dists/focal/main/r-cran-ggpie_0.2.5-1.ca2004.1_all.deb Size: 2048344 MD5sum: b2c9696e6d68ae7e673ed5433769e8fa SHA1: 2225faec27294709bd91b91afe1606cb6a6d0b3a SHA256: 72dd81f436c011e1a2be3e0e0dd4a8f6ab417e4ecc726f7748b4f3aac9bd4a2a SHA512: 5b79a394f53419e58152804d4f6eb3b840c6992b4a8acec816365e732f2dc494d304380ea9c898f6c07b05f31169a783585918787200623c7b4fe99ca1ae1617 Homepage: https://cran.r-project.org/package=ggpie Description: CRAN Package 'ggpie' (Pie, Donut and Rose Pie Plots) Create pie, donut and rose pie plot with 'ggplot2'. Package: r-cran-ggplate Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4824 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-scales, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-forcats, r-cran-farver Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggplate_0.1.5-1.ca2004.1_all.deb Size: 4434572 MD5sum: cfe93f2acaa0a1b98a3967cda8411138 SHA1: 2937924276431951d530e2932621b6df88da71ea SHA256: 819fd4b793b55ad8d0c4fb03de020c7601ca5b4bcc419246052603552ded29d6 SHA512: f2ba929def76ae753c88c507522354ed96b89c72254491f0c38660fa6067ac698fba67ea3d6dbc608f5e5ca776bcfc1a2ad6c7c085cfbb85acada37a38c39408 Homepage: https://cran.r-project.org/package=ggplate Description: CRAN Package 'ggplate' (Create Layout Plots of Biological Culture Plates and Microplates) Enables users to create simple plots of biological culture plates as well as microplates. 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Package: r-cran-ggplot2.utils Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-checkmate, r-cran-envstats, r-cran-ggpp, r-cran-ggstats, r-cran-survival Suggests: r-cran-dplyr, r-cran-lifecycle, r-cran-testthat, r-cran-tibble, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggplot2.utils_0.3.2-1.ca2004.1_all.deb Size: 152740 MD5sum: b03c3666eaf1388bb43f13cd735507c8 SHA1: bd575813189ac1144b4a21b96c5f1c764fc59784 SHA256: e96c8f577160198a0552dd2df824e570b8522479a44b14d3bf309567269c9c85 SHA512: b2376033e02f388159468e82224b8b0473e22d1c4550ac553041387f1ef9896eaf6235ca6ee1c9a0da1c1a53ca50d04c40b15a54baaaa7727da98e4161328daa Homepage: https://cran.r-project.org/package=ggplot2.utils Description: CRAN Package 'ggplot2.utils' (Selected Utilities Extending 'ggplot2') Selected utilities, in particular 'geoms' and 'stats' functions, extending the 'ggplot2' package. This package imports functions from 'EnvStats' by Millard (2013), 'ggpp' by Aphalo et al. (2023) and 'ggstats' by Larmarange (2023), and then exports them. This package also contains modified code from 'ggquickeda' by Mouksassi et al. (2023) for Kaplan-Meier lines and ticks additions to plots. All functions are tested to make sure that they work reliably. Package: r-cran-ggplot2 Architecture: all Version: 3.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6001 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-gtable, r-cran-isoband, r-cran-lifecycle, r-cran-mass, r-cran-mgcv, r-cran-rlang, r-cran-scales, r-cran-tibble, r-cran-vctrs, r-cran-withr Suggests: r-cran-covr, r-cran-dplyr, r-cran-ggplot2movies, r-cran-hexbin, r-cran-hmisc, r-cran-knitr, r-cran-mapproj, r-cran-maps, r-cran-multcomp, r-cran-munsell, r-cran-nlme, r-cran-profvis, r-cran-quantreg, r-cran-ragg, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-rpart, r-cran-sf, r-cran-svglite, r-cran-testthat, r-cran-vdiffr, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-ggplot2_3.5.2-1.ca2004.1_all.deb Size: 4730920 MD5sum: 1f5e38902fc716cd7b9afc53a3891cb9 SHA1: b28b70dcaf0ef2cb5581613b0449b2e2841010eb SHA256: c1e833c7ba81beaa7b38be5f6338d3ee66b81e47bdbd27b4bd323636f4d6a0b6 SHA512: d0b5404ea2146819252c9776c28e52a11905b910210eefe02175792551daf669db1b74236e9131fc73315498d8f2454375397388e3632b029548ae3cb6249568 Homepage: https://cran.r-project.org/package=ggplot2 Description: CRAN Package 'ggplot2' (Create Elegant Data Visualisations Using the Grammar of Graphics) A system for 'declaratively' creating graphics, based on "The Grammar of Graphics". You provide the data, tell 'ggplot2' how to map variables to aesthetics, what graphical primitives to use, and it takes care of the details. Package: r-cran-ggplot2movies Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1263 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ggplot2movies_0.0.1-1.ca2004.1_all.deb Size: 1248708 MD5sum: 6e74de07c6bd4fb5c454dc6258ea6def SHA1: ef6e467112c3490643b5c2e84ed42521bd7dfe66 SHA256: d51317622acfc724a0e5d303a93012d529064a3c838e48633c71e8b08341f836 SHA512: 75894dd6ef095cb157c63b438090753fdcba3846deec2b91e7e15bfdc767d59303fa8b5c783464906f29fca30599a2910aae81b744507c189ec366d259a2ccfd Homepage: https://cran.r-project.org/package=ggplot2movies Description: CRAN Package 'ggplot2movies' (Movies Data) A dataset about movies. This was previously contained in ggplot2, but has been moved its own package to reduce the download size of ggplot2. Package: r-cran-ggplotassist Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1418 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-miniui, r-cran-rstudioapi, r-cran-shinywidgets, r-cran-shinyace, r-cran-stringr, r-cran-tidyverse, r-cran-ggplot2, r-cran-dplyr, r-cran-magrittr, r-cran-tibble, r-cran-scales, r-cran-ggthemes, r-cran-gcookbook, r-cran-moonbook, r-cran-editdata Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-markdown Filename: pool/dists/focal/main/r-cran-ggplotassist_0.1.3-1.ca2004.1_all.deb Size: 754916 MD5sum: 138effa3bfcebca3b4a6051b47484d8d SHA1: 8577059428b7d029ec9a39c4edb29c0fc6a71128 SHA256: dc12b5807f03f842c5f0f9062c61fd24550c7fccef4385cf5d39bcc619c79770 SHA512: dd6cc64d374aa7e8c674bcfbfa9b1642fc7563e42cd8e01905cc8af788ffeaccdd88c187450b77f030fd37c4d4ad63ab8f176255cfc5bb62dbe488b19375b5c5 Homepage: https://cran.r-project.org/package=ggplotAssist Description: CRAN Package 'ggplotAssist' ('RStudio' Addin for Teaching and Learning 'ggplot2') An 'RStudio' addin for teaching and learning making plot using the 'ggplot2' package. You can learn each steps of making plot by clicking your mouse without coding. You can get resultant code for the plot. Package: r-cran-ggplotgui Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 708 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plotly, r-cran-shiny, r-cran-ggplot2, r-cran-stringr, r-cran-readr, r-cran-haven, r-cran-readxl, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-ggplotgui_1.0.0-1.ca2004.1_all.deb Size: 627720 MD5sum: 02baeba22dd0d98a5ca8b6bf565594db SHA1: cca1ce9c8a2025eeb58ea5117f69b97438c1cfe9 SHA256: c26397a9af1e9ee52e617c7c62f78594b23144a436c9d75c1b60f5e85c24efc8 SHA512: 8fb1dea13a52619587af90b269f5022ceaffe4a2e57876150fa175c584774490c7aca3b5e8a4828deb00f06feea4e2c97304aa2bed2d5bb9f7cd716c303c3fca Homepage: https://cran.r-project.org/package=ggplotgui Description: CRAN Package 'ggplotgui' (Create Ggplots via a Graphical User Interface) Easily explore data by creating ggplots through a (shiny-)GUI. R-code to recreate graph provided. Package: r-cran-ggplotify Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 237 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-gridgraphics, r-cran-yulab.utils Suggests: r-cran-aplot, r-cran-colorspace, r-cran-cowplot, r-cran-ggimage, r-cran-knitr, r-cran-rmarkdown, r-cran-lattice, r-cran-prettydoc, r-cran-vcd Filename: pool/dists/focal/main/r-cran-ggplotify_0.1.2-1.ca2004.1_all.deb Size: 135880 MD5sum: 5cae01153819fd434bab7637a2b283b2 SHA1: f8ebae8a9950f7d21b52ec6e52bc3d442253b042 SHA256: 10e63e8ed1a2953461aab59a59768e0c28d12019a9907a70d339cc1852ec06e6 SHA512: 89588b290acb445a5983765b02a687a07808ffb86b6b782695c9d5ea7b5b3a95994e2e93489324eeca3e11551afe5a2eff8475a81a744a1483165b607e2b65f7 Homepage: https://cran.r-project.org/package=ggplotify Description: CRAN Package 'ggplotify' (Convert Plot to 'grob' or 'ggplot' Object) Convert plot function call (using expression or formula) to 'grob' or 'ggplot' object that compatible to the 'grid' and 'ggplot2' ecosystem. With this package, we are able to e.g. using 'cowplot' to align plots produced by 'base' graphics, 'ComplexHeatmap', 'eulerr', 'grid', 'lattice', 'magick', 'pheatmap', 'vcd' etc. by converting them to 'ggplot' objects. Package: r-cran-ggplotlyextra Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plotly, r-cran-rlang Filename: pool/dists/focal/main/r-cran-ggplotlyextra_0.0.1-1.ca2004.1_all.deb Size: 13456 MD5sum: 2acf1495adaecfa446b17f0e8486d63b SHA1: 1684d0506ac7aec2f784e2667c59af033fd92782 SHA256: 4aac6deff9df55543293a022affd204348e6e5c41ea17122c479e4cc30f2ba5e SHA512: 6e89a10099305ef0d501e6900b13035af78228a40da73d644b737b31590808e6958544e818a8c5a551437fa1c71e8883c6f1ad276b2c16c1e3b3bd64259c788f Homepage: https://cran.r-project.org/package=ggplotlyExtra Description: CRAN Package 'ggplotlyExtra' (Extra Convenience Functions for 'Plotly') Convenience functions for smooth conversion from 'ggplot' to 'plotly' where the conversion using ggplotly() usually gives an unexpected labels. The package ease the process of making a 'plotly' figures generated from 'ggplot2' object more aesthetic in terms of labels and customizability. Package: r-cran-ggpmisc Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2217 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggpp, r-cran-ggplot2, r-cran-scales, r-cran-rlang, r-cran-generics, r-cran-mass, r-cran-confintr, r-cran-polynom, r-cran-quantreg, r-cran-lmodel2, r-cran-splus2r, r-cran-multcomp, r-cran-multcompview, r-cran-tibble, r-cran-plyr, r-cran-dplyr, r-cran-lubridate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggrepel, r-cran-broom, r-cran-broom.mixed, r-cran-nlme, r-cran-gginnards, r-cran-ggtext, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggpmisc_0.6.1-1.ca2004.1_all.deb Size: 1513072 MD5sum: cfef40d98dfc9078aa9d35ea180c8435 SHA1: 5dd40c6c5e89ea7d3dcddae6dcd9753a5ed26abe SHA256: d0aae76505e332a4b952ce2b1b3a0530ced6586ae00b53c758d5bb1f64272c08 SHA512: 7421b3435bc9a7147dacf6c568ec1de314da1b2b48b555f8ad9499f6945dc928ad403c7156177c9704c965769b0d28f35be91707e47d97ecd4747f3174e3971c Homepage: https://cran.r-project.org/package=ggpmisc Description: CRAN Package 'ggpmisc' (Miscellaneous Extensions to 'ggplot2') Extensions to 'ggplot2' respecting the grammar of graphics paradigm. Statistics: locate and tag peaks and valleys; label plot with the equation of a fitted polynomial or other types of models; labels with P-value, R^2 or adjusted R^2 or information criteria for fitted models; label with ANOVA table for fitted models; label with summary for fitted models. Model fit classes for which suitable methods are provided by package 'broom' and 'broom.mixed' are supported. Scales and stats to build volcano and quadrant plots based on outcomes, fold changes, p-values and false discovery rates. Package: r-cran-ggpmx Architecture: all Version: 1.2.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8851 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-yaml, r-cran-r6, r-cran-gtable, r-cran-ggplot2, r-cran-ggforce, r-cran-magrittr, r-cran-stringr, r-cran-assertthat, r-cran-ggally, r-cran-zoo, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr, r-cran-dplyr, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-checkmate, r-cran-scales Suggests: r-cran-testthat, r-cran-xtable, r-cran-vdiffr, r-cran-rxode2, r-cran-nlmixr2, r-cran-nlmixr2data, r-cran-xgxr, r-cran-withr, r-cran-lifecycle Filename: pool/dists/focal/main/r-cran-ggpmx_1.2.11-1.ca2004.1_all.deb Size: 4108456 MD5sum: 84a82b9c0990db5a42ba0d6dde04efa7 SHA1: 645b157d091551b68dbb84ba59cb66f69b02b044 SHA256: 1b2fc1a5e8ffcfb48c98e3f5799b4179ae4015f0a0dc4cba36bd16b1f301b922 SHA512: 0b5adb0471f233f4498adcd40a68e2e0442119d22bb3ba595b8307442dec8cd81a11a6780e7d31fe77751d363456ce9f31b6d3f3f33dc4290dec55670fe4a371 Homepage: https://cran.r-project.org/package=ggPMX Description: CRAN Package 'ggPMX' ('ggplot2' Based Tool to Facilitate Diagnostic Plots for NLMEModels) At Novartis, we aimed at standardizing the set of diagnostic plots used for modeling activities in order to reduce the overall effort required for generating such plots. For this, we developed a guidance that proposes an adequate set of diagnostics and a toolbox, called 'ggPMX' to execute them. 'ggPMX' is a toolbox that can generate all diagnostic plots at a quality sufficient for publication and submissions using few lines of code. This package focuses on plots recommended by ISoP . While not required, you can get/install the 'R' 'lixoftConnectors' package in the 'Monolix' installation, as described at the following url . When 'lixoftConnectors' is available, 'R' can use 'Monolix' directly to create the required Chart Data instead of exporting it from the 'Monolix' gui. 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Package: r-cran-ggrasp Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 9555 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-mixtools, r-cran-ape, r-cran-bgmm, r-cran-colorspace Filename: pool/dists/focal/main/r-cran-ggrasp_1.2-1.ca2004.1_all.deb Size: 817600 MD5sum: c373ff344c20732f5db323d99e18f86d SHA1: 34dbbae2bb0668c9b7e97b1609a50143beca6ef3 SHA256: b9cbac235abc0e95e228e0a86fe1a57d20d7dba813f788cadd952661d859dd08 SHA512: bd398cefead86a82bd65ce4fecc4f9e8df7d4d6459fdc274c654147a9aba40f933de57af6467ab1b412a9438c979c1bea864eb8972a80d7eaa4e2ed017e43b02 Homepage: https://cran.r-project.org/package=ggrasp Description: CRAN Package 'ggrasp' (Gaussian-Based Genome Representative Selector withPrioritization) Given a group of genomes and their relationship with each other, the package clusters the genomes and selects the most representative members of each cluster. 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We can conclude the following two points: Comparing the prediction results of the model with the real survival situation to see whether the survival rate of the high-risk group is lower than that of the low-level group, and whether the survival time of the high-risk group is shorter than that of the low-risk group. The other is to compare the heat map and scatter plot to see the correlation between the predictors and the outcome. 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Package: r-cran-ggscidca Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 252 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cmprsk, r-cran-e1071, r-cran-ggplot2, r-cran-kernlab, r-cran-randomforest, r-cran-reshape2, r-cran-survival Filename: pool/dists/focal/main/r-cran-ggscidca_0.2.3-1.ca2004.1_all.deb Size: 218232 MD5sum: e84f6a5af626864aceb7ca212033aa46 SHA1: 077c0cb6aca85250cd7cfa31a90517a99050a227 SHA256: 94e34d5c01df4c943c40d75b63ac76c78998c2febe1a45897f7b8f76a51e79d8 SHA512: 6b8d81121c14f1b3384ddf77241014b5eabb0f39aacc43c96c5b4f198144e6f717f57bbeb80d45d4e23ea5e3dd4f53e4b54e20ba88ade36ac8fa799acfba324c Homepage: https://cran.r-project.org/package=ggscidca Description: CRAN Package 'ggscidca' (Plotting Decision Curve Analysis with Coloured Bars) Decision curve analysis is a method for evaluating and comparing prediction models that incorporates clinical consequences, requires only the data set on which the models are tested, and can be applied to models that have either continuous or dichotomous results. The 'ggscidca' package adds coloured bars of discriminant relevance to the traditional decision curve. Improved practicality and aesthetics. This method was described by Balachandran VP (2015) . Package: r-cran-ggseas Architecture: all Version: 0.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 364 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-seasonal, r-cran-rlang, r-cran-zoo Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggseas_0.5.4-1.ca2004.1_all.deb Size: 218608 MD5sum: 44e16351aa3045821fc1e8dd3726a049 SHA1: bf7c2dc0c2736da21caa7eee479d65f0fbedae8d SHA256: c32d5c255f1aad2902dc00fca751ca6290834eb02d75a0af8d5c2644f0e3e1e2 SHA512: 9116ed014e0e5a9a4b9db3ad28dc6c0741d67b1c3328b0d312d960d1c8d2703e9829a31af9cf5227a17fc82f12387ed9875b402a40992d03538b8b8bdf9064bc Homepage: https://cran.r-project.org/package=ggseas Description: CRAN Package 'ggseas' ('stats' for Seasonal Adjustment on the Fly with 'ggplot2') Provides 'ggplot2' 'stats' that estimate seasonally adjusted series and rolling summaries such as rolling average on the fly for time series. Package: r-cran-ggsector Architecture: all Version: 1.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1187 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-magrittr, r-cran-matrix, r-cran-prettydoc, r-cran-rlang, r-cran-seurat, r-cran-tibble, r-cran-tidyr Suggests: r-cran-biocmanager, r-bioc-complexheatmap, r-cran-knitr, r-cran-rmarkdown, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-ggsector_1.7.0-1.ca2004.1_all.deb Size: 702016 MD5sum: 6d2bdfea1f5d826ee21a69520e6e6526 SHA1: eaaec0e153d36c6440eb22d7ac48ab98ad163e88 SHA256: 6c034d784af6aaab60331762f4a9ea6bb7db9f48db14730163b15514cbb93edc SHA512: 480ff802d633ceae31819e799587efd3278fab530d26a636773cd006bf703f1de82236e405bb05188ea4c7185481586b5d389b82fb63e1fa93ff1cb49cd9fa78 Homepage: https://cran.r-project.org/package=ggsector Description: CRAN Package 'ggsector' (Draw Sectors) Some useful functions that can use 'grid' and 'ggplot2' to plot sectors and interact with 'Seurat' to plot gene expression percentages. 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Package: r-cran-ggseg3d Architecture: all Version: 1.6.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4003 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-plotly, r-cran-magrittr, r-cran-scales, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-testthat, r-cran-devtools, r-cran-processx, r-cran-spelling Filename: pool/dists/focal/main/r-cran-ggseg3d_1.6.3-1.ca2004.1_all.deb Size: 3836604 MD5sum: 6cf91ad11ca20a7026108d787821bc29 SHA1: 62128b66513fa589c5e415f13a8a4d24bd4e20fc SHA256: e02d346ea0a63907453a61df755c576d9f2955bbae85fbe8516b8b0cd78b3601 SHA512: 68ca045b81fd7a4ff3a73bf08114752f98698d4fa6e2f6ee6c1fe1dae82f44e6e23194ea047bc09d40ee493138ad91566330e135981be430f959148462f23237 Homepage: https://cran.r-project.org/package=ggseg3d Description: CRAN Package 'ggseg3d' (Tri-Surface Mesh Plots for Brain Atlases) Mainly contains a plotting function ggseg3d(), and data of two standard brain atlases (Desikan-Killiany and aseg). By far, the largest bit of the package is the data for each of the atlases. The functions and data enable users to plot tri-surface mesh plots of brain atlases, and customise these by projecting colours onto the brain segments based on values in their own data sets. Functions are wrappers for 'plotly'. Mowinckel & Vidal-Piñeiro (2020) . Package: r-cran-ggseg Architecture: all Version: 1.6.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4112 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-sf, r-cran-vctrs Suggests: r-cran-knitr, r-cran-here, r-cran-rmarkdown, r-cran-covr, r-cran-vdiffr, r-cran-devtools, r-cran-testthat, r-cran-spelling Filename: pool/dists/focal/main/r-cran-ggseg_1.6.5-1.ca2004.1_all.deb Size: 2850868 MD5sum: 240c16e35fdf5abdfbe47116593a19f0 SHA1: c68eca4b2426532801eb9d6ce3fb92568c5c3a95 SHA256: db68557b18057c8d0ddf006e4b2cee26627563a60e56fa4fa112a1578116f737 SHA512: 33bf2fb955a64145fecbd95fa5b44444a684d7ebfb9ab7d38411693216573c3f1d03b1d7f037ff6d60f1b81d5ae7e26d9ace38984ea777347d09fa8e996cf8c2 Homepage: https://cran.r-project.org/package=ggseg Description: CRAN Package 'ggseg' (Plotting Tool for Brain Atlases) Contains 'ggplot2' geom for plotting brain atlases using simple features. The largest component of the package is the data for the two built-in atlases. Mowinckel & Vidal-Piñeiro (2020) . Package: r-cran-ggsegmentedtotalbar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 183 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-forcats Suggests: r-cran-testthat, r-cran-devtools, r-cran-remotes, r-cran-roxygen2, r-cran-usethis, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggsegmentedtotalbar_0.1.0-1.ca2004.1_all.deb Size: 96360 MD5sum: 45b3aafa8288aa8c92529f26f799883a SHA1: d8167fdeb76589542566b2b2da32faa85e073595 SHA256: e602c2fa2dc1ebe3a2d343df9210ba45af11e3ce30d4745a2f535ec218988cc7 SHA512: 25f9bc66af3926fd80f4f83c1ee3606f32fcf4409832f7aa572ec31e577f54fd65c20dd86b91461599c3621ce2bc1f7ca6c1c5f33be22d05a2a6bb82d001158a Homepage: https://cran.r-project.org/package=ggsegmentedtotalbar Description: CRAN Package 'ggsegmentedtotalbar' (Create a Segmented Total Bar Plot with Custom Annotations andLabels) It provides a better alternative for stacked bar plot by creating a segmented total bar plot with custom annotations and labels. 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Package: r-cran-ggsem Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 400 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-igraph, r-cran-shiny, r-cran-dt, r-cran-colourpicker, r-cran-svglite, r-cran-smplot2, r-cran-lavaan, r-cran-rtsne, r-cran-umap Suggests: r-cran-semplot, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-ggsem_0.2.4-1.ca2004.1_all.deb Size: 117588 MD5sum: 95b69cb7fc3ded6d8b5e54dd24b83657 SHA1: cb492a0b4dff7cc72958afd04aaf27812efba108 SHA256: e57f7ec7ea5c07556c8d4b54373557b7c88a381a21c70d886977f119b9516c41 SHA512: 54c68e30fdd02f51624ced22aae9b72506317b7ea7f42ce5414a2665b8f1e6f1f4a21985c340e7dc393cb49ff69e91f4a4c668935022e0488b3e050999d522a2 Homepage: https://cran.r-project.org/package=ggsem Description: CRAN Package 'ggsem' (Interactively Visualize Structural Equation Modeling Diagrams) It is an R package and web-based application, allowing users to perform interactive and reproducible visualizations of path diagrams for structural equation modeling (SEM) and networks using the 'ggplot2' engine. 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Package: r-cran-ggseqlogo Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 809 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggseqlogo_0.2-1.ca2004.1_all.deb Size: 741656 MD5sum: e2e1a96f5c1a8802a7e7f08ba9f7adca SHA1: 7b2f7fb250144b5686434255021f9bab615eac21 SHA256: f34b7c6097b13157ff8abe91f0680ea77f08c66f37741721060379f4d4f39d69 SHA512: 64455b1cfd80e67fe49b3d0021b7770ed71d0d2527fa2a38c0d7b10996bff6b82caf9bc421d94cf8f87e7589cedc1ba033f7ee56ae41a10c1f2100a2d2a70b0d Homepage: https://cran.r-project.org/package=ggseqlogo Description: CRAN Package 'ggseqlogo' (A 'ggplot2' Extension for Drawing Publication-Ready SequenceLogos) The extensive range of functions provided by this package makes it possible to draw highly versatile sequence logos. Features include, but not limited to, modifying colour schemes and fonts used to draw the logo, generating multiple logo plots, and aiding the visualisation with annotations. Sequence logos can easily be combined with other plots 'ggplot2' plots. Package: r-cran-ggseqplot Architecture: all Version: 0.8.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1354 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-colorspace, r-cran-dplyr, r-cran-forcats, r-cran-ggh4x, r-cran-ggrepel, r-cran-ggtext, r-cran-glue, r-cran-haven, r-cran-patchwork, r-cran-purrr, r-cran-rdpack, r-cran-rlang, r-cran-tidyr, r-cran-usethis Suggests: r-cran-covr, r-cran-ggthemes, r-cran-hrbrthemes, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggseqplot_0.8.7-1.ca2004.1_all.deb Size: 1109372 MD5sum: 61e4df0ca97c25459449c7c3b25e08b9 SHA1: 7b1a3ea3e3cee717a94c1d136389ea649d06f54f SHA256: f7a9afc332279fc05e28740dc1fd7aa72e847b5775201e6cb08666d2998bd3da SHA512: 26c1b5c1c40fbc67b2ac5baf22e0d8b74a91b1c3fdf1fd6ad3040c33c2fdbb9a424d7a446714534515409f02dc3c67219c4037800b4cd97e3693fabedaecd695 Homepage: https://cran.r-project.org/package=ggseqplot Description: CRAN Package 'ggseqplot' (Render Sequence Plots using 'ggplot2') A set of wrapper functions that mainly re-produces most of the sequence plots rendered with TraMineR::seqplot(). Whereas 'TraMineR' uses base R to produce the plots this library draws on 'ggplot2'. The plots are produced on the basis of a sequence object defined with TraMineR::seqdef(). The package automates the reshaping and plotting of sequence data. Resulting plots are of class 'ggplot', i.e. components can be added and tweaked using '+' and regular 'ggplot2' functions. Package: r-cran-ggshadow Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 746 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-rlang, r-cran-glue, r-cran-vctrs, r-cran-cli Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-ggshadow_0.0.5-1.ca2004.1_all.deb Size: 577184 MD5sum: 5ee456fe5c7eb8837bf4f950539518fa SHA1: c1fa694fc41025a9482fb3fc287dd83706889151 SHA256: d0d491958911cae0de01b477746d806709ded13d932ee432598bde23ca100095 SHA512: d53516bae24f8e7011351f3d86e7034459fa8b6b6ee0188ce9e31d7615f13d08cee134040e6bb42d5d697717f419b0ff947c3751339c73bb0ba400c33b05dc73 Homepage: https://cran.r-project.org/package=ggshadow Description: CRAN Package 'ggshadow' (Shadow and Glow Geoms for 'ggplot2') A collection of Geoms for R's 'ggplot2' library. geom_shadowpath(), geom_shadowline(), geom_shadowstep() and geom_shadowpoint() functions draw a shadow below lines to make busy plots more aesthetically pleasing. geom_glowpath(), geom_glowline(), geom_glowstep() and geom_glowpoint() add a neon glow around lines to get a steampunk style. Package: r-cran-ggside Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3420 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-gtable, r-cran-rlang, r-cran-scales, r-cran-cli, r-cran-glue, r-cran-tibble, r-cran-vctrs Suggests: r-cran-tidyr, r-cran-dplyr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-vdiffr, r-cran-ggdendro, r-cran-viridis, r-cran-waldo Filename: pool/dists/focal/main/r-cran-ggside_0.3.1-1.ca2004.1_all.deb Size: 2680480 MD5sum: 973e7e311be65ad26ffa23a33e2b3821 SHA1: 185a19c0c412efd61dd92d01193ef63ad514e89b SHA256: dfb78e3d843689e0449e5395f88bad06ec2d78bab39831d256040e7cbeaddbd1 SHA512: 120db9b5c091966837f600a451f8e7782b69760c2a675df53c1d83dec1ac873c58c71aeac11a5368a9c0653c865320b949e2e4bbfc413373374669af9be541d2 Homepage: https://cran.r-project.org/package=ggside Description: CRAN Package 'ggside' (Side Grammar Graphics) The grammar of graphics as shown in 'ggplot2' has provided an expressive API for users to build plots. 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Package: r-cran-ggsignif Architecture: all Version: 0.6.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1064 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggsignif_0.6.4-1.ca2004.1_all.deb Size: 566008 MD5sum: 6375bcf4063b8ea98a548f90c494a930 SHA1: 08ce12a9f449006c54a06f3b8480d818f9784fee SHA256: d4568e6d111a39daa6bc56a13ecb9666675d349fc0fc4087ae8b4629d0b9d5dc SHA512: 757188e5961215dae69b8f8bcc8b62210a94ba4c6132e7b2396bf737b9880091f091a43d3a8318463b2479c6dad6c8bd28bfc1ca5ee54393a9fd98a0690a905b Homepage: https://cran.r-project.org/package=ggsignif Description: CRAN Package 'ggsignif' (Significance Brackets for 'ggplot2') Enrich your 'ggplots' with group-wise comparisons. This package provides an easy way to indicate if two groups are significantly different. Commonly this is shown by a bracket on top connecting the groups of interest which itself is annotated with the level of significance (NS, *, **, ***). The package provides a single layer (geom_signif()) that takes the groups for comparison and the test (t.test(), wilcox.text() etc.) as arguments and adds the annotation to the plot. Package: r-cran-ggsmc Architecture: all Version: 0.1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1440 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-poorman, r-cran-ggplot2, r-cran-gganimate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggsmc_0.1.2.0-1.ca2004.1_all.deb Size: 1130860 MD5sum: e5264c008b3d5f455a87bd4f8721e2f7 SHA1: d169361e7f526622ceb9d01000052332da579520 SHA256: a3c38a034e1f35f390fcc7eac36ab257f7b1c82ec4ea6bd0ed03880622cde6b1 SHA512: 8c14cf473aac96ae9222e70c348271a0b20b37746b7c4e82ffbea80bf53f08c96f8fed7025322ebf188b5fd9a63fa20471d298f6b90b04adadedd494b8aae984 Homepage: https://cran.r-project.org/package=ggsmc Description: CRAN Package 'ggsmc' (Visualising Output from Sequential Monte Carlo Samplers andEnsemble-Based Methods) Functions for plotting, and animating, the output of importance samplers, sequential Monte Carlo samplers (SMC) and ensemble-based methods. The package can be used to plot and animate histograms, densities, scatter plots and time series, and to plot the genealogy of an SMC or ensemble-based algorithm. These functions all rely on algorithm output to be supplied in tidy format. A function is provided to transform algorithm output from matrix format (one Monte Carlo point per row) to the tidy format required by the plotting and animating functions. Package: r-cran-ggsn Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 731 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-sf, r-cran-png, r-cran-maptools, r-cran-ggmap Filename: pool/dists/focal/main/r-cran-ggsn_0.5.0-1.ca2004.1_all.deb Size: 669232 MD5sum: f26208bb80825b2ffe7daa1972a3df37 SHA1: b762c127b17507ff91f7a8b365781b7f412874b8 SHA256: 80ea5ae4bf6a25cd7ba19286ebceedf42c69dd6fe6047a9cb78dceea8bc914d6 SHA512: 5b74320b5784621c88a655a742d757f886253cd0db98690d0fd28feb92d40824a709dce3ff00b66b4a4660b9594c38cfcd8db70c0e22d89b4a5d031d30f62db7 Homepage: https://cran.r-project.org/package=ggsn Description: CRAN Package 'ggsn' (North Symbols and Scale Bars for Maps Created with 'ggplot2' or'ggmap') Adds north symbols (18 options) and scale bars in kilometers, meters, nautical miles, or statue miles, to maps in geographic or metric coordinates created with 'ggplot2' or 'ggmap'. Package: r-cran-ggsoccer Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 375 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-testthat, r-cran-pkgdown Filename: pool/dists/focal/main/r-cran-ggsoccer_0.2.0-1.ca2004.1_all.deb Size: 269652 MD5sum: 694736a9dfd16d67dca26518076c7d6f SHA1: fc025209a442724e0486cf95b76eb9a2f35ad040 SHA256: b560c0bdd7fc0f94e7406fa065409e366e864ae90071e473797bbdca59c66364 SHA512: ee4c5a7ec749c2e981f13c6a517a2ae6afd446f3e3421589792cca5c87e8c7fe1729a8089cf9c49336211f54f606e67c3ea5c49e7a368bf20aabf38675a6997a Homepage: https://cran.r-project.org/package=ggsoccer Description: CRAN Package 'ggsoccer' (Plot Soccer Event Data) The 'ggplot2' package provides a powerful set of tools for visualising and investigating data. The 'ggsoccer' package provides a set of functions for elegantly displaying and exploring soccer event data with 'ggplot2'. 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Package: r-cran-ggsolvencyii Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 624 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-tidyr Suggests: r-cran-covr, r-cran-ggmap, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggsolvencyii_0.1.2-1.ca2004.1_all.deb Size: 302304 MD5sum: 74f7b2d4492207c66e004f25f83524dc SHA1: bc2a3c31ddf9fb1a3b039a586a7428e94e466f30 SHA256: 1c376acf52660da874cf8abf73ba24326683b05e48293e65448585b9bc735471 SHA512: 83c7354d68958fb80f11b29dec02ff9275e49608c9905f053369bcc9949906bb818d05559e574c23a2b7b256917b4a6c9af2c9f9d6a707f99740fe83b6833aac Homepage: https://cran.r-project.org/package=ggsolvencyii Description: CRAN Package 'ggsolvencyii' (A 'ggplot2'-Plot of Composition of Solvency II SCR: SF and IM) An implementation of 'ggplot2'-methods to present the composition of Solvency II Solvency Capital Requirement (SCR) as a series of concentric circle-parts. Solvency II (Solvency 2) is European insurance legislation, coming in force by the delegated acts of October 10, 2014. . Additional files, defining the structure of the Standard Formula (SF) method of the SCR-calculation are provided. The structure files can be adopted for localization or for insurance companies who use Internal Models (IM). Options are available for combining smaller components, horizontal and vertical scaling, rotation, and plotting only some circle-parts. With outlines and connectors several SCR-compositions can be compared, for example in ORSA-scenarios (Own Risk and Solvency Assessment). Package: r-cran-ggsom Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-tidyr, r-cran-ggplot2, r-cran-kohonen, r-cran-assertthat, r-cran-data.table, r-cran-entropy, r-cran-tibble Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggsom_0.4.0-1.ca2004.1_all.deb Size: 34688 MD5sum: cf140a99033ff4b5352e92b285023cb7 SHA1: a944f935bf2e4f2600822da3b1927f5153acd802 SHA256: debafb5928a38d09e82edd0b388b1f0ee63013db94a60a61dd9f7c19e6fe097f SHA512: aec2c5012d51b95031925b7d8295c40b400b49099ea9e0046dee03798e0a188b8fe30320181a1f01b8bc51e78baf693d25a1ae2f02834d9b32d0488b6d3db3ac Homepage: https://cran.r-project.org/package=ggsom Description: CRAN Package 'ggsom' (New Data Visualisations for SOMs Networks) The aim of this package is to offer more variability of graphics based on the self-organizing maps. 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Part of the 'r4photobiology' suite, Aphalo P. J. (2015) . Package: r-cran-ggstackplot Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4607 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rlang, r-cran-cli, r-cran-lifecycle, r-cran-tidyselect, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-cowplot, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-scales, r-cran-pangaear Filename: pool/dists/focal/main/r-cran-ggstackplot_0.4.1-1.ca2004.1_all.deb Size: 3446972 MD5sum: ea8dac20977159d0f366ff89895364ed SHA1: 12efbbc9d72d14a16cb99fb2a0d082012a094b6a SHA256: 99c177973f11021eea1c3d1d57168ddb6efd7227980786ae4adee3aba19d454e SHA512: 99c326fdfc9db35957444d1a2eb84c0397e86a0e46d3083bf58b548e52dfe2976720e168c2298b0b0518efbda4953699f22894fc8112e3b6e9f4036097e54946 Homepage: https://cran.r-project.org/package=ggstackplot Description: CRAN Package 'ggstackplot' (Create Overlapping Stacked Plots) Easily create overlapping grammar of graphics plots for scientific data visualization. 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Package: r-cran-ggstar Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 563 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-gridextra, r-cran-cli Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-prettydoc Filename: pool/dists/focal/main/r-cran-ggstar_1.0.4-1.ca2004.1_all.deb Size: 173120 MD5sum: e474a3263ce1968a1edf2c4ebd1a77ae SHA1: 5020bce0c1fd2e71bc5199b6e850d646ca51ff59 SHA256: 6318794470508901bea8274ab73232abd377e3b55bbd4de85a4cd496075e565e SHA512: 7e67afaa36e2f88e7b0a78c2c215be8127915e6d251460043704a6b9d6d7c1ee02cf1fb8c1f99aa120feafe6af9c9f4b92f71739c23b75bd19575f4e4f4444e5 Homepage: https://cran.r-project.org/package=ggstar Description: CRAN Package 'ggstar' (Multiple Geometric Shape Point Layer for 'ggplot2') To create the multiple polygonal point layer for easily discernible shapes, we developed the package, it is like the 'geom_point' of 'ggplot2'. 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Package: r-cran-ggstats Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1817 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-lifecycle, r-cran-patchwork, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-tidyr Suggests: r-cran-betareg, r-cran-broom, r-cran-broom.helpers, r-cran-emmeans, r-cran-glue, r-cran-gtsummary, r-cran-knitr, r-cran-labelled, r-cran-reshape, r-cran-rmarkdown, r-cran-nnet, r-cran-parameters, r-cran-pscl, r-cran-testthat, r-cran-spelling, r-cran-survey, r-cran-survival, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggstats_0.9.0-1.ca2004.1_all.deb Size: 1163920 MD5sum: 20c8fbcd7c83c37418a164d961c0ad99 SHA1: e6c8307e25dbe06b4bdaad1dfa7d01acc70f6723 SHA256: 7a925eb736d59a838263a11e3459846f2f3d54f3732b7c1ab428d07e96dcc921 SHA512: 682f862a5490f706e48798c1767679ee30420b4e9390c80e799d8db2a64ef0c57c3e8061fca0bff98f8a915e53b5a059c88e28ec6b7a6b2b8689ac67dc1676fb Homepage: https://cran.r-project.org/package=ggstats Description: CRAN Package 'ggstats' (Extension to 'ggplot2' for Plotting Stats) Provides new statistics, new geometries and new positions for 'ggplot2' and a suite of functions to facilitate the creation of statistical plots. Package: r-cran-ggstatsplot Architecture: all Version: 0.13.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3922 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-correlation, r-cran-datawizard, r-cran-dplyr, r-cran-ggcorrplot, r-cran-ggplot2, r-cran-ggrepel, r-cran-ggside, r-cran-ggsignif, r-cran-glue, r-cran-insight, r-cran-paletteer, r-cran-parameters, r-cran-patchwork, r-cran-performance, r-cran-purrr, r-cran-rlang, r-cran-statsexpressions, r-cran-tidyr Suggests: r-cran-afex, r-cran-bayestestr, r-cran-bayesfactor, r-cran-gapminder, r-cran-knitr, r-cran-lme4, r-cran-mass, r-cran-metabma, r-cran-metafor, r-cran-metaplus, r-cran-psych, r-cran-rmarkdown, r-cran-rstantools, r-cran-survival, r-cran-testthat, r-cran-tibble, r-cran-vdiffr, r-cran-withr, r-cran-wrs2 Filename: pool/dists/focal/main/r-cran-ggstatsplot_0.13.1-1.ca2004.1_all.deb Size: 3271192 MD5sum: cdd3e0e0ca59b89a16fe060472bf9ff6 SHA1: ad8077e89c7ac215c4d2b16688ebdf096cf8ea22 SHA256: 612f82c317dbcd302173d70ffbe36f96c25a708956d382ae06e1f13da54e7a7c SHA512: 5f43138d916b9dff77823a163bf945302383a647b243580350b6f0a58c17da0066617c6be1ae9fc3b029181c51cf4f72feff29b8e91ccdeaf93c887cc8e027a7 Homepage: https://cran.r-project.org/package=ggstatsplot Description: CRAN Package 'ggstatsplot' ('ggplot2' Based Plots with Statistical Details) Extension of 'ggplot2', 'ggstatsplot' creates graphics with details from statistical tests included in the plots themselves. It provides an easier syntax to generate information-rich plots for statistical analysis of continuous (violin plots, scatterplots, histograms, dot plots, dot-and-whisker plots) or categorical (pie and bar charts) data. Currently, it supports the most common types of statistical approaches and tests: parametric, nonparametric, robust, and Bayesian versions of t-test/ANOVA, correlation analyses, contingency table analysis, meta-analysis, and regression analyses. References: Patil (2021) . Package: r-cran-ggstream Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-purrr, r-cran-dplyr, r-cran-magrittr, r-cran-tidyr, r-cran-forcats Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggstream_0.1.0-1.ca2004.1_all.deb Size: 51324 MD5sum: 684eb6a6c32642ab3cb945c062de349a SHA1: d3795a9c0036d46431092442001dc439aa9a2368 SHA256: 34383265029486c8f77e19afaccf341c88d37f55be58b331bf7927126d341c63 SHA512: aa248e5f3d69ac66e9054e30156a238410cf4c4209fbffbc97b375bf30cdc627aaeaced9f26326a8e3ad48096a2749a493752e3b8b3c2e82b463163fedcb6f2b Homepage: https://cran.r-project.org/package=ggstream Description: CRAN Package 'ggstream' (Create Streamplots in 'ggplot2') Make smoothed stacked area charts in 'ggplot2'. Stream plots are useful to show magnitude trends over time. Package: r-cran-ggstudent Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2 Suggests: r-cran-scales Filename: pool/dists/focal/main/r-cran-ggstudent_0.1.2-1.ca2004.1_all.deb Size: 54948 MD5sum: 289acd988e903a10da63805cce7ae85f SHA1: b4ac159c0e4830183fd3af746ff09c0ed674c00a SHA256: 8322f36c8cab2fb3156d7cff52772c0b20b875dd5a9dd63387b4ed16b649c50c SHA512: 0f7eea73defed6e26580d1b0809db7afab2f47cc1bb517bb46f2950bcc3a01745203e34f9677020703db26bf57f563c3f62dce0fcbcae37fe8f5bdd1f3db060c Homepage: https://cran.r-project.org/package=ggstudent Description: CRAN Package 'ggstudent' (Continuous Confidence Interval Plots using t-Distribution) Provides an extension to 'ggplot2' (Wickham, 2016, ) for creating two types of continuous confidence interval plots (Violin CI and Gradient CI plots), typically for the sample mean. These plots contain multiple user-defined confidence areas with varying colours, defined by the underlying t-distribution used to compute standard confidence intervals for the mean of the normal distribution when the variance is unknown. Two types of plots are available, a gradient plot with rectangular areas, and a violin plot where the shape (horizontal width) is defined by the probability density function of the t-distribution. These visualizations are studied in (Helske, Helske, Cooper, Ynnerman, and Besancon, 2021) . Package: r-cran-ggsurveillance Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1211 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-glue, r-cran-isoweek, r-cran-lubridate, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-ggrepel, r-cran-hmisc, r-cran-knitr, r-cran-outbreaks, r-cran-plotly, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tsibble, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ggsurveillance_0.4.0-1.ca2004.1_all.deb Size: 820676 MD5sum: 73c85a81963abeffa9201e157098591a SHA1: 4e11683402fbf3902880a2f00774c57d65fa2ab9 SHA256: 2d3e322c3fa90edd1de8decc2e03d2f6c641dc31e008f5c14e9fa4b29da1f309 SHA512: 3d3408ffe1446bcd4b0d8e85390638cd63057364bcb7bb7eb6d0e8d14289ccb120b30959b19fdca89d1060fe938e1ef86b1d6ee926aa44629ee4c149694a3cc6 Homepage: https://cran.r-project.org/package=ggsurveillance Description: CRAN Package 'ggsurveillance' (Tools for Outbreak Investigation/Infectious Disease Surveillance) Create epicurves or epigantt charts in 'ggplot2'. Prepare data for visualisation or other reporting for infectious disease surveillance and outbreak investigation. Includes tidy functions to solve date based transformations for common reporting tasks, like (A) seasonal date alignment for respiratory disease surveillance, (B) date-based case binning based on specified time intervals like isoweek, epiweek, month and more, (C) automated detection and marking of the new year based on the date/datetime axis of the 'ggplot2'. An introduction on how to use epicurves can be found on the US CDC website (2012, ). Package: r-cran-ggsurvey Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-survey, r-cran-hexbin, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-ggsurvey_1.0.0-1.ca2004.1_all.deb Size: 71180 MD5sum: 44ef218fe7fd8dd58c1e9afd4fcf6f6c SHA1: e8f8bee78dd67645f1e6de6a11f65d9eb26503bc SHA256: 5975d521c5eb26df1cc9468bfb8091f0e6e4c4fb58f87a11b4e6f837e6357892 SHA512: e0e1943721eb9c56aa7a39020520790e6fcda805c0a41c7d4ebb66cdb6a5f83b9702eadf8306cda2b1893b482d4e2a4b45db54d569fb4d71fe988deeeee2aff6 Homepage: https://cran.r-project.org/package=ggsurvey Description: CRAN Package 'ggsurvey' (Simplifying 'ggplot2' for Survey Data) Functions for survey data including svydesign objects from the 'survey' package that call 'ggplot2' to make bar charts, histograms, boxplots, and hexplots of survey data. Package: r-cran-ggsurvfit Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 707 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-glue, r-cran-gtable, r-cran-patchwork, r-cran-rlang, r-cran-survival, r-cran-tidyr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-scales, r-cran-spelling, r-cran-testthat, r-cran-tidycmprsk, r-cran-vdiffr, r-cran-withr Filename: pool/dists/focal/main/r-cran-ggsurvfit_1.1.0-1.ca2004.1_all.deb Size: 575248 MD5sum: f927ee08a10c06426b3ef52ae68bec96 SHA1: f500a57d266bd87a7760b7aad78256438b9a3d61 SHA256: f5b2422139cd82b5f1c564d10bb748964d722ccb04ebd68821c518c7adf9735f SHA512: 8dde4cdda6dbdd66bc91d81310a36b4fc497c4f50661ebb17e3913aba2e710aa803ea5827352ccdee1267cec5d72f52f3908dd59e6e491ccbf0d1beeac31a77b Homepage: https://cran.r-project.org/package=ggsurvfit Description: CRAN Package 'ggsurvfit' (Flexible Time-to-Event Figures) Ease the creation of time-to-event (i.e. survival) endpoint figures. The modular functions create figures ready for publication. Each of the functions that add to or modify the figure are written as proper 'ggplot2' geoms or stat methods, allowing the functions from this package to be combined with any function or customization from 'ggplot2' and other 'ggplot2' extension packages. Package: r-cran-ggswissmaps Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2060 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-dplyr, r-cran-sf, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ggswissmaps_0.1.2-1.ca2004.1_all.deb Size: 1690372 MD5sum: 9eb6a9aa4f22d447782915c301bac2a9 SHA1: 5d2d5ee3b5954924135c0c0c70deaca834aa9f2a SHA256: c87f124eb80c35a6c8cf3ed0b5dbded0b9ee2f3da215aa9d5b59201e87542ff2 SHA512: 499976c175508cc42c2c4c6a537eb58174797dfe85835d84f4c157a5fb58514b2d5f976f427ee6d1df77aa44c2e9218e4bd5adc379be24bdf44a130b7e70e88d Homepage: https://cran.r-project.org/package=ggswissmaps Description: CRAN Package 'ggswissmaps' (Offers Various Swiss Maps as Data Frames and 'ggplot2' Objects) Offers various swiss maps as data frames and 'ggplot2' objects and gives the possibility to add layers of data on the maps. 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Package: r-cran-ggtangle Architecture: all Version: 0.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 376 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggfun, r-cran-ggplot2, r-cran-ggrepel, r-cran-igraph, r-cran-rlang, r-cran-yulab.utils Suggests: r-cran-aplot, r-cran-cli, r-cran-ggnewscale, r-bioc-ggtree, r-cran-knitr, r-cran-prettydoc, r-cran-rmarkdown, r-cran-scatterpie Filename: pool/dists/focal/main/r-cran-ggtangle_0.0.7-1.ca2004.1_all.deb Size: 243608 MD5sum: 2f698fc2c594eed40486e22c0b436e07 SHA1: 980aee228221088d6384ad4292abf81fe49d4278 SHA256: 0ddecf7b5863de3894a2d65c92b77ba63542ef61afb8321dbb79caf3f150d6d1 SHA512: 920c6da0de25ae26137e64631400cbe568f052ec881e40dca6a363e5596a5fdabc313691650e34b690001127696884c5ec3f5f476ed1a7a010931960279f5b20 Homepage: https://cran.r-project.org/package=ggtangle Description: CRAN Package 'ggtangle' (Draw Network with Data) Extends the 'ggplot2' plotting system to support network visualization. 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This is particularly useful when working with dense datasets that are prone to overplotting. 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For a general overview of the methods used in this package, see Ritz and Streibig (2008) and Greenwell and Schubert Kabban (2014) . 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You use the familiar mapping 'Grammar of Graphics' without the need to do another transformation into polar coordinates. Package: r-cran-ggum Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-psych, r-cran-abind, r-cran-viridis, r-cran-rdpack, r-cran-xlsx Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ggum_0.5-1.ca2004.1_all.deb Size: 237808 MD5sum: 8730dd1d269070a5732ba0225a776e6f SHA1: 80e1ef46b4cc9941cca6a100816c53b3324fd0ac SHA256: aa6044e0202e6ff9b8b3f4da7faf09590b302a0c1293848b86d93194a9cd93d5 SHA512: 57d0c14ed8ae54b9c6441244bc996fffcdf1e0a1110a7faa4fa9ba14de710a7ecf19a8362c133f8cf27d66920ee0b906079d1b0534ccc90de2dfc466cc3cca29 Homepage: https://cran.r-project.org/package=GGUM Description: CRAN Package 'GGUM' (Generalized Graded Unfolding Model) An implementation of the generalized graded unfolding model (GGUM) in R, see Roberts, Donoghue, and Laughlin (2000) ). It allows to simulate data sets based on the GGUM. It fits the GGUM and the GUM, and it retrieves item and person parameter estimates. Several plotting functions are available (item and test information functions; item and test characteristic curves; item category response curves). Additionally, there are some functions that facilitate the communication between R and 'GGUM2004'. Finally, a model-fit checking utility, MODFIT(), is also available. 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'ggVennDiagram' plot Venn or upset using well-defined geometry dataset and 'ggplot2'. The shapes of 2-4 sets Venn use circles and ellipses, while the shapes of 4-7 sets Venn use irregular polygons (4 has both forms), which are developed and imported from another package 'venn', authored by Adrian Dusa. We provided internal functions to integrate shape data with user provided sets data, and calculated the geometry of every regions/intersections of them, then separately plot Venn in four components, set edges/labels, and region edges/labels. From version 1.0, it is possible to customize these components as you demand in ordinary 'ggplot2' grammar. From version 1.4.4, it supports unlimited number of sets, as it can draw a plain upset plot automatically when number of sets is more than 7. Package: r-cran-ggversa Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 244 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ggversa_0.0.1-1.ca2004.1_all.deb Size: 211276 MD5sum: 6d9bae4512c4c1c77c1a3417504dec86 SHA1: d82e1f8023b3e08ab4f06cce07bfbed7a0dc8855 SHA256: 7905c8640a37e6e5b77cbcf610dc7cf235626daaa681823a43111de49a371f92 SHA512: 338c9fe183ef62dfb644e4a9ff176b279e9ba07ca4a66b656c783a2b368cdd8bdf7f01fd691229bec1375a9591ddff2b519840bc9b728ab2c6beff05da9b527c Homepage: https://cran.r-project.org/package=ggversa Description: CRAN Package 'ggversa' (Graficas Versatiles Con 'ggplot2') A collection of datasets for the upcoming book "Graficas versatiles con ggplot: Analisis visuales de datos", by Raymond L. Tremblay and Julian Hernandez-Serano. 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However, it is easy to forget how certain formatting commands are named and sometimes users find themselves asking: How do you rotate the x-axis labels again? Or how do you hide the legend...? This package allows users to issue natural language commands related to theme-related styling of plots (colors, font size and such), which then are translated into valid 'ggplot2' commands. 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Package: r-cran-ghap Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1059 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-matrix, r-cran-pedigreemm, r-cran-sparseinv, r-cran-e1071, r-cran-class, r-cran-data.table, r-cran-stringi Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-ghap_3.0.0-1.ca2004.1_all.deb Size: 1013432 MD5sum: c7e97b29e42c992de00fcb14ead945fd SHA1: d13ee921a283b000b58a337e6989c001bb93ff6e SHA256: 100391c14c5347bf066630a95880a82b88b0cc05471c72d16678fcec2ab8eba3 SHA512: cb44738d56fc6b3e9aa8489d6b697e56e99c2d6909c8bf5cb92a14466a276c92029586a460b0415e11debac783d7ff792ef800dfc73a6028e1d64fd339e0981d Homepage: https://cran.r-project.org/package=GHap Description: CRAN Package 'GHap' (Genome-Wide Haplotyping) Haplotype calling from phased marker data. Given user-defined haplotype blocks (HapBlock), the package identifies the different haplotype alleles (HapAllele) present in the data and scores sample haplotype allele genotypes (HapGenotype) based on HapAllele dose (i.e. 0, 1 or 2 copies). The output is not only useful for analyses that can handle multi-allelic markers, but is also conveniently formatted for existing pipelines intended for bi-allelic markers. The package was first described in Bioinformatics by Utsunomiya et al. (2016, ). Since the v2 release, the package provides functions for unsupervised and supervised detection of ancestry tracks. The methods implemented in these functions were described in an article published in Methods in Ecology and Evolution by Utsunomiya et al. (2020, ). The source code for v3 was modified for improved performance and inclusion of new functionality, including analysis of unphased data, runs of homozygosity, sampling methods for virtual gamete mating, mixed model fitting and GWAS. Package: r-cran-ghapps Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gh, r-cran-jose, r-cran-openssl Filename: pool/dists/focal/main/r-cran-ghapps_1.1.1-1.ca2004.1_all.deb Size: 21824 MD5sum: f5dc00c3b5593222f1153cbfafe51c98 SHA1: 02821889ddc4b303d1b9d90164d2192973e3dc77 SHA256: 0b35e16e59da84d98e57929dffe938eb78de3db6620bafabaf70ca4951b496c6 SHA512: ad4c15f335952d4a8926d0c65ad1b14036da2af0e03fd6464b9e4ccfa60af434eb287deac6d6d867699a69f73d3cad5674c1c6ece4f6fd2c8becf2e0ebc20e39 Homepage: https://cran.r-project.org/package=ghapps Description: CRAN Package 'ghapps' (Authenticate as a 'GitHub' App) 'GitHub' apps provide a powerful way to manage fine grained programmatic access to specific 'git' repositories, without having to create dummy users, and which are safer than a personal access token for automated tasks. 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Package: r-cran-ghee Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gh, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-ghee_0.1.0-1.ca2004.1_all.deb Size: 55592 MD5sum: 45df50283f415433eb15e32ecf88abcb SHA1: 672191f2122d8041ab8cea02750ff6675bae68b4 SHA256: d471905168de9d99ed8e706cbd0ca554a99cd60767b7fa35815a80ef2a266f99 SHA512: 95404fcc62b71613cd01efbf0f2b3a8c081e063382564c7489ec6b538217ee65dc8922c1c7d9cac5a0a03042d68869a0617692c1c4adcfb8dbff8214ca16d769 Homepage: https://cran.r-project.org/package=ghee Description: CRAN Package 'ghee' (Provides a Lightweight Interface for 'GitHub' through R) Provides a user friendly wrapper for the 'gh' package facilitating easy access to the REST API for 'GitHub'. Includes support for common tasks such as creating and commenting on issues, inviting collaborators, and more. 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Package: r-cran-ghost Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6 Filename: pool/dists/focal/main/r-cran-ghost_0.1.0-1.ca2004.1_all.deb Size: 106084 MD5sum: 4be1d7e6c6f4d837abd375db45efd1ef SHA1: 78752a3d33b3c3b30cab313ffc30391fdb3153e7 SHA256: e47c602df93a941556c19c84b7b335346267c4611b9a65205f92856b32647e99 SHA512: ddd563a34a6c66353ebc6385115f128840a325e586aa161833d606714f85304a80d23b0fc171b64c969e50dbcff73bad98d1716dbc19737fc745455573da3e88 Homepage: https://cran.r-project.org/package=Ghost Description: CRAN Package 'Ghost' (Missing Data Segments Imputation in Multivariate Streams) Helper functions provide an accurate imputation algorithm for reconstructing the missing segment in a multi-variate data streams. Inspired by single-shot learning, it reconstructs the missing segment by identifying the first similar segment in the stream. 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Package: r-cran-ghostknockoff Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-cvxr, r-cran-rdsdp, r-cran-gtools, r-cran-seqminer, r-cran-rspectra, r-cran-corpcor Filename: pool/dists/focal/main/r-cran-ghostknockoff_0.1.0-1.ca2004.1_all.deb Size: 51268 MD5sum: 90598efe0edcfa5ef25dab00f9fcd509 SHA1: bc4fa0865b5669462e90f04997e04e4b55d9b324 SHA256: e69e5764e435be4f157200b40ebfc2510e73b3d0279cad071c1ba9ed8afc8482 SHA512: 0a154e17fe0acc76ec051a9d27e5ce6f191291567089936da14015cfefd70d24f7b4b5fc88d8d0ff7fbf796b02bee81007aa147189fe6e124cab38bcafe10c74 Homepage: https://cran.r-project.org/package=GhostKnockoff Description: CRAN Package 'GhostKnockoff' (The Knockoff Inference Using Summary Statistics) Functions for multiple knockoff inference using summary statistics, e.g. Z-scores. 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Queries are checked with the 'libgraphqlparser' C++ parser via the 'gaphql' package. Package: r-cran-ghs Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1099 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-ghs_0.1-1.ca2004.1_all.deb Size: 1065612 MD5sum: 2ee81e5a92aa2f36d7e9c41d3c948b73 SHA1: 17970da371d6d7487ddb097d7686bfd2615e80c5 SHA256: 6845118af22c69297317db190f278b002928f27c23bf5185825ab81485c15391 SHA512: b4ab3bb44fdc5d81abf3df727d9ae2d330850107a9dba73cad2990823c9aaf13d35cdf09e81dc5e93805b5dc0643cdde6789d4c4d5ff9c9052cb8386feed8237 Homepage: https://cran.r-project.org/package=GHS Description: CRAN Package 'GHS' (Graphical Horseshoe MCMC Sampler Using Data Augmented BlockGibbs Sampler) Draw posterior samples to estimate the precision matrix for multivariate Gaussian data. 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To learn how to use it, check the vignettes for a quick tutorial. Please reference its use as Casiraghi, G., Nanumyan, V. (2019) together with those relevant references from the one listed below. The package is based on the research developed at the Chair of Systems Design, ETH Zurich. Casiraghi, G., Nanumyan, V., Scholtes, I., Schweitzer, F. (2016) . Casiraghi, G., Nanumyan, V., Scholtes, I., Schweitzer, F. (2017) . Casiraghi, G., (2017) Brandenberger, L., Casiraghi, G., Nanumyan, V., Schweitzer, F. (2019) Casiraghi, G. (2019) . Casiraghi, G., Nanumyan, V. (2021) . Casiraghi, G. (2021) . 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Translation and restructuring operations for planar shapes and other hierarchical types require a data model with a record of the underlying relationships between elements. The gibble() function creates a geometry map, a simple record of the underlying structure in path-based hierarchical types. There are methods for the planar shape types in the 'sf' and 'sp' packages and for types in the 'trip' and 'silicate' packages. 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Package: r-cran-giftwrap Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 219 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-namespace, r-cran-processx, r-cran-readr, r-cran-tibble Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-giftwrap_0.0.4-1.ca2004.1_all.deb Size: 192160 MD5sum: 726183bec80f8061f8771007917adfe5 SHA1: 2e96390a794598db962d868ce1d5912be83cc8ea SHA256: f9c26861c8491b7be98ea7d4eecfbc7d4adfcbeb1d477748180fc264f17d8799 SHA512: 6afd27f79656834941509e239b1cf7dff8695d0cb2e81a0084218511443578f0b0134763b2749065da23c95122d1e35fa3dd4f92e51b4aca887a8d130249a62a Homepage: https://cran.r-project.org/package=giftwrap Description: CRAN Package 'giftwrap' (Take Shell Commands and Turn Them into R Functions) Wrapping command line functions into R functions, which in turn run the command line functions. Package: r-cran-gillespiessa Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1928 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-gillespiessa_0.6.2-1.ca2004.1_all.deb Size: 1247480 MD5sum: b559a89c37295a73ae4910522981c2df SHA1: e5ab259bef56a4084f043b7dbbeb3ec45cbeedac SHA256: 53a5ca8bf8bf91cfc6e7f63bf516dc93378d9730ee72bd9fdf4346b2aa02055d SHA512: afbb31606922c5d09e4d88e1e964d3bb572772022a3d7cf1bea77b990262c573953f895f31d7edfc437060ed48bde3dba98f15c4c1cc5fcfb2ca2e4cd599113f Homepage: https://cran.r-project.org/package=GillespieSSA Description: CRAN Package 'GillespieSSA' (Gillespie's Stochastic Simulation Algorithm (SSA)) Provides a simple to use, intuitive, and extensible interface to several stochastic simulation algorithms for generating simulated trajectories of finite population continuous-time model. Currently it implements Gillespie's exact stochastic simulation algorithm (Direct method) and several approximate methods (Explicit tau-leap, Binomial tau-leap, and Optimized tau-leap). The package also contains a library of template models that can be run as demo models and can easily be customized and extended. Currently the following models are included, 'Decaying-Dimerization' reaction set, linear chain system, logistic growth model, 'Lotka' predator-prey model, Rosenzweig-MacArthur predator-prey model, 'Kermack-McKendrick' SIR model, and a 'metapopulation' SIRS model. Pineda-Krch et al. (2008) . Package: r-cran-gim Architecture: all Version: 0.33.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 452 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-numderiv Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gim_0.33.1-1.ca2004.1_all.deb Size: 373680 MD5sum: 775b21746cfd867de62690635f6d61d3 SHA1: 55688be3e6b5dcb45233ca594de7b8f4a55c9208 SHA256: 986db4dcf09b0b974fefb80c6c9a44c614433f6ce181f2a006030e421d66a841 SHA512: aabd087a291cbdf23d55daeafe603313cad150126dba3c76aa67107b613872da21348e5669754d034377734dc1b32e6dae66611e80ef4a1155d196ef0d7ffc71 Homepage: https://cran.r-project.org/package=gim Description: CRAN Package 'gim' (Generalized Integration Model) Implements the generalized integration model, which integrates individual-level data and summary statistics under a generalized linear model framework. It supports continuous and binary outcomes to be modeled by the linear and logistic regression models. 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Package: r-cran-gimap Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4958 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readr, r-cran-dplyr, r-cran-tidyr, r-cran-rmarkdown, r-cran-vroom, r-cran-ggplot2, r-cran-magrittr, r-cran-pheatmap, r-cran-purrr, r-cran-janitor, r-cran-stringr, r-cran-httr, r-cran-jsonlite, r-cran-openssl Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-kableextra, r-cran-knitr Filename: pool/dists/focal/main/r-cran-gimap_1.1.1-1.ca2004.1_all.deb Size: 2119644 MD5sum: 84d2a575f61982cc19f8091ea0a786fa SHA1: 6b56f10dbbd1972e3d4ba20d3c0b44678ece32d2 SHA256: a038b318a2c3a720ad7eef5c7ae902d13551ff02d2ec460bb5731184aec6d584 SHA512: 5b460c9e9e4262212cf9f997e36b59db1d28afd07104c687c886387decc747a3fe935e05b0848641192aa6367aa094610a7b5c7ec92e93c92c428044b79e7d52 Homepage: https://cran.r-project.org/package=gimap Description: CRAN Package 'gimap' (Calculate Genetic Interactions for Paired CRISPR Targets) Helps find meaningful patterns in complex genetic experiments. First gimap takes data from paired CRISPR (Clustered regularly interspaced short palindromic repeats) screens that has been pre-processed to counts table of paired gRNA (guide Ribonucleic Acid) reads. The input data will have cell counts for how well cells grow (or don't grow) when different genes or pairs of genes are disabled. The output of the 'gimap' package is genetic interaction scores which are the distance between the observed CRISPR score and the expected CRISPR score. The expected CRISPR scores are what we expect for the CRISPR values to be for two unrelated genes. The further away an observed CRISPR score is from its expected score the more we suspect genetic interaction. The work in this package is based off of original research from the Alice Berger lab at Fred Hutchinson Cancer Center (2021) . 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The method first identifies which relations replicate across the majority of individuals to detect signal from noise. These group-level relations are then used as a foundation for starting the search for person-specific (or individual-level) relations. See Gates & Molenaar (2012) . 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The method first identifies which relations replicate across the majority of individuals to detect signal from noise. These group-level relations are then used as a foundation for starting the search for person-specific (or individual-level) relations. All estimates are obtained uniquely for each individual in the final models. The method for the 'graphicalVAR' approach is found in Epskamp, Waldorp, Mottus & Borsboom (2018) . 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Package: r-cran-git2rdata Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1368 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-git2r, r-cran-yaml Suggests: r-cran-ggplot2, r-cran-jsonlite, r-cran-knitr, r-cran-microbenchmark, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-git2rdata_0.5.0-1.ca2004.1_all.deb Size: 850868 MD5sum: 86ccdf6bc24283a3c4750e5e5725680b SHA1: b76c9943a63821e20f5e8359d44dbfdf6be6b9e7 SHA256: 67e2507496bd586c30156666542f4d051422d7976ca497cea8f82c498546925e SHA512: 1e7ed9d8858b67225f3e5d01524a46a005b2abbba9ae97f48b49c139b16a804ed56832557b4ad5611fdeabfc90af27a190bbd183a0be61fd40c01eb0d8f761f3 Homepage: https://cran.r-project.org/package=git2rdata Description: CRAN Package 'git2rdata' (Store and Retrieve Data.frames in a Git Repository) The git2rdata package is an R package for writing and reading dataframes as plain text files. A metadata file stores important information. 1) Storing metadata allows to maintain the classes of variables. By default, git2rdata optimizes the data for file storage. The optimization is most effective on data containing factors. The optimization makes the data less human readable. The user can turn this off when they prefer a human readable format over smaller files. Details on the implementation are available in vignette("plain_text", package = "git2rdata"). 2) Storing metadata also allows smaller row based diffs between two consecutive commits. This is a useful feature when storing data as plain text files under version control. Details on this part of the implementation are available in vignette("version_control", package = "git2rdata"). Although we envisioned git2rdata with a git workflow in mind, you can use it in combination with other version control systems like subversion or mercurial. 3) git2rdata is a useful tool in a reproducible and traceable workflow. vignette("workflow", package = "git2rdata") gives a toy example. 4) vignette("efficiency", package = "git2rdata") provides some insight into the efficiency of file storage, git repository size and speed for writing and reading. Package: r-cran-git4r Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 765 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-git2r, r-cran-diffr Suggests: r-cran-gitcreds, r-cran-rstudioapi, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-git4r_0.1.2-1.ca2004.1_all.deb Size: 518468 MD5sum: a95ebaad33b1af00ffd7a942693f8174 SHA1: f9515207a11bfdfde3e5eca26b661260b3ca0d01 SHA256: 278c34ae6886732706b5b73e1ba593c1ff5856d9baed4d370d811b436f941f83 SHA512: 44ebab10e2f87c1a9a90f8f56dd9c0ec191305a10c62cad10ed01d7cc8d80304a4d264714032d3075eb02d1606e19f8107beebdd45cd6e3805f09c86ab4f8408 Homepage: https://cran.r-project.org/package=git4r Description: CRAN Package 'git4r' (Interactive Git for R) An interactive git user interface from the R command line. Intuitive tools to make commits, branches, remotes, and diffs an integrated part of R coding. 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Package: r-cran-gitai Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1262 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-ellmer, r-cran-gitstats, r-cran-httr2, r-cran-lubridate, r-cran-r6, r-cran-s7, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-glue Suggests: r-cran-testthat, r-cran-shiny, r-cran-shinychat, r-cran-withr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gitai_0.1.1-1.ca2004.1_all.deb Size: 936600 MD5sum: 1e9d9587e98c3b198a7a154556204a51 SHA1: 2a0a2970c0f45922528704edcf3dd47934d84a75 SHA256: 64ea77a59a5776ee3650cdd58d60e920b92d37fd146053bfb14c990c73d6c61d SHA512: e4cc140b5cbce69f1ec6fe7f59b42db528deaf1b1270d2eec6be2a07de4faac98605d00e3d01a1adff9684e5b1851a72ca20b75e44e8340dede641f926fd663f Homepage: https://cran.r-project.org/package=GitAI Description: CRAN Package 'GitAI' (Extracts Knowledge from 'Git' Repositories) Scan multiple 'Git' repositories, pull specified files content and process it with large language models. You can summarize the content in specific way, extract information and data, or find answers to your questions about the repositories. The output can be stored in vector database and used for semantic search or as a part of a RAG (Retrieval Augmented Generation) prompt. Package: r-cran-gitcreds Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 234 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-codetools, r-cran-covr, r-cran-knitr, r-cran-mockery, r-cran-oskeyring, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-gitcreds_0.1.2-1.ca2004.1_all.deb Size: 85328 MD5sum: e2812239cd9071c08dfe622d47f1ab42 SHA1: f656f38b63ffc606a66c9d0207d164b5bb12870f SHA256: b26f10419c3646fcc635afbf37ea8e134c8c3dd81d2393da1b8ea7fb48bab3db SHA512: e88dd01a4f0a2c2bb8d655d466c61ce2cfbc6855e4b2af687b03d12ae9d08acb8c026ffe815186532b870e3085495df85a53f37021a4021e8ef33d20ebd51762 Homepage: https://cran.r-project.org/package=gitcreds Description: CRAN Package 'gitcreds' (Query 'git' Credentials from 'R') Query, set, delete credentials from the 'git' credential store. Manage 'GitHub' tokens and other 'git' credentials. 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Package: r-cran-gitdown Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 591 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-attempt, r-cran-bookdown, r-cran-dplyr, r-cran-git2r, r-cran-knitr, r-cran-magrittr, r-cran-purrr, r-cran-rmarkdown, r-cran-stringi, r-cran-tidyr Suggests: r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-gitdown_0.1.6-1.ca2004.1_all.deb Size: 490828 MD5sum: 8d9fbd4291c633c2907d9f6861d2637d SHA1: f7bdc62192c411dc6057727962979e8ca4125dfb SHA256: 276c2f5bff3118214bdcffdcec668ea1f74195b44bd8749b947ea9efd647bd0a SHA512: fde718036dd2333a850d8ac13ef2c0aa47bdc3f15bd51da4a58c3fbc2ba25a318aa33c88e471b3390e88c207bcb84b1d74c5a96cf73d43b47a7cf206f94f15b6 Homepage: https://cran.r-project.org/package=gitdown Description: CRAN Package 'gitdown' (Turn Your Git Commit Messages into a HTML Book) Read all commit messages of your local git repository and sort them according to tags or specific text pattern into chapters of a HTML book using 'bookdown'. 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Package: r-cran-gitear Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 308 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-httr, r-cran-jsonlite, r-cran-dplyr, r-cran-tidyr, r-cran-tibble, r-cran-stringr, r-cran-mockery, r-cran-rcpp Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-gitear_1.0.0-1.ca2004.1_all.deb Size: 199496 MD5sum: d6c4967891716015f8a9692b68becc9a SHA1: 5d9dc871f24be21a834a45de2b5c075cf53db894 SHA256: 8805f4a2330009f5e637dbcf9c319f16c68f20797db09fc1b5115608a62e7ef9 SHA512: f633cc0084f6672bbd6ffe4e887dec74854a3d464b5cafb0171504154880b9b7ec248f51395f2a1f95370b6079166ec06384861f60ee7a641152971575ad6e45 Homepage: https://cran.r-project.org/package=gitear Description: CRAN Package 'gitear' (Client to the 'gitea' API) 'Gitea' is a community managed, lightweight code hosting solution were projects and their respective git repositories can be managed . 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Package: r-cran-gitgadget Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-miniui, r-cran-rstudioapi, r-cran-curl, r-cran-jsonlite, r-cran-dplyr, r-cran-shinyfiles, r-cran-callr, r-cran-usethis, r-cran-markdown Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gitgadget_0.8.2-1.ca2004.1_all.deb Size: 129976 MD5sum: 031feb1d428fae78edf76e887f008616 SHA1: 2954f3dd9f3395a3b9e434427699599af25d0d41 SHA256: 24c57f3675fbe9824d269aba2e4d4b8bcb65a4ff963690c6af6f52ec5a22f2f8 SHA512: 305a90576e7968166b222f6d159ef98d17196fd9bb4339a38557ee749bb353140c5f99a0a87c6fe0eea935530dcf5f13a575d9607c2769a196293bdd2afa341e Homepage: https://cran.r-project.org/package=gitgadget Description: CRAN Package 'gitgadget' ('Rstudio' Addin for Version Control and Assignment Managementusing Git) An 'Rstudio' addin for version control that allows users to clone repositories, create and delete branches, and sync forks on GitHub, GitLab, etc. Furthermore, the addin uses the GitLab API to allow instructors to create forks and merge requests for all students/teams with one click of a button. Package: r-cran-gitgpt Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-gitgpt_0.1.3-1.ca2004.1_all.deb Size: 24912 MD5sum: 5f78d8b5de9203f22d64bf8fa805488b SHA1: ea657419a66a0cfbff5155e147d8a8b86941e2a9 SHA256: dbfd9536c46606ed5486e3ea27627b0e544d64c78c9e97d2d7f00b164a1eedae SHA512: 7fe312cac5147813486b0f3bbd02612c4dbfdd2d23787fb2fc9a3653b97334746a8935c7403b5e015482ffbacd870b546d2fe1b216e37c111309649e46525f3a Homepage: https://cran.r-project.org/package=gitGPT Description: CRAN Package 'gitGPT' (Automated Git Commit Messages using the 'OpenAI' 'GPT' Model) Automates the process of adding, committing, and pushing changes to a 'git' repository using commit messages generated by passing the git diff output to the 'OpenAI' 'GPT-3.5 Turbo' model (). Package: r-cran-githubinstall Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-curl, r-cran-data.table, r-cran-devtools, r-cran-httr, r-cran-jsonlite, r-cran-mockery Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-githubinstall_0.2.2-1.ca2004.1_all.deb Size: 61984 MD5sum: 8321e966e74bd2f0ed462dc176b09889 SHA1: bd1b0af213f18aadcb948e53e79156c821d28499 SHA256: 23260b6e08d35a74bc33e86bdee743ee57182ed372b34b449e7a19b97b1185af SHA512: 230ef6c41f5fe91f9e20ddab57621f0580a23fc9342734a588b7bd5e5ba57c4c5d80d90f815aa6672cfb4bdc2e7b472bc68170b1ffba9052d719c52de3b78c7a Homepage: https://cran.r-project.org/package=githubinstall Description: CRAN Package 'githubinstall' (A Helpful Way to Install R Packages Hosted on GitHub) Provides an helpful way to install packages hosted on GitHub. Package: r-cran-githubr Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-gitcreds, r-cran-dplyr, r-cran-gh, r-cran-magrittr, r-cran-httr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-githubr_0.9.1-1.ca2004.1_all.deb Size: 28332 MD5sum: c580ea6210d769e6f8d3cd38f9b3d633 SHA1: 02e403798193492aa14c70e66b75c2098c4c8e66 SHA256: cac5122ddd020ddb95f77f281ca6051101332ab68c3df114c66c6f8010eaba25 SHA512: 12ed1e41572d6ef89ea9cac2bac8fffec7d5b8cf6ff7dba76d885ffd46d1e1c4038fa5ce11329b1e342310cc56723ea2a017905eea495335d4cd9d123df33d4d Homepage: https://cran.r-project.org/package=githubr Description: CRAN Package 'githubr' (Easier to Use API Wrapper for 'GitHub') This is a 'GitHub' API wrapper for R. It uses the 'gh' package but has things wrapped up for convenient use cases. 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Package: r-cran-gjls2 Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nlme, r-cran-quantreg, r-cran-mcmcpack, r-cran-mass, r-cran-plyr, r-cran-ggplot2, r-cran-moments Suggests: r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-gjls2_0.2.0-1.ca2004.1_all.deb Size: 166052 MD5sum: a14c0127c5f21e24d1d54de76c5d6012 SHA1: 569994007bb7cca5e48dc88abe621255d83ec177 SHA256: 0cc1f175040c1031a27d47ab08ca88409443b3d793e2862e218f86b7b3929995 SHA512: 7fb28c7481ae3da12cfaaf1c539e617a9698e3ad2a324b1b09032e6991288e3feeee3b6c404b845fd56cfca4de535f6757b7fb67ec1aa7c55dc006ff1ed07cd1 Homepage: https://cran.r-project.org/package=gJLS2 Description: CRAN Package 'gJLS2' (A Generalized Joint Location and Scale Framework for AssociationTesting) An update to the Joint Location-Scale (JLS) testing framework that identifies associated SNPs, gene-sets and pathways with main and/or interaction effects on quantitative traits (Soave et al., 2015; ). The JLS method simultaneously tests the null hypothesis of equal mean and equal variance across genotypes, by aggregating association evidence from the individual location/mean-only and scale/variance-only tests using Fisher's method. The generalized joint location-scale (gJLS) framework has been developed to deal specifically with sample correlation and group uncertainty (Soave and Sun, 2017; ). The current release: gJLS2, include additional functionalities that enable analyses of X-chromosome genotype data through novel methods for location (Chen et al., 2021; ) and scale (Deng et al., 2019; ). Package: r-cran-gjrm.data Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 805 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-gjrm Filename: pool/dists/focal/main/r-cran-gjrm.data_0.1-1-1.ca2004.1_all.deb Size: 794032 MD5sum: e1a24b26b535cd45da02edaeb250a754 SHA1: 6e6b742006c087e3b2b307be4a62d8594839a36f SHA256: d24e8978cbd32c307cb42f1d8020aca168cf9277802a6f943238515a86d96551 SHA512: 44499ebe7a51897b52c3e93c35766de1708a42383bc1056023ee85d18dc850a4f18f53df753c272150cdac5f8133f53d98fd417c41ceee8977bbe52290d3420f Homepage: https://cran.r-project.org/package=GJRM.data Description: CRAN Package 'GJRM.data' (Data Sets for Copula Additive Distributional Regression Using R) Data sets used in the book Marra and Radice (2025, ISBN:9781032973111) "Copula Additive Distributional Regression Using R", for illustrating the fitting of various joint (and univariate) regression models, with several types of covariate effects, in the presence of equations' errors association. 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Generalized regression models are common methods for handling data for which assuming Gaussian-distributed errors is not appropriate. For instance, if the response of interest is binary, count, or proportion data, one can instead model the expectation of the response based on an appropriate data-generating distribution. This package provides methods for fitting GLMs and GAMs under Beta regression, Poisson regression, Gamma regression, and Binomial regression (currently GLM only) settings. Models are fit using local scoring algorithms described in Hastie and Tibshirani (1990) . 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These are a class of observation driven non-linear non-Gaussian state space models. The state vector consists of a linear regression component plus an observation driven component consisting of an autoregressive-moving average (ARMA) filter of past predictive residuals. Currently three distributions (Poisson, negative binomial and binomial) can be used for the response series. Three options (Pearson, score-type and unscaled) for the residuals in the observation driven component are available. Estimation is via maximum likelihood (conditional on initializing values for the ARMA process) optimized using Fisher scoring or Newton Raphson iterative methods. Likelihood ratio and Wald tests for the observation driven component allow testing for serial dependence in generalized linear model settings. Graphical diagnostics including model fits, autocorrelation functions and probability integral transform residuals are included in the package. 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For further details we refer the reader to the paper Gomtsyan et al. (2020), . Package: r-cran-glassdoor Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-glassdoor_0.9.0-1.ca2004.1_all.deb Size: 85276 MD5sum: 7fc94eb355e0b767dbabf699205e89e4 SHA1: c86a6909db899c1f1b6f449572dff7b5a024d5fd SHA256: 2b2385a2316a0026a7876fd6d4e29f7a1193d59c23a94d0823293086948edb6e SHA512: 3e0204cc50e388788c4e8ec412665e71202aec1f8a58f537987b4cc98a344ce90ae86f81bf1d341faae71302f236eac5555c72f89a7d7b45a66741ea0dc3937c Homepage: https://cran.r-project.org/package=glassdoor Description: CRAN Package 'glassdoor' (Interface to 'Glassdoor' API) Interacts with the 'Glassdoor' API . Allows the user to search job statistics, employer statistics, and job progression, where 'Glassdoor' provides a breakdown of other jobs a person did after their current one. 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Package: r-cran-gldreg Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 187 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-gldex, r-cran-ddst Suggests: r-cran-mass, r-cran-quantreg Filename: pool/dists/focal/main/r-cran-gldreg_1.1.1-1.ca2004.1_all.deb Size: 153240 MD5sum: 1045380a0330749d62aa023c2b0866fb SHA1: 2d290a520060db1bc2d10bd0f6fe65645a384627 SHA256: 46b0060e1376f2b5e76453c740f312dc94021954e374aac450b0f2ee1b3683e4 SHA512: 6b2c2a190e523d7a5e3a4a60106cc4e7ebce451296a268afa8bf49c52a967e9f9f90d3f746be9c0be2db973d41ea0c5438aad32b1b60060262c7bb38e9540c81 Homepage: https://cran.r-project.org/package=GLDreg Description: CRAN Package 'GLDreg' (Fit GLD Regression/Quantile/AFT Model to Data) Owing to the rich shapes of Generalised Lambda Distributions (GLDs), GLD standard/quantile/Accelerated Failure Time (AFT) regression is a competitive flexible model compared to standard/quantile/AFT regression. The proposed method has some major advantages: 1) it provides a reference line which is very robust to outliers with the attractive property of zero mean residuals and 2) it gives a unified, elegant quantile regression model from the reference line with smooth regression coefficients across different quantiles. For AFT model, it also eliminates the needs to try several different AFT models, owing to the flexible shapes of GLD. The goodness of fit of the proposed model can be assessed via QQ plots and Kolmogorov-Smirnov tests and data driven smooth test, to ensure the appropriateness of the statistical inference under consideration. Statistical distributions of coefficients of the GLD regression line are obtained using simulation, and interval estimates are obtained directly from simulated data. References include the following: Su (2015) "Flexible Parametric Quantile Regression Model" , Su (2021) "Flexible parametric accelerated failure time model". Package: r-cran-gldrm Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gldrm_1.6-1.ca2004.1_all.deb Size: 115704 MD5sum: 425d59848830fa990a33008ec8e86ea3 SHA1: 31ad5cc9d514d0c3bdc12db1c85e179fa5cc6bde SHA256: c7dca110bb46894da9a344bb1edf1364a1668cc67e251441fbcba3f5947a758d SHA512: b4353400388dd9d60d58a351c7625a1a9a39894726a7745a50d699db5d00a798b4e16458c06b617fa9eafb83e5d77d77db63ed6cdcf2d2e7afeb763c35d0ae00 Homepage: https://cran.r-project.org/package=gldrm Description: CRAN Package 'gldrm' (Generalized Linear Density Ratio Models) Fits a generalized linear density ratio model (GLDRM). A GLDRM is a semiparametric generalized linear model. In contrast to a GLM, which assumes a particular exponential family distribution, the GLDRM uses a semiparametric likelihood to estimate the reference distribution. The reference distribution may be any discrete, continuous, or mixed exponential family distribution. The model parameters, which include both the regression coefficients and the cdf of the unspecified reference distribution, are estimated by maximizing a semiparametric likelihood. Regression coefficients are estimated with no loss of efficiency, i.e. the asymptotic variance is the same as if the true exponential family distribution were known. Huang (2014) . Huang and Rathouz (2012) . Rathouz and Gao (2008) . Package: r-cran-glm.predict Architecture: all Version: 4.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 382 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nnet, r-cran-aer, r-cran-survival, r-cran-mass, r-cran-mlogit, r-cran-dfidx, r-cran-survey, r-cran-lme4, r-cran-vgam Suggests: r-cran-ggplot2, r-cran-devtools, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-glm.predict_4.3-0-1.ca2004.1_all.deb Size: 299260 MD5sum: 838931a8dd8bcedcd84bdc61b35a3c4e SHA1: 059786deb71d95819ed56e164f099f7b5b0c02ca SHA256: df81697306ba539187703aee04961d111b6d88c6a98960f0819ff89ed215ac74 SHA512: 45a38b02ddb3cd2a424750f7c85d2b7db81f57c3e29cc2dde212af1049410e197e47f01fda171149ff7cfe188eb15baefec50494d6035384c4354139998e7ecb Homepage: https://cran.r-project.org/package=glm.predict Description: CRAN Package 'glm.predict' (Predicted Values and Discrete Changes for Regression Models) Functions to calculate predicted values and the difference between the two cases with confidence interval for lm() [linear model], glm() [generalized linear model], glm.nb() [negative binomial model], polr() [ordinal logistic model], vglm() [generalized ordinal logistic model], multinom() [multinomial model], tobit() [tobit model], svyglm() [survey-weighted generalised linear models] and lmer() [linear multilevel models] using Monte Carlo simulations or bootstrap. Reference: Bennet A. Zelner (2009) . Package: r-cran-glm2 Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-glm2_1.2.1-1.ca2004.1_all.deb Size: 48604 MD5sum: 171c47d73c1151ad4b7e4f5aba8bbd4a SHA1: 97f63f22f12d2ec30bfa801b010d671e9043cf7a SHA256: 11d8ba447218713e9b2903a60c01c61568440a83125af7054f26a5c82f861078 SHA512: b7ad9b88559bd1e2471ba719f1206372f75ace67adbf8c89642c089bd02e009bd826a3aff279c42fe255c2e5e8279ace9f5475d7fd403282a23a46e2183501f3 Homepage: https://cran.r-project.org/package=glm2 Description: CRAN Package 'glm2' (Fitting Generalized Linear Models) Fits generalized linear models using the same model specification as glm in the stats package, but with a modified default fitting method that provides greater stability for models that may fail to converge using glm. Package: r-cran-glmbb Architecture: all Version: 0.5-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-digest Filename: pool/dists/focal/main/r-cran-glmbb_0.5-1-1.ca2004.1_all.deb Size: 58696 MD5sum: ddbc3168fb291b3e96954590402de872 SHA1: 4509e209aec7180e266742bb89e0593e86fea55d SHA256: 58f71b7e43163e2018739ca17aad69f169cec289dab7138d7fc933b8c9d1ffd7 SHA512: 4d6adaf0b3626a9c860be24620ff64a11812bdf217f1900c19fcef52e432a51caa36341a9d623883900d69609f352596d360f232c4db90f16993ca3f4d61a877 Homepage: https://cran.r-project.org/package=glmbb Description: CRAN Package 'glmbb' (All Hierarchical or Graphical Models for Generalized LinearModel) Find all hierarchical models of specified generalized linear model with information criterion (AIC, BIC, or AICc) within specified cutoff of minimum value. Alternatively, find all such graphical models. Use branch and bound algorithm so we do not have to fit all models. Package: r-cran-glmc Architecture: all Version: 0.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-emplik Filename: pool/dists/focal/main/r-cran-glmc_0.3-1-1.ca2004.1_all.deb Size: 85216 MD5sum: aea7c5648092886f7a94403c66bb30a3 SHA1: 784707fdd8a9226839f3d580932a564b192f1126 SHA256: 865129263b65e9353fb3c42012f5cc486194ddbf19d898be85e7cf97b2963e77 SHA512: 2a71f2ca2988691b47cbd11bd5369017b8bb018b8bea59d828b2a7d1e3df18696e1ad3535c6f7ff2908bd9aaa99dd422bff1da119559ba2a3a8a1ca0c3741349 Homepage: https://cran.r-project.org/package=glmc Description: CRAN Package 'glmc' (Fitting Generalized Linear Models Subject to Constraints) Fits generalized linear models where the parameters are subject to linear constraints. The model is specified by giving a symbolic description of the linear predictor, a description of the error distribution, and a matrix of constraints on the parameters. Package: r-cran-glmdm Architecture: all Version: 2.60-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-glmdm_2.60-1.ca2004.1_all.deb Size: 71468 MD5sum: 2cb5bf3a63d70f8f0224e6cdeaffa886 SHA1: bf3175205a32bb2c5a25440ede9d5bf1dfee8e00 SHA256: 6906fffe9aecc5022a36d10914eae520e4177b86d5f6000a367d93e42e6dfb68 SHA512: 65b6b3586142519cbb331ac898ccb6f99fd775be503a8ae32f623fcdf8b7829bc5df6c7424b20d6abd6e40657d191fdd870e10d24a91b2dc2e5350626cef30d6 Homepage: https://cran.r-project.org/package=glmdm Description: CRAN Package 'glmdm' (R Code for Simulation of GLMDM) This package contains functions to perform generalized linear mixed Dirichlet models using posterior simulation. Package: r-cran-glme Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nlme, r-cran-reshape, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-glme_0.1.0-1.ca2004.1_all.deb Size: 37528 MD5sum: 93e2b8a43905c1a84c37f4fa534ce147 SHA1: a6fe7b33c4f72f269c8457834d9b831c56744f60 SHA256: d13ac08da805cec2ae6f2d9eff5a77c988322d657a3b7e6cfb758b6118e4b2bb SHA512: de6cf93cf4c36f270b80beec70f732be2610da1bb2bf1d9c070cb1314dfa70286ff8508778d1b17e917d1d9126bd441a8db5c30010499c6964a298a890494c02 Homepage: https://cran.r-project.org/package=glme Description: CRAN Package 'glme' (Generalized Linear Mixed Effects Models) Provides Generalized Inferences based on exact distributions and exact probability statements for mixed effect models, provided by such papers as Weerahandi and Yu (2020) under the widely used Compound Symmetric Covariance structure. The package returns the estimation of the coefficients in random and fixed part of the mixed models by generalized inference. Package: r-cran-glmertree Architecture: all Version: 0.2-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 727 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-partykit, r-cran-formula Suggests: r-cran-vcd, r-cran-lattice, r-cran-betareg, r-cran-glmmtmb, r-cran-lmertest Filename: pool/dists/focal/main/r-cran-glmertree_0.2-6-1.ca2004.1_all.deb Size: 580672 MD5sum: 23f1c0a2de4e7c2a42a97a2908f189a2 SHA1: dd85552cfe71d1cb12ff183a6bd10cfd7d6dfbab SHA256: 8652023c7603b183b7c2fd78b46644bbaf6e956988e614c33b0b179402fa362f SHA512: c9e8c9db2b241def627b7705b2ad097236650272f332a0faca28632e46703e615e00d2c44c3d5292b10489f792364266e23244d0dce78e0cc7f52468aaf0a78b Homepage: https://cran.r-project.org/package=glmertree Description: CRAN Package 'glmertree' (Generalized Linear Mixed Model Trees) Recursive partitioning based on (generalized) linear mixed models (GLMMs) combining lmer()/glmer() from 'lme4' and lmtree()/glmtree() from 'partykit'. The fitting algorithm is described in more detail in Fokkema, Smits, Zeileis, Hothorn & Kelderman (2018; ). For detecting and modeling subgroups in growth curves with GLMM trees see Fokkema & Zeileis (2024; ). Package: r-cran-glmfitmiss Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-abind, r-cran-mass, r-cran-brglm2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-glmfitmiss_2.1.0-1.ca2004.1_all.deb Size: 172300 MD5sum: e77a4a8e845b9527ae807ee46dbaa858 SHA1: c86ad699039b7f30cee4481a18d23572638f1acb SHA256: 2e89c41c2388e4f634d3d8afc43bacf500ddcefab7b30bc6884fb34283baeb3a SHA512: 99b70279715ed31e61a448ee55012c3db27e0856e590fbbcf01d2cbb39d5949799c7215efb706296d0ef08af2395590ca4517d1a0945ade6d77e91e1c64c7674 Homepage: https://cran.r-project.org/package=glmfitmiss Description: CRAN Package 'glmfitmiss' (Fitting GLMs with Missing Data in Both Responses and Covariates) Fits generalized linear models (GLMs) when there is missing data in both the response and categorical covariates. The functions implement likelihood-based methods using the Expectation and Maximization (EM) algorithm and optionally apply Firth’s bias correction for improved inference. See Pradhan, Nychka, and Bandyopadhyay (2025) , Maiti and Pradhan (2009) , Maity, Pradhan, and Das (2019) for further methodological details. Package: r-cran-glmglrt Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 163 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-parameters, r-cran-mass Suggests: r-cran-testthat, r-cran-lme4, r-cran-nlme, r-cran-nnet, r-cran-survival, r-cran-lmertest, r-cran-mgcv, r-cran-gam, r-cran-multcomp Filename: pool/dists/focal/main/r-cran-glmglrt_0.2.2-1.ca2004.1_all.deb Size: 132600 MD5sum: abab58a7ce03cf738c658816119ed8fb SHA1: 7cb7b3e3ab488ad748717f03a3452c0ac388ad51 SHA256: 985be21444cdc730ec732bd4a14461f67ceaffe941374e912d39eb6a0475529a SHA512: 2f11022727ceba2e6d5902bb20fedb415cdf3c10827b3a3e6969c681097444ec904b538f2458f2d0dbf4595c70dd1527f28b2d1e9bdfd6ace838dbfcb750df9d Homepage: https://cran.r-project.org/package=glmglrt Description: CRAN Package 'glmglrt' (GLRT P-Values in Generalized Linear Models) Provides functions to compute Generalized Likelihood Ratio Tests (GLRT) also known as Likelihood Ratio Tests (LRT) and Rao's score tests of simple and complex contrasts of Generalized Linear Models (GLMs). It provides the same interface as summary.glm(), adding GLRT P-values, less biased than Wald's P-values and consistent with profile-likelihood confidence interval generated by confint(). See Wilks (1938) for the LRT chi-square approximation. See Rao (1948) for Rao's score test. See Wald (1943) for Wald's test. Package: r-cran-glmm.hp Architecture: all Version: 0.1-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mumin, r-cran-ggplot2, r-cran-vegan, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-glmm.hp_0.1-8-1.ca2004.1_all.deb Size: 50732 MD5sum: 8a4525e4a57e89a38d80b18889fa3851 SHA1: 44fa1a479d50eb30fa2980710acd3949db2ed830 SHA256: ab0317abc89cef5067592ab0137f87f6d5d182936992d227d98f3ec2e9aa1ebe SHA512: e96e4894876a7b44242522dc21174dc9db47377e42b2e3febe481993156b4f4d0fd73b40343a33bf3a3914b7f29895cb46d0a5f150b5d8fa1fbc333dadc03aa9 Homepage: https://cran.r-project.org/package=glmm.hp Description: CRAN Package 'glmm.hp' (Hierarchical Partitioning of Marginal R2 for GeneralizedMixed-Effect Models) Conducts hierarchical partitioning to calculate individual contributions of each predictor (fixed effects) towards marginal R2 for generalized linear mixed-effect model (including lm, glm and glmm) based on output of r.squaredGLMM() in 'MuMIn', applying the algorithm of Lai J.,Zou Y., Zhang S.,Zhang X.,Mao L.(2022)glmm.hp: an R package for computing individual effect of predictors in generalized linear mixed models.Journal of Plant Ecology,15(6)1302-1307. Package: r-cran-glmmadaptive Architecture: all Version: 0.9-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 472 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-nlme, r-cran-matrixstats Suggests: r-cran-lattice, r-cran-knitr, r-cran-rmarkdown, r-cran-pkgdown, r-cran-multcomp, r-cran-emmeans, r-cran-estimability, r-cran-effects, r-cran-dharma, r-cran-optimparallel Filename: pool/dists/focal/main/r-cran-glmmadaptive_0.9-7-1.ca2004.1_all.deb Size: 376312 MD5sum: 8f4f0ae2c974b0c392fa97bf2e6ac114 SHA1: b4ec5b37af2677cd340d1962980c0d18129af0a1 SHA256: d1820fcda2fe300f988711a52bb17109729e801c534c3e1289a759237a7bfbf6 SHA512: c53020de220f843483f35949a867c9d3b4cf21939ed1dc0b455534aa0397b2a65d739276befcae3363c744bbc2cde197a4b7be6bd4b827d19567346b7ce35fda Homepage: https://cran.r-project.org/package=GLMMadaptive Description: CRAN Package 'GLMMadaptive' (Generalized Linear Mixed Models using Adaptive GaussianQuadrature) Fits generalized linear mixed models for a single grouping factor under maximum likelihood approximating the integrals over the random effects with an adaptive Gaussian quadrature rule; Jose C. 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This extends on existing cosinor modeling packages, including 'cosinor' and 'circacompare', by including a wide range of available link functions and the capability to fit mixed models. The cosinor model is described by Cornelissen (2014) . Package: r-cran-glmmisrep Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 313 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-poisson.glm.mix Filename: pool/dists/focal/main/r-cran-glmmisrep_0.1.1-1.ca2004.1_all.deb Size: 278524 MD5sum: 08ff35884418e1056b5432c49e9e21b0 SHA1: 8d8c7053180aff277cc0e6adff97ff75fae864cc SHA256: 15c322edebd2f37a229f79fe76220286eb9fe8e005df25d22d94d49ad8fa5ebe SHA512: 4626f83b4c7bd4c8eb5bf29713ff9783eddd826f9924715c73e9ae267505ed6e3729a2d35e8c086cbb52eb7ddbe9b12112c14a4e3e53d256eb70739c00cbe217 Homepage: https://cran.r-project.org/package=glmMisrep Description: CRAN Package 'glmMisrep' (Generalized Linear Models Adjusting for Misrepresentation) Fit Generalized Linear Models to continuous and count outcomes, as well as estimate the prevalence of misrepresentation of an important binary predictor. Misrepresentation typically arises when there is an incentive for the binary factor to be misclassified in one direction (e.g., in insurance settings where policy holders may purposely deny a risk status in order to lower the insurance premium). This is accomplished by treating a subset of the response variable as resulting from a mixture distribution. Model parameters are estimated via the Expectation Maximization algorithm and standard errors of the estimates are obtained from closed forms of the Observed Fisher Information. For an introduction to the models and the misrepresentation framework, see Xia et. al., (2023) . 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RR Designs: Warner, Forced Response, Unrelated Question, Kuk, Crosswise, and Triangular. Reference: Fox, J-P, Veen, D. and Klotzke, K. (2018). Generalized Linear Mixed Models for Randomized Responses. Methodology. . Package: r-cran-glmmselect Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-glmmselect_1.2.0-1.ca2004.1_all.deb Size: 107540 MD5sum: c241502b3e720362da31012137bf5e93 SHA1: cc7bbef446cad7a721fcaa85502086f9d08a5709 SHA256: eb6c2859e6e0331b22c68d475766b8ad99d9b60d7c4609b9593cfe216e3fedb4 SHA512: bd3f476455fbe43bd1619f7b4fb9fac96a1cd6a226e155edd744d28fc657fb45fff39367950c7e745aa6dc8982955125080e01734ff107532727818a94c036d1 Homepage: https://cran.r-project.org/package=GLMMselect Description: CRAN Package 'GLMMselect' (Bayesian Model Selection for Generalized Linear Mixed Models) A Bayesian model selection approach for generalized linear mixed models. Currently, 'GLMMselect' can be used for Poisson GLMM and Bernoulli GLMM. 'GLMMselect' can select fixed effects and random effects simultaneously. Covariance structures for the random effects are a product of a unknown scalar and a known semi-positive definite matrix. 'GLMMselect' can be widely used in areas such as longitudinal studies, genome-wide association studies, and spatial statistics. 'GLMMselect' is based on Xu, Ferreira, Porter, and Franck (202X), Bayesian Model Selection Method for Generalized Linear Mixed Models, Biometrics, under review. Package: r-cran-glmmseq Architecture: all Version: 0.5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2913 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-car, r-cran-ggplot2, r-cran-ggpubr, r-cran-glmmtmb, r-cran-lme4, r-cran-lmertest, r-cran-plotly, r-bioc-qvalue, r-cran-pbapply, r-cran-pbmcapply Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-bioc-deseq2, r-bioc-edger, r-cran-emmeans Filename: pool/dists/focal/main/r-cran-glmmseq_0.5.5-1.ca2004.1_all.deb Size: 1618316 MD5sum: d99b18820b52901b25aadd9c2290253d SHA1: 41e74b303f3fb0c6b63b47592cbcacef6e541394 SHA256: bccbd79e5fd5053fa38c54fd593bf6845dd33730c4c6abce3830f75ee5e6f5f5 SHA512: d382cb1c5246828c967dd30763c9758d4ea2afcecec7fd03f7b01e1efcd8b12dadd42a228a5e4891e1780637639c4a55a6e0a8fa26532765e9f4a2bbaee2720a Homepage: https://cran.r-project.org/package=glmmSeq Description: CRAN Package 'glmmSeq' (General Linear Mixed Models for Gene-Level DifferentialExpression) Using mixed effects models to analyse longitudinal gene expression can highlight differences between sample groups over time. The most widely used differential gene expression tools are unable to fit linear mixed effect models, and are less optimal for analysing longitudinal data. This package provides negative binomial and Gaussian mixed effects models to fit gene expression and other biological data across repeated samples. This is particularly useful for investigating changes in RNA-Sequencing gene expression between groups of individuals over time, as described in: Rivellese, F., Surace, A. E., Goldmann, K., Sciacca, E., Cubuk, C., Giorli, G., ... Lewis, M. J., & Pitzalis, C. (2022) Nature medicine . Package: r-cran-glmnetcr Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1104 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-glmnetcr_1.0.7-1.ca2004.1_all.deb Size: 745588 MD5sum: a1a17287a0db1897ed5c1c3eb03e50da SHA1: 9e3c02ab00abb7c28c0bc1e63b2c9b0a383f9890 SHA256: 7c34b46c7ccdc4d9e57bac80193d2d2954987222a7991431e81dc2ebeac463eb SHA512: 3eb4c903c99f932b84027e0fa323bab400c0c02e01e587876a0f4d02daa42444f3c51bf9ceb9eb93f0505b1384735fb3e7bdb5983d5abed8e9061fd95e9d0abe Homepage: https://cran.r-project.org/package=glmnetcr Description: CRAN Package 'glmnetcr' (Fit a Penalized Constrained Continuation Ratio Model forPredicting an Ordinal Response) Penalized methods are useful for fitting over-parameterized models. This package includes functions for restructuring an ordinal response dataset for fitting continuation ratio models for datasets where the number of covariates exceeds the sample size or when there is collinearity among the covariates. The 'glmnet' fitting algorithm is used to fit the continuation ratio model after data restructuring. Package: r-cran-glmnetr Architecture: all Version: 0.6-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3094 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-glmnet, r-cran-survival, r-cran-matrix, r-cran-xgboost, r-cran-smoof, r-cran-mlrmbo, r-cran-paramhelpers, r-cran-randomforestsrc, r-cran-rpart, r-cran-torch, r-cran-aorsf, r-cran-dicekriging, r-cran-rgenoud Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-glmnetr_0.6-1-1.ca2004.1_all.deb Size: 2708568 MD5sum: d5fed2ce983c4122a34b7da2c2eedc12 SHA1: 78edcfcf0e9cdeddea7140da2c39fc9d17c68ab7 SHA256: 7c404aae2fb3c1e8d4f3e5727b853959d07eb3ee1fe01d3ad1b01270a3f7411f SHA512: 1e0ef6902dced9712aafecf58522840e8e2a61654e26aec47a359da1c2cf322b523c7ffd8b9b9c30b636a2df6369eb0f4fb62f1e91bae7076f7535ea1e0804a9 Homepage: https://cran.r-project.org/package=glmnetr Description: CRAN Package 'glmnetr' (Nested Cross Validation for the Relaxed Lasso and Other MachineLearning Models) Cross validation informed Relaxed LASSO (or more generally elastic net), gradient boosting machine ('xgboost'), Random Forest ('RandomForestSRC'), Oblique Random Forest ('aorsf'), Artificial Neural Network (ANN), Recursive Partitioning ('RPART') or step wise regression models are fit. Cross validation leave out samples (leading to nested cross validation) or bootstrap out-of-bag samples are used to evaluate and compare performances between these models with results presented in tabular or graphical means. Calibration plots can also be generated, again based upon (outer nested) cross validation or bootstrap leave out (out of bag) samples. For some datasets, for example when the design matrix is not of full rank, 'glmnet' may have very long run times when fitting the relaxed lasso model, from our experience when fitting Cox models on data with many predictors and many patients. This may be remedied by using the 'path=TRUE' option, which is passed to the glmnet() and cv.glmnet() calls. Other packages doing similar include 'nestedcv' , 'glmnetSE' which may provide different functionality when performing a nested CV. Use of the 'glmnetr' has many similarities to the 'glmnet' package and it could be helpful for the user of 'glmnetr' also become familiar with the 'glmnet' package , with the "An Introduction to 'glmnet'" and "The Relaxed Lasso" being especially useful in this regard. Package: r-cran-glmnetse Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-boot, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-glmnetse_0.0.1-1.ca2004.1_all.deb Size: 44312 MD5sum: d8001b19f40fd7cb4b50dac4b6ac5ae0 SHA1: 998b93b68b96305316c8ba565475dd1038c4df05 SHA256: 00d9384fb55f79fdd0340de387e55bf0fe621a3dcccdc889b479046d104cfce7 SHA512: 8afc39766885d2eecc3ba6eaa53d9cd8b890318c629e5ce57625ecd6338f41fba0599b1f8ac694e9cf18b13ee6de087c380252ed64229e0a0731670f72a0f99a Homepage: https://cran.r-project.org/package=glmnetSE Description: CRAN Package 'glmnetSE' (Add Nonparametric Bootstrap SE to 'glmnet' for SelectedCoefficients (No Shrinkage)) Builds a LASSO, Ridge, or Elastic Net model with 'glmnet' or 'cv.glmnet' with bootstrap inference statistics (SE, CI, and p-value) for selected coefficients with no shrinkage applied for them. Model performance can be evaluated on test data and an automated alpha selection is implemented for Elastic Net. Parallelized computation is used to speed up the process. The methods are described in Friedman et al. (2010) and Simon et al. (2011) . 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Package: r-cran-glmpca Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 332 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-covr, r-cran-ggplot2, r-cran-knitr, r-cran-logisticpca, r-cran-markdown, r-cran-matrix, r-cran-testthat Filename: pool/dists/focal/main/r-cran-glmpca_0.2.0-1.ca2004.1_all.deb Size: 224780 MD5sum: 3734d5b10087a3588e637a45d6612d69 SHA1: e20f0c0c2a762af0098c55ed03f41c1d5a2a47cd SHA256: 873ce8de1c72c11ee57190540dd4cac921b25d15d720514dfd57e78d78cc5cb9 SHA512: 67193107c81edb3edb315044a69ab5c8130011b4b56654f73571958a1b7f1a7629aec62c65f0a59aab9337786b65a7ee9dc5fa9be4668682904f317ec22cabc8 Homepage: https://cran.r-project.org/package=glmpca Description: CRAN Package 'glmpca' (Dimension Reduction of Non-Normally Distributed Data) Implements a generalized version of principal components analysis (GLM-PCA) for dimension reduction of non-normally distributed data such as counts or binary matrices. Townes FW, Hicks SC, Aryee MJ, Irizarry RA (2019) . Townes FW (2019) . 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These deviations can render the results of standard generalized linear models unreliable. As the sample size increases, what might initially appear as minor issues can escalate to critical concerns. To address these challenges, we adopt a permutation-based inference method tailored for generalized linear models. This approach offers robust estimations that effectively counteract the mentioned problems, and its effectiveness remains consistent regardless of the sample size. 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Package: r-cran-glmtrans Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 447 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-ggplot2, r-cran-foreach, r-cran-doparallel, r-cran-caret, r-cran-assertthat, r-cran-formatr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-glmtrans_2.1.0-1.ca2004.1_all.deb Size: 404864 MD5sum: 03461affa83d25acd93a411b0a83c880 SHA1: 8ceca2e1bb2cfec55b853fd8f9e49ef0e9cef0a5 SHA256: 25e7ab331f808790ce5234a225abfc302f57eb91742969febfac49fdd9c0ccf3 SHA512: ed5f0446814ad545cee57e07a97645468a02f4217fd27e0ca382049d6382466db18c9ebdfb03b09ef8b7d50723cb27dd3e51617ec768be8fe993ba0b286608ac Homepage: https://cran.r-project.org/package=glmtrans Description: CRAN Package 'glmtrans' (Transfer Learning under Regularized Generalized Linear Models) We provide an efficient implementation for two-step multi-source transfer learning algorithms in high-dimensional generalized linear models (GLMs). The elastic-net penalized GLM with three popular families, including linear, logistic and Poisson regression models, can be fitted. To avoid negative transfer, a transferable source detection algorithm is proposed. We also provides visualization for the transferable source detection results. The details of methods can be found in "Tian, Y., & Feng, Y. (2023). Transfer learning under high-dimensional generalized linear models. Journal of the American Statistical Association, 118(544), 2684-2697.". 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A particular stochastic expectation maximization algorithm is used to draw a few good trees, that are then assessed via the user's criterion of choice among BIC / AIC / test set Gini. The formal development is given in a PhD chapter, see Ehrhardt (2019) . 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The package downloads these search volumes provided by Google Trends and uses them to measure and analyze the distribution of search scores across countries or within countries. The package allows researchers and analysts to use these search scores to investigate global trends based on patterns within these scores. This offers insights such as degree of internationalization of firms and organizations or dissemination of political, social, or technological trends across the globe or within single countries. An outline of the package's methodological foundations and potential applications is available as a working paper: . 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Given a variable of interest measured in two groups with scaled survey weights so that their hypothetical populations are of equal size, tlorenz() computes the proportion of members of the group with smaller values (ordered from smallest to largest) needed for their sum to match the sum of the top qth percentile of the group with higher values. rlorenz() shows the fraction of the total value of the group with larger values held by the pth percentile of those in the group with smaller values. Fd() is a survey weighted cumulative distribution function and Eps() is a survey weighted inverse cdf used in rlorenz(). Ramos, Graubard, and Gastwirth (2025) . 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GLOSSA (Global Ocean Species Spatio-temporal Analysis) uses Bayesian Additive Regression Trees (BART; Chipman, George, and McCulloch (2010) ) to model species distributions with intuitive workflows for data upload, processing, model fitting, and result visualization. It supports presence-absence and presence-only data (with pseudo-absence generation), spatial thinning, cross-validation, and scenario-based projections. GLOSSA is designed to facilitate ecological research by providing easy-to-use tools for analyzing and visualizing marine species distributions across different spatial and temporal scales. 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Boris P. Kovatchev, Erik Otto, Daniel Cox, Linda Gonder-Frederick, and William Clarke (2006) . Jean-Pierre Le Floch, Philippe Escuyer, Eric Baudin, Dominique Baudon, and Leon Perlemuter (1990) . C.M. McDonnell, S.M. Donath, S.I. Vidmar, G.A. Werther, and F.J. Cameron (2005) . Everitt, Brian (1998) . Becker, R. A., Chambers, J. M. and Wilks, A. R. (1988) . Dougherty, R. L., Edelman, A. and Hyman, J. M. (1989) . Tukey, J. W. (1977) . F. John Service (2013) . Edmond A. Ryan, Tami Shandro, Kristy Green, Breay W. Paty, Peter A. Senior, David Bigam, A.M. James Shapiro, and Marie-Christine Vantyghem (2004) . F. John Service, George D. Molnar, John W. Rosevear, Eugene Ackerman, Leal C. Gatewood, William F. Taylor (1970) . Sarah E. Siegelaar, Frits Holleman, Joost B. L. Hoekstra, and J. Hans DeVries (2010) . Gabor Marics, Zsofia Lendvai, Csaba Lodi, Levente Koncz, David Zakarias, Gyorgy Schuster, Borbala Mikos, Csaba Hermann, Attila J. Szabo, and Peter Toth-Heyn (2015) . Thomas Danne, Revital Nimri, Tadej Battelino, Richard M. Bergenstal, Kelly L. Close, J. Hans DeVries, SatishGarg, Lutz Heinemann, Irl Hirsch, Stephanie A. Amiel, Roy Beck, Emanuele Bosi, Bruce Buckingham, ClaudioCobelli, Eyal Dassau, Francis J. Doyle, Simon Heller, Roman Hovorka, Weiping Jia, Tim Jones, Olga Kordonouri,Boris Kovatchev, Aaron Kowalski, Lori Laffel, David Maahs, Helen R. Murphy, Kirsten Nørgaard, Christopher G.Parkin, Eric Renard, Banshi Saboo, Mauro Scharf, William V. Tamborlane, Stuart A. Weinzimer, and Moshe Phillip.International consensus on use of continuous glucose monitoring.Diabetes Care, 2017 . 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Group Method of Data Handling (GMDH), or polynomial neural networks, is a family of inductive algorithms that performs gradually complicated polynomial models and selecting the best solution by an external criterion. In other words, inductive GMDH algorithms give possibility finding automatically interrelations in data, and selecting an optimal structure of model or network. The package includes GMDH Combinatorial, GMDH MIA (Multilayered Iterative Algorithm), GMDH GIA (Generalized Iterative Algorithm) and GMDH Combinatorial with Active Neurons. 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Inputs from objects of class serp(), clm(), polr(), multinom(), mlogit(), vglm() and glm() are currently supported. Available tests include the Hosmer-Lemeshow tests for the binary, multinomial and ordinal logistic regression; the Lipsitz and the Pulkstenis-Robinson tests for the ordinal models. The proportional odds, adjacent-category, and constrained continuation-ratio models are particularly supported at ordinal level. Tests for the proportional odds assumptions in ordinal models are also possible with the Brant and the Likelihood-Ratio tests. Moreover, several summary measures of predictive strength (Pseudo R-squared), and some useful error metrics, including, the brier score, misclassification rate and logloss are also available for the binary, multinomial and ordinal models. Ugba, E. R. and Gertheiss, J. (2018) . Package: r-cran-gofcens Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 540 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-survival, r-cran-actuar, r-cran-fitdistrplus, r-cran-ggplot2, r-cran-gridextra, r-cran-boot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rms Filename: pool/dists/focal/main/r-cran-gofcens_1.5-1.ca2004.1_all.deb Size: 443368 MD5sum: f086da813a5e67989b84887a04d0d0e9 SHA1: 095239abd2bcaf5b050d856ba37a3a93e78f2d05 SHA256: 13e57a850d9a3fea81aeb9c6cafdb7ee9f1eb8788238b3effdb319439b6e0ebc SHA512: 3becaeee2c42b379c01b3e0dd9269deba744eb332bcd94258183d76fac07950fd7a7abb07e79dc4caeade234a88c8954df2bf5024dc6b030e7deb32ae9c5b644 Homepage: https://cran.r-project.org/package=GofCens Description: CRAN Package 'GofCens' (Goodness-of-Fit Methods for Right-Censored Data) Graphical tools and goodness-of-fit tests for right-censored data: 1. 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In addition, functions are provided to test if a sample follows Normal or Gamma distributions, validate the normality assumptions in a linear model, and examine the appropriateness of a Gamma distribution in generalized linear models with various link functions. Michael Arthur Stephens (1976) . 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Package: r-cran-googlenlp Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-purrr, r-cran-readr, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-googlenlp_0.2.0-1.ca2004.1_all.deb Size: 45788 MD5sum: ee7cdcf275fa61c72b3da155cf081a1c SHA1: ff4b10dcf88788f3324afc5adef2d2d47faa5b4f SHA256: 305c01cce7d984fd37585565d707f1663a29b61531e054cc618f95411d20d0e0 SHA512: 8decec4d3f1f5506a4c93dcd329e6653a4cdfd7305c13a44d9175a2a72b250a93f8dff9928ad0728cd409c4f1e1275facb207956e96474890ccbe77ed305f64f Homepage: https://cran.r-project.org/package=googlenlp Description: CRAN Package 'googlenlp' (An Interface to Google's Cloud Natural Language API) Interact with Google's Cloud Natural Language API (v1) via R. 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Package: r-cran-googleprintr Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-googleauthr, r-cran-jsonlite, r-cran-httr Suggests: r-cran-drat Filename: pool/dists/focal/main/r-cran-googleprintr_0.0.1-1.ca2004.1_all.deb Size: 22864 MD5sum: 9568fc0cae21e6dc47a12c5f96fd8a38 SHA1: cf656594ac1961bd30539ae7cd2f5bc6d3d6fae1 SHA256: 13367ab7bb1f3b92acac0d72aee99aa11b2e9f5adea39ddc6237001b18969c85 SHA512: 19e6c04cd2c73c0a8971462ea0573017d7283921c8081bf32389bff1dbf95d4fe0463d6ee8778eed4db1801040d2dc492f6e5ed71e2123d7220140650505fda6 Homepage: https://cran.r-project.org/package=googlePrintr Description: CRAN Package 'googlePrintr' (Connect to 'Google Cloud Print' API) Allows printing documents from R through 'Google Cloud Print' API. See for more information about 'Google Cloud Print'. 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Package: r-cran-googlevis Architecture: all Version: 0.7.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 899 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-shiny, r-cran-httpuv, r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-data.table Filename: pool/dists/focal/main/r-cran-googlevis_0.7.3-1.ca2004.1_all.deb Size: 453784 MD5sum: b68d14abf41aa87d6d5d07706356329c SHA1: 436333cd311fe4fa369b6681c89c023bb7c08c33 SHA256: 3ce440df3e3d379c9f64ac2c754b91721f7e1364a9b75a9c8dc2f5e05ae5253c SHA512: d06640051a4b9d893d5148c7049a27c212c5dadf736a431b5037cf85b05c816f5292dbe54ea7799b273927db8a563c6a5369e2174afcf0c8f6c28ff43cd2a634 Homepage: https://cran.r-project.org/package=googleVis Description: CRAN Package 'googleVis' (R Interface to Google Charts) R interface to Google's chart tools, allowing users to create interactive charts based on data frames. Charts are displayed locally via the R HTTP help server. 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Package: r-cran-goplot Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2936 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-ggdendro, r-cran-gridextra, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-goplot_1.0.2-1.ca2004.1_all.deb Size: 2425616 MD5sum: fbc9e47849fe0e65fb2a98498c2302f7 SHA1: add11e86b92a40034ccd2948fd5ea2395509ea42 SHA256: 8cbeb6a48b1f39ec539ada0833fd63ddba634868de98b9fd425f176c2410795e SHA512: 41a9af6489e9431acb7dd09894469d38536de8df97caef1a8c1aa20a58d30ef729ccb84a4c4846f570ede76a81a599c689077f13bfd3699bd2f1396948652ac9 Homepage: https://cran.r-project.org/package=GOplot Description: CRAN Package 'GOplot' (Visualization of Functional Analysis Data) Implementation of multilayered visualizations for enhanced graphical representation of functional analysis data. 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Package: r-cran-gor Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 284 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-igraph Filename: pool/dists/focal/main/r-cran-gor_1.0-1.ca2004.1_all.deb Size: 251512 MD5sum: 9ff85daec0c6000a07f69f90a889400d SHA1: 223d06966624678f614bb4249f1da7d6c7b64313 SHA256: cb0f544b4e70e9edead0bf2dcbaadf3e466dda9ce57a09e67044305357065ca1 SHA512: 3ef57fa18cd38e799217abad55863e9ce404c182f08b2d394c4efdfa41a9cfc2d95a595dd2cf4f839a2c6725e91458294c5f787ac134913ac0700cd1a52e9929 Homepage: https://cran.r-project.org/package=gor Description: CRAN Package 'gor' (Algorithms for the Subject Graphs and Network Optimization) Informal implementation of some algorithms from Graph Theory and Combinatorial Optimization which arise in the subject "Graphs and Network Optimization" from first course of the EUPLA (Escuela Universitaria Politecnica de La Almunia) degree of Data Engineering in Industrial Processes. References used are: Cook et al (1998, ISBN:0-471-55894-X), Korte, Vygen (2018) , Hromkovic (2004) , Hartmann, Weigt (2005, ISBN:978-3-527-40473-5). 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This package fit the GORMC model with interval censored data. 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The references include Nikoloulopoulos A.K. & Karlis D. (2008). "On modeling count data: a comparison of some well-known discrete distributions". Journal of Statistical Computation and Simulation, 78(3): 437--457, and Consul P.C. & Famoye F. (1992). "Generalized Poisson regression model". Communications in Statistics - Theory and Methods, 21(1): 89--109, . 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Package: r-cran-gpp Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstan Filename: pool/dists/focal/main/r-cran-gpp_0.1-1.ca2004.1_all.deb Size: 76016 MD5sum: 320b0fa3e6bad93fe81feda82be3707b SHA1: 401b84dc7d7ac9df0a9ded73ab80bd0dbde172c7 SHA256: 720892c2615d2bba9aa856de7a094ce9b74a0fd53ead0811d156b276649f6052 SHA512: cad71b056c3e1f19767bc63d40c852dd19c6b8a77d1e8dda5cf000c9e3fc83cae68e25a62eee66aa3fc28540103a1ccc2be686a23d8d2196f1c2a4524fcc10e9 Homepage: https://cran.r-project.org/package=GPP Description: CRAN Package 'GPP' (Gaussian Process Projection) Estimates a counterfactual using Gaussian process projection. It takes a dataframe, creates missingness in the desired outcome variable and estimates counterfactual values based on all information in the dataframe. 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Package: r-cran-gppm Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 260 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcpp, r-cran-rstan, r-cran-ggplot2, r-cran-mass, r-cran-ggthemes, r-cran-mvtnorm Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-gppm_0.2.0-1.ca2004.1_all.deb Size: 189908 MD5sum: 542d96d0cfe0cad7d937ba5274d1ec90 SHA1: 9d5044c717d40d18e05e5e6e5718adccb7215208 SHA256: 1d8d72698fe7039fd7a0de4194ea40c6787e113f7e7a7b7433dd52bbe36b056b SHA512: 9bf4bcb829026fc1a7aa46c35ce680c87b5a92a5e57b15ae5178b587627f1aa2e215080ec50fd4e1494dd0fa068b494b871257ced757c177e0f7181a9c06a1a7 Homepage: https://cran.r-project.org/package=gppm Description: CRAN Package 'gppm' (Gaussian Process Panel Modeling) Provides an implementation of Gaussian process panel modeling (GPPM). GPPM is described in Karch (2016; ) and Karch, Brandmaier & Voelkle (2018; ). Essentially, GPPM is Gaussian process based modeling of longitudinal panel data. 'gppm' also supports regular Gaussian process regression (with a focus on flexible model specification), and multi-task learning. Package: r-cran-gprmortality Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 556 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstan Filename: pool/dists/focal/main/r-cran-gprmortality_0.1.0-1.ca2004.1_all.deb Size: 506924 MD5sum: a5d1788617a3940118998d92b918a429 SHA1: ed301d35885c57443fe3730390af60bfe47dd8a9 SHA256: baae76e48049225cd2d2a2f0e39d2f46164e206b995650373060127e7b377520 SHA512: 2bb139a0a7d3047006a42f4a1a4ac7a9ae686b3d9ed92b84c1aa54ef3ff3fccf68b526d06f3bad16b3ffe265b3ea84e5a6c8aa0c847025f5c9b5e9bca59dd3ed Homepage: https://cran.r-project.org/package=GPRMortality Description: CRAN Package 'GPRMortality' (Gaussian Process Regression for Mortality Rates) A Bayesian statistical model for estimating child (under-five age group) and adult (15-60 age group) mortality. The main challenge is how to combine and integrate these different time series and how to produce unified estimates of mortality rates during a specified time span. GPR is a Bayesian statistical model for estimating child and adult mortality rates which its data likelihood is mortality rates from different data sources such as: Death Registration System, Censuses or surveys. There are also various hyper-parameters for completeness of DRS, mean, covariance functions and variances as priors. This function produces estimations and uncertainty (95% or any desirable percentiles) based on sampling and non-sampling errors due to variation in data sources. The GP model utilizes Bayesian inference to update predicted mortality rates as a posterior in Bayes rule by combining data and a prior probability distribution over parameters in mean, covariance function, and the regression model. This package uses Markov Chain Monte Carlo (MCMC) to sample from posterior probability distribution by 'rstan' package in R. Details are given in Wang H, Dwyer-Lindgren L, Lofgren KT, et al. (2012) , Wang H, Liddell CA, Coates MM, et al. (2014) and Mohammadi, Parsaeian, Mehdipour et al. (2017) . Package: r-cran-gprofiler2 Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4500 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-jsonlite, r-cran-rcurl, r-cran-ggplot2, r-cran-plotly, r-cran-tidyr, r-cran-crosstalk, r-cran-gridextra, r-cran-viridislite, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-prettydoc Filename: pool/dists/focal/main/r-cran-gprofiler2_0.2.3-1.ca2004.1_all.deb Size: 1257660 MD5sum: bfa226036967db66be5f9f8547cde15e SHA1: 7c59b9dc91fc5f3b70d33957b0b106366f060364 SHA256: 530560712747cb7613e0bbb962eac51bb054f48affe61ab4c4641498d7f9ac92 SHA512: 11d836df1c034ec5540a9ee4d82e9f07b3c4e7b56afbe8d404b872b44b250b898b319ca77db3004f9b5bad60fbbcff681cfe37b4f9a474d6a70c6025876e79ed Homepage: https://cran.r-project.org/package=gprofiler2 Description: CRAN Package 'gprofiler2' (Interface to the 'g:Profiler' Toolset) A toolset for functional enrichment analysis and visualization, gene/protein/SNP identifier conversion and mapping orthologous genes across species via 'g:Profiler' (). The main tools are: (1) 'g:GOSt' - functional enrichment analysis and visualization of gene lists; (2) 'g:Convert' - gene/protein/transcript identifier conversion across various namespaces; (3) 'g:Orth' - orthology search across species; (4) 'g:SNPense' - mapping SNP rs identifiers to chromosome positions, genes and variant effects. This package is an R interface corresponding to the 2019 update of 'g:Profiler' and provides access to 'g:Profiler' for versions 'e94_eg41_p11' and higher. See the package 'gProfileR' for accessing older versions from the 'g:Profiler' toolset. 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Functional enrichment analysis, gene identifier conversion and mapping homologous genes across related organisms via the 'g:Profiler' toolkit (). 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A single scalar balancing score is calculated for any generalized propensity score vector with three or more treatments. This balancing score is used for propensity score matching and stratification in outcome analyses when analyzing either ordinal or multinomial treatments. Package: r-cran-gpseqclus Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-geosphere, r-cran-htmlwidgets, r-cran-leaflet, r-cran-leaflet.extras, r-cran-plyr, r-cran-purrr, r-cran-sp, r-cran-sf, r-cran-suncalc Filename: pool/dists/focal/main/r-cran-gpseqclus_1.4.0-1.ca2004.1_all.deb Size: 99644 MD5sum: 52baf6d6712c9bbaf8db32a3f60286d8 SHA1: 13a44813756ee56616a0326f640206257e938fc6 SHA256: 8a0c535aba1dddaa4ce59dca8621f445b06e5b4bfbd56267430769b01f5ff67c SHA512: 45e1d1278140ede322372e797b8fe8d45a698bd2cee3cf8368d3cf7cb18ea3247be4d5e3fd18ae846ccdefccce06cc473ced0c9876ac0bcee01e95c20d521dec Homepage: https://cran.r-project.org/package=GPSeqClus Description: CRAN Package 'GPSeqClus' (Sequential Clustering Algorithm for Location Data) Applies sequential clustering algorithm to animal location data based on user-defined parameters. Plots interactive cluster maps and provides a summary dataframe with attributes for each cluster commonly used as covariates in subsequent modeling efforts. Additional functions provide individual keyhole markup language plots for quick assessment, and export of global positioning system exchange format files for navigation purposes. Methods can be found at . Package: r-cran-gptk Architecture: all Version: 1.08-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 437 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-fields Suggests: r-cran-spam Filename: pool/dists/focal/main/r-cran-gptk_1.08-1.ca2004.1_all.deb Size: 374568 MD5sum: c5d8b4c0e98c9be2e47f7dab6fb44676 SHA1: 14c81b7e17e90b89fe965c262fa61db33449b2a8 SHA256: 0c5beb275c07ea27dbd043d2c82e80c74ecf3e7afc723aa3deaefe4731c1f4a0 SHA512: 0c576c49ec5707bfe9a756186b0434fabe7fdfb20bc0bb5fe52d6643a2a15277df36d5d85af056791e4b482251d40151d66abb24fd8aef9dff86a28055826a94 Homepage: https://cran.r-project.org/package=gptk Description: CRAN Package 'gptk' (Gaussian Processes Tool-Kit) The gptk package implements a general-purpose toolkit for Gaussian process regression with a variety of covariance functions (e.g. RBF, Mattern, polynomial, etc). Based on a MATLAB implementation by Neil D. Lawrence. See inst/doc/index.html for more details. Package: r-cran-gptoolsstan Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gptoolsstan_1.0.0-1.ca2004.1_all.deb Size: 36128 MD5sum: e7738cee141e6190c15468b1885e6c5c SHA1: be52c2d84cfe09c17c9bd2c0a745aaf30c9b33cd SHA256: e13a39ad75fa413aef51f5e29576636d4ac08ca75ab9688b124d2e36bbb53cfe SHA512: a6ad63c3fe3a67225030176a7da9776f5c7b29248cc672b2889ccbc5ac91a70d24fba680a145cad90582fb4d16d2d0aa3e1f2ddce1aad841c19cae9b871d479b Homepage: https://cran.r-project.org/package=gptoolsStan Description: CRAN Package 'gptoolsStan' (Gaussian Processes on Graphs and Lattices in 'Stan') Gaussian processes are flexible distributions to model functional data. Whilst theoretically appealing, they are computationally cumbersome except for small datasets. This package implements two methods for scaling Gaussian process inference in 'Stan'. First, a sparse approximation of the likelihood that is generally applicable and, second, an exact method for regularly spaced data modeled by stationary kernels using fast Fourier methods. Utility functions are provided to compile and fit 'Stan' models using the 'cmdstanr' interface. References: Hoffmann and Onnela (2025) . Package: r-cran-gptr Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-gptr_0.7.0-1.ca2004.1_all.deb Size: 14148 MD5sum: 19696149cd23ad5c32c10d2a34d1c69a SHA1: e1c60d467237c46443b6fb588077cc5e02aac76a SHA256: dab770ae36c967707e69ef6f9a125ff6f3eb0ea8422bbaca173bb8a11e842630 SHA512: 90b3b8e60eabcb46a4873b8efe3539d1415d373a33b366e2f7cdfd8c701ab8cc54dfbb2c5e618a6ff78642ecbf1b9063b97a873c9341cf99cc59b7520f3bfe1c Homepage: https://cran.r-project.org/package=gptr Description: CRAN Package 'gptr' (A Convenient R Interface with the OpenAI 'ChatGPT' API) A convenient interface with the OpenAI 'ChatGPT' API . 'gptr' allows you to interact with 'ChatGPT', a powerful language model, for various natural language processing tasks. The 'gptr' R package makes talking to 'ChatGPT' in R super easy. It helps researchers and data folks by simplifying the complicated stuff, like asking questions and getting answers. With 'gptr', you can use 'ChatGPT' in R without any hassle, making it simpler for everyone to do cool things with language! Package: r-cran-gptreeo Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 518 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-hash, r-cran-dicekriging, r-cran-mlegp Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-gptreeo_1.0.1-1.ca2004.1_all.deb Size: 473088 MD5sum: e6c041874a35a5c552a267009d66c7c8 SHA1: dcccdfe7069bd92b7f093cb85ee827a0f2e8b496 SHA256: 24c8830088379612f9ce2c246f269a74dc8f42e6bf0f3575092aea7d95985612 SHA512: a346552df3395a0d607fdb1256dbc54929550e629cf64d0079a142cee54927ab22c9f66ac202fc98346623d4572b1e76f62388a526299ee87eac349940e390f5 Homepage: https://cran.r-project.org/package=GPTreeO Description: CRAN Package 'GPTreeO' (Dividing Local Gaussian Processes for Online Learning Regression) We implement and extend the Dividing Local Gaussian Process algorithm by Lederer et al. (2020) . Its main use case is in online learning where it is used to train a network of local GPs (referred to as tree) by cleverly partitioning the input space. In contrast to a single GP, 'GPTreeO' is able to deal with larger amounts of data. The package includes methods to create the tree and set its parameter, incorporating data points from a data stream as well as making joint predictions based on all relevant local GPs. Package: r-cran-gptstudio Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 889 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-bslib, r-cran-cli, r-cran-colorspace, r-cran-curl, r-cran-fontawesome, r-cran-glue, r-cran-htmltools, r-cran-htmlwidgets, r-cran-httr2, r-cran-ids, r-cran-jsonlite, r-cran-magrittr, r-cran-purrr, r-cran-r6, r-cran-rlang, r-cran-rstudioapi, r-cran-rvest, r-cran-shiny, r-cran-shiny.i18n, r-cran-sseparser, r-cran-stringr, r-cran-waiter, r-cran-yaml Suggests: r-cran-azurermr, r-cran-knitr, r-cran-mockr, r-cran-rmarkdown, r-cran-shinytest2, r-cran-spelling, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-gptstudio_0.4.0-1.ca2004.1_all.deb Size: 630320 MD5sum: 2859dd4193a8982c962a536a01776b6b SHA1: d84dcdc8aa7022e16e615648ec8f0ebd879341be SHA256: 3e4ebb4a4dc344ac4bb817aca03cc3b06da5bba170ab0fd87696ff3a97292b56 SHA512: 15b041814c39a7575b549eb43e27fa492afc677d9e20b33fc5b22d431897fb69ebd1a7a8d04d5c94a1a3695a7d9594e431b17d33441379644c0ceab4d98b8c2c Homepage: https://cran.r-project.org/package=gptstudio Description: CRAN Package 'gptstudio' (Use Large Language Models Directly in your DevelopmentEnvironment) Large language models are readily accessible via API. This package lowers the barrier to use the API inside of your development environment. For more on the API, see . 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Formats the data into data frames where each sentence is an observation. Paragraph-level and document-level predictions are organized to align with the sentences. Package: r-cran-gpumatrix Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3843 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-torch, r-cran-tensorflow, r-cran-matrix, r-cran-matrixstats, r-cran-float, r-cran-mass, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gpumatrix_1.0.2-1.ca2004.1_all.deb Size: 2678344 MD5sum: 887878def6bfb827ddc7cd600733276f SHA1: 757b3f7772f4971489046b87487025aee2ca324d SHA256: 237d8f463cb854c16748c9dade82ff981551904687aa4c45ccc989e280ceadf0 SHA512: d63298e6f330045db94715dc2c744d8a925c50a1d3f552995f2f53bf34f320762bf4624463497eacdfa9fe9d89d40cfae0191eba95a340f4b715e377ff10965f Homepage: https://cran.r-project.org/package=GPUmatrix Description: CRAN Package 'GPUmatrix' (Basic Linear Algebra with GPU) GPUs are great resources for data analysis, especially in statistics and linear algebra. Unfortunately, very few packages connect R to the GPU, and none of them are transparent enough to run the computations on the GPU without substantial changes to the code. The maintenance of these packages is cumbersome: several of the earlier attempts have been removed from their respective repositories. It would be desirable to have a properly maintained R package that takes advantage of the GPU with minimal changes to the existing code. We have developed the GPUmatrix package (available on CRAN). GPUmatrix mimics the behavior of the Matrix package and extends R to use the GPU for computations. It includes single(FP32) and double(FP64) precision data types, and provides support for sparse matrices. It is easy to learn, and requires very few code changes to perform the operations on the GPU. GPUmatrix relies on either the Torch or Tensorflow R packages to perform the GPU operations. We have demonstrated its usefulness for several statistical applications and machine learning applications: non-negative matrix factorization, logistic regression and general linear models. We have also included a comparison of GPU and CPU performance on different matrix operations. Package: r-cran-gpx Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-rvest, r-cran-lubridate Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gpx_1.1.0-1.ca2004.1_all.deb Size: 16920 MD5sum: 669dc3d8ce05e10a21417e91bc84bede SHA1: 8ea1bb0b9de65db39343ab4afd35c4cf37e62c1f SHA256: 5e6b0afaed45422e184ae6604fbc73666f59f426f241746f490022d2e4eba41e SHA512: 77fbfaacc29e04436161467655ee3aa5e58882dda7809caa6d6d8037c156db628d3484c82da2a2e2c615cbbeca85cc794353740e0de47d7bfc2392426d524a4c Homepage: https://cran.r-project.org/package=gpx Description: CRAN Package 'gpx' (Process GPX Files into R Data Structures) Process open standard GPX files into data.frames for further use and analysis in R. Package: r-cran-gqlr Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-graphql, r-cran-magrittr, r-cran-pryr, r-cran-r6, r-cran-jsonlite Suggests: r-cran-plumber, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-gqlr_0.0.2-1.ca2004.1_all.deb Size: 208860 MD5sum: 7207095b1c950238f6d00d26d54fc265 SHA1: 6469eb200206f7cb7cf92a3462f5eabfca49218a SHA256: a630d51ba83cf8f20ebc82673cde50769e6627e2f0f3c88976fe17438d1adb2e SHA512: 98c7508648085c4f1f80863df5d847ec0e4693a3d79eb6c1dda510764f49c94761808b41ff498f3962ab6fe06ed2be952a4ba8f89bbb3a4f6813cbafe5ad53e2 Homepage: https://cran.r-project.org/package=gqlr Description: CRAN Package 'gqlr' ('GraphQL' Server in R) Server implementation of 'GraphQL' , a query language originally created by Facebook for describing data requirements on complex application data models. Visit to learn more about 'GraphQL'. Package: r-cran-gquad Architecture: all Version: 2.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 327 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ape, r-cran-seqinr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gquad_2.1-2-1.ca2004.1_all.deb Size: 287852 MD5sum: 96daac0c96ec5a718977d61e23d6ea4a SHA1: 3cbea6cf63ac37f42099da3b0c51d4b1324ecea4 SHA256: fd63ee1f2cf2d47a91b59e1541516c0402a92469b0769c29a6ca9403bbdd2a60 SHA512: 552a4b9348261bc99d7b09cccdce3d156ce8d60727fb1b58f7c54a21d8f0e4c113c1f805b48ef97043a5d9497cca125d84bcbc4d7cf4d15da79661d1c26b66c2 Homepage: https://cran.r-project.org/package=gquad Description: CRAN Package 'gquad' (Prediction of G Quadruplexes and Other Non-B DNA Motifs) Genomic biology is not limited to the confines of the canonical B-forming DNA duplex, but includes over ten different types of other secondary structures that are collectively termed non-B DNA structures. Of these non-B DNA structures, the G-quadruplexes are highly stable four-stranded structures that are recognized by distinct subsets of nuclear factors. This package provide functions for predicting intramolecular G quadruplexes. In addition, functions for predicting other intramolecular nonB DNA structures are included. Package: r-cran-grabsampling Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-extradistr, r-cran-ggplot2, r-cran-ggthemes, r-cran-plyr, r-cran-reshape2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-grabsampling_1.0.0-1.ca2004.1_all.deb Size: 65096 MD5sum: 40a06ff261092b0a51df6fc9e87a3000 SHA1: f23fba874c6f8cac48c21306a9cfbdded3493b1e SHA256: 477505066a991abb421bc8b3146efbcf5d3ac3d28c8488e5f5b5aba8ca363a3f SHA512: aa37cdc79d078cea050502f03b900049930cf8d583826ade31919f3fbae787afa28484b758b048057cd29c00576ef41e64b2ebfd1b61100769d8c1af00653d02 Homepage: https://cran.r-project.org/package=grabsampling Description: CRAN Package 'grabsampling' (Probability of Detection for Grab Sample Selection) Functions for obtaining the probability of detection, for grab samples selection by using two different methods such as systematic or random based on two-state Markov chain model. For detection probability calculation, we used results from Bhat, U. and Lal, R. (1988) . Package: r-cran-grabsvg Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix, r-bioc-sparsematrixstats, r-cran-fitdistrplus, r-cran-rann, r-cran-spam Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-grabsvg_0.0.2-1.ca2004.1_all.deb Size: 99772 MD5sum: c961b1da5b9e54f67b58621343d4e73a SHA1: ec4fe091d54099164f11de4f571bea9a25faacb2 SHA256: ee65fa495e11baa65133d9ab7b8e76bed7f8d9a0d26c531b84307b4c1115be6d SHA512: bdf4ef1c76a33d925b6a6b53e1b68c28abdee4e83cf8c1893facc9d96d1bbcff46ccd954e6db26f36264f988d30633830f65fa1fd1c0627526a2b595f4d92e34 Homepage: https://cran.r-project.org/package=GrabSVG Description: CRAN Package 'GrabSVG' (Granularity-Based Spatially Variable Genes Identifications) Identifying spatially variable genes is critical in linking molecular cell functions with tissue phenotypes. This package implemented a granularity-based dimension-agnostic tool for the identification of spatially variable genes. The detailed description of this method is available at Wang, J. and Li, J. et al. 2023 (Wang, J. and Li, J. (2023), ). Package: r-cran-grace Architecture: all Version: 0.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-glmnet, r-cran-scalreg Filename: pool/dists/focal/main/r-cran-grace_0.5.3-1.ca2004.1_all.deb Size: 42384 MD5sum: 86ab9fbda6582a03f8dadd396cc9b2fd SHA1: 9ca91fb1489e90a98707cc8f48d4afcfd1c4d27d SHA256: 3de81f7713f66ed6082499f9a8cb3917fcdddcc7f2f9cfedd3af63767cd65827 SHA512: 9fdeab571ec7c259aa6642f318daa28ee2e76d7a621ecd8f95248bf03af196f5dbdbdedca28bba8a4e8d7fb142c057052bc81ff2d7330eaadaa2ee63f1090549 Homepage: https://cran.r-project.org/package=Grace Description: CRAN Package 'Grace' (Graph-Constrained Estimation and Hypothesis Tests) Use the graph-constrained estimation (Grace) procedure (Zhao and Shojaie, 2016 ) to estimate graph-guided linear regression coefficients and use the Grace/GraceI/GraceR tests to perform graph-guided hypothesis tests on the association between the response and the predictors. Package: r-cran-graddescent Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 183 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-graddescent_3.0-1.ca2004.1_all.deb Size: 145436 MD5sum: 63f41365edffb4db2f4cae433c15a99a SHA1: f263c07ee8071fe90fb82dbc28eb0654c590d0dc SHA256: d08cebd88891f55a2d88772c3f90dc00070a83d13ed6cac02d0c6bb28b722ff4 SHA512: 7f253d0695a577e0448fba692132afc9644d19e49e53d2d154370484d7d048e931407b4bf7eef5856085b5fa522ac7a344a0464cd5151eb055b8c9aa42d62250 Homepage: https://cran.r-project.org/package=gradDescent Description: CRAN Package 'gradDescent' (Gradient Descent for Regression Tasks) An implementation of various learning algorithms based on Gradient Descent for dealing with regression tasks. The variants of gradient descent algorithm are : Mini-Batch Gradient Descent (MBGD), which is an optimization to use training data partially to reduce the computation load. Stochastic Gradient Descent (SGD), which is an optimization to use a random data in learning to reduce the computation load drastically. Stochastic Average Gradient (SAG), which is a SGD-based algorithm to minimize stochastic step to average. Momentum Gradient Descent (MGD), which is an optimization to speed-up gradient descent learning. Accelerated Gradient Descent (AGD), which is an optimization to accelerate gradient descent learning. Adagrad, which is a gradient-descent-based algorithm that accumulate previous cost to do adaptive learning. Adadelta, which is a gradient-descent-based algorithm that use hessian approximation to do adaptive learning. RMSprop, which is a gradient-descent-based algorithm that combine Adagrad and Adadelta adaptive learning ability. Adam, which is a gradient-descent-based algorithm that mean and variance moment to do adaptive learning. Stochastic Variance Reduce Gradient (SVRG), which is an optimization SGD-based algorithm to accelerates the process toward converging by reducing the gradient. Semi Stochastic Gradient Descent (SSGD),which is a SGD-based algorithm that combine GD and SGD to accelerates the process toward converging by choosing one of the gradients at a time. Stochastic Recursive Gradient Algorithm (SARAH), which is an optimization algorithm similarly SVRG to accelerates the process toward converging by accumulated stochastic information. Stochastic Recursive Gradient Algorithm+ (SARAHPlus), which is a SARAH practical variant algorithm to accelerates the process toward converging provides a possibility of earlier termination. Package: r-cran-grade Architecture: all Version: 0.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 250 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-grade_0.2-1-1.ca2004.1_all.deb Size: 202208 MD5sum: 3092bab5d2f87a4d29cfb944b4d043ce SHA1: c405d8136303c3b6432fe25bdc1d354ed2c7d662 SHA256: de98f94089f8f7825bf86ffde707ab309f85fde741e0376cb521aaf9c927a1b5 SHA512: b41d22d43be260fb2b01c459d2b76caccce87f00bfdd02d42ae80ae5976231643deaac8cf41af5803a55fe1aed21e6201c5a02c31f1e83ac7c06a5faeff4bd46 Homepage: https://cran.r-project.org/package=grade Description: CRAN Package 'grade' (Binary Grading functions for R) Provides functions for matching student-answers to teacher answers for a variety of data types. Package: r-cran-grader Architecture: all Version: 1.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-testthat, r-cran-callr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-grader_1.0.10-1.ca2004.1_all.deb Size: 106608 MD5sum: 679b62f40eacb358a769c1a241ccc200 SHA1: b1e898b514be3f4026673c920b3d4ef62125b4d4 SHA256: ab68f7e9ba962c17682eea9bd4cfdf6298f5f0ea2164cebf74bb80d3cdc9fd6b SHA512: 7f7ece88a9789087c8e2d3731826353f411e54acf575771bce8fa25c5a770f32cda043007738b5f23796c6f3b02146c0481a431eec1865c93d9aa7a96a89d770 Homepage: https://cran.r-project.org/package=gradeR Description: CRAN Package 'gradeR' (Helps Grade Assignment Submissions that are R Scripts) After being given the location of your students' submissions and a test file, the function runs each .R file, and evaluates the results from all the given tests. 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Package: r-cran-gradient Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-gradient_1.0.1-1.ca2004.1_all.deb Size: 40456 MD5sum: 6ebfaee1787233418bdd43ec00402a1f SHA1: 7501dd8358c66e49e295b4f60ea3e81143061fe7 SHA256: 575ee423405397b214314209423febbcba093370e1598bda960e9d154c33ab06 SHA512: e376c6874ab7211fadd6c6c4d791439e4e15655a2c3568b8a2b62fc43aa3e746491c2d7f2eb306898a57fa2d3f1d8a5be2e9439463976e3306af404d6627c73d Homepage: https://cran.r-project.org/package=graDiEnt Description: CRAN Package 'graDiEnt' (Stochastic Quasi-Gradient Differential Evolution Optimization) An optim-style implementation of the Stochastic Quasi-Gradient Differential Evolution (SQG-DE) optimization algorithm first published by Sala, Baldanzini, and Pierini (2018; ). This optimization algorithm fuses the robustness of the population-based global optimization algorithm "Differential Evolution" with the efficiency of gradient-based optimization. The derivative-free algorithm uses population members to build stochastic gradient estimates, without any additional objective function evaluations. Sala, Baldanzini, and Pierini argue this algorithm is useful for 'difficult optimization problems under a tight function evaluation budget.' This package can run SQG-DE in parallel and sequentially. Package: r-cran-gradientpickerd3 Architecture: all Version: 0.1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 333 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets, r-cran-jsonlite, r-cran-shiny Filename: pool/dists/focal/main/r-cran-gradientpickerd3_0.1.0.0-1.ca2004.1_all.deb Size: 123800 MD5sum: d129090abf453e55b6701c3a42d6f3be SHA1: 6fe8b0d3adf1fbadb4a59ebf03eece385e7555eb SHA256: cf4b5e83e67ee1e878a8602574889fd8f5c38b1339abd48dac6587ea037770f2 SHA512: 8e4f8ce45e6619192546454c664f664b97a8075c3085731eb56a288ba15caf359ffc12ac07c89f4e20feec2d2eff08dec359bd1e803d7834df91408333e2350a Homepage: https://cran.r-project.org/package=gradientPickerD3 Description: CRAN Package 'gradientPickerD3' (Interactive Color Gradient Picker Using 'htmlwidgets' and theModified JS Script 'jquery-gradient-picker') Widget for an interactive selection and modification of a color gradient. 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Package: r-cran-grafify Architecture: all Version: 5.0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5609 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-car, r-cran-dplyr, r-cran-emmeans, r-cran-hmisc, r-cran-lme4, r-cran-lmertest, r-cran-magrittr, r-cran-mgcv, r-cran-patchwork, r-cran-purrr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-matrix, r-cran-rlang, r-cran-rmarkdown, r-cran-pbkrtest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-grafify_5.0.0.1-1.ca2004.1_all.deb Size: 4191500 MD5sum: d15862d83668892a59f5edab19c41a48 SHA1: 3ca487f8de419d4d9b80d62f369226283f1a0ddf SHA256: 7fe28255506916c677139a63276aadcc56493d15f73c58f1f877d208b99f2039 SHA512: d8be70c2027a72cdb680059f2a94e90121cf6ddc7bf0851b3531a1d3473f51604628b7c7f304e702396948123a477f89a4d650bebf98d0b73a4713a24d787a7e Homepage: https://cran.r-project.org/package=grafify Description: CRAN Package 'grafify' (Easy Graphs for Data Visualisation and Linear Models for ANOVA) Easily explore data by plotting graphs with a few lines of code. Use these ggplot() wrappers to quickly draw graphs of scatter/dots with box-whiskers, violins or SD error bars, data distributions, before-after graphs, factorial ANOVA and more. Customise graphs in many ways, for example, by choosing from colour blind-friendly palettes (12 discreet, 3 continuous and 2 divergent palettes). Use the simple code for ANOVA as ordinary (lm()) or mixed-effects linear models (lmer()), including randomised-block or repeated-measures designs, and fit non-linear outcomes as a generalised additive model (gam) using mgcv(). Obtain estimated marginal means and perform post-hoc comparisons on fitted models (via emmeans()). Also includes small datasets for practising code and teaching basics before users move on to more complex designs. See vignettes for details on usage . Citation: . Package: r-cran-grafzahl Architecture: all Version: 0.0.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1579 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-jsonlite, r-cran-lime, r-cran-quanteda, r-cran-reticulate Suggests: r-cran-knitr, r-cran-quanteda.textmodels, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-grafzahl_0.0.12-1.ca2004.1_all.deb Size: 1114576 MD5sum: 85e02ba54e4a396b3aecd54899495731 SHA1: eb389d2c4e6405165f6a4d1789016f1346e675b1 SHA256: 5b308d9782501e06e3e835c22a55608ce7abe6174fccb25bc31a96c8ed423123 SHA512: e158736580538fa76243062d6ebec8c28bc1855b6299ee95e3d3cbd23502be88a6f25aa8fb992f4da578ca9c3c0088dd95b81bf610f10e0bd51d9586c0209f27 Homepage: https://cran.r-project.org/package=grafzahl Description: CRAN Package 'grafzahl' (Supervised Machine Learning for Textual Data Using Transformersand 'Quanteda') Duct tape the 'quanteda' ecosystem (Benoit et al., 2018) to modern Transformer-based text classification models (Wolf et al., 2020) , in order to facilitate supervised machine learning for textual data. This package mimics the behaviors of 'quanteda.textmodels' and provides a function to setup the 'Python' environment to use the pretrained models from 'Hugging Face' . More information: . Package: r-cran-grainchanger Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 699 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-sf, r-cran-furrr, r-cran-checkmate, r-cran-usethis Suggests: r-cran-dplyr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-ggplot2, r-cran-landscapetools, r-cran-rgdal Filename: pool/dists/focal/main/r-cran-grainchanger_0.3.2-1.ca2004.1_all.deb Size: 516148 MD5sum: 9d61eafb2ab7953b99cb202eb655d657 SHA1: 21bc68b2e7032d19e9297ab68f676f86adf3fa58 SHA256: 080753e1a74f87ca64827a4c7c3afcc084bca51a42351dee6f5a248cebb42a8c SHA512: 2d9b11653875ba19dc1cd362107b3e5ff9722267de3a35f3db8de63c277d9d05c2b83a2681ac52c9f23867e5634daa549832ce6d2f972abc51619172e7eebb44 Homepage: https://cran.r-project.org/package=grainchanger Description: CRAN Package 'grainchanger' (Moving-Window and Direct Data Aggregation) Data aggregation via moving window or direct methods. 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'GRANBase' allows creation of custom branched, continuous integration-ready R repositories, including incremental testing of only packages which have changed versions since the last repository build. 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Package: r-cran-grand Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1382 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-grand_0.9.0-1.ca2004.1_all.deb Size: 1142296 MD5sum: 7b96f4a7246352c3f07a707f4a92e4ce SHA1: e01857e37ad195cb792efce334ae48257e62c13f SHA256: 4a871aee01ceebb17b929d303fdba22b72b8579f38cc6ec413bda045c9462817 SHA512: 4e051e794c810201b93e0d55eb859d36637f7e5d9acc58522ba4810abecf2903761312e18d5fb254b7058766f71794dc593001c85b052f4d7d1751782509555a Homepage: https://cran.r-project.org/package=grand Description: CRAN Package 'grand' (Guidelines for Reporting About Network Data) Interactively applies the Guidelines for Reporting About Network Data (GRAND) to an 'igraph' object, and generates a uniform narrative or tabular description of the object. Package: r-cran-grangers Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vars, r-cran-tseries Filename: pool/dists/focal/main/r-cran-grangers_0.1.0-1.ca2004.1_all.deb Size: 108376 MD5sum: da0a8abcb555cd885f07af96e1fa3b4c SHA1: aa83ea9a9908fd78215a726cf90eb0e320969bd7 SHA256: 8b3a0e22ecd11a33b8c51e4d502d66d5bf23103ed255f6c0b1792cbdcce3537e SHA512: 179c19592d3b02c6069c79cbfcb4ffa780e5dfee6af45ef7c49be11fb37243ba1fca0b67c001fe0f3e2b508957f799e9c5368f56b5245aef9edc207fc8747b6a Homepage: https://cran.r-project.org/package=grangers Description: CRAN Package 'grangers' (Inference on Granger-Causality in the Frequency Domain) Contains five functions performing the calculation of unconditional and conditional Granger-causality spectra, bootstrap inference on both, and inference on the difference between them via the bootstrap approach of Farne' and Montanari, 2018 . Package: r-cran-granova Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-car Suggests: r-cran-mgcv, r-cran-rgl, r-cran-mass Filename: pool/dists/focal/main/r-cran-granova_2.2-1.ca2004.1_all.deb Size: 82092 MD5sum: 6fef019eb94b17cbe2738f43c65381c2 SHA1: 05704f649c7e2383fb7dffe3ce26456040d424b4 SHA256: 49287b736bd34f4c042cb20991fca1a08112f05f8b3f64762ab8a2507b4c4250 SHA512: 2860589b633c69e9d87cbaf40894465d82cbdbc401df459d0c03fdc278a5e94afb1b4db9475755a1ec0b38a266caf252674cf43f92701577db5adecd09ee465b Homepage: https://cran.r-project.org/package=granova Description: CRAN Package 'granova' (Graphical Analysis of Variance) This small collection of functions provides what we call elemental graphics for display of analysis of variance results, David C. Hoaglin, Frederick Mosteller and John W. Tukey (1991, ISBN:978-0-471-52735-0), Paul R. Rosenbaum (1989) , Robert M. Pruzek and James E. Helmreich . The term elemental derives from the fact that each function is aimed at construction of graphical displays that afford direct visualizations of data with respect to the fundamental questions that drive the particular analysis of variance methods. These functions can be particularly helpful for students and non-statistician analysts. But these methods should be quite generally helpful for work-a-day applications of all kinds, as they can help to identify outliers, clusters or patterns, as well as highlight the role of non-linear transformations of data. Package: r-cran-granovagg Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 185 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-rcolorbrewer, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-granovagg_1.4.1-1.ca2004.1_all.deb Size: 141076 MD5sum: e80c81371e17079c6127c9a685930cd5 SHA1: c9a31c32b54d07cdbd0fe600ac2ee479e6c10341 SHA256: b137137bc67f10d660481f3278b0369b8fd5ec05d571ad477c081fa33cc688fe SHA512: e8d35cb797ada2a5cf710ef52ca71069a274920a650d0659f69a83b5201418f789666c0b86a0d71d5ff3b941629de0c734632cc8e3478c73d7be2885c77d3c14 Homepage: https://cran.r-project.org/package=granovaGG Description: CRAN Package 'granovaGG' (Graphical Analysis of Variance Using ggplot2) Create what we call Elemental Graphics for display of anova results. The term elemental derives from the fact that each function is aimed at construction of graphical displays that afford direct visualizations of data with respect to the fundamental questions that drive the particular anova methods. This package represents a modification of the original granova package; the key change is to use 'ggplot2', Hadley Wickham's package based on Grammar of Graphics concepts (due to Wilkinson). The main function is granovagg.1w() (a graphic for one way ANOVA); two other functions (granovagg.ds() and granovagg.contr()) are to construct graphics for dependent sample analyses and contrast-based analyses respectively. (The function granova.2w(), which entails dynamic displays of data, is not currently part of 'granovaGG'.) The 'granovaGG' functions are to display data for any number of groups, regardless of their sizes (however, very large data sets or numbers of groups can be problematic). For granovagg.1w() a specialized approach is used to construct data-based contrast vectors for which anova data are displayed. The result is that the graphics use a straight line to facilitate clear interpretations while being faithful to the standard effect test in anova. The graphic results are complementary to standard summary tables; indeed, numerical summary statistics are provided as side effects of the graphic constructions. granovagg.ds() and granovagg.contr() provide graphic displays and numerical outputs for a dependent sample and contrast-based analyses. The graphics based on these functions can be especially helpful for learning how the respective methods work to answer the basic question(s) that drive the analyses. This means they can be particularly helpful for students and non-statistician analysts. But these methods can be of assistance for work-a-day applications of many kinds, as they can help to identify outliers, clusters or patterns, as well as highlight the role of non-linear transformations of data. In the case of granovagg.1w() and granovagg.ds() several arguments are provided to facilitate flexibility in the construction of graphics that accommodate diverse features of data, according to their corresponding display requirements. See the help files for individual functions. Package: r-cran-grantham Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 345 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tibble, r-cran-dplyr Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-grantham_0.1.4-1.ca2004.1_all.deb Size: 226420 MD5sum: 970fca4cab95af7f3c993a36f98170c4 SHA1: a3aefd9cb4b4ee34e5009cb02225df28368bfb5f SHA256: 63a494bd62a8360bf88035f1f580fe792a3cd3cf7af3c8da97dec4ca20f8d3bb SHA512: 438c1503bd7f199a3a5bf812ee750b586983bca8d38e17dca38f8365f47349bbb112c55847adbb84912d91b4340007d8f9afd53a7d5b5d6c1bf18ddf2c908da9 Homepage: https://cran.r-project.org/package=grantham Description: CRAN Package 'grantham' (Calculate the Grantham Distance) A minimal set of routines to calculate the Grantham distance . The Grantham distance attempts to provide a proxy for the evolutionary distance between two amino acids based on three key chemical properties: composition, polarity and molecular volume. In turn, evolutionary distance is used as a proxy for the impact of missense mutations. The higher the distance, the more deleterious the substitution is expected to be. Package: r-cran-grape Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-grape_0.1.1-1.ca2004.1_all.deb Size: 38960 MD5sum: 3c4e003af19832a5a958cad2fc7911a6 SHA1: 09e10c902b4eeb6ca48f5bc69988f6caea007a91 SHA256: 17e34e71e9c3a844a45b6030b8b880d612cb7c5e522d505f0faa69db6a682c93 SHA512: 9e0bce4cb8e2a276124790974527e56541c972fd688a192a442fb3a4d2b71dac3cbcc3e006794ff6958dea0b019c6273c36fae0e885bd804daa0162fb14a1ee5 Homepage: https://cran.r-project.org/package=GRAPE Description: CRAN Package 'GRAPE' (Gene-Ranking Analysis of Pathway Expression) Gene-Ranking Analysis of Pathway Expression (GRAPE) is a tool for summarizing the consensus behavior of biological pathways in the form of a template, and for quantifying the extent to which individual samples deviate from the template. GRAPE templates are based only on the relative rankings of the genes within the pathway and can be used for classification of tissue types or disease subtypes. GRAPE can be used to represent gene-expression samples as vectors of pathway scores, where each pathway score indicates the departure from a given collection of reference samples. The resulting pathway- space representation can be used as the feature set for various applications, including survival analysis and drug-response prediction. Users of GRAPE should use the following citation: Klein MI, Stern DF, and Zhao H. GRAPE: A pathway template method to characterize tissue-specific functionality from gene expression profiles. BMC Bioinformatics, 18:317 (June 2017). Package: r-cran-grapes Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-grapes_1.0.0-1.ca2004.1_all.deb Size: 82848 MD5sum: 61fe2250cf2d905b327361976ced1020 SHA1: dc4ade8966afd48cc8ba7f6f11d24dc097caebd5 SHA256: d40b9d497dc834f5524f68f42fe9a9e015637c08a34c9719270b8734e680e4e9 SHA512: 05927367be61cd5c4a3c4daf6531073dc82b71f1bc3f2d6a8109a274005c81529874eccd6b65a148612aa2b3ec5c3ee803133d7fb8f27e04441ba40185ea1148 Homepage: https://cran.r-project.org/package=grapes Description: CRAN Package 'grapes' (Make Binary Operators) Turn arbitrary functions into binary operators. Package: r-cran-grapesagri1 Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4196 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-shinytest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-grapesagri1_1.1.0-1.ca2004.1_all.deb Size: 3477600 MD5sum: 87d52c6d25b9ed848440a9fe10368206 SHA1: ba35e885c9e1c4ed7c7220b5d9e0c8cb7dfe3b42 SHA256: e446af24bceca4b9513378b30f92f30c0a544b2f718937df0a0442399280b3ee SHA512: c4f51786110266a2ddc9090e87e06c5045cc395d79f404d42da96a98cc729f3940780a623c1e74a11b3c03b5059ee8b804f21f35bce59e3108ce2fd9dcfb6407 Homepage: https://cran.r-project.org/package=grapesAgri1 Description: CRAN Package 'grapesAgri1' (Collection of Shiny Apps for Agricultural Research Data Analysis) Allows user to have graphical user interface to perform analysis of Agricultural experimental data. On using the functions in this package a Interactive User Interface will pop up. Apps Works by simple upload of files in CSV format. Package: r-cran-grapfa Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph Filename: pool/dists/focal/main/r-cran-grapfa_1.0-1.ca2004.1_all.deb Size: 115728 MD5sum: c03f9493b9341c25a5ae3f6ec27dce6c SHA1: 8873558dfd2e1f258115ab0bf69aa38fba26f165 SHA256: 610c59ff956c22903958c29191e962d69efc15af646b3256d6883fc5654fb13c SHA512: 288c685d095d1268b453287c7ede57686de65b58e2a8e9a500049841436a2ee531dee45de76fafe2d3a0307b3ac51cb81ed3e3f673166a127c5b8c47fbe7658f Homepage: https://cran.r-project.org/package=gRapfa Description: CRAN Package 'gRapfa' (Acyclic Probabilistic Finite Automata) gRapfa is for modelling discrete longitudinal data using acyclic probabilistic finite automata (APFA). The package contains functions for constructing APFA models from a given data using penalized likelihood methods. For graphical display of APFA models, gRapfa depends on 'igraph package'. gRapfa also contains an interface function to Beagle software that implements an efficient model selection algorithm. Package: r-cran-graph3d Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 401 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets, r-cran-lazyeval Suggests: r-cran-shiny, r-cran-viridislite Filename: pool/dists/focal/main/r-cran-graph3d_0.2.0-1.ca2004.1_all.deb Size: 99508 MD5sum: e339dd84ee94631248eb7a9d1a1ea0e2 SHA1: cc4477e974d528f82c02077249685ea5f9f715bd SHA256: 6e0bbac3bb91e269e0a499989d134d4805072025a3d43e629b5c2da8706f55db SHA512: e7a8e02bc4c68fe25baeec4ff13a85da4b8186b3bde4d5e59340c1aa0b647134775316e979f2a76400135a55437dc6bdb48e7a44a0479982419c2fb676453153 Homepage: https://cran.r-project.org/package=graph3d Description: CRAN Package 'graph3d' (A Wrapper of the JavaScript Library 'vis-graph3d') Create interactive visualization charts to draw data in three dimensional graphs. The graphs can be included in Shiny apps and R markdown documents, or viewed from the R console and 'RStudio' Viewer. Based on the 'vis.js' Graph3d module and the 'htmlwidgets' R package. Package: r-cran-graph4lg Architecture: all Version: 1.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3341 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-adegenet, r-cran-ggplot2, r-cran-stringr, r-cran-igraph, r-cran-spatstat.geom, r-cran-spatstat.linnet, r-cran-matrix, r-cran-vegan, r-cran-pegas, r-cran-mass, r-cran-tidyr, r-cran-sp, r-cran-sf, r-cran-hierfstat, r-cran-rappdirs, r-cran-gdistance, r-cran-raster, r-cran-foreign, r-cran-ecodist, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-graph4lg_1.8.0-1.ca2004.1_all.deb Size: 2062852 MD5sum: 93b35c0c61f32bfae610e63ad155e0b7 SHA1: 6853cc25e41aa21d5fac628830a41097187b9945 SHA256: 82c3e1ddde01f7019d666533358fb62f5afed1629efdcc53f30cc76165d8c104 SHA512: a556f5707630797b6ef42bd1caa412996920716262dfd3df3dd80cd315e3f1f5e55dafccfe11f229ae045c9d32dc91e2db01383d9ec8590ab3e719e6027b3db8 Homepage: https://cran.r-project.org/package=graph4lg Description: CRAN Package 'graph4lg' (Build Graphs for Landscape Genetics Analysis) Build graphs for landscape genetics analysis. This set of functions can be used to import and convert spatial and genetic data initially in different formats, import landscape graphs created with 'GRAPHAB' software (Foltete et al., 2012) , make diagnosis plots of isolation by distance relationships in order to choose how to build genetic graphs, create graphs with a large range of pruning methods, weight their links with several genetic distances, plot and analyse graphs, compare them with other graphs. It uses functions from other packages such as 'adegenet' (Jombart, 2008) and 'igraph' (Csardi et Nepusz, 2006) . It also implements methods commonly used in landscape genetics to create graphs, described by Dyer et Nason (2004) and Greenbaum et Fefferman (2017) , and to analyse distance data (van Strien et al., 2015) . Package: r-cran-graphclust Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-blockmodels, r-cran-igraph, r-cran-sclust Filename: pool/dists/focal/main/r-cran-graphclust_1.3-1.ca2004.1_all.deb Size: 116272 MD5sum: 2b1bcaeedf9779f6e41ea678b8f71dd2 SHA1: ef16c1804619f1f3cdcaf45349af936790680cfb SHA256: 0794d1c118d0e8f2f4a1e1319da25ebab036f75b13b7f18946c54e4639a537c3 SHA512: b281888fcada3575c4d3a73a0122387e2c01431c567b3ef0ef1cd493b2e4b5a44ce0266a0626efb221250d51f40831c71a57988b001c036543a8758d8e06540c Homepage: https://cran.r-project.org/package=graphclust Description: CRAN Package 'graphclust' (Hierarchical Graph Clustering for a Collection of Networks) Graph clustering using an agglomerative algorithm to maximize the integrated classification likelihood criterion and a mixture of stochastic block models. The method is described in the article "Model-based clustering of multiple networks with a hierarchical algorithm" by T. Rebafka (2022) . Package: r-cran-grapher Architecture: all Version: 1.9-86-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 856 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-grapher_1.9-86-5-1.ca2004.1_all.deb Size: 695508 MD5sum: 5535c239eddd71ece22b476511dc436f SHA1: d57888e6e6cb3a3cfc692ea6c499283d8b6a1630 SHA256: c57813568835f966f87a7e926f2e609f13fde6832deb1d8bca625970e782dd88 SHA512: b9b73a6e7936d8ca4d511bfe0aae963b688fd4643956230b9a5fe30995679b240fa7f70f6a1edeed0eaf3f02914cbf69b275072611faa0cd17edb2b215533a07 Homepage: https://cran.r-project.org/package=GrapheR Description: CRAN Package 'GrapheR' (A Multi-Platform GUI for Drawing Customizable Graphs in R) A multi-platform user interface for drawing highly customizable graphs in R. It aims to be a valuable help to quickly draw publishable graphs without any knowledge of R commands. Six kinds of graph are available: histogram, box-and-whisker plot, bar plot, pie chart, curve and scatter plot. Package: r-cran-grapherator Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1217 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bbmisc, r-cran-checkmate, r-cran-reshape2, r-cran-vegan, r-cran-ggplot2, r-cran-lhs, r-cran-deldir Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-gridextra, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-grapherator_1.0.0-1.ca2004.1_all.deb Size: 751436 MD5sum: 898906688bbe331466e879f6e083cf79 SHA1: 5b242ed8efb6fb4f04967a329697a56d0cbb1639 SHA256: d0ca20ce9b6f7da1e51f46a4b34e1722f9b0e9704ab40fb10da7e76f36b8c850 SHA512: aa43740d8cde9bcdf159c405ee250f5aad7d907a348a293298c1f0dc4791105515b58cd802240dedc17fb0239f9474907b443cb998ae5298cf0c7bac483ab8c7 Homepage: https://cran.r-project.org/package=grapherator Description: CRAN Package 'grapherator' (A Modular Multi-Step Graph Generator) Set of functions for step-wise generation of (weighted) graphs. Aimed for research in the field of single- and multi-objective combinatorial optimization. Graphs are generated adding nodes, edges and weights. Each step may be repeated multiple times with different predefined and custom generators resulting in high flexibility regarding the graph topology and structure of edge weights. Package: r-cran-graphframes Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sparklyr, r-cran-tibble, r-cran-forge Suggests: r-cran-testthat, r-cran-covr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-graphframes_0.1.2-1.ca2004.1_all.deb Size: 67752 MD5sum: 7892a5fe29ebf7ae72e8160d88c79477 SHA1: eb6809b9a4349054b49bcf420e9755ffe7dbcaca SHA256: 40ac361ff4d265ee9447ff378e399b5e32876dc471243339bb0a6fd0bf858dd8 SHA512: 493202f43c084f1599c252c461ffe2d7ab23126b969492f1653cd5f8653a27affe63d755f9fb5387eef8e5a6193c10d88563873dc8393f780294c225dacc8024 Homepage: https://cran.r-project.org/package=graphframes Description: CRAN Package 'graphframes' (Interface for 'GraphFrames') A 'sparklyr' extension that provides an R interface for 'GraphFrames' . 'GraphFrames' is a package for 'Apache Spark' that provides a DataFrame-based API for working with graphs. Functionality includes motif finding and common graph algorithms, such as PageRank and Breadth-first search. Package: r-cran-graphhopper Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 361 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-httr, r-cran-googlepolylines, r-cran-jsonlite, r-cran-tibble, r-cran-dplyr Suggests: r-cran-sf, r-cran-geojsonsf, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-graphhopper_0.1.2-1.ca2004.1_all.deb Size: 325456 MD5sum: 845b3a9591a4d9a7875204f453f0bbd5 SHA1: 53cadaa7a54111f02be8c939904eaac8a5e1674e SHA256: ddcdf5c5b84a7de74bfb1f50ff17d74e9052d118e3460da76f74c3acf4c7dfca SHA512: e4c259706acf1046397c7183a92adbe24f7399ee61e26092ba12838a38f33dab45a29dfbe7b317a13d0db0c7ddae783083355921a6a10b39cb3274e807aeba13 Homepage: https://cran.r-project.org/package=graphhopper Description: CRAN Package 'graphhopper' (An R Interface to the 'GraphHopper' Directions API) Provides a quick and easy access to the 'GraphHopper' Directions API. 'GraphHopper' itself is a routing engine based on 'OpenStreetMap' data. API responses can be converted to simple feature (sf) objects in a convenient way. 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Package: r-cran-graphon Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-roptspace, r-cran-rdpack Suggests: r-cran-igraph Filename: pool/dists/focal/main/r-cran-graphon_0.3.5-1.ca2004.1_all.deb Size: 81340 MD5sum: b2989228bae39588f680966fa647b877 SHA1: 258c5ac472af5c9165ef65ffbb6578d18a84f867 SHA256: 9c4fc415264472760851119b7685204df82e47a6190358cc163190262494f92b SHA512: 2bdb83c1fc3180ac0f408aaa2c8e41d85e91ecda783ef9f237c91e546f3b5e2d78c031ea295881a2565e7d3fd1167ab6505329d43c29fe0fb5e5494864d51ecc Homepage: https://cran.r-project.org/package=graphon Description: CRAN Package 'graphon' (A Collection of Graphon Estimation Methods) Provides a not-so-comprehensive list of methods for estimating graphon, a symmetric measurable function, from a single or multiple of observed networks. 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This package includes statistical methods to optimize sample size over initial weight and transition probability in a graphical approach under a common setting, which is to use marginal power for each endpoint in a trial design. See Zhang, F. and Gou, J. (2023). Sample size optimization for clinical trials using graphical approaches for multiplicity adjustment, Technical Report. 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Kang, Y., Hyndman, R.J., Li, F.(2020) . Package: r-cran-graven Architecture: all Version: 1.1.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-grain, r-cran-grbase, r-cran-rlang Filename: pool/dists/focal/main/r-cran-graven_1.1.10-1.ca2004.1_all.deb Size: 88784 MD5sum: 1dd13f89ffb3312bc7dac188210d955f SHA1: 0f1b8950180df9f1465808a71139860707595b4c SHA256: f5a68b887bc69562332f445c9bd69b1760f96af46c3dd9d6473f0379fa102c75 SHA512: eeda91b78a94dbc4c6670f7bf0305a699fee0590f968dc8dd6be535a35a671fed19b077a7a13a66324afcfa5b4775ac6cb6defb7ad4545a7e2798bba71acc5f3 Homepage: https://cran.r-project.org/package=gRaven Description: CRAN Package 'gRaven' (Bayes Nets: 'RHugin' Emulation with 'gRain') Wrappers for functions in the 'gRain' package to emulate some 'RHugin' functionality, allowing the building of Bayesian networks consisting on discrete chance nodes incrementally, through adding nodes, edges and conditional probability tables, the setting of evidence, both 'hard' (boolean) or 'soft' (likelihoods), querying marginal probabilities and normalizing constants, and generating sets of high-probability configurations. 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This package provides estimation methods for log-log models and multiplicative models. Package: r-cran-gravityge Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gravityge_1.0.0-1.ca2004.1_all.deb Size: 16876 MD5sum: d1ec986ba6628c762dcd61998e1a2bd9 SHA1: a0066104e44b2c7f15606160ca5b05b02a4d5007 SHA256: dadbc3b2a11eb8367380a16168b2ba08ac44d6302309712dea03140c4c41adb8 SHA512: a548eb5cf9ef78c886868d6e17d51f1d87e7feb61250ad08442e8ef857dfb255ab904224b4c92e523c65ca64a3747a29dcc75f8bebc7ef8dfaa70e84cfb77095 Homepage: https://cran.r-project.org/package=gravityGE Description: CRAN Package 'gravityGE' (One Sector Armington-CES Gravity Model with General Equilibrium) Implements a one-sector Armington-CES gravity model with general equilibrium (GE) effects. 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Package: r-cran-grcdata Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nloptr, r-cran-cubature Filename: pool/dists/focal/main/r-cran-grcdata_1.0-1.ca2004.1_all.deb Size: 52356 MD5sum: d70c2d8532c09812ca8c2510517fbd87 SHA1: 3dc6a3382815a4f544f123ebd0a11138dfff8609 SHA256: 6ac6582f8d2db9f89b3f2e990af4460379dd45e29059bad002adf38770233c10 SHA512: 57e69ad4436504345955829d5692692028f4d8c2cebf36810b2302a37c5cc55a3ebe8ebf3638a5879962161567584f3006ce47e8985dc1eec46e07de6eeaba19 Homepage: https://cran.r-project.org/package=GRCdata Description: CRAN Package 'GRCdata' (Parameter Inference and Optimal Designs for Grouped and/orRight-Censored Count Data) We implement two main functions. The first function uses a given grouped and/or right-censored grouping scheme and empirical data to infer parameters, and implements chi-square goodness-of-fit tests. The second function searches for the global optimal grouping scheme of grouped and/or right-censored count responses in surveys. Package: r-cran-grcdesigns Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-grcdesigns_1.0.0-1.ca2004.1_all.deb Size: 39708 MD5sum: c6babaea41b7d9f5248e67e04f4fac0a SHA1: cdb657ed324494e032d9191a026b9596f615744a SHA256: 705131a1d630c3f124232bcf01109c4293e55b9d55f284d7a725e204a762c48e SHA512: cbc35b8b6da8b4ca26fbbd932443725a52ecdf3e17584a5ae08d034b8dc364966b900543c58816a63578b3af1da07f045cf0b3160434044cd6bb1a87db0d1671 Homepage: https://cran.r-project.org/package=GRCdesigns Description: CRAN Package 'GRCdesigns' (Generalized Row-Column Designs) When the number of treatments is large with limited experimental resources then Row-Column(RC) designs with multiple units per cell can be used. 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Intended to be used for analyzing grouped and right-censored data, which is widely applied in many branches of social sciences. The algorithm implemented is described in Fu et al., (2021) . 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Package: r-cran-greedyexperimentaldesignjars Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 681 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjava Filename: pool/dists/focal/main/r-cran-greedyexperimentaldesignjars_1.0-1.ca2004.1_all.deb Size: 598620 MD5sum: 5abfc5a548fda22d0f0cdc1cd570a2d3 SHA1: d1b16e67f8e79d1dc5348674b0712aba860e4adb SHA256: 8c41fe3770ca33248f7a95574dc01f6d6d43b52e7d05f401017cc562a15e7418 SHA512: 60a67fbc9ffb2ec27c3afa3e8fcb934b1f855c6983b3e5cf97b32503e82dcaeab37b521f9a2fab237745c47643ec06a51f084205b8e5030b8e250eb5380daee5 Homepage: https://cran.r-project.org/package=GreedyExperimentalDesignJARs Description: CRAN Package 'GreedyExperimentalDesignJARs' (GreedyExperimentalDesign JARs) These are GreedyExperimentalDesign Java dependency libraries. Note: this package has no functionality of its own and should not be installed as a standalone package without GreedyExperimentalDesign. Package: r-cran-greekletters Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-assertthat Suggests: r-cran-clisymbols, r-cran-swirlify, r-cran-swirl, r-cran-testthat Filename: pool/dists/focal/main/r-cran-greekletters_1.0.4-1.ca2004.1_all.deb Size: 32688 MD5sum: 27da3a6204b4324c2b2ec7647dd70f55 SHA1: 394eb25c35c8904a4f19fbdb7028612f65759cf3 SHA256: 15b2ce51cbde9df4fd9cba3c8e59ebd278ee9a88f9fa855b95367754c461f5bf SHA512: f9769e8e1e5f5f0a642c990c4ff98a4906d589bc701c7762f0a7d07f2e688ab0769b3a9fc90fe6dae9fa4991bba43c9e044c43e438af2526bb925024d9aafedd Homepage: https://cran.r-project.org/package=greekLetters Description: CRAN Package 'greekLetters' (Routines for Writing Greek Letters and Mathematical Symbols onthe 'RStudio' and 'RGui') An implementation of functions to display Greek letters on the 'RStudio' (include subscript and superscript indexes) and 'RGui' (without subscripts and only with superscript 1, 2 or 3; because 'RGui' doesn't support printing the corresponding Unicode characters as a string: all subscripts ranging from 0 to 9 and superscripts equal to 0, 4, 5, 6, 7, 8 or 9). The functions in this package do not work properly on the R console. Characters are used via Unicode and encoded as UTF-8 to ensure that they can be viewed on all operating systems. Other characters related to mathematics are included, such as the infinity symbol. All this accessible from very simple commands. This is a package that can be used for teaching purposes, the statistical notation for hypothesis testing can be written from this package and so it is possible to build a course from the 'swirlify' package. Another utility of this package is to create new summary functions that contain the functional form of the model adjusted with the Greek letters, thus making the transition from statistical theory to practice easier. In addition, it is a natural extension of the 'clisymbols' package. Package: r-cran-greenclust Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-greenclust_1.1.1-1.ca2004.1_all.deb Size: 159128 MD5sum: 57f59f2fe99fda8c250280269780bcec SHA1: b757cccd89e95042e92749c86dc2f7a386ebcdc9 SHA256: 2a763861e4db66430ffcb58e2f07be35cc5da2858e15acb3be97f2e7de505dba SHA512: 4ef4d8820e0410eb1173474159029e1604c9361cefbe30e705067c6ed4848a91b8f211bea36b6ae32abba932002ce7350b1e5354a33ca2e3b244c2ec34b05339 Homepage: https://cran.r-project.org/package=greenclust Description: CRAN Package 'greenclust' (Combine Categories Using Greenacre's Method) Implements a method of iteratively collapsing the rows of a contingency table, two at a time, by selecting the pair of categories whose combination yields a new table with the smallest loss of chi-squared, as described by Greenacre, M.J. 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The analytical framework incorporates parametric t-tests, non-parametric Wilcoxon tests, permutation tests, and bootstrap resampling techniques to assess the statistical significance of observed differences. 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Create balanced partitions and cross-validation folds. Perform time series windowing and general grouping and splitting of data. Balance existing groups with up- and downsampling or collapse them to fewer groups. 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The difference analysis is based on the 'limma' package, which can cover gene and protein expression profiles (Reference: Matthew E Ritchie , Belinda Phipson , Di Wu , Yifang Hu , Charity W Law , Wei Shi , Gordon K Smyth (2015) ). The GO enrichment analysis is based on the 'clusterProfiler' package and supports three common species: human, mouse, and yeast (Reference: Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He (2012) ). The results of batch difference analysis and enrichment analysis are output in separate folders for easy viewing and further visualization of the results during the process. The results returned a heatmap in R and exported to 3 folders named DEG, go, and merge. 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Baumont "Model Predicting Dynamics of Biomass, Structure and Digestibility of Herbage in Managed Permanent Pastures. 1. Model Description." (2006) ). The implementation in this package contains a few additions to the above cited version of ModVege, such as simulations of management decisions, and influences of snow cover. As such, the model is fit to simulate grass growth in mountainous regions, such as the Swiss Alps. The package also contains routines for calibrating the model and helpful tools for analysing model outputs and performance. 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The package allows users to fit a variety of growth models, including linear, exponential, logistic, and 'Gompertz' functions. For non-linear models, starting values are automatically calculated using initial least-squares estimates. The package includes functions for summarizing models, visualizing data and results, calculating doubling time and other key statistics, and generating model diagnostic plots and residual summary statistics. It also provides functions for generating publication-ready summary tables for reports. Additionally, users can fit linear and non-linear least-squares regression models if clustering is not applicable. The mixed-effects modeling methods in this package are based on Comets, Lavenu, and Lavielle (2017) as implemented in the 'saemix' package. Please contact us at models@dfci.harvard.edu with any questions. 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From this fit, a variety of metrics are provided, including the maximum growth rate, the doubling time, the carrying capacity, the area under the logistic curve, and the time to the inflection point. Method described in Sprouffske and Wagner (2016) . 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(2020) Plant Methods, 16. Smoothing of growth trends for individual plants using natural cubic smoothing splines or P-splines is available for removing transient effects and segmented smoothing is available to deal with discontinuities in growth trends. There are graphical tools for assessing the adequacy of trait smoothing, both when using this and other packages, such as those that fit nonlinear growth models. A range of per-unit (plant, pot, plot) growth traits or features can be extracted from the data, including single time points, interval growth rates and other growth statistics, such as maximum growth or days to maximum growth. The package also has tools adapted to inputting data from high-throughput phenotyping facilities, such from a Lemna-Tec Scananalyzer 3D (see for more information). The package 'growthPheno' can also be installed from . 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Principle 1 determines all sensible univariate relationships in the spirit of the Markovian process. The relationship between each pair of variables, including predictors and the final outcome variable, is determined with the Markovian property that the value of the current predictor is sufficient in relating to the next level variable, i.e., the relationship is independent of the specific value of the preceding-level variables to the current predictor, given the current value. Principle 2 resembles the multiple regression principle in the way multiple predictors are considered simultaneously. Specifically, the relationship of the first-level predictors (such as Time and irradiance etc) to the outcome variable (such as, module degradation or yellowing) is fit by a supervised additive model. Then each significant intermediate variable is taken as the new outcome variable and the other variables (except the final outcome variable) as the predictors in investigating the next-level multivariate relationship by a supervised additive model. This fitting process is continued until all sensible models are investigated. 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The package is based on Jianrong Wu, Yimei Li, Liang Zhu (2023) , Jianrong Wu, Yimei Li (2023) "Group Sequential Multi-Arm Multi-Stage Survival Trial Design with Treatment Selection"(Manuscript accepted for publication) and Jianrong Wu, Yimei Li, Shengping Yang (2023) "Group Sequential Multi-Arm Multi-Stage Trial Design with Ordinal Endpoints"(In preparation). 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Units are converted from from United States Customary System ('USCS') units to International System of Units ('SI'). Stations may be individually checked for number of missing days defined by the user, where stations with too many missing observations are omitted. Only stations with valid reported latitude and longitude values are permitted in the final data. Additional useful elements, saturation vapour pressure ('es'), actual vapour pressure ('ea') and relative humidity ('RH') are calculated from the original data using the improved August-Roche-Magnus approximation (Alduchov & Eskridge 1996) and included in the final data set. The resulting metadata include station identification information, country, state, latitude, longitude, elevation, weather observations and associated flags. For information on the 'GSOD' data from 'NCEI', please see the 'GSOD' 'readme.txt' file available from, . Package: r-cran-gson Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 419 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-jsonlite, r-cran-rlang, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-gson_0.1.0-1.ca2004.1_all.deb Size: 202988 MD5sum: cf05382102281aa29971ee72f27eaced SHA1: 3bfe507301b1ffc5bfecccb1037c1ac2e3735c39 SHA256: e14bac348fbfdcd7d8d6274087bdd37ebb37f46b9e2e2d69c9d3bf4198502ec0 SHA512: 3544348c487a594331dd4c87245d6fee9c8cdefcad84d692a5d71ecdbcb931441548d3eebb1979afc702f7072678fe50756dbc51bad5d0cfac6f2cd1afd07169 Homepage: https://cran.r-project.org/package=gson Description: CRAN Package 'gson' (Base Class and Methods for 'gson' Format) Proposes a new file format ('gson') for storing gene set and related information, and provides read, write and other utilities to process this file format. 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Group sparse optimization via l_{p,q} regularization. Journal of Machine Learning Research, to appear, 2017". 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Refined secondary boundaries are calculated for a gate-keeping test on a primary and a secondary endpoint in a group sequential design with multiple interim looks. The choices include both the standard boundaries and the boundaries using error spending functions. See Tamhane et al. (2018), "A gatekeeping procedure to test a primary and a secondary endpoint in a group sequential design with multiple interim looks", Biometrics, 74(1), 40-48. 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Mapper-based survival analysis is a modification of Progression Analysis of Disease (PAD) where survival data is taken into account in the filtering function. More details in: J. Fores-Martos, B. Suay-Garcia, R. Bosch-Romeu, M.C. Sanfeliu-Alonso, A. Falco, J. Climent, "Progression Analysis of Disease with Survival (PAD-S) by SurvMap identifies different prognostic subgroups of breast cancer in a large combined set of transcriptomics and methylation studies" . Package: r-cran-gstar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-xts, r-cran-zoo, r-cran-reshape2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gstar_0.1.0-1.ca2004.1_all.deb Size: 51444 MD5sum: 73bf1620c8c5dd5beb00d679f620b7f9 SHA1: b537f54cafb7678bb2cac3635d2c77d87e868c7f SHA256: 272d403a85be8ae834d40082c5231fa697669b31124350da4d16d7c12a4791f8 SHA512: 9029ef105f32de0fbbea53098ec02ff5b4a78fc04c15e18502dbe7ef6e241b333dcfb20e3bf2a9f7c26664671416e0b711e1f59473df23cd7f81e46d730cb600 Homepage: https://cran.r-project.org/package=gstar Description: CRAN Package 'gstar' (Generalized Space-Time Autoregressive Model) Multivariate time series analysis based on Generalized Space-Time Autoregressive Model by Ruchjana et al.(2012) . Package: r-cran-gstream Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gstream_0.2.0-1.ca2004.1_all.deb Size: 122756 MD5sum: a3eae5a0c418efbff1a46a59c3e38dd8 SHA1: 5cd289e1f01c39170c054bb70b0a7568d9da0684 SHA256: 52887790ae5c60b1cc8ae65bc931c0e63a7a89c402030085b8b2bae9cd288a2b SHA512: 08a48604c5152ffd9896450932b4a113ff47060e66d1b40c6d571d0f3bbd376af39aa17e5957126b27ac30db9bd59c2e223f0280df4169d7dbc385174d196fc6 Homepage: https://cran.r-project.org/package=gStream Description: CRAN Package 'gStream' (Graph-Based Sequential Change-Point Detection for Streaming Data) Uses an approach based on k-nearest neighbor information to sequentially detect change-points. Offers analytic approximations for false discovery control given user-specified average run length. Can be applied to any type of data (high-dimensional, non-Euclidean, etc.) as long as a reasonable similarity measure is available. See references (1) Chen, H. (2019) Sequential change-point detection based on nearest neighbors. The Annals of Statistics, 47(3):1381-1407. (2) Chu, L. and Chen, H. (2018) Sequential change-point detection for high-dimensional and non-Euclidean data . Package: r-cran-gstsm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-digest Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gstsm_1.0.0-1.ca2004.1_all.deb Size: 63664 MD5sum: 1378c37d584ffd2bda514a262607e05f SHA1: aefd3bf89160e1905fe75b5abe3d6863f3c569b8 SHA256: 711ad067d9853182cfc5511b0113b5eb2ef82a4240bc1f27c15ef44a93d51000 SHA512: 7120ae1c25b5e7014dcf0bd97142010e2e6055663d41ac6b4c07e32d38ae2107ebeb29100dacadb61ec56dd8a5a11c88b3057619cd6305e1695c148b11062f89 Homepage: https://cran.r-project.org/package=gstsm Description: CRAN Package 'gstsm' (Generalized Spatial-Time Sequence Miner) Implementations of the algorithms present article Generalized Spatial-Time Sequence Miner, original title (Castro, Antonio; Borges, Heraldo ; Pacitti, Esther ; Porto, Fabio ; Coutinho, Rafaelli ; Ogasawara, Eduardo . Generalização de Mineração de Sequências Restritas no Espaço e no Tempo. In: XXXVI SBBD - Simpósio Brasileiro de Banco de Dados, 2021 ). 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Matches and back references are input to the replacement function and replaced by the function output. gsubfn can be used to split strings based on content rather than delimiters and for quasi-perl-style string interpolation. The package also has facilities for translating formulas to functions and allowing such formulas in function calls instead of functions. This can be used with R functions such as apply, sapply, lapply, optim, integrate, xyplot, Filter and any other function that expects another function as an input argument or functions like cat or sql calls that may involve strings where substitution is desirable. There is also a facility for returning multiple objects from functions and a version of transform that allows the RHS to refer to LHS used in the same transform. 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Package: r-cran-gt4ireval Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-gt4ireval_2.0-1.ca2004.1_all.deb Size: 58208 MD5sum: 57036194aa073124d92925566fb30773 SHA1: 9b7fd1f650660689878b4d8cab0471e93449ccb5 SHA256: 28b1bf7948bb1a05b94e93534b82daed19cc347a3a99f8f0c8669361ce7b95b6 SHA512: 11b5ec3d2913814fdde71c6220442fdf79e30aecf58e100405977f31c11253e1d64be9e83d9b0d35a6af49d63a5fc064cc739b6dd5ca3bfbd44a28033a045344 Homepage: https://cran.r-project.org/package=gt4ireval Description: CRAN Package 'gt4ireval' (Generalizability Theory for Information Retrieval Evaluation) Provides tools to measure the reliability of an Information Retrieval test collection. 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Package: r-cran-gt Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6269 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-base64enc, r-cran-bigd, r-cran-bitops, r-cran-cli, r-cran-commonmark, r-cran-dplyr, r-cran-fs, r-cran-glue, r-cran-htmltools, r-cran-htmlwidgets, r-cran-juicyjuice, r-cran-magrittr, r-cran-markdown, r-cran-reactable, r-cran-rlang, r-cran-sass, r-cran-scales, r-cran-tidyselect, r-cran-vctrs, r-cran-xml2 Suggests: r-cran-fontawesome, r-cran-ggplot2, r-cran-gtable, r-cran-katex, r-cran-knitr, r-cran-lubridate, r-cran-magick, r-cran-paletteer, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-rsvg, r-cran-rvest, r-cran-shiny, r-cran-testthat, r-cran-tidyr, r-cran-webshot2, r-cran-withr Filename: pool/dists/focal/main/r-cran-gt_1.0.0-1.ca2004.1_all.deb Size: 5948964 MD5sum: a7fc16d67b6aaeaf8b4c81a3c83231de SHA1: 43f336f7b3d9c11627cac156372a58b01931553e SHA256: f7f5ea4724be1f7f50e1e2310196d2669ea593ff29f2267d7731c8dba3357e7e SHA512: 9483808596379b0f6f5d4b49fd11f29c20e5b713b245388a62a539e3be7c6dc93bb2d8030d71c9962955bacd0b20d691be4e9649ebebb66977608309ca6f0944 Homepage: https://cran.r-project.org/package=gt Description: CRAN Package 'gt' (Easily Create Presentation-Ready Display Tables) Build display tables from tabular data with an easy-to-use set of functions. 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(2020) ) residuals and the normally transformed randomized survival probability (Li,L., et al. (2021) ) residuals are obtained for the GTDL model. Package: r-cran-gtests Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2164 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ade4 Filename: pool/dists/focal/main/r-cran-gtests_0.2-1.ca2004.1_all.deb Size: 2179292 MD5sum: 72c2efdc9ca584f5fdaa7ea90725d05e SHA1: 3cccf52c5ac444fc265892c1b5f1cc27b516b35a SHA256: d697d8bb2dea3a8234acb6dc74ab32708e14a7c7806a7c58a181c3b954081b75 SHA512: 2d23ce9ea7d318e896abafb05f7ff25bcf2d98724e9c4de9133f8d978572fb089e3cfdf667823fa916a6ca8c533273700068af4430b989e70e7778e4ef44e476 Homepage: https://cran.r-project.org/package=gTests Description: CRAN Package 'gTests' (Graph-Based Two-Sample Tests) Four graph-based tests are provided for testing whether two samples are from the same distribution. 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The GTEx project is a comprehensive public resource for studying tissue-specific gene expression and regulation in human tissues. Through systematic analysis of RNA sequencing data from 54 non-diseased tissue sites across nearly 1000 individuals, GTEx provides crucial insights into the relationship between genetic variation and gene expression. This data is accessible through the GTEx Portal API enabling programmatic access to human gene expression data. For more information on the API, see . 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Package: r-cran-gtexture Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dlookr, r-cran-dplyr, r-cran-fitscape, r-cran-igraph, r-cran-magrittr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gtexture_1.0.0-1.ca2004.1_all.deb Size: 105712 MD5sum: 2ad22c5fda7bf9be116b07f9a3a1f85d SHA1: c7a05f06e908b61079c45244a2a96d87a45c1b60 SHA256: 6f399a59a4aaf4caff01bb84fff968365b268ec9c105d9ee7716a35ce21e1596 SHA512: 9fa2c50ee6dd716ec6ad3e574604438f33cef3bcbdc21ab25b644eb1401905131775aa57f1b746f82a3fd6949c3ee129dffd7087c5188cdf3c628ee8eb968e80 Homepage: https://cran.r-project.org/package=gtexture Description: CRAN Package 'gtexture' (Generalized Application of Co-Occurrence Matrices and HaralickTexture) Generalizes application of gray-level co-occurrence matrix (GLCM) metrics to objects outside of images. The current focus is to apply GLCM metrics to the study of biological networks and fitness landscapes that are used in studying evolutionary medicine and biology, particularly the evolution of cancer resistance. The package was developed as part of the author's publication in Physics in Medicine and Biology Barker-Clarke et al. (2023) . A general reference to learn more about mathematical oncology can be found at Rockne et al. (2019) . Package: r-cran-gtfs2emis Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3196 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-furrr, r-cran-future, r-cran-gtfs2gps, r-cran-sf, r-cran-sfheaders, r-cran-terra, r-cran-units Suggests: r-cran-gtfstools, r-cran-ggplot2, r-cran-knitr, r-cran-lwgeom, r-cran-progressr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-gtfs2emis_0.1.1-1.ca2004.1_all.deb Size: 2726072 MD5sum: 1b87a2a60487f3c057ed880cdc13b63f SHA1: 674c0b176b5b37986973d6bc5c74deb5b33dc974 SHA256: 01a99e2c642c88a156a02959cac334319c8766b0c78122e34c34147a423c112e SHA512: ba6c61dd30c33bf7efcf9ab1a0eac3fbbcbe23ff9acdd8430698046af715f258cc380bc3e8c041e0c8f30ab4c219b7b967147ccdc5ee0de51924ab0e11e7ef19 Homepage: https://cran.r-project.org/package=gtfs2emis Description: CRAN Package 'gtfs2emis' (Estimating Public Transport Emissions from General Transit FeedSpecification (GTFS) Data) A bottom up model to estimate the emission levels of public transport systems based on General Transit Feed Specification (GTFS) data. The package requires two main inputs: i) Public transport data in the GTFS standard format; and ii) Some basic information on fleet characteristics such as fleet age, technology, fuel and Euro stage. As it stands, the package estimates several pollutants at high spatial and temporal resolutions. Pollution levels can be calculated for specific transport routes, trips, time of the day or for the transport system as a whole. The output with emission estimates can be extracted in different formats, supporting analysis on how emission levels vary across space, time and by fleet characteristics. A full description of the methods used in the 'gtfs2emis' model is presented in Vieira, J. P. B.; Pereira, R. H. M.; Andrade, P. R. (2022) . Package: r-cran-gtfsio Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 543 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-fs, r-cran-zip, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-gtfsio_1.2.0-1.ca2004.1_all.deb Size: 340468 MD5sum: ce980609e8670abd19a290c34c7b5002 SHA1: a80c1be7c9b9bb2b63b1f569ff50d3b84c0ffc04 SHA256: 5f5fc24dd1fc8c86c5f80a9dffb01b87ddfa1eaf6dab9ca2f1ed4554d6758e79 SHA512: 8d067961d986baac4377f95413faeeaf9f3130f00da197e61b71c51cd09cbbb92a476e5d78b532a8092354b92c9b756ca78976b1c0bff3edffbb03b806e251ec Homepage: https://cran.r-project.org/package=gtfsio Description: CRAN Package 'gtfsio' (Read and Write General Transit Feed Specification (GTFS) Files) Tools for the development of packages related to General Transit Feed Specification (GTFS) files. Establishes a standard for representing GTFS feeds using R data types. Provides fast and flexible functions to read and write GTFS feeds while sticking to this standard. Defines a basic 'gtfs' class which is meant to be extended by packages that depend on it. And offers utility functions that support checking the structure of GTFS objects. Package: r-cran-gtfswizard Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4352 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lubridate, r-cran-sf, r-cran-tidyr, r-cran-data.table, r-cran-shiny, r-cran-leaflet, r-cran-checkmate, r-cran-dplyr, r-cran-ggplot2, r-cran-gtfsio, r-cran-purrr, r-cran-rlang, r-cran-crayon, r-cran-forcats, r-cran-hrbrthemes, r-cran-stringr, r-cran-tibble, r-cran-plotly, r-cran-leaflet.extras, r-cran-geosphere, r-cran-stplanr, r-cran-glue, r-cran-hms, r-cran-sfnetworks, r-cran-gtfstools, r-cran-tidytransit, r-cran-igraph, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-gtfswizard_1.1.0-1.ca2004.1_all.deb Size: 4401644 MD5sum: d11da4723a1655536c1fc71d217664f9 SHA1: e1d2239fa136926071b6e913c7c84f7ea72a86d0 SHA256: 7231e196e28052524ac54ba9c665ec460b5a04ab4daef81b986075d54e7b82d6 SHA512: 39da0762be7ec5c6216303536f8ed2b2a719d35401104888f377685cc320d035f3f78e3c568ece286865771a638cf198315e5ad0e4d4fe4b2c26188f327441b4 Homepage: https://cran.r-project.org/package=GTFSwizard Description: CRAN Package 'GTFSwizard' (Exploring and Manipulating 'GTFS' Files) Exploring, analyzing, and manipulating General Transit Feed Specification (GTFS) files, which represent public transportation schedules and geographic data. The package allows users to filter data by routes, trips, stops, and time, generate spatial visualizations, and perform detailed analyses of transit networks, including headway, dwell times, and route frequencies. Designed for transit planners, researchers, and data analysts, 'GTFSwizard' integrates functionalities from popular packages to enable efficient GTFS data manipulation and visualization. Package: r-cran-gtheory Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-gtheory_0.1.2-1.ca2004.1_all.deb Size: 42872 MD5sum: 3f79a89f20d3b58116f821e04a776319 SHA1: c998d73abcdb46a3025582f180f43c013e3efea6 SHA256: 08491950d262a1acc0bf33ab070884c47392b61d01c06213029be9cb42e521da SHA512: d8c1fd69649d1469db23f67ae31ebe2e9cd14da07446a54b75fe07351d1a888c7d12c8fb7bec377c3b47597884d379e4a690717fb5b4bbf3c4382a5874e8918e Homepage: https://cran.r-project.org/package=gtheory Description: CRAN Package 'gtheory' (Apply Generalizability Theory with R) Estimates variance components, generalizability coefficients, universe scores, and standard errors when observed scores contain variation from one or more measurement facets (e.g., items and raters). Package: r-cran-gto Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 355 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gt, r-cran-magrittr, r-cran-officer, r-cran-rlang, r-cran-xml2 Suggests: r-cran-testthat, r-cran-dplyr, r-cran-tibble, r-cran-covr Filename: pool/dists/focal/main/r-cran-gto_0.1.2-1.ca2004.1_all.deb Size: 281772 MD5sum: b9e98965b08e53f5dc094562a89c6c64 SHA1: fdde54461dbc76e9b5a20ea278f9a182a01efcd2 SHA256: 9dfa9cfda534f84bd8629c3c6fac4891a9e96017be2d27b88ada209c5aadddef SHA512: 395bb340a5fbb79bba28c5fa9aae78170d3fb12c2a54680cef142a66f27690ae8eea44ff4aec283728735eea3a1419d424cfba81fd1dbee6d0b082d726b3a66f Homepage: https://cran.r-project.org/package=gto Description: CRAN Package 'gto' (Insert 'gt' Tables into Word Documents) Insert tables created by the 'gt' R package into 'Microsoft Word' documents. This gives users the ability to add to their existing word documents the tables made in 'gt' using the familiar 'officer' package and syntax from the 'officeverse'. Package: r-cran-gtop Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hts, r-cran-quadprog, r-cran-lassoshooting Filename: pool/dists/focal/main/r-cran-gtop_0.2.0-1.ca2004.1_all.deb Size: 19980 MD5sum: 14191a09e109e071e49e0309a7961bd1 SHA1: a93500712a0ccdf688824816fb23f5bce068e6d0 SHA256: ba55b2d61155d6cafac96097b210b3d2c7796a01ec59189b111bf29d08c6aedd SHA512: 031d5e194fc64ec32d63b7c3722459b5f5af4bbb0627b2dd801b73475835a5fcef53d713f07ea7e8671436ec0ce7338dc0705c46ae59190c91c939e69813f194 Homepage: https://cran.r-project.org/package=gtop Description: CRAN Package 'gtop' (Game-Theoretically OPtimal (GTOP) Reconciliation Method) In hierarchical time series (HTS) forecasting, the hierarchical relation between multiple time series is exploited to make better forecasts. This hierarchical relation implies one or more aggregate consistency constraints that the series are known to satisfy. Many existing approaches, like for example bottom-up or top-down forecasting, therefore attempt to achieve this goal in a way that guarantees that the forecasts will also be aggregate consistent. This package provides with an implementation of the Game-Theoretically OPtimal (GTOP) reconciliation method proposed in van Erven and Cugliari (2015), which is guaranteed to only improve any given set of forecasts. This opens up new possibilities for constructing the forecasts. For example, it is not necessary to assume that bottom-level forecasts are unbiased, and aggregate forecasts may be constructed by regressing both on bottom-level forecasts and on other covariates that may only be available at the aggregate level. Package: r-cran-gtranslate Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-httr, r-cran-rvest Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gtranslate_0.0.1-1.ca2004.1_all.deb Size: 14056 MD5sum: 8d5e3c21cc28b551a26601cc538e60c6 SHA1: 401b4da9b78371b44d30b38f7b827194d6919010 SHA256: 74c62ccfd51e98603aaa2f0a43e49c6b5e7da853ec3dd5cee47f230fa8389826 SHA512: 3766e17e13c04e73230f70bc8f81409f5b374665adfb5e0c808c576bc8d0abf6e86ad4a21ff65baa81c1daab983fce2f2eaaa2c91073f5e0e19e7ec9cabe03ef Homepage: https://cran.r-project.org/package=gtranslate Description: CRAN Package 'gtranslate' (Translate Between Different Languages) The goal of this package is to translate between different languages without any Google API authentication which is pain and you must pay for the key, This package is free and lightweight. Package: r-cran-gtreg Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1464 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-forcats, r-cran-glue, r-cran-gtsummary, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-gt, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-gtreg_0.4.1-1.ca2004.1_all.deb Size: 1290648 MD5sum: 701b8105f8112d5f71e37cf48c57c831 SHA1: 6d19c6494bd799244c1145f09000695a774a8b91 SHA256: 25af1376ab2d980462fed45f257be8645081fdf2b68612d33f757a2f18c36302 SHA512: bc518c9a895f188264cdb386aad92475fb27791d5978e9730e642fd3ec16e4595970139227e779ae2274b59f10a0db75db9fcb52a91be4f2de03d2423e868d1d Homepage: https://cran.r-project.org/package=gtreg Description: CRAN Package 'gtreg' (Regulatory Tables for Clinical Research) Creates tables suitable for regulatory agency submission by leveraging the 'gtsummary' package as the back end. Tables can be exported to HTML, Word, PDF and more. Highly customized outputs are available by utilizing existing styling functions from 'gtsummary' as well as custom options designed for regulatory tables. Package: r-cran-gtrendshealth Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-jsonlite, r-cran-httr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-gtrendshealth_1.0.0-1.ca2004.1_all.deb Size: 40468 MD5sum: 8d5482b63f8ec4cefee94b6c4b54763a SHA1: b57dbe63175fc93f034b6308112a3bfc089cb7e8 SHA256: 67c62aa4aa016c741bdbef8391379bd5cb5737b478a9e4952d7ecc55c60d13a6 SHA512: d616f49013915828420bf62cffec5188706a5a02fd7612f054138b5ed12641317eef6d0bce8492a0bfba484c3e7f7aaaec4ee6c612c5df67a59614c9d01915e6 Homepage: https://cran.r-project.org/package=gtrendshealth Description: CRAN Package 'gtrendshealth' (Query the 'Google Trends for Health' API) Connects to the 'Google Trends for Health' API hosted at , allowing projects authorized to use the health research data to query 'Google Trends'. 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Trends (number of hits) over the time as well as geographic representation of the results can be displayed. Package: r-cran-gtsummary Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2038 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cards, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-gt, r-cran-lifecycle, r-cran-rlang, r-cran-tidyr, r-cran-vctrs Suggests: r-cran-aod, r-cran-broom, r-cran-broom.helpers, r-cran-broom.mixed, r-cran-car, r-cran-cardx, r-cran-cmprsk, r-cran-effectsize, r-cran-emmeans, r-cran-flextable, r-cran-geepack, r-cran-ggstats, r-cran-huxtable, r-cran-insight, r-cran-kableextra, r-cran-knitr, r-cran-lme4, r-cran-mice, r-cran-nnet, r-cran-officer, r-cran-openxlsx, r-cran-parameters, r-cran-parsnip, r-cran-rmarkdown, r-cran-smd, r-cran-spelling, r-cran-survey, r-cran-survival, r-cran-testthat, r-cran-withr, r-cran-workflows Filename: pool/dists/focal/main/r-cran-gtsummary_2.2.0-1.ca2004.1_all.deb Size: 1637212 MD5sum: 316991fab158344f52bebb58f635f749 SHA1: ff0ca80003dd38ba4e76f143a995d05eda0a4c6f SHA256: 7513d8aa697528a0c95c3b84eb171ccc982501728d6cf879a087652fb69d1f2e SHA512: c84a1e9825a454252ed1fa8916ff2d98cf9b27afafdc4461a1cf62bbd445b51fcde05f9b865b36f145555fe39e4b4489bb20a69e35d091ee9065e24fa39bf449 Homepage: https://cran.r-project.org/package=gtsummary Description: CRAN Package 'gtsummary' (Presentation-Ready Data Summary and Analytic Result Tables) Creates presentation-ready tables summarizing data sets, regression models, and more. The code to create the tables is concise and highly customizable. Data frames can be summarized with any function, e.g. mean(), median(), even user-written functions. Regression models are summarized and include the reference rows for categorical variables. Common regression models, such as logistic regression and Cox proportional hazards regression, are automatically identified and the tables are pre-filled with appropriate column headers. Package: r-cran-gtwas Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-gtwas_1.1.0-1.ca2004.1_all.deb Size: 122972 MD5sum: bf85f33c42a9e867fc979647b527d72b SHA1: 14e77a56f3d91c6f7be20621856cc3564d8f949d SHA256: ea30847891f3152b1a786b99036e953d82df0d068ad6c28c8d629eb9ede8f2ab SHA512: cb0f6ddc0c3e3db55413623fb798b804f66929f59ef57c920806e120168155c5e713bb11a5b0b52c62bc6523cfa86c5e49aa8e74cd2a248e4659b88bc51d031c Homepage: https://cran.r-project.org/package=gtWAS Description: CRAN Package 'gtWAS' (Genome and Transcriptome Wide Association Study) Quantitative trait loci mapping and genome wide association analysis are used to find candidate molecular marker or region associated with phenotype based on linkage analysis and linkage disequilibrium. Gene expression quantitative trait loci mapping is used to find candidate molecular marker or region associated with gene expression. In this package, we applied the method in Liu W. (2011) and Gusev A. (2016) to genome and transcriptome wide association study, which is aimed at revealing the association relationship between phenotype and molecular markers, expression levels, molecular markers nested within different related expression effect and expression effect nested within different related molecular marker effect. F test based on full and reduced model are performed to obtain p value or likelihood ratio statistic. The best linear model can be obtained by stepwise regression analysis. Package: r-cran-guaguas Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3673 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-guaguas_0.3.0-1.ca2004.1_all.deb Size: 3624884 MD5sum: d97dfebff0239a7e606e471db063ebbf SHA1: 2dd43b4f1f7a51dcad7e092e1ca1770d312a9791 SHA256: 340f5d5cada7b6061daf075d3ab5e76e04a24a16a6604ef1d00544028749c700 SHA512: 1b868591955628fcdadb9780ddf299544c07eea3e0c6fac41a31d3c6683ad5f06076fea9748dd5a81550be23f483b5c78ed1774a56d06f9b97c9768d4e6ebc8d Homepage: https://cran.r-project.org/package=guaguas Description: CRAN Package 'guaguas' (Nombres Inscritos en Chile (1920 - 2021)) Datos de nombres inscritos en Chile entre 1920 y 2021, de acuerdo al Servicio de Registro Civil. English: Chilean baby names registered from 1920 to 2021 by the Civil Registry Service. 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An API key and registration is required. 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For method details see, Wheeler, D.C.(2009).. The developed hybrid model efficiently selects the relevant variables by using LASSO as the first step; these selected variables are then incorporated into the GWR framework, allowing the estimation of spatially varying regression coefficients at unknown locations and finally predicting the values of the response variable at unknown test locations while taking into account the spatial heterogeneity of the data. Integrating the LASSO and GWR models enhances prediction accuracy by considering spatial heterogeneity and capturing the local relationships between the predictors and the response variable. The developed hybrid spatial model can be useful for spatial modeling, especially in scenarios involving complex spatial patterns and large datasets with multiple predictor variables. 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See Wheeler (2009) and Wheeler (2007) for more details. 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Has the zero inflated negative binomial distribution (zinb) as default, but also accepts the zero inflated Poisson (zip), negative binomial (negbin) and Poisson distributions. Can also fit the global versions of each regression model. Da Silva, A. R. & De Sousa, M. D. R. (2023). "Geographically weighted zero-inflated negative binomial regression: A general case for count data", Spatial Statistics . Brunsdon, C., Fotheringham, A. S., & Charlton, M. E. (1996). "Geographically weighted regression: a method for exploring spatial nonstationarity", Geographical Analysis, . Yau, K. K. W., Wang, K., & Lee, A. H. (2003). "Zero-inflated negative binomial mixed regression modeling of over-dispersed count data with extra zeros", Biometrical Journal, . 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Package: r-cran-hac Architecture: all Version: 1.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1138 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-copula Filename: pool/dists/focal/main/r-cran-hac_1.1-1-1.ca2004.1_all.deb Size: 1043544 MD5sum: ca0fbb6f4278498ef87355f283ec701a SHA1: 5f7afd453fb107e4a50f5f855d99eb86c0a05d8c SHA256: 8310f19db7e66efb17b2a72f15616d446ceec82267aeb8acbc2757a6dc767080 SHA512: f09bb5a55487c920c75f02616eb6b0bff152645b19c358e1e2d52e227faa62f816516186af7e3371e9e02de3ccf0843d9eb74123e0018a96be33f8e4ecd3bec2 Homepage: https://cran.r-project.org/package=HAC Description: CRAN Package 'HAC' (Estimation, Simulation and Visualization of HierarchicalArchimedean Copulae (HAC)) Package provides the estimation of the structure and the parameters, sampling methods and structural plots of Hierarchical Archimedean Copulae (HAC). Package: r-cran-hackernews Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 544 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr2 Suggests: r-cran-covr, r-cran-testthat, r-cran-httptest2, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-tibble Filename: pool/dists/focal/main/r-cran-hackernews_0.2.1-1.ca2004.1_all.deb Size: 474880 MD5sum: 5fd75f0a286530c91603895859cc30a9 SHA1: 9ede321c999343a787f0b464be1dfd488d04ba89 SHA256: f7b79a90a7b8d0a0c7501d9b38a7d679c7d811e6de75175c4e51db448e534f9a SHA512: 687f9a9a1c0a008ec05eaef41056e5de05c303e5ffbc32cdee407220d47630e0d9a217c88b2754e802e8786cabc7f831a296c5115ec9c526f47fd3e0b6e40dd6 Homepage: https://cran.r-project.org/package=hackeRnews Description: CRAN Package 'hackeRnews' (Wrapper for the 'Official Hacker News' API) Use the Official Hacker News API through R. Retrieve posts, articles and other items in form of convenient R objects. Package: r-cran-hacksaw Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-tidyselect, r-cran-tibble, r-cran-zeallot, r-cran-magrittr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-hacksaw_0.0.2-1.ca2004.1_all.deb Size: 39892 MD5sum: 35cacb69899161474ef6d36893be0bf8 SHA1: 9b008b45a115694d06569fe7b3efb448c87c55cb SHA256: 58268526edeb46b535fbd7d7c24e6dbab2be0d28401be2f3a567f21d248b7bc0 SHA512: 93730b503df85ed52eb1fd095e368f83d5594c237ecad96de4c95a328432dc5e48c7719984f0e45bfe7836912746eac98d506a7bfd498c20c6f09fb89d0be554 Homepage: https://cran.r-project.org/package=hacksaw Description: CRAN Package 'hacksaw' (Additional Tools for Splitting and Cleaning Data) Move between data frames and lists more efficiently with precision splitting via 'dplyr' verbs. Easily cast variables to different data types. Keep rows with NAs. Shift row values. Package: r-cran-hacksig Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1202 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-future.apply, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-future, r-cran-ggplot2, r-cran-knitr, r-cran-msigdbr, r-cran-purrr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hacksig_0.1.2-1.ca2004.1_all.deb Size: 1071920 MD5sum: e181dcd59444b3c7b106187eb18b6a48 SHA1: b4ea3ba646912acec5b238b417ad5c5bb5a4938d SHA256: 9898659954998d47d7892a2c093236ab1e6a9e1d1a8ae313c36571f1b9e0355f SHA512: 916668ad0633e49ba117912bcb446af89ad918e368b800123a6ce32dec06299ebe4a7a938df95e213c2d5739e17fe28210052737cf0ffc45e0029ce25e94c57c Homepage: https://cran.r-project.org/package=hacksig Description: CRAN Package 'hacksig' (A Tidy Framework to Hack Gene Expression Signatures) A collection of cancer transcriptomics gene signatures as well as a simple and tidy interface to compute single sample enrichment scores either with the original procedure or with three alternatives: the "combined z-score" of Lee et al. (2008) , the "single sample GSEA" of Barbie et al. (2009) and the "singscore" of Foroutan et al. (2018) . The 'get_sig_info()' function can be used to retrieve information about each signature implemented. Package: r-cran-hadamardr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 297 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-numbers, r-cran-openxlsx Filename: pool/dists/focal/main/r-cran-hadamardr_1.0.0-1.ca2004.1_all.deb Size: 231784 MD5sum: f42ae3dd0caeb17c00231925b2b15232 SHA1: 5091a7d445e2b2cc30a7365a8949482c69d3b99a SHA256: 5f39f279201e6bdf89afb3677c7c9385f93b0f4f3fe86ab44d99f209697888f6 SHA512: c00cd1275fd305c366b9045836b7da0fa87bb35c522f7d7514be6aa3b1c77fdbb5149de8720ba36c58ddd153e9cab1f03c04d5ee03d1c0cfc5933dffb3ee1676 Homepage: https://cran.r-project.org/package=HadamardR Description: CRAN Package 'HadamardR' (Hadamard Matrix Generation) Generates Hadamard matrices using different construction methods. For those who want to generate Hadamard matrix, a generic function, Hadamard_matrix() is provided. For those who want to generate Hadamard matrix using a particular method, separate functions are available. See Horadam (2007, ISBN:9780691119212) Hadamard Matrices and their applications, Princeton University Press for more information on Hadamard Matrices. Package: r-cran-hadex Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8185 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-gsubfn, r-cran-latex2exp, r-cran-reshape2, r-cran-readr, r-cran-readxl, r-cran-shiny, r-cran-stringr, r-cran-tidyr Suggests: r-cran-spelling, r-cran-covr, r-cran-digest, r-cran-gridextra, r-cran-knitr, r-cran-pander, r-cran-renv, r-cran-rmarkdown, r-cran-shinycssloaders, r-cran-shinyhelper, r-cran-shinyjs, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-hadex_1.2.2-1.ca2004.1_all.deb Size: 2049400 MD5sum: bfb7bff2d984d1ae7adb21624cd7d2d4 SHA1: 54287b4599a23c4c947a03b6ed3a64ff5dc8081c SHA256: d1aa0027bda0c7768365db681b451e62c5aa1c1006d21d2bd58198e4038e43fc SHA512: 19bdd79fd02538a12bbb590275d655fc0c9a44d6975dd67c8fb4ccc54881b564cc6d95b55c09620f06a451f3aa5a69b1289e896161da769c8ac9f2f4b9357c29 Homepage: https://cran.r-project.org/package=HaDeX Description: CRAN Package 'HaDeX' (Analysis and Visualisation of Hydrogen/Deuterium Exchange MassSpectrometry Data) Functions for processing, analysis and visualization of Hydrogen Deuterium eXchange monitored by Mass Spectrometry experiments (HDX-MS) (10.1093/bioinformatics/btaa587). 'HaDeX' introduces a new standardized and reproducible workflow for the analysis of the HDX-MS data, including novel uncertainty intervals. Additionally, it covers data exploration, quality control and generation of publication-quality figures. All functionalities are also available in the in-built 'Shiny' app. Package: r-cran-hadibds Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hadibds_1.0.1-1.ca2004.1_all.deb Size: 18860 MD5sum: 8ecd3962c91513dddfeba854462785fe SHA1: b6d8b71835e8b7707292e93c5c49c30510ac9904 SHA256: 02635b57a2c0ba60bc3d9777147b6a7835004c1eb4c17607f04f04620d05a1cf SHA512: cb0943d835827866d4fe12e30ce53afad69227e2a76f04a4874c8b365261cbaa4766276a91c8484de17dd5aa5cc2e15674bff336f1d5d150ff150d92505f3322 Homepage: https://cran.r-project.org/package=HadIBDs Description: CRAN Package 'HadIBDs' (Incomplete Block Designs using Hadamard Matrix (HadIBDs)) Hadamard matrix based statistical designs are of immense importance as the resultant designs carry various desirable characterizing properties. Constructing Partially Balanced Incomplete Block Designs (PBIBds) using Kronecker product of incidence matrices of Balanced Incomplete Block (BIB) and Partially Balanced Incomplete Block (PBIB) designs is much evident from literature. Here, we have constructed Incomplete Block Designs (IBDs) based on Hadamard matrices and Kronecker product of Hadamard matrices. Package: r-cran-hadoopstreaming Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-getopt Filename: pool/dists/focal/main/r-cran-hadoopstreaming_0.2-1.ca2004.1_all.deb Size: 44116 MD5sum: 3ab9b05f1f282ac4c48f50ad135ba804 SHA1: a06faa41156372bfa9148d8b5e869eb61cc1f959 SHA256: 0287fe2f5c5d4d9ae9a0dc7f7cf135492d2ad3f4b7aedf5ea79c7860702ad7da SHA512: 46e36f154ffeaf539f893324650d6aaa9bc4af7849219cdac53997d9c61ed3e37c8dc94fe9ab07f86992018ed09572a0f0cf1ace14e6c421e4d54b9c400f0f43 Homepage: https://cran.r-project.org/package=HadoopStreaming Description: CRAN Package 'HadoopStreaming' (Utilities for using R scripts in Hadoop streaming) Provides a framework for writing map/reduce scripts for use in Hadoop Streaming. Also facilitates operating on data in a streaming fashion, without Hadoop. Package: r-cran-hagis Architecture: all Version: 3.1.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1644 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-pander Suggests: r-cran-ape, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-roxyglobals, r-cran-testthat, r-cran-vdiffr, r-cran-vegan Filename: pool/dists/focal/main/r-cran-hagis_3.1.12-1.ca2004.1_all.deb Size: 704944 MD5sum: 5fef6584e3bffb2eca44ed4932ebfed6 SHA1: e2b3b06b169d4003fb4fdb1c62f710a5cdcfcb04 SHA256: b1d8f1e590032a6cf55237075b0f19c49073833137cba027e6a555109e8019ce SHA512: 8073fb8d8689286f06fe3514d3f62db635d3c98dad429093cae924499943c98932cfd7113136f223015c9b6652a42da10b4af97080a73d36a3dbdf6a9889cc44 Homepage: https://cran.r-project.org/package=hagis Description: CRAN Package 'hagis' (Analysis of Plant Pathogen Pathotype Complexities, Distributionsand Diversity) Analysis of plant pathogen pathotype survey data. Functions provided calculate distribution of susceptibilities, distribution of complexities with statistics, pathotype frequency distribution, as well as diversity indices for pathotypes. This package is meant to be a direct replacement for Herrmann, Löwer and Schachtel's (1999) Habgood-Gilmour Spreadsheet, 'HaGiS', previously used for pathotype analysis. Package: r-cran-hakaiapi Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-httr2, r-cran-r6, r-cran-readr, r-cran-tibble Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hakaiapi_1.0.3-1.ca2004.1_all.deb Size: 64208 MD5sum: e70863ef50b22baaac327da0e68f9070 SHA1: d65cfa01a2ae52101d75194e4aaaa7e7d70d02ee SHA256: 69fc9b4af21b0229c8b153b7debbf9f38455e38dfe4cdcd552fd8d7d7bd52acd SHA512: e0fb28d5025483c96b37be86aec255cb56afb5aa4fb559c1ed508b4a8ff6968c8241b348bf7ba5e204b8b1062c57f7280cc31ed5d97251ea4badfe5269b725a2 Homepage: https://cran.r-project.org/package=hakaiApi Description: CRAN Package 'hakaiApi' (Authenticated HTTP Request Client for the 'Hakai' API) Initializes a class that obtains API credentials and provides a method to use those credentials to make GET requests to the 'Hakai' API server. Usage instructions are documented at . Package: r-cran-haldensify Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tibble, r-cran-ggplot2, r-cran-data.table, r-cran-matrixstats, r-cran-future.apply, r-cran-assertthat, r-cran-hal9001, r-cran-origami, r-cran-rsample, r-cran-rlang, r-cran-scales, r-cran-rdpack Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-covr, r-cran-future Filename: pool/dists/focal/main/r-cran-haldensify_0.2.3-1.ca2004.1_all.deb Size: 156604 MD5sum: a5243df8c9b97fd7948202d596d651d2 SHA1: 39d35dab0b0a49f6afd6ae289106d9229a84620d SHA256: 1a4dc520a4c110d625b182f32f87b8f992ca5da7eae3143bd2bf066b8585f655 SHA512: 4be7931b5c3c7f986213310e34f7f278102c10c941bcb39ebbb4da065c43a5be3355383e42af2f3694c5072e34d5a1b8e499394412aef2e2599885709fddaf9b Homepage: https://cran.r-project.org/package=haldensify Description: CRAN Package 'haldensify' (Highly Adaptive Lasso Conditional Density Estimation) An algorithm for flexible conditional density estimation based on application of pooled hazard regression to an artificial repeated measures dataset constructed by discretizing the support of the outcome variable. To facilitate non/semi-parametric estimation of the conditional density, the highly adaptive lasso, a nonparametric regression function shown to reliably estimate a large class of functions at a fast convergence rate, is utilized. The pooled hazards data augmentation formulation implemented was first described by Díaz and van der Laan (2011) . To complement the conditional density estimation utilities, tools for efficient nonparametric inverse probability weighted (IPW) estimation of the causal effects of stochastic shift interventions (modified treatment policies), directly utilizing the density estimation technique for construction of the generalized propensity score, are provided. These IPW estimators utilize undersmoothing (sieve estimation) of the conditional density estimators in order to achieve the non/semi-parametric efficiency bound. Package: r-cran-halfcircle Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 278 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-halfcircle_0.1.0-1.ca2004.1_all.deb Size: 247856 MD5sum: 8f2147bbef4acaa5651e6377f603d771 SHA1: b3dc827686b506fd7939a3f17505ff783a43088d SHA256: d2f6ad5117f600dc814f2f7b930f1a709be441602382b0de5e80fb8e6468f7af SHA512: dc24908cee5f8ff5efe5f33bc171bad2b8090c10a1a5a6224fe34f6f9acd2ef1bcfb98d04b4b7eb6645f6c9ccd9fb03d16cbb6c23a01c75bd09fdc0ad5248a35 Homepage: https://cran.r-project.org/package=halfcircle Description: CRAN Package 'halfcircle' (Plot Halfcircle Diagram) There are growing concerns on flow data in diverse fields including trade, migration, knowledge diffusion, disease spread, and transportation. The package is an effective visual support to learn the pattern of flow which is called halfcircle diagram. The flow between two nodes placed on the center line of a circle is represented using a half circle drawn from the origin to the destination in a clockwise direction. Through changing the order of nodes, the halfcircle diagram enables users to examine the complex relationship between bidirectional flow and each potential determinants. Furthermore, the halfmeancenter function, which calculates (un) weighted mean center of half circles, makes the comparison easier. Package: r-cran-halfmoon Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 478 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-ggplot2, r-cran-tidyselect, r-cran-tidysmd Suggests: r-cran-covr, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-halfmoon_0.1.0-1.ca2004.1_all.deb Size: 414904 MD5sum: 343c5a794f68185ae2fe6384468083e0 SHA1: 062d50283ae6ae4742257da60c247a98ef78c2f5 SHA256: db007fe56f81071d877a7759a6b2720dd539dc3fcf540eadb34869c9e532526e SHA512: ec5a31f0f4b68960ace0dc995fafa00a66797a91fd5cc3d2760115609bba924106daba9d8168c8107487df46cb3febedf31f7397f10e1c5ffd4452d3e9f41379 Homepage: https://cran.r-project.org/package=halfmoon Description: CRAN Package 'halfmoon' (Techniques to Build Better Balance) Build better balance in causal inference models. 'halfmoon' helps you assess propensity score models for balance between groups using metrics like standardized mean differences and visualization techniques like mirrored histograms. 'halfmoon' supports both weighting and matching techniques. Package: r-cran-halk Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 279 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rlang, r-cran-tibble, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-tidyselect, r-cran-magrittr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-halk_0.0.5-1.ca2004.1_all.deb Size: 210904 MD5sum: cba2339be7fb239cac4baba49d584d81 SHA1: e944417e648c48ac41e923125a70942237e1a833 SHA256: 9f8af9c202a40054a4709c7c92293af5d8ed8ed682df8ceedb7831866b198943 SHA512: 1692000b75b00c28069970ccb5168b6a671e94e4c18af5a50fa8658408c1ef3b287b19df20cf4f127ffdb3db4a7c02aafa1295cb1e89ef8a8a2efc805e4a8cb5 Homepage: https://cran.r-project.org/package=halk Description: CRAN Package 'halk' (Methods to Create Hierarchical Age Length Keys for AgeAssignment) Provides methods for implementing hierarchical age length keys to estimate fish ages from lengths using data borrowing. Users can create hierarchical age length keys and use them to assign ages given length. 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French et al. (2006) . 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Package: r-cran-haplotyper Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-haplotyper_0.1-1.ca2004.1_all.deb Size: 45236 MD5sum: 367b9c7737ab9631b9c9ad4143f6ef21 SHA1: 07e44b12a844d9204d4abf8f9d6845a25547dc03 SHA256: 5a4042efee5ebdbbc55a4ee5b5821639e0ea59738df38a7b1ee6f138346284d4 SHA512: 56f413180b802be409e4b229666db0790c19239be384883cc95ceb3f829a66516a7c51873c7819b3fb26101b977cceb24831a4781fe8b0622c0ff92ad660943c Homepage: https://cran.r-project.org/package=haplotyper Description: CRAN Package 'haplotyper' (Tool for Clustering Genotypes in Haplotypes) Function to identify haplotypes within QTL (Quantitative Trait Loci). One haplotype is a combination of SNP (Single Nucleotide Polymorphisms) within the QTL. This function groups together all individuals of a population with the same haplotype. Each group contains individual with the same allele in each SNP, whether or not missing data. Thus, haplotyper groups individuals, that to be imputed, have a non-zero probability of having the same alleles in the entire sequence of SNP's. Moreover, haplotyper calculates such probability from relative frequencies. Package: r-cran-haplotypes Architecture: all Version: 1.1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 873 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-network, r-cran-sna, r-cran-ape, r-cran-phangorn, r-cran-plotrix Filename: pool/dists/focal/main/r-cran-haplotypes_1.1.3.1-1.ca2004.1_all.deb Size: 553156 MD5sum: 188bcc30f74d552d09b069c20f5ac0b7 SHA1: 92ed9c5af1722fa3ee9ecdd2bc66e860e7942b0b SHA256: 6f1d4aff94946cc1a3dc4eaa62d269999dc782604b65e1ca6ba1ed4f80efaa25 SHA512: 510d6b107f2beaff6b49d0effd59838f24b937e5ccfeeea627edf1116e2d28974e1048dfcdb46e24b44516d17a488ebd823990b986e658a9b6b2603186b5abde Homepage: https://cran.r-project.org/package=haplotypes Description: CRAN Package 'haplotypes' (Manipulating DNA Sequences and Estimating Unambiguous HaplotypeNetwork with Statistical Parsimony) Provides S4 classes and methods for reading and manipulating aligned DNA sequences, supporting an indel coding methods (only simple indel coding method is available in the current version), showing base substitutions and indels, calculating absolute pairwise distances between DNA sequences, and collapses identical DNA sequences into haplotypes or inferring haplotypes using user provided absolute pairwise character difference matrix. This package also includes S4 classes and methods for estimating genealogical relationships among haplotypes using statistical parsimony and plotting parsimony networks. Package: r-cran-happign Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1022 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-archive, r-cran-dplyr, r-cran-jsonlite, r-cran-httr2, r-cran-sf, r-cran-terra, r-cran-xml2, r-cran-yyjsonr Suggests: r-cran-covr, r-cran-ggplot2, r-cran-httptest2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tmap Filename: pool/dists/focal/main/r-cran-happign_0.3.3-1.ca2004.1_all.deb Size: 802376 MD5sum: 0b8f7b448aa936d5f6e55856a04de337 SHA1: 20a2edca5d8061334ba1e09d72dcd9934df5cb61 SHA256: 49c88481ec49a6f73ddca864bd26cfb2c1e7e3d794c237d5b6bf07725d123fc7 SHA512: 8a8359f6ba3b2a0bd9fd3db0127b9826aebcd7240783102aa3206597270ff5e36551a03216ff121ec15515aa587a8849843b12d04c292209aa7a8961b7e61fa3 Homepage: https://cran.r-project.org/package=happign Description: CRAN Package 'happign' (R Interface to 'IGN' Web Services) Automatic open data acquisition from resources of IGN ('Institut National de Information Geographique et forestiere') (). Available datasets include various types of raster and vector data, such as digital elevation models, state borders, spatial databases, cadastral parcels, and more. There also access to point clouds data ('LIDAR') and specifics API (). Package: r-cran-happytime Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-happytime_0.1.0-1.ca2004.1_all.deb Size: 28040 MD5sum: e8914c3d05ec51b50d4c807387e06382 SHA1: 13365267fca21b1e16e72fcb23cbcba1aa839b53 SHA256: 0fc0455a31f211d57d85255f9cd6c521378d69a9ce7448012e6f33c3a5337531 SHA512: 0d3df55c3a59cec01549f30c9fc128eb4188f782a991221ccb362dd3ac468a72309ef8f278924f0b4435da36d4ed8ee86207779e0a68a7b1349365d4da96611e Homepage: https://cran.r-project.org/package=happytime Description: CRAN Package 'happytime' (Two Games to Relieve the Boredom) There are two interesting games in this package, one is 2048 games(for windows), using up and down to control the direction until there is a 2048 figure. And the other is 'what to eat today',preparing for people who choose difficulties, including most of the delicious Cantonese cuisine. Package: r-cran-harbinger Architecture: all Version: 1.2.727-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 472 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tspredit, r-cran-changepoint, r-cran-daltoolbox, r-cran-forecast, r-cran-ggplot2, r-cran-hht, r-cran-rcpphungarian, r-cran-dplyr, r-cran-dtwclust, r-cran-rugarch, r-cran-stringr, r-cran-strucchange, r-cran-tsmp, r-cran-wavelets, r-cran-zoo Filename: pool/dists/focal/main/r-cran-harbinger_1.2.727-1.ca2004.1_all.deb Size: 388104 MD5sum: 804753ccba0985288fe58cbcddb9786e SHA1: d89c53af0cc1156fd0d8d93bd76ab0597e0b1957 SHA256: 938eafaf3ea361ed5be52c51ef54033bac722b749cb41e6f1f6f353cca6d037f SHA512: a97affa3defb2faf9a44b3971f8127b4f4d1738ad3e7c7c99702ac8d98a05226a8724ef181296887f7f80943307ba84d674ffb69d7fe2c9ba73a86557548b400 Homepage: https://cran.r-project.org/package=harbinger Description: CRAN Package 'harbinger' (A Unified Time Series Event Detection Framework) By analyzing time series, it is possible to observe significant changes in the behavior of observations that frequently characterize events. Events present themselves as anomalies, change points, or motifs. In the literature, there are several methods for detecting events. However, searching for a suitable time series method is a complex task, especially considering that the nature of events is often unknown. This work presents Harbinger, a framework for integrating and analyzing event detection methods. Harbinger contains several state-of-the-art methods described in Salles et al. (2020) . Package: r-cran-hardhat Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1224 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-rlang, r-cran-sparsevctrs, r-cran-tibble, r-cran-vctrs Suggests: r-cran-covr, r-cran-crayon, r-cran-devtools, r-cran-knitr, r-cran-matrix, r-cran-modeldata, r-cran-recipes, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat, r-cran-usethis, r-cran-withr Filename: pool/dists/focal/main/r-cran-hardhat_1.4.1-1.ca2004.1_all.deb Size: 823744 MD5sum: 50dc884dee58c9ff09af657f1fe5fa30 SHA1: 341eeeb3c3dbb7225bafccb23ce134be868e95b1 SHA256: de061e66215a37d1c7d7e0a4b2b7a16f2bebf31c5523c5c6435d4b036560bad3 SHA512: 40018a11d41160d3c90aea4575ef1ea030e23e9450bc4aeb197ddcb3a8746cb793b703ba466f67a2a024c6ed6f308c9a25520cc83f1eaa3b9ae826fa98c02a33 Homepage: https://cran.r-project.org/package=hardhat Description: CRAN Package 'hardhat' (Construct Modeling Packages) Building modeling packages is hard. A large amount of effort generally goes into providing an implementation for a new method that is efficient, fast, and correct, but often less emphasis is put on the user interface. A good interface requires specialized knowledge about S3 methods and formulas, which the average package developer might not have. The goal of 'hardhat' is to reduce the burden around building new modeling packages by providing functionality for preprocessing, predicting, and validating input. Package: r-cran-harmonicmeanp Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1437 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fmstable Suggests: r-cran-knitr, r-cran-ape, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-harmonicmeanp_3.0.1-1.ca2004.1_all.deb Size: 513428 MD5sum: 4d996799a9a990f0bac18f340ab05df3 SHA1: 6dabcf34f78fabe589cf1c5f37bf65950714f652 SHA256: 47fa5b97e20346ccd15b31ff60a95f7051c5675545f24544307d76432513d0b5 SHA512: 8a20152035879859d3c3594599c631b61b92d62c319a860e3d978edc3267517d15c00b4c7cec1bad9903d9770f6b69766ec9f524269bccbbfcbea0abe9da9b46 Homepage: https://cran.r-project.org/package=harmonicmeanp Description: CRAN Package 'harmonicmeanp' (Harmonic Mean p-Values and Model Averaging by Mean MaximumLikelihood) The harmonic mean p-value (HMP) test combines p-values and corrects for multiple testing while controlling the strong-sense family-wise error rate. It is more powerful than common alternatives including Bonferroni and Simes procedures when combining large proportions of all the p-values, at the cost of slightly lower power when combining small proportions of all the p-values. It is more stringent than controlling the false discovery rate, and possesses theoretical robustness to positive correlations between tests and unequal weights. It is a multi-level test in the sense that a superset of one or more significant tests is certain to be significant and conversely when the superset is non-significant, the constituent tests are certain to be non-significant. It is based on MAMML (model averaging by mean maximum likelihood), a frequentist analogue to Bayesian model averaging, and is theoretically grounded in generalized central limit theorem. For detailed examples type vignette("harmonicmeanp") after installation. Version 3.0 addresses errors in versions 1.0 and 2.0 that led function p.hmp to control the familywise error rate only in the weak sense, rather than the strong sense as intended. Package: r-cran-harmonicregression Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 365 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-harmonicregression_1.0-1.ca2004.1_all.deb Size: 333836 MD5sum: fd66be315192216ebae307f1701bae6d SHA1: 878d031ed1cdf4ea3fcd49d9dcc579ea90cffd23 SHA256: 0197f5789279b0f60e4c03a00358c667bc425bbda00af2379613ed799d3c3d4a SHA512: b29dedff3a4153b1849dbd4920328d3e9eb83f2621bf1c4a4445089d6104ac00846c088fa48f25bd5603218c99575bbd6bf57580fc82f089ef9d03ece94c1bfb Homepage: https://cran.r-project.org/package=HarmonicRegression Description: CRAN Package 'HarmonicRegression' (Harmonic Regression to One or more Time Series) Fits the first harmonics in a Fourier expansion to one or more time series. Trend elimination can be performed. Computed values include estimates of amplitudes and phases, as well as confidence intervals and p-values for the null hypothesis of Gaussian noise. Package: r-cran-harmonizer Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3328 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-harmonizer_0.3.2-1.ca2004.1_all.deb Size: 1640820 MD5sum: e9721bc5cb6edfa167fb82a872f71e30 SHA1: d85ed5f3a3de05d67d42a3ec5b65c60b18c835ed SHA256: 1eb9da535ff0cab080543e16e760ce080848e93ff11a5b5324729d52c45259c6 SHA512: 8f69bcbc392868cd249d0e5ed243310edbf6c74c90c669a37704fa650fac348a074f2ad4783254d8665642b30009044187184f8149440cf965ce678db8c1e614 Homepage: https://cran.r-project.org/package=harmonizer Description: CRAN Package 'harmonizer' (Harmonizing CN8 and PC8 Product Codes) Several functions are provided to harmonize CN8 (Combined Nomenclature 8 digits) and PC8 (Production Communautaire 8 digits) product codes over time and the classification systems HS6 and BEC. Harmonization of CN8 codes are possible by default from 1995 to 2022 and of PC8 from 2001 to 2021, respectively. Package: r-cran-harmonydata Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-uuid, r-cran-base64enc, r-cran-jsonlite, r-cran-assertthat, r-cran-purrr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-harmonydata_0.3.1-1.ca2004.1_all.deb Size: 34928 MD5sum: 09abd922269652428bdf6151d8af39f5 SHA1: 7b185b3abf841e9a43f38fab3c2a832ac0ec05da SHA256: feec41f4bebe681c0830de4534c7ca5a4e79b0ee224afe065202d2b7112e1277 SHA512: 5a9fb9ed1e7898f213a99f77b98106bb4861161bd62990a7180dec5a657d0b9ea6d6fa008873972a121bc7006dfa51746a4f92fa273cd4a507f694fe90c6b8ad Homepage: https://cran.r-project.org/package=harmonydata Description: CRAN Package 'harmonydata' (R Library for 'Harmony') 'Harmony' is a tool using AI which allows you to compare items from questionnaires and identify similar content. You can try 'Harmony' at and you can read our blog at or at . Documentation at . Package: r-cran-harplus Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2549 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openxlsx, r-cran-haven, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-harplus_1.0.1-1.ca2004.1_all.deb Size: 401376 MD5sum: 6aa00859634f369453508dea24360eed SHA1: bd3a0aca9177aa99c355554c5e4fc2bd4a1f5324 SHA256: 14b5c9160af911c0ff96d2f3c37f4dd4412af1efcfbb9aeb1ed94b57b284670a SHA512: 4713093ca0ce2100b0dc5aa869273d89a5f4e5c5b3465461b7c9e06bc0def2aa961ef39f00cf989dde0351f84950d4af142c076155fe7b3288c8cc1794c370b9 Homepage: https://cran.r-project.org/package=HARplus Description: CRAN Package 'HARplus' (Enhanced R Package for 'GEMPACK' .har and .sl4 Files) Provides tools for processing and analyzing .har and .sl4 files, making it easier for 'GEMPACK' users and 'GTAP' researchers to handle large economic datasets. It simplifies the management of multiple experiment results, enabling faster and more efficient comparisons without complexity. Users can extract, restructure, and merge data seamlessly, ensuring compatibility across different tools. The processed data can be exported and used in 'R', 'Stata', 'Python', 'Julia', or any software that supports Text, CSV, or 'Excel' formats. Package: r-cran-harrietr Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 779 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-bioc-ggtree, r-cran-magrittr, r-cran-dplyr, r-cran-tidyr, r-cran-rlang Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-harrietr_0.2.3-1.ca2004.1_all.deb Size: 364840 MD5sum: 284221e82f5d9215c3d29059da003c7b SHA1: e991846bdd9e4e04957bf63f5cee8a055c504820 SHA256: 6a016f86d74bd35fc0e86b6e81ae6eadd2549b34dff0154ee7a646dd520d994b SHA512: 5f9a9a9482cc27216b554e86a08b8e9da03f88d0d7262363267b0d910f53fce1da84375dcb52a87c936c9f1bc3c27fb62ba3585cb90070fd4584cd07fcd976a3 Homepage: https://cran.r-project.org/package=harrietr Description: CRAN Package 'harrietr' (Wrangle Phylogenetic Distance Matrices and Other Utilities) Harriet was Charles Darwin's pet tortoise (possibly). 'harrietr' implements some function to manipulate distance matrices and phylogenetic trees to make it easier to plot with 'ggplot2' and to manipulate using 'tidyverse' tools. Package: r-cran-harrypotter Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 348 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-hexbin, r-cran-testthat Filename: pool/dists/focal/main/r-cran-harrypotter_2.1.1-1.ca2004.1_all.deb Size: 215848 MD5sum: 3db289c79e85c443f64a637391e0d9df SHA1: d9bbb8bb96d59738d44222910da54b02939209a1 SHA256: 77d9a39d978ffdf22622f188e84c00067dc8f5373ff848aa58c96e6ae9b97a70 SHA512: cbe614e64713cbeb2907055e3289aa5cbd95e6358c2683b1aaf8504de842944330e3aabdea5abb9897ad0fdff98e9be4f14ecad508b5b1bd0c77a30a6fb69ff2 Homepage: https://cran.r-project.org/package=harrypotter Description: CRAN Package 'harrypotter' (Palettes Generated from All "Harry Potter" Movies) Implementation of characteristic palettes inspired in the Wizarding World and the Harry Potter movie franchise. Package: r-cran-hartools Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1648 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertthat, r-cran-magrittr, r-cran-jsonlite, r-cran-htmlwidgets, r-cran-htmltools Suggests: r-cran-testthat, r-cran-covr, r-cran-httr, r-cran-shiny, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hartools_0.0.5-1.ca2004.1_all.deb Size: 227908 MD5sum: f8d544ea855604c82feb47b4f1040bfb SHA1: 3d2713fe49faa368ca53589e3933c31821163793 SHA256: 2ba38b28cf0fae1627281eb33a01a2dea7d0d4b98b795d9de47017752a97a0ad SHA512: 8e1f68b64aa2a0e9ecf9dab8ce6804c1187093394b5a6f557a3ca4a6918902fd6b964aa85ec22c64418b2d6f405e936ed0db33971d1adfb4b6b5821c96b7f778 Homepage: https://cran.r-project.org/package=HARtools Description: CRAN Package 'HARtools' (Read HTTP Archive ('HAR') Data) The goal of 'HARtools' is to provide a simple set of functions to read/parse, write and visualise HTTP Archive ('HAR') files in R. Package: r-cran-harvest.tree Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rpart Filename: pool/dists/focal/main/r-cran-harvest.tree_1.1-1.ca2004.1_all.deb Size: 63952 MD5sum: 5cdedc848dc1092fc3da677f5c7c40fe SHA1: 8436288c46246a3b769c3df0a752feb91e9e9667 SHA256: 73c01d40071c6fdf187ba082333d816a3d7c336d6fae34b3e86114dda60d532a SHA512: 0da9b31373670d31d0f0aea6771e2e4ecf599a5b347e6faf5b0b790ac8d6dd6d1dd44dbb00bbcff8af89b63cb63af499fec12213a59cec9cf16c8a467b50e632 Homepage: https://cran.r-project.org/package=Harvest.Tree Description: CRAN Package 'Harvest.Tree' (Harvest the Classification Tree) Aimed at applying the Harvest classification tree algorithm, modified algorithm of classic classification tree.The harvested tree has advantage of deleting redundant rules in trees, leading to a simplify and more efficient tree model.It was firstly used in drug discovery field, but it also performs well in other kinds of data, especially when the region of a class is disconnected. 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Package: r-cran-hashids Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hashids_0.9.0-1.ca2004.1_all.deb Size: 42528 MD5sum: ed2aaa8b756ff12e41a047ff99b20970 SHA1: e59197b8c72edf884e47534ef4804641bccc25ee SHA256: a79f5c7e00e6a6c78d38986da9e0551bf77a950a9830d28b16e5d8f43dd93517 SHA512: a8c2ff1c362d80e0d4a9aab59c2fa850044e1bfeab1aad4c5ef32543cc2de91744785d4d00c178faf09ee8a14204d75dc4756e202c1622d049d16ff553debfce Homepage: https://cran.r-project.org/package=hashids Description: CRAN Package 'hashids' (Generate Short Unique YouTube-Like IDs (Hashes) from Integers) An R port of the hashids library. hashids generates YouTube-like hashes from integers or vector of integers. 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Package: r-cran-hassani.sacf Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hassani.sacf_2.0-1.ca2004.1_all.deb Size: 15528 MD5sum: 75155801e3b202769f0f656401bb9a42 SHA1: 3a7fec656ffac731ce480fe4ea88ba34943a8340 SHA256: 5c64ee441b764220409cd06e0916238cc3f4eb718d116ef94c36b752d6202272 SHA512: fc8212ce3f9e12e384dac4c84e9c5acb2184fa36dac4effb7ab76d9bac1d0d2839e94915294c9a78e6198b1e15e62a03c35315f53bd9f5f374714d27b28b423d Homepage: https://cran.r-project.org/package=Hassani.SACF Description: CRAN Package 'Hassani.SACF' (Computing Lower Bound of Ljung-Box Test) The Ljung-Box test is one of the most important tests for time series diagnostics and model selection. The Hassani SACF (Sum of the Sample Autocorrelation Function) Theorem , however, indicates that the sum of sample autocorrelation function is always fix for any stationary time series with arbitrary length. This package confirms for sensitivity of the Ljung-Box test to the number of lags involved in the test and therefore it should be used with extra caution. The Hassani SACF Theorem has been described in : Hassani, Yeganegi and M. R. (2019) . 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Package: r-cran-hazus Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2 Suggests: r-cran-ggplot2, r-cran-knitr Filename: pool/dists/focal/main/r-cran-hazus_0.1-1.ca2004.1_all.deb Size: 116912 MD5sum: edeae0d7d518bc913cb381c2c475c19c SHA1: 101580e3a2738539668a300708e450ef32310c04 SHA256: aba92677f99efc0bf499821d26dea866855d8bf15f1be8d729440451373bd822 SHA512: 39801ef62b6159a747f8a8fc125f4f05304b77e3b6eb39ef8b04bc928c4117a0e18abd722e1b88008d60e2eb2cf874ad2c3d3462bf23d8aefd5dd0dee7a1b354 Homepage: https://cran.r-project.org/package=hazus Description: CRAN Package 'hazus' (Damage functions from FEMA's HAZUS software for use in modelingfinancial losses from natural disasters) Damage Functions (DFs), also known as Vulnerability Functions, associate the physical damage to a building or a structure (and also its contents and inventory) from natural disasters to financial damage. 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Package: r-cran-hcc Architecture: all Version: 0.54-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hcc_0.54-1.ca2004.1_all.deb Size: 51616 MD5sum: fe10099a9c2c35eba6df64d73b958983 SHA1: 48805b4cfdc2713a7346efa28f1cb92238b94a42 SHA256: 435f82a72a07f1464c1fb9b2407fef59d475aed688641f4fb5dafa7564a73b4e SHA512: 904822e81bf3fd71e79afd6f517ebb26d67d1534cf8c4ba47d8d439d0293ffb169ac798d73e9614f8281ae3f41ad3e25b9fd6a58da207c64e23ceb9270d949de Homepage: https://cran.r-project.org/package=hcc Description: CRAN Package 'hcc' (Hidden correlation check) A new diagnostic check for model adequacy in regression and generalized linear models is implemented. 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It is also possible to calculate confidence intervals using the percentile bootstrap and percentile bootstrap double. The package can calculate consistent estimates of the covariance matrix of the parameters of linear regression models with heteroscedasticity of unknown form. The package also provides a function to consistently calculate the covariance matrix of the parameters of linear models with heteroscedasticity of unknown form. The bootstrap methods exported by the package are based on the master's thesis of the first author, available at . The hcci package in previous versions was cited in the book VINOD, Hrishikesh D. Hands-on Intermediate Econometrics Using R: Templates for Learning Quantitative Methods and R Software. 2022, p. 441, ISBN 978-981-125-617-2 (hardcover). The simple bootstrap schemes are based on the works of Cribari-Neto F and Lima M. G. (2009) , while the double bootstrap schemes for the parameters that index the linear models with heteroscedasticity of unknown form are based on the works of Beran (1987) . The use of bootstrap for the calculation of interval estimates in regression models with heteroscedasticity of unknown form from a weighting of the residuals was proposed by Wu (1986) . This bootstrap scheme is known as weighted or wild bootstrap. 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With 'hdar', researchers and data scientists can integrate the extensive HDA datasets into their R workflows, enhancing their data analysis capabilities. Comprehensive information on the API functionality and usage is available at . 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We use a Bayesian adaptive lasso method to take care of the hierarchical structures and high dimensional exposures or mediators. Package: r-cran-hdbrr Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2906 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-numderiv, r-cran-bigstatsr, r-cran-mass Filename: pool/dists/focal/main/r-cran-hdbrr_1.1.4-1.ca2004.1_all.deb Size: 2518480 MD5sum: ab765ece5b2d5fc4b99a4509b7a638db SHA1: b684f9783f38c715c66d5c26a72d0eed54f48f74 SHA256: cf4edcc233a0965c9f0150fc6060b6121f5eea3c9a086a07aac4aa1e58245c3f SHA512: c974f12eb83901a23dff6bdac9e712056c84eb168489096186f4c9be931b93c27d3ae6963e7dfbf4d721ca87502d8e196673030b65cd0d7871dc1004ca218768 Homepage: https://cran.r-project.org/package=HDBRR Description: CRAN Package 'HDBRR' (High Dimensional Bayesian Ridge Regression without MCMC) Ridge regression provide biased estimators of the regression parameters with lower variance. The HDBRR ("High Dimensional Bayesian Ridge Regression") function fits Bayesian Ridge regression without MCMC, this one uses the SVD or QR decomposition for the posterior computation. Package: r-cran-hdcate Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 331 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-kernsmooth, r-cran-r6, r-cran-hdm, r-cran-locpol, r-cran-caret Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-xfun, r-cran-randomforest, r-cran-dplyr, r-cran-ggplot2, r-cran-ggthemes Filename: pool/dists/focal/main/r-cran-hdcate_0.1.0-1.ca2004.1_all.deb Size: 183576 MD5sum: 71cd6cc4db52e1080a21a384cce8bd61 SHA1: 74f16b83dbc1c535a5ff403c3b0fc9a6d489505c SHA256: 35f0ffb9c2c2d31ad2d653ca5d84277689180f235344442bb6c6adf39cab146e SHA512: 175c1e3f007072d552272769a411a8b186a08100d5fa8d2131d4cf4758067707e53d8ca5eb8e191ebccd74dc69a7d43d28d2a2e124c6ac4f8e2fb0c06edabedd Homepage: https://cran.r-project.org/package=hdcate Description: CRAN Package 'hdcate' (Estimation of Conditional Average Treatment Effects withHigh-Dimensional Data) A two-step double-robust method to estimate the conditional average treatment effects (CATE) with potentially high-dimensional covariate(s). In the first stage, the nuisance functions necessary for identifying CATE are estimated by machine learning methods, allowing the number of covariates to be comparable to or larger than the sample size. The second stage consists of a low-dimensional local linear regression, reducing CATE to a function of the covariate(s) of interest. The CATE estimator implemented in this package not only allows for high-dimensional data, but also has the “double robustness” property: either the model for the propensity score or the models for the conditional means of the potential outcomes are allowed to be misspecified (but not both). This package is based on the paper by Fan et al., "Estimation of Conditional Average Treatment Effects With High-Dimensional Data" (2022), Journal of Business & Economic Statistics . Package: r-cran-hdci Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-slam, r-cran-foreach, r-cran-iterators, r-cran-doparallel, r-cran-lattice, r-cran-matrix, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-hdci_1.0-2-1.ca2004.1_all.deb Size: 105012 MD5sum: 33242f1fd35c99ff66286055894dd06a SHA1: 402172b458c6345fc103d001bf231cf79e1c8ca5 SHA256: 64172b672e3566734add11be4854e4d58f041aa3b8eabcec129cf686a9ed21b4 SHA512: 06e495c65c471487e916fdebe998c8a4bc25f5affd3776c6e4bf3caab459e796aa6a8334fc6fe9bb3770a85ef1331c2d76159d15db79a20f8d44116f63c1b99a Homepage: https://cran.r-project.org/package=HDCI Description: CRAN Package 'HDCI' (High Dimensional Confidence Interval Based on Lasso andBootstrap) Fits regression models on high dimensional data to estimate coefficients and use bootstrap method to obtain confidence intervals. Choices for regression models are Lasso, Lasso+OLS, Lasso partial ridge, Lasso+OLS partial ridge. 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Concretely, circular and spherical HDRs can be reconstructed from a data sample following Saavedra-Nieves and Crujeiras (2021) . This library also contains two real datasets in the circular and spherical settings. The first one concerns a problem from animal orientation studies and the second one is related to earthquakes occurrences. Package: r-cran-hdivar Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lpsolve, r-cran-abind Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hdivar_1.0.2-1.ca2004.1_all.deb Size: 66240 MD5sum: 7ef7a772a2b6ae01fbaff6aff11457d3 SHA1: b11e969d49650870ce0399c685d4c472847f51e0 SHA256: 27597a42eb9ed34f908fc83f62b90f44489a14984ac3af5405bc32fd2b9bad4f SHA512: 92afecbf4b8ffcc6d3290bdfdcd863dc41b8feba573779c7f80ec6b5575f1bf62bdc414acdb580e79e6bc9a468fc50d477bcb0fe982a8488c824cd2d28f80d4c Homepage: https://cran.r-project.org/package=hdiVAR Description: CRAN Package 'hdiVAR' (Statistical Inference for Noisy Vector Autoregression) The model is high-dimensional vector autoregression with measurement error, also known as linear gaussian state-space model. Provable sparse expectation-maximization algorithm is provided for the estimation of transition matrix and noise variances. Global and simultaneous testings are implemented for transition matrix with false discovery rate control. For more information, see the accompanying paper: Lyu, X., Kang, J., & Li, L. (2023). "Statistical inference for high-dimensional vector autoregression with measurement error", Statistica Sinica. Package: r-cran-hdm Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1949 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-glmnet, r-cran-ggplot2, r-cran-checkmate, r-cran-formula Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-formatr, r-cran-xtable, r-cran-mvtnorm, r-cran-markdown Filename: pool/dists/focal/main/r-cran-hdm_0.3.2-1.ca2004.1_all.deb Size: 1679996 MD5sum: 6ceb5b2a2d6c16bf61a32edea6cd1ef4 SHA1: 61f2804b5c466e031c1669dced7b143bee7e4ae5 SHA256: b75ec7597d0a55fee7eee21d76721fbe5c16a15be43585a52416cbbfd4feea9d SHA512: 59d237a30bee91d62eca044084251718ada3a0f7e3dc7cfa62eaec089c4bd51e74992267cbb75690f26bb8ca7d0a82e763aae23c49923cee55e762031b94f8e7 Homepage: https://cran.r-project.org/package=hdm Description: CRAN Package 'hdm' (High-Dimensional Metrics) Implementation of selected high-dimensional statistical and econometric methods for estimation and inference. Efficient estimators and uniformly valid confidence intervals for various low-dimensional causal/ structural parameters are provided which appear in high-dimensional approximately sparse models. Including functions for fitting heteroscedastic robust Lasso regressions with non-Gaussian errors and for instrumental variable (IV) and treatment effect estimation in a high-dimensional setting. Moreover, the methods enable valid post-selection inference and rely on a theoretically grounded, data-driven choice of the penalty. Chernozhukov, Hansen, Spindler (2016) . Package: r-cran-hdmd Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-psych, r-cran-mass Suggests: r-cran-scatterplot3d Filename: pool/dists/focal/main/r-cran-hdmd_1.2-1.ca2004.1_all.deb Size: 106580 MD5sum: ab04a366b78bc862d7852987ae9234a3 SHA1: 5b56993a78c586cc02cc4a983b8a5a22eb0c117a SHA256: ae1cb3311caf7b515c498476202950370771402cbe391cf9847af1b9b698a07f SHA512: 32890c2883ff5df69b0bc3cb6b327b9e2b7d0e29d480b24fbe8f1c532bfff0212a6d497955b77fecc059f0cbf9a0bc8fea626137a1015940c214aaa484179ff5 Homepage: https://cran.r-project.org/package=HDMD Description: CRAN Package 'HDMD' (Statistical Analysis Tools for High Dimension Molecular Data(HDMD)) High Dimensional Molecular Data (HDMD) typically have many more variables or dimensions than observations or replicates (D>>N). This can cause many statistical procedures to fail, become intractable, or produce misleading results. This package provides several tools to reduce dimensionality and analyze biological data for meaningful interpretation of results. Factor Analysis (FA), Principal Components Analysis (PCA) and Discriminant Analysis (DA) are frequently used multivariate techniques. However, PCA methods prcomp and princomp do not reflect the proportion of total variation of each principal component. Loadings.variation displays the relative and cumulative contribution of variation for each component by accounting for all variability in data. When D>>N, the maximum likelihood method cannot be applied in FA and the the principal axes method must be used instead, as in factor.pa of the psych package. The factor.pa.ginv function in this package further allows for a singular covariance matrix by applying a general inverse method to estimate factor scores. Moreover, factor.pa.ginv removes and warns of any variables that are constant, which would otherwise create an invalid covariance matrix. Promax.only further allows users to define rotation parameters during factor estimation. Similar to the Euclidean distance, the Mahalanobis distance estimates the relationship among groups. pairwise.mahalanobis computes all such pairwise Mahalanobis distances among groups and is useful for quantifying the separation of groups in DA. Genetic sequences are composed of discrete alphabetic characters, which makes estimates of variability difficult. MolecularEntropy and MolecularMI calculate the entropy and mutual information to estimate variability and covariability, respectively, of DNA or Amino Acid sequences. Functional grouping of amino acids (Atchley et al 1999) is also available for entropy and mutual information estimation. Mutual information values can be normalized by NMI to account for the background distribution arising from the stochastic pairing of independent, random sites. Alternatively, discrete alphabetic sequences can be transformed into biologically informative metrics to be used in various multivariate procedures. FactorTransform converts amino acid sequences using the amino acid indices determined by Atchley et al 2005. Package: r-cran-hdmed Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 258 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bama, r-cran-foreach, r-cran-freebird, r-cran-gcdnet, r-cran-genlasso, r-cran-hdi, r-cran-iterators, r-cran-mass, r-cran-mediation, r-cran-ncvreg Filename: pool/dists/focal/main/r-cran-hdmed_1.0.1-1.ca2004.1_all.deb Size: 229096 MD5sum: 8df3d869525984156e618df77e63bdae SHA1: c9c4d2b311e006c9359256dda3e033216d462f46 SHA256: 4868d082bba967d17c40efb6131917f4eb661ba50e88ead0bec1c282bcd03d85 SHA512: 4b75cce0764759a5fb34fc7cb7cda9db784020a1b6f5a2cc93b46e4ad19e1facc9d6c2dfc0aa463c56e5ae919c2d5c5723f98374844667732cc7ccd45692b9d8 Homepage: https://cran.r-project.org/package=hdmed Description: CRAN Package 'hdmed' (Methods for Mediation Analysis with High-Dimensional Mediators) A suite of functions for performing mediation analysis with high-dimensional mediators. In addition to centralizing code from several existing packages for high-dimensional mediation analysis, we provide organized, well-documented functions for a handle of methods which, though programmed their original authors, have not previously been formalized into R packages or been made presentable for public use. The methods we include cover a broad array of approaches and objectives, and are described in detail by both our companion manuscript---"Methods for Mediation Analysis with High-Dimensional DNA Methylation Data: Possible Choices and Comparison"---and the original publications that proposed them. The specific methods offered by our package include the Bayesian sparse linear mixed model (BSLMM) by Song et al. (2019); high-dimensional mediation analysis (HDMA) by Gao et al. (2019); high-dimensional multivariate mediation (HDMM) by Chén et al. (2018); high-dimensional linear mediation analysis (HILMA) by Zhou et al. (2020); high-dimensional mediation analysis (HIMA) by Zhang et al. (2016); latent variable mediation analysis (LVMA) by Derkach et al. (2019); mediation by fixed-effect model (MedFix) by Zhang (2021); pathway LASSO by Zhao & Luo (2022); principal component mediation analysis (PCMA) by Huang & Pan (2016); and sparse principal component mediation analysis (SPCMA) by Zhao et al. (2020). Citations for the corresponding papers can be found in their respective functions. Package: r-cran-hdmfa Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-rspectra Filename: pool/dists/focal/main/r-cran-hdmfa_0.1.1-1.ca2004.1_all.deb Size: 69384 MD5sum: 6aee6cff35b8b00588b9a1aced24ba49 SHA1: 933ec1a3f5a19a66858c32912ed3e4ec9df728d8 SHA256: 755dd7f7af037b989e00a79c4f2d181ad2896582baf80398f86f4903d42eb17b SHA512: 3d079384c206089e4f49d97debf188dc8b1bc671c502e9501d12f9e2d15abbd0472f8c1822a38a0cfb965436a231e9b194cf3755f0a9f8398a7f904f90eac0d9 Homepage: https://cran.r-project.org/package=HDMFA Description: CRAN Package 'HDMFA' (High-Dimensional Matrix Factor Analysis) High-dimensional matrix factor models have drawn much attention in view of the fact that observations are usually well structured to be an array such as in macroeconomics and finance. In addition, data often exhibit heavy-tails and thus it is also important to develop robust procedures. We aim to address this issue by replacing the least square loss with Huber loss function. We propose two algorithms to do robust factor analysis by considering the Huber loss. One is based on minimizing the Huber loss of the idiosyncratic error's Frobenius norm, which leads to a weighted iterative projection approach to compute and learn the parameters and thereby named as Robust-Matrix-Factor-Analysis (RMFA), see the details in He et al. (2023). The other one is based on minimizing the element-wise Huber loss, which can be solved by an iterative Huber regression algorithm (IHR), see the details in He et al. (2023) . In this package, we also provide the algorithm for alpha-PCA by Chen & Fan (2021) , the Projected estimation (PE) method by Yu et al. (2022). In addition, the methods for determining the pair of factor numbers are also given. Package: r-cran-hdmt Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1886 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fdrtool, r-bioc-qvalue Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-hdmt_1.0.5-1.ca2004.1_all.deb Size: 1859560 MD5sum: c44f11b44ada4c1ba4adbcd845e59981 SHA1: 364dd9f87b4b0773c3c7d679158254d7c3de49e6 SHA256: 4deb969edaa0c0a40b6f75224ba9b6b2111172a0cbf817dcc1740ef91099a43d SHA512: 7ad296ec0d27fb9c86c4e2e8f9ae6a917aaf16dc99796c1c8babfa0260cd222020a158d135915595aaf23a52365dcac3f3887356b90dd9ca5c85e0c8c34b5d6a Homepage: https://cran.r-project.org/package=HDMT Description: CRAN Package 'HDMT' (A Multiple Testing Procedure for High-Dimensional MediationHypotheses) A multiple-testing procedure for high-dimensional mediation hypotheses. Mediation analysis is of rising interest in epidemiology and clinical trials. Among existing methods for mediation analyses, the popular joint significance (JS) test yields an overly conservative type I error rate and therefore low power. In the R package 'HDMT' we implement a multiple-testing procedure that accurately controls the family-wise error rate (FWER) and the false discovery rate (FDR) when using JS for testing high-dimensional mediation hypotheses. The core of our procedure is based on estimating the proportions of three component null hypotheses and deriving the corresponding mixture distribution of null p-values. Results of the data examples include better-behaved quantile-quantile plots and improved detection of novel mediation relationships on the role of DNA methylation in genetic regulation of gene expression. With increasing interest in mediation by molecular intermediaries such as gene expression, the proposed method addresses an unmet methodological challenge. Methods used in the package refer to James Y. Dai, Janet L. Stanford & Michael LeBlanc (2020) . Package: r-cran-hdmtd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 654 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-purrr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hdmtd_0.1.0-1.ca2004.1_all.deb Size: 524164 MD5sum: 3d3ee1e9f63c4e0c691b3080f6f989c9 SHA1: 1865d0382868548963614829e51f6b1207f9b0f7 SHA256: e3bb79433b56df959a19f72cd9ad6fbef25e71ba0423a723111dcb79623bc1ad SHA512: eb65b19a592f5a52ee9b054b63b23aab01a27ae1eb33d6ccd78dab1b09efaa5837bccc29782fec34abf2775c368aa92de76d7d0ef8279b62b2cdcb05f7563a6d Homepage: https://cran.r-project.org/package=hdMTD Description: CRAN Package 'hdMTD' (Inference for High-Dimensional Mixture Transition DistributionModels) Estimates parameters in Mixture Transition Distribution (MTD) models, a class of high-order Markov chains. The set of relevant pasts (lags) is selected using either the Bayesian Information Criterion or the Forward Stepwise and Cut algorithms. Other model parameters (e.g. transition probabilities and oscillations) can be estimated via maximum likelihood estimation or the Expectation-Maximization algorithm. Additionally, 'hdMTD' includes a perfect sampling algorithm that generates samples of an MTD model from its invariant distribution. For theory, see Ost & Takahashi (2023) . Package: r-cran-hdoutliers Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3531 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fnn, r-cran-factominer, r-cran-mclust Filename: pool/dists/focal/main/r-cran-hdoutliers_1.0.4-1.ca2004.1_all.deb Size: 2475200 MD5sum: 6da393c9e260498dcf69b75bfb17180d SHA1: c60e26f00278349faad47cba73ce43626f4bacf2 SHA256: 18f521363ec6c770ec1a8f478c44106bae4da44c73b02e4ef58a5d1195431e3a SHA512: 8575d9ea5c8b2e64089e3216157022f9003cc532ac264f7361aa0cfce6b29211870ada99f0d7339c4c061d3da36b48af47dbfd50d07333f61c81f6d0b7302fef Homepage: https://cran.r-project.org/package=HDoutliers Description: CRAN Package 'HDoutliers' (Leland Wilkinson's Algorithm for Detecting MultidimensionalOutliers) An implementation of an algorithm for outlier detection that can handle a) data with a mixed categorical and continuous variables, b) many columns of data, c) many rows of data, d) outliers that mask other outliers, and e) both unidimensional and multidimensional datasets. Unlike ad hoc methods found in many machine learning papers, HDoutliers is based on a distributional model that uses probabilities to determine outliers. Package: r-cran-hdpca Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve, r-cran-boot Filename: pool/dists/focal/main/r-cran-hdpca_1.1.5-1.ca2004.1_all.deb Size: 66244 MD5sum: 42f645443d0addc5f2a7a11afb384623 SHA1: 98ed84a3001ef1fc65b73d982c846988cb73920c SHA256: 746b4b9aa694bad3fa6cb30bb6bc355879469063f4697234f3320649ef0fead0 SHA512: f4187c2f3694ed1a86ef79fac73fb8f76e3e5d9d7026cb87e93d1b72d7e8fd669fd735363ac08c95375c32af6f2953daced82193e204a812de65f9725d9654b3 Homepage: https://cran.r-project.org/package=hdpca Description: CRAN Package 'hdpca' (Principal Component Analysis in High-Dimensional Data) In high-dimensional settings: Estimate the number of distant spikes based on the Generalized Spiked Population (GSP) model. Estimate the population eigenvalues, angles between the sample and population eigenvectors, correlations between the sample and population PC scores, and the asymptotic shrinkage factors. Adjust the shrinkage bias in the predicted PC scores. Dey, R. and Lee, S. (2019) . Package: r-cran-hdrfa Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quantreg, r-cran-pracma Filename: pool/dists/focal/main/r-cran-hdrfa_0.1.5-1.ca2004.1_all.deb Size: 53556 MD5sum: 339427ee70b8932f6d8b824339ae940a SHA1: 62f1a4e38fd8183719edae23a49e0fde9149d740 SHA256: 5b67f52e155a22f88ac161c53aa5856ae5242e312377dfba5f96d7a85a2aa730 SHA512: 2d00f57c3119b16b8c92e9984275e4c0f711898c39dd113698339178907592e3902daa23ef422ebc99b6c4ac270af592a593ffddd1ba6b587297524332ec2044 Homepage: https://cran.r-project.org/package=HDRFA Description: CRAN Package 'HDRFA' (High-Dimensional Robust Factor Analysis) Factor models have been widely applied in areas such as economics and finance, and the well-known heavy-tailedness of macroeconomic/financial data should be taken into account when conducting factor analysis. We propose two algorithms to do robust factor analysis by considering the Huber loss. One is based on minimizing the Huber loss of the idiosyncratic error's L2 norm, which turns out to do Principal Component Analysis (PCA) on the weighted sample covariance matrix and thereby named as Huber PCA. The other one is based on minimizing the element-wise Huber loss, which can be solved by an iterative Huber regression algorithm. In this package we also provide the code for traditional PCA, the Robust Two Step (RTS) method by He et al. (2022) and the Quantile Factor Analysis (QFA) method by Chen et al. (2021) and He et al. (2023). Package: r-cran-hds Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-tensor Filename: pool/dists/focal/main/r-cran-hds_0.8.1-1.ca2004.1_all.deb Size: 65852 MD5sum: e31a60da4756ba7aa08a174299b31d60 SHA1: 3494a9f41a5689a2850584c8eb3e41b75a0e6860 SHA256: 537ddb0b712fdb27f23b3677b4112aa7e9939f65abe22edfdec4a0b40c84bace SHA512: de5ede260cbd189985fc76563468b5581782aba904baa6d8e1200c7333ace8a313d2e7263066810d40347e16ffe59c165e7666472ae884a11d3b6dac0dcf2acd Homepage: https://cran.r-project.org/package=hds Description: CRAN Package 'hds' (Hazard Discrimination Summary) Functions for calculating the hazard discrimination summary and its standard errors, as described in Liang and Heagerty (2016) . Package: r-cran-hdshop Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1372 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rdpack, r-cran-lattice Suggests: r-cran-ggplot2, r-cran-testthat, r-cran-estimdiagnostics, r-cran-mass, r-cran-corpcor, r-cran-waldo Filename: pool/dists/focal/main/r-cran-hdshop_0.1.5-1.ca2004.1_all.deb Size: 1350332 MD5sum: 3a31a18026265ba7c21e1b67573de263 SHA1: d93428baf2310aa05160e0c83b0fb5d4d94535ff SHA256: 27685fa90ac2fdda45d9042044fea580ee2d0f1bd8dfa3bdcf52f80ecbd7cfe6 SHA512: 3e5037631ce95bf9919dfea98f9392bb0f2626bb11d5caa4ad29717ffc5e6cc2a6e7779b325522e3262f031028ac539fbba3e52d0e1d63c166f431649f93cc15 Homepage: https://cran.r-project.org/package=HDShOP Description: CRAN Package 'HDShOP' (High-Dimensional Shrinkage Optimal Portfolios) Constructs shrinkage estimators of high-dimensional mean-variance portfolios and performs high-dimensional tests on optimality of a given portfolio. The techniques developed in Bodnar et al. (2018 , 2019 , 2020 , 2021 ) are central to the package. They provide simple and feasible estimators and tests for optimal portfolio weights, which are applicable for 'large p and large n' situations where p is the portfolio dimension (number of stocks) and n is the sample size. The package also includes tools for constructing portfolios based on shrinkage estimators of the mean vector and covariance matrix as well as a new Bayesian estimator for the Markowitz efficient frontier recently developed by Bauder et al. (2021) . Package: r-cran-hdsinrdata Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1526 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hdsinrdata_0.1.3-1.ca2004.1_all.deb Size: 1522196 MD5sum: eda82237fe2ffeed81de5e955180d0f9 SHA1: 66cbaf944f456212f04f8e6d0fce73d4f88931d3 SHA256: 4d2b1aab814c9ccf043d8f67816288565dc0550f2e67d84aafb518f6515d27ba SHA512: 7a792392ae0dabdabfbaf13b0dd7acbd84362cf5e77ae7d60548087fef561964d23ac0e02d5b8303dc5d1d71a64fccc3ec4cd89f5f6750104e7a86665de4187d Homepage: https://cran.r-project.org/package=HDSinRdata Description: CRAN Package 'HDSinRdata' (Data for the 'Mastering Health Data Science Using R' OnlineTextbook) Contains ten datasets used in the chapters and exercises of Paul, Alice (2023) "Health Data Science in R" . Package: r-cran-hdstim Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1007 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-tibble, r-cran-ggplot2, r-cran-uwot, r-cran-dplyr, r-cran-tidyr, r-cran-broom, r-cran-tidyselect, r-cran-ggridges, r-cran-boruta, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hdstim_0.1.0-1.ca2004.1_all.deb Size: 860948 MD5sum: 3b21eeca0955d216226105d244213a45 SHA1: a573ff6fbc75c94714a1fd9e7430070bf4886837 SHA256: 030943b4ffecd4394b90db3d0c584d3786e676dbff30d199f928c047bf7ceb96 SHA512: 10e8880c78c598c7e6cabf6487c1bd320051f9350d6057c008f80c583b76df1737a3d1c8c4ea7861c8ded3e7b809b084d1d99f4198bcb25ea62dae4ba7a5d102 Homepage: https://cran.r-project.org/package=HDStIM Description: CRAN Package 'HDStIM' (High Dimensional Stimulation Immune Mapping ('HDStIM')) A method for identifying responses to experimental stimulation in mass or flow cytometry that uses high dimensional analysis of measured parameters and can be performed with an end-to-end unsupervised approach. In the context of in vitro stimulation assays where high-parameter cytometry was used to monitor intracellular response markers, using cell populations annotated either through automated clustering or manual gating for a combined set of stimulated and unstimulated samples, 'HDStIM' labels cells as responding or non-responding. The package also provides auxiliary functions to rank intracellular markers based on their contribution to identifying responses and generating diagnostic plots. Package: r-cran-hdthreshold Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fdrtool, r-cran-kernsmooth, r-cran-rdrobust Filename: pool/dists/focal/main/r-cran-hdthreshold_1.0.0-1.ca2004.1_all.deb Size: 104372 MD5sum: 77ee38100fda835af71cc70bb6a5c143 SHA1: 981672ebb530464b4cf274b94d96ab75fb64d2e5 SHA256: 642222557cc63dbf7405154582a8b0d8fb22c01b9dcaddbf7a612018b4160ac3 SHA512: d0c7b2466fb6cd661a0d210f103fcf9609bca0e0f15f425fddcd1a04bcbd7e839a23572c01791d3291bd74b72764eb96b33786d048399faf3c417daec03e8aa6 Homepage: https://cran.r-project.org/package=hdthreshold Description: CRAN Package 'hdthreshold' (Inference on Many Jumps in Nonparametric Panel Regression Models) Provides uniform testing procedures for existence and heterogeneity of threshold effects in high-dimensional nonparametric panel regression models. The package accompanies the paper Chen, Keilbar, Su and Wang (2023) "Inference on many jumps in nonparametric panel regression models". arXiv preprint . 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It provides a pipeline for analyzing data from 'HDXExaminer' (Sierra Analytics, Trajan Scientific), automating matching and comparison of protein states through Welch's T-test and the Critical Interval statistical framework. Additionally, it simplifies data export, generates 'PyMol' scripts, and ensures calculations meet publication standards. 'HDXBoxeR' assists in various aspects of hydrogen-deuterium exchange data analysis, including reprocessing data, calculating parameters, identifying significant peptides, generating plots, and facilitating comparison between protein states. For details check papers by Hageman and Weis (2019) and Masson et al. (2019) . 'HDXBoxeR' citation: Janowska et al. (2024) . 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Package: r-cran-heatex Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-heatex_1.0-1.ca2004.1_all.deb Size: 32304 MD5sum: 3b6e7f4251ec57c287c49a20143f5f3a SHA1: 7fe30cd74d598498ddd1efe8135cd762f87d5a3d SHA256: 0effbd90e08adb3b9693ba30c8f77e17a0c6a5af3062026e90979b890bd8c0d3 SHA512: 183874b770ac3d20cb9b7173a0c2d33877f0878cfd50b091b1c5be6edc827f9f84b93dba9130ed644014145d459cb22d16d454fd959bade24889ed7dd62a6fc7 Homepage: https://cran.r-project.org/package=heatex Description: CRAN Package 'heatex' (Heat exchange calculations during physical activity) The heatex package calculates heat storage in the body and the components of heat exchange (conductive, convective, radiative, and evaporative) between the body and the environment during physical activity based on the principles of partitional calorimetry. The program enables heat exchange calculations for a range of environmental conditions when wearing various clothing ensembles. Package: r-cran-heatmap3 Architecture: all Version: 1.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 223 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fastcluster Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-heatmap3_1.1.9-1.ca2004.1_all.deb Size: 174344 MD5sum: a4b6a15d29c495b8bbd9161b80b21b1c SHA1: afba066fd0b7edca8bd580795a7b041d118ac3b0 SHA256: f9261638c1b9afed8354df73d6eb2886352122564a1ac52113458068e006061d SHA512: 8df28b7aae62bb81b77c2b20a4f347285dba357aedfdc16607035fae587a222380b2e811336b2763751705967e19bb90db393a9d78dec71be32a59654cd37d9a Homepage: https://cran.r-project.org/package=heatmap3 Description: CRAN Package 'heatmap3' (An Improved Heatmap Package) An improved heatmap package. Completely compatible with the original R function 'heatmap', and provides more powerful and convenient features. Package: r-cran-heatmapfit Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-heatmapfit_2.0.4-1.ca2004.1_all.deb Size: 38552 MD5sum: 6f75a97a6603dfa25fc76a1ead996ac3 SHA1: 1c9778746ac76b046768ac5711264bafe82c93d2 SHA256: 4026f95c4f0941fe7fcad0130e9b20ac46cbf10b18c349fd8b5faa06ca2a3c13 SHA512: 7e8bfb9d24296f2292efe43694f575ba846a97665209b11cb6d853f769e7b710a270fe4060fe50aa83862025a21af64348423048ffe237eca36fa74585fbef94 Homepage: https://cran.r-project.org/package=heatmapFit Description: CRAN Package 'heatmapFit' (Fit Statistic for Binary Dependent Variable Models) Generates a fit plot for diagnosing misspecification in models of binary dependent variables, and calculates the related heatmap fit statistic described in Esarey and Pierce (2012) . Package: r-cran-heatmapflex Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1493 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biobase, r-bioc-heatplus, r-cran-rcolorbrewer Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-heatmapflex_0.1.2-1.ca2004.1_all.deb Size: 1002776 MD5sum: 05c6184a59eefb9ea9fbcc0c76cb21f9 SHA1: 8d27ad40b6340e11570279beb9896088163c0f8f SHA256: 2530e9f084b1219e115f2a35968f29692884fe75e2bd96e38265325b48d5b3b3 SHA512: 250007f2fbd049719a2e95b5553a7bb6600f2fde26da99675517dd954b1238a65f2d9ff97a04bf78c76d4cbeea3d1001c642def60714fc792456404f3e60b4da Homepage: https://cran.r-project.org/package=heatmapFlex Description: CRAN Package 'heatmapFlex' (Tools to Generate Flexible Heatmaps) A set of tools supporting more flexible heatmaps. The graphics is grid-like using the old graphics system. The main function is heatmap.n2(), which is a wrapper around the various functions constructing individual parts of the heatmap, like sidebars, picket plots, legends etc. The function supports zooming and splitting, i.e., having (unlimited) small heatmaps underneath each other in one plot deriving from the same data set, e.g., clustered and ordered by a supervised clustering method. 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Hover the mouse pointer over a cell to show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical method for visualizing high-dimensional data, in which a table of numbers are encoded as a grid of colored cells. The rows and columns of the matrix are ordered to highlight patterns and are often accompanied by 'dendrograms'. 'Heatmaps' are used in many fields for visualizing observations, correlations, missing values patterns, and more. Interactive 'heatmaps' allow the inspection of specific value by hovering the mouse over a cell, as well as zooming into a region of the 'heatmap' by dragging a rectangle around the relevant area. This work is based on the 'ggplot2' and 'plotly.js' engine. It produces similar 'heatmaps' to 'heatmap.2' with the advantage of speed ('plotly.js' is able to handle larger size matrix), the ability to zoom from the 'dendrogram' panes, and the placing of factor variables in the sides of the 'heatmap'. Package: r-cran-heckmanem Architecture: all Version: 0.2-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 170 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mvtnorm, r-cran-sampleselection, r-cran-momtrunc, r-cran-performanceanalytics, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-heckmanem_0.2-2-1.ca2004.1_all.deb Size: 142284 MD5sum: 3ed12a18d2845959eac1dc395211a26d SHA1: fe8ec9b772b4f8ad72baeaa59221cb8dbac6a1dc SHA256: ad087d4579e0c121f0b05ce8ad30a3af5639489f0a2d7b62ea38de4fada1871d SHA512: df92ff9f061249f009d7db8db9eacf4e7849da5739e6e968007dbf9c7f7132f6b25173619b874ed5eaff652848eb6d2c1e10387e030a3916c640a193a54484e5 Homepage: https://cran.r-project.org/package=HeckmanEM Description: CRAN Package 'HeckmanEM' (Fit Normal, Student-t or Contaminated Normal Heckman SelectionModels) It performs maximum likelihood estimation for the Heckman selection model (Normal, Student-t or Contaminated normal) using an EM-algorithm . 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Package: r-cran-heckmanstan Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rstan, r-cran-mvtnorm, r-cran-loo Filename: pool/dists/focal/main/r-cran-heckmanstan_1.0.0-1.ca2004.1_all.deb Size: 133404 MD5sum: 10de1e0526597b72358f0355e7d6a1e5 SHA1: 5aede98485fec8c903593b35eeda871eeaf37f61 SHA256: ff9d98714dd1a0afb86febf048e6026795dac6e2519800505070cf60b6c8c0bd SHA512: a698ec224e2ef2c947b631a3bc65f8f0240cf88c806220e3f8cc913d69bae9b89e006882ed7aa45d6ae9cb38108c7c79fb7478f229766486908bbdc8b36a1d21 Homepage: https://cran.r-project.org/package=HeckmanStan Description: CRAN Package 'HeckmanStan' (Heckman Selection Models Based on Bayesian Analysis) Implements Heckman selection models using a Bayesian approach via 'Stan' and compares the performance of normal, Student’s t, and contaminated normal distributions in addressing complexities and selection bias (Heeju Lim, Victor E. Lachos, and Victor H. Lachos, Bayesian analysis of flexible Heckman selection models using Hamiltonian Monte Carlo, 2025, under submission). Package: r-cran-heda Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2802 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-zoo, r-cran-lubridate, r-cran-rlang Filename: pool/dists/focal/main/r-cran-heda_0.1.5-1.ca2004.1_all.deb Size: 460936 MD5sum: a129a03dd7be891bc21f41243a2e834a SHA1: 05fac96b30a2300d1afb3b03cd5680ce3c34062a SHA256: f04943f21c36edbdea6c80d6e1eaa9484d17caf24989acdf75a81cc8b7c3338a SHA512: 6b8ed99d1400dd41780fb75b49446ca04b1e9bd3902f55aa52008c98fa69db144bd8e044c85dc99c12ffde416e5ab48c6aa611120fdc235d09cafaba47fdd2a5 Homepage: https://cran.r-project.org/package=HEDA Description: CRAN Package 'HEDA' ('Hydropeaking Events Detection Algorithm') This tool identifies hydropeaking events from raw time-series flow record, a rapid flow variation induced by the hourly-adjusted electricity market. 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The package provides a function hedgedrf() that can be used to train a Hedged Random Forest model on a dataset, and a function predict.hedgedrf() that can be used to make predictions with the model. Package: r-cran-hedgehog Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-testthat, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hedgehog_0.1-1.ca2004.1_all.deb Size: 123760 MD5sum: 887ba5ecd70c7345d90b86eb984f0452 SHA1: 41bd8df8647e4d91cc0b971487014b5d4e1e5320 SHA256: 78ab8a929d94025e389596c65bea1eb70b059706bdd2d673e8b33f94eccfd1a0 SHA512: d36485846276cfd279eb58b7453f0d798b513e56173ac444e22c0317f8962d2e4c161170808666bb013953e6afb86639d81944f0dbc1374a428deaf14c6d02a2 Homepage: https://cran.r-project.org/package=hedgehog Description: CRAN Package 'hedgehog' (Property-Based Testing) Hedgehog will eat all your bugs. 'Hedgehog' is a property-based testing package in the spirit of 'QuickCheck'. With 'Hedgehog', one can test properties of their programs against randomly generated input, providing far superior test coverage compared to unit testing. One of the key benefits of 'Hedgehog' is integrated shrinking of counterexamples, which allows one to quickly find the cause of bugs, given salient examples when incorrect behaviour occurs. Package: r-cran-heemod Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3384 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-mvnfast, r-cran-tibble, r-cran-rlang, r-cran-purrr, r-cran-glue, r-cran-lifecycle, r-cran-vctrs Suggests: r-cran-bcea, r-cran-diagram, r-cran-flexsurv, r-cran-knitr, r-cran-logitnorm, r-cran-lpsolve, r-cran-mgcv, r-cran-optimx, r-cran-readxl, r-cran-rmarkdown, r-cran-stringr, r-cran-survival, r-cran-testthat, r-cran-triangle, r-cran-magrittr, r-cran-cli Filename: pool/dists/focal/main/r-cran-heemod_1.1.0-1.ca2004.1_all.deb Size: 2266020 MD5sum: 2465da08941e695446ebaee44c0394d0 SHA1: 57b1029e65e6546037f52fb1e9ee49f143c8a660 SHA256: adf5c182822f315ac6ee80542e38fce8dc6c03725bc4fda9665e97b9210393ab SHA512: e3b605149a8154d81c428377167f036f3ac3f1dd31cd10d7d6ae29f28c40f1bdf971aaddcac6c028f92357be67bd5f8cf0b5f1c3d992328c9c9004e7ff5a79b3 Homepage: https://cran.r-project.org/package=heemod Description: CRAN Package 'heemod' (Markov Models for Health Economic Evaluations) An implementation of the modelling and reporting features described in reference textbook and guidelines (Briggs, Andrew, et al. Decision Modelling for Health Economic Evaluation. Oxford Univ. Press, 2011; Siebert, U. et al. State-Transition Modeling. Medical Decision Making 32, 690-700 (2012).): deterministic and probabilistic sensitivity analysis, heterogeneity analysis, time dependency on state-time and model-time (semi-Markov and non-homogeneous Markov models), etc. Package: r-cran-heimdall Architecture: all Version: 1.2.707-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 228 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-caret, r-cran-daltoolbox, r-cran-ggplot2, r-cran-reticulate, r-cran-proc, r-cran-car Filename: pool/dists/focal/main/r-cran-heimdall_1.2.707-1.ca2004.1_all.deb Size: 172552 MD5sum: a703fd55305e0e7339cd9d24b69567a2 SHA1: 4b9b034f60bda8d6e43781b954714ce110511ac5 SHA256: 06ef45a1404f2ea50797c66b77bdfb3c83272983fed5bc7bf84496f35ed1346a SHA512: 4c3bfdc8368716abf986efcb558acc3b68bdb4a8506bf4cb7e91580567a9edcd51df5c891e941e5f2f02f99e8b064aa7e390813493ed2ee228dddc9007bffe6e Homepage: https://cran.r-project.org/package=heimdall Description: CRAN Package 'heimdall' (Drift Adaptable Models) In streaming data analysis, it is crucial to detect significant shifts in the data distribution or the accuracy of predictive models over time, a phenomenon known as concept drift. The package aims to identify when concept drift occurs and provide methodologies for adapting models in non-stationary environments. It offers a range of state-of-the-art techniques for detecting concept drift and maintaining model performance. Additionally, the package provides tools for adapting models in response to these changes, ensuring continuous and accurate predictions in dynamic contexts. Methods for concept drift detection are described in Tavares (2022) . Package: r-cran-heims Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 338 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-hutils, r-cran-magrittr, r-cran-fastmatch, r-cran-bit64, r-cran-lubridate Suggests: r-cran-testthat, r-cran-fst Filename: pool/dists/focal/main/r-cran-heims_0.4.0-1.ca2004.1_all.deb Size: 279628 MD5sum: 77772b86c7d80dac47edaa2b7999b8b9 SHA1: bffd09b151dda173c09e5056348cc0f7d411b7f8 SHA256: 74cb17a565ea4064e25ae0d58c38dd519123a1476b7742721a63367916d8f822 SHA512: 9fa023584b3b9ba7793e09044e2033935b3b96a169c2ed2e09cb4a42f4c4ea6f73c5195fa3220f6887834d2f8e0b09475f4b6419936cca4f748d993831b929d4 Homepage: https://cran.r-project.org/package=heims Description: CRAN Package 'heims' (Decode and Validate HEIMS Data from Department of Education,Australia) Decode elements of the Australian Higher Education Information Management System (HEIMS) data for clarity and performance. HEIMS is the record system of the Department of Education, Australia to record enrolments and completions in Australia's higher education system, as well as a range of relevant information. For more information, including the source of the data dictionary, see . 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These can be either observations on individual plants or plot-level data in a field trial. Heritability can then be estimated using a mixed model for the individual plant or plot data. For comparison, also mixed-model based estimation using genotypic means and estimation of repeatability with ANOVA are implemented. For illustration the package contains several datasets for the model species Arabidopsis thaliana. 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Variance partition coefficients (VPC) are computed using linear mixed effects and generalized linear mixed effects models. Compound Poisson and negative binomial models are included. Reference: Rudra, Pratyaydipta, et al. "Model based heritability scores for high-throughput sequencing data." BMC bioinformatics 18.1 (2017): 143. 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Package: r-cran-hessrna Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tidyr, r-cran-dplyr, r-cran-magrittr, r-bioc-deseq2, r-cran-ssizerna, r-cran-rdpack Suggests: r-cran-car, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hessrna_1.0.1-1.ca2004.1_all.deb Size: 38032 MD5sum: 71fcd3349c041c7bb0bc82adb7fb94c9 SHA1: 58a7466b398a60606716976f0af37316ccb2e47f SHA256: b1d1c091dc239019e3c23c6cbe1eaa98a588ec215ce64ea371b7d695dc284c3a SHA512: 35b928208454ec523ba9358672774e98e2b3d0d996198f673988e57301bc6a4884c88ea8fa98baced1d3acb61bc38daa73ef88f2c6a170443e6aeca5f544d27d Homepage: https://cran.r-project.org/package=HEssRNA Description: CRAN Package 'HEssRNA' (Heritability-Based Estimation of Sample Size for RNA-Seq Data) Provides tools for estimating sample sizes primarily based on heritability, while also considering additional parameters such as statistical power and fold change. The package normalizes heritability values according to trait-specific heritability and classification to enhance accuracy in sample size estimation. Package: r-cran-heterfunctionaldata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-heterfunctionaldata_0.1.0-1.ca2004.1_all.deb Size: 62460 MD5sum: 47d48d57811577df51989a2bb2877326 SHA1: b7daf383a92f5d2d6739a75f6e7f6edc140b9f55 SHA256: 571a6f0e8cd7b5985be46953840005926e1c0e8a3b6a9778d15676807120e90c SHA512: 7c81f26c789219034a0e1e1f5efedf47c604782722c52913ef5227c9fe0ba2d11ad86c43e9527af80a0f32efd8bbef41f1c3c1cbfed7e3b90decc11bc62e2e74 Homepage: https://cran.r-project.org/package=HeterFunctionalData Description: CRAN Package 'HeterFunctionalData' (Test of No Main and/or Interaction Effects in Functional Data) Distribution free heteroscedastic tests for functional data. The following tests are included in this package: test of no main treatment or contrast effect and no simple treatment effect given in Wang, Higgins, and Blasi (2010) , no main time effect, and no interaction effect based on original observations given in Wang and Akritas (2010a) and tests based on ranks given in Wang and Akritas (2010b) . 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Recently, several Gaussian graphical model-based heterogeneity analysis techniques have been developed. A common methodological limitation is that the number of subgroups is assumed to be known a priori, which is not realistic. In a very recent study (Ren et al., 2022), a novel approach based on the penalized fusion technique is developed to fully data-dependently determine the number and structure of subgroups in Gaussian graphical model-based heterogeneity analysis. It opens the door for utilizing the Gaussian graphical model technique in more practical settings. Beyond Ren et al. (2022), more estimations and functions are added, so that the package is self-contained and more comprehensive and can provide ``more direct'' insights to practitioners (with the visualization function). Reference: Ren, M., Zhang S., Zhang Q. and Ma S. (2022). Gaussian Graphical Model-based Heterogeneity Analysis via Penalized Fusion. Biometrics, 78 (2), 524-535. 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The small depressions are combined into a single "meta" depression which explicitly models the hysteresis between the storage of water and the connected/contributing areas of the depressions. The largest (greater than 5% of the total depressional area) depression (if it exists) is represented separately to model its gatekeeping, i.e. the blocking of upstream flows until it is filled. The methodolgy is described in detail in Shook and Pomeroy (2025, ). 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It can be used for linear mixed models and generalized linear mixed models with random effects for a variety of links and a variety of distributions for both the outcomes and the random effects. Fixed effects can also be fitted in the dispersion part of the mean model. As statistical models, HGLMs were initially developed by Lee and Nelder (1996) . We provide an implementation (Ronnegard, Alam and Shen 2010) following Lee, Nelder and Pawitan (2006) with algorithms extended for spatial modeling (Alam, Ronnegard and Shen 2015) . 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The traditional Gaussian graphical model and its extensions either have a Gaussian assumption on the data distribution or assume the data are homogeneous. However, there are data with complex distributions violating these two assumptions. For example, the air pollutant concentration records are non-negative and, hence, non-Gaussian. Moreover, due to climate changes, distributions of these concentration records in different months of a year can be far different, which means it is uncertain whether datasets from different months are homogeneous. Methods with a Gaussian or homogeneous assumption may incorrectly model the conditional dependence relationships among variables. Therefore, we propose a heterogeneous graphical model for non-negative data (HGMND) to simultaneously cluster multiple datasets and estimate the conditional dependence matrix of variables from a non-Gaussian and non-negative exponential family in each cluster. 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Also contains functions for reversibly converting between HGNC symbols and valid R names. Package: r-cran-hgraph Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-knitr Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hgraph_0.1.0-1.ca2004.1_all.deb Size: 131192 MD5sum: 547d2ee1bfbfa90d9ad8f32fbdd126c2 SHA1: 5c368ea53a8d069d89e50201b2e82e773eec17c5 SHA256: d0103fc306157e1e91a1c2efa1390ab4b71b69427df2e8ae4d67886a20cbe6ab SHA512: 9560fbd5ba7b045c4e38529aa2108b076e0b972cabc27963e75f3906038bb3dffddb671708f01f2ce532488a6dbab41f480d0628b16358ddacc0f02248e258cb Homepage: https://cran.r-project.org/package=HGraph Description: CRAN Package 'HGraph' (Use Graph Structure to Travel) It is used to travel graphs, by using DFS and BFS to get the path from node to each leaf node. Depth first traversal(DFS) is a recursive algorithm for searching all the vertices of a graph or tree data structure. Traversal means visiting all the nodes of a graph. Breadth first traversal(BFS) algorithm is used to search a tree or graph data structure for a node that meets a set of criteria. It starts at the tree’s root or graph and searches/visits all nodes at the current depth level before moving on to the nodes at the next depth level. Also, it provides the matrix which is reachable between each node. Implement reference about Baruch Awerbuch (1985) . Package: r-cran-hgsl Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hgsl_1.0.0-1.ca2004.1_all.deb Size: 13508 MD5sum: 01b10c1cedfc31fe9329fbe9740f199f SHA1: 17c2ad8204a498fddde7eeec53790d17997ec971 SHA256: c9ac729d2b8da23c33706108bf9cc85a294caa02454ea9aaba97e125dea68148 SHA512: c65f63f45c694f3a46ad4d220d1923b4e206cc5a7a29e74693b22f8bd33bb7a89883b4e5e4fe622bbc14fb65f28a79d56f5570b83e150bd98878dfc0860e434a Homepage: https://cran.r-project.org/package=HGSL Description: CRAN Package 'HGSL' (Heterogeneous Group Square-Root Lasso) Estimation of high-dimensional multi-response regression with heterogeneous noises under Heterogeneous group square-root Lasso penalty. For details see: Ren, Z., Kang, Y., Fan, Y. and Lv, J. (2018). 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Package development functionalities includes among others tools such as cross-referencing package imports with the description file, analysis of redundant package imports, editing of the description file and the creation of package badges for GitHub. Some of the other functionalities include automatic package installation and loading, plotting points without overlap, creating nice breaks for plots, overview tables and many more handy utility functions. Package: r-cran-hh Architecture: all Version: 3.1-53-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2770 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice, r-cran-latticeextra, r-cran-multcomp, r-cran-gridextra, r-cran-reshape2, r-cran-leaps, r-cran-vcd, r-cran-colorspace, r-cran-rcolorbrewer, r-cran-shiny, r-cran-hmisc, r-cran-abind, r-cran-rmpfr Suggests: r-cran-mvtnorm, r-cran-car, r-cran-rcmdr, r-cran-rcmdrplugin.hh, r-cran-microplot, r-cran-mass Filename: pool/dists/focal/main/r-cran-hh_3.1-53-1.ca2004.1_all.deb Size: 1762644 MD5sum: 2c484efa755a30490756aacbeb8b122a SHA1: d28086b4d71456b7e810114353818c15f926bc43 SHA256: 7c73508b1dadac5c057a60b96f1b6944a22c6c91ec2efe99ea0fe7dfe1580174 SHA512: 5ecb1703839c2b06fc2a258e8b3a83fd729d4e481978befc05fa18c0127929701193851902bf2faeab8b06aedbb2a4b98c02519e3e0834b092150d0916bf26d1 Homepage: https://cran.r-project.org/package=HH Description: CRAN Package 'HH' (Statistical Analysis and Data Display: Heiberger and Holland) Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package. 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'A reflected feature space for CART.' Australian & New Zealand Journal of Statistics, 61, 380–391. . 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The approach is illustrated in a case study on norovirus gastroenteritis in Berlin, 2011-2015, by age group, city district and week, using additional contact data from the POLYMOD survey. This package contains the data and code to reproduce the results from the paper, see 'demo("hhh4contacts")'. 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This package allows for intuitive and straightforward computation of HHI scores, requiring placement of objects of interest directly into the function. The package also includes a plot function for quick visual display of an HHI time series using any measure of time (year, quarter, month, etc.). For usage, please cite the Journal of Open Source Software paper associated with the package: Waggoner, Philip D. (2018) . 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Specifically, for data with a two-level hierarchical structure, it will produce a heatmap where each row and column represents a category at the lower level. These rows and columns are then grouped by the higher-level group each category belongs to, with the names for each category and groups shown in the margins. While other packages (e.g. 'dendextend') allow heatmap rows and columns to be arranged by groups only, 'hhmR' also allows the labelling of the data at both the category and group level. Package: r-cran-hhp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 558 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-matrix, r-bioc-fmrs Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hhp_1.0.0-1.ca2004.1_all.deb Size: 507984 MD5sum: 3db0e3e45ac0b0edbfb776b89dd87e8e SHA1: cc1fd459dbaf81077fc6e68d3fbf49cbe31d8e00 SHA256: 90f5e70fe6df8577f8521337f57922246d1e080eb7e355e6c4942d619f1736d3 SHA512: d3ec7aafbb37129cf56db64040586a9d8d2af353a9e9711692269d3d5c7d8933bd908324731a9153d07df2457f98686638d47d7a3cf6c7dbe88ad01bf7e88af9 Homepage: https://cran.r-project.org/package=HhP Description: CRAN Package 'HhP' (Hierarchical Heterogeneity Analysis via Penalization) In medical research, supervised heterogeneity analysis has important implications. Assume that there are two types of features. Using both types of features, our goal is to conduct the first supervised heterogeneity analysis that satisfies a hierarchical structure. That is, the first type of features defines a rough structure, and the second type defines a nested and more refined structure. A penalization approach is developed, which has been motivated by but differs significantly from penalized fusion and sparse group penalization. Reference: Ren, M., Zhang, Q., Zhang, S., Zhong, T., Huang, J. & Ma, S. (2022). "Hierarchical cancer heterogeneity analysis based on histopathological imaging features". Biometrics, . 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Package: r-cran-hicfeat Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 392 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-genomicranges, r-cran-matrix, r-cran-glmnet, r-bioc-rtracklayer, r-bioc-iranges, r-bioc-genomeinfodb Filename: pool/dists/focal/main/r-cran-hicfeat_1.4-1.ca2004.1_all.deb Size: 141708 MD5sum: bcd3958c607ea7e5d114f6b1c54b15cc SHA1: 187b93e5b8c41bb73f0c631ca48e5aadee01ba93 SHA256: f3c6f0580dda9a6e37fb687fa6febe636783a57aa0b00a9fd41ea496fabddf52 SHA512: af421664e537d9aa7790e37f940e4b57879bb8d112fd90a1f628d28a3e1ea16e2795abf2b865b25188b44d574fa3b66efa90cf3ec77a14399e471457c03fb1d2 Homepage: https://cran.r-project.org/package=HiCfeat Description: CRAN Package 'HiCfeat' (Multiple Logistic Regression for 3D Chromatin Domain BorderAnalysis) We propose a multiple logistic regression model to assess the influences of genomic features such as DNA-binding proteins and functional elements on topological domain borders. 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Based on the manual, this package provides functions to access and work with HICP data from Eurostat's public database (). Package: r-cran-hiddenf Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hiddenf_2.0-1.ca2004.1_all.deb Size: 79360 MD5sum: 98f46398e8f8ab897f6c3b6fc49a8e69 SHA1: 6733ccdf450d0da5f429b72975f101af08906937 SHA256: 94d80a0799eb4ce635c8850ad14fa9d9139f0ac476280c592836552e83467e14 SHA512: 7afe4c5ff883f92f2027acd56cc213ac943eae0697abbf156133b360ad143451bcae5eb602f1d46cb39cb4ae045bc6e5e43d2e67d03e61d18f40159da2794483 Homepage: https://cran.r-project.org/package=hiddenf Description: CRAN Package 'hiddenf' (The All-Configurations, Maximum-Interaction F-Test for HiddenAdditivity) Computes the ACMIF test and Bonferroni-adjusted p-value of interaction in two-factor studies. Produces corresponding interaction plot and analysis of variance tables and p-values from several other tests of non-additivity. 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The HIDECAN plot is presented in Angelin-Bonnet et al. (2023) (currently in review). Package: r-cran-hidradenitis Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hidradenitis_1.0.1-1.ca2004.1_all.deb Size: 33020 MD5sum: 0c2d357478b3c6dac56bfde65eb0d1e5 SHA1: 0509e491637705a1d20d074d60ed63e7027e8fd8 SHA256: 9441ea248113bd22482ee68a2476812048e4b63ce179817c729fec5072a5072f SHA512: 61ef2364fe07a9346907700e34b583e3894a1a3959e4eef4dc84ca17e9851830d2443226401e47d0354700c3e88534b2e05b79668e0593dfd509f87985af57af Homepage: https://cran.r-project.org/package=hidradenitis Description: CRAN Package 'hidradenitis' (Calculate Clinical Scores for Hidradenitis Suppurativa (HS), aDermatologic Disease) Calculate clinical scores for hidradenitis suppurativa (HS), a dermatologic disease. The scores are typically used for evaluation of efficacy in clinical trials. The scores are not commonly used in clinical practice. The specific scores implemented are Hidradenitis Suppurativa Clinical Response (HiSCR) (Kimball, et al. (2015) ), Hidradenitis Suppurativa Area and Severity Index Revised (HASI-R) (Goldfarb, et al. (2020) ), hidradenitis suppurativa Physician Global Assessment (HS PGA) (Marzano, et al. (2020) ), and the International Hidradenitis Suppurativa Severity Score System (IHS4) (Zouboulis, et al. (2017) ). Package: r-cran-hierarchicalds Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4005 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-truncnorm, r-cran-mvtnorm, r-cran-matrix, r-cran-coda, r-cran-xtable, r-cran-mc2d, r-cran-ggplot2, r-cran-rgeos, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-hierarchicalds_3.0-1.ca2004.1_all.deb Size: 3799540 MD5sum: 368c17ce365e5a2ab0282d193700a489 SHA1: 76ab2e4eecb655c74a44061330ff6c96f3eea171 SHA256: a92ea09732737e26050942a724659d0f4ba36ed8e0db9b46b7f5a7b95cc55098 SHA512: 948c485e42a53d2597b26bdf2ccc3f6512096265cf58f9af002cd3987074f095b9910d89ffee752e03b8e5177d86cc18fef9df00c1b7b948e9d08510e7d35a9b Homepage: https://cran.r-project.org/package=hierarchicalDS Description: CRAN Package 'hierarchicalDS' (Functions to Perform Hierarchical Analysis of Distance SamplingData) Functions for performing hierarchical analysis of distance sampling data, with ability to use an areal spatial ICAR model on top of user supplied covariates to get at variation in abundance intensity. The detection model can be specified as a function of observer and individual covariates, where a parametric model is supposed for the population level distribution of covariate values. The model uses data augmentation and a reversible jump MCMC algorithm to sample animals that were never observed. Also included is the ability to include point independence (increasing correlation multiple observer's observations as a function of distance, with independence assumed for distance=0 or first distance bin), as well as the ability to model species misclassification rates using a multinomial logit formulation on data from double observers. There is also the the ability to include zero inflation, but this is only recommended for cases where sample sizes and spatial coverage of the survey are high. Package: r-cran-hierbase Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 314 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-hdi, r-cran-sihr Suggests: r-cran-knitr, r-cran-mass, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hierbase_0.1.2-1.ca2004.1_all.deb Size: 274420 MD5sum: 73fa6637f07b7fa709b11d52bdb80351 SHA1: eca9034c98b3a0522309b6d7c8bc9bab8d9a1849 SHA256: 7145e59df95e9d81c15485195cb9b0e2372aa2bca400197455cfd02256ab5182 SHA512: 6c22c4f80af61eaefad7a92c7254bff4d311317c9008fcbd5f5a3165355481ec72b0f5c41e471b51ae65cb41460e43ffa5f9083c5f3253a46e0afc21ea669a2f Homepage: https://cran.r-project.org/package=hierbase Description: CRAN Package 'hierbase' (Enabling Hierarchical Multiple Testing) Implementation of hierarchical inference based on Meinshausen (2008). Hierarchical testing of variable importance. Biometrika, 95(2), 265-278 and Renaux, Buzdugan, Kalisch, and Bühlmann, (2020). Hierarchical inference for genome-wide association studies: a view on methodology with software. Computational Statistics, 35(1), 1-40. The R-package 'hierbase' offers tools to perform hierarchical inference for one or multiple data sets based on ready-to-use (group) test functions or alternatively a user specified (group) test function. The procedure is based on a hierarchical multiple testing correction and controls the family-wise error rate (FWER). The functions can easily be run in parallel. Hierarchical inference can be applied to (low- or) high-dimensional data sets to find significant groups or single variables (depending on the signal strength and correlation structure) in a data-driven and automated procedure. Possible applications can for example be found in statistical genetics and statistical genomics. Package: r-cran-hierbipartite Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1936 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-irlba Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hierbipartite_0.0.2-1.ca2004.1_all.deb Size: 1845788 MD5sum: 3e2a1b768081e877aa178a32a0adff3b SHA1: 567308bd931fc4e887cfe7754648d1ba1983ca67 SHA256: 0e3ad5c741c08041d851634faf5b2f21bd1c560e4587ee6806b9c1531cf521e4 SHA512: 14d8745528a5551c0809ff5c45a17ba2fe815eb042364d3cb90702f0d85ec3e6e344a1b5476cc6166d7905331159cb6fd5fe4c5733d3a8684256702b92fe40ae Homepage: https://cran.r-project.org/package=hierBipartite Description: CRAN Package 'hierBipartite' (Bipartite Graph-Based Hierarchical Clustering) Bipartite graph-based hierarchical clustering, developed for pharmacogenomic datasets and datasets sharing the same data structure. The goal is to construct a hierarchical clustering of groups of samples based on association patterns between two sets of variables. In the context of pharmacogenomic datasets, the samples are cell lines, and the two sets of variables are typically expression levels and drug sensitivity values. For this method, sparse canonical correlation analysis from Lee, W., Lee, D., Lee, Y. and Pawitan, Y. (2011) is first applied to extract association patterns for each group of samples. Then, a nuclear norm-based dissimilarity measure is used to construct a dissimilarity matrix between groups based on the extracted associations. Finally, hierarchical clustering is applied. Package: r-cran-hierdpart Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 417 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggally, r-cran-adegenet, r-cran-diversity, r-cran-entropart, r-cran-mmod, r-cran-ggplot2, r-cran-hierfstat, r-cran-reshape2, r-cran-tibble, r-cran-ade4, r-cran-vegan, r-cran-ape, r-cran-pegas, r-cran-permute Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hierdpart_1.5.0-1.ca2004.1_all.deb Size: 268772 MD5sum: 5b9f13b91ada32280346efd251eb477e SHA1: 9210600f0daf81cebf0c5a81723d1294d3d0f3a4 SHA256: 879fc4a10176b3cca3ce09d9c7eb2d7d75d33e801771a09ac35a472415ef9a8c SHA512: 157b8fa449f9eb38f6316bd54a6a92dd5c2dc8f22d9c020ba90fe8e79dbe4c78f44b912432aa709cc034d7f1b2f1bb03b4d426ffd59b3e4c2a20ee25b3685717 Homepage: https://cran.r-project.org/package=HierDpart Description: CRAN Package 'HierDpart' (Partitioning Hierarchical Diversity and Differentiation AcrossMetrics and Scales, from Genes to Ecosystems) Miscellaneous R functions for calculating and decomposing hierarchical diversity metrics, including hierarchical allele richness, hierarchical exponential Shannon entropy (true diversity of order q=1), hierarchical heterozygosity and genetic differentiation (Jaccard dissimilarity, Delta D, Fst and Jost's D). In addition,a new approach to identify population structure based on the homogeneity of multivariate variances of Shannon differentiation is presented. This package allows users to analyse spatial structured genetic data or species data under a unifying framework (Gaggiotti, O. E. et al, 2018, Evol Appl, 11:1176-1193; ), which partitions diversity and differentiation into any hierarchical levels. It helps you easily structure and format your data. In summary,it implements the analyses of true diversity profiles (q=0, 1, 2), hierarchical diversities and differentiation decomposition, visualization of population structure, as well as the estimation of correlation between geographic distance and genetic differentiation. Package: r-cran-hierfstat Architecture: all Version: 0.5-11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1400 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ade4, r-cran-adegenet, r-cran-gaston, r-cran-gtools Suggests: r-cran-ape, r-cran-pegas, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hierfstat_0.5-11-1.ca2004.1_all.deb Size: 438020 MD5sum: 638ad416f18d555ab99a3901cd2deacc SHA1: 61650f94375f71be84e726ed63bc5696c86035dc SHA256: 2cffce35c8a335c759b6b035f4de41a0bfefe70f92f64b66c0bd0f00b740e161 SHA512: 574d8bcb46631b6bca0fdbb1f726868311fc1068e7f1ae475f5e948121b897d200374cbadd22432f84a3f4edd70fc47417adbc38fbffa14c60a5e2ee93a387a7 Homepage: https://cran.r-project.org/package=hierfstat Description: CRAN Package 'hierfstat' (Estimation and Tests of Hierarchical F-Statistics) Estimates hierarchical F-statistics from haploid or diploid genetic data with any numbers of levels in the hierarchy, following the algorithm of Yang (Evolution(1998), 52:950). Tests via randomisations the significance of each F and variance components, using the likelihood-ratio statistics G (Goudet et al. (1996) ). Estimates genetic diversity statistics for haploid and diploid genetic datasets in various formats, including inbreeding and coancestry coefficients, and population specific F-statistics following Weir and Goudet (2017) . Package: r-cran-hierportfolios Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1108 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fastcluster, r-cran-cluster Filename: pool/dists/focal/main/r-cran-hierportfolios_1.0.1-1.ca2004.1_all.deb Size: 1100848 MD5sum: 328903aad65f688f2d5702d4c39ad7ec SHA1: ee919fec68a8466ad9524dc49b871ff6bd400872 SHA256: 0234dc84d7c47fe0dc44b888232a944193229346069b00a2497e0c318db34699 SHA512: e815b85449197ba8456733c542bbb8a0ec711d91510ae16940e7604fd6eb740c0a706d70c80ab0c094b348061dc50bc6cf6523ea43b82418ff0db9cc0a94d240 Homepage: https://cran.r-project.org/package=HierPortfolios Description: CRAN Package 'HierPortfolios' (Hierarchical Risk Clustering Portfolio Allocation Strategies) Machine learning hierarchical risk clustering portfolio allocation strategies. The implemented methods are: Hierarchical risk parity (De Prado, 2016) . Hierarchical clustering-based asset allocation (Raffinot, 2017) . Hierarchical equal risk contribution portfolio (Raffinot, 2018) . A Constrained Hierarchical Risk Parity Algorithm with Cluster-based Capital Allocation (Pfitzingera and Katzke, 2019) . Package: r-cran-hiersdr Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-locfit, r-cran-lbfgs, r-cran-numderiv, r-cran-optimx Filename: pool/dists/focal/main/r-cran-hiersdr_0.1-1.ca2004.1_all.deb Size: 130872 MD5sum: f9c8c24c10aefa5159a8ebedc1ea40a4 SHA1: fcebf9147faaed1fea00a780d69581bfbc0ac5fc SHA256: be925ca755d1b7aa01b9dfbfdb263fa64e0ab1139325465e3c13dddced4e784c SHA512: d4298e5db86ffc6a3a0e49d6593b052b54524575db40041b5eb747b26733c868e2a7ffb272c5628de145ce0ae2d5d3cdd2c1b6b2cf7a3ea6a2a0f974d880edd7 Homepage: https://cran.r-project.org/package=hierSDR Description: CRAN Package 'hierSDR' (Hierarchical Sufficient Dimension Reduction) Provides semiparametric sufficient dimension reduction for central mean subspaces for heterogeneous data defined by combinations of binary factors (such as chronic conditions). Subspaces are estimated to be hierarchically nested to respect the structure of subpopulations with overlapping characteristics. This package is an implementation of the proposed methodology of Huling and Yu (2021) . 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(2013) . Package: r-cran-highscreen Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 459 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gplots Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-highscreen_0.4-1.ca2004.1_all.deb Size: 373728 MD5sum: e567fd9f61067707dabc159dcda10871 SHA1: 760f8d112d39fd3a773d20c3662e0d55781be4bb SHA256: 6ebb4fcadcbf68b5856f39719fd68516ee272b62c4ddf85eebcac7f156102207 SHA512: 90c4049450356b986991136f64ef2676a279f4822ed4981c4cfbd3c648fbc888c186b987ce6d3cbc54aadcd7b18a50d597f2e807d149f8d5e3692b10e9755ce7 Homepage: https://cran.r-project.org/package=highSCREEN Description: CRAN Package 'highSCREEN' (High-Throughput Screening for Plate Based Essays) Can be used to carry out extraction, normalization, quality control (QC), candidate hits identification and visualization for plate based assays, in drug discovery. The package methods were applied in H. W. Choi et al. 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'hilldiv' is an R package that provides a set of functions to assist analysis of diversity for diet reconstruction, microbial community profiling or more general ecosystem characterisation analyses based on Hill numbers, using OTU/ASV tables and associated phylogenetic trees as inputs. The package includes functions for (phylo)diversity measurement, (phylo)diversity profile plotting, (phylo)diversity comparison between samples and groups, (phylo)diversity partitioning and (dis)similarity measurement. All of these grounded in abundance-based and incidence-based Hill numbers. The statistical framework developed around Hill numbers encompasses many of the most broadly employed diversity (e.g. richness, Shannon index, Simpson index), phylogenetic diversity (e.g. Faith's PD, Allen's H, Rao's quadratic entropy) and dissimilarity (e.g. Sorensen index, Unifrac distances) metrics. 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Methods used in the package refer to Zhang H, Zheng Y, Zhang Z, Gao T, Joyce B, Yoon G, Zhang W, Schwartz J, Just A, Colicino E, Vokonas P, Zhao L, Lv J, Baccarelli A, Hou L, Liu L. Estimating and Testing High-dimensional Mediation Effects in Epigenetic Studies. Bioinformatics. (2016) . PMID: 27357171. 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The method compares the genotypes of offspring with any combination of potentials parents and scores the number of mismatches of these individuals at bi-allelic genetic markers (e.g. Single Nucleotide Polymorphisms). It elaborates on a prior exclusion method based on the Homozygous Opposite Test (HOT; Huisman 2017 ) by introducing the additional exclusion criterion HIPHOP (Homozygous Identical Parents, Heterozygous Offspring are Precluded; Cockburn et al., in revision). Potential parents are excluded if they have more mismatches than can be expected due to genotyping error and mutation, and thereby one can identify the true genetic parents and detect situations where one (or both) of the true parents is not sampled. Package 'hiphop' can deal with (a) the case where there is contextual information about parentage of the mother (i.e. a female has been seen to be involved in reproductive tasks such as nest building), but paternity is unknown (e.g. due to promiscuity), (b) where both parents need to be assigned, because there is no contextual information on which female laid eggs and which male fertilized them (e.g. polygynandrous mating system where multiple females and males deposit young in a common nest, or organisms with external fertilisation that breed in aggregations). For details: Cockburn, A., Penalba, J.V.,Jaccoud, D.,Kilian, A., Brouwer, L., Double, M.C., Margraf, N., Osmond, H.L., van de Pol, M. and Kruuk, L.E.B. (in revision). HIPHOP: improved paternity assignment among close relatives using a simple exclusion method for bi-allelic markers. Molecular Ecology Resources, DOI to be added upon acceptance. 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Package: r-cran-hlatools Architecture: all Version: 1.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 782 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-desctools, r-cran-dplyr, r-cran-fmsb, r-cran-rvest, r-cran-stringr, r-cran-tibble, r-cran-xfun Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hlatools_1.6.2-1.ca2004.1_all.deb Size: 597400 MD5sum: 1e17af235aa6f19bfd295196bf0fa7d2 SHA1: ec929ab30862cd6d3cbe72844e17ddb683e0aa56 SHA256: a5a5648027a102ddcf6107d0648623db8f6a67e79ef3127afd67785ec2b8c769 SHA512: 91b032b7fefd5caf2b2b09208dae0170a119e375b3b1fe2bcf72aeec22de2cb5d8a66650f92b526400aeae587eba2dfc92d50bec5597712d10f0ef17e37ff022 Homepage: https://cran.r-project.org/package=HLAtools Description: CRAN Package 'HLAtools' (Toolkit for HLA Immunogenomics) A toolkit for the analysis and management of data for genes in the so-called "Human Leukocyte Antigen" (HLA) region. Functions extract reference data from the Anthony Nolan HLA Informatics Group/ImmunoGeneTics HLA 'GitHub' repository (ANHIG/IMGTHLA) , validate Genotype List (GL) Strings, convert between UNIFORMAT and GL String Code (GLSC) formats, translate HLA alleles and GLSCs across ImmunoPolymorphism Database (IPD) IMGT/HLA Database release versions, identify differences between pairs of alleles at a locus, generate customized, multi-position sequence alignments, trim and convert allele-names across nomenclature epochs, and extend existing data-analysis methods. Package: r-cran-hlidacr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-glue, r-cran-purrr, r-cran-stringr, r-cran-curl, r-cran-usethis, r-cran-urltools Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-vcr Filename: pool/dists/focal/main/r-cran-hlidacr_0.2.0-1.ca2004.1_all.deb Size: 69256 MD5sum: 50fba76eab8305ecd6dfa0d323a57090 SHA1: 8b161355964510739ab658ddf78e61aa90ef3b27 SHA256: e284bf7234f510102aeb3b0500f73f954544d39ce865c551a86fc736233caba9 SHA512: d8b9ec5af968a6d106da87f37dd50dd3cd4a699e422feac77a36e7a6cb6ac55fd345317859ef6e566782efdf4de2fa2c2c84244ea8b63d8f21632fe814499305 Homepage: https://cran.r-project.org/package=hlidacr Description: CRAN Package 'hlidacr' (Access Data from the 'Hlídač Státu' API) Provides access to datasets published by 'Hlídač státu' , a Czech watchdog, via their API. Package: r-cran-hmc Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-glmnet, r-cran-irlba, r-cran-pma, r-cran-mass, r-cran-grpreg Filename: pool/dists/focal/main/r-cran-hmc_1.2-1.ca2004.1_all.deb Size: 120852 MD5sum: f32a036c6cbab598342f127db9f54858 SHA1: 1360b3c35cbc4ae4d4011858487b7ced56a2396d SHA256: c4c84dc4a4a9af1db8fd80948fea2a36e2872ab000e9168741ca91d908aceb9a SHA512: fd88e56afc9abd5ff281e77889571e549c4abdd82a5e24303264ab546f3a594675b983d8a3669fa10cb0504e0cd93a91b342cbaf8bbe8b520a44d3b93761ff3a Homepage: https://cran.r-project.org/package=HMC Description: CRAN Package 'HMC' (High-Dimensional Mean Comparison with Projection andCross-Fitting) Provides interpretable high-dimensional mean comparison methods (HMC). For example, users can apply these methods to assess the difference in gene expression between two treatment groups. It is not a gene-by-gene comparison. Instead, the methods focus on the interplay between features and identify those that are predictive of the group label. The tests are valid frequentist procedures and yield sparse estimates indicating which features contribute to the group differences. Package: r-cran-hmclearn Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1651 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bayesplot, r-cran-mass, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-matrix, r-cran-lme4, r-cran-cardata, r-cran-mlbench, r-cran-ggplot2, r-cran-mlmrev, r-cran-testthat, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-hmclearn_0.0.5-1.ca2004.1_all.deb Size: 1061208 MD5sum: d8d472f1eeda0937f79eebb2f7d33266 SHA1: 15f2688cfbab858b4ee4a25bf60db23ded8d20ae SHA256: 975b53c2ee643625ee40b48ee34cbd39c6f96e7c715be1c20e60191dde7cb297 SHA512: bfbc455d10e5383e469b62578b3f6364d3e26ba1785e05f41de78d5bf8db87f2b0309bd8e91bf88c3760fd66dcf14846f0dd2ff06757c0970d8c7857f46c08ce Homepage: https://cran.r-project.org/package=hmclearn Description: CRAN Package 'hmclearn' (Fit Statistical Models Using Hamiltonian Monte Carlo) Provide users with a framework to learn the intricacies of the Hamiltonian Monte Carlo algorithm with hands-on experience by tuning and fitting their own models. All of the code is written in R. Theoretical references are listed below:. Neal, Radford (2011) "Handbook of Markov Chain Monte Carlo" ISBN: 978-1420079418, Betancourt, Michael (2017) "A Conceptual Introduction to Hamiltonian Monte Carlo" , Thomas, S., Tu, W. (2020) "Learning Hamiltonian Monte Carlo in R" , Gelman, A., Carlin, J. B., Stern, H. S., Dunson, D. B., Vehtari, A., & Rubin, D. B. (2013) "Bayesian Data Analysis" ISBN: 978-1439840955, Agresti, Alan (2015) "Foundations of Linear and Generalized Linear Models ISBN: 978-1118730034, Pinheiro, J., Bates, D. (2006) "Mixed-effects Models in S and S-Plus" ISBN: 978-1441903174. Package: r-cran-hmda Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1190 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-h2o, r-cran-shapley, r-cran-autoensemble, r-cran-h2otools, r-cran-splittools, r-cran-psych, r-cran-dplyr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-hmda_0.1-1.ca2004.1_all.deb Size: 1147432 MD5sum: c8ab4361f99cb1484abfeebb2f93aa7a SHA1: 80fd190c4576414fc19d1926007cf61f4b1a40c9 SHA256: fe5a1b58a87876fca4a54cc3a02882e49481450bf614bced5c1e59bcc66d67b2 SHA512: 7480411d8b241e00d9a68b69e89212e893cf0e72916e5f083e6b993c2bfad054ca831069faa3c9ef53faf8cf213e3aa91c2d49e6c027cef0666ea98da6003cf5 Homepage: https://cran.r-project.org/package=HMDA Description: CRAN Package 'HMDA' (Holistic Multimodel Domain Analysis for Exploratory MachineLearning) Holistic Multimodel Domain Analysis (HMDA) is a robust and transparent framework designed for exploratory machine learning research, aiming to enhance the process of feature assessment and selection. HMDA addresses key limitations of traditional machine learning methods by evaluating the consistency across multiple high-performing models within a fine-tuned modeling grid, thereby improving the interpretability and reliability of feature importance assessments. Specifically, it computes Weighted Mean SHapley Additive exPlanations (WMSHAP), which aggregate feature contributions from multiple models based on weighted performance metrics. HMDA also provides confidence intervals to demonstrate the stability of these feature importance estimates. This framework is particularly beneficial for analyzing complex, multidimensional datasets common in health research, supporting reliable exploration of mental health outcomes such as suicidal ideation, suicide attempts, and other psychological conditions. Additionally, HMDA includes automated procedures for feature selection based on WMSHAP ratios and performs dimension reduction analyses to identify underlying structures among features. For more details see Haghish (2025) . Package: r-cran-hmdhfdplus Architecture: all Version: 2.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-rvest, r-cran-dplyr, r-cran-janitor, r-cran-lubridate, r-cran-readr, r-cran-stringr, r-cran-tidyr, r-cran-rlang, r-cran-tidyselect Suggests: r-cran-rcurl Filename: pool/dists/focal/main/r-cran-hmdhfdplus_2.0.6-1.ca2004.1_all.deb Size: 79128 MD5sum: 600b514b411cb9b4e6439f2546905472 SHA1: 786e9baa3e19155cdc46571a73c08eb5bb33e124 SHA256: 83a4733636e9ca4eb057cb2e0eedf39b671df3b7b3693bd7bbf33afbf6646c35 SHA512: c7165c52bd60ae4097295e8717c77927a5f168aad87dac7f09ea075045b33c6b248ad9f319886d25dbd6281425699b8067000fb4a848e5b156d1dcd987e4b6c6 Homepage: https://cran.r-project.org/package=HMDHFDplus Description: CRAN Package 'HMDHFDplus' (Read Human Mortality Database and Human Fertility Database Datafrom the Web) Utilities for reading data from the Human Mortality Database (), Human Fertility Database (), and similar databases from the web or locally into an R session as data.frame objects. These are the two most widely used sources of demographic data to study basic demographic change, trends, and develop new demographic methods. Other supported databases at this time include the Human Fertility Collection (), The Japanese Mortality Database (), and the Canadian Human Mortality Database (). Arguments and data are standardized. Package: r-cran-hmeasure Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 450 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mass, r-cran-class, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hmeasure_1.0-2-1.ca2004.1_all.deb Size: 381268 MD5sum: 7744180a09a1b6260a3a80397cd47b58 SHA1: cdf3eb25ce74d6323ec1e6038f3345e8b21d7501 SHA256: 4253fd1c709be8166555c1975dd0f50dc4cdd9c4163d6e7e3d8cd11b9bd02e55 SHA512: ee6cda6fb2dec36c211430e970f3a3ece471e3aac35ea562ee03f22da544e9b618d21d535d8d67fabefaa21bede594617648e1773e698c84e37d53aba8bbaab9 Homepage: https://cran.r-project.org/package=hmeasure Description: CRAN Package 'hmeasure' (The H-Measure and Other Scalar Classification PerformanceMetrics) Classification performance metrics that are derived from the ROC curve of a classifier. The package includes the H-measure performance metric as described in , which computes the minimum total misclassification cost, integrating over any uncertainty about the relative misclassification costs, as per a user-defined prior. It also offers a one-stop-shop for other scalar metrics of performance, including sensitivity, specificity and many others, and also offers plotting tools for ROC curves and related statistics. Package: r-cran-hmer Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4158 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-purrr, r-cran-dplyr, r-cran-ggplot2, r-cran-lhs, r-cran-mass, r-cran-r6, r-cran-viridis, r-cran-mvtnorm, r-cran-ggally, r-cran-rlang, r-cran-isoband, r-cran-cluster, r-cran-pdist, r-cran-ggbeeswarm, r-cran-stringr Suggests: r-cran-spelling, r-cran-knitr, r-cran-rmarkdown, r-cran-desolve, r-cran-testthat, r-cran-covr, r-cran-progressr Filename: pool/dists/focal/main/r-cran-hmer_1.6.0-1.ca2004.1_all.deb Size: 3143564 MD5sum: a30160e454480890df55cc265178a4b4 SHA1: a3f5ce06cf5fc1036f4a855b11a52fd01649b8e2 SHA256: fb1a7ddf31736775f617db1028985450fcaf987bd4b9a0402030ae94ea8ca63f SHA512: 241c1574c7061b5e4e4a0c292ca85b81a9db536dc0113234b8d78c28fa4805b7bd5206be35b89a765f4d3f8463a400df4ce9bc6f632f1efb85393f5b780ebd84 Homepage: https://cran.r-project.org/package=hmer Description: CRAN Package 'hmer' (History Matching and Emulation Package) A set of objects and functions for Bayes Linear emulation and history matching. Core functionality includes automated training of emulators to data, diagnostic functions to ensure suitability, and a variety of proposal methods for generating 'waves' of points. For details on the mathematical background, there are many papers available on the topic (see references attached to function help files or the below references); for details of the functions in this package, consult the manual or help files. Iskauskas, A, et al. (2024) . Bower, R.G., Goldstein, M., and Vernon, I. (2010) . Craig, P.S., Goldstein, M., Seheult, A.H., and Smith, J.A. (1997) . Package: r-cran-hmi Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 984 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-boot, r-cran-broom.mixed, r-cran-coda, r-cran-linlir, r-cran-lme4, r-cran-matrix, r-cran-mcmcglmm, r-cran-mice, r-cran-msm, r-cran-mvtnorm, r-cran-nlme, r-cran-nnet, r-cran-ordinal, r-cran-rlang, r-cran-tmvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hmi_1.0.0-1.ca2004.1_all.deb Size: 787924 MD5sum: 6e21f8f35579170dbd83a2463fa4257f SHA1: 4088476c0b2263223f6c5f8ab2643a4d06681df4 SHA256: 36289e1a80b7865c1e2622e074224c2e32ddae7ea1df3ddac910aaa6c408efaf SHA512: 8308260123324bf6e264f3dc261c3d0e17228ebcd6f0feea3738e5acfa7623805b4097118cfc370559dbf5eae91afb90209a3b5e842fc548c5d12fe8f187ac49 Homepage: https://cran.r-project.org/package=hmi Description: CRAN Package 'hmi' (Hierarchical Multiple Imputation) Runs single level and multilevel imputation models as described in Speidel, Drechsler and Jolani (2020) . The user just has to pass the data to the main function and, optionally, his analysis model. Basically the package then translates this analysis model into commands to impute the data according to it with functions from 'mice', 'MCMCglmm' or routines build for this package. Package: r-cran-hmix Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-normalp, r-cran-glogis, r-cran-gld, r-cran-edfun, r-cran-purrr, r-cran-hmm, r-cran-mc2d, r-cran-cubature, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hmix_1.0.2-1.ca2004.1_all.deb Size: 49432 MD5sum: 90097e269db2d9e49a244be5f0634467 SHA1: b66cfe40011c94d96a5839058ae7f6d93ae70d12 SHA256: b58336987137e2402a739325112f82c0fd888ced8b3b800850e647cb86612980 SHA512: 9687829202cbf60d3903fb471fc3d7ae5b303d67df2a7c8399aa1ae42e023b6b4c754651522d5f70fa0dd020914593eef1150fbd9562d975cd4f056e467f8be8 Homepage: https://cran.r-project.org/package=hmix Description: CRAN Package 'hmix' (Hidden Markov Model for Predicting Time Sequences with MixtureSampling) An algorithm for time series analysis that leverages hidden Markov models, cluster analysis, and mixture distributions to segment data, detect patterns and predict future sequences. Package: r-cran-hmm Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hmm_1.0.2-1.ca2004.1_all.deb Size: 58336 MD5sum: 412dd506f2247166fb09d7cf69215711 SHA1: aa1a618954aeccedbdcdbc0faba4aececa45b01f SHA256: 5fba999c11f6d93d21d67d80b3d096479acd9e602151de55cc731a93bb142379 SHA512: e851c2c3dee0b144dee8c1e03fede21dc4a4318df4ebdaf02a6ba294f868b120b2799e47892d924ae69c51b5ee8cf6cc4f1524a74eaefd085f6db0d998ddcabb Homepage: https://cran.r-project.org/package=HMM Description: CRAN Package 'HMM' (Hidden Markov Models) Easy to use library to setup, apply and make inference with discrete time and discrete space Hidden Markov Models. Package: r-cran-hmmcont Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hmmcont_1.0-1.ca2004.1_all.deb Size: 51848 MD5sum: bcc7d5c0710650b20c6905d756a6249f SHA1: 92b02549cae13bd3054ada800e4c501c09d4b232 SHA256: 7c9d493dce4b64662c8d6ff626913e335d1e9445f1b8b8ebac1962111c316fe6 SHA512: b6272c498a7b3c93faf1b79d61ec43af36b725413a8208842af9f4ae70d5279824a9ded8ebdd120b60499719bd8c579d208454bf0a40b3a0ad07954a2a252d44 Homepage: https://cran.r-project.org/package=HMMCont Description: CRAN Package 'HMMCont' (Hidden Markov Model for Continuous Observations Processes) The package includes the functions designed to analyse continuous observations processes with the Hidden Markov Model approach. They include Baum-Welch and Viterbi algorithms and additional visualisation functions. The observations are assumed to have Gaussian distribution and to be weakly stationary processes. The package was created for analyses of financial time series, but can also be applied to any continuous observations processes. Package: r-cran-hmmcopula Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm, r-cran-foreach, r-cran-doparallel, r-cran-copula Filename: pool/dists/focal/main/r-cran-hmmcopula_1.1.0-1.ca2004.1_all.deb Size: 113040 MD5sum: 400e7d9eeace75f070f94ac14617b3d4 SHA1: 2e8de97982276c2bc031c1f84eb2d8fc2c68d0a1 SHA256: 5470ec91e8a3672d2454bcf846e56814611c32cdf33948a4b76407e86587854e SHA512: b997212dad7d0211fe3eb8da7e672d2af97a85ab8eea64acc8125aa9c7c707b721d214e3b9ae302ed1c8408e7768f235ee83222ec948186a234dc6e69a9c68e7 Homepage: https://cran.r-project.org/package=HMMcopula Description: CRAN Package 'HMMcopula' (Markov Regime Switching Copula Models Estimation andGoodness-of-Fit) Estimation procedures and goodness-of-fit test for several Markov regime switching models and mixtures of bivariate copula models. The goodness-of-fit test is based on a Cramer-von Mises statistic and uses Rosenblatt's transform and parametric bootstrap to estimate the p-value. The proposed methodologies are described in Nasri, Remillard and Thioub (2020) . Package: r-cran-hmmm Architecture: all Version: 1.0-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 756 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quadprog, r-cran-mass, r-cran-mvtnorm, r-cran-nleqslv Filename: pool/dists/focal/main/r-cran-hmmm_1.0-5-1.ca2004.1_all.deb Size: 640180 MD5sum: 1a90b8fac2fc6da7a6d8a8d9ddd14bc3 SHA1: 75120596be35a851dc932a19d64bd5f1367dbdd1 SHA256: 3f1051705e327c8bb6a829f3d97c65411541fb9854cc21d897a9c0457ae26b60 SHA512: ed093dc5a996566a9070eb89d6699686a8e41cd39c76eaed045163216938c182ad0241c82b275e8387414c3106added97cf42485af45f69271c43ca3e812a0d6 Homepage: https://cran.r-project.org/package=hmmm Description: CRAN Package 'hmmm' (Hierarchical Multinomial Marginal Models) Functions for specifying and fitting marginal models for contingency tables proposed by Bergsma and Rudas (2002) here called hierarchical multinomial marginal models (hmmm) and their extensions presented by Bartolucci, Colombi and Forcina (2007) ; multinomial Poisson homogeneous (mph) models and homogeneous linear predictor (hlp) models for contingency tables proposed by Lang (2004) and Lang (2005) . Inequality constraints on the parameters are allowed and can be tested. Package: r-cran-hmmpa Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 219 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hmmpa_1.0.2-1.ca2004.1_all.deb Size: 190588 MD5sum: 7b085e022fb2ffc1f08518a977dd5519 SHA1: 4a4059648e0bd40731cc01010594bf58ca5d6cd9 SHA256: 82dcd204fd3a6c6467b8bbfa8d311953bd15773f637e2cb1a104da69672422eb SHA512: 276f5ad13c5012f35885de10421e5431707fc5af7eeeec254047b2662a2052e21408dcf7e5aa440bdaf84c8fd4591bc97a7758feaaf150d178e63ffc52370641 Homepage: https://cran.r-project.org/package=HMMpa Description: CRAN Package 'HMMpa' (Analysing Accelerometer Data Using Hidden Markov Models) Analysing time-series accelerometer data to quantify length and intensity of physical activity using hidden Markov models. It also contains the traditional cut-off point method. Witowski V, Foraita R, Pitsiladis Y, Pigeot I, Wirsik N (2014). . Package: r-cran-hmmr Architecture: all Version: 1.0-0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 469 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-depmixs4 Suggests: r-cran-boot Filename: pool/dists/focal/main/r-cran-hmmr_1.0-0.1-1.ca2004.1_all.deb Size: 438508 MD5sum: 257a389ced86db0d3cd12d955839bd63 SHA1: 1e3c7e06c9b1a802ed0e79bd77c10df2b20390d3 SHA256: 2a81cdafcc2ba6beb8ca089cf5a99f37b84b48f4de344b0b11e0b4b9d502fcc3 SHA512: e8e1e3da8024d627aa88a9e0085bcf520842fba44ffd171f661ff4f99f7f26532abb067fdab7457f0bc580db2f9beaadc090185dfcca4fcb795f21958ae1818b Homepage: https://cran.r-project.org/package=hmmr Description: CRAN Package 'hmmr' ("Mixture and Hidden Markov Models with R" Datasets and ExampleCode) Datasets and code examples that accompany our book Visser & Speekenbrink (2021), "Mixture and Hidden Markov Models with R", . 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References, Arcagni, A., Grassi, R., Stefani, S., & Torriero, A. (2017) Arcagni, A., Grassi, R., Stefani, S., & Torriero, A. (2021) Arcagni, A., Cerqueti, R., & Grassi, R. (2023) . 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Package: r-cran-holobiont Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-bioc-phyloseq, r-cran-phytools, r-cran-ggplot2, r-cran-dplyr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-holobiont_0.1.2-1.ca2004.1_all.deb Size: 95608 MD5sum: 6469a5c2b1f7a38474173a11422521e3 SHA1: d92bcfe20087962b0785762edff2259ad2f8eae4 SHA256: d860f002c53d12f3cc0411212f3b412d2dca329c802b5c0039369948eebcacd4 SHA512: 36bbbc32555d2f95a62be80d92bc4ce55dae7a8365fdcabf0048523cc995c25d8bb5802a8ef0fab41fc5f14d7c76344e37dec3e5e529927a2a8b585d00f8f003 Homepage: https://cran.r-project.org/package=holobiont Description: CRAN Package 'holobiont' (Microbiome Analysis Tools) We provide functions for identifying the core community phylogeny in any microbiome, drawing phylogenetic Venn diagrams, calculating the core Faith’s PD for a set of communities, and calculating the core UniFrac distance between two sets of communities. 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After the upload of the omics datasets and a metadata file, single-omics is performed for feature selection and dataset reduction. These datasets are used for pairwise- and multi-omics analyses, where automatic tuning is done to identify correlations between the datasets - the end goal of the recommended 'Holomics' workflow. Methods used in the package were implemented in the package 'mixomics' by Florian Rohart,Benoît Gautier,Amrit Singh,Kim-Anh Lê Cao (2017) and are described there in further detail. 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Package: r-cran-homeric Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-homeric_0.1-3-1.ca2004.1_all.deb Size: 17044 MD5sum: 059c3937ad6ddf273503c6eaa24b9a90 SHA1: 78148b1f30017c0e6786e859121b216ff091549d SHA256: 68c645a86532b32f30b1d27cbe5878a59dd56df38cd199dffc22aae38cda0840 SHA512: 8765212ce4147baecc14d6831aaac3c3c1162e36ff8e4160fe88fb68e824ab2bfe127bd5d5ae427035f8cef7005d8bdc8071edeff14671431ebdc85f19c5e8e4 Homepage: https://cran.r-project.org/package=Homeric Description: CRAN Package 'Homeric' (Doughnut Plots) A simple implementation of doughnut plots - pie charts with a blank center. The package is named after Homer Simpson - arguably the best-known lover of doughnuts. Package: r-cran-homnormal Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-huxtable Filename: pool/dists/focal/main/r-cran-homnormal_0.1-1.ca2004.1_all.deb Size: 70892 MD5sum: 99359ffa32c8b98a88931c4e09d8c4e8 SHA1: f9b776b76ce72170bc727f17fb581ab6e0b6f164 SHA256: 0b6f9dc09d9f71947ab4f988215c9d0d663e0d98834f849fb04618755c66ed1e SHA512: 99607eb7b276648ea1a6795c926fbb3ad3b0b01cbc0dbc4d8b35264cba442213faab71278c6028c24e2c186dede367fb0fd8c9ae45c5f02ae42f4c8e508eaf52 Homepage: https://cran.r-project.org/package=homnormal Description: CRAN Package 'homnormal' (Tests of Homogeneity of Variances) Most common exact, asymptotic and resample based tests are provided for testing the homogeneity of variances of k normal distributions under normality. These tests are Barlett, Bhandary & Dai, Brown & Forsythe, Chang et al., Gokpinar & Gokpinar, Levene, Liu and Xu, Gokpinar. Also, a data generation function from multiple normal distribution is provided using any multiple normal parameters. Bartlett, M. S. (1937) Bhandary, M., & Dai, H. (2008) Brown, M. B., & Forsythe, A. B. (1974). Chang, C. H., Pal, N., & Lin, J. J. (2017) Gokpinar E. & Gokpinar F. (2017) Liu, X., & Xu, X. (2010) Levene, H. (1960) Gökpınar, E. (2020) . 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The included vignettes demonstrate the encryption procedures. 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Package: r-cran-hoopr Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2446 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-data.table, r-cran-dplyr, r-cran-furrr, r-cran-future, r-cran-glue, r-cran-httr, r-cran-janitor, r-cran-jsonlite, r-cran-lubridate, r-cran-magrittr, r-cran-progressr, r-cran-purrr, r-cran-rcpp, r-cran-rcppparallel, r-cran-rlang, r-cran-rvest, r-cran-stringr, r-cran-tidyr, r-cran-usethis Suggests: r-cran-crayon, r-cran-curl, r-cran-dbi, r-cran-ggplot2, r-cran-ggrepel, r-cran-qs, r-cran-rmarkdown, r-cran-rsqlite, r-cran-stringi, r-cran-testthat, r-cran-tibble, r-cran-xml2, r-cran-yaml Filename: pool/dists/focal/main/r-cran-hoopr_2.1.0-1.ca2004.1_all.deb Size: 2212684 MD5sum: 2117e1bb2cad9290bbbf7c06ceabe0e3 SHA1: 7b7c567c8696d9522b0aca593e8639da2d910d22 SHA256: 9fc50f359db6836b565aea53909a39087fa6810af94bf7565e549e774140d455 SHA512: c927f5b723b0c96370fadcd7d68682f47edc9eae2d7de8b4cdeb4b0a5674e9d934afacc2c13f7055ca35006b3c5836ad882c59ac91c89da76fc100a6e7e52637 Homepage: https://cran.r-project.org/package=hoopR Description: CRAN Package 'hoopR' (Access Men's Basketball Play by Play Data) A utility to quickly obtain clean and tidy men's basketball play by play data. Provides functions to access live play by play and box score data from ESPN with shot locations when available. It is also a full NBA Stats API wrapper. It is also a scraping and aggregating interface for Ken Pomeroy's men's college basketball statistics website. It provides users with an active subscription the capability to scrape the website tables and analyze the data for themselves. Package: r-cran-hopbyhop Architecture: all Version: 3.41-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pastecs, r-cran-ggplot2 Suggests: r-cran-endtoend, r-cran-opportunistic Filename: pool/dists/focal/main/r-cran-hopbyhop_3.41-1.ca2004.1_all.deb Size: 40116 MD5sum: afec0f21d96080516694d07037adaf04 SHA1: 38ceb7a73dd08a0e5ab778573ed983d8b88915a2 SHA256: ddbaf92f0492a06935831d9266033d4f603c3b8bf333dc98fe1b2fe814bebf66 SHA512: 5d89d42206452b2fdeb5da0bfc41786ed524802a5ed46ebbf7bf3520a77a4c77b2b9be86f7e197352037176cc1af6a968b3f10d3810774b6ed6819ed618aaa95 Homepage: https://cran.r-project.org/package=hopbyhop Description: CRAN Package 'hopbyhop' (Transmissions and Receptions in a Hop by Hop Network) Computes the expectation of the number of transmissions and receptions considering a Hop-by-Hop transport model with limited number of retransmissions per packet. It provides the theoretical results shown in Palma et. al.(2016) and also estimated values based on Monte Carlo simulations. It is also possible to consider random data and ACK probabilities. Package: r-cran-hopkins Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-donut, r-cran-pdist, r-cran-rann Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spatstat.data, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hopkins_1.1-1.ca2004.1_all.deb Size: 76524 MD5sum: 5a7e9c5a9e0d2cb8377424846f8987ef SHA1: b4cf894bc90edfa88a1eb41d3c5bb2606d743e34 SHA256: 2d75910caa8d123a24b85416b5564ffa972a83d0513e536ac5b848827a0c6901 SHA512: 6eae33e0ce139b9bd2c57114f5c818a5e283a752de20721977acc661fd366ab049036d5518b2ddc34f5f717e32b9a97eb66188105ebc9a536c394e8c2c77f587 Homepage: https://cran.r-project.org/package=hopkins Description: CRAN Package 'hopkins' (Calculate Hopkins Statistic for Clustering) Calculate Hopkins statistic to assess the clusterability of data. See Wright (2023) . Package: r-cran-horm Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 211 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-mass, r-cran-orthopolynom, r-cran-quantmod, r-cran-rsm Filename: pool/dists/focal/main/r-cran-horm_0.1.4-1.ca2004.1_all.deb Size: 160908 MD5sum: 1ea7b534ea4ddcd4e8aadf0d50402254 SHA1: a4ced0922e9768f33f7a6319ee2f0a9e36c57d1e SHA256: fe3e049759854eaf3f39fe27e27d28ffd78a97287f04b52bae5c2ff21703c2f2 SHA512: 49be4659a57861623d852733b84285b8cebfcab970d6273db640358708e590f372296bfa985bbdbef1faf9cc719094f1a902096db29e58f9dd7b911db8c1d618 Homepage: https://cran.r-project.org/package=HoRM Description: CRAN Package 'HoRM' (Supplemental Functions and Datasets for "Handbook of RegressionMethods") Supplement for the book "Handbook of Regression Methods" by D. S. Young. Some datasets used in the book are included and documented. Wrapper functions are included that simplify the examples in the textbook, such as code for constructing a regressogram and expanding ANOVA tables to reflect the total sum of squares. Package: r-cran-hornpa Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hornpa_1.1.1-1.ca2004.1_all.deb Size: 14776 MD5sum: 45d780b28575e6c23261e8b44d3fc0bd SHA1: 83b7e719ce504f5a162fa506daa13366ebe7fecc SHA256: 9a6f7a1517ebc9d172f97600308ec8724df77803123b18053e783452c9c61f1a SHA512: 8ac95e94c408d9a74c657a99d6d964d115903378b9abb14b2bed5f8b610acd5cddc0a4da5e8014e37187120b5d16abda456f724deedca80294e0cb787dafdf62 Homepage: https://cran.r-project.org/package=hornpa Description: CRAN Package 'hornpa' (Horn's (1965) Test to Determine the Number of Components/Factors) A stand-alone function that generates a user specified number of random datasets and computes eigenvalues using the random datasets (i.e., implements Horn's [1965, Psychometrika] parallel analysis ). Users then compare the resulting eigenvalues (the mean or the specified percentile) from the random datasets (i.e., eigenvalues resulting from noise) to the eigenvalues generated with the user's data. Can be used for both principal components analysis (PCA) and common/exploratory factor analysis (EFA). The output table shows how large eigenvalues can be as a result of merely using randomly generated datasets. If the user's own dataset has actual eigenvalues greater than the corresponding eigenvalues, that lends support to retain that factor/component. In other words, if the i(th) eigenvalue from the actual data was larger than the percentile of the (i)th eigenvalue generated using randomly generated data, empirical support is provided to retain that factor/component. Horn, J. (1965). A rationale and test for the number of factors in factor analysis. Psychometrika, 32, 179-185. Package: r-cran-horsekicks Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-horsekicks_1.0.2-1.ca2004.1_all.deb Size: 48484 MD5sum: e6b702d7686d2d17b46f8a23f4b2e207 SHA1: e26047dbb60b8dffb5830f4af545b160d932e91d SHA256: ef36d75b768c25e2a6dc9c1580482dda0caabb098ef275f2e98c0fe558bb96fa SHA512: 32eb49beba4080665801cc200835f2822b4f3c0495aec4d787af4d47d78bca8645e42e85aeae59ac552cd898d0f3a0a1826533f642bebb62eb8a275748eec70f Homepage: https://cran.r-project.org/package=Horsekicks Description: CRAN Package 'Horsekicks' (Provide Extensions to the Prussian Army Death by Horsekick Data) We provide extensions to the classical dataset "Example 4: Death by the kick of a horse in the Prussian Army" first used by Ladislaus von Bortkeiwicz in his treatise on the Poisson distribution "Das Gesetz der kleinen Zahlen", . As well as an extended time series for the horse-kick death data, we also provide, in parallel, deaths by falling from a horse and by drowning. Package: r-cran-horseshoe Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 555 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-hmisc, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-horseshoe_0.2.0-1.ca2004.1_all.deb Size: 351172 MD5sum: 1872dd85501208da6149b6b66db9fbb3 SHA1: bf2b896e0c274c99729e81432cd5f10aeb724b7d SHA256: 35a5599a712d6759a38d11769e7ff34fee56371c60ce1aa111dc52ba7e56e0ab SHA512: e103cd5a5be9aaf30cc201490abc2ee2d43ae0e950da65396dc190eff05a6547fc96feff1167160102c2a11edba3d691cf2ef8c7eb5b68a2cf05af87cc039767 Homepage: https://cran.r-project.org/package=horseshoe Description: CRAN Package 'horseshoe' (Implementation of the Horseshoe Prior) Contains functions for applying the horseshoe prior to high- dimensional linear regression, yielding the posterior mean and credible intervals, amongst other things. The key parameter tau can be equipped with a prior or estimated via maximum marginal likelihood estimation (MMLE). The main function, horseshoe, is for linear regression. In addition, there are functions specifically for the sparse normal means problem, allowing for faster computation of for example the posterior mean and posterior variance. Finally, there is a function available to perform variable selection, using either a form of thresholding, or credible intervals. Package: r-cran-horseshoenlm Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-msm Suggests: r-cran-boot, r-cran-pgdraw, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-horseshoenlm_0.0.6-1.ca2004.1_all.deb Size: 70512 MD5sum: cbb77587dabb486d20e092a0f94f9156 SHA1: 482864761325def984538d4b473d8a3d819dd535 SHA256: 0dd38384b2c03caa357493146ab1102970c3dd290845e22cf1de79816ac11ff2 SHA512: eb13d912e674711231c495e334b8c5cf8e6d841034994802e33efea1cdffe10ccd27212d28bd95907e7329ffd8453f14bb736ae9e798a51dbe5d127b5cff39bf Homepage: https://cran.r-project.org/package=horseshoenlm Description: CRAN Package 'horseshoenlm' (Nonlinear Regression using Horseshoe Prior) Provides the posterior estimates of the regression coefficients when horseshoe prior is specified. The regression models considered here are logistic model for binary response and log normal accelerated failure time model for right censored survival response. The linear model analysis is also available for completeness. All models provide deviance information criterion and widely applicable information criterion. See Maity et. al. (2019) Maity et. al. (2020). Package: r-cran-hosm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-maps, r-cran-sf, r-cran-tidyverse, r-cran-units, r-cran-tibble, r-cran-readxl Filename: pool/dists/focal/main/r-cran-hosm_0.1.0-1.ca2004.1_all.deb Size: 22528 MD5sum: 381d2a371312952639f53e3d3b701fdb SHA1: 3e8bd301afbe1d6d6619439208e59a348537a25e SHA256: 7e54b25047a0e77877c63fc2a3232d83349b44f51cded51a8419d0ac54d6aa4b SHA512: 1aeac33e63e5e3b5507f0a9452b9717e5e211d81dda3384ad510f0771ed1fb53298a70558e3a2c5a784bcb60e2dc3b020d4d46e04219edec0ced9b9845869178 Homepage: https://cran.r-project.org/package=hosm Description: CRAN Package 'hosm' (High Order Spatial Matrix) Automatically displays the order and spatial weighting matrix of the distance between locations. This concept was derived from the research of Mubarak, Aslanargun, and Siklar (2021) and Mubarak, Aslanargun, and Siklar (2022) . Distance data between locations can be imported from 'Ms. Excel', 'maps' package or created in 'R' programming directly. This package also provides 5 simulations of distances between locations derived from fictitious data, the 'maps' package, and from research by Mubarak, Aslanargun, and Siklar (2022) . Package: r-cran-hospitalnetwork Architecture: all Version: 0.9.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 477 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-checkmate, r-cran-igraph, r-cran-lubridate, r-cran-r6, r-cran-ggplot2, r-cran-ggraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-shiny, r-cran-shinywidgets, r-cran-shinydashboard, r-cran-dt, r-cran-shinyalert, r-cran-shinyjs, r-cran-vdiffr, r-cran-pander, r-cran-glue, r-cran-golem, r-cran-htmltools Filename: pool/dists/focal/main/r-cran-hospitalnetwork_0.9.4-1.ca2004.1_all.deb Size: 318520 MD5sum: 79b3907dff3a555eb5a70502a0f62d64 SHA1: 9dddd29f23be79914ee2c31c17d1c3b750558a7d SHA256: 7c4f5c4f0a98f30ee1c0ac05ab39cda6c2ee59e67c3ed5de790f065e432feb1f SHA512: 10a2bfcad999f0e5cb6584ba908c062425d55654d8d80626da48ec871a1bfeb886aa74bff1ca9f53fbcd5a719c4517361c02b4ee4d8500cb045c5ed6905f44c1 Homepage: https://cran.r-project.org/package=HospitalNetwork Description: CRAN Package 'HospitalNetwork' (Building Networks of Hospitals Through Patients Transfers) Set of tools to help interested researchers to build hospital networks from data on hospitalized patients transferred between hospitals. Methods provided have been used in Donker T, Wallinga J, Grundmann H. (2010) , and Nekkab N, Crépey P, Astagneau P, Opatowski L, Temime L. (2020) . Package: r-cran-hospitals Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 344 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-stringr, r-cran-tibble Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hospitals_0.1.0-1.ca2004.1_all.deb Size: 64540 MD5sum: 7fe8917a20141913c813d1f9ce8b984b SHA1: 105bc2301d3ba3d7a241595dcb142a195f821c94 SHA256: 1be4ced596f4b8354fe226f78b533a038ba2d6f5ba9f9712f5b10e7bfd25bf98 SHA512: 3750ade02a06e2e7cedd47298bf80b8fc414ceed7d8a9feeab7864e9187f64ba36d8e12f1f671e7eaaa3228c4a6a511587548154d90c638f0fa4dc42e0a43c67 Homepage: https://cran.r-project.org/package=hospitals Description: CRAN Package 'hospitals' (Portuguese 'NHS' Hospitals) A data set of the Portuguese 'NHS' hospitals. 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Provides the semi-axes of the Hotelling’s T-squared ellipses at 95% and 99% confidence levels. Enables users to obtain the coordinates in two or three dimensions at user-defined confidence levels, allowing for the construction of 2D or 3D ellipses with customized confidence levels. Bro and Smilde (2014) . Brereton (2016) . Package: r-cran-hotspot Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hotspot_1.0-1.ca2004.1_all.deb Size: 90184 MD5sum: acd407c907d1ddbbc7c5b544a7353bfb SHA1: 816d1951b4cabacc5cdb7f2acae4453a778b4431 SHA256: 0fcb4bbcd09b16d2bf887a8bad2a771ab28fcd3be5c7bef869e7319058b6b534 SHA512: 43058e011f3b3ec3ee2949555aeccce141152ad5999f84cc15246820641901c0029cc7c14ffafdce90a96c40c19d4bd2ffb120b9590033e8dde84af41ff19a58 Homepage: https://cran.r-project.org/package=hotspot Description: CRAN Package 'hotspot' (Software Hotspot Analysis) Contains data for software hotspot analysis, along with a function performing the analysis itself. 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The prof/cls lessons must be completed with a "hour" field ('ora), so that any two prof/cls/ora lessons do not overlap in the same hour. . Package: r-cran-housingdata Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2601 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-housingdata_0.3.0-1.ca2004.1_all.deb Size: 2084460 MD5sum: 4047b36504d203d8e9518cd40544f0fe SHA1: eb51f0b20939655f6c65b1e041f5b04dd0c954b0 SHA256: c655e6bbd78a665b64d74c7f636fc201c9d4ca88805779abed9940cd306cd281 SHA512: 156043572b4aec0d94ee5525e2d07b96171310b2868eb0c66e5b24abab4a5f2fbdf6ec8a3cfe15eb3382528515b87498f1b338bf6cf94fc619a377e9925e4ccd Homepage: https://cran.r-project.org/package=housingData Description: CRAN Package 'housingData' (U.S. Housing Data from 2008 to 2016) Monthly median home listing, sale price per square foot, and number of units sold for 2984 counties in the contiguous United States From 2008 to January 2016. Additional data sets containing geographical information and links to Wikipedia are also included. 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Package: r-cran-htestclust Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 346 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-bootstrap, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-htestclust_0.2.2-1.ca2004.1_all.deb Size: 233076 MD5sum: 152e290fc804b71fba710fc6cbcce8cb SHA1: 3708e2c9c45dfaa1e3ee7940b72d060751b4a664 SHA256: 7eb8ca3eee825106894554263398741dd28d0c90599c8a3218667ac509af0489 SHA512: 895b7bfd32b60edc3b49ab272f2ee811ffdd777a22503606730b32a235baeef707b4cad0fe63f1e8f5ffc91ce8263c621a3abb26aacd48b1f4c530cc1357b6b5 Homepage: https://cran.r-project.org/package=htestClust Description: CRAN Package 'htestClust' (Reweighted Marginal Hypothesis Tests for Clustered Data) A collection of reweighted marginal hypothesis tests for clustered data, based on reweighting methods of Williamson, J., Datta, S., and Satten, G. (2003) . The tests in this collection are clustered analogs to well-known hypothesis tests in the classical setting, and are appropriate for data with cluster- and/or group-size informativeness. The syntax and output of functions are modeled after common, recognizable functions native to R. Methods used in the package refer to Gregg, M., Datta, S., and Lorenz, D. (2020) , Nevalainen, J., Oja, H., and Datta, S. (2017) Dutta, S. and Datta, S. (2015) , Lorenz, D., Datta, S., and Harkema, S. (2011) , Datta, S. and Satten, G. (2008) , Datta, S. and Satten, G. (2005) . Package: r-cran-htgm2d Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1236 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-minimalistgodb, r-cran-gominer, r-cran-htgm, r-cran-gplots, r-cran-jaccard, r-cran-vprint, r-cran-randomgodb, r-cran-hgnchelper Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-htgm2d_1.1-1.ca2004.1_all.deb Size: 938636 MD5sum: 4354f2aac2ddca0303a4350220ad251f SHA1: e44d1393644907b190c692cb88190e788cf4296a SHA256: d002aa92bc0882a123f7a18d37c7edc57a95d4b0c05b9ab6b10308480a8f9f06 SHA512: 44f3fbf33f61769c6ef39e797d49c0dbde64e82463e5b3b552812ce8286465df0edea998f3cd9fe5a98e812ccb241e34bc9eec513672cdebd8afb3fe980067eb Homepage: https://cran.r-project.org/package=HTGM2D Description: CRAN Package 'HTGM2D' (Two Dimensional High Throughput 'GoMiner') The Gene Ontology (GO) Consortium organizes genes into hierarchical categories based on biological process (BP), molecular function (MF) and cellular component (CC, i.e., subcellular localization). Tools such as 'GoMiner' (see Zeeberg, B.R., Feng, W., Wang, G. et al. (2003) ) can leverage GO to perform ontological analysis of microarray and proteomics studies, typically generating a list of significant functional categories. Microarray studies are usually analyzed with BP, whereas proteomics researchers often prefer CC. To capture the benefit of both of those ontologies, I developed a two-dimensional version of 'High-Throughput GoMiner' ('HTGM2D'). I generate a 2D heat map whose axes are any two of BP, MF, or CC, and the value within a picture element of the heat map reflects the Jaccard metric p-value for the number of genes in common for the corresponding pair. Package: r-cran-htgm3d Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1841 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-minimalistgodb, r-cran-gominer, r-cran-htgm, r-cran-htgm2d, r-cran-r2html, r-cran-rgl, r-cran-vprint, r-cran-randomgodb, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-htgm3d_1.0-1.ca2004.1_all.deb Size: 1309524 MD5sum: 1ed918097725aa2e31b5438a10d3ec12 SHA1: 89497a93e838491baa86e9972f304a4ea7219e15 SHA256: 1b2480b7b14a66f38f740b1d5cfe553fc5ccd8703b486cde9c27f42ab780cd19 SHA512: 0b1ef043488314a480d8db89482bd192a9588035c46dd6d253715c5cf35b50a177ff556036ffe1a75c3c9675465fa9713986b73a8eb79a512269342a249f0bb2 Homepage: https://cran.r-project.org/package=HTGM3D Description: CRAN Package 'HTGM3D' (Three Dimensional High Throughput 'GoMiner') The Gene Ontology (GO) Consortium organizes genes into hierarchical categories based on biological process (BP), molecular function (MF) and cellular component (CC, i.e., subcellular localization). Tools such as 'GoMiner' (see Zeeberg, B.R., Feng, W., Wang, G. et al. (2003) ) can leverage GO to perform ontological analysis of microarray and proteomics studies, typically generating a list of significant functional categories. To capture the benefit of all three ontologies, I developed 'HTGM3D', a three-dimensional version of 'GoMiner'. Package: r-cran-htgm Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2290 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-minimalistgodb, r-cran-gominer, r-cran-gplots, r-cran-vprint Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-htgm_1.2-1.ca2004.1_all.deb Size: 836072 MD5sum: 84fe0aa49156313a3cbd5020f63cd775 SHA1: 215f55692fac4fd647ad2f2721750fc78c9bb5f5 SHA256: 904461a4051322c895c7044f74bdd19c30e35de80e9e7c6a7714b04a3e628fc8 SHA512: 1cefa7036779500398b4d9d13edb756efb915570a9ee6f0331d5544445d2ba7c2c1a7a067e915155d312b024fe6b5c7f86fc3585e973bbbc1ead8c79864e4f0f Homepage: https://cran.r-project.org/package=HTGM Description: CRAN Package 'HTGM' (High Throughput 'GoMiner') Two papers published in the early 2000's (Zeeberg, B.R., Feng, W., Wang, G. et al. (2003) ) and (Zeeberg, B.R., Qin, H., Narashimhan, S., et al. (2005) ) implement 'GoMiner' and 'High Throughput GoMiner' ('HTGM') to map lists of genes to the Gene Ontology (GO) . Until recently, these were hosted on a server at The National Cancer Institute (NCI). In order to continue providing these services to the bio-medical community, I have developed stand-alone versions. The current package 'HTGM' builds upon my recent package 'GoMiner'. The output of 'GoMiner' is a heatmap showing the relationship of a single list of genes and the significant categories into which they map. 'High Throughput GoMiner' ('HTGM') integrates the results of the individual 'GoMiner' analyses. The output of 'HTGM' is a heatmap showing the relationship of the significant categories derived from each gene list. The heatmap has only 2 axes, so the identity of the genes are unfortunately "integrated out of the equation." Because the graphic for the heatmap is implemented in Scalable Vector Graphics (SVG) technology, it is relatively easy to hyperlink each picture element to the relevant list of genes. By clicking on the desired picture element, the user can recover the "lost" genes. Package: r-cran-htm2txt Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-htm2txt_2.2.2-1.ca2004.1_all.deb Size: 57600 MD5sum: 18a8c01fc8820d763d707acadebd67ce SHA1: fd5030abe2d0819c9cddf7f58bc1989f62d6fe68 SHA256: 845cbd62407f0b7fd6bc3c2b90e5ff74c7b8d34061647d08dadf913b24489e1e SHA512: 86884b2bea6b55a9cd1df3c887e298c18a060cd1703ea33a608a98cb5daa7e209b284ae29cef9fb8168d0327693a5d08061323648dccd9c8adb01995ea9295af Homepage: https://cran.r-project.org/package=htm2txt Description: CRAN Package 'htm2txt' (Convert Html into Text) Convert a html document to plain texts by stripping off all html tags. Package: r-cran-htmcglm Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 128 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-doby, r-cran-matrix, r-cran-mcglm, r-cran-sjmisc, r-cran-stringr Filename: pool/dists/focal/main/r-cran-htmcglm_0.0.1-1.ca2004.1_all.deb Size: 98152 MD5sum: 25cbca4d34b3fcc5c36b953730f2c5c2 SHA1: 11275be975ec09c8579775176d88f01c31cb2308 SHA256: 2f6c8c7d44a3a4258db715bc321837af7d43b488e9e5a75932e6f2d33a46e10f SHA512: 312069bde5cb0aa13c6743ca25580819633c6d59ad085e9a8ddc03121889f273ad1fccc4d577ebe7a52ac7df7deb7b31a928f12589023e8fa469a183136c9cff Homepage: https://cran.r-project.org/package=htmcglm Description: CRAN Package 'htmcglm' (Hypothesis Testing for McGLMs) Performs hypothesis testing for multivariate covariance generalized linear models (McGLMs). McGLM is a general framework for non-normal multivariate data analysis, designed to handle multivariate response variables, along with a wide range of temporal and spatial correlation structures defined in terms of a covariance link function combined with a matrix linear predictor involving known matrices. The models take non-normality into account in the conventional way by means of a variance function, and the mean structure is modelled by means of a link function and a linear predictor. The models are fitted using an efficient Newton scoring algorithm based on quasi-likelihood and Pearson estimating functions, using only second-moment assumptions. This provides a unified approach to a wide variety of different types of response variables and covariance structures, including multivariate extensions of repeated measures, time series, longitudinal, spatial and spatio-temporal structures. The package offers a user-friendly interface for fitting McGLMs similar to the glm() R function. Package: r-cran-html2r Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 378 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glue, r-cran-shiny, r-cran-shinyace, r-cran-shinythemes, r-cran-shinyjqui Filename: pool/dists/focal/main/r-cran-html2r_0.1.0-1.ca2004.1_all.deb Size: 60048 MD5sum: f45bd72a6392d4f8aef26b1b0c6e08c8 SHA1: 552dc1895f53d4cbf6bac558d6df033ef739084a SHA256: b6d93cd6b0fa295ab3b4d78db48d7982cf204a58da2f9a520f9610fe0349159e SHA512: 2494881084c2f95d990eb048d6a61cae4b492886ee70c7c6df3dd33cf2c96f7fb7d5a250cf8cba2c8403aa5e07a35aaa823aaf7eaa458f68ade4b9b6ee62bcac Homepage: https://cran.r-project.org/package=html2R Description: CRAN Package 'html2R' (Convert 'HTML' to 'R' with a 'Shiny' App) Provides a 'Shiny' app allowing to convert 'HTML' code to 'R' code (e.g. 'Hello' to 'tags$span("Hello")'), for usage in a 'Shiny' UI. Package: r-cran-html5 Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 365 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-html5_1.0.2-1.ca2004.1_all.deb Size: 247780 MD5sum: 66f1649e3e55e4d272e115a14cc97fca SHA1: e3b17e57caca3497c835dcdf3341b4dfc22901fc SHA256: bd7adabd66390f7823266151c38c7da867530564645737cde5988b3071a178a3 SHA512: e5f7d439f6a806ea5798d2b430ca28bcc3d440f0e523ecb0158a42fb459621e69f0f82dc9c64fc264689c4e8a7d0093d6407fde5a2482771c5727c458310ae82 Homepage: https://cran.r-project.org/package=html5 Description: CRAN Package 'html5' (Creates Valid HTML5 Strings) Generates valid HTML tag strings for HTML5 elements documented by Mozilla. Attributes are passed as named lists, with names being the attribute name and values being the attribute value. Attribute values are automatically double-quoted. To declare a DOCTYPE, wrap html() with function doctype(). Mozilla's documentation for HTML5 is available here: . Elements marked as obsolete are not included. Package: r-cran-htmldf Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cld3, r-cran-dplyr, r-cran-httr, r-cran-lubridate, r-cran-magrittr, r-cran-processx, r-cran-progress, r-cran-r.utils, r-cran-ranger, r-cran-rvest, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-urltools, r-cran-xml2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-htmldf_0.6.0-1.ca2004.1_all.deb Size: 186844 MD5sum: 82d86658685b1f48946f09114acdddce SHA1: c770090d86ba64e478e6270e11c8ffa2089e9722 SHA256: 29f92ec6fed2a92ec0378e5a184fdded6d03db972cb82975a7cd9c407a5c1a7b SHA512: 78799a323e80d8e13046a96cf0c2806e621cc9bec804bfac58b176143d996cfe98183cbf5f5c129f0c2347ed4eb100b68461ed6aee780ac6cde9ffd81d583a94 Homepage: https://cran.r-project.org/package=htmldf Description: CRAN Package 'htmldf' (Simple Scraping and Tidy Webpage Summaries) Simple tools for scraping webpages, extracting common html tags and parsing contents to a tidy, tabular format. Tools help with extraction of page titles, links, images, rss feeds, social media handles and page metadata. Package: r-cran-htmlreportr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1903 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mime, r-cran-ggplot2, r-cran-knitr, r-cran-xfun, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-htmlreportr_1.0.0-1.ca2004.1_all.deb Size: 1221956 MD5sum: 0cbd951497f4bc5cd19932a03ea6ab46 SHA1: 4e2075db9f1732134fffd6b229f330b05d675a5f SHA256: 09af503bd2c78de48a7d30fec1f2b62803f1085252c5df0bbe51279fc754d0cc SHA512: 3d3c639382a52afb793c6f6afcd23401f2d08af8515451d735c6a9a13776fa08e1226600b6b150d3c537506aa96a9416cd457ee19f2d39d80e1052ad93b4478b Homepage: https://cran.r-project.org/package=htmlreportR Description: CRAN Package 'htmlreportR' ('HTML' Reporting Made Simple(R)) Create compressed, interactive 'HTML' (Hypertext Markup Language) reports with embedded 'Python' code, custom 'JS' ('JavaScript') and 'CSS' (Cascading Style Sheets), and wrappers for 'CanvasXpress' plots, networks and more. Based on , its sister project. Package: r-cran-htmltab Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-httr Suggests: r-cran-testthat, r-cran-knitr, r-cran-tidyr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-htmltab_0.8.2-1.ca2004.1_all.deb Size: 94700 MD5sum: d450d70b16634c61b8c2bb0875bfc3c9 SHA1: 251e166aca26995512fd1e19424e82790ff8b496 SHA256: c30241e050afda48d9516f15bc1f1f13cff3a9ab78747b30ef020c48d58e7524 SHA512: da35038f2a4fc51b250bd77158bcc0c68df8ac11241f6c3c96ba61a609c4eaf62ccc1594d21a1a73d71118ee5e55130ff7dffbeb005ffa19a9a6dbe33f20f71f Homepage: https://cran.r-project.org/package=htmltab Description: CRAN Package 'htmltab' (Assemble Data Frames from HTML Tables) HTML tables are a valuable data source but extracting and recasting these data into a useful format can be tedious. This package allows to collect structured information from HTML tables. It is similar to `readHTMLTable()` of the XML package but provides three major advantages. First, the function automatically expands row and column spans in the header and body cells. Second, users are given more control over the identification of header and body rows which will end up in the R table, including semantic header information that appear throughout the body. Third, the function preprocesses table code, corrects common types of malformations, removes unneeded parts and so helps to alleviate the need for tedious post-processing. Package: r-cran-htmltable Architecture: all Version: 2.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1146 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-knitr, r-cran-magrittr, r-cran-checkmate, r-cran-htmlwidgets, r-cran-htmltools, r-cran-rstudioapi Suggests: r-cran-testthat, r-cran-xml, r-cran-xml2, r-cran-hmisc, r-cran-rmarkdown, r-cran-chron, r-cran-lubridate, r-cran-tibble, r-cran-purrr, r-cran-tidyselect, r-cran-glue, r-cran-rlang, r-cran-tidyr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-htmltable_2.4.3-1.ca2004.1_all.deb Size: 384544 MD5sum: 1483038631c708440d9d88e0bbd9d413 SHA1: 7cbb4c1fa689e406bc6aaef44175d3a0d3924eb5 SHA256: 1a77b78de196cfe265d30ac336aa1a37ef831041f64eafac6f3bd48e2065fceb SHA512: 8694b1e6e20a158471ef9c6bb38bbf606016bf3855f98b560305125f17a21e9f02f330c8e2e68f7dc9de91dd11c6c9e5ba7204ce0ba58697ad4bd1652539d41a Homepage: https://cran.r-project.org/package=htmlTable Description: CRAN Package 'htmlTable' (Advanced Tables for Markdown/HTML) Tables with state-of-the-art layout elements such as row spanners, column spanners, table spanners, zebra striping, and more. While allowing advanced layout, the underlying css-structure is simple in order to maximize compatibility with common word processors. The package also contains a few text formatting functions that help outputting text compatible with HTML/LaTeX. Package: r-cran-htmlutils Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-r2html Filename: pool/dists/focal/main/r-cran-htmlutils_0.1.9-1.ca2004.1_all.deb Size: 89832 MD5sum: 8619f1f7f01ef72819f9b7252125b44c SHA1: 66cc4b82064aedfcb2720a65e4276767832d755d SHA256: a006ce609a4cab9a6186c1f0f8d56e50a5666d072e8f4c4ca0e477251a162f3c SHA512: 6873b7af34461c26083f9d42eaa89ab8434e321d7b9295c3e8c8d5b840911ee57f5d10b39911f35088a8d7fbc00200ee7ced09e524e9c90f066aa80198c668ea Homepage: https://cran.r-project.org/package=HTMLUtils Description: CRAN Package 'HTMLUtils' (Facilitates Automated HTML Report Creation) Facilitates automated HTML report creation, in particular framed HTML pages and dynamically sortable tables. Package: r-cran-htmlwidgets Architecture: all Version: 1.6.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2078 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-htmltools, r-cran-jsonlite, r-cran-knitr, r-cran-rmarkdown, r-cran-yaml Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-htmlwidgets_1.6.4-1.ca2004.1_all.deb Size: 406720 MD5sum: 0d119a60abc5d22b747ac228f6bc4c11 SHA1: 22c2ed478e843dbc17e98286a0bce3656f8881b0 SHA256: 3afcbc1ab480ef5aceed5aaa84b08a5adecb2a9ff2589a6bc263ce5cbf2ee8d9 SHA512: 826529dae7fe5a11413b1b31cd556e8c76ec183aac82a8c0698fa22bfbbd961416fef947ae9084b3989eecbf6af663bfdfaac974e79ed71c803b82e399c58285 Homepage: https://cran.r-project.org/package=htmlwidgets Description: CRAN Package 'htmlwidgets' (HTML Widgets for R) A framework for creating HTML widgets that render in various contexts including the R console, 'R Markdown' documents, and 'Shiny' web applications. Package: r-cran-htrspranalysis Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1612 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-readxl, r-cran-openxlsx, r-cran-minpack.lm, r-cran-zoo, r-cran-gridextra, r-cran-readr, r-cran-rlang, r-cran-dplyr, r-cran-stringr, r-cran-tidyselect, r-cran-ggplot2, r-cran-purrr, r-cran-forcats, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-qpdf Filename: pool/dists/focal/main/r-cran-htrspranalysis_0.1.0-1.ca2004.1_all.deb Size: 1245100 MD5sum: 3c2cba7b08e5ccb42e2dac467b8ef745 SHA1: 7ebb849104e19bc32cbb52b562871126dd4539be SHA256: a9a8b17830474a8b0ea205c27b90a7ad503345b7cc225a9ec66c2cb1aeeabc38 SHA512: b99c721cba5cf98a85c75b16c2c069f7e27990b6aa93c9ccfecddca3da0091137317f0228fff12b7ebe6ab17b4b27502796d89279efdb4542e82d8601c72aa09 Homepage: https://cran.r-project.org/package=htrSPRanalysis Description: CRAN Package 'htrSPRanalysis' (Analysis of Surface Plasmon Resonance Data) Analysis of Surface Plasmon Resonance (SPR) and Biolayer Interferometry data, with automations for high-throughput SPR. This version of the package fits the 1: 1 binding model, with and without bulkshift. It offers optional local or global Rmax fitting. The user must provide a sample sheet and a Carterra output file in Carterra's current format. There is a utility function to convert from Carterra's old output format. The user may run a custom pipeline or use the provided 'Runscript', which will produce a pdf file containing fitted Rmax, ka, kd and standard errors, a plot of the sensorgram and fits, and a plot of residuals. The script will also produce a .csv file with all of the relevant parameters for each spot on the SPR chip. Package: r-cran-htrx Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1301 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fastglm, r-cran-caret, r-cran-glmnet, r-cran-tune, r-cran-recipes Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-htrx_1.2.4-1.ca2004.1_all.deb Size: 827428 MD5sum: 4ef1e030edea951b5be7a45423a1ca9f SHA1: ad0c546c3e10c94b3b082aa565f38f20fd7f6e9a SHA256: 90f0fecdc08956e73d51559b9df7af4f60056c474b573621df0653f569f900bd SHA512: 1282a5b9c9304ce80603856906351cc3aaa97e417fbd81ad618d60b81eff1605a6b2478156434846afed267f636980958774112c09cf858f3cbeed37adfc5c80 Homepage: https://cran.r-project.org/package=HTRX Description: CRAN Package 'HTRX' (Haplotype Trend Regression with eXtra Flexibility (HTRX)) Detection of haplotype patterns that include single nucleotide polymorphisms (SNPs) and non-contiguous haplotypes that are associated with a phenotype. Methods for implementing HTRX are described in Yang Y, Lawson DJ (2023) and Barrie W, Yang Y, Irving-Pease E.K, et al (2024) . Package: r-cran-htscluster Architecture: all Version: 2.0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 592 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-edger, r-cran-plotrix, r-cran-capushe Suggests: r-bioc-htsfilter, r-bioc-biobase Filename: pool/dists/focal/main/r-cran-htscluster_2.0.11-1.ca2004.1_all.deb Size: 510108 MD5sum: 80447ceee69183dbad5327bc2edf513e SHA1: 736160b92c5fe2821bc811d17dabdbba45f3c878 SHA256: 4055d7553340a47e7923f3e4fb71b203b8f56b5e9dc54655e982ca8313f913cd SHA512: a0329770d39d063e833790eaf66b468cb49a60f55f7afc6b4b7d31e637e8450a28f05173545ad91d9d6c34ac8251540588c13bf5d4d43ac861d8ecb7faa0b26d Homepage: https://cran.r-project.org/package=HTSCluster Description: CRAN Package 'HTSCluster' (Clustering High-Throughput Transcriptome Sequencing (HTS) Data) A Poisson mixture model is implemented to cluster genes from high- throughput transcriptome sequencing (RNA-seq) data. Parameter estimation is performed using either the EM or CEM algorithm, and the slope heuristics are used for model selection (i.e., to choose the number of clusters). Package: r-cran-htsdegenerater Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sparsem Suggests: r-cran-forecast, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-htsdegenerater_0.1.0-1.ca2004.1_all.deb Size: 36304 MD5sum: 77f4458b604b4b292345418463b1ed8f SHA1: 56f2fa4462ac3448457803be0bb214f3cc210d09 SHA256: aeb6a3c9d79c4e02b164fc8a3e84162dec0c500a4c64ce01263b8d5e7d25d1cc SHA512: ca80144466d8fa11e614239dfc503303220a7007a23494f5a1c0608cce5b40798446c5cc2ea05c1fe1b4aeaf06f52391bd3899eb31d585f8b6a6d09d546a3f1c Homepage: https://cran.r-project.org/package=htsDegenerateR Description: CRAN Package 'htsDegenerateR' (Degenerate Hierarchical Time Series Reconciliation) Takes the MinT implementation of the 'hts' package and adapts it to allow degenerate hierarchical structures. Instead of the "nodes" argument, this function takes an S matrix which is more versatile in the structures it allows. For a demo, see Steinmeister and Pauly (2024). The MinT algorithm is based on Wickramasuriya et al. (2019). Package: r-cran-htseed Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-htseed_0.1.0-1.ca2004.1_all.deb Size: 27364 MD5sum: 2af2a8174eec02842928b5442d54fe4a SHA1: b9b571db519a8ae950b624dadf3e9e9ce7fd37cf SHA256: 15313088a879b86a63dcab32b60a58d654042bb1d92b97740854bc45ea787553 SHA512: 844149a232efeb2c110d5f588a5c41eec05e830d9007d2e930a2390ce8f744ce730ed21d2bddede11a1570c18c1f6d4acc8a85e8a3ff98b4e96d20c4c17c71b2 Homepage: https://cran.r-project.org/package=HTSeed Description: CRAN Package 'HTSeed' (Fitting of Hydrotime Model for Seed Germination Time Course) The seed germination process starts with water uptake by the seed and ends with the protrusion of radicle and plumule under varying temperatures and soil water potential. Hydrotime is a way to describe the relationship between water potential and seed germination rates at germination percentages. One important quantity before applying hydrotime modeling of germination percentages is to consider the proportion of viable seeds that could germinate under saturated conditions. This package can be used to apply correction factors at various water potentials before estimating parameters like stress tolerance, and uniformity of the hydrotime model. Three different distributions namely, Gaussian, Logistic, and Extreme value distributions have been considered to fit the model to the seed germination time course. Details can be found in Bradford (2002) , and Bradford and Still(2004) . Package: r-cran-htseedglm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-htseedglm_0.1.0-1.ca2004.1_all.deb Size: 19408 MD5sum: a1a64a54ba59711d99fa86d0b645f082 SHA1: 5bee17daaa7fc2f934b017911fd95a9a6ca7ccfc SHA256: 1cb8918efdc3b82a78170919b26a61df76a7ad6050d6e5473f82c0b1ed489570 SHA512: a7bf13ec318adbe1943f53f755c42220be169531e8a0b980d1d60e1c7947c8f66908fa856a068e5391a791358e3fabfd38fc2389d45cf7e9884537eccf5d921a Homepage: https://cran.r-project.org/package=HTSeedGLM Description: CRAN Package 'HTSeedGLM' (Hydro Thermal Time Analysis of Seed Germination UsingGeneralised Linear Model) Seed germinates through the physical process of water uptake by dry seed driven by the difference in water potential between the seed and the water. There exists seed-to-seed variability in the base seed water potential. Hence, there is a need for a distribution such that a viable seed with its base seed water potential germinates if and only if the soil water potential is more than the base seed water potential. This package estimates the stress tolerance and uniformity parameters of the seed lot for germination under various temperatures by using the hydro-time model of counts of germinated seeds under various water potentials. The distribution of base seed water potential has been considered to follow Normal, Logistic and Extreme value distribution. The estimated proportion of germinated seeds along with the estimates of stress and uniformity parameters are obtained using a generalised linear model. The significance test of the above parameters for within and between temperatures is also performed in the analysis. Details can be found in Kebreab and Murdoch (1999) and Bradford (2002) . Package: r-cran-htssip Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2068 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-ape, r-cran-magrittr, r-cran-stringr, r-cran-plyr, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-vegan, r-bioc-deseq2, r-bioc-phyloseq, r-cran-coenocliner, r-cran-lazyeval Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-htssip_1.4.1-1.ca2004.1_all.deb Size: 1548068 MD5sum: 8e18ce1f5304321bf040e6372a89a9bf SHA1: 0ee751945d1ba19f5755c8ed05775a85ba5fb845 SHA256: 453bed80072c660f94b904609f7563c09fca96e1365acef774eb03f318318422 SHA512: 8a4d2a772a109db85f00268e225c57154da371bf03468f5758a225222419207ae37eba31f64ce102fb06223d1d05fc4952f9502325148d77225e5813979ee9ff Homepage: https://cran.r-project.org/package=HTSSIP Description: CRAN Package 'HTSSIP' (High Throughput Sequencing of Stable Isotope Probing DataAnalysis) Functions for analyzing high throughput sequencing stable isotope probing (HTS-SIP) data. Analyses include high resolution stable isotope probing (HR-SIP), multi-window high resolution stable isotope probing (MW-HR-SIP), and quantitative stable isotope probing (q-SIP). Package: r-cran-httpcache Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-digest, r-cran-httr Suggests: r-cran-httptest, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-httpcache_1.2.0-1.ca2004.1_all.deb Size: 60232 MD5sum: eac9d64b208ae99a00073c12ccc26d51 SHA1: 544c2b2fd87b03f2ae40b30817c7fd64c0873b34 SHA256: 3f72e127f30c07c9dfb95677648ea2ed904dcd2a36c86bf98b76aefebe0fe85a SHA512: 5d12bbd14cb65eb848467c767e2226504e36fb94cfcc517be8f381a45e4522d56d740f4cf7ca663d4c4772b8727dbb14c24208546c0aa9147927ced0c9df0dad Homepage: https://cran.r-project.org/package=httpcache Description: CRAN Package 'httpcache' (Query Cache for HTTP Clients) In order to improve performance for HTTP API clients, 'httpcache' provides simple tools for caching and invalidating cache. It includes the HTTP verb functions GET, PUT, PATCH, POST, and DELETE, which are drop-in replacements for those in the 'httr' package. These functions are cache-aware and provide default settings for cache invalidation suitable for RESTful APIs; the package also enables custom cache-management strategies. Finally, 'httpcache' includes a basic logging framework to facilitate the measurement of HTTP request time and cache performance. Package: r-cran-httpcode Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-httpcode_0.3.0-1.ca2004.1_all.deb Size: 33340 MD5sum: 57b5aa1b72408c4fad58a789586cbefd SHA1: ba1857502285702a2ab494ec03c5ca8bfc5b7cd1 SHA256: b26d141a5c4e3b547e51770b8dab3e843bbaa910c7c8805bd48624ca5d33cddb SHA512: fe57cc3f209ba61e3e1117c1faa33077a753b38f8b6a83a6864f909c2af80e75218786d764c6734312928286840930b6ec805a0bae6d79805b58a5296ea24f74 Homepage: https://cran.r-project.org/package=httpcode Description: CRAN Package 'httpcode' ('HTTP' Status Code Helper) Find and explain the meaning of 'HTTP' status codes. Functions included for searching for codes by full or partial number, by message, and get appropriate dog and cat images for many status codes. Package: r-cran-httping Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-pryr, r-cran-magrittr, r-cran-httpcode Suggests: r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-httping_0.2.0-1.ca2004.1_all.deb Size: 23960 MD5sum: f5bab604359a6f24c952e0d2bab73b05 SHA1: c7fad990b47162e28de6d9326c46d5e7b2335420 SHA256: 34d6033bba86a214645ce89be45e02c0140fd411ecee285588c9c47f35d66814 SHA512: a0321da3dc5fe87337589f6075749b88cf9b569e2cfa613f4fc35910e0998af8136cb53a5bbf316acd1472b1710524ccc8beb71804fc02938f3edd258e4ac324 Homepage: https://cran.r-project.org/package=httping Description: CRAN Package 'httping' ('Ping' 'URLs' to Time 'Requests') A suite of functions to ping 'URLs' and to time 'HTTP' 'requests'. Designed to work with 'httr'. Package: r-cran-httpproblems Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-httpproblems_1.0.1-1.ca2004.1_all.deb Size: 21908 MD5sum: 42223017aca7172553887a2da7e6a67a SHA1: 856155f577a185944b971c52a80e5a048aa12613 SHA256: 63c27b9ce6c9075b504f275216b5c6f54a423d5adadc3bd10461f8a3acf4d79c SHA512: df9065a49a3fd232580f4f0c2feaa9eeaca9045b869864569a1da6239349bb61c19c11d66bb86ed00ce64c96c24c2d216887dbc673f6da0ec809f12df48e7afd Homepage: https://cran.r-project.org/package=httpproblems Description: CRAN Package 'httpproblems' (Report Errors in Web Applications with 'Problem Details' (RFC7807)) Tools for emitting the 'Problem Details' structure defined in 'RFC' 7807 for reporting errors from 'HTTP' servers in a standard way. Package: r-cran-httprequest Architecture: all Version: 0.0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-httprequest_0.0.11-1.ca2004.1_all.deb Size: 27208 MD5sum: 8167df7ee0709b75198e611e96689f43 SHA1: c215bc9809a759b0999265ca3f4088b82b557496 SHA256: cc67ce9d40be4ad96712def8843acb7f6d38ebc06c8fc1b18128c8f1fd9d556e SHA512: 83addd1cd750193f7d3c34ab8c4de31ff1285cd06abc28bdcd91196bc997ca96cf1c14c17f46ec4086e4efdacdb7c97ab1aa0c7ee31b7d00697461c8a663abd0 Homepage: https://cran.r-project.org/package=httpRequest Description: CRAN Package 'httpRequest' (Basic HTTP Request) HTTP Request protocols. Implements the GET, POST and multipart POST request. Package: r-cran-httptest2 Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 286 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-digest, r-cran-httr2, r-cran-jsonlite, r-cran-rlang, r-cran-testthat Suggests: r-cran-curl, r-cran-knitr, r-cran-pkgload, r-cran-rmarkdown, r-cran-spelling, r-cran-webfakes, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-httptest2_1.2.0-1.ca2004.1_all.deb Size: 131352 MD5sum: 788e5f43342a3b3036c29d8466b7c1f8 SHA1: 925cb1a21803c1f51d41489e7a24def725ab0ef9 SHA256: 8eb4b2da657ec05a14f0f204978aad4985feee05ffc32ba03279d333438baa30 SHA512: 691d4b2c163bbc3e77e47357470218c711812220f41259c42823a3e50d97bde1b92ce8770afb6ef90c640be274db72421ecac87308f00da9bbb55d3d7ddb40cb Homepage: https://cran.r-project.org/package=httptest2 Description: CRAN Package 'httptest2' (Test Helpers for 'httr2') Testing and documenting code that communicates with remote servers can be painful. This package helps with writing tests for packages that use 'httr2'. It enables testing all of the logic on the R sides of the API without requiring access to the remote service, and it also allows recording real API responses to use as test fixtures. The ability to save responses and load them offline also enables writing vignettes and other dynamic documents that can be distributed without access to a live server. Package: r-cran-httptest Architecture: all Version: 4.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 346 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-testthat, r-cran-curl, r-cran-digest, r-cran-httr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-pkgload, r-cran-rmarkdown, r-cran-spelling, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-httptest_4.2.2-1.ca2004.1_all.deb Size: 161552 MD5sum: d02859aadf64b4306f6ad51b1d556f0f SHA1: a0b1a0099c3835ffd085ac68e0d4c94e69c4ba7d SHA256: 22269a58e8c67c1e08ca3ca0d5577941cf70c98a2f7aeaec39b20d5a11ca9220 SHA512: fcecdfce7d27ae9ed44b29ee2e013b988d667d497a2b6201e9982b74d4a1a35089afdc1bf01ab79593758d46e8ca6acb34b3f38b85a4a7f2d44708e0f8560df1 Homepage: https://cran.r-project.org/package=httptest Description: CRAN Package 'httptest' (A Test Environment for HTTP Requests) Testing and documenting code that communicates with remote servers can be painful. Dealing with authentication, server state, and other complications can make testing seem too costly to bother with. But it doesn't need to be that hard. This package enables one to test all of the logic on the R sides of the API in your package without requiring access to the remote service. Importantly, it provides three contexts that mock the network connection in different ways, as well as testing functions to assert that HTTP requests were---or were not---made. It also allows one to safely record real API responses to use as test fixtures. The ability to save responses and load them offline also enables one to write vignettes and other dynamic documents that can be distributed without access to a live server. Package: r-cran-httr2 Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 842 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-glue, r-cran-lifecycle, r-cran-magrittr, r-cran-openssl, r-cran-r6, r-cran-rappdirs, r-cran-rlang, r-cran-vctrs, r-cran-withr Suggests: r-cran-askpass, r-cran-bench, r-cran-clipr, r-cran-covr, r-cran-docopt, r-cran-httpuv, r-cran-jose, r-cran-jsonlite, r-cran-knitr, r-cran-later, r-cran-nanonext, r-cran-paws.common, r-cran-promises, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-webfakes, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-httr2_1.1.2-1.ca2004.1_all.deb Size: 718616 MD5sum: 7fd5446f0330d2a3d381aaa9979d65bb SHA1: 784a4b2e6b9f864cbf3486000fc99ea5e3a17f24 SHA256: 31f4775bfd8fd21ad53e56aa46c4570a9ba416e7b52456d030a63033baacbebc SHA512: 7e8b755a4da20f408db66c7ff0985118f1f4923849ab9e302bdb8b7d0c3429b041d8fd5ddad5baf9513f7e767b7c50e21086393e18d12c9a1dfa53ff809dd397 Homepage: https://cran.r-project.org/package=httr2 Description: CRAN Package 'httr2' (Perform HTTP Requests and Process the Responses) Tools for creating and modifying HTTP requests, then performing them and processing the results. 'httr2' is a modern re-imagining of 'httr' that uses a pipe-based interface and solves more of the problems that API wrapping packages face. 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Package: r-cran-hw.pval Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hw.pval_1.0-1.ca2004.1_all.deb Size: 36032 MD5sum: a96bde436c2951c116e66792f20f2722 SHA1: 20bd4a616534a3ddaebd9d8293907cadd26fb9c6 SHA256: 3d2e71e16cc18ee9a706ee1512820541451d3d046f651badac0b76282775fdec SHA512: 0f13f6984d12cbcb1e6354b4ee8cd5e7f5e5f5add695cfe72a77b34978aba82e744319fe2305f9fb437b7abe50d764b76d26205c4d48bbbd03566dd3a6e26e97 Homepage: https://cran.r-project.org/package=HW.pval Description: CRAN Package 'HW.pval' (Testing Hardy-Weinberg Equilibrium for Multiallelic Genes) HW.pval calculates plain and fully conditional root-mean-square, chi-square, and log likelihood-ratio P-values for the user-provided genotypic counts to be consistent with the Hardy-Weinberg equilibrium model. 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Package: r-cran-hwsdr Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1697 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-sf, r-cran-terra, r-cran-httr, r-cran-dplyr Suggests: r-cran-ncdf4, r-cran-knitr, r-cran-markdown, r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hwsdr_1.2-1.ca2004.1_all.deb Size: 1311348 MD5sum: f6dc21867a008151735ec59a3e36ce78 SHA1: ebee77f165f264f9add56a5d2f7b091db4169f16 SHA256: 362da4e8e94b152ad6cfc69ca0d2f06eb41255db7e413fb9bfeb6cb28d4e0818 SHA512: b2716ea5ce1fd709a56ff12ace3f2caf2f6481b9bc01dfe4f50cee4d91f3517f1e99d73757834ce2f71995d856e63fd42e64c0fe5e0f83f47c82cf349820e4ff Homepage: https://cran.r-project.org/package=hwsdr Description: CRAN Package 'hwsdr' (Interface to the 'HWSD' Web Services) Programmatic interface to the Harmonized World Soil Database 'HWSD' web services (). 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Two new tests based on Haar wavelets and general wavelets described by Nason and Savchev (2014) are provided and, for comparison purposes this package also implements the B test of Bartlett (1967) . Functionality is provided to compute an approximation to the theoretical power of the general wavelet test in the case of general ARMA alternatives. Package: r-cran-hybriddesign Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-testit, r-cran-resourceselection Filename: pool/dists/focal/main/r-cran-hybriddesign_1.0-1.ca2004.1_all.deb Size: 42412 MD5sum: 5d1200b987787a40226f8f8bb796e4ef SHA1: 0bd8e6384301fcb3008e12d5928bcd879513c9ae SHA256: a8eb066cc4554b5934da1632726304cf356cd67aeec80f98e1f9f510903ea802 SHA512: 90f0b42267ab35b39653cbca77bd00a017ef34904495aa3a416c13ba8de04246757bbe68b30f5bcec0d07946c695b2eed806fa66299869acdbc4349df65aa4f1 Homepage: https://cran.r-project.org/package=HybridDesign Description: CRAN Package 'HybridDesign' (Hybrid Design for Phase I Dose-Finding Studies) The Hybrid design is a combination of model-assisted design (e.g., the modified Toxicity Probability Interval design) with dose-toxicity model-based design for phase I dose-finding studies. The hybrid design controls the overdosing toxicity well and leads to a recommended dose closer to the true maximum tolerated dose (MTD) due to its ability to calibrate for an intermediate dose. More details can be found in Liao et al. 2022 . Package: r-cran-hybridensemble Architecture: all Version: 1.7.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-randomforest, r-cran-kernelfactory, r-cran-ada, r-cran-rpart, r-cran-rocr, r-cran-nnet, r-cran-e1071, r-cran-nmof, r-cran-gensa, r-cran-rmalschains, r-cran-pso, r-cran-auc, r-cran-soma, r-cran-genalg, r-cran-reportr, r-cran-nnls, r-cran-quadprog, r-cran-tabusearch, r-cran-rotationforest, r-cran-fnn, r-cran-glmnet, r-cran-foreach, r-cran-doparallel Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hybridensemble_1.7.9-1.ca2004.1_all.deb Size: 171112 MD5sum: 52a62d9aa5cf5c8dda20c96f93f9979e SHA1: 7277a208f997dbbf48fd9b327507eab4dd13ab9d SHA256: 287da16a2a87396c9f779c12b20425178949be3b5b5ab65e901bae2b6ab9eb3d SHA512: d06b5d90728e247e0acd0ccd5c95951700ef5aa903770aea0c8357fe8f7a4ea96b7aa46a012f26be9ad34f7072de733403bd0901bf2fbe2292fbe556a2e959fb Homepage: https://cran.r-project.org/package=hybridEnsemble Description: CRAN Package 'hybridEnsemble' (Build, Deploy and Evaluate Hybrid Ensembles) Functions to build and deploy a hybrid ensemble consisting of different sub-ensembles such as bagged logistic regressions, random forest, stochastic boosting, kernel factory, bagged neural networks, bagged support vector machines, rotation forest, bagged k-nearest neighbors, and bagged naive Bayes. Functions to cross-validate the hybrid ensemble and plot and summarize the results are also provided. There is also a function to assess the importance of the predictors. Package: r-cran-hybridmicrobiomes Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rgl, r-cran-compositions, r-cran-rlang, r-cran-permanova, r-cran-vegan, r-cran-ks, r-cran-ape, r-cran-geometry, r-cran-stereomorph, r-bioc-phyloseq Filename: pool/dists/focal/main/r-cran-hybridmicrobiomes_0.1.1-1.ca2004.1_all.deb Size: 123540 MD5sum: 366f640c565ab02d3226da82df0c4a45 SHA1: 6118b72e142c1939823bb5dc8dc37e836d34d935 SHA256: f6667bb81b440173b79c3e05d57778cd92a6ef34e28110daf41918ae12708a3c SHA512: 93640bae558c8d88d38cb056b2bb3a237a89364c22f69550a37032952a3760ab0b124500a5f383f23c338461b50ab0a9fb874de823037ae15e52a2b46c9b6ae6 Homepage: https://cran.r-project.org/package=HybridMicrobiomes Description: CRAN Package 'HybridMicrobiomes' (Analysis of Host-Associated Microbiomes from Hybrid Organisms) A set of tools to analyze and visualize the relationships between host-associated microbiomes of hybrid organisms and those of their progenitor species. Though not necessary, installing the microViz package is recommended as a check for phyloseq objects. To install microViz from R Universe use the following command: install.packages("microViz", repos = c(davidbarnett = "https://david-barnett.r-universe.dev", getOption("repos"))). To install microViz from GitHub use the following commands: install.packages("devtools") followed by devtools::install_github("david-barnett/microViz"). Package: r-cran-hybridmodels Architecture: all Version: 0.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-doparallel, r-cran-dorng, r-cran-foreach, r-cran-ggplot2, r-cran-gillespiessa, r-cran-reshape2, r-cran-stringr Filename: pool/dists/focal/main/r-cran-hybridmodels_0.3.8-1.ca2004.1_all.deb Size: 140488 MD5sum: c59517e15e8233e2e002df25b51ea380 SHA1: 17842ffd5c8b2375466d389321bdfe5ffc9e103c SHA256: 19b7f78dad780ab76b3b024b74813929d35e962095de53840aeeb638aa826edb SHA512: 1061f77b273c1be92934e9c4d3e557c4373914d55a57a12d101792627b0b0ed137c02684b6f8770bc012caaa76e77b296d1b1552bfd590bd05d55c53bc14bbb3 Homepage: https://cran.r-project.org/package=hybridModels Description: CRAN Package 'hybridModels' (An R Package for the Stochastic Simulation of Disease Spreadingin Dynamic Networks) Simulates stochastic hybrid models for transmission of infectious diseases in dynamic networks. It is a metapopulation model in which each node in the network is a sub-population and disease spreads within nodes and among them, combining two approaches: stochastic simulation algorithm () and individual-based approach, respectively. Equations that models spread within nodes are customizable and there are two link types among nodes: migration and influence (commuting). More information in Fernando S. Marques, Jose H. H. Grisi-Filho, Marcos Amaku et al. (2020) . Package: r-cran-hybridogram Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pheatmap Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hybridogram_0.3.2-1.ca2004.1_all.deb Size: 16772 MD5sum: 2432bfaae0bfbbee0547815c96735685 SHA1: 094ac3d74d40f4bc702ad35292524baa54c1c430 SHA256: 9adc2edcfcc7f6cba4fc2184da03546e6c617624c649cfedfc6ea8e024cc4c17 SHA512: c6efdec684fa9bfceaca8dee029de8b82462bccec4dc917e3990d7d45aea304dc38b2d1d7853269df6fcf337c3a935d5d06db89b1f19e8986e2e4a886c53f460 Homepage: https://cran.r-project.org/package=hybridogram Description: CRAN Package 'hybridogram' (Function that Creates a Heat Map from Hybridization Data) Using hybrid data, this package created a vividly colored hybrid heat map. The input is two files which are auto-selected. The first file has three columns, the first two for pairs of species, with the third column for the hybrid experiment code (an integer). The second file is a list of code and their descriptions in two columns. The output is a figure showing the hybrid heat map with a color legend. Package: r-cran-hybridts Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-forecast, r-cran-nnfor, r-cran-waveletarima, r-cran-metrics Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-hybridts_0.1.0-1.ca2004.1_all.deb Size: 49952 MD5sum: 20486468cb266ef2d2de246374a77828 SHA1: 2b8d2b57d6c9931dd45a49dc95437fdc51b767b8 SHA256: ce969a80976f59be013767274e6ae804662d7cdbfa7e04121a26a195df160918 SHA512: d90386728ed44bde2bcceb9139adc51108712bc1c6a5f9d38a140a5396e1fe52db2b2214f2f7fa34599198c7c4da4975afe5f54f8bfb0914e05895bec3e24d0c Homepage: https://cran.r-project.org/package=hybridts Description: CRAN Package 'hybridts' (Hybrid Time Series Forecasting Using Error Remodeling Approach) Method and tool for generating hybrid time series forecasts using an error remodeling approach. These forecasting approaches utilize a recursive technique for modeling the linearity of the series using a linear method (e.g., ARIMA, Theta, etc.) and then models (forecasts) the residuals of the linear forecaster using non-linear neural networks (e.g., ANN, ARNN, etc.). The hybrid architectures comprise three steps: firstly, the linear patterns of the series are forecasted which are followed by an error re-modeling step, and finally, the forecasts from both the steps are combined to produce the final output. This method additionally provides the confidence intervals as needed. Ten different models can be implemented using this package. This package generates different types of hybrid error correction models for time series forecasting based on the algorithms by Zhang. (2003), Chakraborty et al. (2019), Chakraborty et al. (2020), Bhattacharyya et al. (2021), Chakraborty et al. (2022), and Bhattacharyya et al. (2022) . Package: r-cran-hyd1d Architecture: all Version: 0.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2686 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rdpack, r-cran-httr2, r-cran-curl Suggests: r-cran-dbi, r-cran-rpostgresql, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-devtools, r-cran-pkgdown, r-cran-roxygen2, r-cran-revealjs, r-cran-shiny, r-cran-shiny.i18n, r-cran-shinytime, r-cran-lubridate, r-cran-usethis, r-cran-yaml, r-cran-desc Filename: pool/dists/focal/main/r-cran-hyd1d_0.5.3-1.ca2004.1_all.deb Size: 1758480 MD5sum: 0df0c3ab22c97956ad77640ceb2154f0 SHA1: 5581d64d2cdff3bf9ecd5b11970dce4c0e834b33 SHA256: 1527be5fa84268ec7a038ff52219fa1fbd95af1badfdf55ff2baa45b079da52b SHA512: f6d6e3323b6be94fe7149ead4e4bdbca3c875116a22692f63a8f39ad0763b221a42efe314f04705390a577ec85413a74184e0e22e9c5184a0da21b0e47358ec9 Homepage: https://cran.r-project.org/package=hyd1d Description: CRAN Package 'hyd1d' (1d Water Level Interpolation along the Rivers Elbe and Rhine) An S4 class and several functions which utilize internally stored datasets and gauging data enable 1d water level interpolation. The S4 class (WaterLevelDataFrame) structures the computation and visualisation of 1d water level information along the German federal waterways Elbe and Rhine. 'hyd1d' delivers 1d water level data - extracted from the 'FLYS' database - and validated gauging data - extracted from the hydrological database 'WISKI7' - package-internally. For computations near real time gauging data are queried externally from the 'PEGELONLINE REST API' . Package: r-cran-hydenet Architecture: all Version: 0.10.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3342 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnet, r-cran-checkmate, r-cran-diagrammer, r-cran-plyr, r-cran-dplyr, r-bioc-graph, r-cran-magrittr, r-cran-pixiedust, r-cran-rjags, r-cran-stringr Suggests: r-cran-knitr, r-cran-rcurl, r-cran-rmarkdown, r-cran-survival, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hydenet_0.10.11-1.ca2004.1_all.deb Size: 1687176 MD5sum: 57a27d35823259d68c517b44ea1427a2 SHA1: 100810e2ff6cd2bfafc5f338fd0eb1cf94eba005 SHA256: 6efbd589e8a7c3c1e4ef4b27ca3520cd056388762ab72381e66956ee6854b49e SHA512: c446eab35ef587fd38a2e9848e94d9b5f7a1f7d3b24e3fb29f18c425efa6fb5ce9451ad51319c09352d7dba4a967de637681d9a02aa0a3b1b35619a83cf17742 Homepage: https://cran.r-project.org/package=HydeNet Description: CRAN Package 'HydeNet' (Hybrid Bayesian Networks Using R and JAGS) Facilities for easy implementation of hybrid Bayesian networks using R. Bayesian networks are directed acyclic graphs representing joint probability distributions, where each node represents a random variable and each edge represents conditionality. The full joint distribution is therefore factorized as a product of conditional densities, where each node is assumed to be independent of its non-descendents given information on its parent nodes. Since exact, closed-form algorithms are computationally burdensome for inference within hybrid networks that contain a combination of continuous and discrete nodes, particle-based approximation techniques like Markov Chain Monte Carlo are popular. We provide a user-friendly interface to constructing these networks and running inference using the 'rjags' package. Econometric analyses (maximum expected utility under competing policies, value of information) involving decision and utility nodes are also supported. Package: r-cran-hydflood Architecture: all Version: 0.5.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2189 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-terra, r-cran-raster, r-cran-hyd1d, r-cran-rdpack, r-cran-httr2, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-cran-pkgdown, r-cran-roxygen2, r-cran-testthat, r-cran-plot3d, r-cran-shiny, r-cran-shinyjs, r-cran-shiny.i18n, r-cran-leaflet, r-cran-leaflet.extras, r-cran-leaflet.esri, r-cran-pangaear, r-cran-rgrass, r-cran-stringr Filename: pool/dists/focal/main/r-cran-hydflood_0.5.10-1.ca2004.1_all.deb Size: 1833112 MD5sum: fcea491d38afc5180f225d2664bcfd31 SHA1: ad1f43ce6bdffbb3fec9ea95096b752636f06a8f SHA256: f3f011c6e6548f032c042a1db630668ee68e1ca1b63b4950cca18c9e5778eb55 SHA512: 21ef8c298a05ff888be8ac3c48d8c9e7572ceff74b95e49d388647bb08157d74285c2e5c276183467fa9407435c83a45fd6c2c29a17e9254059e84a02ea61143 Homepage: https://cran.r-project.org/package=hydflood Description: CRAN Package 'hydflood' (Flood Extents and Duration along the Rivers Elbe and Rhine) Raster based flood modelling internally using 'hyd1d', an R package to interpolate 1d water level and gauging data. The package computes flood extent and duration through strategies originally developed for 'INFORM', an 'ArcGIS'-based hydro-ecological modelling framework. It does not provide a full, physical hydraulic modelling algorithm, but a simplified, near real time 'GIS' approach for flood extent and duration modelling. Computationally demanding annual flood durations have been computed already and data products were published by Weber (2022) . Package: r-cran-hydra Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-igraph, r-cran-igraphdata, r-cran-matrix, r-cran-rspectra Filename: pool/dists/focal/main/r-cran-hydra_0.1.0-1.ca2004.1_all.deb Size: 48464 MD5sum: d467ecda0a27de15da413bcd12217dd1 SHA1: 0c03dbecd76ef173eaf3f75d66a522be0d5b527d SHA256: f58a85110048a5633f74876db10c3ad16c7cc712c1d4d2d13d13616b8e184881 SHA512: 0476d1b6130aecb8334548798b67be6206cf45c999fbe44bcf5f0519d7cf861bfdfeec4ae67cec53ee8514942d05c55d632b260ab7fa57190bf576311a261dc4 Homepage: https://cran.r-project.org/package=hydra Description: CRAN Package 'hydra' (Hyperbolic Embedding) Calculate an optimal embedding of a set of data points into low-dimensional hyperbolic space. This uses the strain-minimizing hyperbolic embedding of Keller-Ressel and Nargang (2019), see . Package: r-cran-hydraulics Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1197 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-gtools, r-cran-pracma, r-cran-purrr, r-cran-reshape2, r-cran-tibble, r-cran-units Suggests: r-cran-formatdown, r-cran-kableextra, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hydraulics_0.7.1-1.ca2004.1_all.deb Size: 823328 MD5sum: 300e9df018c69d4fbd64caf610999912 SHA1: 5c93298c7b487fd2cf102f77695f9dbddcf1782a SHA256: 96c7b0212a4df8c12168168522057bd4311abe2d5c247c33b10f90bbe18d2636 SHA512: acc17c09f492da7c2f37a8d961c6ed4af6edb6dc2c6dd835ee5333651c55a443a3e4ba65ddb7968065aafb94aa95a46d57cccdb8db2792e753f1ab1f04f03996 Homepage: https://cran.r-project.org/package=hydraulics Description: CRAN Package 'hydraulics' (Basic Pipe and Open Channel Hydraulics) Functions for basic hydraulic calculations related to water flow in circular pipes both flowing full (under pressure), and partially full (gravity flow), and trapezoidal open channels. For pressure flow this includes friction loss calculations by solving the Darcy-Weisbach equation for head loss, flow or diameter, plotting a Moody diagram, matching a pump characteristic curve to a system curve, and solving for flows in a pipe network using the Hardy-Cross method. The Darcy-Weisbach friction factor is calculated using the Colebrook (or Colebrook-White equation), the basis of the Moody diagram, the original citation being Colebrook (1939) . For gravity flow, the Manning equation is used, again solving for missing parameters. The derivation of and solutions using the Darcy-Weisbach equation and the Manning equation are outlined in many fluid mechanics texts such as Finnemore and Maurer (2024, ISBN:978-1-264-78729-6). Some gradually- and rapidly-varied flow functions are included. For the Manning equation solutions, this package uses modifications of original code from the 'iemisc' package by Irucka Embry. Package: r-cran-hydreng Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 322 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hydreng_0.1.0-1.ca2004.1_all.deb Size: 180656 MD5sum: 80650cbe5b1d578591c7319f27ee11ae SHA1: 80081ee3970cb883763bcb9ecf26ae105b23696d SHA256: c22de1558305d70401c32bbc62f646fddde02dcf5249a236b8c14f92a6bd0dde SHA512: f556a4b42d8c953bb751d99379ddc2cacf6b05a1b4924e0401f88d5d3c25adb511a81ea4f4e7a016f09012c3799a3023f60ef7c30aa265f7c50a27ea044ad383 Homepage: https://cran.r-project.org/package=hydReng Description: CRAN Package 'hydReng' (Hydraulic Engineering Tools) The 'hydReng' package provides a set of functions for hydraulic engineering tasks and natural hazard assessments. It includes basic hydraulics (wetted area, wetted perimeter, flow, flow velocity, flow depth, and maximum flow) for open channels with arbitrary geometry under uniform flow conditions. For structures such as circular pipes, weirs, and gates, the package includes calculations for pressure flow, backwater depth, and overflow over a weir crest. Additionally, it provides formulas for calculating bedload transport. The formulas used can be found in standard literature on hydraulics, such as Bollrich (2019, ISBN:978-3-410-29169-5) or Hager (2011, ISBN:978-3-642-77430-0). Package: r-cran-hydroapps Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nsrfa Filename: pool/dists/focal/main/r-cran-hydroapps_0.1-1-1.ca2004.1_all.deb Size: 88452 MD5sum: 029ba8af20bbffe3b40ce42880b85377 SHA1: 0d1a1d20b5da24fe143f1cfb39744d6325490dc2 SHA256: ee2c69b1f444de7a41ed9057a06eca7ae7710b1def33ccf54a327091d8fc7571 SHA512: 948dcb596fd87b63551f74a352cd0f2efc8d5d40e51e398aec0e8cabe50551999dd4038c0a17e8084c4cf362b4a53383832ad79087bc16078aece7771af3a53c Homepage: https://cran.r-project.org/package=hydroApps Description: CRAN Package 'hydroApps' (Tools and models for hydrological applications) Package providing tools for hydrological applications and models developed for regional analysis in Northwestern Italy. Package: r-cran-hydrocal Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hydrocal_1.0.0-1.ca2004.1_all.deb Size: 63080 MD5sum: 66e1662e02e29fbb2730771c9c772d77 SHA1: d58ec827b8bf56f08785ed2aa07e789aed12e16b SHA256: 2a29bbea0be59e2e51612653b8d0903d4a2d35543446c8c4b1ecaaf225ce4810 SHA512: 560212d6f62ab3cff02b04e1bddff8e9748c01d2165aa05dca3b9710c1c3c91a808eb3557c3b6928fbed164402d7f59e96b85973b991a066f54b028a9a9b9fd6 Homepage: https://cran.r-project.org/package=HYDROCAL Description: CRAN Package 'HYDROCAL' (Hydraulic Roughness Calculator) Estimates frictional constants for hydraulic analysis of rivers. This HYDRaulic ROughness CALculator (HYDROCAL) was previously developed as a spreadsheet tool and accompanying documentation by McKay and Fischenich (2011, ). Package: r-cran-hydrocode Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4956 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-hydrocode_1.0.3-1.ca2004.1_all.deb Size: 5028656 MD5sum: 5308e1453f3594c69e4d333284797ac9 SHA1: 59c6c5feee5717c20648d2b3f92748fa922a516d SHA256: 5a46e35002312496469ac958809aaf29278e71fc8e3ad96ca6bef005d0a80502 SHA512: a855bd132385e3009a6ac29daa537b9aeaf14eb1103f5f8eb5712cd6cfb8765d14c2c5ba1cafe3e5cbbac0ef067f25930b66c77638b6994ce65237a943fc7b21 Homepage: https://cran.r-project.org/package=HydroCode Description: CRAN Package 'HydroCode' (Hydrological Codes) Pfafstetter Hydrological Codes as cited in Verdin and Verdin (1999) are decoded for upstream or downstream queries. Package: r-cran-hydrodcindex Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-hydrodcindex_1.0.0-1.ca2004.1_all.deb Size: 143404 MD5sum: 5ebbd019b8380a8bccef6aae591b9b44 SHA1: 59958f79208c1e284500958448312790d4c41c65 SHA256: 1df6574792edee07d048b6da0af063a53f670eb2d04c1c566da63ece6fb3b041 SHA512: 6eed6e01da2af7ba0dcb791449b5ad3d15eef020a8baf9f54839c6776f339d7dc157cdd3a88796db5af268bc9afc10e6f901c7d95eb8e497b263ff050816d015 Homepage: https://cran.r-project.org/package=hydroDCindex Description: CRAN Package 'hydroDCindex' (Duration Curve Hydrological Model Indexes) Compute duration curves of daily flow series, both real and modeled, to be compared through indexes of flow duration curves. The package functions include comparative plots and goodness of fit tests. Flow duration curve indexes are based on: Yilmaz et al., (2008) . Package: r-cran-hydroevents Architecture: all Version: 0.12.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3075 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-hydroevents_0.12.0-1.ca2004.1_all.deb Size: 2948684 MD5sum: 8e63bf5d793022296846a2229cf8b9c5 SHA1: 31af61b9c1cca6d1945d7c033acfff3ef73b94d4 SHA256: 850ead07349caea5ac7b3721be789792d4aef47f6e263b17d38252988e1cad6a SHA512: b80790d8f24b1b57764ec047271d4a925bda06032fc83498e96a615e8147cb0dd3633addfb7202f80be48e2fa9c5ef445ad5d5808c0c2db1016d4780e80c4389 Homepage: https://cran.r-project.org/package=hydroEvents Description: CRAN Package 'hydroEvents' (Extract Event Statistics in Hydrologic Time Series) Events from individual hydrologic time series are extracted, and events from multiple time series can be matched to each other. Tang, W. & Carey, S. K. (2017) . Kaur, S., Horne, A., Stewardson, M.J., Nathan, R., Costa, A.M., Szemis, J.M., & Webb, J.A. (2017) . Ladson, A., Brown, R., Neal, B., & Nathan, R. J. (2013) . Package: r-cran-hydrogeo Architecture: all Version: 0.6-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 192 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hydrogeo_0.6-1-1.ca2004.1_all.deb Size: 138300 MD5sum: 276c56ababe0ab39ff2a12b1a34a3aac SHA1: 1a4be55388901a707e8669bd2f4681f87efa4a03 SHA256: 9b72206d55ebdf2d65fc1df46860530b02d52bfcd21e2bc5a9406bf7a9fa78a2 SHA512: 4a52335c728fe444a8735db5fdff07fa3588a465e655d282d83198b7a06ded6d6f2d1c7cc209f4ba598b419fb06cf59c2effabf5a41bb5317eea19c39812e3ab Homepage: https://cran.r-project.org/package=hydrogeo Description: CRAN Package 'hydrogeo' (Groundwater Data Presentation and Interpretation) Contains one function for drawing Piper diagrams (also called Piper-Hill diagrams) of water analyses for major ions. Package: r-cran-hydrogof Architecture: all Version: 0.6-0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2639 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-zoo, r-cran-hydrotsm, r-cran-xts Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hydrogof_0.6-0.1-1.ca2004.1_all.deb Size: 1934708 MD5sum: 40ed953c0962936ac631d4281b742a65 SHA1: 813ff305040291412f8c8f0899131b7c7742996a SHA256: 14e2a039ed9d1468b2a7ef6b107ca6d4706df36be4368e5f2380877570513faa SHA512: 73c32892e097e34219984c409f7073cb11ce4274aa96451d858d252e73721194300c78e01f3db187d39fa37b439b25f92d5ca6f04ed3fec8b68876c7d52a1e34 Homepage: https://cran.r-project.org/package=hydroGOF Description: CRAN Package 'hydroGOF' (Goodness-of-Fit Functions for Comparison of Simulated andObserved Hydrological Time Series) S3 functions implementing both statistical and graphical goodness-of-fit measures between observed and simulated values, mainly oriented to be used during the calibration, validation, and application of hydrological models. Missing values in observed and/or simulated values can be removed before computations. Comments / questions / collaboration of any kind are very welcomed. Package: r-cran-hydroloom Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4055 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-data.table, r-cran-sf, r-cran-units, r-cran-pbapply, r-cran-tidyr, r-cran-rann, r-cran-rlang, r-cran-fastmap Suggests: r-cran-testthat, r-cran-nhdplustools, r-cran-future, r-cran-lwgeom, r-cran-future.apply, r-cran-knitr, r-cran-gifski, r-cran-mapview, r-cran-geos Filename: pool/dists/focal/main/r-cran-hydroloom_1.1.0-1.ca2004.1_all.deb Size: 1948184 MD5sum: 6ffd5f2573552dc359a1ec9a71d8c620 SHA1: 2670d73c1ccc996e83670fbe25c53bb9d694ccd8 SHA256: 82b9ebb0a4161535d4f2eca18fcdba482566d6d57c0afd046fc1b0b43d9d042e SHA512: 8206709bcb70448d0a5782773a12a0af1774c36cff43e357203d1100a24e0facb0ef52b9a3c57a958512671d76fbbc28e632477132c6924c7cc5b87e8bf30a85 Homepage: https://cran.r-project.org/package=hydroloom Description: CRAN Package 'hydroloom' (Utilities to Weave Hydrologic Fabrics) A collection of utilities that support creation of network attributes for hydrologic networks. Methods and algorithms implemented are documented in Moore et al. (2019) ), Cormen and Leiserson (2022) and Verdin and Verdin (1999) . Package: r-cran-hydrome Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-minpack.lm, r-cran-nlme Filename: pool/dists/focal/main/r-cran-hydrome_2.1.1-1.ca2004.1_all.deb Size: 92348 MD5sum: b3e3a0ee61b9e6df97d30816fc465f37 SHA1: 8fe352323544842e5e1744da35435c4ba8ba2889 SHA256: dd32aa8d7ea39413c3da2d947971ed09d8281adbc529bc5a1689b01d15ff48bd SHA512: a011d921b2f6a3a5d1716d5b0886bc74773678f0005859fdbc59cb13c447bc9e077717e32900800e253d49ddd8f73194066963053bebbd88c2e5e577f8b51d04 Homepage: https://cran.r-project.org/package=HydroMe Description: CRAN Package 'HydroMe' (Estimating Water Retention and Infiltration Model Parametersusing Experimental Data) Contains functions for estimating the parameters of infiltration and water retention models using the curve-fitting methods as discussed in Omuto and Gumbe (2009) ("Estimating water infiltration and retention characteristics using a computer program in R"). The models considered are those that are commonly used in soil science. Version 2 of the package has new models for water retention characteristic curves. Package: r-cran-hydromopso Architecture: all Version: 0.1-14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 709 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-zoo, r-cran-randtoolbox, r-cran-lhs, r-cran-hydrotsm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-smoof, r-cran-hydrogof, r-cran-airgr, r-cran-tuwmodel Filename: pool/dists/focal/main/r-cran-hydromopso_0.1-14-1.ca2004.1_all.deb Size: 691056 MD5sum: fe79b8fe5f48aada9d4ff3b12f87b1a1 SHA1: a5c80fd7847806518a13c53af066640dcf339b6d SHA256: 0522c7d22424e5996286e4327a001e0175797343fc651ad9527e92857989d610 SHA512: 1ce73268ad8392d691a1017ddb763ef9a766ffb335dcf32319bfc3aca6fc0ae044b5fb2e015cd513099e46cd5c41dd1085842b49e5611c69df95a793e30e54bc Homepage: https://cran.r-project.org/package=hydroMOPSO Description: CRAN Package 'hydroMOPSO' (Multi-Objective Optimisation with Focus on Environmental Models) State-of-the-art Multi-Objective Particle Swarm Optimiser (MOPSO), based on the algorithm developed by Lin et al. (2018) with improvements described by Marinao-Rivas & Zambrano-Bigiarini (2020) . This package is inspired by and closely follows the philosophy of the single objective 'hydroPSO' R package ((Zambrano-Bigiarini & Rojas, 2013) ), and can be used for global optimisation of non-smooth and non-linear R functions and R-base models (e.g., 'TUWmodel', 'GR4J', 'GR6J'). However, the main focus of 'hydroMOPSO' is optimising environmental and other real-world models that need to be run from the system console (e.g., 'SWAT+'). 'hydroMOPSO' communicates with the model to be optimised through its input and output files, without requiring modifying its source code. Thanks to its flexible design and the availability of several fine-tuning options, 'hydroMOPSO' can tackle a wide range of multi-objective optimisation problems (e.g., multi-objective functions, multiple model variables, multiple periods). Finally, 'hydroMOPSO' is designed to run on multi-core machines or network clusters, to alleviate the computational burden of complex models with long execution time. Package: r-cran-hydropeak Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 201 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-data.table Filename: pool/dists/focal/main/r-cran-hydropeak_0.1.2-1.ca2004.1_all.deb Size: 81368 MD5sum: 7018776273feca5dcbd271d80d313287 SHA1: b785176f18f60bab549df7ea95245c868dfe3448 SHA256: 4b69f2d76a691b63a3f665d441ab863f78a5fc03e50aab6cb95da8045f4a87e6 SHA512: 6100f6aaedd5aa4dfb42dda9263f19efdabefb6e4177d87e714fd43f90371b51410410e0910a324d9526163b6118c0165053bb793cb89e6cb6202b2eb7b72512 Homepage: https://cran.r-project.org/package=hydropeak Description: CRAN Package 'hydropeak' (Detect and Characterize Sub-Daily Flow Fluctuations) An important environmental impact on running water ecosystems is caused by hydropeaking - the discontinuous release of turbine water because of peaks of energy demand. An event-based algorithm is implemented to detect flow fluctuations referring to increase events (IC) and decrease events (DC). For each event, a set of parameters related to the fluctuation intensity is calculated. The framework is introduced in Greimel et al. (2016) "A method to detect and characterize sub-daily flow fluctuations" and can be used to identify different fluctuation types according to the potential source: e.g., sub-daily flow fluctuations caused by hydropeaking, rainfall, or snow and glacier melt. This is a companion to the package 'hydroroute', which is used to detect and follow hydropower plant-specific hydropeaking waves at the sub-catchment scale and to describe how hydropeaking flow parameters change along the longitudinal flow path as proposed and validated in Greimel et al. (2022). Package: r-cran-hydroportailstats Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 245 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-evd, r-cran-mvtnorm, r-cran-numderiv Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hydroportailstats_1.1.0-1.ca2004.1_all.deb Size: 206468 MD5sum: 7c54aa76eab9af447465b9ba5dad489b SHA1: 54316a6f02aafa80f46464b4d1685fd2f5386262 SHA256: 751d993a9530f1f31e608de42b17addca22a80599ae6cee8023cab0fc37901ac SHA512: 469ba76ae7fc92dddf4551452fb48af6cc473d275fb4b779314b8d51d306d94ecaf9c921ea8bd5d7e1321bfd5b210d9a8e501c7d675f0d81d0587243a4fb35d8 Homepage: https://cran.r-project.org/package=HydroPortailStats Description: CRAN Package 'HydroPortailStats' ('HydroPortail' Statistical Functions) Statistical functions used in the French 'HydroPortail' . This includes functions to estimate distributions, quantile curves and uncertainties, along with various other utilities. Technical details are available (in French) in Renard (2016) . Package: r-cran-hydropso Architecture: all Version: 0.5-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 786 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc, r-cran-sp, r-cran-lattice, r-cran-lhs, r-cran-vioplot, r-cran-scatterplot3d, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hydropso_0.5-1-1.ca2004.1_all.deb Size: 724864 MD5sum: 18ceaf5f44d94d32668a39034f78dea5 SHA1: 2c76e75ca9aa65bba34fa275e3bc686db2076cda SHA256: 8be6940b2b3c54858e196abb77238f1f5b7debba405682b6753447c0181f7071 SHA512: 9b81654f8148a5b1e69909edad79de03aad6fded9c5068c7f38cd7f335994f9b2de3efad52bcd107bde3db4b6ef81d0f3fb4f0e19edb16e43c32d6e472b7b38c Homepage: https://cran.r-project.org/package=hydroPSO Description: CRAN Package 'hydroPSO' (Particle Swarm Optimisation, with Focus on Environmental Models) State-of-the-art version of the Particle Swarm Optimisation (PSO) algorithm (SPSO-2011 and SPSO-2007 capable). hydroPSO can be used as a replacement of the 'optim' R function for (global) optimization of non-smooth and non-linear functions. However, the main focus of hydroPSO is the calibration of environmental and other real-world models that need to be executed from the system console. hydroPSO is model-independent, allowing the user to easily interface any computer simulation model with the calibration engine (PSO). hydroPSO communicates with the model through the model's own input and output files, without requiring access to the model's source code. Several PSO variants and controlling options are included to fine-tune the performance of the calibration engine to different calibration problems. An advanced sensitivity analysis function together with user-friendly plotting summaries facilitate the interpretation and assessment of the calibration results. hydroPSO is parallel-capable, to alleviate the computational burden of complex models with "long" execution time. Bugs reports/comments/questions are very welcomed (in English, Spanish or Italian). See Zambrano-Bigiarini and Rojas (2013) for more details. Package: r-cran-hydroroute Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2427 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggpmisc, r-cran-ggplot2, r-cran-gridextra, r-cran-hydropeak, r-cran-lubridate, r-cran-reshape2, r-cran-scales Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-hydroroute_0.1.2-1.ca2004.1_all.deb Size: 792936 MD5sum: bf65f086c0b1b77ec5cfb7ced04665e2 SHA1: 78104f67f6986eee40d58627c483b826fcd03988 SHA256: c6f8291cee930635a4a42c8d586608b3f443c4cb7e357d22f3f56a7641cae50f SHA512: 92b66f22cb230845396bf4cde644595f3ed4488207dac289f7caee71ed36880533436b00e3d30fe840d72fdc7f1270c3885d7a2062017c69842a748b582ac1ea Homepage: https://cran.r-project.org/package=hydroroute Description: CRAN Package 'hydroroute' (Trace Longitudinal Hydropeaking Waves) Implements an empirical approach referred to as PeakTrace which uses multiple hydrographs to detect and follow hydropower plant-specific hydropeaking waves at the sub-catchment scale and to describe how hydropeaking flow parameters change along the longitudinal flow path. The method is based on the identification of associated events and uses (linear) regression models to describe translation and retention processes between neighboring hydrographs. Several regression model results are combined to arrive at a power plant-specific model. The approach is proposed and validated in Greimel et al. (2022) . The identification of associated events is based on the event detection implemented in 'hydropeak'. Package: r-cran-hydroscoper Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 768 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringi, r-cran-stringr, r-cran-pingr, r-cran-readr, r-cran-jsonlite Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hydroscoper_1.4.1-1.ca2004.1_all.deb Size: 604552 MD5sum: 46aeb7d70f5993d30bf39c7100cf350f SHA1: 3a0b3a1488ea632f3b1c062b3f0d3a45d8f6b346 SHA256: 9f8773adf2f40169aaf8a3455b17c6c0bba0e9d18c443d99f69adc837c017e5d SHA512: 15f4b5e9c1769fe1ecee53bd6ba8cf7a888516424b0958c29af1a24cac976f30a8afdff1280661d7e8fd071e3d1c87e2dbfd053c14fdf33adf1a400830e3d910 Homepage: https://cran.r-project.org/package=hydroscoper Description: CRAN Package 'hydroscoper' (Interface to the Greek National Data Bank forHydrometeorological Information) R interface to the Greek National Data Bank for Hydrological and Meteorological Information. It covers Hydroscope's data sources and provides functions to transliterate, translate and download them into tidy dataframes. Package: r-cran-hydrostats Architecture: all Version: 0.2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 471 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-dplyr, r-cran-plyr Filename: pool/dists/focal/main/r-cran-hydrostats_0.2.9-1.ca2004.1_all.deb Size: 192492 MD5sum: 154eb693596a36b2b394ec592f21f289 SHA1: d753a528c703aa79ee97a22280ebb7c688c3a560 SHA256: 0b49679be59a26bedb3cb201469292bb58ef29afdc4d6198e35e0f19a1dbeb91 SHA512: 966a8d6012832319424a72117964e3b5e7baf0ce81452239a9b2d5adfc7f1ac53580f22711db73a63967cdc274b8ffd4a058325fc01fb93ab887654a876fd0e6 Homepage: https://cran.r-project.org/package=hydrostats Description: CRAN Package 'hydrostats' (Hydrologic Indices for Daily Time Series Data) Calculates a suite of hydrologic indices for daily time series data that are widely used in hydrology and stream ecology. Package: r-cran-hydrotoolkit Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5334 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plotly, r-cran-lubridate, r-cran-readxl, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-hydrotoolkit_0.1.0-1.ca2004.1_all.deb Size: 1148524 MD5sum: ecb5dc05b844a8ca1511fe3c1d9ddf4c SHA1: 69458305e450e0e291c60b99b04ac1eb422f3809 SHA256: a68af8bbb4c4e9f413ac86be79f08d7e921f936be6d9609ef27a87d385348048 SHA512: ae302448cb2d6e56edd9f5a9709fb650db6c14ba4b4a1b5c5e02a38703b5dd3406f86f0639c4b4285ce95e8bbc845bb7c49e2fbd07d409e24416c24a01707210 Homepage: https://cran.r-project.org/package=hydroToolkit Description: CRAN Package 'hydroToolkit' (Hydrological Tools for Handling Hydro-Meteorological Data fromArgentina and Chile) Read, plot, manipulate and process hydro-meteorological data from Argentina and Chile. Package: r-cran-hydrotsm Architecture: all Version: 0.7-0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3830 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-zoo, r-cran-xts, r-cran-e1071, r-cran-lattice, r-cran-classint Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-hydrotsm_0.7-0.1-1.ca2004.1_all.deb Size: 3630308 MD5sum: 09d7dce8f5c5888b18f394719cd1f69c SHA1: 4a407f946f9dd7fb4d4fdfd64cb15a08b8ace524 SHA256: 0d727a5ae12344b2d4e6e589df9fa2e75314f4f2ffc9378e70c090b62e193642 SHA512: 6c9b68f99ff47d6e0027c9e8fb20e9ecef164d92fcbecc189816a2cafb16d13b9c71e1558c9f14ace88d74a931cb77146d6dbbd78503048a2acd72fac3293f12 Homepage: https://cran.r-project.org/package=hydroTSM Description: CRAN Package 'hydroTSM' (Time Series Management and Analysis for Hydrological Modelling) S3 functions for management, analysis, interpolation and plotting of time series used in hydrology and related environmental sciences. In particular, this package is highly oriented to hydrological modelling tasks. The focus of this package has been put in providing a collection of tools useful for the daily work of hydrologists (although an effort was made to optimise each function as much as possible, functionality has had priority over speed). Bugs / comments / questions / collaboration of any kind are very welcomed, and in particular, datasets that can be included in this package for academic purposes. Package: r-cran-hyfo Architecture: all Version: 1.4.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 979 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-reshape2, r-cran-zoo, r-cran-sf, r-cran-plyr, r-cran-moments, r-cran-lmom, r-cran-maps, r-cran-sp, r-cran-ncdf4, r-cran-mass, r-cran-data.table Suggests: r-cran-gridextra, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-hyfo_1.4.6-1.ca2004.1_all.deb Size: 661096 MD5sum: 6bf2f44e20893466ccffad9df6823352 SHA1: e3024cbfc137e98f2d4f03a9b7a3e92cdbf15ad3 SHA256: 5d01e2fb5e1f5b21661a3df2125c625e0518136cb5d6bedf8f7c6f8bb0c05644 SHA512: d5f469c44ee4f5c4179e6af85807eacede982f7cbf9f61c32ab52f83500d4312b5a58f1429ea502c422c709f9c503697efbab68d53bec6a24fcdeda4fded70b9 Homepage: https://cran.r-project.org/package=hyfo Description: CRAN Package 'hyfo' (Hydrology and Climate Forecasting) Focuses on data processing and visualization in hydrology and climate forecasting. Main function includes data extraction, data downscaling, data resampling, gap filler of precipitation, bias correction of forecasting data, flexible time series plot, and spatial map generation. It is a good pre- processing and post-processing tool for hydrological and hydraulic modellers. Package: r-cran-hymett Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7503 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-dplyr, r-cran-envstats, r-cran-lmomco, r-cran-lubridate, r-cran-plyr, r-cran-rlang, r-cran-tibble, r-cran-zoo Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-hymett_1.1.3-1.ca2004.1_all.deb Size: 2233668 MD5sum: a234248f961140b5e99ebd3d132c59fc SHA1: 0a43e631795b812f0bf62450097f56466d3bd5b9 SHA256: dae2e57dd16f7d524a7cd7ea6adbe44a07174681a74f2aedd88ca97a5dde67bd SHA512: 77259781ad47c747865608020322df3f77aa4ee847fc39e0c6accb75471b2ecb205ee3572aba9a697b0268b1935ca4a33a74cba325206df12e504d7850b5f495 Homepage: https://cran.r-project.org/package=HyMETT Description: CRAN Package 'HyMETT' (Hydrologic Model Evaluation and Time-Series Tools) Facilitates the analysis and evaluation of hydrologic model output and time-series data with functions focused on comparison of modeled (simulated) and observed data, period-of-record statistics, and trends. Package: r-cran-hyper.fit Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1236 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magicaxis, r-cran-mass, r-cran-rgl, r-cran-laplacesdemon Filename: pool/dists/focal/main/r-cran-hyper.fit_1.2.1-1.ca2004.1_all.deb Size: 360652 MD5sum: 6dd6e13dbd322e35c48adf2956e04ccd SHA1: 93c9a122d0cd5bcc725112ac5c4758ea28201aa0 SHA256: d128119dc37e9e2dda2c39146f7322a4e46b741476cf772e981547aca6d52955 SHA512: 5827b4a242d9e197210d01cee28cd83a11e3c2ef65ccd401bfe41fe243a60196343fb73bae57d345cb821f0fe8089469635542b70f104461e9b49c9bb49b8983 Homepage: https://cran.r-project.org/package=hyper.fit Description: CRAN Package 'hyper.fit' (N-Dimensional Hyperplane Fitting with Errors) High level functions for hyperplane fitting (hyper.fit()) and visualising (hyper.plot2d() / hyper.plot3d()). In simple terms this allows the user to produce robust 1D linear fits for 2D x vs y type data, and robust 2D plane fits to 3D x vs y vs z type data. This hyperplane fitting works generically for any N-1 hyperplane model being fit to a N dimension dataset. All fits include intrinsic scatter in the generative model orthogonal to the hyperplane. Package: r-cran-hyper.gam Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4578 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-caret, r-cran-cli, r-cran-mgcv, r-cran-nlme, r-cran-plotly, r-cran-groupedhyperframe Suggests: r-cran-knitr, r-cran-quarto, r-cran-rmarkdown, r-cran-spatstat.geom, r-cran-survival, r-cran-matrixstats, r-cran-htmlwidgets Filename: pool/dists/focal/main/r-cran-hyper.gam_0.1.2-1.ca2004.1_all.deb Size: 1069492 MD5sum: 4cefb7834910a3638efacdd4b812111e SHA1: 161198b511c0686cc6669c639f2f7ba850aed1b3 SHA256: b2c26d051681ab13ff1af9027f6fbbfdd212a2a89b97a3a384efc2b40deb5291 SHA512: 6f58e2ffbcddc1bd901f42c1e04e0d650cfda077121ac462f441e8a9c82ae94f245c206df9d93ec49ce24b057aa196f6499ff9c815be27e6e4a8339131869534 Homepage: https://cran.r-project.org/package=hyper.gam Description: CRAN Package 'hyper.gam' (Generalized Additive Models with Hyper Column) Generalized additive models with a numeric hyper column tabulated on a common grid. Sign-adjustment based on the correlation of model prediction and a selected slice of the hyper column. Visualization of the integrand surface over the hyper column. Package: r-cran-hyperbolicdea Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-lpsolveapi, r-cran-nloptr, r-cran-benchmarking Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-hyperbolicdea_1.0.2-1.ca2004.1_all.deb Size: 81472 MD5sum: 8b120637268433ffb126e1af96ef1207 SHA1: 952580db78748a0fd90f501dd3009693be1fe895 SHA256: 021f9ac7bf64d5b825ab99476c29ec8a48f3095f317e9587c7c887b70472f042 SHA512: ac3374215886b8638fec206dc8de88f526147199e961c99d53f3803adb3a7ec0923ddfe29b2ccccfe88c8813dca6f31ebd930e56314d6d7e379c984f0533f36d Homepage: https://cran.r-project.org/package=hyperbolicDEA Description: CRAN Package 'hyperbolicDEA' (Hyperbolic DEA Estimation) Implements Data Envelopment Analysis (DEA) with a hyperbolic orientation using a non-linear programming solver. 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Package: r-cran-hyperbolicdist Architecture: all Version: 0.6-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 399 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-actuar Filename: pool/dists/focal/main/r-cran-hyperbolicdist_0.6-5-1.ca2004.1_all.deb Size: 358680 MD5sum: d6af2f430968fdfe61fcf30d2a49695f SHA1: 9bf88927bd781019f49f434422f67e01091d435d SHA256: 81d701b9edcbc6c9d022e191240d84fdd0e31b14d4c775efaf22a81b63cbd09b SHA512: dfda061c746e22268a71b66670dd566de4c3f22d5da87d6e4b9a3de353227b77ce7efb88409c6556a8442125ef5bff1b8510f010c907623f6dd43d61e5f582ec Homepage: https://cran.r-project.org/package=HyperbolicDist Description: CRAN Package 'HyperbolicDist' (The Hyperbolic Distribution) Maintenance has been discontinued for this package. It has been superseded by 'GeneralizedHyperbolic'. 'GeneralizedHyperbolic' includes all the functionality of 'HyperbolicDist' and more and is based on a more rational design. 'HyperbolicDist' provides functions for the hyperbolic and related distributions. Density, distribution and quantile functions and random number generation are provided for the hyperbolic distribution, the generalized hyperbolic distribution, the generalized inverse Gaussian distribution and the skew-Laplace distribution. Additional functionality is provided for the hyperbolic distribution, including fitting of the hyperbolic to data. Package: r-cran-hyperbrick Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6361 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-rgdal, r-cran-openimager, r-cran-catools, r-cran-dfoptim, r-cran-pbapply Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-hyperbrick_1.0-1.ca2004.1_all.deb Size: 2960608 MD5sum: 675d2e7e02cff4d1a0cedbd4ead55097 SHA1: 1f9d6f7430e555058c4241ee567e9c5205e3dac8 SHA256: 965681dcf862c16d1bc56a84f21af72f671e04a0b2ba8a3af6e26a17a446b08d SHA512: eac11a4960c085f7acbc5a565cb492ad7878ad3c695fe49adf2922212d82f121ddbfc90b7003b43f74e6e5117483ce6bec0a9ce511afaadbe8d658ec83cab70c Homepage: https://cran.r-project.org/package=hyperbrick Description: CRAN Package 'hyperbrick' (Accessory Tools for Preprocessing Hyper-Spectral Images) Read and execute preprocessing procedures on hyper-spectral images. 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Comfortable ways to work with hyperspectral data sets. I.e. spatially or time-resolved spectra, or spectra with any other kind of information associated with each of the spectra. The spectra can be data as obtained in XRF, UV/VIS, Fluorescence, AES, NIR, IR, Raman, NMR, MS, etc. More generally, any data that is recorded over a discretized variable, e.g. absorbance = f(wavelength), stored as a vector of absorbance values for discrete wavelengths is suitable. 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Package: r-cran-iadt Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rmpfr, r-cran-mgcv, r-cran-rdpack, r-cran-mvnfast Filename: pool/dists/focal/main/r-cran-iadt_1.2.1-1.ca2004.1_all.deb Size: 30944 MD5sum: 25a40da389aa80a6f2e8a7dc6503912b SHA1: 32f48e93d67f2eeb1d2bce144fd12686c7e514a6 SHA256: 058d9ba9dd4f97ac54df9c0cfcd91262f94d6b7c88bb3e7ead018bd4fbda4858 SHA512: d82b1fab563330f5e4d8aa39c1c784b72e7d2c58b01cb954f21c69ed562fca8b101637d131830320a586cb2cbbf0d051cd6128dbaafe8f408d75451ff908c715 Homepage: https://cran.r-project.org/package=IADT Description: CRAN Package 'IADT' (Interaction Difference Test for Prediction Models) Provides functions to conduct a model-agnostic asymptotic hypothesis test for the identification of interaction effects in black-box machine learning models. The null hypothesis assumes that a given set of covariates does not contribute to interaction effects in the prediction model. The test statistic is based on the difference of variances of partial dependence functions (Friedman (2008) and Welchowski (2022) ) with respect to the original black-box predictions and the predictions under the null hypothesis. The hypothesis test can be applied to any black-box prediction model, and the null hypothesis of the test can be flexibly specified according to the research question of interest. Furthermore, the test is computationally fast to apply as the null distribution does not require resampling or refitting black-box prediction models. Package: r-cran-iai Architecture: all Version: 1.10.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 669 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-juliacall, r-cran-stringr, r-cran-rlang, r-cran-lifecycle, r-cran-rappdirs, r-cran-ggplot2, r-cran-cowplot, r-cran-rjson Suggests: r-cran-testthat, r-cran-covr, r-cran-xml2, r-cran-withr Filename: pool/dists/focal/main/r-cran-iai_1.10.2-1.ca2004.1_all.deb Size: 509652 MD5sum: 0ee7f4b7c5c546246fbb01b1f3ef14f8 SHA1: fd39660bf95b304dcaca5836274b73c6efa10210 SHA256: ff7d8f05290bdad0503538b58bab8864c27ae995e829054549e38083c7616d7e SHA512: 28058f86db2875a591439969fcd2b3ad7c09ad1c91a3fc886a6bd874a7a364cb74ef2879f528428ccf121e398ef940589b08cb173620f4fa79a0216891cc4593 Homepage: https://cran.r-project.org/package=iai Description: CRAN Package 'iai' (Interface to 'Interpretable AI' Modules) An interface to the algorithms of 'Interpretable AI' from the R programming language. 'Interpretable AI' provides various modules, including 'Optimal Trees' for classification, regression, prescription and survival analysis, 'Optimal Imputation' for missing data imputation and outlier detection, and 'Optimal Feature Selection' for exact sparse regression. The 'iai' package is an open-source project. The 'Interpretable AI' software modules are proprietary products, but free academic and evaluation licenses are available. Package: r-cran-ialiquor Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4048 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-knitr, r-cran-ggplot2, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ialiquor_0.1.0-1.ca2004.1_all.deb Size: 3887848 MD5sum: 4aad1f068bbb614522204373cae2d4cb SHA1: 2533873ef10dc5ef16de9c0229f0c637ab43dea8 SHA256: 52d96e86d2eec358b08eba39731cbe9f6571e53f8bafae080dd59b7fa3e267ff SHA512: 274c9d8a64e55428fbc0a394c82fe7bc5545049fa8043329ef33055da79ca2b2f3c11cd5f986c3c93e93c5b9495bd6995e1c0acd6a8c496e7175e916d0009152 Homepage: https://cran.r-project.org/package=ialiquor Description: CRAN Package 'ialiquor' (Monthly Iowa Liquor Sales Summary) Provides a monthly summary of Iowa liquor (class E) sales from January 2015 to October 2020. See the package website for more information, documentation and examples. Data source: Iowa Data portal . Package: r-cran-ials Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rspectra, r-cran-pracma, r-cran-hdmfa Filename: pool/dists/focal/main/r-cran-ials_0.1.3-1.ca2004.1_all.deb Size: 29232 MD5sum: 95eb34ab537983bea2ca9a0c02bb6b7d SHA1: 656dc51f81ace4ae9815f6958a7810398033d26f SHA256: 288adc2abaa1d7ac8170a16b806f97cd2fbca95476d57cd11729d3df2cd33362 SHA512: 1e9694c5e7ba8156bdba5ec580f4eecf800ae6c3411266f392f206cc3c191f43badcc3ba9792b0cc6515a0c9163215cb0e5451ed8c47fc4d3c498ca848da21f7 Homepage: https://cran.r-project.org/package=IALS Description: CRAN Package 'IALS' (Iterative Alternating Least Square Estimation forLarge-Dimensional Matrix Factor Model) The matrix factor model has drawn growing attention for its advantage in achieving two-directional dimension reduction simultaneously for matrix-structured observations. In contrast to the Principal Component Analysis (PCA)-based methods, we propose a simple Iterative Alternating Least Squares (IALS) algorithm for matrix factor model, see the details in He et al. (2023) . Package: r-cran-iarm Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-erm, r-cran-ggplot2, r-cran-gridextra, r-cran-hmisc, r-cran-psychotools, r-cran-vcdextra Filename: pool/dists/focal/main/r-cran-iarm_0.4.3-1.ca2004.1_all.deb Size: 167904 MD5sum: 58017dfa27d31dc2a5c27f9191a1246b SHA1: af86a91ef18304679d3435ea0c82cc5000e73d04 SHA256: 0743aaca9c9d2f4f3cdd6fadaa0da36dd55ad7fbde52b6b5ea2c2a83d4724f7d SHA512: 93f9d3f82edf989a037a20c074e7f21ad554b6bc54924fbba03744f56d177c56c5db59654306d57e5d0c5f4c41730720ad3acb02c854d5e7a1e0b54959619d8a Homepage: https://cran.r-project.org/package=iarm Description: CRAN Package 'iarm' (Item Analysis in Rasch Models) Tools to assess model fit and identify misfitting items for Rasch models (RM) and partial credit models (PCM). Included are item fit statistics, item characteristic curves, item-restscore association, conditional likelihood ratio tests, assessment of measurement error, estimates of the reliability and test targeting as described in Christensen et al. (Eds.) (2013, ISBN:978-1-84821-222-0). Package: r-cran-iasd Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-iasd_1.1.1-1.ca2004.1_all.deb Size: 33796 MD5sum: 88a2c1cfabbd5eadb087e4956ca2f69e SHA1: 791b3340732a9682832514007a1cbc323116ccd8 SHA256: 1f04d14d560318c872db7ddb64ea85205eaa8f1beb7bff4c26a8f6d04a7a32e9 SHA512: 2fd12872eec4a7dfe77cfe00c906dc865fde68108a6445d551c6c28904e965e6ad595c4507fdc16f320e3d1a5d6d57b095cd625226338b94d7da27df6a450c2d Homepage: https://cran.r-project.org/package=IASD Description: CRAN Package 'IASD' (Model Selection for Index of Asymmetry Distribution) Calculate AIC's and AICc's of unimodal model (one normal distribution) and bimodal model(a mixture of two normal distributions) which fit the distribution of indices of asymmetry (IAS), and plot their density, to help determine IAS distribution is unimodal or bimodal. Package: r-cran-iat Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-lazyeval Filename: pool/dists/focal/main/r-cran-iat_0.3-1.ca2004.1_all.deb Size: 79980 MD5sum: 72dc7c8ee4bf3ea5e1dcbab0bc8a329c SHA1: c1aee1573bc8bdc27bf143d914ba42bec5d2f21c SHA256: 1fd80b2bfa22c8a4bab5ec856295bcae692ecb734a9c1e7d2cbbc3f77b6ebb90 SHA512: 19a02e29048835d0723aa42dc0edd642bdd7105069cd9c673edf25bb28b58bd1879340b4859f3a5cc4ddd431b93600505476c816c6e3253e70ae3023bd69a770 Homepage: https://cran.r-project.org/package=IAT Description: CRAN Package 'IAT' (Cleaning and Visualizing Implicit Association Test (IAT) Data) Implements the standard D-Scoring algorithm (Greenwald, Banaji, & Nosek, 2003) for Implicit Association Test (IAT) data and includes plotting capabilities for exploring raw IAT data. Package: r-cran-iatanalytics Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-iatanalytics_0.2.0-1.ca2004.1_all.deb Size: 25064 MD5sum: c9f5feefbef4fc6593a4cbff25e15dfa SHA1: c39d0532cd6947914234bcfa258cf154bfa22a8d SHA256: d82d9d1279e26892675025b3c9086d0325aa23a0bb2e5b087301928780ab37da SHA512: 420617f2fc4720cd3cac21259fab7230130b6661ff5123b30268432bec16514696c531c44159e5df5c6b86d1c41fb8ebd5a1ef5bd70493b5e1b3b521b688c942 Homepage: https://cran.r-project.org/package=IATanalytics Description: CRAN Package 'IATanalytics' (Compute Effect Sizes and Reliability for Implicit AssociationTest (IAT) Data) Quickly score raw data outputted from an Implicit Association Test (IAT; Greenwald, McGhee, & Schwartz, 1998) . IAT scores are calculated as specified by Greenwald, Nosek, and Banaji (2003) . The output of this function is a data frame that consists of four rows containing the following information: (1) the overall IAT effect size for the participant's dataset, (2) the effect size calculated for odd trials only, (3) the effect size calculated for even trials only, and (4) the proportion of trials with reaction times under 300ms (which is important for exclusion purposes). Items (2) and (3) allow for a measure of the internal consistency of the IAT. Specifically, you can use the subsetted IAT effect sizes for odd and even trials to calculate Cronbach's alpha across participants in the sample. The input function consists of three arguments. First, indicate the name of the dataset to be analyzed. This is the only required input. Second, indicate the number of trials in your entire IAT (the default is set to 220, which is typical for most IATs). Last, indicate whether congruent trials (e.g., flowers and pleasant) or incongruent trials (e.g., guns and pleasant) were presented first for this participant (the default is set to congruent). Data files should consist of six columns organized in order as follows: Block (0-6), trial (0-19 for training blocks, 0-39 for test blocks), category (dependent on your IAT), the type of item within that category (dependent on your IAT), a dummy variable indicating whether the participant was correct or incorrect on that trial (0=correct, 1=incorrect), and the participant’s reaction time (in milliseconds). A sample dataset (titled 'sampledata') is included in this package to practice with. Package: r-cran-iatscore Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-iatscore_0.2.0-1.ca2004.1_all.deb Size: 24484 MD5sum: cf5d397f88ec24da0a399815e28ca3f1 SHA1: 60c9a67e9c7f7d7be6cce619757b85477eef4f85 SHA256: 8df0b0edc66ba5ab5ef5742a12c5153e7e4811529254fbc236f14c4d2a0fd5d3 SHA512: 39bf9847f76b0a1724e4a4df784b947636f7dcc6ac7bebde5b2087050eca273fd0635c5048c425ff67b7a9c316ff997e09326deea29c54ccc1ce02c08079c12a Homepage: https://cran.r-project.org/package=IATScore Description: CRAN Package 'IATScore' (Scoring Algorithm for the Implicit Association Test (IAT)) This minimalist package is designed to quickly score raw data outputted from an Implicit Association Test (IAT; Greenwald, McGhee, & Schwartz, 1998) . IAT scores are calculated as specified by Greenwald, Nosek, and Banaji (2003) . Outputted values can be interpreted as effect sizes. The input function consists of three arguments. First, indicate the name of the dataset to be analyzed. This is the only required input. Second, indicate the number of trials in your entire IAT (the default is set to 219, which is typical for most IATs). Last, indicate whether congruent trials (e.g., flowers and pleasant) or incongruent trials (e.g., guns and pleasant) were presented first for this participant (the default is set to congruent). The script will tell you how long it took to run the code, the effect size for the participant, and whether that participant should be excluded based on the criteria outlined by Greenwald et al. (2003). Data files should consist of six columns organized in order as follows: Block (0-6), trial (0-19 for training blocks, 0-39 for test blocks), category (dependent on your IAT), the type of item within that category (dependent on your IAT), a dummy variable indicating whether the participant was correct or incorrect on that trial (0=correct, 1=incorrect), and the participant’s reaction time (in milliseconds). Three sample datasets are included in this package (labeled 'IAT', 'TooFastIAT', and 'BriefIAT') to practice with. Package: r-cran-iatscores Architecture: all Version: 0.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-dplyr, r-cran-reshape2, r-cran-qgraph Suggests: r-cran-nparcomp Filename: pool/dists/focal/main/r-cran-iatscores_0.2.8-1.ca2004.1_all.deb Size: 106800 MD5sum: 320a286fc0b9630bb06b9f70ff21dfe9 SHA1: c54b9bc3ba7b7221e01d0c36e115c3b4a72d9dc6 SHA256: 7426c92266c06a7335cd8502de1d59c538e818671b3ac2c67b92fd338a001c06 SHA512: cddcd0f4b7861d2f9b7fa9eeaea21038ce6bbe66d735a5a235ace2fcc797f2a28cd2f983525b390982bbade1e826505d5b2cc56ab661311b18ef030062c0d356 Homepage: https://cran.r-project.org/package=IATscores Description: CRAN Package 'IATscores' (Implicit Association Test Scores Using Robust Statistics) Compute several variations of the Implicit Association Test (IAT) scores, including the D scores (Greenwald, Nosek, Banaji, 2003, ) and the new scores that were developed using robust statistics (Richetin, Costantini, Perugini, and Schonbrodt, 2015, ). 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This procedure has better bias correction properties than the bootstrap bias correction technique. 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It finds the symbolic formula of the regression function y=f(x) as described in Ye, Senftle, and Li (2023) . 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(2017) . Package: r-cran-ibd Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lpsolve, r-cran-car, r-cran-emmeans, r-cran-multcomp Suggests: r-cran-multcompview Filename: pool/dists/focal/main/r-cran-ibd_1.6-1.ca2004.1_all.deb Size: 122660 MD5sum: 82832fe42ca1a4473653ef4a95e49e23 SHA1: ec73ed8bd33f129a91276a7084ac3b1819da3c2f SHA256: 72660d0e12dc6dc8e8a8b5e2944edcd1b0d42c6cc1b747b5106922ea7d9665cb SHA512: e3e7681ce8ffb492b8028ae3b8f5dad51ded9ba9cf34a1598cd79c1670e7278ce844c64904e8b7c206c9ae1e0eaf3b61e2642902b9cb4de67779b250fd5b1b93 Homepage: https://cran.r-project.org/package=ibd Description: CRAN Package 'ibd' (Incomplete Block Designs) A collection of several utility functions related to binary incomplete block designs. Contains function to generate A- and D-efficient binary incomplete block designs with given numbers of treatments, number of blocks and block size. Contains function to generate an incomplete block design with specified concurrence matrix. There are functions to generate balanced treatment incomplete block designs and incomplete block designs for test versus control treatments comparisons with specified concurrence matrix. Allows performing analysis of variance of data and computing estimated marginal means of factors from experiments using a connected incomplete block design. Tests of hypothesis of treatment contrasts in incomplete block design set up is supported. Package: r-cran-ibdhaplortools Architecture: all Version: 1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 438 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ibdhaplortools_1.8-1.ca2004.1_all.deb Size: 354424 MD5sum: 08f5c528dcf3cb11369e9935649235d9 SHA1: 2edd6b9c43f850fbdaa6b8eb1cfcbbfe4171ecab SHA256: 2f9f7d9d51c8da11d37cfa234bdeea91135d0cc2170f11b0975b9a73d4a6d193 SHA512: 5b5e46c75726e77e804a6ace9a1b8f2e903e0108296a8e86b9307a4b9a7c28a82651dc7f0e5279960958aad7e2ffc582aceb6a8c71a222db2df461d9dcab199e Homepage: https://cran.r-project.org/package=IBDhaploRtools Description: CRAN Package 'IBDhaploRtools' (Functions for the Analysis of IBD Haplo Output) Functions to analyze, plot, and store the output of running IBD_Haplo software package. More information regarding IBD_Haplo can be found at http://www.stat.washington.edu/thompson/Genepi/pangaea.shtml. 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Based on 'Koo and Pashley' (2024) , it includes block-level estimators and extends to unit-level effects using 'Horvitz-Thompson' and 'Hájek' estimators. The package also provides asymptotic confidence intervals to support valid statistical inference. 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However, the existing methods of IBFS do not always provide a good feasible solution which can reduce the number of iterations to find the optimal solution. This initial basic feasible solution can be obtained by using any of the following methods. a) North West Corner Method. b) Least Cost Method. c) Row Minimum Method. d) Column Minimum Method. e) Vogel's Approximation Method. etc. For more technical details about the algorithms please refer below URLs. . . . . 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Many basic and complex R operations are pushed down into the database, which removes the main memory boundary of R and allows to make full use of parallel processing in the underlying database. For executing R-functions in a multi-node environment in parallel the idaTApply() function requires the 'SparkR' package (). The optional 'ggplot2' package is needed for the plot.idaLm() function only. 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Supports additive attributions and attributions with interactions. The Break Down Table shows contributions of every variable to a final prediction. The Break Down Plot presents variable contributions in a concise graphical way. This package works for classification and regression models. It is an extension of the 'breakDown' package (Staniak and Biecek 2018) , with new and faster strategies for orderings. It supports interactions in explanations and has interactive visuals (implemented with 'D3.js' library). The methodology behind is described in the 'iBreakDown' article (Gosiewska and Biecek 2019) This package is a part of the 'DrWhy.AI' universe (Biecek 2018) . 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Package: r-cran-ibrtools Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-tibble, r-cran-data.table, r-cran-gtools, r-cran-tidyr, r-cran-fmsb, r-cran-binhf, r-cran-tidyselect Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ibrtools_0.1.3-1.ca2004.1_all.deb Size: 56616 MD5sum: 8abfdcab59dbd251268eff70ee5e9965 SHA1: 6ada519457679dca2596d9eeb8f48178f71c43a8 SHA256: fa0a7a5d442bf6974d90fa88796bfa3a5a1228706924d4e3be329ba03b04b349 SHA512: 9dbb94860937e017d85b38af0e18ef0fa583c2d11124ec586a889fbf53f09459d4be14dba57c7df84555095506f3c615c2d3874455bbb18376cc7ae01e2030e3 Homepage: https://cran.r-project.org/package=IBRtools Description: CRAN Package 'IBRtools' (Integrating Biomarker-Based Assessments and Radarchart Creation) Several functions to calculate two important indexes (IBR (Integrated Biomarker Response) and IBRv2 (Integrated Biological Response version 2)), it also calculates the standardized values for enzyme activity for each index, and it has a graphing function to perform radarplots that make great data visualization for this type of data. Beliaeff, B., & Burgeot, T. (2002). . Sanchez, W., Burgeot, T., & Porcher, J.-M. (2013).. Devin, S., Burgeot, T., Giambérini, L., Minguez, L., & Pain-Devin, S. (2014). . Minato N. (2022). . Package: r-cran-ic.infer Architecture: all Version: 1.1-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 395 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-quadprog, r-cran-mvtnorm, r-cran-boot, r-cran-kappalab Suggests: r-cran-relaimpo Filename: pool/dists/focal/main/r-cran-ic.infer_1.1-7-1.ca2004.1_all.deb Size: 329984 MD5sum: b80a34e6f6ea47ec18e65dad54bf47f7 SHA1: a35e8d62e727e1d6bce5cec2d920ac423232776d SHA256: b6a68052a9e8c330736ca08a6a41a2df5f366b9f8e57cba284aed66584f33264 SHA512: 89cc623d2aad2fb83b01d483ce49ecd7641b2f434041e49bb74e70e2680cd0e6ef9214bcc7df649f1ddbdf10a2e713ce70db2c97e111a0a53f2cbcc59906d37c Homepage: https://cran.r-project.org/package=ic.infer Description: CRAN Package 'ic.infer' (Inequality Constrained Inference in Linear Normal Situations) Implements inequality constrained inference. This includes parameter estimation in normal (linear) models under linear equality and inequality constraints, as well as normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included. Package: r-cran-ic10 Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pamr, r-bioc-impute, r-cran-ic10trainingdata Filename: pool/dists/focal/main/r-cran-ic10_2.0.2-1.ca2004.1_all.deb Size: 78188 MD5sum: 3b07c9de60d1b5d3dc4a0836a9237298 SHA1: 05f83a434c1cb3fb9bacb963550ce8ebef5a1030 SHA256: 19e3fb71abc14903a518a69021b4058b36c13888e437bada11a9acfd2c910d25 SHA512: a6e1d25581f391adce36b52d2b14ccfb3d3b24151dcc079290ff1f5cdcbe52ef8d4c0b0b5e18a21907ad5d5e0932b8ed369637673798d90a203b886229a65d9b Homepage: https://cran.r-project.org/package=iC10 Description: CRAN Package 'iC10' (A Copy Number and Expression-Based Classifier for Breast Tumours) Implementation of the classifier described in the paper Ali HR et al (2014) . It uses copy number and/or expression form breast cancer data, trains a Tibshirani's 'pamr' classifier with the features available and predicts the iC10 group. Package: r-cran-ic10trainingdata Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5764 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ic10trainingdata_2.0.1-1.ca2004.1_all.deb Size: 5856372 MD5sum: 5528e7ce62d883e532b19c03257ee440 SHA1: 1f360184c5f68dc2f7eb077e2dfce33029269fb1 SHA256: e44e7b3fde01da7ceb8861c33f24df333cb3593c93ce6eb4a657db394969ee19 SHA512: cc6f4fbb2f925ea647b8d481cbb6393e8b2488d04b409ee4b315c07f80359de2aa7446d23e9745e77e988dd69bb56d7ff451f1b7175d9d4c3eaa2d0a8793ca61 Homepage: https://cran.r-project.org/package=iC10TrainingData Description: CRAN Package 'iC10TrainingData' (Training Datasets for iC10 Package) Training datasets for iC10; which implements the classifier described in the paper 'Genome-driven integrated classification of breast cancer validated in over 7,500 samples' (Ali HR et al., Genome Biology 2014). It uses copy number and/or expression form breast cancer data, trains a pamr classifier (Tibshirani et al.) with the features available and predicts the iC10 group. Genomic annotation for the training dataset has been obtained from Mark Dunning's lluminaHumanv3.db package. Package: r-cran-ica Architecture: all Version: 1.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ica_1.0-3-1.ca2004.1_all.deb Size: 85348 MD5sum: b2d08f2869c901381fffb3c04053839c SHA1: 2e70245dd3a4af4cde581f0a69819e50c65cb8c5 SHA256: ddf728dbd4a18acd36fa0d1b9033f9e64d359691fc5137f14f96e11105acaec6 SHA512: e30c1ab83a5890b2cdb5f5453afe30fb45e4aed9df0e511116e343113614e980804b2423c7857ffd955c1bbf5c56d2346efc391fe2a2f3595c0e346b37995509 Homepage: https://cran.r-project.org/package=ica Description: CRAN Package 'ica' (Independent Component Analysis) Independent Component Analysis (ICA) using various algorithms: FastICA, Information-Maximization (Infomax), and Joint Approximate Diagonalization of Eigenmatrices (JADE). Package: r-cran-icaff Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-icaff_1.0.1-1.ca2004.1_all.deb Size: 31704 MD5sum: 71f86c3a5164dfe47f7a5088f4c2d14e SHA1: 25580afa366d06fee021c009fbd762db765c554c SHA256: eace5bb5f8899089ab468b8e747aa6f585707f4e66ab9233416698605e0ae37f SHA512: 30c0f438dc14346fa9cf3cae153a701077b2dbe0055d2e550d2535cd3f1a1f25d57e0bc7beae083fb1e3f66629da274d27e0b13015bb027161d95c202852e1c7 Homepage: https://cran.r-project.org/package=ICAFF Description: CRAN Package 'ICAFF' (Imperialist Competitive Algorithm) Imperialist Competitive Algorithm (ICA) is a computational method that is used to solve optimization problems of different types and it is the mathematical model and the computer simulation of human social evolution. The package provides a minimum value for the cost function and the best value for the optimization variables by Imperialist Competitive Algorithm. Users can easily define their own objective function depending on the problem at hand. This version has been successfully applied to solve optimization problems, for continuous functions. Package: r-cran-ical Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 323 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-v8 Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-ical_0.1.6-1.ca2004.1_all.deb Size: 66616 MD5sum: 94baf44f6b49e6c09df69b8c265cb44d SHA1: 6500ea6ecb01e70be54d395784dc184b7865f65a SHA256: 6695766daa53acdae40b5a31262ac2806982b1539c4e5b7ce0a325af1a744697 SHA512: f6d8b2d5afaae406c2647109914aa18bf32b4661caa8225ede3bc3e494b5642c1ef8980a72c9e0ab60b5b823759392a8130584709ed6f49448797e282c6436f3 Homepage: https://cran.r-project.org/package=ical Description: CRAN Package 'ical' ('iCalendar' Parsing) A simple wrapper around the 'ical.js' library executing 'Javascript' code via 'V8' (the 'Javascript' engine driving the 'Chrome' browser and 'Node.js' and accessible via the 'V8' R package). This package enables users to parse 'iCalendar' files ('.ics', '.ifb', '.iCal', '.iFBf') into lists and 'data.frames' to ultimately do statistics on events, meetings, schedules, birthdays, and the like. Package: r-cran-icamp Architecture: all Version: 1.5.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1350 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-vegan, r-cran-permute, r-cran-ape, r-cran-bigmemory, r-cran-nortest, r-cran-minpack.lm, r-cran-hmisc, r-cran-dirichletreg, r-cran-data.table Filename: pool/dists/focal/main/r-cran-icamp_1.5.12-1.ca2004.1_all.deb Size: 1335816 MD5sum: 38bded23e1d1ea03817edcf1cab3919f SHA1: e3857be9f21c12854d1626b326a9b98a8b7de302 SHA256: 6f9c615a17013c885a8dac595b06a191c1a98c2b2704bd1faab0409c13dd4ae9 SHA512: e4151328a8f28ba4f76701532d0a2fecb6c5d1d0a0dfd5ec460cbf0d389a742bab874bb11afcf8d529d6f6bebd0c6cfc3384987ddc6c568f960bc9c6732d63aa Homepage: https://cran.r-project.org/package=iCAMP Description: CRAN Package 'iCAMP' (Infer Community Assembly Mechanisms by Phylogenetic-Bin-BasedNull Model Analysis) To implement a general framework to quantitatively infer Community Assembly Mechanisms by Phylogenetic-bin-based null model analysis, abbreviated as 'iCAMP' (Ning et al 2020) . It can quantitatively assess the relative importance of different community assembly processes, such as selection, dispersal, and drift, for both communities and each phylogenetic group ('bin'). Each bin usually consists of different taxa from a family or an order. The package also provides functions to implement some other published methods, including neutral taxa percentage (Burns et al 2016) based on neutral theory model and quantifying assembly processes based on entire-community null models ('QPEN', Stegen et al 2013) . It also includes some handy functions, particularly for big datasets, such as phylogenetic and taxonomic null model analysis at both community and bin levels, between-taxa niche difference and phylogenetic distance calculation, phylogenetic signal test within phylogenetic groups, midpoint root of big trees, etc. Version 1.3.x mainly improved the function for 'QPEN' and added function 'icamp.cate()' to summarize 'iCAMP' results for different categories of taxa (e.g. core versus rare taxa). Package: r-cran-icams Architecture: all Version: 3.0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3488 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biostrings, r-bioc-bsgenome, r-cran-data.table, r-cran-dplyr, r-cran-fuzzyjoin, r-bioc-genomeinfodb, r-bioc-genomicranges, r-bioc-iranges, r-cran-lifecycle, r-cran-rcolorbrewer, r-cran-stringi, r-cran-zip Suggests: r-bioc-bsgenome.hsapiens.1000genomes.hs37d5, r-bioc-bsgenome.hsapiens.ucsc.hg38, r-bioc-bsgenome.mmusculus.ucsc.mm10, r-cran-ggplot2, r-cran-reshape2, r-cran-rlang, r-cran-testthat Filename: pool/dists/focal/main/r-cran-icams_3.0.11-1.ca2004.1_all.deb Size: 2828332 MD5sum: 70d5dbe43b9c564d3ea161e06196cc10 SHA1: b19074bf4a346116041112a19a79f055f2a122bb SHA256: 46babbc1ea32a3acfb8c746d189468dcc67a499846644f45e610dc1ec9751a0c SHA512: 9a6c64ab47b96ef7c33d2dda58ee03792ce2b41d9de2fbcec76a6579f769d193010caa429b0f714c3dec06ce6faa819af01cdc63705b0acd77f1267be739617f Homepage: https://cran.r-project.org/package=ICAMS Description: CRAN Package 'ICAMS' (In-Depth Characterization and Analysis of Mutational Signatures('ICAMS')) Analysis and visualization of experimentally elucidated mutational signatures -- the kind of analysis and visualization in Boot et al., "In-depth characterization of the cisplatin mutational signature in human cell lines and in esophageal and liver tumors", Genome Research 2018, and "Characterization of colibactin-associated mutational signature in an Asian oral squamous cell carcinoma and in other mucosal tumor types", Genome Research 2020 . 'ICAMS' stands for In-depth Characterization and Analysis of Mutational Signatures. 'ICAMS' has functions to read in variant call files (VCFs) and to collate the corresponding catalogs of mutational spectra and to analyze and plot catalogs of mutational spectra and signatures. Handles both "counts-based" and "density-based" (i.e. representation as mutations per megabase) mutational spectra or signatures. Package: r-cran-icardafigsr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1007 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-doparallel, r-cran-dplyr, r-cran-ggplot2, r-cran-foreach, r-cran-httr, r-cran-magrittr, r-cran-plotroc, r-cran-plyr, r-cran-raster, r-cran-reshape2, r-cran-sp, r-cran-leaflet Filename: pool/dists/focal/main/r-cran-icardafigsr_1.0.2-1.ca2004.1_all.deb Size: 975172 MD5sum: 184331ca18762157cd74e38c091b83dd SHA1: e69cee13ef5de25400819d9a303d91242d6bf10e SHA256: 3d2869ae0cfc55b38deb708e55a65b5583353f1ae6f545ce5713fbf6adeb7485 SHA512: f95aaa98d03cfa91bc8dacf72c1713362ae0630c218441cf171a2eb34628f3492feab9f22fb3de2df01976bcafcf232b0ceed7d137bb9acfae57ea8ad30cfdc7 Homepage: https://cran.r-project.org/package=icardaFIGSr Description: CRAN Package 'icardaFIGSr' (Subsetting using Focused Identification of the GermplasmStrategy (FIGS)) Running Focused Identification of the Germplasm Strategy (FIGS) to make best subsets from Genebank Collection. Package: r-cran-icarh Architecture: all Version: 2.0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstan, r-cran-mass, r-cran-ggplot2, r-cran-glue, r-cran-rcurl, r-bioc-kegggraph, r-cran-igraph, r-cran-reshape2, r-cran-mc2d, r-cran-abind, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-icarh_2.0.2.1-1.ca2004.1_all.deb Size: 124632 MD5sum: 7a3db7ef7e18b88a166acb59ba779019 SHA1: eeb6403866aed02af08b593cc6ecfc08bcfaf9de SHA256: 649388a5e575eba650aeac7c02fe5ef42698e56eadc14196e4ecab9332028b07 SHA512: 84b3035bada013361bf4e0c932527fa5b31b5b0cb0c5ef34998e3d4943a421986a95f67031d8e72d282f4b1a76183ebb4fd03d9060d1929bd83aad14a4d2dffd Homepage: https://cran.r-project.org/package=iCARH Description: CRAN Package 'iCARH' (Integrative Conditional Autoregressive Horseshoe Model) Implements the integrative conditional autoregressive horseshoe model discussed in Jendoubi, T., Ebbels, T.M. Integrative analysis of time course metabolic data and biomarker discovery. BMC Bioinformatics 21, 11 (2020) . The model consists in three levels: Metabolic pathways level modeling interdependencies between variables via a conditional auto-regressive (CAR) component, integrative analysis level to identify potential associations between heterogeneous omic variables via a Horseshoe prior and experimental design level to capture experimental design conditions through a mixed-effects model. The package also provides functions to simulate data from the model, construct pathway matrices, post process and plot model parameters. Package: r-cran-icarus Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4017 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat, r-cran-ggplot2, r-cran-rglpk, r-cran-slam, r-cran-xtable, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-icarus_0.3.2-1.ca2004.1_all.deb Size: 3981960 MD5sum: ec7f2c574897f5f718acf40508cbd3fb SHA1: 3c68da4ec7c11d5451e7cae2db5c87768ff7cd50 SHA256: bbd35fa0fc1fe7cc065dcc0f763df9e4e952b704282f8d1b77980e160c240237 SHA512: e7f2d6e7c16aa8dac0f829952f6b01057343373a718c1d4a90031473943e217ea5b518da451fdd5c0fffb62e182bbb19508aa86232a47db57f35f8f9f7c54a51 Homepage: https://cran.r-project.org/package=icarus Description: CRAN Package 'icarus' (Calibrates and Reweights Units in Samples) Provides user-friendly tools for calibration in survey sampling. The package is production-oriented, and its interface is inspired by the famous popular macro 'Calmar' for SAS, so that 'Calmar' users can quickly get used to 'icarus'. In addition to calibration (with linear, raking and logit methods), 'icarus' features functions for calibration on tight bounds and penalized calibration. Package: r-cran-icbayes Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hi, r-cran-survival, r-cran-coda Filename: pool/dists/focal/main/r-cran-icbayes_1.2-1.ca2004.1_all.deb Size: 111668 MD5sum: 29561f72936476ca7de5febb3265a88b SHA1: 66317b471c1d8dc81e04cc676b163ae75db7d93c SHA256: 8a2046d165d4db57f6e123f00196087a437a70f21cc4c90679093447aa9e9422 SHA512: 4a1c09b8c255f3636eb819c402251264245837041f8918f49f16f9f388d2f585608b43339e201a1d6fe346682aafa28114df112b76173e17a274d6f2f24d1d11 Homepage: https://cran.r-project.org/package=ICBayes Description: CRAN Package 'ICBayes' (Bayesian Semiparametric Models for Interval-Censored Data) Contains functions to fit Bayesian semiparametric regression survival models (proportional hazards model, proportional odds model, and probit model) to interval-censored time-to-event data. Package: r-cran-icbiomark Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3847 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-matrix, r-cran-dplyr, r-cran-purrr, r-cran-latex2exp, r-cran-matrixstats, r-cran-ggplot2, r-cran-gglasso, r-cran-prroc Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-icbiomark_0.1.4-1.ca2004.1_all.deb Size: 3826272 MD5sum: 7f85edc473b506dda37a8236c9981c0c SHA1: bea592cbd9fa291b1c6e7122f4160110c6411f4b SHA256: 46b64731ffac1d0b3ffe55a0f9f907332ee53c18c1bd7c76ec9e59eff8a76a8a SHA512: fdaf8b257362cd15df176f3f91812fd0e33e9c4df33e8003eef516147d599e0770d61216ca08114a3d2b12dfedab6b19dfe68f82927c589d106e567a39c5fd4b Homepage: https://cran.r-project.org/package=ICBioMark Description: CRAN Package 'ICBioMark' (Data-Driven Design of Targeted Gene Panels for EstimatingImmunotherapy Biomarkers) Implementation of the methodology proposed in 'Data-driven design of targeted gene panels for estimating immunotherapy biomarkers', Bradley and Cannings (2021) . This package allows the user to fit generative models of mutation from an annotated mutation dataset, and then further to produce tunable linear estimators of exome-wide biomarkers. It also contains functions to simulate mutation annotated format (MAF) data, as well as to analyse the output and performance of models. Package: r-cran-icc.sample.size Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-icc.sample.size_1.0-1.ca2004.1_all.deb Size: 28264 MD5sum: 26a442ee1481f552d01bb5b37926431b SHA1: eacebdcb900541e6e41fce96780d7532c68aa7c0 SHA256: b0fd74acbb250a71dd8101b93a0256797d9e6da5e27b20e01b697bed361701bf SHA512: 7b2dd184cbb200e1b45f3654ce46fd5bac228bfb96ddd6e7b4d72579e394133807404f2f48382f598744a90dad7c5df37183ca6486813cd46fee130bb1aad24e Homepage: https://cran.r-project.org/package=ICC.Sample.Size Description: CRAN Package 'ICC.Sample.Size' (Calculation of Sample Size and Power for ICC) Provides functions to calculate the requisite sample size for studies where ICC is the primary outcome. Can also be used for calculation of power. In both cases it allows the user to test the impact of changing input variables by calculating the outcome for several different values of input variables. Based off the work of Zou. Zou, G. Y. (2012). Sample size formulas for estimating intraclass correlation coefficients with precision and assurance. Statistics in medicine, 31(29), 3972-3981. Package: r-cran-icc Architecture: all Version: 2.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-icc_2.4.0-1.ca2004.1_all.deb Size: 45944 MD5sum: 58cb20bfe86b9efe0802beb27e0effe6 SHA1: 384b1bf51604e65fdf35f479d165bd18da83a0ff SHA256: a81336f8c4b2a26a5e38b473898c1775285426d165dc1d1a8f6c2bf8222070fb SHA512: 7a79bf9bd021529f27cf6e5eff950fbac57a1055847c47d0ae5954d95508f237f3a4fdc49bf5905881e0e1ed639f6e57dd1f87bc92dd67a88798e0cb0fb7247d Homepage: https://cran.r-project.org/package=ICC Description: CRAN Package 'ICC' (Facilitating Estimation of the Intraclass CorrelationCoefficient) Assist in the estimation of the Intraclass Correlation Coefficient (ICC) from variance components of a one-way analysis of variance and also estimate the number of individuals or groups necessary to obtain an ICC estimate with a desired confidence interval width. Package: r-cran-iccbin Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-lme4 Filename: pool/dists/focal/main/r-cran-iccbin_1.1.1-1.ca2004.1_all.deb Size: 47800 MD5sum: 02940cc9f1a95ad240ac3eaa6b5245c3 SHA1: 468166ae0e5ffe4da06ee1bdb3c7bc417b5a087e SHA256: ec6795178148f235f211be8f5069d8336d70210429bbd4f0e46720910df1d2c8 SHA512: c5911875fb1310d69486ec6b5aa228c920dce4d8735354560c49d2b7190675c75d353663bc92c0c0dc35c0d0e221ccbe1f5045e301cc30a589bd3d366ddd4b73 Homepage: https://cran.r-project.org/package=ICCbin Description: CRAN Package 'ICCbin' (Facilitates Clustered Binary Data Generation, and Estimation ofIntracluster Correlation Coefficient (ICC) for Binary Data) Assists in generating binary clustered data, estimates of Intracluster Correlation coefficient (ICC) for binary response in 16 different methods, and 5 different types of confidence intervals. Package: r-cran-icccounts Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 418 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-glmmtmb, r-cran-ggplot2, r-cran-deriv, r-cran-gridextra, r-cran-vgam, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-icccounts_1.1.2-1.ca2004.1_all.deb Size: 280096 MD5sum: 66123cc482294b751035038f8e495963 SHA1: 08a057e4e2369839efd8e7e44b64c7bb78cf8d1c SHA256: 1325acedff32663a06fab0beef83d6d28aa825ed838756616a54e48269d5012d SHA512: 349fddf982be86f9ad803de62b71b7a48382b4b40232e7460109081aee3ffedbeeb984b023e7eb54ef17620121bd799accc5ab4868f9887ceb45359965f35d4d Homepage: https://cran.r-project.org/package=iccCounts Description: CRAN Package 'iccCounts' (Intraclass Correlation Coefficient for Count Data) Estimates the intraclass correlation coefficient (ICC) for count data to assess repeatability (intra-methods concordance) and concordance (between-method concordance). In the concordance setting, the ICC is equivalent to the concordance correlation coefficient estimated by variance components. The ICC is estimated using the estimates from generalized linear mixed models. The within-subjects distributions considered are: Poisson; Negative Binomial with additive and proportional extradispersion; Zero-Inflated Poisson; and Zero-Inflated Negative Binomial with additive and proportional extradispersion. The statistical methodology used to estimate the ICC with count data can be found in Carrasco (2010) . Package: r-cran-iccde Architecture: all Version: 0.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-iccde_0.3.8-1.ca2004.1_all.deb Size: 21816 MD5sum: 1484ec787073a0b89971bc7c539f34b9 SHA1: c2889e6e995615c5bb40bc8495abba0d259797a4 SHA256: 6ac6a90c4f99559443502073a78ef24d63d00414ec16962c768058aa653daae3 SHA512: ac63601a3138338dbb4035697968acce83ff4caa5adc2babc10652bd0ae507cef351450e144bf984ae07b82c9e28853908994002f163c5bb450377e6443a78b0 Homepage: https://cran.r-project.org/package=iccde Description: CRAN Package 'iccde' (Computation of the Double-Entry Intraclass Correlation) The functions compute the double-entry intraclass correlation, which is an index of profile similarity (Furr, 2010; McCrae, 2008). The double-entry intraclass correlation is a more precise index of the agreement of two empirically observed profiles than the often-used intraclass correlation (McCrae, 2008). Profiles comprising correlations are automatically transformed according to the Fisher z-transformation before the double-entry intraclass correlation is calculated. If the profiles comprise scores such as sum scores from various personality scales, it is recommended to standardize each individual score prior to computation of the double-entry intraclass correlation (McCrae, 2008). See Furr (2010) or McCrae (2008) for details. Package: r-cran-iccforest Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-partykit, r-cran-survival, r-cran-icenreg, r-cran-ipred Suggests: r-cran-ltrctrees, r-cran-inum Filename: pool/dists/focal/main/r-cran-iccforest_0.5.1-1.ca2004.1_all.deb Size: 58680 MD5sum: 703f468b6b11ad6d86148bb11d6e3d57 SHA1: 7f009e187820e4995e879c22b5ac877c6adf4894 SHA256: 75f8292dbf7bafc7a3c01c047077bf09ff3b2fb8ddc9606b8f301707cac6fadc SHA512: a198f15f14f30974b88be3e52ab38a320b675aa57833444cdcf03d5c3a207adf6c6335062a0620f4c9b7893a60f60aed95f7e6b463337c7c8b1587a9b264e2e8 Homepage: https://cran.r-project.org/package=ICcforest Description: CRAN Package 'ICcforest' (An Ensemble Method for Interval-Censored Survival Data) Implements the conditional inference forest approach to modeling interval-censored survival data. It also provides functions to tune the parameters and evaluate the model fit. See Yao et al. (2019) . Package: r-cran-iccmult Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dirmult, r-cran-gtools, r-cran-iccbin, r-cran-lme4 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-iccmult_1.0.1-1.ca2004.1_all.deb Size: 35292 MD5sum: 3ea5121431d767b4678288987c0f82f4 SHA1: 23ed6fce95ae8dd53bfb52aa509fa0dece44fec8 SHA256: 76b76b4f8398f83783dc61e33919f77329fee30515b1b64bf328518c334a5a50 SHA512: 9a2152df531d2f0a56b72d0c0b1594bf1069ac3369f5462478c52aa4dcea00c74f1ba8bfd7ebb66ee46e504f5e80adb44a954c0c46434d934edf5a7464000181 Homepage: https://cran.r-project.org/package=iccmult Description: CRAN Package 'iccmult' (Intracluster Correlation Coefficient (ICC) in ClusteredCategorical Data) Assists in generating categorical clustered outcome data, estimating the Intracluster Correlation Coefficient (ICC) for nominal or ordinal data with 2+ categories under the resampling and method of moments (MoM) methods, with confidence intervals. Package: r-cran-icctraj Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 198 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-magic, r-cran-trajectories, r-cran-sp, r-cran-spacetime, r-cran-purrr, r-cran-furrr, r-cran-progressr, r-cran-parallelly, r-cran-future Filename: pool/dists/focal/main/r-cran-icctraj_1.1.0-1.ca2004.1_all.deb Size: 154396 MD5sum: 9f6503e0303a30dfdb92823a8440e6fb SHA1: bf4e6c763b741f71fd55eb1a0968302407e42399 SHA256: 0560c4305c53dc51b6a05f240e51777db77852f5939f66cdc50a6ee9d1f079e8 SHA512: 549e43a8906aa15fd83c9f7d6a1a9783039b2785a07a6efa3e550ebd0c2e7580994a010035d42f93ddd5b281a28543e9437aeb6ccf8122739db0b5840152ae61 Homepage: https://cran.r-project.org/package=iccTraj Description: CRAN Package 'iccTraj' (Estimates the Intraclass Correlation Coefficient for TrajectoryData) Estimates the intraclass correlation coefficient for trajectory data using a matrix of distances between trajectories. The distances implemented are the extended Hausdorff distances (Min et al. 2007) and the discrete Fréchet distance (Magdy et al. 2015) . Package: r-cran-icd.data Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5005 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-icd.data_1.0-1.ca2004.1_all.deb Size: 4410332 MD5sum: 5bd65b9d003517e6902f747973c41b7c SHA1: df546d1b7ccb7f514c3eac4bf7e7b2414257d5f4 SHA256: ddb3469ae9465c40f992e51d66b2484b5db66cb32bd688b645bdcbfe278c1b97 SHA512: 293ce7cdf462a22048b8357d3b816ab949509f6b49cf1ee26fc0e9d091e6a30cef9c754858460b160052113372e6ee968143058cf658e1886055f0efb014b82e Homepage: https://cran.r-project.org/package=icd.data Description: CRAN Package 'icd.data' (International Classifcation of Diseases (ICD) Data) Data from the United States Center for Medicare and Medicaid Services (CMS) is included in this package. There are ICD-9 and ICD-10 diagnostic and procedure codes, and lists of the chapter and sub-chapter headings and the ranges of ICD codes they encompass. There are also two sample datasets. These data are used by the 'icd' package for finding comorbidities. Package: r-cran-icd10gm Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1369 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-purrr, r-cran-tidyr, r-cran-tidyselect, r-cran-stringi, r-cran-rlang, r-cran-tibble Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rvest Filename: pool/dists/focal/main/r-cran-icd10gm_1.2.5-1.ca2004.1_all.deb Size: 1281820 MD5sum: bfa8a542a4197e84f21cc709a7d94f45 SHA1: da79372b26b852d0422f510e38dfa2e4f2478e9d SHA256: dd840794f4c938885f37bec779dc7093f481c1495344ebc695bdcca47fc16842 SHA512: 86304ffe91d89e47adab1c9a290b9da0877a84bc12f72a65173f5618f1cabee81dc0f92b8e000158e4ba870e2f33d91434b24f8736ba6dd1dcd7f7063ae4485b Homepage: https://cran.r-project.org/package=ICD10gm Description: CRAN Package 'ICD10gm' (Metadata Processing for the German Modification of the ICD-10Coding System) Provides convenient access to the German modification of the International Classification of Diagnoses, 10th revision (ICD-10-GM). It provides functionality to aid in the identification, specification and historisation of ICD-10 codes. Its intended use is the analysis of routinely collected data in the context of epidemiology, medical research and health services research. The underlying metadata are released by the German Institute for Medical Documentation and Information , and are redistributed in accordance with their license. Package: r-cran-icdcomorbid Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-magrittr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-icdcomorbid_1.0.0-1.ca2004.1_all.deb Size: 48016 MD5sum: 207c0c554cac604bdd9c6ce4651d9d0f SHA1: 8951e089b580b1128faeb69128738f3a35a5d564 SHA256: f1fea18914ff9edb192037a6041ef2d1af82292a4e20ab554b6d266038340107 SHA512: 0b81a88c94d9cc8aa7788fd64997f911b50818455799dcbcd6166ba1ca2e216d30635fb7529ce3daebec216362a0583195881153cff4f151635a004eeb76958c Homepage: https://cran.r-project.org/package=icdcomorbid Description: CRAN Package 'icdcomorbid' (Mapping ICD Codes to Comorbidity) Provides tools for mapping International Classification of Diseases codes to comorbidity, enabling the identification and analysis of various medical conditions within healthcare data. Package: r-cran-icdglm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Filename: pool/dists/focal/main/r-cran-icdglm_1.0.0-1.ca2004.1_all.deb Size: 49640 MD5sum: c2caee308b4cbd8b961335d61a36a53a SHA1: 1d7fe7f34c7ec0cf896b7e139c14c29892af9703 SHA256: 6ff8e3ace5de0d472781b4d6b2fbb8513fd9136591181095f80a052410109108 SHA512: 3ceb7f09ffadb1edf8e3fc251d14b662f86e7049672ddef2459aba6fa0b5258054552e2b8e15c6715da94a6051dbf18b7a14e5fb64dfe1ddeea57164b89080bf Homepage: https://cran.r-project.org/package=icdGLM Description: CRAN Package 'icdGLM' (EM by the Method of Weights for Incomplete Categorical Data inGenerlized Linear Models) Provides an estimator for generalized linear models with incomplete data for discrete covariates. The estimation is based on the EM algorithm by the method of weights by Ibrahim (1990) . Package: r-cran-icdpicr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1477 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-rcmdcheck Filename: pool/dists/focal/main/r-cran-icdpicr_1.0.1-1.ca2004.1_all.deb Size: 1394556 MD5sum: ead0079a4f0caa69df3cd0515cdffa99 SHA1: 3a6d3a8507c793e81a1f07c6239ec14a45af7892 SHA256: 37e591037b539865d714829d5acf65e969c3bc11eb718504c5f16976e8065d02 SHA512: be3fd6f118b07fa9b354b41afc769f710692aaf43ecd1bdbabcfd70fec8c967782827eb32aaf2f21138b0233ef21a8dcad962b1b100453f2125a136d7ea06599 Homepage: https://cran.r-project.org/package=icdpicr Description: CRAN Package 'icdpicr' ('ICD' Programs for Injury Categorization in R) Categorization and scoring of injury severity typically involves trained personnel with access to injured persons or their medical records. 'icdpicr' contains a function that provides automated calculation of Abbreviated Injury Scale ('AIS') and Injury Severity Score ('ISS') from International Classification of Diseases ('ICD') codes and may be a useful substitute to manual injury severity scoring. 'ICDPIC' was originally developed in 'Stata', and 'icdpicr' is an open-access update that accepts both 'ICD-9' and 'ICD-10' codes. Package: r-cran-icds Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 697 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph, r-bioc-graphite, r-cran-metap, r-bioc-org.hs.eg.db Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-icds_0.1.3-1.ca2004.1_all.deb Size: 626840 MD5sum: d4c1d83a5682f65f7efcacbcb095427b SHA1: 765ba77a23e9b92769adac05a1b22dd7b538fd2a SHA256: ffd5d4da9c1584a8b9181dedc6c9afd9ee84e11bf0797d79d81b53a7b48df2cc SHA512: 156fea5e675f310c539298a692b81ec3579de3d2a89c596425f5bce03520d8727bf5fa1a06edf7d0f03ed6646faa5c85eeab1e33a3ad9b3a7f6894da8703dd1a Homepage: https://cran.r-project.org/package=ICDS Description: CRAN Package 'ICDS' (Identification of Cancer Dysfunctional Subpathway with OmicsData) Identify Cancer Dysfunctional Sub-pathway by integrating gene expression, DNA methylation and copy number variation, and pathway topological information. 1)We firstly calculate the gene risk scores by integrating three kinds of data: DNA methylation, copy number variation, and gene expression. 2)Secondly, we perform a greedy search algorithm to identify the key dysfunctional sub-pathways within the pathways for which the discriminative scores were locally maximal. 3)Finally, the permutation test was used to calculate statistical significance level for these key dysfunctional sub-pathways. Package: r-cran-icebox Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-sfsmisc Suggests: r-cran-randomforest, r-cran-mass Filename: pool/dists/focal/main/r-cran-icebox_1.1.5-1.ca2004.1_all.deb Size: 165224 MD5sum: b47a08072627cf6033aa0df569343c4d SHA1: 682bfd5b7319db1b3e13c9f92d638eb103008234 SHA256: 8f188d38fbce87ff3ed281da45e5a684e76b68106b3e24ea312d99a3112941db SHA512: 5171f5c95fbd9456a0fb48b180a3324e9190b1fbe932b21a1c05d68d96660d903a3a52d5a69b24d6925a4f80acf5c4e5de4b1f0aa2fe2406986ccbae227ebca0 Homepage: https://cran.r-project.org/package=ICEbox Description: CRAN Package 'ICEbox' (Individual Conditional Expectation Plot Toolbox) Implements Individual Conditional Expectation (ICE) plots, a tool for visualizing the model estimated by any supervised learning algorithm. ICE plots refine Friedman's partial dependence plot by graphing the functional relationship between the predicted response and a covariate of interest for individual observations. Specifically, ICE plots highlight the variation in the fitted values across the range of a covariate of interest, suggesting where and to what extent they may exist. Package: r-cran-icecream Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-pillar, r-cran-purrr, r-cran-rlang Suggests: r-cran-checkmate, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-icecream_0.2.2-1.ca2004.1_all.deb Size: 40428 MD5sum: 38ac225cd72a3e034b16aca45fe759ad SHA1: 977cf1cb25e587bef0f7d91a11bf7842cfe4ac6d SHA256: c4dea2aa607b2631e6a62eb1e4438f7835876e3f42f63925c90d67a97c57984a SHA512: 0789a2307f16411ac81572290b2e063e24476f3811b76d1e992c3a419c4a0fd9f2850b404226c4ce2d6cde0ad9d85a6cceb24b45d38c0135e0f5104cca78cb84 Homepage: https://cran.r-project.org/package=icecream Description: CRAN Package 'icecream' (Print Debugging Made Sweeter) Provides user-friendly and configurable print debugging via a single function, ic(). Wrap an expression in ic() to print the expression, its value and (where available) its source location. Debugging output can be toggled globally without modifying code. Package: r-cran-iced Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1590 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-boot, r-cran-knitr, r-cran-lavaan, r-cran-mass, r-cran-stringr Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-iced_0.0.1-1.ca2004.1_all.deb Size: 771848 MD5sum: 90002d30a5ba67ae01e037bb0be7ef76 SHA1: 5024f1d01cfee43e0cdd7113a4739f54bd547107 SHA256: 73e317e17c1fb5b006393819cc3fcccb67177116b35820339bf91c25ef5da26c SHA512: e8f149364ef9bbb6c26b8c365b611883737499967a0becef8692b95c49cbac9c9a9bb97c8772eb657c7c9644d502cda893c24d7764382eb2e3f31817308be6e4 Homepage: https://cran.r-project.org/package=ICED Description: CRAN Package 'ICED' (IntraClass Effect Decomposition) Estimate test-retest reliability for complex sampling strategies and extract variances using IntraClass Effect Decomposition. Developed by Brandmaier et al. (2018) "Assessing reliability in neuroimaging research through intra-class effect decomposition (ICED)" Also includes functions to simulate data based on sampling strategy. Unofficial version release name: "Good work squirrels". Package: r-cran-iceinfer Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1165 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Filename: pool/dists/focal/main/r-cran-iceinfer_1.3-1.ca2004.1_all.deb Size: 1144472 MD5sum: f180afa76c691057fb9c940a61e1e8ef SHA1: cc60f99634f87ecd00ceed2d042995960a213af9 SHA256: eb81d05d7ecda84d8583293849a2719469ed424baac7bbf0f48eeb7697728189 SHA512: 9ec4c0f726ca8f4704cb5f441048cb7a267b38e15b92057bc1c0a2d063824cecc3c5ec79b122eeb58eaa0cb1bb82bbaa723d28687fb8fb4e221df99811e3c240 Homepage: https://cran.r-project.org/package=ICEinfer Description: CRAN Package 'ICEinfer' (Incremental Cost-Effectiveness Inference using Two UnbiasedSamples) Given two unbiased samples of patient level data on cost and effectiveness for a pair of treatments, make head-to-head treatment comparisons by (i) generating the bivariate bootstrap resampling distribution of ICE uncertainty for a specified value of the shadow price of health, lambda, (ii) form the wedge-shaped ICE confidence region with specified confidence fraction within [0.50, 0.99] that is equivariant with respect to changes in lambda, (iii) color the bootstrap outcomes within the above confidence wedge with economic preferences from an ICE map with specified values of lambda, beta and gamma parameters, (iv) display VAGR and ALICE acceptability curves, and (v) illustrate variation in ICE preferences by displaying potentially non-linear indifference(iso-preference) curves from an ICE map with specified values of lambda, beta and either gamma or eta parameters. Package: r-cran-icensbkl Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 383 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-mass, r-bioc-icens, r-cran-teachingdemos, r-cran-mvtnorm, r-cran-smoothsurv, r-cran-gtools Suggests: r-cran-interval, r-cran-logspline, r-cran-mixak, r-cran-bayessurv, r-cran-fhtest, r-cran-icenreg, r-cran-frailtypack, r-cran-mlecens, r-cran-cubature, r-cran-runjags, r-cran-coda, r-cran-dynsurv Filename: pool/dists/focal/main/r-cran-icensbkl_1.5-1.ca2004.1_all.deb Size: 352108 MD5sum: e6ec96aa0348304c53ed8d13dc22994a SHA1: 32033f7ee0f75e0ee58f9561752edcc4e74d5887 SHA256: ae0df777783b8ed6a84fe7f5b033748ae9c21bef99031090ff42c7e4485a64b1 SHA512: e546b5eafdacf124ea935a01829a4a0c466bd04d7d9e807a47e81229125a31c3df8a101837ac56ad8a36f9da3d35be0f5f5aef87fc0d2c07a5010d9c193d18e4 Homepage: https://cran.r-project.org/package=icensBKL Description: CRAN Package 'icensBKL' (Accompanion to the Book on Interval Censoring by Bogaerts,Komarek, and Lesaffre) Contains datasets and several smaller functions suitable for analysis of interval-censored data. The package complements the book Bogaerts, Komárek and Lesaffre (2017, ISBN: 978-1-4200-7747-6) "Survival Analysis with Interval-Censored Data: A Practical Approach" . Full R code related to the examples presented in the book can be found at . Packages mentioned in the "Suggests" section are used in those examples. Package: r-cran-icertool Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-shinythemes, r-cran-purrr, r-cran-dt, r-cran-tidyverse, r-cran-readxl, r-cran-ggplot2, r-cran-ggrepel, r-cran-digest, r-cran-shinyhelper Filename: pool/dists/focal/main/r-cran-icertool_0.0.3-1.ca2004.1_all.deb Size: 29664 MD5sum: b7078d92334599081bb346c07a072008 SHA1: 293bf2fee21c8b8f26ee46b3353ec85f637c59eb SHA256: 509b55404469a63c9df809d4010579afa9e06a0c72feefd4aaf318844af297d0 SHA512: e8458c27ef6859403c0fd201006420834d8a62c6f890fc1745f33b7ee24beefd2c5547418852696ef798387e362596e65c04df381a25944f5389c52c925cbfc7 Homepage: https://cran.r-project.org/package=icertool Description: CRAN Package 'icertool' (Calculate and Plot ICER) The app will calculate the ICER (incremental cost-effectiveness ratio) Rawlins (2012) from the mean costs and quality-adjusted life years (QALY) Torrance and Feeny (2009) for a set of treatment options, and draw the efficiency frontier in the costs-effectiveness plane. 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These include methods for calculating reference points and model diagnostics. 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This package allows incorporating the Ising prior to capture structure of predictors in the modeling process. More information can be found in the papers listed in the URL below. 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However, there are some major disadvantages of training such networks via the widely accepted 'gradient-based backpropagation' algorithm, such as convergence to local minima, dependencies on learning rate and large training time. These concerns were addressed by Huang et al. (2006) , wherein they introduced the Extreme Learning Machine (ELM), an extremely fast learning algorithm for SLFNs which randomly chooses the weights connecting input and hidden nodes and analytically determines the output weights of SLFNs. It shows good generalized performance, but is still subject to a high degree of randomness. To mitigate this issue, this package uses a dimensionality reduction technique given in Hyvarinen (1999) , namely, the Independent Component Analysis (ICA) to determine the input-hidden connections and thus, remove any sort of randomness from the algorithm. This leads to a robust, fast and stable ELM model. Using functions within this package, the proposed model can also be compared with an existing alternative based on the Principal Component Analysis (PCA) algorithm given by Pearson (1901) , i.e., the PCA based ELM model given by Castano et al. (2013) , from which the implemented ICA based algorithm is greatly inspired. 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Results are returned as R data frames. For more information about the IDB API, visit . Package: r-cran-idcard Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Filename: pool/dists/focal/main/r-cran-idcard_0.3.0-1.ca2004.1_all.deb Size: 30928 MD5sum: 0d37c7f474a51af804d031cc994cce80 SHA1: f4666597eb388fc7a179941aa4d0c4440ff09c96 SHA256: b09f6071089887a1fdaef1a818160f1f304d84469e91f58a9110337486cea7ff SHA512: 37c500a728977e92cee277bab6459c51ee2c3c70b7a9ce131d75142de1384d349a70ce666918f09cb005cc8dc912e3cc846a367b45fbda7e4d3f7c69ec1ce713 Homepage: https://cran.r-project.org/package=IDCard Description: CRAN Package 'IDCard' (Update Chinese ID Card Number to Eighteen Digits) The digits of the old version (before 2000 year) of 'Chinese ID Card Number' is 15, this package aims to update to the current version of 18 digits. Besides, this package can help check whether the given 'ID' is right or not. Package: r-cran-idcnrba Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2018 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nrba, r-cran-dplyr, r-cran-rmarkdown, r-cran-shiny, r-cran-markdown, r-cran-flexdashboard, r-cran-shinyjs, r-cran-htmlwidgets, r-cran-dt, r-cran-tibble, r-cran-survey, r-cran-srvyr, r-cran-haven, r-cran-readr, r-cran-openxlsx, r-cran-base64enc, r-cran-miniui, r-cran-rstudioapi Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-idcnrba_1.1.0-1.ca2004.1_all.deb Size: 215896 MD5sum: b1a5f1659d0efbba91edf5d0a9b12fc0 SHA1: 584a2edfd0ea774775ff62938a96683c1d201892 SHA256: ff0e5aeea9d833f533a8bb268e219d8a394b4b1a89dfa7554882e9dac7b6d416 SHA512: 647a042bf8a08314c2d36013ffa53b41aa48b60ebfbe99b79ff968fad907f6945e8e3c7323efccc7dd2fc557080488672b77bca67851e7e18e9ea7055cf25809 Homepage: https://cran.r-project.org/package=idcnrba Description: CRAN Package 'idcnrba' (Interactive Application for Analyzing Representativeness andNonresponse Bias) Provides access to the Idea Data Center (IDC) application for conducting nonresponse bias analysis (NRBA). The IDC NRBA app is an interactive, browser-based Shiny application that can be used to analyze survey data with respect to response rates, representativeness, and nonresponse bias. This app provides a user-friendly interface to statistical methods implemented by the 'nrba' package. Krenzke, Van de Kerckhove, and Mohadjer (2005) and Lohr and Riddles (2016) provide an overview of the statistical methods implemented in the application. Package: r-cran-idconverter Architecture: all Version: 0.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-httr, r-cran-tibble Suggests: r-cran-covr, r-cran-readr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-idconverter_0.3.4-1.ca2004.1_all.deb Size: 57900 MD5sum: 439142b76f6c4cf1d5ca2a8a708936d7 SHA1: 08100b560726bd5b42d07e9fa3118db02e7646f2 SHA256: 035b84090f3b2d6c9c1ec57b7ff6f739b663147d49f5dbd7ca971bc56e20ba0e SHA512: 33c0c3f994958b12fb1ef1db18e54604416aa4894fc5e24a8cde757562e7d44a549985ccfb268419d5d5b9c002cf9a74f4ae2cf88f2c762ca66e6ab84ee575ad Homepage: https://cran.r-project.org/package=IDConverter Description: CRAN Package 'IDConverter' (Convert Identifiers in Biological Databases) Identifiers in biological databases connect different levels of metadata, phenotype data or genotype data. This tool is designed to easily convert identifiers within or between different biological databases (Wang, Shixiang, et al. (2021) ). Package: r-cran-ide Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 319 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-matrix, r-cran-sp, r-cran-spacetime, r-cran-dplyr, r-cran-tidyr, r-cran-frk, r-cran-deoptim, r-cran-sparseinv Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-ide_0.3.1-1.ca2004.1_all.deb Size: 263060 MD5sum: 0eb8bb86666013757129b3ad8b4984f7 SHA1: 40254b19dc10cea50a3f97e41f53ad4fd19091b4 SHA256: 15a5212204c4ee152d9a13a9933bf9f6aea38f93dbaace1bd1601d30810054ef SHA512: fa2cc54c236d16f4469e0aa2e4d0a5007b2c5189605710ba7ebb509b32660e46b236970bc7f6ed6914f8c426bff5da0e1847141fe488f7c6e76db200c3c0d848 Homepage: https://cran.r-project.org/package=IDE Description: CRAN Package 'IDE' (Integro-Difference Equation Spatio-Temporal Models) The Integro-Difference Equation model is a linear, dynamical model used to model phenomena that evolve in space and in time; see, for example, Cressie and Wikle (2011, ISBN:978-0-471-69274-4) or Dewar et al. (2009) . At the heart of the model is the kernel, which dictates how the process evolves from one time point to the next. Both process and parameter reduction are used to facilitate computation, and spatially-varying kernels are allowed. Data used to estimate the parameters are assumed to be readings of the process corrupted by Gaussian measurement error. Parameters are fitted by maximum likelihood, and estimation is carried out using an evolution algorithm. Package: r-cran-ideafilter Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 293 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-crayon, r-cran-ggplot2, r-cran-pillar, r-cran-purrr, r-cran-rcolorbrewer, r-cran-shiny, r-cran-shinytime Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-shinytest, r-cran-shinytest2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ideafilter_0.2.0-1.ca2004.1_all.deb Size: 205760 MD5sum: 7e7cce004c6f3309174523e9ba00f195 SHA1: 079551c5c356c2540848f25d133ace92c765e3b8 SHA256: ea162406897bc498f1fcb97f98c6b4899b398ba4dae158a0fd54b5356f9c0b49 SHA512: f3c5e48ed49de728f44727468784918b1edf84608970396e5d5241d2062b2a36696a9c180735272bbaf3af5f704c92359e3415b4ada64736148bb27509480a4f Homepage: https://cran.r-project.org/package=IDEAFilter Description: CRAN Package 'IDEAFilter' (Agnostic, Idiomatic Data Filter Module for Shiny) When added to an existing shiny app, users may subset any developer-chosen R data.frame on the fly. That is, users are empowered to slice & dice data by applying multiple (order specific) filters using the AND (&) operator between each, and getting real-time updates on the number of rows effected/available along the way. Thus, any downstream processes that leverage this data source (like tables, plots, or statistical procedures) will re-render after new filters are applied. The shiny module’s user interface has a 'minimalist' aesthetic so that the focus can be on the data & other visuals. In addition to returning a reactive (filtered) data.frame, 'IDEAFilter' as also returns 'dplyr' filter statements used to actually slice the data. Package: r-cran-ideamdb Architecture: all Version: 0.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 783 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-tidyr, r-cran-dplyr, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ideamdb_0.0.9-1.ca2004.1_all.deb Size: 396244 MD5sum: 5ea679d83a625271ec439dc4c8270709 SHA1: c8695f36a634494fa5260bde1734ef32473f1c55 SHA256: ec1d3ceca533492250759e613180f3f70b487ab98fb90949828f7cc1bedb7b68 SHA512: f29ba818ba30104e878ffa2927492950da73cca708e971f3e5e3ab697e1a517ebdeb4ad637cda9038ee7c35aa766bf98098962282fc926624ee35ad7cc670175 Homepage: https://cran.r-project.org/package=ideamdb Description: CRAN Package 'ideamdb' (Easy Manipulation of IDEAM's Climatological Data) Time series plain text conversion and data visualization. It allows to transform IDEAM (Instituto de Hidrologia, Meteorologia y Estudios Ambientales) daily series from plain text to CSV files or data frames in R. Additionally, it is possible to obtain exploratory graphs from times series. IDEAM’s data is freely delivered under formal request through the official web page . Package: r-cran-ideanet Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4234 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-igraphdata, r-cran-cliquepercolation, r-cran-cluster, r-cran-colorspace, r-cran-concorr, r-cran-cowplot, r-cran-data.table, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-ggthemes, r-cran-gridgraphics, r-cran-igraph, r-cran-intergraph, r-cran-jsonlite, r-cran-linkcomm, r-cran-magrittr, r-cran-matrix, r-cran-moments, r-cran-network, r-cran-readxl, r-cran-reshape2, r-cran-rlang, r-cran-rspectra, r-cran-shiny, r-cran-sna, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-dt, r-cran-devtools, r-cran-egor, r-cran-ergm, r-cran-shinythemes, r-cran-shinywidgets, r-cran-knitr, r-cran-rmarkdown, r-cran-shinycssloaders, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-ideanet_1.1.0-1.ca2004.1_all.deb Size: 2705912 MD5sum: 533a3028a1f63e906e786796ed1576d9 SHA1: 303dc5b5762ffd25009cedd634ef8ab3e3918682 SHA256: 78e235242595b2370608afa3ca60e6c6180466096310d608c1b9bd01bdc621b7 SHA512: 426af24d1fcfe90229e65069e227a275768673d721be0ef036e7aed2e6aaa7855e7f32a9c181f560a1a78e80306071a0d1bec750f52e2e2fa51e5b12948e52cd Homepage: https://cran.r-project.org/package=ideanet Description: CRAN Package 'ideanet' (Integrating Data Exchange and Analysis for Networks ('ideanet')) A suite of convenient tools for social network analysis geared toward students, entry-level users, and non-expert practitioners. ‘ideanet’ features unique functions for the processing and measurement of sociocentric and egocentric network data. These functions automatically generate node- and system-level measures commonly used in the analysis of these types of networks. Outputs from these functions maximize the ability of novice users to employ network measurements in further analyses while making all users less prone to common data analytic errors. Additionally, ‘ideanet’ features an R Shiny graphic user interface that allows novices to explore network data with minimal need for coding. Package: r-cran-ideatools Architecture: all Version: 3.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3338 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-jsonlite, r-cran-readxl, r-cran-tibble, r-cran-stringi, r-cran-ggimage, r-cran-pdftools, r-cran-ggpubr, r-cran-ggplot2, r-cran-rlang, r-cran-ggtext, r-cran-rmarkdown, r-cran-shiny, r-cran-openxlsx Suggests: r-cran-covr, r-cran-knitr Filename: pool/dists/focal/main/r-cran-ideatools_3.5.2-1.ca2004.1_all.deb Size: 2330996 MD5sum: 45bde41501c84952c4a005635e83390d SHA1: 5c331f6a938fbe4dc383d4bca5cae16fd02efb49 SHA256: ab33c66192e71aea633f0d1ffa5ee3cd6adbaa2beaa1c7c34d7fb4e3ad3aa814 SHA512: d71bfc5c5436488d6a05bd6435cc59dd56932572f9f74742b7db1afa42baf5320373ff93896faa824b96cc5b2cef2972f3f64d4c80ab951284877b0516b5cd4b Homepage: https://cran.r-project.org/package=IDEATools Description: CRAN Package 'IDEATools' (Individual and Group Farm Sustainability Assessments using theIDEA4 Method) Collection of tools to automate the processing of data collected though the IDEA4 method (see Zahm et al. (2018) ). Starting from the original data collecting files this packages provides functions to compute IDEA indicators, draw modern and aesthetic plots, and produce a wide range of reporting materials. Package: r-cran-idendr0 Architecture: all Version: 1.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1347 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tkrplot Suggests: r-cran-dendser, r-cran-cluster, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-idendr0_1.5.3-1.ca2004.1_all.deb Size: 1196816 MD5sum: 033e7fe739680447890508132c769784 SHA1: 1684c9de1a307ea683f73b5faa11683b35ba3de5 SHA256: 4dd34f517a26e636ae8bf77cde8443da4dfc11b33ad013f42560de73c3c738d7 SHA512: 8e2ebc1addb74458c16c543dbeb44a6e4737036b1be567ef52167bc0fb008a94b9dd6262598ca5136808cf3442e5a7fe5de4a432b6b648f457c1eeccc1373756 Homepage: https://cran.r-project.org/package=idendr0 Description: CRAN Package 'idendr0' (Interactive Dendrograms) Interactive dendrogram that enables the user to select and color clusters, to zoom and pan the dendrogram, and to visualize the clustered data not only in a built-in heat map, but also in 'GGobi' interactive plots and user-supplied plots. This is a backport of Qt-based 'idendro' () to base R graphics and Tcl/Tk GUI. Package: r-cran-ider Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 945 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fnn, r-cran-glm2 Filename: pool/dists/focal/main/r-cran-ider_0.1.1-1.ca2004.1_all.deb Size: 931724 MD5sum: 2c6dbf0cdc1377bb02d0da20bc783f25 SHA1: 694c0032df23128f714f722298f8b33efd75dd73 SHA256: b08ea88c5fab6e0029c80f107611ed06042504428f801d0e4e4ac23a35b04141 SHA512: f8647bc2e59a9103662d991d41c93f243a31bd03fbe04e91a4948947dd8b3f98c6565f8123fbaa349c1e7b9a4841011b5786de87372db9ad33a88e47f4ed8374 Homepage: https://cran.r-project.org/package=ider Description: CRAN Package 'ider' (Various Methods for Estimating Intrinsic Dimension) An implementation of various methods for estimating intrinsic dimension of vector-valued dataset or distance matrix. Most methods implemented are based on different notion of fractal dimension such as the capacity dimension, the box-counting dimension, and the information dimension. Package: r-cran-idetect Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 175 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-idetect_0.1.0-1.ca2004.1_all.deb Size: 143116 MD5sum: f44cf4e2457bf0d0a3521d1f6a2ed309 SHA1: 3881c61daa0ba600c1e42579edf77c5e50a3ce8e SHA256: b1c25309a2da00e1f8f12e661616f88b77857af7127f3a3bba6f85952d9428c3 SHA512: 41f6a8066082010085984efcb3890952cc299d52a4a9d51414d3d731eda9d4be390d90a327c99e4ff9a3c9e42d618b4ad4b1d6b8910fbe513dc07a551fef1594 Homepage: https://cran.r-project.org/package=IDetect Description: CRAN Package 'IDetect' (Isolate-Detect Methodology for Multiple Change-Point Detection) Provides efficient implementation of the Isolate-Detect methodology for the consistent estimation of the number and location of multiple change-points in one-dimensional data sequences from the "deterministic + noise" model. For details on the Isolate-Detect methodology, please see Anastasiou and Fryzlewicz (2018) . Currently implemented scenarios are: piecewise-constant signal with Gaussian noise, piecewise-constant signal with heavy-tailed noise, continuous piecewise-linear signal with Gaussian noise, continuous piecewise-linear signal with heavy-tailed noise. Package: r-cran-idf Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 333 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-evd, r-cran-ismev, r-cran-rcpproll, r-cran-pbapply, r-cran-fastmatch Filename: pool/dists/focal/main/r-cran-idf_2.1.2-1.ca2004.1_all.deb Size: 280976 MD5sum: fc01fe0e2191f8cf98d032ff31bad28f SHA1: 3386d2f4b8c267c014fa16fbf4cee6b460d181f7 SHA256: 9695e6aec11cdef5378ab841aa8c79a3a911f6cd4e1cc9146b3a0fbee8ebeb5b SHA512: 8418883350d6620f8e2cb0b693d1c862db9e06019dfef448688b783a5bb143e5cac033d051fe93f4872dbcb49481f3fc26da3e2b8189eb4c48b6dd37bd1ca39e Homepage: https://cran.r-project.org/package=IDF Description: CRAN Package 'IDF' (Estimation and Plotting of IDF Curves) Intensity-duration-frequency (IDF) curves are a widely used analysis-tool in hydrology to assess extreme values of precipitation [e.g. Mailhot et al., 2007, ]. The package 'IDF' provides functions to estimate IDF parameters for given precipitation time series on the basis of a duration-dependent generalized extreme value distribution [Koutsoyiannis et al., 1998, ]. Package: r-cran-idingo Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 333 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-mvtnorm, r-cran-glasso, r-cran-ggmridge, r-cran-visnetwork, r-cran-scales Filename: pool/dists/focal/main/r-cran-idingo_1.0.4-1.ca2004.1_all.deb Size: 303336 MD5sum: f9fc651ae4b3988f2f8642ddd2192872 SHA1: d3248e64c6e7200c748fe8ac320715ad0d7e340c SHA256: 9535720e679e0799e4dbe2e9b0f138580950f821baa0ad275b52d677137be4d5 SHA512: 265d2ea58487960567786460c5a58fbcfec99df126ec01170b204645fce61f5983f666bb72504edc4a0f97178a14def7cac5064d93903ba9778e6d8b49a8c3a9 Homepage: https://cran.r-project.org/package=iDINGO Description: CRAN Package 'iDINGO' (Integrative Differential Network Analysis in Genomics) Fits covariate dependent partial correlation matrices for integrative models to identify differential networks between two groups. The methods are described in Class et. al., (2018) and Ha et. al., (2015) . Package: r-cran-idiogramfish Architecture: all Version: 2.0.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3844 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rlang, r-cran-crayon, r-cran-plyr, r-cran-dplyr, r-cran-tidyr, r-cran-scales Suggests: r-cran-rentrez, r-cran-ggplot2, r-cran-ggpubr, r-bioc-ggtree, r-cran-phytools, r-bioc-treeio, r-cran-rmdformats, r-cran-knitr, r-cran-kableextra, r-cran-rvcheck, r-cran-badger, r-cran-rmarkdown, r-cran-rcurl, r-cran-shiny, r-cran-shinydashboard, r-cran-rhandsontable, r-cran-gtools, r-cran-rclipboard, r-cran-clipr, r-cran-shinyjs Filename: pool/dists/focal/main/r-cran-idiogramfish_2.0.13-1.ca2004.1_all.deb Size: 1909908 MD5sum: b01923e1f92dd8111251a57b34f945d3 SHA1: edc53eb9d96383bc7ead173c8b8a3ffd2e563b13 SHA256: 936c34ffe13a462139476453b745d934ac2367688f1a4a196d418d43376db90f SHA512: 302d13790d2eea8fc23c16a5d4a93a7b11463494c4eb95fb3c62a80c6d2380422cb3bf7c2e3b255db737d3f0dacb87b78fb9bc140cbd40fa330010cc798c3ee6 Homepage: https://cran.r-project.org/package=idiogramFISH Description: CRAN Package 'idiogramFISH' (Shiny App. Idiograms with Marks and Karyotype Indices) Plot idiograms of karyotypes, plasmids, circular chr. having a set of data.frames for chromosome data and optionally mark data. Two styles of chromosomes can be used: without or with visible chromatids. Supports micrometers, cM and Mb or any unit. Three styles of centromeres are available: triangle, rounded and inProtein; and six styles of marks are available: square (squareLeft), dots, cM (cMLeft), cenStyle, upArrow (downArrow), exProtein (inProtein); its legend (label) can be drawn inline or to the right of karyotypes. Idiograms can also be plotted in concentric circles. It is possible to calculate chromosome indices by Levan et al. (1964) , karyotype indices of Watanabe et al. (1999) and Romero-Zarco (1986) and classify chromosomes by morphology Guerra (1986) and Levan et al. (1964). Package: r-cran-idiolect Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 938 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quanteda, r-cran-caret, r-cran-dplyr, r-cran-fdrtool, r-cran-ggplot2, r-cran-kgrams, r-cran-pbapply, r-cran-proc, r-cran-proxy, r-cran-quanteda.textstats, r-cran-spacyr, r-cran-stringr, r-cran-textclean Suggests: r-cran-knitr, r-cran-readtext, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-idiolect_1.0.1-1.ca2004.1_all.deb Size: 772200 MD5sum: 90f003076c7486ee8e5d3ee6cab5c957 SHA1: e91c18eba9f8d16491bce1cefe2c5f7e04090ae0 SHA256: e077d26e55e31ac621f26a5b8f047525dbd34af6b5c23648c60c70ce1e21b6fb SHA512: c69cdef96a3bee33d53ad01979ffc57a66cb514b1733cb5563d39741e53a9b69a1b86b65af583e58d3fae4d2ee2b9b47c4587df5ae44977a9b75ad56a1f4c7f0 Homepage: https://cran.r-project.org/package=idiolect Description: CRAN Package 'idiolect' (Forensic Authorship Analysis) Carry out comparative authorship analysis of disputed and undisputed texts within the Likelihood Ratio Framework for expressing evidence in forensic science. This package contains implementations of well-known algorithms for comparative authorship analysis, such as Smith and Aldridge's (2011) Cosine Delta or Koppel and Winter's (2014) Impostors Method , as well as functions to measure their performance and to calibrate their outputs into Log-Likelihood Ratios. 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(2019) : "Measuring individual identity information in animal signals: Overview and performance of available identity metrics". 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Package: r-cran-idmodelr Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1783 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-ggplot2, r-cran-viridis, r-cran-magrittr, r-cran-purrr, r-cran-future, r-cran-furrr, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-desolve Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-knitr, r-cran-pkgnet, r-cran-dt, r-cran-vdiffr, r-cran-spelling Filename: pool/dists/focal/main/r-cran-idmodelr_0.4.0-1.ca2004.1_all.deb Size: 980416 MD5sum: 22d20dff6bb2fca484dcc44d3e67660c SHA1: 1243a4d7edb5095118058359966aa517730e0daa SHA256: e6c148b3b5113fbac89553551db5c18cde31dda35c1cb4efd49d83711a19148e SHA512: 12292bb04318f94b1660f4d1ace27aeb5975cf9c700202e2f4b4d41f5617196647674066377496abd4c35d24f23d949ab2c0a03a21a03e3949d3c0285bb0521a Homepage: https://cran.r-project.org/package=idmodelr Description: CRAN Package 'idmodelr' (Infectious Disease Model Library and Utilities) Explore a range of infectious disease models in a consistent framework. The primary aim of 'idmodelr' is to provide a library of infectious disease models for researchers, students, and other interested individuals. These models can be used to understand the underlying dynamics and as a reference point when developing models for research. 'idmodelr' also provides a range of utilities. These include: plotting functionality; a simulation wrapper; scenario analysis tooling; an interactive dashboard; tools for handling mult-dimensional models; and both model and parameter look up tables. Unlike other modelling packages such as 'pomp' (), 'libbi' () and 'EpiModel' (), 'idmodelr' serves primarily as an educational resource. It is most comparable to epirecipes () but provides a more consistent framework, an R based workflow, and additional utility tooling. After users have explored model dynamics with 'idmodelr' they may then implement their model using one of these packages in order to utilise the model fitting tools they provide. For newer modellers, this package reduces the barrier to entry by containing multiple infectious disease models, providing a consistent framework for simulation and visualisation, and signposting towards other, more research focussed, resources. Package: r-cran-idopnetwork Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1883 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvtnorm, r-cran-orthopolynom, r-cran-desolve, r-cran-ggplot2, r-cran-reshape2, r-cran-glmnet, r-cran-igraph, r-cran-scales, r-cran-patchwork Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-idopnetwork_0.1.2-1.ca2004.1_all.deb Size: 1673016 MD5sum: 96051d376a303b3c1f276bd72121b48e SHA1: d1075a8b68c4c1e355aa4b77d8c8a644f95b0b03 SHA256: 2d57b5a96e1b69886a6e7ee21f1f9d66b8fd2632b85dcdca142fcc87731f8a02 SHA512: 4bd10b320ff08332ac7582c9594c72f08833f357aa7f31e2a850405f53bf9b1d93b19891fa530cbc0ade9100d419f8e349ed44a5e35618f6c196c2067e54d9ea Homepage: https://cran.r-project.org/package=idopNetwork Description: CRAN Package 'idopNetwork' (A Network Tool to Dissect Spatial Community Ecology) Most existing approaches for network reconstruction can only infer an overall network and, also, fail to capture a complete set of network properties. 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Package: r-cran-idsl.csa Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 435 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-idsl.mxp, r-cran-idsl.ipa, r-cran-idsl.fsa, r-cran-readxl Filename: pool/dists/focal/main/r-cran-idsl.csa_1.2-1.ca2004.1_all.deb Size: 401036 MD5sum: 7b69a775015fb38f2f00d312b3859d03 SHA1: 143c0e760d2603af0a01c23a2835c2e7ecaf165d SHA256: de7cb525eaf126e40ef14abc8dce13e6e1a01075dda18332e7b918278c3cb43e SHA512: b3b5769111babf6ac622a6215696cbd4885c78250de325c6327bb900cb77b7a12d3c113eabc76db01830fb3401123862a48ae457cec37e0f2764dd52b217ce69 Homepage: https://cran.r-project.org/package=IDSL.CSA Description: CRAN Package 'IDSL.CSA' (Composite Spectra Analysis (CSA) for High-Resolution MassSpectrometry Analyses) A fragmentation spectra detection pipeline for high-throughput LC/HRMS data processing using peaklists generated by the 'IDSL.IPA' workflow . The 'IDSL.CSA' package can deconvolute fragmentation spectra from Composite Spectra Analysis (CSA), Data Dependent Acquisition (DDA) analysis, and various Data-Independent Acquisition (DIA) methods such as MS^E, All-Ion Fragmentation (AIF) and SWATH-MS analysis. The 'IDSL.CSA' package was introduced in . Package: r-cran-idsl.fsa Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 397 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-readxl Filename: pool/dists/focal/main/r-cran-idsl.fsa_1.2-1.ca2004.1_all.deb Size: 352508 MD5sum: 6403243fd6c9a4fd0f76a2f14f4bab75 SHA1: 7fd96d890a2ffdb87288604172ea4705cf65955a SHA256: b66c345ec3bad452c837cb8c24ad8ad5d48718f3084d068340c2a9390e308263 SHA512: 24a438fe5bffd5acf886a59cf6929993d005b3f1e832166cabdb4d6b9228fcdcc7173594e16d48ed82b59e4b483d4124ac31943f8e67c994906c4525d346e02f Homepage: https://cran.r-project.org/package=IDSL.FSA Description: CRAN Package 'IDSL.FSA' (Fragmentation Spectra Analysis (FSA)) The 'IDSL.FSA' package was designed to annotate standard .msp (mass spectra format) and .mgf (Mascot generic format) files using mass spectral entropy similarity, dot product (cosine) similarity, and normalized Euclidean mass error (NEME) followed by intelligent pre-filtering steps for rapid spectra searches. 'IDSL.FSA' also provides a number of modules to convert and manipulate .msp and .mgf files. The 'IDSL.FSA' workflow was integrated in the 'IDSL.CSA' and 'IDSL.NPA' packages introduced in . Package: r-cran-idsl.ipa Architecture: all Version: 2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 424 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-idsl.mxp, r-cran-readxl Filename: pool/dists/focal/main/r-cran-idsl.ipa_2.9-1.ca2004.1_all.deb Size: 376280 MD5sum: 8837b278a32e97bf1300df2a366b5a9d SHA1: 4f4a7bd1b8b0bc3a787c6df7e4f736a3158dcdcb SHA256: ce3dbaa5a62c1b7d78256d2e8c36d7773df6a5afd1f4214b72b3a0d9555726ad SHA512: 28e8f2c87c574d5d9b6210b2442007a7e0b44d1c07752f335b4f9085a8c3ad4355dab45b4e974dab5321d3a5c1f30314bc4ba8a0a4a1998726295d27683d592b Homepage: https://cran.r-project.org/package=IDSL.IPA Description: CRAN Package 'IDSL.IPA' (Intrinsic Peak Analysis (IPA) for HRMS Data) A multi-layered untargeted pipeline for high-throughput LC/HRMS data processing to extract signals of organic small molecules. The package performs ion pairing, peak detection, peak table alignment, retention time correction, aligned peak table gap filling, peak annotation and visualization of extracted ion chromatograms (EICs) and total ion chromatograms (TICs). The 'IDSL.IPA' package was introduced in . Package: r-cran-idsl.mxp Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-xml2, r-cran-base64enc Suggests: r-cran-rnetcdf Filename: pool/dists/focal/main/r-cran-idsl.mxp_2.0-1.ca2004.1_all.deb Size: 60332 MD5sum: 84b9a5c3f47d18ed32345bc96de70bba SHA1: 82c00f64d8c2927a388a3e105d09d9258a766fd3 SHA256: 7728988b6dfa7a83e61a9aa049bf601cf644c2e4fad6ac1b5ca0bdfdacf9bc30 SHA512: bf4ca9aa1f1903fa710ad38e3332d04bcde2f8a426cd10750cb19c442fe85cb9eff049f2be460516b8b43ab34f1c4e6979a279ae06aea83b0871e660cee5d7ff Homepage: https://cran.r-project.org/package=IDSL.MXP Description: CRAN Package 'IDSL.MXP' (Parser for mzML, mzXML, and netCDF Files (Mass SpectrometryData)) A tiny parser to extract mass spectra data and metadata table of mass spectrometry acquisition properties from mzML, mzXML and netCDF files introduced in . 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Package: r-cran-idsl.sufa Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-idsl.sufa_1.3-1.ca2004.1_all.deb Size: 67300 MD5sum: 8b0c929320b74c6149b691654ae15b03 SHA1: cf5288083965b791d9b7c6970a0251283a511311 SHA256: ebf41bc190a35d651bebd4370127d78bb00d018a58a6717e0e3ae3b7e9e084e6 SHA512: 8cdbb2c071486224282c3826585398325711acf7445701fd5c9749829eaa127bebd8bfe620ee630ce8a0e600217616defb1a680d4263a29dabab9d188b28c919 Homepage: https://cran.r-project.org/package=IDSL.SUFA Description: CRAN Package 'IDSL.SUFA' (Simplified UFA) A simplified version of the 'IDSL.UFA' package to calculate isotopic profiles and adduct formulas from molecular formulas with no dependency on other R packages for online tools and educational mass spectrometry courses. The 'IDSL.SUFA' package also provides an ancillary module to process user-defined adduct formulas. Package: r-cran-idsl.ufa Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 377 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-idsl.ipa, r-cran-readxl Suggests: r-cran-ga Filename: pool/dists/focal/main/r-cran-idsl.ufa_2.0-1.ca2004.1_all.deb Size: 340760 MD5sum: f716876e119d74e57f05d6ce9e968bdb SHA1: 25f0d710b1eccbb831c9899626cb497c1aad37db SHA256: cb960bdcf5b2c9785049bab437bcb14e19bc261fab703cf285685a190e2cb4ef SHA512: d3edbd98d17795e7989447ab4334c3a90bcf9ebff10f5c7b260074ec98f2fc40aa6c92bbadc69e515078b7ab44d806563ca7742fa74c9d6ce6d2efda7d3a650a Homepage: https://cran.r-project.org/package=IDSL.UFA Description: CRAN Package 'IDSL.UFA' (United Formula Annotation (UFA) for HRMS Data Processing) A pipeline to annotate chromatography peaks from the 'IDSL.IPA' workflow with molecular formulas of a prioritized chemical space using an isotopic profile matching approach. The 'IDSL.UFA' workflow only requires mass spectrometry level 1 (MS1) data for formula annotation. The 'IDSL.UFA' methods was described in . Package: r-cran-idsl.ufax Architecture: all Version: 1.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-idsl.ipa, r-cran-readxl, r-cran-rcppalgos Filename: pool/dists/focal/main/r-cran-idsl.ufax_1.9.1-1.ca2004.1_all.deb Size: 57756 MD5sum: be585d46150c7978df553f9bf1cfc6e0 SHA1: cac2236d6a24b678b2e2166e01058719e8020512 SHA256: 8bd74f1b8f43be634bb5e36f0e583fdcef4a11fe549b6cb8bb5d87d767eff4a2 SHA512: 5248a884a4aa0c514a743226ad7d1ae0c2790656da544f918e5748be9ce3944c285bebdaf0bff38fc04fa81cae623fc64e7d45ac5f09d45ef16f0a585ce5d368 Homepage: https://cran.r-project.org/package=IDSL.UFAx Description: CRAN Package 'IDSL.UFAx' (Exhaustive Chemical Enumeration for United Formula Annotation) A pipeline to annotate a number of peaks from the 'IDSL.IPA' peaklists using an exhaustive chemical enumeration-based approach. This package can perform elemental composition calculations using the following 15 elements : C, B, Br, Cl, K, S, Si, N, H, As, F, I, Na, O, and P. Package: r-cran-idx2r Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-idx2r_1.0.0-1.ca2004.1_all.deb Size: 15572 MD5sum: 14ac63444dbbd98872244f844238293f SHA1: e5c8d8392a03b62cb7ae44274735ba39c214b697 SHA256: 8a16168383259f1bac84645bbd9d153620b41bf5302ceb91d022fddecb803155 SHA512: cc85632ef0ba9b483a1a09a43bf7d1c31c62442a01b8bae2b9f18a71d960a80bde864a18cff581aee4fd7b29e6d5707922f895477be885006bb7b13b84fdbd36 Homepage: https://cran.r-project.org/package=idx2r Description: CRAN Package 'idx2r' (Convert Files to and from IDX Format to Vectors, Matrices andArrays) Convert files to and from IDX format to vectors, matrices and arrays. IDX is a very simple file format designed for storing vectors and multidimensional matrices in binary format. The format is described on the website from Yann LeCun . Package: r-cran-idynor Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4638 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-vegan Filename: pool/dists/focal/main/r-cran-idynor_1.0-1.ca2004.1_all.deb Size: 4591900 MD5sum: 4ce7a5f82aa27308d3fbec8a6bdf7524 SHA1: e278ed4ec7c443c7393f8bccdf41e6c66452a819 SHA256: 33cf5dfce0d4e929200db280d74093977266dbd108e8d6c683c0ad9a7ac8bc41 SHA512: 78c9af8d1976fb286ab3f427fa03de6deb4045c292bdbceea716439bd5f79b06b0cfdb0d2d543e126eb504b4dc78563b2cefb995d13a5704cfb2ee1c93e1cfa7 Homepage: https://cran.r-project.org/package=iDynoR Description: CRAN Package 'iDynoR' (R Analysis package for iDynoMiCS Simulation Results) iDynoMiCS is a computer program, developed by an international team of researchers, whose purpose is to model and simulate microbial communities in an individual-based way. It is described in detail in the paper "iDynoMiCS: next-generation individual-based modelling of biofilms" by Lardon et al, published in Environmental Microbiology in 2011. The simulation produces results in XML file format, describing the state of each species in each timestep (agent_State), a summary of the species statistics for a timepoint (agent_Sum), the state of each solute grid in each timestep (env_State) and a summary of the solutes for a timestep (env_Sum). This R package provides a means of reading this XML data into R such that the simulation response can be statistically analysed. iDynoMiCS is available from the website iDynoMiCS.org, where a full tutorial on using both the simulation and this R package is provided. Package: r-cran-ie2misc Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-readxl, r-cran-openxlsx, r-cran-gwidgets2, r-cran-stringi, r-cran-mgsub, r-cran-reader, r-cran-lubridate, r-cran-data.table, r-cran-assertthat, r-cran-checkmate Suggests: r-cran-rando, r-cran-spelling Filename: pool/dists/focal/main/r-cran-ie2misc_0.9.1-1.ca2004.1_all.deb Size: 181820 MD5sum: c087642cdfd037208abd070a6f068412 SHA1: a7e8a1780b4e1246509228e29556a85c5945eb0d SHA256: 3238145733e09617e4d3e913b6c145166d4b632a04f2220fbb3a9ffc6fccd080 SHA512: a2f0e48a74a12771ee877be281d81f69666d6664c007cd26e3805fe250c2f87d7b351f2ee65e3e0a27e46435966dd40b8a3f74e63e7eaa355ad73743108db476 Homepage: https://cran.r-project.org/package=ie2misc Description: CRAN Package 'ie2misc' (Irucka Embry's Miscellaneous USGS Functions) A collection of Irucka Embry's miscellaneous USGS functions (processing .exp and .psf files, statistical error functions, "+" dyadic operator for use with NA, creating ADAPS and QW spreadsheet files, calculating saturated enthalpy). Irucka created these functions while a Cherokee Nation Technology Solutions (CNTS) United States Geological Survey (USGS) Contractor and/or USGS employee. 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Irucka created these data sets while a Cherokee Nation Technology Solutions (CNTS) United States Geological Survey (USGS) Contractor and/or USGS employee. Package: r-cran-ieegio Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 890 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-digest, r-cran-fastmap, r-cran-filearray, r-cran-freesurferformats, r-cran-fs, r-cran-fst, r-cran-gifti, r-cran-hdf5r, r-cran-jsonlite, r-cran-oro.nifti, r-cran-r.matlab, r-cran-r6, r-cran-readnsx, r-cran-rpyants, r-cran-stringr, r-cran-yaml Suggests: r-cran-reticulate, r-cran-ravetools, r-cran-rgl, r-cran-rnifti, r-cran-rpymat, r-cran-xml2, r-cran-knitr, r-cran-r3js, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ieegio_0.0.4-1.ca2004.1_all.deb Size: 673208 MD5sum: 1f300098051b4eea5f1bb6db0abe99dc SHA1: 26717a8be0541dba7af96069d997bd419f8653fe SHA256: 93c347c2a78efaba840e3c7aa36eaecad315b36fd5228a932d7da6def03cc4e8 SHA512: f8d128a8058184e65e6cacf49a6ea26b8980f25a80cf7e1bb298b342d36b4e63aa5f46bd862e70709782eda857580d29d94f275e7624705c222ef0bf49d307f1 Homepage: https://cran.r-project.org/package=ieegio Description: CRAN Package 'ieegio' (File IO for Intracranial Electroencephalography) Integrated toolbox supporting common file formats used for intracranial Electroencephalography (iEEG) and deep-brain stimulation (DBS) study. Package: r-cran-iemisc Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2137 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-zoo, r-cran-pracma, r-cran-iemiscdata, r-cran-gsubfn, r-cran-fpcompare, r-cran-units, r-cran-stringi, r-cran-assertthat, r-cran-rivr, r-cran-checkmate, r-cran-chem.databases, r-cran-ramify, r-cran-foreach, r-cran-data.table, r-cran-measurements, r-cran-roperators, r-cran-berryfunctions, r-cran-round, r-cran-usa.state.boundaries, r-cran-sf, r-cran-ggplot2, r-cran-ggpubr, r-cran-matlab, r-cran-sjmisc, r-cran-lubridate, r-cran-anytime, r-cran-mgsub, r-cran-geosphere, r-cran-matlab2r, r-cran-signal, r-cran-qdapregex Suggests: r-cran-install.load, r-cran-knitr, r-cran-import, r-cran-fractional, r-cran-fracture, r-cran-mass, r-cran-rmarkdown, r-cran-tinytest, r-cran-maps, r-cran-spelling, r-cran-sampler, r-cran-callr, r-cran-rando, r-cran-geometry, r-cran-linguisticsdown, r-cran-airthermo, r-cran-hydraulics, r-cran-ie2misc, r-cran-formatr, r-cran-pander, r-cran-printr, r-cran-tibble, r-cran-lintr, r-cran-opencpu Filename: pool/dists/focal/main/r-cran-iemisc_1.0.5-1.ca2004.1_all.deb Size: 1676536 MD5sum: bdf62ddc5790790ddd9a28c18c1de26f SHA1: b0e6337010b4208fba67f57879f95772f40e8c8e SHA256: 5609200a36b7e95c28cfc43ef418c3506fb53b312b9d0252a1e8e9000978fb80 SHA512: b7af0a503374b7218c14afe822b104b736e57b87d09e697b4e553341dd43188c56f2a5b01fe4818920f3eaddbc655fdfb9cecb26cc2047dd5b42ea092a4e71ba Homepage: https://cran.r-project.org/package=iemisc Description: CRAN Package 'iemisc' (Irucka Embry's Miscellaneous Functions) A collection of Irucka Embry's miscellaneous functions (Engineering Economics, Civil & Environmental/Water Resources Engineering, Construction Measurements, GNU Octave compatible functions, Python compatible function, Trigonometric functions in degrees and function in radians, Geometry, Statistics, Mortality Calculators, Quick Search, etc.). 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Package: r-cran-iemisctext Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 920 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-install.load, r-cran-tm, r-cran-knitr, r-cran-rmarkdown, r-cran-xopen, r-cran-spelling, r-cran-formatr, r-cran-data.table, r-cran-ggwordcloud, r-cran-cffr, r-cran-bibtex Filename: pool/dists/focal/main/r-cran-iemisctext_1.0.1-1.ca2004.1_all.deb Size: 575416 MD5sum: 8710d8502e66e8f1434dd7c784e44e50 SHA1: b9db12dc358cc90522368fb5142175b1be946cf5 SHA256: c1195c4c0f08f8ed9bbed25ff81e0e18a53592e2e808c8a15bbfbad8df8d224a SHA512: 6ec993b34eec6ec32d13a69e69c4825257711cb7efa1d69682ae0c0fadb5a6fa9688c0a4424ba62788f225bd0b088df712d87b173b6ec7716936ef14dec877ff Homepage: https://cran.r-project.org/package=iemisctext Description: CRAN Package 'iemisctext' (Irucka Embry's Miscellaneous Text Collection) An eclectic collection of short stories and poetry with topics on climate strange, connecting the geopolitical dots, the myth of us versus them, and the idiocy of war. Please refer to the COPYRIGHTS file and the text_citation.cff file for the reference copyright information and for the complete citations of the reference sources, respectively. Package: r-cran-ietd Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 596 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rdpack, r-cran-foreach, r-cran-doparallel, r-cran-ggplot2, r-cran-dplyr, r-cran-lubridate Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ietd_1.0.0-1.ca2004.1_all.deb Size: 266732 MD5sum: 1031cc168db42ddbdac7b1120fb62daa SHA1: ba2516ba1c20b73b04fc707ef79b1858340c55a2 SHA256: 8e41e8937600cb47373efc3de9ee46b0fd22e851ab64825e31eca12a98f36213 SHA512: b3fc350723abb511ff2083750e59cf2d7ed6ee4e4155c83dc4e581a1672ea9c47d4be4cab63fe3ec2b6514032de042ede2e0b552d96914229f000e97ed206a82 Homepage: https://cran.r-project.org/package=IETD Description: CRAN Package 'IETD' (Inter-Event Time Definition) Computes characteristics of independent rainfall events (duration, total rainfall depth, and intensity) extracted from a sub-daily rainfall time series based on the inter-event time definition (IETD) method. 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The item-focused tree model combines logistic regression with recursive partitioning to detect Differential Item Functioning in dichotomous items. The model applies partitioning rules to the data, splitting it into homogeneous subgroups, and uses logistic regression within each subgroup to explain the data. Differential Item Functioning detection is achieved by examining potential group differences in item response patterns. This method is useful for understanding how different predictors, such as demographic or psychological factors, influence item responses across subgroups. 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It permits to work simultaneously with various testing materials, from standard univariate, and functional data analysis (FDA) perspectives. The univariate approach based on ASTM E691-08 consist of estimating the Mandel's h and k statistics to identify those laboratories that provide more significant different results, testing also the presence of outliers by Cochran and Grubbs tests, Analysis of variance (ANOVA) techniques are provided (F and Tuckey tests) to test differences in means corresponding to different laboratories per each material. Taking into account the functional nature of data retrieved in analytical chemistry, applied physics and engineering (spectra, thermograms, etc.). ILS package provides a FDA approach for finding the Mandel's k and h statistics distribution by smoothing bootstrap resampling. 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The method begins with a accept/reject approximate bayes computation (ABC) step applied to a sample of points from the prior distribution of model parameters. Accepted points result in model predictions that are within the initially specified tolerance intervals around the target points. The sample is iteratively updated by drawing additional points from a mixture of multivariate normal distributions, accepting points within tolerance intervals. As the algorithm proceeds, the acceptance intervals are narrowed. The algorithm returns a set of points and sampling weights that account for the adaptive sampling scheme. For more details see Rutter, Ozik, DeYoreo, and Collier (2018) . 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The functions provide scores for several basic aesthetic principles that facilitate fluent cognitive processing of images: contrast, complexity / simplicity, self-similarity, symmetry, and typicality. See Mayer & Landwehr (2018) and Mayer & Landwehr (2018) for the theoretical background of the methods. 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The package was originally intended for monitoring volcanic eruptions in video data by highlighting and extracting regions above the vent associated with plume activity. However, the functions within are general and have wide applications for image processing, analyzing, filtering, and plotting. 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(2015) and the U-Net++ architecture by Zhou et al. (2018) . We provide pre-trained models for assessing canopy density and understory vegetation density from vegetation photos. In addition, the package provides a workflow for easily creating model input and model architectures for general-purpose image segmentation based on grayscale or color images, both for binary and multi-class image segmentation. 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The functions contemplate deterministic and stochastic policy retention and growth scenarios. Retention and growth rates are percentages relative to the expiring portfolio. Claims are simulated for each policy. This is accomplished either be assuming a frequency distribution per development lag or by generating random wait times until claim emergence and settlement. Loss simulation uses standard loss distributions for claim amounts. 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This phenotypic variability is partly under genetic control, but also under environmental influence. With ImaginR, it's now possible to delimit the color phenotype of the pearl oyster's inner shell and to characterize their color variations (by the HSV color code system) with pictures. 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This package has been developed based on data collected by "Proyecto Global de Maíces Nativos México", which has conducted exhaustive surveys across the country to document the qualitative and quantitative characteristics of different types of native maize. The trained model uses a robust and diverse dataset, enabling it to achieve an 80% accuracy in classifying maize racial complexes. The characteristics included in the analysis comprise geographic location, grain and cob colors, as well as various physical measurements, such as lengths and widths. 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Package: r-cran-imix Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 185 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-crayon, r-cran-mvtnorm, r-cran-mixtools, r-cran-mclust, r-cran-ggplot2, r-cran-mass Filename: pool/dists/focal/main/r-cran-imix_1.1.5-1.ca2004.1_all.deb Size: 153596 MD5sum: 87c6b75f6cba052637565be520436f76 SHA1: bc955fc2eb85018b4ae073896dd170c2b75d7da8 SHA256: d5577cb146099662dda3bedb3c4d0efb46da05ea8161663e80cf2238fa8d6579 SHA512: dcc52689289f1b848154862b239da003e237b1756de5646e0310c5ed6236cd2ee710cc0f0fa7ebb0783e453d0887d8ac81993f7d39fa6c5aa60322554372501d Homepage: https://cran.r-project.org/package=IMIX Description: CRAN Package 'IMIX' (Gaussian Mixture Model for Multi-Omics Data Integration) A multivariate Gaussian mixture model framework to integrate multiple types of genomic data and allow modeling of inter-data-type correlations for association analysis. 'IMIX' can be implemented to test whether a disease is associated with genes in multiple genomic data types, such as DNA methylation, copy number variation, gene expression, etc. It can also study the integration of multiple pathways. 'IMIX' uses the summary statistics of association test outputs and conduct integration analysis for two or three types of genomics data. 'IMIX' features statistically-principled model selection, global FDR control and computational efficiency. Details are described in Ziqiao Wang and Peng Wei (2020) . Package: r-cran-iml Architecture: all Version: 0.11.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 836 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-formula, r-cran-future, r-cran-future.apply, r-cran-ggplot2, r-cran-metrics, r-cran-r6 Suggests: r-cran-aleplot, r-cran-bench, r-cran-bit64, r-cran-caret, r-cran-covr, r-cran-e1071, r-cran-future.callr, r-cran-glmnet, r-cran-gower, r-cran-h2o, r-cran-keras, r-cran-knitr, r-cran-mass, r-cran-mlr, r-cran-mlr3, r-cran-party, r-cran-partykit, r-cran-patchwork, r-cran-randomforest, r-cran-ranger, r-cran-rmarkdown, r-cran-rpart, r-cran-testthat, r-cran-yaimpute Filename: pool/dists/focal/main/r-cran-iml_0.11.4-1.ca2004.1_all.deb Size: 671608 MD5sum: 94025a2b3f274ab66e27b5fde2a70005 SHA1: 5123ff810d08d1388e5e8cb82536f61b58d9fe85 SHA256: 77b55ff37296dcb7238c5cf3bd812b58b1ef35b6bae91b5b77a228a594f55ada SHA512: f1dfcc4022d2107a3c8d0d909f766d8331565065048fc8fb5c8e077925b7a556650f6301c9f8d72813f0588273786d56c0ac76191a3a17548dcf178c80d049af Homepage: https://cran.r-project.org/package=iml Description: CRAN Package 'iml' (Interpretable Machine Learning) Interpretability methods to analyze the behavior and predictions of any machine learning model. Implemented methods are: Feature importance described by Fisher et al. (2018) , accumulated local effects plots described by Apley (2018) , partial dependence plots described by Friedman (2001) , individual conditional expectation ('ice') plots described by Goldstein et al. (2013) , local models (variant of 'lime') described by Ribeiro et. al (2016) , the Shapley Value described by Strumbelj et. al (2014) , feature interactions described by Friedman et. al and tree surrogate models. Package: r-cran-immailgun Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr Filename: pool/dists/focal/main/r-cran-immailgun_0.1.2-1.ca2004.1_all.deb Size: 44332 MD5sum: d6d66d39a775cf48ee92b916f0e41ceb SHA1: 9c22e99d8d0b508b73ca4bbd80e94c094206f035 SHA256: 9dfb140d49d40cf8317c36b57a34e11925fc3476f07af200f77cb7f9f53ce7e5 SHA512: e080960f369861e12226eea6b2dd2077058def1d6a01b271a37c462c9673fe1ee7ad468b5944da8cebb7c659ab74840020ba35e0184f398dcfca6b41a62da990 Homepage: https://cran.r-project.org/package=IMmailgun Description: CRAN Package 'IMmailgun' (Send Emails using 'Mailgun') Send emails using the 'mailgun' api. To use this package you will need an account from . Package: r-cran-immcp Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 167 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-igraph, r-bioc-clusterprofiler, r-bioc-dose, r-cran-dplyr, r-cran-magrittr, r-cran-matrix, r-cran-openxlsx, r-bioc-org.hs.eg.db, r-cran-pbapply, r-cran-proxyc, r-cran-purrr, r-cran-rlang, r-cran-visnetwork, r-cran-arules, r-cran-ggplot2, r-cran-ggheatmap, r-cran-factoextra Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-immcp_1.0.3-1.ca2004.1_all.deb Size: 108956 MD5sum: 0a281f4a709967874f281c08d7606e47 SHA1: 2be0ea9fd2c2a73db2e37bf259d5b039bbb232a0 SHA256: cbf4d1dd984c17be6128a3a1b8dceb1228411bbcca53946636dfdecef263e99f SHA512: 081c9b3638ae94c074001eec8b3c06c2d309884c0ddd6124976fb362b0269bbd906e8670f9bace89c929cf2625594c97ce5e76e8ba2cef69c985a82dfc66e07b Homepage: https://cran.r-project.org/package=immcp Description: CRAN Package 'immcp' (Poly-Pharmacology Toolkit for Traditional Chinese MedicineResearch) Toolkit for Poly-pharmacology Research of Traditional Chinese Medicine. Based on the biological descriptors and drug-disease interaction networks, it can analyze the potential poly-pharmacological mechanisms of Traditional Chinese Medicine and be used for drug-repositioning in Traditional Chinese Medicine. Package: r-cran-imml Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-rpart, r-cran-caret, r-cran-randomforest, r-cran-e1071, r-cran-ggplot2, r-cran-rlang Filename: pool/dists/focal/main/r-cran-imml_0.1.5-1.ca2004.1_all.deb Size: 23484 MD5sum: 781e9988c81fe0eb11e59e1a4a436654 SHA1: aaf5432b13528d53aa57292c4509ffe0c063cd16 SHA256: a49f32834a27785d9d1a1be273bd72078d480c29562b813d8e12ece83868f5b8 SHA512: 60cab1b89fb1dbff1daf2a76a6dead204851cfa17cb1970cd04795da8a82550b7f2916fa8ecdfd5320512ed9362a0cd1de34e479f2a5c3f5ead4e6e83fc4af40 Homepage: https://cran.r-project.org/package=ImML Description: CRAN Package 'ImML' (Machine Learning Algorithms Fitting and Validation for Forestry) Fitting and validation of machine learning algorithms for volume prediction of trees, currently for conifer trees based on diameter at breast height and height as explanatory variables. Package: r-cran-immunaut Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cluster, r-cran-plyr, r-cran-dplyr, r-cran-caret, r-cran-proc, r-cran-prroc, r-cran-rlang, r-cran-rtsne, r-cran-dbscan, r-cran-fnn, r-cran-igraph, r-cran-fpc, r-cran-mclust, r-cran-ggplot2, r-cran-rcolorbrewer, r-cran-r.utils, r-cran-clustersim, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-immunaut_1.0.2-1.ca2004.1_all.deb Size: 179652 MD5sum: d0fa3e146dc9f5dd9520580c8201b0ed SHA1: c9a04dd05d57fdeec77979fb5e35bacce66d282a SHA256: 5f7d2d5f1eb9b0c074d13b2e038036624332e342dfeb017f2afe892f47fad044 SHA512: 39ce1cebdb86c286b4a7220bd5a67c1c381cf5cd366c29efbb883a8a3385ff7f28b25917c716c0bf2e537b839fe7c9760d892a050bb02709aeb283b0f50f598c Homepage: https://cran.r-project.org/package=immunaut Description: CRAN Package 'immunaut' (Machine Learning Immunogenicity and Vaccine Response Analysis) Used for analyzing immune responses and predicting vaccine efficacy using machine learning and advanced data processing techniques. 'Immunaut' integrates both unsupervised and supervised learning methods, managing outliers and capturing immune response variability. It performs multiple rounds of predictive model testing to identify robust immunogenicity signatures that can predict vaccine responsiveness. The platform is designed to handle high-dimensional immune data, enabling researchers to uncover immune predictors and refine personalized vaccination strategies across diverse populations. Package: r-cran-immundata Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1325 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-r6, r-cran-checkmate, r-cran-dplyr, r-cran-duckplyr, r-cran-glue, r-cran-lifecycle, r-cran-readr, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-immundata_0.0.1-1.ca2004.1_all.deb Size: 219456 MD5sum: 4180b30994883404e831769383ebcfc9 SHA1: a48eec1ad8066c5065959069de160be3c7c43643 SHA256: 3d60bfec949d4119fe96f808ac6600a6dd97bb04410cdf9137a963f578c63c37 SHA512: 5e7230eb2a185b40dc7a945296f3be5377ca8740892674efafa50a3595631ec9669bdc9c7165e5fc2c01b06fd31686e95dc26581aa130bc57bbb1be739972c90 Homepage: https://cran.r-project.org/package=immundata Description: CRAN Package 'immundata' (A Unified Data Layer for Single-Cell, Spatial and BulkImmunomics) Provides a unified data layer for single-cell, spatial and bulk T-cell and B-cell immune receptor repertoire data, integrating diverse data formats such as AIRR and raw sequencing files. 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Package: r-cran-immunesim Architecture: all Version: 0.8.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4314 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-powerlaw, r-cran-stringdist, r-bioc-biostrings, r-cran-igraph, r-cran-stringr, r-cran-data.table, r-cran-plyr, r-cran-reshape2, r-cran-ggplot2, r-cran-ggthemes, r-cran-rcolorbrewer, r-cran-metrics, r-cran-repmis Filename: pool/dists/focal/main/r-cran-immunesim_0.8.7-1.ca2004.1_all.deb Size: 4386524 MD5sum: 11409e5a9c60ebe54f1f37a1b994e99e SHA1: 54f14f8b278d8109679a90c723994d3c51fca752 SHA256: 2f1ee33eab30ab33a741ad872d20a4fd1a231772ba4b33080ebe1005e706bc98 SHA512: c87318c31a5b02f2eaf0dd6cb9d883c257ea013564acf8a9c0df5d142607b6f89607a783b46f676e5e19a4c6e558431cd9430e647f0f71eff88c2b12f0d51d66 Homepage: https://cran.r-project.org/package=immuneSIM Description: CRAN Package 'immuneSIM' (Tunable Simulation of B- And T-Cell Receptor Repertoires) Simulate full B-cell and T-cell receptor repertoires using an in silico recombination process that includes a wide variety of tunable parameters to introduce noise and biases. Additional post-simulation modification functions allow the user to implant motifs or codon biases as well as remodeling sequence similarity architecture. The output repertoires contain records of all relevant repertoire dimensions and can be analyzed using provided repertoire analysis functions. Preprint is available at bioRxiv (Weber et al., 2019 ). Package: r-cran-immunogenetr Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2772 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-xml2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-immunogenetr_0.3.1-1.ca2004.1_all.deb Size: 274100 MD5sum: c74be3fd906c614ba6d5bf57a26dd32d SHA1: cac16c42987fb0eff1970027638ff1ae68c43112 SHA256: 4eac20098808be8db86c8d6524a58d96a14d1758e1396626c311dbed9243bdb4 SHA512: 0137443f77d450674cb63fdf7cf2593308f87e13a54d519923d661b5ff9f4cf761517f95ddb48834ddcd0aea20624e0cd2e2c4a380a4f53ea5d5a4b0ce078d6e Homepage: https://cran.r-project.org/package=immunogenetr Description: CRAN Package 'immunogenetr' (A Comprehensive Toolkit for Clinical HLA Informatics) A comprehensive toolkit for clinical Human Leukocyte Antigen (HLA) informatics, built on 'tidyverse' principles and making use of genotype list string (GL string, Mack et al. 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Package: r-cran-imneuron Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlmetrics, r-cran-ggplot2, r-cran-neuralnet Filename: pool/dists/focal/main/r-cran-imneuron_0.1.0-1.ca2004.1_all.deb Size: 22512 MD5sum: 8e2311adf69fc412c5b94ed69faff924 SHA1: e6037e1acef120cd5fa0c14545e256270a01855a SHA256: 03d271c2e3af5b03aa6f4f0e2102a18be56d61acb92095f8ddbd5be93e2bba1a SHA512: c323770119fdfa9e9ca275a174a2eb07c1a728edb2c6ff77765e85c3d7cf9bb0baa36b4f47278b9895fe4bce5fda09c888ec7a99525233fac062372836eebddd Homepage: https://cran.r-project.org/package=Imneuron Description: CRAN Package 'Imneuron' (AI Powered Neural Network Solutions for Regression Tasks) It offers a sophisticated and versatile tool for creating and evaluating artificial intelligence based neural network models tailored for regression analysis on datasets with continuous target variables. Leveraging the power of neural networks, it allows users to experiment with various hidden neuron configurations across two layers, optimizing model performance through "5 fold"" or "10 fold"" cross validation. The package normalizes input data to ensure efficient training and assesses model accuracy using key metrics such as R squared (R2), Root Mean Square Error (RMSE), Mean Absolute Error (MAE), and Percentage Error (PER). By storing and visualizing the best performing models, it provides a comprehensive solution for precise and efficient regression modeling making it an invaluable tool for data scientists and researchers aiming to harness AI for predictive analytics. Package: r-cran-imnn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mlmetrics, r-cran-ggplot2, r-cran-neuralnet Filename: pool/dists/focal/main/r-cran-imnn_0.1.0-1.ca2004.1_all.deb Size: 20464 MD5sum: 495352ed4df8a5553a11afe2e951040b SHA1: 9aa78fd08524b82c1e2f80cb3e12061e902b2de9 SHA256: 95844292351411dac7dc869031dd2daeaaaeb9d9ae6bb4d9d49e3dba74225c4c SHA512: f4277cc86e02c9a218c6bb4c47eeb2929e63d84755a110fdd50912d547b0f30f286d455047d355e6ca24c2943c27059093c94310ab0a867bfcc30ae790cd62de Homepage: https://cran.r-project.org/package=ImNN Description: CRAN Package 'ImNN' (Neural Networks for Predicting Volume of Forest Trees) Neural network has potential in forestry modelling. This package is designed to create and assess Artificial Intelligence based Neural Networks with varying architectures for prediction of volume of forest trees using two input features: height and diameter at breast height, as they are the key factors in predicting volume, therefore development and validation of efficient volume prediction neural network model is necessary. This package has been developed using the algorithm of Tabassum et al. (2022) . 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Additionally, two utility functions are supplied: one to check whether variables in a data set contain set-valued observations; and another to merge two already imprecisely imputed data. The method is described in a technical report by Endres, Fink and Augustin (2018, ). 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This pattern is known as "broadcasting" in 'Python' and "implicit expansion" in 'Matlab' and is explained for example in the article "Array programming with NumPy" by C. R. Harris et al. (2020) . 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Functions for preparing the data (both for the IAT and the SC-IAT), plotting the results, and obtaining a table with the scores of implicit measures descriptive statistics are provided. 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See . Package: r-cran-imprecise101 Architecture: all Version: 0.2.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-tolerance, r-cran-pscl Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-imprecise101_0.2.2.4-1.ca2004.1_all.deb Size: 59172 MD5sum: 498d0be1d1aaa1718d6232d17fc1bc0a SHA1: d43ac77e7159e56533f7b5ff03d7666e67f4b54d SHA256: a3b8ada68231ba5fc8f953e3ca0003ae19828437ae64b73657a868e6bea74360 SHA512: 468ce2cb1b228f16f91eeb3e3d3aa98ef33c73ee577ef66d40c73838f465d63c2a566c9a9cb34f7195a9a9a4cbe2c37e899f43199cd3ea99b2bf38ee3eedc024 Homepage: https://cran.r-project.org/package=imprecise101 Description: CRAN Package 'imprecise101' (Introduction to Imprecise Probabilities) An imprecise inference presented in the study of Walley (1996) is one of the statistical reasoning methods when prior information is unavailable. Functions and utils needed for illustrating this inferential paradigm are implemented for classroom teaching and further comprehensive research. Two imprecise models are demonstrated using multinomial data and 2x2 contingency table data. The concepts of prior ignorance and imprecision are discussed in lower and upper probabilities. Representation invariance principle, hypothesis testing, decision-making, and further generalization are also illustrated. 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Package: r-cran-imprinting Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 583 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-cowplot, r-cran-ggplot2, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-devtools Filename: pool/dists/focal/main/r-cran-imprinting_0.1.1-1.ca2004.1_all.deb Size: 397216 MD5sum: d3f054c151c2346ee5839680c05187ee SHA1: a34c015f32b1e57856e8e5bc30c53472cc8a58db SHA256: 0e14ce4a8d8bfd2b20605b57fe82f747c7eb0da2ba4a98b28e9348d1529ad54a SHA512: adde8cc811010baa498d87e0b5f13a65a684f2da45941f4856fc28ab8d90a57e8db03becf02438290550d0924fded1bdb59a45278adc90a1a1d8fc263a53648f Homepage: https://cran.r-project.org/package=imprinting Description: CRAN Package 'imprinting' (Calculate Birth Year-Specific Probabilities of Immune Imprintingto Influenza) Reconstruct birth-year specific probabilities of immune imprinting to influenza A, using the methods of Gostic et al. (2016) . Plot, save, or export the calculated probabilities for use in your own research. By default, the package calculates subtype-specific imprinting probabilities, but with user-provided frequency data, it is possible to calculate probabilities for arbitrary kinds of primary exposure to influenza A, including primary vaccination and exposure to specific clades, strains, etc. Package: r-cran-impshrinkage Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-impshrinkage_1.0.0-1.ca2004.1_all.deb Size: 108200 MD5sum: 086a389b99555b511d494ab752aacf6c SHA1: 2b261c96c86a6b4652926dce41415385de5bedf3 SHA256: c774eaeed9f136673c6187fb129a134ec76210d37fa784ddb72dfba6bcf5f0f3 SHA512: 4c99d0873005ad6cabdedb99b6dddc291da7739cefefcfd4ae82846a085396e3c330919cf44617404fafddc3d39585fd9838df6eb82f3fb09ed8c44c9293e7a1 Homepage: https://cran.r-project.org/package=ImpShrinkage Description: CRAN Package 'ImpShrinkage' (Improved Shrinkage Estimations for Multiple Linear Regression) A variety of improved shrinkage estimators in the area of statistical analysis: unrestricted; restricted; preliminary test; improved preliminary test; Stein; and positive-rule Stein. More details can be found in chapter 7 of Saleh, A. K. Md. E. (2006) . 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However, most data analysis methods expect complete data and cannot be employed with missing values. One convenient way to deal with this issue without having to redesign the data analysis method is to impute the missing values. This package provides an efficient way to impute the missing values based on modeling the time series with a random walk or an autoregressive (AR) model, convenient to model log-prices and log-volumes in financial data. In the current version, the imputation is univariate-based (so no asset correlation is used). In addition, outliers can be detected and removed. The package is based on the paper: J. Liu, S. Kumar, and D. P. Palomar (2019). Parameter Estimation of Heavy-Tailed AR Model With Missing Data Via Stochastic EM. IEEE Trans. on Signal Processing, vol. 67, no. 8, pp. 2159-2172. . 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Package: r-cran-imputelcmd Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 656 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-tmvtnorm, r-cran-norm, r-bioc-pcamethods, r-bioc-impute Filename: pool/dists/focal/main/r-cran-imputelcmd_2.1-1.ca2004.1_all.deb Size: 635584 MD5sum: b9281dcf2c03088a7a2b28457dd072fb SHA1: ff42907ba9b3a87c6c3874a941fe0eebae8a1a96 SHA256: e9de229946521e0390a91f805c154c8fca5f1741e308ae3e8b39c85c0c8992ce SHA512: bda1665820dc29aa536fbd364d6f9c8555bbcac79448aca9f868c03ece8a29788c20367b30b6896504897f6ddb0528cf6884c792d688cb25d176f0eb120aae6b Homepage: https://cran.r-project.org/package=imputeLCMD Description: CRAN Package 'imputeLCMD' (A Collection of Methods for Left-Censored Missing DataImputation) A collection of functions for left-censored missing data imputation. Left-censoring is a special case of missing not at random (MNAR) mechanism that generates non-responses in proteomics experiments. The package also contains functions to artificially generate peptide/protein expression data (log-transformed) as random draws from a multivariate Gaussian distribution as well as a function to generate missing data (both randomly and non-randomly). For comparison reasons, the package also contains several wrapper functions for the imputation of non-responses that are missing at random. * New functionality has been added: a hybrid method that allows the imputation of missing values in a more complex scenario where the missing data are both MAR and MNAR. 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We use a methodological framework which ensures that the plausibility of transitions is preserved, overfitting and colinearity issues are resolved, and confounders can be utilized. See Mamouris (2023) for an overview. 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These include regularisation methods like Lasso and Ridge regression, tree-based models and dimensionality reduction methods like PCA and PLS. 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(2019) . 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Package: r-cran-imrmc Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5308 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-imrmc_2.1.0-1.ca2004.1_all.deb Size: 5003152 MD5sum: 65bd4c33f470aec5224efa8370f67e5c SHA1: f709fbfa86bb2dec08769f936df855b6e3778242 SHA256: 624bbefca3f540d65ecd91a786e1d0cfb60353f09e05cdc3c53ba95fa03e0991 SHA512: daacd5bb313a7edcb662171694a3598b12691d5bca135d03a3c279755119507903b66bad31a955adb112cf4b61b2ec478cd5d7db9bb99d09e26caa37cd44ce2f Homepage: https://cran.r-project.org/package=iMRMC Description: CRAN Package 'iMRMC' (Multi-Reader, Multi-Case Analysis Methods (ROC, Agreement, andOther Metrics)) This software does Multi-Reader, Multi-Case (MRMC) analyses of data from imaging studies where clinicians (readers) evaluate patient images (cases). What does this mean? ... Many imaging studies are designed so that every reader reads every case in all modalities, a fully-crossed study. In this case, the data is cross-correlated, and we consider the readers and cases to be cross-correlated random effects. An MRMC analysis accounts for the variability and correlations from the readers and cases when estimating variances, confidence intervals, and p-values. The functions in this package can treat arbitrary study designs and studies with missing data, not just fully-crossed study designs. An overview of this software, including references presenting details on the methods, can be found here: . 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This package is a comprehensive toolset designed for the fitting and validation of various linear and nonlinear allometric equations (Linear, Log-Linear, Inverse, Quadratic, Cubic, Compound, Power and Exponential) used in the prediction of conifer tree volume. This package is particularly useful for forestry professionals, researchers, and resource managers engaged in assessing and estimating the volume of coniferous trees. This package has been developed using the algorithm of Sharma et al. (2017) . 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Dates can be provided in various standard formats. The class 'incidence' is used to store computed incidence and can be easily manipulated, subsetted, and plotted. In addition, log-linear models can be fitted to 'incidence' objects using 'fit'. This package is part of the RECON () toolkit for outbreak analysis. Package: r-cran-incidenceprevalence Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2550 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cdmconnector, r-cran-cli, r-cran-clock, r-cran-dplyr, r-cran-glue, r-cran-omopgenerics, r-cran-magrittr, r-cran-patientprofiles, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-dbplyr, r-cran-rmarkdown, r-cran-rpostgres, r-cran-duckdb, r-cran-dbi, r-cran-odbc, r-cran-here, r-cran-hmisc, r-cran-epitools, r-cran-tictoc, r-cran-testthat, r-cran-spelling, r-cran-gt, r-cran-flextable, r-cran-ggplot2, r-cran-scales, r-cran-visomopresults, r-cran-patchwork, r-cran-binom Filename: pool/dists/focal/main/r-cran-incidenceprevalence_1.2.0-1.ca2004.1_all.deb Size: 791852 MD5sum: 079bff273739044ac5fb8286cf07404e SHA1: f9cca165525ce339a53124198f3a4a6a8b51f6e3 SHA256: 5f11a6c944dec530edb439ac270ef57b62e185b5a7f8ff44df898bef16209c81 SHA512: 34149c2327f3d5778d0f8456189888abe5579d7cd2310d79de9c1b08e80d1eee686430fd7ad777857ef885f76d8348d8a3e9c1de1c5137795042268c17f50418 Homepage: https://cran.r-project.org/package=IncidencePrevalence Description: CRAN Package 'IncidencePrevalence' (Estimate Incidence and Prevalence using the OMOP Common DataModel) Calculate incidence and prevalence using data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model. Incidence and prevalence can be estimated for the total population in a database or for a stratification cohort. 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The package also calculates and returns values of different tests with their corresponding p-values. Bhoj, D. S. (1991) "Testing equality of means in the presence of correlation and missing data". Dubnicka, S. R., Blair, R. C., and Hettmansperger, T. P. (2002) "Rank-based procedures for mixed paired and two-sample designs". Einsporn, R. L. and Habtzghi, D. (2013) "Combining paired and two-sample data using a permutation test". Ekbohm, G. (1976) "On comparing means in the paired case with incomplete data on both responses". Lin, P. E. and Stivers, L. E. (1974) On difference of means with incomplete data". Maritz, J. S. (1995) "A permutation paired test allowing for missing values". 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McCracken (2022) . Package: r-cran-influence.me Architecture: all Version: 0.9-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Filename: pool/dists/focal/main/r-cran-influence.me_0.9-9-1.ca2004.1_all.deb Size: 82664 MD5sum: fd330a08117b8924220d6c2949db0609 SHA1: 8f72a03e0ab577b24b1267d042e208d10344d674 SHA256: 1407bd12be8ac0e2029b8ab61c4099876ca924bde34fb56ae6e342a736cba31e SHA512: 3dd3b2df0bf6a74bdc439d833ee73333c009e7ce14a3538091d4c5ff78b0a225cbac628c8f86c64bfa532fd0a5944fcfa625421ba4e092497e3dad5c038b9b81 Homepage: https://cran.r-project.org/package=influence.ME Description: CRAN Package 'influence.ME' (Tools for Detecting Influential Data in Mixed Effects Models) Provides a collection of tools for detecting influential cases in generalized mixed effects models. It analyses models that were estimated using 'lme4'. The basic rationale behind identifying influential data is that when single units are omitted from the data, models based on these data should not produce substantially different estimates. To standardize the assessment of how influential a (single group of) observation(s) is, several measures of influence are common practice, such as Cook's Distance. In addition, we provide a measure of percentage change of the fixed point estimates and a simple procedure to detect changing levels of significance. 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Package: r-cran-influenceauc Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-geigen, r-cran-ggplot2, r-cran-ggrepel, r-cran-rocr Filename: pool/dists/focal/main/r-cran-influenceauc_0.1.2-1.ca2004.1_all.deb Size: 63276 MD5sum: ae27b0db57f1cdbbaffa8ca3416225d0 SHA1: a1babbd602c91b9db55a7bd8ebd5912c8be121ed SHA256: ad9df4c0c964e50fac47a3ed5abe36b0e85a1f8373ea79e109368196ac3adbd5 SHA512: 6684248f3848688ed3bae2ab6dad05200952668fc37b96f59b0dbdb0f496c72cc89debf2b983698fc64c4d65c6a32560facd72a053b4bdfaee89a29a676faf4b Homepage: https://cran.r-project.org/package=influenceAUC Description: CRAN Package 'influenceAUC' (Identify Influential Observations in Binary Classification) Ke, B. S., Chiang, A. J., & Chang, Y. C. I. (2018) provide two theoretical methods (influence function and local influence) based on the area under the receiver operating characteristic curve (AUC) to quantify the numerical impact of each observation to the overall AUC. Alternative graphical tools, cumulative lift charts, are proposed to reveal the existences and approximate locations of those influential observations through data visualization. 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Also, a function is provided for running SIRIR model, which is the combination of leave-one-out cross validation technique and the conventional SIR model, on a network to unsupervisedly rank the true influence of vertices. Additionally, some functions have been provided for the assessment of dependence and correlation of two network centrality measures as well as the conditional probability of deviation from their corresponding means in opposite direction. Fred Viole and David Nawrocki (2013, ISBN:1490523995). Csardi G, Nepusz T (2006). "The igraph software package for complex network research." InterJournal, Complex Systems, 1695. Adopted algorithms and sources are referenced in function document. 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Package: r-cran-infoset Architecture: all Version: 4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1110 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-colorspace, r-cran-dendextend, r-cran-quadprog, r-cran-mixtools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-infoset_4.1-1.ca2004.1_all.deb Size: 1075520 MD5sum: 30f613db98428bb80b642d8dcfa23d50 SHA1: c6b1d1a27973a15fb809c54a635de88bdd95a3c3 SHA256: f544beda2f1f23f9c2daa82e9c41a6c4304ebad07b5957bb655bc366db1eec86 SHA512: 63951251c42ac281757c4d3aaee406068e231f54b28bbb8af206def843217fe86f0812c56bb61c8d1f7706ead58df2d64ba602ace122fed9aa441892531ec1bc Homepage: https://cran.r-project.org/package=INFOSET Description: CRAN Package 'INFOSET' (Computing a New Informative Distribution Set of Asset Returns) Estimation of the most-left informative set of gross returns (i.e., the informative set). The procedure to compute the informative set adjusts the method proposed by Mariani et al. (2022a) and Mariani et al. (2022b) to gross returns of financial assets. This is accomplished through an adaptive algorithm that identifies sub-groups of gross returns in each iteration by approximating their distribution with a sequence of two-component log-normal mixtures. These sub-groups emerge when a significant change in the distribution occurs below the median of the financial returns, with their boundary termed as the “change point" of the mixture. The process concludes when no further change points are detected. The outcome encompasses parameters of the leftmost mixture distributions and change points of the analyzed financial time series. The functionalities of the INFOSET package include: (i) modelling asset distribution detecting the parameters which describe left tail behaviour (infoset function), (ii) clustering, (iii) labeling of the financial series for predictive and classification purposes through a Left Risk measure based on the first change point (LR_cp function) (iv) portfolio construction (ptf_construction function). The package also provide a specific function to construct rolling windows of different length size and overlapping time. 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Key functions are: feature_importance() for assessment of global level feature importance, ceteris_paribus() for calculation of the what-if plots, partial_dependence() for partial dependence plots, conditional_dependence() for conditional dependence plots, accumulated_dependence() for accumulated local effects plots, aggregate_profiles() and cluster_profiles() for aggregation of ceteris paribus profiles, generic print() and plot() for better usability of selected explainers, generic plotD3() for interactive, D3 based explanations, and generic describe() for explanations in natural language. The package 'ingredients' is a part of the 'DrWhy.AI' universe (Biecek 2018) . 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Package: r-cran-injector Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-injector_0.2.4-1.ca2004.1_all.deb Size: 27680 MD5sum: dee7a242e214f13296f1739da484fa41 SHA1: f3933022bd683bbdb377385fec53c7322659deb0 SHA256: 00965f338be57fdbd34c8c298111b2ed3e30aa5efd61bb39d9a6b74d6077a5f8 SHA512: da574c27dea0e2b84127bc35968ac353f2f30fd5a85fc2136968f6a30b513c53f2f8dfcde5e945cd4b944520f89eb7a97cdc29c6436d952081dec91bfe03e64c Homepage: https://cran.r-project.org/package=injectoR Description: CRAN Package 'injectoR' (R Dependency Injection) R dependency injection framework. Dependency injection allows a program design to follow the dependency inversion principle. The user delegates to external code (the injector) the responsibility of providing its dependencies. This separates the responsibilities of use and construction. Package: r-cran-injuryseverityscore Architecture: all Version: 0.0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-rlang Filename: pool/dists/focal/main/r-cran-injuryseverityscore_0.0.0.2-1.ca2004.1_all.deb Size: 37344 MD5sum: 573de90e373e96d451d23e4064a140d5 SHA1: f3a992ce66f6274a3c57cedc0687746068bd8063 SHA256: 9fb0560f493af5807389434f39882a060b9ac0e64c5a9e4acef9861cd6ae3405 SHA512: bbf192596d08e717d2f3d3850a21f8f5968d0212b65a30f5c74c563c14038ae2a7129078ceae9b45ffbdf2b44052629ecf30c8361c84611fbebd7290598b9e32 Homepage: https://cran.r-project.org/package=InjurySeverityScore Description: CRAN Package 'InjurySeverityScore' (Translate ICD-9 into Injury Severity Score) Calculate the injury severity score (ISS) based on the dictionary in 'ICDPIC' from . The original code was written in 'STATA 11'. The original 'STATA' code was written by David Clark, Turner Osler and David Hahn. I implement the same logic for easier access. Ref: David E. Clark & Turner M. Osler & David R. Hahn, 2009. "ICDPIC: Stata module to provide methods for translating International Classification of Diseases (Ninth Revision) diagnosis codes into standard injury categories and/or scores," Statistical Software Components S457028, Boston College Department of Economics, revised 29 Oct 2010. 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The 'injurytools' package provides standardized routines and utilities that simplify such analyses. It offers functions for data preparation, informative visualizations and descriptive and model-based analyses. 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Additionally, extends the GAM-like model class to more general nonlinear predictor expressions, and implements a log Gaussian Cox process likelihood for modeling univariate and spatial point processes based on ecological survey data. Model components are specified with general inputs and mapping methods to the latent variables, and the predictors are specified via general R expressions, with separate expressions for each observation likelihood model in multi-likelihood models. A prediction method based on fast Monte Carlo sampling allows posterior prediction of general expressions of the latent variables. Ecology-focused introduction in Bachl, Lindgren, Borchers, and Illian (2019) . 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The flexible and user friendly function joint() facilitates the use of the fast and reliable inference technique implemented in the 'INLA' package for joint modeling. More details are given in the help page of the joint() function (accessible via ?joint in the R console) and the vignette associated to the joint() function (accessible via vignette("INLAjoint") in the R console). 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Files have been converted from 'SQL' to csv, and ported into 'R' for easy exploration and analysis. Thanks to the Macroecology of Infectious Disease Research Coordination Network (RCN) for funding and support. Data are also served online in a static format at . 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Package: r-cran-insilicova Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4841 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rjava, r-cran-coda, r-cran-ggplot2, r-cran-interva5 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-insilicova_1.4.0-1.ca2004.1_all.deb Size: 4081868 MD5sum: f7017d167ad238f156bd0917db7c6455 SHA1: 8c15c85ddf0a067eb5091f55098c82b07fe5a765 SHA256: 885b1ad12f5264411b4c6890196f32293d1b72268edb0d39c84a0f83bc78c954 SHA512: d0afbcee903ed1f383828f53414c1d2120d7eee3e0ba35a5a59ceed410517a47048b5f70a23a89ac85396ec71f3a40e088d73c32e28222d456b5faf956f876ba Homepage: https://cran.r-project.org/package=InSilicoVA Description: CRAN Package 'InSilicoVA' (Probabilistic Verbal Autopsy Coding with 'InSilicoVA' Algorithm) Computes individual causes of death and population cause-specific mortality fractions using the 'InSilicoVA' algorithm from McCormick et al. (2016) . 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It helps testing new regression models in those problems, such as GLM, GLMM, HGLM, non-linear mixed models etc. Most of the data sets are applied in the project "Mixed models in ratemaking" supported by grant NN 111461540 from Polish National Science Center. 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Package: r-cran-interactionpower Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 523 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-doparallel, r-cran-foreach, r-cran-ggplot2, r-cran-polynom, r-cran-chngpt, r-cran-rlang, r-cran-tidyr, r-cran-ggbeeswarm, r-cran-matrix Filename: pool/dists/focal/main/r-cran-interactionpower_0.2.2-1.ca2004.1_all.deb Size: 412848 MD5sum: c97789dc02c8681addf01811f475de3d SHA1: ff832a7531b5fa1c665c0d4e53ea7fbd51d2386c SHA256: a1f2daf786c583ae7ee3f266ce8629a4dfa6eab9a85788ceeb480190672a413e SHA512: 6c0a36d9695772cfdf679a310ab94843db8b86cfba8b801e24238630dc7b39cac0aa2ced1b3a1d9fd8fbe8b5c833f505315d2cf8da401efcecd943a7a50567f9 Homepage: https://cran.r-project.org/package=InteractionPoweR Description: CRAN Package 'InteractionPoweR' (Power Analyses for Interaction Effects in Cross-SectionalRegressions) Power analysis for regression models which test the interaction of two or three independent variables on a single dependent variable. Includes options for correlated interacting variables and specifying variable reliability. Two-way interactions can include continuous, binary, or ordinal variables. Power analyses can be done either analytically or via simulation. Includes tools for simulating single data sets and visualizing power analysis results. The primary functions are power_interaction_r2() and power_interaction() for two-way interactions, and power_interaction_3way_r2() for three-way interactions. Please cite as: Baranger DAA, Finsaas MC, Goldstein BL, Vize CE, Lynam DR, Olino TM (2023). "Tutorial: Power analyses for interaction effects in cross-sectional regressions." . 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It also estimates confidence interval for the trio of additive interaction measures using the delta method (see Hosmer and Lemeshow (1992), []), variance recovery method (see Zou (2008), []), or percentile bootstrapping (see Assmann et al. (1996), []). 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Methods used in the package refer to Harrell Jr FE (2015, ISBN:9783319330396); Durrleman S, Simon R. (1989) ; Greenland S. (1995) . 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Functionality includes visualization of two- and three-way interactions among continuous and/or categorical variables as well as calculation of "simple slopes" and Johnson-Neyman intervals (see e.g., Bauer & Curran, 2005 ). These capabilities are implemented for generalized linear models in addition to the standard linear regression context. 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Traditional time series intervention models, viz. Autoregressive Integrated Moving Average model with exogeneous variables (ARIMA-X) and Artificial Neural Networks with exogeneous variables (ANN-X), rely on linear intervention functions such as step or ramp functions, or their combinations. In this package, the Gompertz, Logistic, Monomolecular, Richard and Hoerl function have been used as non-linear intervention function. The equation of the above models are represented as: Gompertz: A * exp(-B * exp(-k * t)); Logistic: K / (1 + ((K - N0) / N0) * exp(-r * t)); Monomolecular: A * exp(-k * t); Richard: A + (K - A) / (1 + exp(-B * (C - t)))^(1/beta) and Hoerl: a*(b^t)*(t^c).This package introduced algorithm for time series intervention analysis employing ARIMA and ANN models with a non-linear intervention function. This package has been developed using algorithm of Yeasin et al. and Paul and Yeasin . 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References to these procedures can be found at Noguchi and Marmolejo-Ramos (2016) , Bonett and Seier (2003) , and Lemm (2006) . 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The following references describe the methods in this package: (1) Jalal K. Siddiqui, et al. (2018) , (2) Andrew Patt, et al. (2019) . 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Reference: Interpreting tree ensembles with inTrees (Houtao Deng, 2019, ). Package: r-cran-intrigue Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-squarem, r-cran-dplyr, r-cran-rlist Filename: pool/dists/focal/main/r-cran-intrigue_0.1.0-1.ca2004.1_all.deb Size: 75848 MD5sum: 055cd578656b39226fc21cf545f76506 SHA1: b502944efbde4f557ab54538c7087209343a2064 SHA256: 54bf9159681e0bb4b6bbf3b7bf7237d2c00fc7f7a350bf1d0f4620e4586433ec SHA512: 93abbe5eb50df688a8afacb8af01e8e70bd891976c1e388c0f1f53a4d7c38b4b2c2d6ad67e732d5133c73626c072e7eb0dc9475decce2668f88267897ca5f5a1 Homepage: https://cran.r-project.org/package=INTRIGUE Description: CRAN Package 'INTRIGUE' (Quantify and Control Reproducibility in High-ThroughputExperiments) Estimate the proportions of the null and the reproducibility and non-reproducibility of the signal group for the input data set. 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Data integration is a powerful modeling framework which allows us to combine these datasets together into a single model, yet retain the strengths of each individual dataset. We therefore introduce the package, 'intSDM': an R package designed to help ecologists develop a reproducible workflow of integrated species distribution models, using data both provided from the user as well as data obtained freely online. An introduction to data integration methods is discussed in Issac, Jarzyna, Keil, Dambly, Boersch-Supan, Browning, Freeman, Golding, Guillera-Arroita, Henrys, Jarvis, Lahoz-Monfort, Pagel, Pescott, Schmucki, Simmonds and O’Hara (2020) . 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The package includes calculations of inventory metrics, stock-out calculations and ABC analysis calculations. The package includes revenue management techniques such as Multi-product optimization,logit and polynomial model optimization. The functions are referenced from : 1-Harris, Ford W. (1913). "How many parts to make at once". Factory, The Magazine of Management. 2- Nahmias, S. Production and Operations Analysis. McGraw-Hill International Edition. 3-Silver, E.A., Pyke, D.F., Peterson, R. Inventory Management and Production Planning and Scheduling. 4-Ballou, R.H. Business Logistics Management. 5-MIT Micromasters Program. 6- Columbia University course for supply and demand analysis. 8- Price Elasticity of Demand MATH 104,Mark Mac Lean (with assistance from Patrick Chan) 2011W For further details or correspondence :, . 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The first algorithm is the first optimum contour algorithm described by Evans and Chung (2000)[1]. The second algorithm uses the Bromwich contour as per the definition of the inverse Laplace Transform. The latter is unstable for numerical inversion and mainly included for comparison or interest. There are also some additional functions provided for utility, including plotting and some simple Laplace Transform examples, for which there are known analytical solutions. Polar-cartesian conversion functions are included in this package and are used by the inversion functions. [1] Evans & Chung, 2000: Laplace transform inversions using optimal contours in the complex plane; International Journal of Computer Mathematics v73 pp531-543. Package: r-cran-invstableprior Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fdrtool, r-cran-nimble Filename: pool/dists/focal/main/r-cran-invstableprior_0.1.1-1.ca2004.1_all.deb Size: 35200 MD5sum: 4a0104db3f9ae7013c525f1b60e105b5 SHA1: 94d7bb8321423f72e0739e4b15b63ce914584210 SHA256: 45e2d8c086fda423a644655c0ff8071d78567ac17e1c7f9be6368943a53776e9 SHA512: f9e0317b63faff7eaaf89fc9360f28d49fab9ff8537e55ccf807b44c5714292e46255c5dfaca3703309002742ae14d86ecb41df5a1d592795565c1ccf921d98c Homepage: https://cran.r-project.org/package=InvStablePrior Description: CRAN Package 'InvStablePrior' (Inverse Stable Prior for Widely-Used Exponential Models) Contains functions that allow Bayesian inference on a parameter of some widely-used exponential models. The functions can generate independent samples from the closed-form posterior distribution using the inverse stable prior. Inverse stable is a non-conjugate prior for a parameter of an exponential subclass of discrete and continuous data distributions (e.g. Poisson, exponential, inverse gamma, double exponential (Laplace), half-normal/half-Gaussian, etc.). The prior class provides flexibility in capturing a wide array of prior beliefs (right-skewed and left-skewed) as modulated by a parameter that is bounded in (0,1). The generated samples can be used to simulate the prior and posterior predictive distributions. More details can be found in Cahoy and Sedransk (2019) . The package can also be used as a teaching demo for introductory Bayesian courses. 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Package: r-cran-inzightplots Architecture: all Version: 2.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1456 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-boot, r-cran-chron, r-cran-colorspace, r-cran-dichromat, r-cran-dplyr, r-cran-emmeans, r-cran-expss, r-cran-hexbin, r-cran-hms, r-cran-inzightmr, r-cran-inzighttools, r-cran-lubridate, r-cran-magrittr, r-cran-quantreg, r-cran-rlang, r-cran-s20x, r-cran-scales, r-cran-stringr, r-cran-units, r-cran-survey Suggests: r-cran-covr, r-cran-forcats, r-cran-dbi, r-cran-dbplyr, r-cran-ggbeeswarm, r-cran-ggmosaic, r-cran-ggplot2, r-cran-ggridges, r-cran-ggtext, r-cran-ggthemes, r-cran-gridsvg, r-cran-hextri, r-cran-jsonlite, r-cran-kableextra, r-cran-knitr, r-cran-plotly, r-cran-rcolorbrewer, r-cran-rsqlite, r-cran-testthat, r-cran-tibble, r-cran-tidyr, r-cran-viridis, r-cran-waffle Filename: pool/dists/focal/main/r-cran-inzightplots_2.16.0-1.ca2004.1_all.deb Size: 1292848 MD5sum: 2d94d6518c23adc6d7f6426d185f9176 SHA1: 270fe1c4d05d1d88af87f0103105099381a37965 SHA256: 7bd6bf3d96d2aa2937cf688e6f2b23073a54bc505dc19b3e20e1de1e97e713ac SHA512: ad0c7759eed17b03fa70f1be1bd0fcc3c30c88bb7b789887cd10de33c9a1b055ba421b4fe60fc3a56a034e3ff68957e6dbded20d6bd3fc535ace8537ec6cb419 Homepage: https://cran.r-project.org/package=iNZightPlots Description: CRAN Package 'iNZightPlots' (Graphical Tools for Exploring Data with 'iNZight') Simple plotting function(s) for exploratory data analysis with flexible options allowing for easy plot customisation. 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(1951) ); within period analysis via various rankings and coefficients (Sonis and Hewings (2006) , Blair and Miller (2009) , Antras et al (2012) , Hummels, Ishii, and Yi (2001) ); across period analysis with impact analysis (Dietzenbacher, van der Linden, and Steenge (2006) , Sonis, Hewings, and Guo (2006) ); and a variety of table operators. 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Package: r-cran-iopspackage Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 785 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-economiccomplexity, r-cran-readxl, r-cran-tidyr, r-cran-openxlsx, r-cran-usethis Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-iopspackage_2.1.0-1.ca2004.1_all.deb Size: 611680 MD5sum: 4ca46f6fd06b8830bf7ababda7c8c2f4 SHA1: 8aafdd5b4f9a3c8dd791d2fb6b3a6d1f19d5420b SHA256: 08c70fb119dc310ad1af78f7bdb1c543778d060c51b8f64caf10bf4123d20bf4 SHA512: db0b09e0a9f294da0d5479e839b625b4023bb3e9261dee24acacf5f4caa4c01638280885b50017f03dd661d0558adf21527e41731874f27815aa307cb9954f59 Homepage: https://cran.r-project.org/package=iopspackage Description: CRAN Package 'iopspackage' (IO-PS Framework Package) A developmental R tool related to the input-output product space (IO-PS). The package requires two compulsory user inputs (raw CEPPI BACI trade data, and any acceptable ISO country code) and has 4 optional user inputs (a value chain map, chosen complexity method, number of iterations to be performed, and a trade digit level). Various metrics are calculated, such as Economic- and Product complexity, distance, opportunity gain, and inequality metrics, to facilitate better decision making regarding industrial policy making. Package: r-cran-iopsych Architecture: all Version: 0.90.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 298 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-mco Filename: pool/dists/focal/main/r-cran-iopsych_0.90.1-1.ca2004.1_all.deb Size: 255816 MD5sum: c1deb56af1d05d085e1eaf15fdb4184b SHA1: 7beeba71986c4a183a8655044c711337dcb6e281 SHA256: 02d97e392b7f076d43404f1a77f0f61bb6a1d22d75a2efbe982910043fbcb542 SHA512: 63e9f76dda062fad4a8d76d8df6ade8677c3b75ca4d9b7667f5bdb3c88026551503599d17c160a89856fdc9289f95b074a61560e7f4f3c41ce5ca64987c67847 Homepage: https://cran.r-project.org/package=iopsych Description: CRAN Package 'iopsych' (Methods for Industrial/Organizational Psychology) Collection of functions for IO Psychologists. Package: r-cran-iosmooth Architecture: all Version: 0.94-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-iosmooth_0.94-1.ca2004.1_all.deb Size: 57724 MD5sum: fe8496dae3ff07b6705c9f0a0aa71838 SHA1: a0f2ad5b2fa01310f373f9084e1dd3e7e0072dbb SHA256: 7435658627cd309c5af2552397b7c36e650eb0b105656175fa9dd350ac960092 SHA512: c30138a7ca3a8dde321651f483d677608cac59df45b9ba1255c81e0d13944227b6781a5662a513e8548405c08391280e8688d6c1d364722cead88881e30e1694 Homepage: https://cran.r-project.org/package=iosmooth Description: CRAN Package 'iosmooth' (Functions for Smoothing with Infinite Order Flat-Top Kernels) Density, spectral density, and regression estimation using infinite order flat-top kernels. Package: r-cran-iotables Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2471 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-eurostat, r-cran-magrittr, r-cran-tidyr, r-cran-forcats, r-cran-plyr, r-cran-lubridate, r-cran-knitr, r-cran-kableextra, r-cran-tibble, r-cran-readxl, r-cran-assertthat, r-cran-glue, r-cran-tidyselect, r-cran-rlang Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-spelling, r-cran-covr, r-cran-roxyglobals Filename: pool/dists/focal/main/r-cran-iotables_0.9.3-1.ca2004.1_all.deb Size: 1800832 MD5sum: e832a3f18cfa7b2d3de667d9fd31616f SHA1: 650f3a33caee872ca66d809c1b7a5a3dc14bc7a3 SHA256: 186de9df88d706a26e4f199d0a8e5ebae625f879cb8def5b8876edce33c8cb58 SHA512: 10afbac2376a513bc14e86bdfa5451c9ad8f0b3e05702021d265addf261ef228e243aa5b299b89c8664cdf9e4f5b1236310673ffe31ea78cc6cf9d06b36b7509 Homepage: https://cran.r-project.org/package=iotables Description: CRAN Package 'iotables' (Reproducible Input-Output Economics Analysis, Economic andEnvironmental Impact Assessment with Empirical Data) Pre-processing and basic analytical tasks related to working with Eurostat's symmetric input-output tables and provide basic input-output economics calculations. The package is part of rOpenGov to open source open government initiatives. Package: r-cran-ip2location.io Architecture: all Version: 0.0.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-mockery Filename: pool/dists/focal/main/r-cran-ip2location.io_0.0.0-2-1.ca2004.1_all.deb Size: 21132 MD5sum: c73301c9d4d21590fec13cf9ec6f2efa SHA1: 182dba80618c8ac5e2de4ca9e27a410eac6db555 SHA256: 3290e968fb4e206578be0bee4947feea53e2fe12a9572dcc8e1b8b7e961798de SHA512: 7806cc8a123ae71ffe6bbfa5a45cefbe6f1917586b9e965a8cb477a85862430c5f6d8797aa27152018396521169eac5dac7d887ffa26c934e160ce7c032ffe35 Homepage: https://cran.r-project.org/package=ip2location.io Description: CRAN Package 'ip2location.io' (Batch IP Data Retrieval and Storage Using 'IP2Location.io') A system for submitting multiple IP information queries to 'IP2Location.io'’s IP Geolocation API and storing the resulting data in a dataframe. You provide a vector of IP addresses and your 'IP2Location.io' API key. The package returns a dataframe with one row per IP address and a column for each available data field (data fields not included in your API plan will contain NAs). This is the second submission of the package to CRAN. Package: r-cran-ip2location Architecture: all Version: 8.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-reticulate, r-cran-jsonlite, r-cran-ggplot2, r-cran-maps, r-cran-scales Filename: pool/dists/focal/main/r-cran-ip2location_8.1.3-1.ca2004.1_all.deb Size: 28004 MD5sum: 41eecb5437c8f141ad4ed2c21a416531 SHA1: 7bb45b710cd2f1719b9ec4a2b3848b38f519784c SHA256: 65a02259257a95ff3c923cac3482833d8d0670ff2d96fcb9b3eefa3eaba67470 SHA512: 10181daf5cb12884c5dab749fcdd8226d84d7b48528637615fef3097bb7b931cb53d296da12356ecd8f21cce2c3ac61bdf7e75eb812e85aa4678a5f66fddac62 Homepage: https://cran.r-project.org/package=ip2location Description: CRAN Package 'ip2location' (Lookup for IP Address Information) Enables the user to find the country, region, district, city, coordinates, zip code, time zone, ISP, domain name, connection type, area code, weather, Mobile Country Code, Mobile Network Code, mobile brand name, elevation, usage type, address type, IAB category and Autonomous system information that any IP address or hostname originates from. Supported IPv4 and IPv6. Please visit to learn more. You may also want to visit for free database download. This package requires 'IP2Location Python' module. At the terminal, please run 'pip install IP2Location' to install the module. Package: r-cran-ip2locationio Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-ip2locationio_1.1.0-1.ca2004.1_all.deb Size: 23312 MD5sum: 325b4091ecf9b8aa23be87e43bb8e4ec SHA1: 9798ed3517425cc10518b6dc86dc6fdc9047d728 SHA256: 885662fd29fe22d23bc9fcd58f96684ae58396d35d99163d139257cf317435d5 SHA512: e6957f0dcf70d3313fa80a5223df4ae32594a7a1ace8d8a510c596aed645c44a2ee485dca8721c4c9cf46230afcadb937e6681498dea5921fde5125e283a2020 Homepage: https://cran.r-project.org/package=ip2locationio Description: CRAN Package 'ip2locationio' (Lookup Geolocation and Proxy Information using 'IP2Location.io'API) Query for enriched data such as country, region, city, latitude & longitude, ZIP code, time zone, Autonomous System, Internet Service Provider, domain, net speed, International direct dialing (IDD) code, area code, weather station data, mobile data, elevation, usage type, address type, advertisement category, fraud score, and proxy data with an IP address. You can also query a list of hosted domain names for the IP address too. This package uses the 'IP2Location.io' API to query this data. To get started with a free API key, sign up here . Package: r-cran-ip2proxy Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-reticulate, r-cran-jsonlite, r-cran-ggplot2, r-cran-maps, r-cran-scales Filename: pool/dists/focal/main/r-cran-ip2proxy_1.2.0-1.ca2004.1_all.deb Size: 31092 MD5sum: 2d4e4389a437bce67babbe2709d09f23 SHA1: 595136a19334dec83efadc276161de7061de3b12 SHA256: b260b8a099a8901429cde1c3dfa4682e52fc9d5f308efea7514ed18294f96e61 SHA512: f85d0a856ac2b40ccc488daaef70a5910b4e3f858924677ac2213d07fcc29115dc0feacdee8415dad2d870325eebd91e9cc4876a774519db81ee3add9b22fc27 Homepage: https://cran.r-project.org/package=ip2proxy Description: CRAN Package 'ip2proxy' (Lookup for IP Address Proxy Information) Enable user to find the IP addresses which are used as VPN anonymizer, open proxies, web proxies and Tor exits. The package lookup the proxy IP address from IP2Proxy BIN Data file. You may visit for free database download. Package: r-cran-ip2whois Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-ip2whois_1.0.0-1.ca2004.1_all.deb Size: 30016 MD5sum: c06def4fe74ed2a56aeb7f49e2676138 SHA1: 831098f6620c052d6a85fe5b04050e221915a8bf SHA256: fcb016babaaf539a0472ba7ca14e34c17e3c2f8851bf0fe9c75dcf9bb33a1698 SHA512: e49c5ba6dd79cd8f2b1691eba51128ea910c85653a1f69f0f3cec465b29a95a9cf6f2f6f00a2f9e8f41c92ad9cf553c34ea7cbd5d386ce74780be1f3ea759fe8 Homepage: https://cran.r-project.org/package=ip2whois Description: CRAN Package 'ip2whois' (Lookup 'WHOIS' Information for a Particular Domain) Easily implement the checking of 'WHOIS' information for a particular domain. 'IP2WHOIS' supports the query for 1113 Top-level Domains(TLDs) and 634 Country Code Top-level Domains(ccTLDs). To get started with a free API key, you may sign up at here . Package: r-cran-ipa Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringi Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ipa_0.1.0-1.ca2004.1_all.deb Size: 71008 MD5sum: d896666bb184b63f0a94335a4597f184 SHA1: d2aaede49f2e831ad335e71b37553ef028a44207 SHA256: ee749181cfcbeee7c93b3b7c351b178402db3f85a44ee2cde3ab09139b95f0ec SHA512: 86ec34b174105a25e8165c51ecccfe0c58fe6f4d91ab05e0dc8da09760258e9240bec74f2813331d525ec1ae30713ff9daf2eced01767c1d3dc8d5c76a9c073a Homepage: https://cran.r-project.org/package=ipa Description: CRAN Package 'ipa' (Convert Between Phonetic Alphabets) Converts character vectors between phonetic representations. Supports IPA (International Phonetic Alphabet), X-SAMPA (Extended Speech Assessment Methods Phonetic Alphabet), and ARPABET (used by the CMU Pronouncing Dictionary). Package: r-cran-ipadmixture Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1093 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-treemap, r-cran-ape Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ipadmixture_0.1.2-1.ca2004.1_all.deb Size: 986856 MD5sum: 616726ae75ee8cdee9ff12f190db8946 SHA1: 859f55d97db6e99f7bb3b191dd8eb83d20bb7b85 SHA256: 8f436dfaedd736d52792d275054e684bffe2a78deb47c7752514ed8a5a7126e3 SHA512: d8d6986c5a78d5dd3295dbd81ac17d4bbd6dd8095b6b9c3d4ecf8a178572b104d1b3920e20480c5cb59b78e3a7acf0261ce3536bfcd10356dce0771da59bc024 Homepage: https://cran.r-project.org/package=ipADMIXTURE Description: CRAN Package 'ipADMIXTURE' (Iterative Pruning Population Admixture Inference Framework) A data clustering package based on admixture ratios (Q matrix) of population structure. The framework is based on iterative Pruning procedure that performs data clustering by splitting a given population into subclusters until meeting the condition of stopping criteria the same as ipPCA, iNJclust, and IPCAPS frameworks. The package also provides a function to retrieve phylogeny tree that construct a neighbor-joining tree based on a similar matrix between clusters. By given multiple Q matrices with varying a number of ancestors (K), the framework define a similar value between clusters i,j as a minimum number K* that makes majority of members of two clusters are in the different clusters. This K* reflexes a minimum number of ancestors we need to splitting cluster i,j into different clusters if we assign K* clusters based on maximum admixture ratio of individuals. The publication of this package is at Chainarong Amornbunchornvej, Pongsakorn Wangkumhang, and Sissades Tongsima (2020) . Package: r-cran-ipanema Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-base64enc, r-cran-dbi, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-rmysql Filename: pool/dists/focal/main/r-cran-ipanema_1.2.0-1.ca2004.1_all.deb Size: 43848 MD5sum: 2d85cde6ceb9f1e89db0ed14dbdf2b12 SHA1: 07e60cc81c436bcac4bdac51f795e784d48fb23d SHA256: 8b38339642fb12f2d4989f31aa675d449019f73e54a9cd5e2c8fda42e67f70ed SHA512: 859bad8e73474b4e8b0ba1e31e21a6f3016605960ebbaab0764ed5ad1aff93cf12863096caabb7f42f83aec9cd9e6213746cf51ff6682c738e0298bc23b2ef66 Homepage: https://cran.r-project.org/package=ipanema Description: CRAN Package 'ipanema' (Read Data from 'LimeSurvey') Read data from 'LimeSurvey' () in a comfortable way. Heavily inspired by 'limer' (), which lacked a few comfort features for me. Package: r-cran-ipbase Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ipbase_0.1.1-1.ca2004.1_all.deb Size: 25008 MD5sum: c1933fbaf630fd561709a96e23b2b004 SHA1: 7f03a560e76865e4265c129b2fcdfea8038e0716 SHA256: cc1a73650ec7a7634c2d55aaf516a17052ef438be3cfcca033ebc504dcc9c881 SHA512: 449501b9cb2b993b242af95144ba7444b32f0abc04e20c089dbf7d86df8b1762d18dfac198684b4bcd8d2f86b4095f71ae7927cda51a93815c382a1285f2a034 Homepage: https://cran.r-project.org/package=ipbase Description: CRAN Package 'ipbase' (Client for the 'ipbase.com' IP Geolocation API) An R client for the 'ipbase.com' IP Geolocation API. The API requires registration of an API key. Basic features are free, some require a paid subscription. You can find the full API documentation at . Package: r-cran-ipc Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 487 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-r6, r-cran-shiny, r-cran-txtq Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-future, r-cran-promises, r-cran-redux Filename: pool/dists/focal/main/r-cran-ipc_0.1.4-1.ca2004.1_all.deb Size: 326536 MD5sum: a10eca6a50ba429f68f9052b514f8eb3 SHA1: 28c4f74acb6123b7e580b4b1acbb9d21081516d6 SHA256: cdf8b199a8d13b051e5ccdd4457c281c0cabdab395d464e360a67cf3a3bbb8a1 SHA512: 9b0b86752575894a4ba6ea34736aa7e48bec6fff3d1f6ecbdb0db1de184f250ffdcb1881afd932605ca562d5ec8492cb8684ad5d04ec5afac3a3de075c28a164 Homepage: https://cran.r-project.org/package=ipc Description: CRAN Package 'ipc' (Tools for Message Passing Between Processes) Provides tools for passing messages between R processes. Shiny examples are provided showing how to perform useful tasks such as: updating reactive values from within a future, progress bars for long running async tasks, and interrupting async tasks based on user input. Package: r-cran-ipcaps Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 577 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-expm, r-cran-kris, r-cran-fpc, r-cran-lpcm, r-cran-apcluster, r-cran-rmixmod Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ipcaps_1.1.8-1.ca2004.1_all.deb Size: 462704 MD5sum: d4d6a8bc9f744babb00f86e6293e06b8 SHA1: e1c240a63a054ee2dd95f3ae5994776c0f2525da SHA256: f1398a03d4e554bdbb9314594440d71a57b6becbba4198899a61c7aae99ea4c2 SHA512: e93a259d13ad537e284accc2078d64d6551a858cddfa06dc6f5e214088dd12552c5c81845c0fb9798e283bfce960db5955649b0b87745fd43ef3a6254ffc0638 Homepage: https://cran.r-project.org/package=IPCAPS Description: CRAN Package 'IPCAPS' (Iterative Pruning to Capture Population Structure) An unsupervised clustering algorithm based on iterative pruning is for capturing population structure. This version supports ordinal data which can be applied directly to SNP data to identify fine-level population structure and it is built on the iterative pruning Principal Component Analysis ('ipPCA') algorithm as explained in Intarapanich et al. (2009) . The 'IPCAPS' involves an iterative process using multiple splits based on multivariate Gaussian mixture modeling of principal components and 'Expectation-Maximization' clustering as explained in Lebret et al. (2015) . In each iteration, rough clusters and outliers are also identified using the function rubikclust() from the R package 'KRIS'. Package: r-cran-ipcwk Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-survival Filename: pool/dists/focal/main/r-cran-ipcwk_1.0-1.ca2004.1_all.deb Size: 25088 MD5sum: cd8cda0c21de7f15a393199271a5e1ff SHA1: e843e3a49054046886adb87d5566f9c0dbb3acc9 SHA256: 43ae4c8c005291e8d7cfc7f24efd87aac7c0c534ff312ff40f00a432fc0566c4 SHA512: 18596078354065f13726104d77bd6281e370a474899d784e6fa3bf3cb8a6c9903f89edfd1e8075f72af83e0cf3942d10d34356c4f4962afa537e5912c24dcbb4 Homepage: https://cran.r-project.org/package=IPCWK Description: CRAN Package 'IPCWK' (Kendall's Tau Partial Corr. for Survival Trait and Biomarkers) We propose the inverse probability-of-censoring weighted (IPCW) Kendall's tau to measure the association of the survival trait with biomarkers and Kendall's partial correlation to reflect the relationship of the survival trait with interaction variable conditional on main effects, as described in Wang and Chen (2020) . Package: r-cran-ipcwswitch Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-ipcwswitch_1.0.4-1.ca2004.1_all.deb Size: 85356 MD5sum: 01c0dfe2ffc6f0be160fd9062c62b2a6 SHA1: 0471f84b4f602806d21e63b4cf4410de2219746c SHA256: f949de2ab570f4928264d2d38fe5d0f84c29818490ce6e1956eca01777f50237 SHA512: 2f0e1f50c1a2d4cde902862c556a7e531eefbbeb62b7a17ba5bfe618f6f9a4aa5d847b01f0240bec0169666cb45ee6e41d2275279ff26c97dd74ff2a9a748b41 Homepage: https://cran.r-project.org/package=ipcwswitch Description: CRAN Package 'ipcwswitch' (Inverse Probability of Censoring Weights to Deal with TreatmentSwitch in Randomized Clinical Trials) Contains functions for formatting clinical trials data and implementing inverse probability of censoring weights to handle treatment switches when estimating causal treatment effect in randomized clinical trials. 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Provides a wrapper function with specified defaults for the type of model and method to be used for estimation and inference. Further provides methods for tidying and summarizing results. Salerno et al., (2024) . 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This checks files for existence, read access and individual columns for formats. The checks on format is currently implemented for gender and age formats. 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We involve a simple function to extract the coordinates form the published K-M curves. The function is developed based on Poisot T. ’s digitize package (2011) . For more complex and tangled together graphs, digitizing software, such as 'DigitizeIt' (for MAC or windows) or 'ScanIt'(for windows) can be used to get the coordinates. Additional information should also be involved to increase the accuracy, like numbers of patients at risk (often reported at 5-10 time points under the x-axis of the K-M graph), total number of patients, and total number of events. The package implements the modified iterative K-M estimation algorithm (modified-iKM) improved upon the approach proposed by Guyot (2012) with some modifications. 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Useful for coastal marine applications where barriers in the landscape preclude interpolation with Euclidean distances. 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See Bates and Watts (1980) and Ratkowsky and Reddy (2017) for details. 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Starting data specifications can be found in the vignettes. Final files are saved locally to a location of the user's choice. User-friendly readable files can also be produced for purposes of data review and validation. 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For example, in biomedical applications patient outcome such as survival time or response to therapy may have to be predicted based on, say, mRNA data, miRNA data, methylation data, CNV data, clinical data, etc. The clinical predictors are on average often much more important for outcome prediction than the mRNA data. The ipflasso method takes this problem into account by using different penalty parameters for predictors from different modalities. The ratio between the different penalty parameters can be chosen from a set of optional candidates by cross-validation or alternatively generated from the input data. 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This is commonly used in population synthesis, survey raking, matrix rebalancing, and other applications. For example, a household survey may be weighted to match the known distribution of households by size from the census. An origin/ destination trip matrix might be balanced to match traffic counts. The approach used by this package is based on a paper from Arizona State University (Ye, Xin, et. al. (2009) ). Some enhancements have been made to their work including primary and secondary target balance/importance, general marginal agreement, and weight restriction. Package: r-cran-ipkg Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-remotes, r-cran-httr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ipkg_1.1.3-1.ca2004.1_all.deb Size: 17204 MD5sum: 1ca1fa7fb7dbea13441ef1ee871060e3 SHA1: dfe1d2ea36ec742fe5c9986c3f7105bdb6d8b0fe SHA256: 4c4e958c2483484b1c652123c6bf48998571e84e2985de3d06cdb2fdbc1d939c SHA512: 3874fa17bcb574db091f8444d60e03e2197a3ea66f2d1f661a2e1dd2e6793cc9e2e8756a4b8d164e36889822a29ab7d9944d0745e021739842408f7c4ee1f31c Homepage: https://cran.r-project.org/package=ipkg Description: CRAN Package 'ipkg' (Install R Packages or Download File from GitHub via the ProxySite) When you want to install R package or download file from GitHub, but you can't access GitHub, this package helps you install R packages or download file from GitHub via the proxy website or , which is in real-time sync with GitHub. Package: r-cran-iplgp Architecture: all Version: 2.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 827 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-sommer Filename: pool/dists/focal/main/r-cran-iplgp_2.0.5-1.ca2004.1_all.deb Size: 730296 MD5sum: 7e9929caf681e5d87565b435eb17945e SHA1: 4fd8a3e1c96987f4a7e58efae7705b3545795291 SHA256: 85406fc24c5bb781c63f955252dcda48068145a79c09b9d9a9a7bb310d6c8544 SHA512: 5a68078ed6be69a3d506c4be31151fe323c0ae17db54e0c4d2c3d8a0842ffddfa3961b232403d86eae3f3f4cffd5d14f9934d3378ebed9e7e82690a34bdc0f46 Homepage: https://cran.r-project.org/package=IPLGP Description: CRAN Package 'IPLGP' (Identification of Parental Lines via Genomic Prediction) Combining genomic prediction with Monte Carlo simulation, three different strategies are implemented to select parental lines for multiple traits in plant breeding. The selection strategies include (i) GEBV-O considers only genomic estimated breeding values (GEBVs) of the candidate individuals; (ii) GD-O considers only genomic diversity (GD) of the candidate individuals; and (iii) GEBV-GD considers both GEBV and GD. The above method can be seen in Chung PY, Liao CT (2020) . Multi-trait genomic best linear unbiased prediction (MT-GBLUP) model is used to simultaneously estimate GEBVs of the target traits, and then a selection index is adopted to evaluate the composite performance of an individual. 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Package: r-cran-irtawsi Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 219 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dt, r-cran-mirt, r-cran-psych, r-cran-readxl, r-cran-shiny, r-cran-shinywidgets, r-cran-shinycssloaders, r-cran-rmarkdown, r-cran-bs4dash, r-cran-gt, r-cran-diagram, r-cran-writexl, r-cran-mirtcat, r-cran-wrightmap Filename: pool/dists/focal/main/r-cran-irtawsi_0.4.1-1.ca2004.1_all.deb Size: 45612 MD5sum: 6a4774d3c6c646f82e1c8bf814d93ddf SHA1: 7a1744d24535235aad5a94f0828d5b9f82a3fbb2 SHA256: f289dba675f5c53bd34ce7af5990e1e08c7888a6a9410d2d1e5d54a35bbdd463 SHA512: 9c246a0aa9c008983261db03dc4a4338ded6eb8c6d9b864458e59bd88753adf4278371e3fd392242908f8b3527349ed2b4318feba1e1bf3b540ebd323e7054c0 Homepage: https://cran.r-project.org/package=irtawsi Description: CRAN Package 'irtawsi' (Items Response Theory Analysis with Steps and Interpretation) Dichotomous and polytomous data analysis and their scoring using the unidimensional Item Response Theory model (Chalmers (2012) ) with user-friendly graphic User Interface. Suitable for beginners who are learning item response theory. Package: r-cran-irtbemm Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 235 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-irtbemm_1.0.8-1.ca2004.1_all.deb Size: 204528 MD5sum: bb0cf40d0d95d56e324654213b64f1ca SHA1: 9a042bedf2204f31bccd911ac95c1f489f61cb3f SHA256: e0c9a5d679bbc11e4ce557f6ab697cb19dec341ac1c5a02fcde4028abee6940a SHA512: 05ed50cb60ea999090b33f57296e9b7973adcdf24ac7a4ceaaf17ff77405181a894d394cc1d1b88b3d49730d65b0d6cae457311eae597009e8d8569c7c38721c Homepage: https://cran.r-project.org/package=IRTBEMM Description: CRAN Package 'IRTBEMM' (Family of Bayesian EMM Algorithm for Item Response Models) Applying the family of the Bayesian Expectation-Maximization-Maximization (BEMM) algorithm to estimate: (1) Three parameter logistic (3PL) model proposed by Birnbaum (1968, ISBN:9780201043105); (2) four parameter logistic (4PL) model proposed by Barton & Lord (1981) ; (3) one parameter logistic guessing (1PLG) and (4) one parameter logistic ability-based guessing (1PLAG) models proposed by San Martín et al (2006) . The BEMM family includes (1) the BEMM algorithm for 3PL model proposed by Guo & Zheng (2019) ; (2) the BEMM algorithm for 1PLG model and (3) the BEMM algorithm for 1PLAG model proposed by Guo, Wu, Zheng, & Chen (2021) ; (4) the BEMM algorithm for 4PL model proposed by Zheng, Guo, & Kern (2021) ; and (5) their maximum likelihood estimation versions proposed by Zheng, Meng, Guo, & Liu (2018) . Thus, both Bayesian modal estimates and maximum likelihood estimates are available. Package: r-cran-irtdemo Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-fgarch Filename: pool/dists/focal/main/r-cran-irtdemo_0.1.5-1.ca2004.1_all.deb Size: 23508 MD5sum: c041c88e8cd5b8754fd190c11e78ec56 SHA1: 9f1f2c20a568b5fa74c73daec01e8b40afce8c7a SHA256: fda7c51ae20b423b7f13473c054b7f3a16e9e1779ed55467630f8ed1da1b7ab1 SHA512: a0da82db543b37bd0833ef2e3e370cbb03a910da689a29dde9694301b78f50cddb98e6f4257c36a63f4370cc5f2289a5af53ca960ec4ba1f625a42bde025be0f Homepage: https://cran.r-project.org/package=irtDemo Description: CRAN Package 'irtDemo' (Item Response Theory Demo Collection) Includes a collection of shiny applications to demonstrate or to explore fundamental item response theory (IRT) concepts such as estimation, scoring, and multidimensional IRT models. Package: r-cran-irtest Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 857 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-betafunctions, r-cran-dcurver, r-cran-ggplot2, r-cran-usethis Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-irtest_2.1.0-1.ca2004.1_all.deb Size: 549132 MD5sum: 9016bde42aa519f1cc42bd827e6b14dc SHA1: 1aae01eeac90d271d93bce4ddda6704075201bb1 SHA256: 6b7d8419a3d0a7b4a6aaa90eb1a462d6fe7753ba4a5f1acdaab93b30417bad93 SHA512: 1840f445d58d3d32afa5a97e97f2bbd3bb825f58a2ebf9cbf59599294992ff412e2fc3be4c995aeffc8b0e87db8d5c21a4a230873a0952b6ce31cb378a62ff9c Homepage: https://cran.r-project.org/package=IRTest Description: CRAN Package 'IRTest' (Parameter Estimation of Item Response Theory with Estimation ofLatent Distribution) Item response theory (IRT) parameter estimation using marginal maximum likelihood and expectation-maximization algorithm (Bock & Aitkin, 1981 ). Within parameter estimation algorithm, several methods for latent distribution estimation are available. Reflecting some features of the true latent distribution, these latent distribution estimation methods can possibly enhance the estimation accuracy and free the normality assumption on the latent distribution. Package: r-cran-irtgui Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-shiny, r-cran-shinydashboard, r-cran-shinycssloaders, r-cran-readxl, r-cran-mirt, r-cran-psych, r-cran-wrightmap, r-cran-writexl, r-cran-irtoys Filename: pool/dists/focal/main/r-cran-irtgui_0.2-1.ca2004.1_all.deb Size: 53888 MD5sum: f06214c4c964177aa58954e73fde9279 SHA1: 252d3dcde9dc9d0e441b94e2426992c6e37340eb SHA256: 4452740c4ba1fa622861897b5de28d7ef390c0f42d2a8dcd72a25d6204f9fbc3 SHA512: c96a4a66ca4761fad3570161de77874744ed38ea55d85dfe4f4ce52ec932c5aeddd24d0bba5c11f990179170739c80a01acfbb8538b9c40609fa5188330e2b26 Homepage: https://cran.r-project.org/package=irtGUI Description: CRAN Package 'irtGUI' (Item Response Theory Analysis with a Graphic User Interface) Performing Item Response Theory analysis such as parameter estimation, ability estimation, data generation, item and model fit analyse, local independence assumption, dimensionality assumption, wright map, characteristic and information curves under various models with a user-friendly Graphic User Interface. Package: r-cran-irtplay Architecture: all Version: 1.6.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3096 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-statmod, r-cran-reshape2, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-ggplot2, r-cran-rlang, r-cran-gridextra, r-cran-matrix, r-cran-janitor Suggests: r-cran-mirt Filename: pool/dists/focal/main/r-cran-irtplay_1.6.5-1.ca2004.1_all.deb Size: 2797512 MD5sum: 35a6ecd279ec1235ecfcd065e16821fa SHA1: f1eefd5bb707d3ff3e5f75ae589f5107a4509dbc SHA256: 76b62a794de4fc9f657bd4cd14f3f598c0a9bc436de8f2862aa8761ead34a76a SHA512: 07ee56898518aa3b2698aaa4ba095d3e034e587498106f18d69b7d758d22da8e27595e67ef21a70ffdc1d952918f550d9aff19659902865a98d0533d2d3ae944 Homepage: https://cran.r-project.org/package=irtplay Description: CRAN Package 'irtplay' (Unidimensional Item Response Theory Modeling) Fit unidimensional item response theory (IRT) models to a mixture of dichotomous and polytomous data, calibrate online item parameters (i.e., pretest and operational items), estimate examinees' abilities, and examine the IRT model-data fit on item-level in different ways as well as provide useful functions related to unidimensional IRT models. For the item parameter estimation, the marginal maximum likelihood estimation via the expectation-maximization (MMLE-EM) algorithm (Bock & Aitkin (1981) ) is used. For the online calibration, the fixed item parameter calibration method (Kim (2006) ) and the fixed ability parameter calibration method (Ban, Hanson, Wang, Yi, & Harris (2011) ) are provided. For the ability estimation, several popular scoring methods (e.g., MLE, EAP, and MAP) are implemented. In terms of assessing the IRT model-data fit, one of distinguished features of this package is that it gives not only well-known item fit statistics (e.g., chi-square (X2), likelihood ratio chi-square (G2), infit and oufit statistics, and S-X2 statistic (Ames & Penfield (2015) )) but also graphical displays to look at residuals between the observed data and model-based predictions (Hambleton, Swaminathan, & Rogers (1991, ISBN:9780803936478)). In addition, there are many useful functions such as analyzing differential item functioning, computing asymptotic variance-covariance matrices of item parameter estimates (Li & Lissitz (2004) ), importing item and/or ability parameters from popular IRT software, running 'flexMIRT' (Cai, 2017) through R, generating simulated data, computing the conditional distribution of observed scores using the Lord-Wingersky recursion formula (Lord & Wingersky (1984) ), computing the loglikelihood of individual items, computing the loglikelihood of abilities, computing item and test information functions, computing item and test characteristic curve functions, and plotting item and test characteristic curves and item and test information functions. See Lim and Wells (2022) for more details. Package: r-cran-irtprob Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 201 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice, r-cran-moments Filename: pool/dists/focal/main/r-cran-irtprob_1.2-1.ca2004.1_all.deb Size: 171216 MD5sum: f0cc88e942720b8324f80f4b107343d9 SHA1: 116caafc1df5974756cddb147e939fa42acd46a0 SHA256: 528b0599eb82de4933538b06fc69f48d1bc7d6754edab54c8ce7368a224f442d SHA512: 8158ab58bc693165fe903d4ba78f30b86db680c003aa45a7e5c5b80e42ea2bf25598af883b05bdc26328ec7bdb7a3e4e329ee173d96b14866907ec403f2efdb6 Homepage: https://cran.r-project.org/package=irtProb Description: CRAN Package 'irtProb' (Utilities and Probability Distributions Related toMultidimensional Person Item Response Models) Multidimensional Person Item Response Theory probability distributions Package: r-cran-irtpwr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 498 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mirt, r-cran-deriv, r-cran-digest, r-cran-spatstat.random, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-irtpwr_1.0.3-1.ca2004.1_all.deb Size: 171608 MD5sum: 411422d0cf1c2a8e78f779b0d225495b SHA1: e5307dc2c4e971c4511bad7d0521f39a539f09c6 SHA256: 4727f23d2e0c21a3939a1baf098a3ed3108412fb863beba06b686d82c77e181c SHA512: fa9540b8032ce641af45cdf014460aa4fbc891891b9128c3f9a86c11e505e59ea9f9b09de63e1fc6836ea6ce11d5da3a84175380e4a2e9453861d7a50d7a2f01 Homepage: https://cran.r-project.org/package=irtpwr Description: CRAN Package 'irtpwr' (Power Analysis for IRT Models Using the Wald, LR, Score, andGradient Statistics) Implementation of analytical and sampling-based power analyses for the Wald, likelihood ratio (LR), score, and gradient tests. Can be applied to item response theory (IRT) models that are fitted using marginal maximum likelihood estimation. The methods are described in our paper (Zimmer et al. (2022) ). 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The bring.flexmirt() and write.flexmirt() functions were written by modifying the read.flexmirt() function (Pritikin & Falk (2022) ). The bring.bilog() and bring.parscale() functions were written by modifying the read.bilog() and read.parscale() functions, respectively (Weeks (2010) ). The bisection() function was written by modifying the bisection() function (Howard (2017, ISBN:9780367657918)). The code of the inverse test characteristic curve scoring in the est_score() function was written by modifying the irt.eq.tse() function (González (2014) ). In est_score() function, the code of weighted likelihood estimation method was written by referring to the Pi(), Ji(), and Ii() functions of the catR package (Magis & Barrada (2017) ). 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Package: r-cran-isdparser Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4063 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble, r-cran-data.table, r-cran-lubridate Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-isdparser_0.4.0-1.ca2004.1_all.deb Size: 685188 MD5sum: 6ed94e9f0785366baa7dc19a19600444 SHA1: 86de0fcbdb7a2578088153b64c4df7ca83e8fb11 SHA256: 8eb3553103f006eb1b112d8c62c4ab1ac2eb2c28fa362faaaf262be119cdf492 SHA512: babc6aeeca74a250514dc150e2e27fdf040002397d91884448680babd1790603441335bdbf121d53ec9a288b2e336a91253f0e5ea1b3c5d56f27cac836605dda Homepage: https://cran.r-project.org/package=isdparser Description: CRAN Package 'isdparser' (Parse 'NOAA' Integrated Surface Data Files) Tools for parsing 'NOAA' Integrated Surface Data ('ISD') files, described at . 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Implements methods described in: Dillingham, P.W., Radu, T., Diamond, D., Radu, A. and McGraw, C.M. (2012) , Dillingham, P.W., Alsaedi, B.S.O. and McGraw, C.M. (2017) , Dillingham, P.W., Alsaedi, B.S.O., Radu, A., and McGraw, C.M. (2019) , and Dillingham, P.W., Alsaedi, B.S.O., Granados-Focil, S., Radu, A., and McGraw, C.M. (2020) . 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The software package provides the integrative analysis methods including integrative sparse principal component analysis (Fang et al., 2018), integrative sparse partial least squares (Liang et al., 2021) and integrative sparse canonical correlation analysis, as well as corresponding individual analysis and meta-analysis versions. References: (1) Fang, K., Fan, X., Zhang, Q., and Ma, S. (2018). Integrative sparse principal component analysis. Journal of Multivariate Analysis, . (2) Liang, W., Ma, S., Zhang, Q., and Zhu, T. (2021). Integrative sparse partial least squares. Statistics in Medicine, . Package: r-cran-isingfit Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-qgraph, r-cran-matrix, r-cran-glmnet Suggests: r-cran-isingsampler Filename: pool/dists/focal/main/r-cran-isingfit_0.4-1.ca2004.1_all.deb Size: 37552 MD5sum: 47d10d40cbce59c9280385bc0aa7c088 SHA1: b528d9a5a75ce2810cd2ae0d3da03badd2120cbd SHA256: 34065ddde67de4ce95807430c046151b193641af147d9f118eabb73979525df5 SHA512: 035852588b725d73f99e90a400e976384b37b19a68fe9d085471aead20bfe5293bbc4fc5a95f1a906480087ce73e309baa6f0f35991f9587180472fa5ea076d6 Homepage: https://cran.r-project.org/package=IsingFit Description: CRAN Package 'IsingFit' (Fitting Ising Models Using the ELasso Method) This network estimation procedure eLasso, which is based on the Ising model, combines l1-regularized logistic regression with model selection based on the Extended Bayesian Information Criterion (EBIC). 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Package: r-cran-islr2 Architecture: all Version: 1.3-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4591 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-islr2_1.3-2-1.ca2004.1_all.deb Size: 4130368 MD5sum: 5cae294466a22f81c420bd4aa0b9ab35 SHA1: 5df785affe0b3b8dd7fd8612b24422a683ed6ba6 SHA256: c96e2e9c6989217554c267a687a9a95e32c90563819ef7ecd2e18b2b0a766dca SHA512: b04793f716394cf575321cbd637f1fab30d599e6d117d100f7449965da4a0f198b25baa4fd4354631eb3a6f4d7bc2b8af35e1955742645f4ec21a7c94625de7f Homepage: https://cran.r-project.org/package=ISLR2 Description: CRAN Package 'ISLR2' (Introduction to Statistical Learning, Second Edition) We provide the collection of data-sets used in the book 'An Introduction to Statistical Learning with Applications in R, Second Edition'. These include many data-sets that we used in the first edition (some with minor changes), and some new datasets. 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Package: r-cran-ism Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 797 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xlsx, r-cran-rjava, r-cran-xlsxjars Filename: pool/dists/focal/main/r-cran-ism_0.1.0-1.ca2004.1_all.deb Size: 245904 MD5sum: 54fe72c90895b04586e508a96635c6f3 SHA1: 3f373c29db5e61bb19a2c8b903b66f1e5a274f7b SHA256: 8a999a821d0f48ed6eae653b09cd349f4bb2c13d7077a377f40aab9ca07ba041 SHA512: ed40b68bd2cf6759d63182efb5a515d6dde610740e4851f7b79b4fdc388b9a0b7b14dba3b3d82f9845ca5f044ca4a60a5ad773e146e7269a846d96b3fd6ec88d Homepage: https://cran.r-project.org/package=ISM Description: CRAN Package 'ISM' (Interpretive Structural Modelling (ISM)) The development of ISM was made by Warfield in 1974. ISM is the process of collaborating distinct or related essentials into a simplified and an organized format. Hence, ISM is a methodology that seeks the interrelationships among the various elements considered and endows with a hierarchical and multilevel structure. To run this package user needs to provide a matrix (VAXO) converted into 0's and 1's. Warfield,J.N. (1974) Warfield,J.N. (1974, E-ISSN:2168-2909). Package: r-cran-ismev Architecture: all Version: 1.42-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 325 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-ismev_1.42-1.ca2004.1_all.deb Size: 259796 MD5sum: 0cb174b5378ef74eebced84e5f33ee25 SHA1: 560dc6045ab4caad0c648ff48b2d1ff62b5cefd3 SHA256: f5a8921dfda1f3fef22fd13bde265dfd9adfe6541d5865154e5801de6c1a41ed SHA512: 9130dd8643443d4b0a6b41d9ab583394ca4c04a3d6a2648e4e9246671e08b82bdd645118c22c91ca575b372079a21dbdca112927036efbc6f35069136aab0750 Homepage: https://cran.r-project.org/package=ismev Description: CRAN Package 'ismev' (An Introduction to Statistical Modeling of Extreme Values) Functions to support the computations carried out in `An Introduction to Statistical Modeling of Extreme Values' by Stuart Coles. The functions may be divided into the following groups; maxima/minima, order statistics, peaks over thresholds and point processes. 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It allows for arbitrary patterns of missingness in the regression outcomes caused by dropout and/or intermittent missingness. One can compute the sensitivity index without estimating any nonignorable models or positing specific magnitude of nonignorability. Thus ISNI provides a simple quantitative assessment of how robust the standard estimates assuming missing at random is with respect to the assumption of ignorability. For a tutorial, download at . For more details, see Troxel Ma and Heitjan (2004) and Xie and Heitjan (2004) and Ma Troxel and Heitjan (2005) and Xie (2008) and Xie (2012) and Xie and Qian (2012) . Package: r-cran-iso11784tools Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-stringi, r-cran-dplyr, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-iso11784tools_1.2.0-1.ca2004.1_all.deb Size: 61896 MD5sum: aa0e6be332abf46d8c64773eb3be9924 SHA1: 27ca6ee42705e4757bd005b343c90659a2b82f68 SHA256: cb06804bb57828e2c18dd85dfbaddfc82cb4baa6ffc2c663c49a1046542525b2 SHA512: b18606dd3844fcf82d7f1516986aaef2c247445f32639fc235bfc9db29ad0cf3686a3cfdec481b88d74edb3591b129f0582af8773d74e6cdf3bc133205493b24 Homepage: https://cran.r-project.org/package=ISO11784Tools Description: CRAN Package 'ISO11784Tools' (ISO11784 PIT Tag ID Format Converters) Some tools to assist with converting International Organization for Standardization (ISO) standard 11784 (ISO11784) animal ID codes between 4 recognised formats commonly displayed on Passive Integrated Transponder (PIT) tag readers. 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See Mathias and Hudiburg (2022) in Global Change Biology . 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It generates probability-of-origin maps for individuals based on user-provided tissue and environment isotope values (e.g., as generated by IsoMAP, Bowen et al. [2013] ) using the framework established in Bowen et al. (2010) ). The package 'isocat' can then quantitatively compare and cluster these maps to group individuals by similar origin. It also includes techniques for applying four approaches (cumulative sum, odds ratio, quantile only, and quantile simulation) with which users can summarize geographic origins and probable distance traveled by individuals. Campbell et al. [2020] establishes several of the functions included in this package . Package: r-cran-isocheck Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools, r-cran-dplyr, r-cran-plyr Filename: pool/dists/focal/main/r-cran-isocheck_0.1.0-1.ca2004.1_all.deb Size: 100524 MD5sum: 7b6940172cc772979ede1968622e1c1e SHA1: 459153496fcabf1251e0fee85a1dd9305622455c SHA256: 3f5459e62c15b2d142672ff446b4380d23a41383110cdf8ce410eacabc74a94d SHA512: f1822c7c863075016f1011932dcd223175fa0d3a7b278ddc6d81371009bd1325704cf709e9ec46bf3195c65511b315e353827d1c4de2099cd8eacf13563f02e8 Homepage: https://cran.r-project.org/package=IsoCheck Description: CRAN Package 'IsoCheck' (Isomorphism Check for Multi-Stage Factorial Designs withRandomization Restrictions) Contains functions to check the isomorphism of multi-stage factorial designs with randomisation restrictions based on balanced spreads and balanced covering stars of PG(n-1,2) as described in Spencer, Ranjan and Mendivil (2019) . Package: r-cran-isoci Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernsmooth Filename: pool/dists/focal/main/r-cran-isoci_1.1-1.ca2004.1_all.deb Size: 30624 MD5sum: 205546ac8ce0564276593ae689802418 SHA1: 10db2e7aa8fb7ea2e56bea95995cf28360ff45c9 SHA256: 8ab951d37ff984e0548a8a07970e8b2b4d66181ae18bbf8024bfec66d4dca157 SHA512: c0ce01dcf2bfade7d709e74c68f7d5708bdcb8263ed6e466cbbc807de7aad4f1fc2096fdfb0a4b5c171588c906dbc959cc679c00faa616f64222e5cd93ee75c3 Homepage: https://cran.r-project.org/package=IsoCI Description: CRAN Package 'IsoCI' (Confidence intervals for current status data based ontransformations and bootstrap) Some functions for confidence intervals for current status data based on transformations and bootstrap. Package: r-cran-isocodes Architecture: all Version: 2025.05.18-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 342 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-isocodes_2025.05.18-1.ca2004.1_all.deb Size: 312208 MD5sum: a1d65ed69d73ce1f01f462331d5bd421 SHA1: 6921c0ec98044b4307fb8b468c5efb21720f160f SHA256: b12e6aa6d973927fc3035a891f9cd7d8240f19e65bcde2f4e6a362d395d34f17 SHA512: 648d5508eb21d9197beb2b3ff7b7e667b138de715f04fa97d5438ede92610aab18a73a441f855037de3438c2de80ffe70c7387372647ae1e0299a1caf6025812 Homepage: https://cran.r-project.org/package=ISOcodes Description: CRAN Package 'ISOcodes' (Selected ISO Codes) ISO language, territory, currency, script and character codes. Provides ISO 639 language codes, ISO 3166 territory codes, ISO 4217 currency codes, ISO 15924 script codes, and the ISO 8859 character codes as well as the UN M.49 area codes. Package: r-cran-isocor Architecture: all Version: 0.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3606 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bslib, r-cran-config, r-cran-dt, r-cran-golem, r-cran-maldiquant, r-cran-markdown, r-cran-plyr, r-cran-shiny, r-cran-shinyalert, r-cran-shinyjs Suggests: r-cran-shinytest2, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-isocor_0.2.8-1.ca2004.1_all.deb Size: 3570472 MD5sum: 051e7118d52695c0a989c49221f4aed7 SHA1: cb4eb7bc20ab0b9e327e4563ef2c99c1b85c1f42 SHA256: 296bc27658f0e2799554c25b9ab0e1b973eaab4c205016be8521b40fe553126c SHA512: 71ef2b16c6d6f4c8fccebf8ee0e84bbf04f3b4e416c3f491c96426ab1ed135c3f7727177f8eab40f114abb08ac5e5ca8346199f63928a6c1bce14ef1ca61f849 Homepage: https://cran.r-project.org/package=IsoCor Description: CRAN Package 'IsoCor' (Analyze Isotope Ratios in a 'Shiny'-App) Analyzing Inductively Coupled Plasma - Mass Spectrometry (ICP-MS) measurement data to evaluate isotope ratios (IRs) is a complex process. The 'IsoCor' package facilitates this process and renders it reproducible by providing a function to run a 'Shiny'-App locally in any web browser. In this App the user can upload data files of various formats, select ion traces, apply peak detection and perform calculation of IRs and delta values. Results are provided as figures and tables and can be exported. The App, therefore, facilitates data processing of ICP-MS experiments to quickly obtain optimal processing parameters compared to traditional 'Excel' worksheet based approaches. A more detailed description can be found in the corresponding article . The most recent version of 'IsoCor' can be tested online at . Package: r-cran-isocorr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-isocorr_1.0-1.ca2004.1_all.deb Size: 40384 MD5sum: db04be0e26deb9816fb64c897c2157da SHA1: ad8f5d402473316cdfad1636079260d9eb2c7f23 SHA256: 25c9a73e9086f719417bba8b8a890860bdc84565f3a353114b5c62d85322c242 SHA512: 148de58de4fe9e04911ddf5edf5312140232a4d38c0a623a9f05e299cca8a591c0c1d673c6c39061fb0ba8e34bca56ab8a82dfe6414a3ee3a1575ef3e88480cd Homepage: https://cran.r-project.org/package=IsoCorr Description: CRAN Package 'IsoCorr' (Correcting Drift and Carry-over in Continuous IsotopicMeasurements) A series of functions that allow an easy and fast correction for drift and carry-over in continuous isotopic measurements. This implementation provides queries allowing users to perform the implemented corrections according to their needs. These functions further enable the processing of large datasets and can provides apt visualizations of the corrections performed. Package: r-cran-isocountry Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tibble Suggests: r-cran-dplyr Filename: pool/dists/focal/main/r-cran-isocountry_0.4.0-1.ca2004.1_all.deb Size: 25712 MD5sum: 284c5ed0f3cdb5f8e794f4496282ed86 SHA1: 7ed320cd9aa6452775d26ae78c3579a147ef3236 SHA256: dd6294bd2c0963d0e53962e0fc17e0dfe6157443cba861e939f18d0ad99a3b4a SHA512: f6a71cd32e9c1b6dcec0eb5601525d7907450e1af7d17a2996945117258058283290572e556e7b4de2ef3ed2a0afaaeae3bdfa023f08746195ac94478867ad52 Homepage: https://cran.r-project.org/package=isocountry Description: CRAN Package 'isocountry' (ISO 3166-1 Country Codes) ISO 3166-1 country codes and ISO 4217 currency codes provided by the International Organization for Standardization. Package: r-cran-isogene Architecture: all Version: 1.0-24-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 941 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-iso, r-cran-xtable, r-bioc-biobase, r-bioc-affy Filename: pool/dists/focal/main/r-cran-isogene_1.0-24-1.ca2004.1_all.deb Size: 840836 MD5sum: 44e419542a5624a9489aa410325f2c6d SHA1: af6a196c4e9a8cc2f078ca7d28c7df75b904cb48 SHA256: 805f7d4d65c5f4a8575ce5963471f20217d2a81838cf9c93ba9dd4977a3bb386 SHA512: 9d32d17b547ba7a5816bf5e84ef67eceb4e63f0d6363813d7a6980a1daf02f2e4be249d1bac755037b2471b52f95511f82f62b200eccb935da3c182def913b66 Homepage: https://cran.r-project.org/package=IsoGene Description: CRAN Package 'IsoGene' (Order-Restricted Inference for Microarray Experiments) Offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood-ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY (Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the raw p-values obtained from the permutations. Package: r-cran-isogeochem Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 871 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-shades, r-cran-viridislite, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-cran-spelling, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-isogeochem_1.1.1-1.ca2004.1_all.deb Size: 618788 MD5sum: 361377d9c17a2c0618051bc7ec79660d SHA1: 87b7afd9d8a2e4a477a9b7269b0ba1771132eadc SHA256: 85f822a08acda86ee5a19a5d216df1d4456d313cde3207c4fc7e377ef7a53cda SHA512: 7f74b162086e28c2c139f3f32b057da6a03bebaa317a88c5348ca26f3f937fc371e41f1a46da0acc075c2a0aae416109286c2a35e96b0ea2f659723e93a332de Homepage: https://cran.r-project.org/package=isogeochem Description: CRAN Package 'isogeochem' (Tools for Stable Isotope Geochemistry) This toolbox makes working with oxygen, carbon, and clumped isotope data reproducible and straightforward. Use it to quickly calculate isotope fractionation factors, and apply paleothermometry equations. Package: r-cran-isokernel Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rann, r-cran-matrix Filename: pool/dists/focal/main/r-cran-isokernel_0.1.0-1.ca2004.1_all.deb Size: 14828 MD5sum: e4d146f7a77b45b5df64db22ad299a36 SHA1: 510924b63d78eb0a70f4a70212928c26e794f56b SHA256: 0f0c62600f73a3e7b1492e4ddecbb5f132a7f5789dabf48ce6bf0cdbe29130ab SHA512: ccfa940b5da7f43b2da07dad6db79a3eb0f386c5adefd79eca7779b96fc090f85704294b0655dab4458b04646fe1ed5d04fffed1a933285614844e974f90ae60 Homepage: https://cran.r-project.org/package=isokernel Description: CRAN Package 'isokernel' (Isolation Kernel) Implementation of Isolation kernel (Qin et al. (2019) ). Package: r-cran-isomemo Architecture: all Version: 23.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-curl, r-cran-jsonlite, r-cran-modules Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-isomemo_23.10.1-1.ca2004.1_all.deb Size: 42176 MD5sum: c613fc60c14d9e2509c0ce560599c47a SHA1: 9944dd7c395edde7061a3124df5ee9fad9f63639 SHA256: dec2dbfaecb54f8cd8b496df33b7f8d5f458eb36faff4c416a2a29213a17522d SHA512: 63a01412535c32fa11ffd7f39bb45abe307800156590130feb388b0a8dc9549e0350510d452bd9db4d3f5f4ab7e50ec628f23842c79c4d53c57c25ffc9085576 Homepage: https://cran.r-project.org/package=IsoMemo Description: CRAN Package 'IsoMemo' (Retrieve Data using the 'IsoMemo' API) API wrapper that contains functions to retrieve data from the 'IsoMemo' partnership databases. Web services for API: . Package: r-cran-isoorbi Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6194 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rlang, r-cran-lifecycle, r-cran-tidyr, r-cran-dplyr, r-cran-ggplot2, r-cran-scales, r-cran-readr, r-cran-tidyselect, r-cran-openxlsx, r-cran-purrr Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-forcats Filename: pool/dists/focal/main/r-cran-isoorbi_1.3.1-1.ca2004.1_all.deb Size: 2549964 MD5sum: 462a86cb7df0f0830422915c6918b10c SHA1: 157aea19c0e8034565b50857c6abbbb6db94b7f9 SHA256: a6effabd09b15118c7a8ca2e5888ba903450f29c6f5a8ee1d0a0b13107e8b4f1 SHA512: f6029b70b52e6297ffca416f8c5f3a1995abe52e7b41d95fe5dea87d6c9645ea88601d103757e6d675a0ebfdc56bd92c57616d4426af076e8a4ffa9beffabee7 Homepage: https://cran.r-project.org/package=isoorbi Description: CRAN Package 'isoorbi' (Process Orbitrap Isotopocule Data) Read and process isotopocule data from an Orbitrap Isotope Solutions mass spectrometer. Citation: Kantnerova et al. (Nature Protocols, 2024). Package: r-cran-isopam Architecture: all Version: 3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-vegan, r-cran-cluster, r-cran-fastkmedoids, r-cran-future, r-cran-future.apply, r-cran-ps, r-cran-proxy, r-cran-ggplot2, r-cran-tibble Filename: pool/dists/focal/main/r-cran-isopam_3.2-1.ca2004.1_all.deb Size: 127504 MD5sum: fe36db747e0d26b99442f5f86405d599 SHA1: d650b73d7ab1a5ed19270310fda3586c3383e701 SHA256: 168f6d150cd82e632c6b3c92cb365327b0a009d8f535c0f327e58bd2015046ea SHA512: 7332ae5b04f2b2a8cd09780db30db772dc7662417950f2c12daabd52e44c64b544652c04f48c3641d52e45cc428332d13a380fadae7baeab85685f2834bb2cd7 Homepage: https://cran.r-project.org/package=isopam Description: CRAN Package 'isopam' (Clustering of Sites with Species Data) Clustering algorithm developed for use with plot inventories of species. It groups plots by subsets of diagnostic species rather than overall species composition. There is an unsupervised and a supervised mode, the latter accepting suggestions for species with greater weight and cluster medoids. Package: r-cran-isopat Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-isopat_1.0-1.ca2004.1_all.deb Size: 31476 MD5sum: ad9bc335d9ecf5348590d17fa5ec5465 SHA1: f172e30ab1b27910088169e0a3da43cacf6ad204 SHA256: d4ef7642201b072367ff9fe626cdd07feff3b18f582b89c8911375d8098d1a34 SHA512: dbc134054f04a13f3bfe0e11f4bb676066370743dd4d3c171c55a00752e16d0bfd4793f79989f47c55684d18a3cdd40e77b2a3fb12d4f2424b027fcd3300fff1 Homepage: https://cran.r-project.org/package=isopat Description: CRAN Package 'isopat' (Calculation of isotopic pattern for a given molecular formula) The function calculates the isotopic pattern (fine structures) for a given chemical formula. Package: r-cran-isopleuros Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1416 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-interp, r-cran-rsvg, r-cran-svglite, r-cran-tinysnapshot, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-isopleuros_1.4.0-1.ca2004.1_all.deb Size: 517608 MD5sum: 9f8f9689e095ad93061c3d17afd55d9f SHA1: cf4cfd30f2411893ba97d66504120fccb1be18eb SHA256: e4aab37ee280537f39515db5795d2739e2af499dbe683e2e25488f70d6f87d4d SHA512: abcc5a651d4e02a8fdeb605be895446b6c686d42f3eeaca9b82c5ad390d03c051334e16be23901cb93ccb23984aaffd236db4eb562b3e8e2ee9e357f8cdcaf87 Homepage: https://cran.r-project.org/package=isopleuros Description: CRAN Package 'isopleuros' (Ternary Plots) Ternary plots made simple. This package allows to create ternary plots using 'graphics'. It provides functions to display the data in the ternary space, to add or tune graphical elements and to display statistical summaries. It also includes common ternary diagrams which are useful for the archaeologist (e.g. soil texture charts, ceramic phase diagram). Package: r-cran-isoplotr Architecture: all Version: 6.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1542 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-isoplotr_6.6-1.ca2004.1_all.deb Size: 1410048 MD5sum: 94db36e6ea88562aeaf68373fd1eb0ae SHA1: 1f2507389ab855f801fc9b96e9d8eaf7d1d34186 SHA256: 57b689428485ca6ea645ae93c396447b1a41e6c9d02034541ec30918afb759b7 SHA512: 2dcd5610cf71a1100b839debaaf9db750ac1460692cd3b485e1ddd42af793eba1231ac6f6b52fc0413e47d776d287b4aa4aa89cb8a833ff1dd95680c1f2397a6 Homepage: https://cran.r-project.org/package=IsoplotR Description: CRAN Package 'IsoplotR' (Statistical Toolbox for Radiometric Geochronology) Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington', 'Ludwig' and Omnivariant Generalised Least-Squares ('OGLS') approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots. Package: r-cran-isoplotrgui Architecture: all Version: 6.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3632 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-isoplotr, r-cran-shinylight Filename: pool/dists/focal/main/r-cran-isoplotrgui_6.6-1.ca2004.1_all.deb Size: 1440640 MD5sum: 9614e5bbef6e702c089b8c456630bc9a SHA1: d16b7231f0885ecdca81a2bd4e3dee58809cc264 SHA256: 5ca9f2f99706c162bdc2b4d8921e6f1885a311c0173aaf3a282ab97ce5fba16f SHA512: 4d97b2c77381527456fb27a8556aa89d4029f4bc73f83b8f80330fa7eac30086d0a40140f9d4cb42ea739f6790d975f99cfa4144056a8ff18efc01dc6ab47287 Homepage: https://cran.r-project.org/package=IsoplotRgui Description: CRAN Package 'IsoplotRgui' (Web Interface to 'IsoplotR') Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox. 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Package: r-cran-itol.toolkit Architecture: all Version: 1.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2664 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-stringr, r-cran-seqinr, r-cran-tidyr, r-cran-ape, r-cran-data.table, r-cran-purrr, r-cran-wesanderson, r-cran-miniui, r-cran-shiny, r-cran-rstudioapi, r-cran-colourpicker, r-cran-ggsci, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-itol.toolkit_1.1.7-1.ca2004.1_all.deb Size: 748012 MD5sum: d2da9d3f575d274c107dcae1190dc489 SHA1: 5f232a4c1795dd0b4004abae5ce522508a20fa78 SHA256: 200253f477c61d37928fb4569a5a1bd24cdb3205a8598ec26cd8385e79f7fb3f SHA512: 3e7c0daedb9b79c177b5dcf00862500baddf13edebc256ac654067fcf0600dc3c411894e0afb4e974f7eb0ae6a0f52bf06cb684b73783a84acf7d3ec0fe0bb01 Homepage: https://cran.r-project.org/package=itol.toolkit Description: CRAN Package 'itol.toolkit' (Helper Functions for 'Interactive Tree Of Life') The 'Interactive Tree Of Life' online server can edit and annotate trees interactively. The 'itol.toolkit' package can support all types of annotation templates. Package: r-cran-itop Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-corpcor Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-nmf, r-cran-pcalg, r-bioc-rgraphviz Filename: pool/dists/focal/main/r-cran-itop_1.0.2-1.ca2004.1_all.deb Size: 88568 MD5sum: 7bd33ae280df1fa9f166874ed6225bef SHA1: 9987f00173a9ab8111907236dc6fa0b6a9114f79 SHA256: 15bdb0d87b6d7bd933054fc1d7e5abdf115e826fdfe97ca8d9e5b6237ee03dc4 SHA512: d7165c565eb38f808be5393cd07cf1ff902e1890b0de77ddab75a4704984eeaab72afc3e6501f7246c65c263ad676766f34d5c70a848efddbee72f1d560cff55 Homepage: https://cran.r-project.org/package=iTOP Description: CRAN Package 'iTOP' (Inferring the Topology of Omics Data) Infers a topology of relationships between different datasets, such as multi-omics and phenotypic data recorded on the same samples. We based this methodology on the RV coefficient (Robert & Escoufier, 1976, ), a measure of matrix correlation, which we have extended for partial matrix correlations and binary data (Aben et al., 2018, ). Package: r-cran-itos Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 310 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-rcbalance, r-cran-biasedurn, r-cran-xtable Suggests: r-cran-weightedrank Filename: pool/dists/focal/main/r-cran-itos_1.0.3-1.ca2004.1_all.deb Size: 276252 MD5sum: 9737851ed6638ac0743f39516387257f SHA1: 2eac679acd4a00b829b5c816d20198841a519d50 SHA256: 4661cb254b0056b1dd03f7598a23ead3fa3e90ce66b26d1c376c4ad8748d733d SHA512: 2baf577b28c0ebbe14a50f9ba0f707b0d8a67e99f4a2044586cd86d5bb5077018eb75349d57fa28db6f2a9b6522b39909cb0df98a02df63d2637e747118e7fd3 Homepage: https://cran.r-project.org/package=iTOS Description: CRAN Package 'iTOS' (Methods and Examples from Introduction to the Theory ofObservational Studies) Supplements for a book, "iTOS" = "Introduction to the Theory of Observational Studies." Data sets are 'aHDL' from Rosenbaum (2023a) and 'bingeM' from Rosenbaum (2023b) . The function makematch() uses two-criteria matching from Zhang et al. (2023) to create the matched data 'bingeM' from 'binge'. The makematch() function also implements optimal matching (Rosenbaum (1989) ) and matching with fine or near-fine balance (Rosenbaum et al. (2007) and Yang et al (2012) ). The book makes use of two other R packages, 'weightedRank' and 'tightenBlock'. Package: r-cran-itraxr Architecture: all Version: 1.12.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3239 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-compositions, r-cran-readr, r-cran-tiff, r-cran-janitor, r-cran-ggcorrplot, r-cran-rlang, r-cran-tidyr, r-cran-broom, r-cran-tibble, r-cran-stringr, r-cran-munsellinterpol Suggests: r-cran-magrittr Filename: pool/dists/focal/main/r-cran-itraxr_1.12.2-1.ca2004.1_all.deb Size: 2256092 MD5sum: 50bb347ec069edcef1f08fe5338789b5 SHA1: f50efef5d06732db0131ed0ae3c0d225093a952d SHA256: fd8b61a5fb961a3b9059c6bf4afd2322e9a99feb1335f57fc3fbf6fb9541900b SHA512: 2c15e197702a8f0434d7594af9d7f098e246f6c5c0d371d4694ca39dec5253de015e959d03765c1ba85e9fcb63b9597f2c5df7e18c9a800825724e34c7afa90b Homepage: https://cran.r-project.org/package=itraxR Description: CRAN Package 'itraxR' (Itrax Data Analysis Tools) Parse, trim, join, visualise and analyse data from Itrax sediment core multi-parameter scanners manufactured by Cox Analytical Systems, Sweden. Functions are provided for parsing XRF-peak area files, line-scan optical images, and radiographic images, alongside accompanying metadata. A variety of data wrangling tasks like trimming, joining and reducing XRF-peak area data are simplified. Multivariate methods are implemented with appropriate data transformation. Package: r-cran-itrimhoch Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 147 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-itrimhoch_1.0.0-1.ca2004.1_all.deb Size: 107508 MD5sum: 42cf57adbb41896df294b9ea54e9d12e SHA1: 11bce1b3a44c246620e0138eeb32d2f814f56b47 SHA256: cd47b7a23249ae25f0d5b45a0d2385052722ec7569180b6dccd23c1803dfc3a8 SHA512: c64fac1fa87a2cbd2ced3337b8543420234eef888c99703acf5a42cef2ecb1ba1d86d887f87d27e9dc3d739bedcc548b80e8bceaab817286061535c70e1672be Homepage: https://cran.r-project.org/package=itrimhoch Description: CRAN Package 'itrimhoch' (Improved Trimmed Weighted Hochberg Procedures and Sample SizeOptimization) The improved trimmed weighted Hochberg procedure provides increased statistical power and relaxes the dependence assumptions for familywise error rate control compared to the original weighted Hochberg procedure. This package computes the boundaries required for implementing the proposed methodology and includes sample size optimization methods. See Gou, J., Chang, Y., Li, T., and Zhang, F.(2025). Improved trimmed weighted Hochberg procedures with two endpoints and sample size optimization. Technical Report. Package: r-cran-its.analysis Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-car, r-cran-forecast, r-cran-boot, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-its.analysis_1.6.0-1.ca2004.1_all.deb Size: 36436 MD5sum: 83436cc6e2bab5b04f2789705fc61d27 SHA1: 225e88239acf4b5907600d0ab467a74f971af633 SHA256: dd429e5fd543ea89e657f52f37d43c01c44700a692bf94b6ce0edde952ee479f SHA512: 7f72614e283acf6868c0c5231c125a44a669309b132bb2e6dfebc824d0364e347c19ec94d59cdcaeed901bdb8ac0f4b81bb39f07fb5a6b6f9369f733011407cd Homepage: https://cran.r-project.org/package=its.analysis Description: CRAN Package 'its.analysis' (Running Interrupted Time Series Analysis) Two functions for running and then post-estimating an Interrupted Time Series Analysis model. This is a solution for running time series analyses on temporally short data. See English (2019) 'The its.analysis R package - Modelling short time series data' for an overview of the method. Package: r-cran-itsadug Architecture: all Version: 2.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4918 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mgcv, r-cran-plotfunctions Suggests: r-cran-knitr, r-cran-xtable, r-cran-sp, r-cran-data.table Filename: pool/dists/focal/main/r-cran-itsadug_2.4.1-1.ca2004.1_all.deb Size: 3311536 MD5sum: cbc0e8ab394287255a198b1925cf906f SHA1: b73c28af4aab9e80da9a9e266a88d989372614d3 SHA256: 2c64c25fcc412cfe47f337fdc1fe6eaf1ebba99f6081cc1733a20427d77da434 SHA512: 423b0b3c5e06b0e0536eec73c604eba8d99493074e438415f31071c8a11535a7c90528361e1575f15278c1dc35f4d681d3cd220b13f04f28cbfe58971849c3b0 Homepage: https://cran.r-project.org/package=itsadug Description: CRAN Package 'itsadug' (Interpreting Time Series and Autocorrelated Data Using GAMMs) GAMM (Generalized Additive Mixed Modeling; Lin & Zhang, 1999) as implemented in the R package 'mgcv' (Wood, S.N., 2006; 2011) is a nonlinear regression analysis which is particularly useful for time course data such as EEG, pupil dilation, gaze data (eye tracking), and articulography recordings, but also for behavioral data such as reaction times and response data. 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Package: r-cran-itscalledsoccer Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 586 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httpcache, r-cran-glue, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-r6, r-cran-tidyr, r-cran-stringi, r-cran-rlang, r-cran-data.table, r-cran-cli Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-itscalledsoccer_0.3.2-1.ca2004.1_all.deb Size: 551868 MD5sum: 8e0b1b5af3a83eae86964f226775e5a9 SHA1: e64172287326bee302e97fa9664c7016f741a44f SHA256: b2e9adf5672f29695e85491b2617e2626af9307478b3a731453031f679fafcca SHA512: 0f3200617d2d64ef023a3cd2ef4f0440971522b869cad31eb78fcdbdc975a778cfb6bb68e56fbf9abd038ffeda134ada56ae607ccd70050774fad23bf266b308 Homepage: https://cran.r-project.org/package=itscalledsoccer Description: CRAN Package 'itscalledsoccer' (American Soccer Analysis API Client) Provides a wrapper around the same API that powers the American Soccer Analysis app. Package: r-cran-itsdm Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4382 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-checkmate, r-cran-dplyr, r-cran-fastshap, r-cran-ggplot2, r-cran-isotree, r-cran-mgcv, r-cran-ncdf4, r-cran-outliertree, r-cran-patchwork, r-cran-raster, r-cran-rlang, r-cran-rocit, r-cran-sf, r-cran-stars, r-cran-stringr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-itsdm_0.2.1-1.ca2004.1_all.deb Size: 1405660 MD5sum: 2a28fef3e11f13dec3e6c5d5a84010da SHA1: 150cb1228e840c42ff600825a25713fdded011a4 SHA256: 2ce61b39a84b712cc5e90c668c3155662b04af35bbcfbd4882b595583582192c SHA512: 69b1355d1149b8722c902df81719a6e8c0ff35e90ee038f2e942c7c741d823db773807f0b1056d2aa4f356f1b2070daafcc11c5676e7ea3aa580244e5f9acdde Homepage: https://cran.r-project.org/package=itsdm Description: CRAN Package 'itsdm' (Isolation Forest-Based Presence-Only Species DistributionModeling) Collection of R functions to do purely presence-only species distribution modeling with isolation forest (iForest) and its variations such as Extended isolation forest and SCiForest. See the details of these methods in references: Liu, F.T., Ting, K.M. and Zhou, Z.H. (2008) , Hariri, S., Kind, M.C. and Brunner, R.J. (2019) , Liu, F.T., Ting, K.M. and Zhou, Z.H. (2010) , Guha, S., Mishra, N., Roy, G. and Schrijvers, O. (2016) , Cortes, D. (2021) . Additionally, Shapley values are used to explain model inputs and outputs. See details in references: Shapley, L.S. (1953) , Lundberg, S.M. and Lee, S.I. (2017) , Molnar, C. (2020) , Štrumbelj, E. and Kononenko, I. (2014) . itsdm also provides functions to diagnose variable response, analyze variable importance, draw spatial dependence of variables and examine variable contribution. As utilities, the package includes a few functions to download bioclimatic variables including 'WorldClim' version 2.0 (see Fick, S.E. and Hijmans, R.J. (2017) ) and 'CMCC-BioClimInd' (see Noce, S., Caporaso, L. and Santini, M. (2020) . Package: r-cran-itsmr Architecture: all Version: 1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-itsmr_1.11-1.ca2004.1_all.deb Size: 174244 MD5sum: f53ba219ef6dd0ec8342599df7733b89 SHA1: b2df5610df3266ae6855026df3847327821632d1 SHA256: 5c9fb29a4af250953b0add112372ff9e11171b6cda68eed1159081746f1aa850 SHA512: 96ad25d6cd0080208822b4852a378af180da9e9d0636a453bc4d4adeb4e50e4c1861a0cd8cb0b6157b0e7d77efcc821091df8bc5a330466adddc4e3494b5544a Homepage: https://cran.r-project.org/package=itsmr Description: CRAN Package 'itsmr' (Time Series Analysis Using the Innovations Algorithm) Provides functions for modeling and forecasting time series data. Forecasting is based on the innovations algorithm. A description of the innovations algorithm can be found in the textbook "Introduction to Time Series and Forecasting" by Peter J. Brockwell and Richard A. Davis. Package: r-cran-iucnr Architecture: all Version: 0.0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-stringr Suggests: r-cran-rlang, r-cran-testthat Filename: pool/dists/focal/main/r-cran-iucnr_0.0.0.1-1.ca2004.1_all.deb Size: 21388 MD5sum: 4851f4320ffa504b4d3e2cf41b86d6f1 SHA1: b429b8bc38b1207676a1ac8cbd7bb8d547432cfd SHA256: da3762519babd624b0bf0c944ba5e3b91f3024b340cb93c41379d2b94ff6fa11 SHA512: fee724cd9f679f57866fb6f106fd886876c5bba4cd17501504d1a02d6e9cddf498e59c4dcc68bddc59628c4d5fa08e4aaaacc32cb40be6b267ea47b737a3da09 Homepage: https://cran.r-project.org/package=iucnr Description: CRAN Package 'iucnr' (IUCN Red List Data) Facilitates access to the International Union for Conservation of Nature (IUCN) Red List of Threatened Species, a comprehensive global inventory of species at risk of extinction. This package streamlines the process of determining conservation status by matching species names with Red List data, providing tools to easily query and retrieve conservation statuses. Designed to support biodiversity research and conservation planning, this package relies on data from the 'iucnrdata' package, available on GitHub . To install the data package, use pak::pak('PaulESantos/iucnrdata'). Package: r-cran-iva Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 211 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ucminf, r-cran-formula Filename: pool/dists/focal/main/r-cran-iva_0.1.0-1.ca2004.1_all.deb Size: 179412 MD5sum: 79a7db72b1a3fc9b891c02029bd7ba59 SHA1: 11694c83011bc8d8564d74a538e1220eb964024d SHA256: abb3fdf74cd07c7c0e17647d31879ccda4a99b4e828777468ce37522ba7e4160 SHA512: 35f899227aa18e789112d76a29a1030bf09510203b6deb0c5cb5524db79126adc529dab2c9eaf4235c3d90919a74511fd78380ef6387ca748ee8a0f18ceaa150 Homepage: https://cran.r-project.org/package=iva Description: CRAN Package 'iva' (Instrumental Variable Analysis in Case-Control AssociationStudies) Mendelian randomization (MR) analysis is a special case of instrumental variable analysis with genetic instruments. It is used to estimate the unconfounded causal effect of an exposure. 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Package: r-cran-ivdesc Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-knitr, r-cran-purrr, r-cran-rsample Suggests: r-cran-icsw, r-cran-haven Filename: pool/dists/focal/main/r-cran-ivdesc_1.1.1-1.ca2004.1_all.deb Size: 29620 MD5sum: d2996596f3ec8ffb0816cf0c063c511d SHA1: 84cc23755fa7b836eb6744202fb58d27bbafe2d1 SHA256: 9b869f4355174ac4626aa511ec2ff11aa98207c4faddfc727b664e1ba52f6bcd SHA512: 48e31da179c7d2719c562ad5aa4d56592fb1213ac532651c04e9df8a558c0731382d4e6312ee3bc6114ee33cf96f3930b3092476a4f2398f657055f2b1655f28 Homepage: https://cran.r-project.org/package=ivdesc Description: CRAN Package 'ivdesc' (Profiling Compliers and Non-Compliers for Instrumental VariableAnalysis) Estimating the mean and variance of a covariate for the complier, never-taker and always-taker subpopulation in the context of instrumental variable estimation. This package implements the method described in Marbach and Hangartner (2020) and Hangartner, Marbach, Henckel, Maathuis, Kelz and Keele (2021) . 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The three estimands include (1) testing a cluster-level constant proportional treatment effect (Fisher's sharp null hypothesis), (2) pooled effect ratio, and (3) average cluster effect ratio. To test the third estimand, user needs to install 'Gurobi' (>= 9.0.1) optimizer via its R API. Please refer to . 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(2023) , including bootstrapped confidence intervals, effective F-statistic, Anderson-Rubin test, valid-t ratio test, and local-to-zero tests. Package: r-cran-ivdml Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv, r-cran-ranger, r-cran-xgboost Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ivdml_1.0.0-1.ca2004.1_all.deb Size: 98220 MD5sum: 35bf8382bb4be2d1c53bda8b910267f9 SHA1: 0455efbb3166be10d1ffdd4b61292e25cf1fec66 SHA256: 90fb5f479c1e2d75eb5a9f8bc32de6b09415c90b8e1a1ab264a5822a89a43b84 SHA512: 28adc18d9e65f218bba162dac04c48b03049b0f9eb9b6f57ddcccf9bbd4b2155568c73ec6d1511b30562645e829c56704f68e69bb189df80b7e89a51fe4a0fc4 Homepage: https://cran.r-project.org/package=IVDML Description: CRAN Package 'IVDML' (Double Machine Learning with Instrumental Variables andHeterogeneity) Instrumental variable (IV) estimators for homogeneous and heterogeneous treatment effects with efficient machine learning instruments. The estimators are based on double/debiased machine learning allowing for nonlinear and potentially high-dimensional control variables. Details can be found in Scheidegger, Guo and Bühlmann (2025) "Inference for heterogeneous treatment effects with efficient instruments and machine learning" . Package: r-cran-ivfixed Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula Filename: pool/dists/focal/main/r-cran-ivfixed_1.0-1.ca2004.1_all.deb Size: 20692 MD5sum: 7aeec7ba30cc1b1477fe07d8c37f6498 SHA1: 69ea54e4c7fff4554d9c836c49f03ca6ddf81500 SHA256: ed91a48e92518b03baee93ee061b3814ce300b0229148628f9a8ec4187bb79bb SHA512: 4e730ee906b5190d25528f1213603553f4e6e32fe23680f47246505521b5947c4b41e42cfcbb4f181c3197107659cdadcdacc57ede62276d24371d56707447d0 Homepage: https://cran.r-project.org/package=ivfixed Description: CRAN Package 'ivfixed' (Instrumental fixed effect panel data model) Fit an Instrumental least square dummy variable model Package: r-cran-ivgets Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gets, r-cran-ivreg, r-cran-stringr Suggests: r-cran-covr, r-cran-formula, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ivgets_0.1.2-1.ca2004.1_all.deb Size: 138028 MD5sum: d59262aec9d3bcdfa7d7efea88d7c6b6 SHA1: 7a629975d3f10c44f06f9dbc3f87add5961b2f38 SHA256: 732f7d9f73da5f0fa2a6afb910cc19952c22d646d1bfb6af9a7e78a077400e86 SHA512: 1090e7d0d247e3aefd6d2007f595794f2abcf81f28e19665fbd17070807e852f725ad4284a63c665781418e99de9cc9d560960ced05c71323e9a6b15f5aaef8f Homepage: https://cran.r-project.org/package=ivgets Description: CRAN Package 'ivgets' (General to Specific Modeling and Indicator Saturation in 2SLSModels) Provides facilities of general to specific model selection for exogenous regressors in 2SLS models. Furthermore, indicator saturation methods can be used to detect outliers and structural breaks in the sample. Package: r-cran-ivitr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnet, r-cran-randomforest, r-cran-dplyr, r-cran-rlang Filename: pool/dists/focal/main/r-cran-ivitr_0.1.0-1.ca2004.1_all.deb Size: 60084 MD5sum: 88a69411560dba851a2466d75427b29b SHA1: 29867cf8e90075b87c2f72be15ae29379df2f215 SHA256: 914aca6d4100975e92d15f7b7dc06b27a7da1a023170deec15f329ef17bb5a37 SHA512: 2cf4fd7cc0ade8260a23f9efaf94f7595185d6250e4f5b2a53b8720fb2ef0f6b1f44febeb0e2766b1de57232abcc4ffc42a3f86e7be8f5539cdfcc2015b8099a Homepage: https://cran.r-project.org/package=ivitr Description: CRAN Package 'ivitr' (Estimate IV-Optimal Individualized Treatment Rules) A method that estimates an IV-optimal individualized treatment rule. An individualized treatment rule is said to be IV-optimal if it minimizes the maximum risk with respect to the putative IV and the set of IV identification assumptions. Please refer to for more details on the methodology and some theory underpinning the method. Function IV-PILE() uses functions in the package 'locClass'. Package 'locClass' can be accessed and installed from the 'R-Forge' repository via the following link: . Alternatively, one can install the package by entering the following in R: 'install.packages("locClass", repos="")'. Package: r-cran-ivmodel Architecture: all Version: 1.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 460 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix, r-cran-formula, r-cran-reshape2, r-cran-ggplot2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ivmodel_1.9.1-1.ca2004.1_all.deb Size: 415956 MD5sum: 1ef4feb9aa9b39ccc0541659cd8b4ce2 SHA1: 4ada470a8b59d65fc71135ff4ac546f9d0b79833 SHA256: ed7af75cd6621ffb17b72c5f60539669441d34d4ffe31aec492a826fd771002d SHA512: e2cdb72a6ffe5857d0f6f7ad0cc8dfccdc831011e827ea6c675de609957a8e0e50d87585e3be2181e70f7be0de0a66f19ad9721d8270a5309f2111ed8ea627d7 Homepage: https://cran.r-project.org/package=ivmodel Description: CRAN Package 'ivmodel' (Statistical Inference and Sensitivity Analysis for InstrumentalVariables Model) Carries out instrumental variable estimation of causal effects, including power analysis, sensitivity analysis, and diagnostics. See Kang, Jiang, Zhao, and Small (2020) for details. Package: r-cran-ivmte Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula Suggests: r-cran-slam, r-cran-lpsolveapi, r-cran-rmosek, r-cran-testthat, r-cran-data.table, r-cran-splines2, r-cran-future.apply, r-cran-future, r-cran-matrix, r-cran-knitr, r-cran-rmarkdown, r-cran-pander, r-cran-aer, r-cran-lsei, r-cran-ggplot2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-ivmte_1.4.0-1.ca2004.1_all.deb Size: 1469228 MD5sum: 8a1d56769f2282c4024c202ac75ec5db SHA1: 2c842cf60da95bb336db873de204bd44b97948b2 SHA256: c90af44f3c05f875601936e66bdf7b018f8144ca7811bb9cf4b0f7c34c638fba SHA512: d99b537852db4ae38f5c50c3ccac693a3956a6b830e55de21fbebbb70ebadc757d15764eae4e02daad7c175414eb1bd5251b49cc2b5874640bd70f12a493395f Homepage: https://cran.r-project.org/package=ivmte Description: CRAN Package 'ivmte' (Instrumental Variables: Extrapolation by Marginal TreatmentEffects) The marginal treatment effect was introduced by Heckman and Vytlacil (2005) to provide a choice-theoretic interpretation to instrumental variables models that maintain the monotonicity condition of Imbens and Angrist (1994) . This interpretation can be used to extrapolate from the compliers to estimate treatment effects for other subpopulations. This package provides a flexible set of methods for conducting this extrapolation. It allows for parametric or nonparametric sieve estimation, and allows the user to maintain shape restrictions such as monotonicity. The package operates in the general framework developed by Mogstad, Santos and Torgovitsky (2018) , and accommodates either point identification or partial identification (bounds). In the partially identified case, bounds are computed using either linear programming or quadratically constrained quadratic programming. Support for four solvers is provided. Gurobi and the Gurobi R API can be obtained from . CPLEX can be obtained from . CPLEX R APIs 'Rcplex' and 'cplexAPI' are available from CRAN. MOSEK and the MOSEK R API can be obtained from . The lp_solve library is freely available from , and is included when installing its API 'lpSolveAPI', which is available from CRAN. Package: r-cran-ivo.table Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 233 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-flextable, r-cran-checkmate, r-cran-officer, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-palmerpenguins Filename: pool/dists/focal/main/r-cran-ivo.table_0.6-1.ca2004.1_all.deb Size: 72976 MD5sum: 22d4b98ed1969e58481b35f3be8ed30b SHA1: 1005215b79af44eef35448d67af1e6e26a46d1e9 SHA256: 8ba47c34ac1da32d7dffa035aa82568895e06febe663fe1ed55c5f85c01695c3 SHA512: cb51ec06dbc9167f3b4756bed19e2e001ab51f3e2de3f937a57c210d545666effcc8fbff358d4453b3a8b0efa822a5d5519e34ca1a0fb2331684a7722c6b02a4 Homepage: https://cran.r-project.org/package=ivo.table Description: CRAN Package 'ivo.table' (Nicely Formatted Contingency Tables and Frequency Tables) Nicely formatted frequency tables and contingency tables (1-way, 2-way, 3-way and 4-way tables), that can easily be exported to HTML or 'Office' documents. Designed to work with pipes. Package: r-cran-ivpack Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-aer, r-cran-sandwich, r-cran-lmtest Filename: pool/dists/focal/main/r-cran-ivpack_1.2-1.ca2004.1_all.deb Size: 120336 MD5sum: e3cb5316c68c98a71763b5142d4bfdb6 SHA1: adf0bccdd1af472a81e135db9bdb09a355a0a20f SHA256: 66ed29c7356745b5482ec5f497909ae071022099a8f0c694f320bef7df5d030f SHA512: 54c208bead184088b57091666d0467cda5b4502ca007420d5fa469db1ab879b583629605910f86de3e16cb1b9400a1b65cad4eff88490b2f835164ed919884e8 Homepage: https://cran.r-project.org/package=ivpack Description: CRAN Package 'ivpack' (Instrumental Variable Estimation) This package contains functions for carrying out instrumental variable estimation of causal effects and power analyses for instrumental variable studies. Package: r-cran-ivpanel Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula Filename: pool/dists/focal/main/r-cran-ivpanel_1.0-1.ca2004.1_all.deb Size: 29332 MD5sum: 34c0b64330669e9a98e75a78c0735248 SHA1: 98091820662d0dfe79f8396aaa92b0d4f34977e3 SHA256: 709bc1a757c8c329f1ef09efb8fe7f7699737dcf6bac9b082ded23e83cd5fb4b SHA512: 8c6dd5ed5e96d5d5090d5b468b4c066a48609cd57ef3fe01a35a5a867b0269d9ca43b6025fa8fbb30d9eff1ce6eb2ccf325082cfaf691c3a20c3ac637f85c9c7 Homepage: https://cran.r-project.org/package=ivpanel Description: CRAN Package 'ivpanel' (Instrumental Panel Data Models) Fit the instrumental panel data models: the fixed effects, random effects and between models. Package: r-cran-ivpp Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bootnet, r-cran-clustergeneration, r-cran-dplyr, r-cran-mvtnorm, r-cran-psychonetrics, r-cran-graphicalvar, r-cran-lifecycle, r-cran-future.apply, r-cran-future Filename: pool/dists/focal/main/r-cran-ivpp_1.1.1-1.ca2004.1_all.deb Size: 72588 MD5sum: c0a6d1cb4182740a1a428ae120589400 SHA1: c39e8be352fefdae82efcfbc2b1d55e2c2e97d69 SHA256: f1ad0bed131f0ba42a261985fa54cbb898e502bb4ddcaaadc68889bde006eeaf SHA512: 8aac40669854e2a71fced4c33353b7849e622067a19003bc0b1c9582098e9e32f0c6de20f3e1aa445c31b522a8580c4148dde041b4b04cc635662c5e94fc624c Homepage: https://cran.r-project.org/package=IVPP Description: CRAN Package 'IVPP' (Invariance Partial Pruning Test) An implementation of the Invariance Partial Pruning (IVPP) approach described in Du, X., Johnson, S. U., Epskamp, S. (2025) The Invariance Partial Pruning Approach to The Network Comparison in Longitudinal Data. IVPP is a two-step method that first test for global network structural difference with invariance test and then inspect specific edge difference with partial pruning. Package: r-cran-ivprobit Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula Filename: pool/dists/focal/main/r-cran-ivprobit_1.1-1.ca2004.1_all.deb Size: 72872 MD5sum: 0821bb399ad57a3b3b58823649951cd6 SHA1: 2318dadac04f3bcbd23d7a52641a98aeb443231b SHA256: 26de47271ff5b16dfccfe064a2cf533569e22ac5607579744a2b85b9c401ba93 SHA512: 21d75425bb75225a45bb1018f4c9889d98521c460446ef59fa2061b51b10945ae094e2df6e04fc5e2c585de477c74aa519e32bc6943ef23ee80737874217f430 Homepage: https://cran.r-project.org/package=ivprobit Description: CRAN Package 'ivprobit' (Instrumental Variables Probit Model) Compute the instrumental variables probit model using the Amemiya's Generalized Least Squares estimators (Amemiya, Takeshi, (1978) ). 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The main ivreg() model-fitting function is designed to provide a workflow as similar as possible to standard lm() regression. A wide range of methods is provided for fitted ivreg model objects, including extensive functionality for computing and graphing regression diagnostics in addition to other standard model tools. 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At most twenty leaves are shown; For high frequency, each leaflet may represent more than one observation with multiplicity declared in the subtitle. 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Package: r-cran-izid Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-extradistr, r-cran-rootsolve, r-cran-foreach, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-izid_0.0.1-1.ca2004.1_all.deb Size: 163392 MD5sum: 7b4e25595d260888fc98fe3a403afe82 SHA1: 48ec4ce6690fc7d3de072b8d3d873de243ffd94d SHA256: 8847fb33684f23949d4467939fff345454646888e0293fd0551d214a1363da78 SHA512: bf0d4ca99d09357bb03eaf1341eb6c2d7a6c04163f9523c7426ec473e2f441fa038523bd75ec8289dc9266cb0229aee535511eda90296d53e59f84f96175a073 Homepage: https://cran.r-project.org/package=iZID Description: CRAN Package 'iZID' (Identify Zero-Inflated Distributions) Computes bootstrapped Monte Carlo estimate of p value of Kolmogorov-Smirnov (KS) test and likelihood ratio test for zero-inflated count data, based on the work of Aldirawi et al. (2019) . 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Package: r-cran-jaatha Architecture: all Version: 3.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 369 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-assertthat, r-cran-r6 Suggests: r-cran-boot, r-cran-coala, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-jaatha_3.2.5-1.ca2004.1_all.deb Size: 280172 MD5sum: 88896f5c7eada054da588f7c16e99040 SHA1: af669852ec5796b84faaddbdb6261dbedd12244c SHA256: bab1ad4e20b175301dc5cf7cebb1e848ed75e688c664fada386a7db491d6bdd6 SHA512: 4b32d38336cc55cca23c6ec0bbf4fc56ec1c69b61b7718685e4662fcd5967a9ab1841354d0f150338ced4ac02e74384bf37fb5250cec49c8ca73ec538484b53e Homepage: https://cran.r-project.org/package=jaatha Description: CRAN Package 'jaatha' (Simulation-Based Maximum Likelihood Parameter Estimation) An estimation method that can use computer simulations to approximate maximum-likelihood estimates even when the likelihood function can not be evaluated directly. 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Package: r-cran-jab.adverse.reactions Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-tm, r-cran-stringi, r-cran-bracer, r-cran-mgsub, r-cran-qdapregex, r-cran-stringr, r-cran-data.table, r-cran-xmlconvert, r-cran-jsonlite, r-cran-anytime, r-cran-cffr, r-cran-rbibutils, r-cran-install.load Filename: pool/dists/focal/main/r-cran-jab.adverse.reactions_1.0.3-1.ca2004.1_all.deb Size: 35436 MD5sum: d8847c22b549d66ae24ffdc0f4bda853 SHA1: c756871d59489a0d1930ce7beee66c307fb649f9 SHA256: 04a50e487170139a15316633573757c24d2b7521fd542d21f57ae79fbfe00b1e SHA512: 55a7b7dba02886ff21b7958009274669e2173d8cdb91ee4b4ec7e2dbfb934e80b3d946df1f4704217ad03117d447008b8fb9dda646b3aede03a72ce4fcaba83e Homepage: https://cran.r-project.org/package=jab.adverse.reactions Description: CRAN Package 'jab.adverse.reactions' (Possible Adverse Events/Reactions from theVaccinations/Experimental Gene Therapies) Provides data about the possible adverse events/reactions resulting from being injected with a vaccine/experimental gene therapy. 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Package: r-cran-jackknifekme Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-imputeyn Filename: pool/dists/focal/main/r-cran-jackknifekme_1.2-1.ca2004.1_all.deb Size: 34284 MD5sum: 92c13ccacbbe80752b4d2908d2b16760 SHA1: 762644bfb81e7005229e2ffbe91f1137ffea8ea6 SHA256: 81e7d9187a50b1cfb7513d0d9b8bf00db43675668b065ab487843c8c23f87682 SHA512: a61c5a097408f95079fec2783b1c655ab0cdd3f3f6dc3efd6bdbe940a1580904f5b8b9193a20960fda399dbaec502d9f68b6f60104edeab2f0ae707144b0a1bd Homepage: https://cran.r-project.org/package=jackknifeKME Description: CRAN Package 'jackknifeKME' (Jackknife Estimates of Kaplan-Meier Estimators or Integrals) Computing the original and modified jackknife estimates of Kaplan-Meier estimators. Package: r-cran-jackknifer Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dofuture, r-cran-foreach, r-cran-future, r-cran-future.apply Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-jackknifer_2.0.0-1.ca2004.1_all.deb Size: 34156 MD5sum: ff745378aecd3ef44c5574a04627991b SHA1: 57564049a8586382d6f87249a254ad66cd6bd328 SHA256: f32e62804a52d14f9f0d425a396995cd823cdfd145654b0d4a17dfd637e8b137 SHA512: f5ec8b430bedf2816239c4ba36b11adc023ac94ef5b024af23a69e26d947da88e8610932333ac332c3e01deaf0a98190a740dbe69e4032c0028662399eaf655e Homepage: https://cran.r-project.org/package=jackknifeR Description: CRAN Package 'jackknifeR' (Delete-d Jackknife for Point and Interval Estimation) Implements delete-d jackknife resampling for robust statistical estimation. The package provides both weighted (HC3-adjusted) and unweighted versions of jackknife estimation, with parallel computation support. Suitable for biomedical research and other fields requiring robust variance estimation. 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In this jackstrap method, the package provides two criteria to define outliers: heaviside and k-s test. The technique was developed by Sousa and Stosic (2005) "Technical Efficiency of the Brazilian Municipalities: Correcting Nonparametric Frontier Measurements for Outliers." . 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The jackstraw package provides a resampling strategy and testing scheme to estimate statistical significance of association between the observed data and their latent variables. Depending on the data type and the analysis aim, the latent variables may be estimated by principal component analysis (PCA), factor analysis (FA), K-means clustering, and related unsupervised learning algorithms. The jackstraw methods learn over-fitting characteristics inherent in this circular analysis, where the observed data are used to estimate the latent variables and used again to test against that estimated latent variables. When latent variables are estimated by PCA, the jackstraw enables statistical testing for association between observed variables and latent variables, as estimated by low-dimensional principal components (PCs). This essentially leads to identifying variables that are significantly associated with PCs. Similarly, unsupervised clustering, such as K-means clustering, partition around medoids (PAM), and others, finds coherent groups in high-dimensional data. The jackstraw estimates statistical significance of cluster membership, by testing association between data and cluster centers. Clustering membership can be improved by using the resulting jackstraw p-values and posterior inclusion probabilities (PIPs), with an application to unsupervised evaluation of cell identities in single cell RNA-seq (scRNA-seq). Package: r-cran-jacpop Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-jacpop_0.6-1.ca2004.1_all.deb Size: 14732 MD5sum: 5a0078c44f8202d809b9f79692251fbe SHA1: a8f064c9d354d0b01699444066f528773d5be2c8 SHA256: 1d5f656de36501a695eeb7cc0286b55307421d2eab0a6172239d5ed27f5700db SHA512: 36004302fed1953b66e5f66801912fcc1abd2eb99d56f89635366c5a22e4dd115d49556765ec6dffc47ae6e4b218370138c7759902eb45ff91fe550d0200792d Homepage: https://cran.r-project.org/package=jacpop Description: CRAN Package 'jacpop' (Jaccard Index for Population Structure Identification) Uses the Jaccard similarity index to account for population structure in sequencing studies. This method was specifically designed to detect population stratification based on rare variants, hence it will be especially useful in rare variant analysis. Package: r-cran-jacquard Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 997 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rsolnp Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-jacquard_1.0.2-1.ca2004.1_all.deb Size: 923172 MD5sum: ab74e19bf5ee0979f52d93e0dbcb1afb SHA1: 835811b9bbdc0e61b322177b46cfe4b9e93a55d2 SHA256: 3d18929b0f64eb41e826b58e5cae9984703eb05297ffff271fbd10b17b3583b9 SHA512: 7cdb02a547756e8cc0d19873c0d6e56278fdd84d6a4e359109ae616f17467e1f68e5516d6b9a0391707d16406c1b379469816e2e0beff00375b89793b1b43388 Homepage: https://cran.r-project.org/package=Jacquard Description: CRAN Package 'Jacquard' (Estimation of Jacquard's Genetic Identity Coefficients) Contains procedures to estimate the nine condensed Jacquard genetic identity coefficients (Jacquard, 1974) by constrained least squares (Graffelman et al., 2024) and by the method of moments (Csuros, 2014) . These procedures require previous estimation of the allele frequencies. Functions are supplied that estimate relationship parameters that derive from the Jacquard coefficients, such as individual inbreeding coefficients and kinship coefficients. Package: r-cran-jadelizardoptions Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-magrittr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-jadelizardoptions_1.0.1-1.ca2004.1_all.deb Size: 24400 MD5sum: 483c8957eedfa17ffbb46988df4d66ed SHA1: 99a6800614215b06a501affac0ae6d36fef83a40 SHA256: 753f62a2415c7b863bbd35fbc6abfe02f8b657fb9e43b306a08323fd18f99da8 SHA512: 358fcc4d3d4bc597ef3e87a3b3833dc752233f6d0782d66f0b62baf248036af5953d63f84a4b059daf5c73cf6d3cfe7d10a456a708dc868fca26bcd275a08dc1 Homepage: https://cran.r-project.org/package=jadeLizardOptions Description: CRAN Package 'jadeLizardOptions' (Trading Jade Lizard Option Strategies) Jade Lizard and Reverse Jade Lizard Option Strategies are presented here through their Graphs. The graphic indicators, strategies, calculations, functions and all the discussions are for academic, research, and educational purposes only and should not be construed as investment advice and come with absolutely no Liability. Russell A. Stultz (“The option strategy desk reference: an essential reference for option traders (First edition.)”, 2019, ISBN: 9781949443912). Package: r-cran-jage Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pracma, r-cran-data.table, r-cran-mvtnorm Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-jage_0.1.0-1.ca2004.1_all.deb Size: 63560 MD5sum: bb9053abed4f774948822380cf805c21 SHA1: c6982469b1f2043ea207d016822c23a4afa957c9 SHA256: 3a2aa3cfebb80cc2c2e6efb3df5b1bca76e9b4db4e534e27600be3b8fc81adf7 SHA512: e1e5a60f2e1eb4126e75b3e224a0364f8fe6fa815414222f86eff3f59fdf81d334d277ccb4fa6093319e89ddd15cdce564a09c5df44af0429c9110c280a62fe6 Homepage: https://cran.r-project.org/package=jage Description: CRAN Package 'jage' (Estimation of Developmental Age) Bayesian methods for estimating developmental age from ordinal dental data. For an explanation of the model used, see Konigsberg (2015) . For details on the conditional correlation correction, see Sgheiza (2022) . Dental scoring is based on Moorrees, Fanning, and Hunt (1963) . Package: r-cran-jaggr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formatr, r-cran-glue Filename: pool/dists/focal/main/r-cran-jaggr_0.1.1-1.ca2004.1_all.deb Size: 69760 MD5sum: 9d47f5a5b0ba83084de826c57738e5d0 SHA1: 02eb32a7def6809eed0c66ababd9e6fe36f897d6 SHA256: 6e6420b433c8704e170de90b060de136bd67b6dddf0aa9ce460daf4d41fe3efa SHA512: 5b330ef8325235ba5292d84d2f327a57daa153dad76b516dd1e3803bcd5d32f69bbc43185d5d88dc0810a9a4c20c9b6a6faca056e0031ca5c3e4a3e26faf47c3 Homepage: https://cran.r-project.org/package=jaggR Description: CRAN Package 'jaggR' (Supporting Files and Functions for the Book Bayesian Modellingwith 'JAGS') All the data and functions used to produce the book. We do not expect most people to use the package for any other reason than to get simple access to the 'JAGS' model files, the data, and perhaps run some of the simple examples. The authors of the book are David Lucy (now sadly deceased) and James Curran. It is anticipated that a manuscript will be provided to Taylor and Francis around February 2020, with bibliographic details to follow at that point. Until such time, further information can be obtained by emailing James Curran. Package: r-cran-jagshelper Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4007 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jagsui, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-jagshelper_0.4.1-1.ca2004.1_all.deb Size: 3862888 MD5sum: 111f5d91aaa1b135896e2b9e6133205d SHA1: ac209f31bad68bf8fca433213ea8b241c9945a65 SHA256: 093181c760afcb55239db3782553702f7d69e4fe94da3086e5cb9a069f673ffb SHA512: 8f5dbea2f37888fb73a0481af94a7661e099fe237bc20f25190ecb408d5b9d4c804cd885fc38b2dce7f4379f08151b850bb4731b1323616d1ac9a3d5bc0a2340 Homepage: https://cran.r-project.org/package=jagshelper Description: CRAN Package 'jagshelper' (Extracting and Visualizing Output from 'jagsUI') Tools are provided to streamline Bayesian analyses in 'JAGS' using the 'jagsUI' package. Included are functions for extracting output in simpler format, functions for streamlining assessment of convergence, and functions for producing summary plots of output. Also included is a function that provides a simple template for running 'JAGS' from 'R'. Referenced materials can be found at . Package: r-cran-jagstargets Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2107 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda, r-cran-fst, r-cran-posterior, r-cran-purrr, r-cran-qs2, r-cran-r2jags, r-cran-rjags, r-cran-rlang, r-cran-secretbase, r-cran-targets, r-cran-tarchetypes, r-cran-tibble, r-cran-tidyselect, r-cran-withr Suggests: r-cran-dplyr, r-cran-fs, r-cran-knitr, r-cran-qs, r-cran-r.utils, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-jagstargets_1.2.2-1.ca2004.1_all.deb Size: 371156 MD5sum: 95e99f5f2c7812a2deaf355919fa225a SHA1: 9efb17d7a9c488b9010c949af9830b76d169cc57 SHA256: 3b9237a8d8c3ad57157fe0f6d22406ddd710671b4f680c8ea9f9a3427eb9ccbd SHA512: 0b113ffdc9e8026fc5c4a32bb632d533dbf6e447c7a6882c58b50a6182f883521a335d7cf3d69dc92dbcb6a742a94b881f243813160731e75e186d622cbbad0c Homepage: https://cran.r-project.org/package=jagstargets Description: CRAN Package 'jagstargets' (Targets for JAGS Pipelines) Bayesian data analysis usually incurs long runtimes and cumbersome custom code. A pipeline toolkit tailored to Bayesian statisticians, the 'jagstargets' R package is leverages 'targets' and 'R2jags' to ease this burden. 'jagstargets' makes it super easy to set up scalable JAGS pipelines that automatically parallelize the computation and skip expensive steps when the results are already up to date. Minimal custom code is required, and there is no need to manually configure branching, so usage is much easier than 'targets' alone. For the underlying methodology, please refer to the documentation of 'targets' and 'JAGS' (Plummer 2003) . Package: r-cran-jagstree Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2199 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.tree, r-cran-gtools, r-cran-mcmcplots, r-cran-r2jags, r-cran-tidyverse, r-cran-diagrammer, r-cran-autowmm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-jagstree_1.0.1-1.ca2004.1_all.deb Size: 481156 MD5sum: 100a902e9e20c0840fc081fa239ced6a SHA1: 26f37eda048a2410f6d441d13b8e4996943a8a92 SHA256: f766689fa2e2275f4ff7599b3350e9ab1c2acceb1594dc7e693c2adc42ef5e29 SHA512: 6ae337221da44dc7db71fa8ee9799d0d9f9d90428f4195c0f33c839e5db3ac7eaee95e6e740bde219b3b62beaa6f21fa75330d85bf83bda305843ccc1397ca6c Homepage: https://cran.r-project.org/package=JAGStree Description: CRAN Package 'JAGStree' (Automatically Write 'JAGS' Code for Hierarchical Bayesian Modelson Trees) When relationships between sources of data can be represented by a tree, the generation of appropriate Markov Chain Monte Carlo modeling code to be used with 'JAGS' to run a Bayesian hierarchical model can be automatically generated by this package. Any admissible tree-structured data can be used, under the assumption that node counts are multinomial and branching probabilities are Dirichlet among sibling groups. The methodological basis used to create this package can be found in Flynn (2023) . Package: r-cran-jagsui Architecture: all Version: 1.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1689 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-coda, r-cran-rjags Suggests: r-cran-knitr, r-cran-markdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-jagsui_1.6.2-1.ca2004.1_all.deb Size: 1516980 MD5sum: 0ad44beaf790bbc7ea35a333efc40315 SHA1: 830a7967ce9cd727af61ff702821095fef84a052 SHA256: 051521820bee01d9eb02daf6a4c6128267e2c44c6fd8ee17adb2c593e5006e5a SHA512: 7948233b79116029e9261b727a9e3c4e685d26e1d3ed639fb731da5921dd18f270573321c2f43eca2d8dbf6670b20084c4522bf623113ce89388ac180b5f4cb2 Homepage: https://cran.r-project.org/package=jagsUI Description: CRAN Package 'jagsUI' (A Wrapper Around 'rjags' to Streamline 'JAGS' Analyses) A set of wrappers around 'rjags' functions to run Bayesian analyses in 'JAGS' (specifically, via 'libjags'). A single function call can control adaptive, burn-in, and sampling MCMC phases, with MCMC chains run in sequence or in parallel. Posterior distributions are automatically summarized (with the ability to exclude some monitored nodes if desired) and functions are available to generate figures based on the posteriors (e.g., predictive check plots, traceplots). Function inputs, argument syntax, and output format are nearly identical to the 'R2WinBUGS'/'R2OpenBUGS' packages to allow easy switching between MCMC samplers. Package: r-cran-jalcal Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-jalcal_0.3.0-1.ca2004.1_all.deb Size: 23620 MD5sum: e764976e04600783aa0391b15c424204 SHA1: 49d531d377b71f2a358ded54dc09f9fcd52e42f9 SHA256: 73de034c6375e95867c47310a22703647a5d8dac053409ab968b36f75171ad22 SHA512: eb18a3c64e5e6e24b66c36f942396a3ac585e92190bd6624f87e042ec9448e1344b9f74d21a74b29ef6ee4e8141a11360338e8f60f62f18544bc6e8e0875a121 Homepage: https://cran.r-project.org/package=jalcal Description: CRAN Package 'jalcal' (Convert Between Jalaali (Persian or Solar Hijri) and GregorianCalendar Dates) The Jalaali calendar, also known as the Persian or Solar Hijri calendar, is the official calendar of Iran and Afghanistan. It starts on Nowruz, the spring equinox, and follows an astronomical system for determining leap years. 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Version- and gene-centric alphanumeric sort, unique name and version assignment, colorized console and 'HTML' output, color ramp and palette manipulation, 'Rmarkdown' cache import, styled 'Excel' worksheet import and export, interpolated raster output from smooth scatter and image plots, list to delimited vector, efficient list tools. 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Pull audio, features and other information for a given 'Jamendo' user (including yourself!) or enter an artist's -, album's -, or track's name and retrieve the available information in seconds. 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Package: r-cran-jaod Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-crul, r-cran-tibble Suggests: r-cran-testthat, r-cran-vcr Filename: pool/dists/focal/main/r-cran-jaod_0.3.0-1.ca2004.1_all.deb Size: 25312 MD5sum: 4c6349324765e2b0071a00d99f3effc5 SHA1: 7367cf557e50f0fd9bbd1be9d9cd85467243af58 SHA256: dcba34ac6a7e41c46a58de8a49da839cb6bc7bd218432aec6acc9522b538b61b SHA512: 80b18cd55d722f9740369543bf0dabd7de43d912083885d65a4504916b075cbe7fd4484272113765ff02ef5f84eb7a52cf2420bff0cbefff7f96ad351475bcec Homepage: https://cran.r-project.org/package=jaod Description: CRAN Package 'jaod' (Directory of Open Access Journals Client) Client for the Directory of Open Access Journals ('DOAJ') (). API documentation at . 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Package: r-cran-japanstat Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-httr, r-cran-pillar, r-cran-progress, r-cran-purrr, r-cran-rlang, r-cran-stringi, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-vctrs Suggests: r-cran-keyring, r-cran-testthat Filename: pool/dists/focal/main/r-cran-japanstat_0.1.0-1.ca2004.1_all.deb Size: 64996 MD5sum: 2529ae89a8e1e35ec35fd655d113052d SHA1: 323df77310a82e346458cc785ebd46e50d638576 SHA256: f174ae2a6242ab049138fdefcae38b9d39d51d196f91cbe196c8afe9bad3a791 SHA512: a937b770d6265dca7f915cc1d5e651fc75e7215b6cfd68849037a0dda94ab651f1523fcb233ef39564476c355436eb0da4668b1ce97cf4da4db9dcbf08c1ea20 Homepage: https://cran.r-project.org/package=japanstat Description: CRAN Package 'japanstat' (Tools for Easy Use of 'e-Stat' API) Provides tools for using the API of 'e-Stat' (), a portal site for Japanese government statistics. Includes functions for automatic query generation, data collection and formatting. Package: r-cran-jarbes Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 473 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rjags, r-cran-r2jags, r-cran-ggplot2, r-cran-ggextra, r-cran-mass, r-cran-gridextra, r-cran-bookdown, r-cran-tidyr, r-cran-kableextra, r-cran-ggally, r-cran-qpdf, r-cran-bayesplot Filename: pool/dists/focal/main/r-cran-jarbes_2.3.0-1.ca2004.1_all.deb Size: 410432 MD5sum: c80f75bacd961286ffc2ce94b49df674 SHA1: 8122beeef6a0c932655538a4bb85bfa684809cfb SHA256: e9014852b33f548c2460054cdf0e45998e42fc4d817b3985922b7fef4890a52d SHA512: c65307d6b985e33c6a12bb898784214ba2f974fc9241e78059b5790b933b2674e572d5d0f913a2e7160bb3dd0381bb942e131729506909c5601409b92daa299e Homepage: https://cran.r-project.org/package=jarbes Description: CRAN Package 'jarbes' (Just a Rather Bayesian Evidence Synthesis) Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS). Package: r-cran-jatsdecoder Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 601 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nlp, r-cran-opennlp Filename: pool/dists/focal/main/r-cran-jatsdecoder_1.2.0-1.ca2004.1_all.deb Size: 573200 MD5sum: 0829f5801e36c9e590bb59d07eb96d2d SHA1: e050228079945b087ba5f6121b588232a9fba47f SHA256: b09c65bb3584cd4e5ba17eba15791d77e8d08d7323ed923b5d0fe6a4dd999ede SHA512: ccfcd4f2df8e33894c09d17da084418311e918e23bc7928187461092514b14d5857267634980107d8c402ddfe05d2526d3fa2f3cc389ef43a85139292b5cdfd2 Homepage: https://cran.r-project.org/package=JATSdecoder Description: CRAN Package 'JATSdecoder' (A Metadata and Text Extraction and Manipulation Tool Set) Provides a function collection to extract metadata, sectioned text and study characteristics from scientific articles in 'NISO-JATS' format. Articles in PDF format can be converted to 'NISO-JATS' with the 'Content ExtRactor and MINEr' ('CERMINE', ). For convenience, two functions bundle the extraction heuristics: JATSdecoder() converts 'NISO-JATS'-tagged XML files to a structured list with elements title, author, journal, history, 'DOI', abstract, sectioned text and reference list. study.character() extracts multiple study characteristics like number of included studies, statistical methods used, alpha error, power, statistical results, correction method for multiple testing, software used. An estimation of the involved sample size is performed based on reports within the abstract and the reported degrees of freedom within statistical results. In addition, the package contains some useful functions to process text (text2sentences(), text2num(), ngram(), strsplit2(), grep2()). See Böschen, I. (2021) Böschen, I. (2021) and Böschen, I (2023) . Package: r-cran-javateak Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-javateak_1.0-1.ca2004.1_all.deb Size: 16732 MD5sum: f6be237fbfed226d14f2836e8c3c92d6 SHA1: e79ef5c48ce641873ee41e030e015e5ebe740e5d SHA256: 4ebfbb5cb3e3b7649472f14bdd8c6fc0318ef3595ee5bb6c45f1ebc86cba4d4b SHA512: ecfec38352b8516cdaf7289de960328f91be8d41065dffb124834047e473dfa29877af34714b726c042cf0bd111a3a7c272227e023c56335a4a536fc4bd3d5a7 Homepage: https://cran.r-project.org/package=javateak Description: CRAN Package 'javateak' (Javanese Teak Above Ground Biomass Estimation) Simplifies the process of estimating above ground biomass components for teak trees using a few basic inputs, based on the equations taken from the journal "Allometric equations for estimating above ground biomass and leaf area of planted teak (Tectona grandis) forests under agroforestry management in East Java, Indonesia" (Purwanto & Shiba, 2006) . This function is most reliable when applied to trees from the same region where the equations were developed, specifically East Java, Indonesia. This function help to estimate the stem diameter at the lowest major living branch (DB) using the stem diameter at breast height with R^2 = 0.969. Estimate the branch dry weight (WB) using the stem diameter at breast height and tree height (R^2 = 0.979). Estimate the stem weight (WS) using the stem diameter at breast height and tree height (R^2 = 0.997. Also estimate the leaf dry weight (WL) using the stem diameter at the lowest major living branch (R^2 = 0.996). Package: r-cran-jaya Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-evaluate, r-cran-testthat Filename: pool/dists/focal/main/r-cran-jaya_1.0.3-1.ca2004.1_all.deb Size: 61604 MD5sum: 2a4b8f59b48cdd7a26c91cc886843732 SHA1: 3f7508762c0c684c3d16c5ebed7e81b54009485b SHA256: 96c0975423abc37c4a263b62847bc84d15fdd9a0e4a5d64aa20f5229716e548e SHA512: ccac7443a137047ec0ca295033b7342f0c4b300d4d285898b5c5b9b2e16c353bc8f378bbb26d31c546773f963f6ab6ab23aff813cc865546754b0a29e90a598b Homepage: https://cran.r-project.org/package=Jaya Description: CRAN Package 'Jaya' (Gradient-Free Optimization Algorithm for Single andMulti-Objective Problems) An implementation of the Jaya optimization algorithm for both single-objective and multi-objective problems. Jaya is a population-based, gradient-free optimization algorithm capable of solving constrained and unconstrained optimization problems without hyperparameters. This package includes features such as multi-objective Pareto optimization, adaptive population adjustment, and early stopping. For further details, see R.V. Rao (2016) . 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To calculate each calendar method, it converts to the Julian Day Number. 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Reference - Bivariate change point detection - joint detection of changes in expectation and variance, Scandinavian Journal of Statistics, DOI 10.1111/sjos.12547. Package: r-cran-jcrimpactfactor Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 528 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Filename: pool/dists/focal/main/r-cran-jcrimpactfactor_1.0.0-1.ca2004.1_all.deb Size: 487952 MD5sum: 396f690815b70d02e9c674032bb411da SHA1: c96a0e2249a4f7bfa809287b324bd4bfb40f4ab4 SHA256: 698149a9d886df64bbd81d8674699dffcc7eb661ba8b0ba54fbf5569a2eea000 SHA512: 711312fbddb98a6454a524977e289e07562952b33ddb4ee39fd8740548aa08603d14a0880c01faedeb164ce0ef2333d6f775d08e548e5556e4e4ccb84e4a53e7 Homepage: https://cran.r-project.org/package=JCRImpactFactor Description: CRAN Package 'JCRImpactFactor' (Journal Citation Reports ('JCR') Impact Factor by 'Clarivate''Analytics') The Impact Factor of a journal reported by Journal Citation Reports ('JCR') of 'Clarivate' 'Analytics' is provided. The impact factor is available for those journals only that were included Journal Citation Reports 'JCR'. Package: r-cran-jcvrisk Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-jcvrisk_0.1.2-1.ca2004.1_all.deb Size: 45580 MD5sum: b1ae042b74801d34e8daedc7a73aa69b SHA1: c0af2afa7090b9967d9d7472e88511c701b8c7d9 SHA256: 6df812a9a3b014b51c4f1f7d521fce2fcaaa894f9f4223bddc1389a890663a9d SHA512: 58fd6d3dc6c192a39d59417e22dd3d0d2dd39648c6bd53d556bc383c1d0d2450cb4491776a7c2a8cd2dfdaacb84a6b74e95a84abb174347749537a9744bf3854 Homepage: https://cran.r-project.org/package=Jcvrisk Description: CRAN Package 'Jcvrisk' (Risk Calculator for Cardiovascular Disease in Japan) A calculation tool to obtain the 10-year risk of cardiovascular disease from various risk models (Hisayama, Suita, EPOCH Japan). 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Package: r-cran-jdmbs Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-png, r-cran-ggplot2 Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-jdmbs_1.4-1.ca2004.1_all.deb Size: 142444 MD5sum: 2f54784eba0bcedfe56b655d39ef4d22 SHA1: df403844d8bc6abb0e68e08503455f7f9c79f2d1 SHA256: 60d852938b649c3731738d73cf75440b04ed923af58e0795b6d11ae979468db1 SHA512: 91e7a7e136234183d35005167265a39742cbe19eb701fd282b32e9f2f4d581cc9e67156b43c28e6b641ebdaba71f33517d069fbf43f762e10e3ea7c93b438607 Homepage: https://cran.r-project.org/package=Jdmbs Description: CRAN Package 'Jdmbs' (Monte Carlo Option Pricing Algorithms for Jump Diffusion Modelswith Correlational Companies) Option is a one of the financial derivatives and its pricing is an important problem in practice. The process of stock prices are represented as Geometric Brownian motion [Black (1973) ] or jump diffusion processes [Kou (2002) ]. In this package, algorithms and visualizations are implemented by Monte Carlo method in order to calculate European option price for three equations by Geometric Brownian motion and jump diffusion processes and furthermore a model that presents jumps among companies affect each other. Package: r-cran-jds.rmd Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-bookdown, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-jds.rmd_0.3.3-1.ca2004.1_all.deb Size: 45180 MD5sum: fa4392c6a781dac17d355f869d7325e6 SHA1: b01b850172e168a3a8e78a9f4741b0a156b92e66 SHA256: a9d5e58919bd876f682927867a176f9096c6a240e9a8f81f855927369ab7bf95 SHA512: 6fa4d32ba9ae2e3f07be3dc4d25e0d7bd68f2921784d1684b28b9fa52a1bd661e2b545dc310de6d811218a41eb4561151516ff9e3c83a4ec9e0181189bdf6867 Homepage: https://cran.r-project.org/package=jds.rmd Description: CRAN Package 'jds.rmd' (R Markdown Templates for Journal of Data Science) Customized R Markdown templates for authoring articles for Journal of Data Science. Package: r-cran-jeek Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 496 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve, r-cran-pcapp, r-cran-igraph Filename: pool/dists/focal/main/r-cran-jeek_1.1.1-1.ca2004.1_all.deb Size: 444244 MD5sum: ee60c86f5099160cd6f309ae149f4250 SHA1: cd169035140cb1c8b371dd70b6fba0ebf572489b SHA256: f38a9708b3247f9fe01e6b40031bf6f60d780e6ca519f5c0263781030bab24c0 SHA512: bd77aedbf65d6bdd5f36cb16968ccfbd67d302ac695df6e428b9e31c6d0adf4c201bbf987050d04bfdfb61ef161bf79baed19015633f9c5a745c80b4c596d919 Homepage: https://cran.r-project.org/package=jeek Description: CRAN Package 'jeek' (A Fast and Scalable Joint Estimator for Integrating AdditionalKnowledge in Learning Multiple Related Sparse GaussianGraphical Models) Provides a fast and scalable joint estimator for integrating additional knowledge in learning multiple related sparse Gaussian Graphical Models (JEEK). The JEEK algorithm can be used to fast estimate multiple related precision matrices in a large-scale. For instance, it can identify multiple gene networks from multi-context gene expression datasets. By performing data-driven network inference from high-dimensional and heterogeneous data sets, this tool can help users effectively translate aggregated data into knowledge that take the form of graphs among entities. Please run demo(jeek) to learn the basic functions provided by this package. For further details, please read the original paper: Beilun Wang, Arshdeep Sekhon, Yanjun Qi "A Fast and Scalable Joint Estimator for Integrating Additional Knowledge in Learning Multiple Related Sparse Gaussian Graphical Models" (ICML 2018) . 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This package implements the algorithms defined in Hornstein, Fan, Shedden, and Zhou (2018) . 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Generates the grid square codes from longitude/latitude, geometries, and the grid square codes of different scales, and vice versa. 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Also the package included ready-to-analyse datasets. See the data source website for further details . Package: r-cran-jpmesh Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1880 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-leaflet, r-cran-memoise, r-cran-miniui, r-cran-purrr, r-cran-rlang, r-cran-sf, r-cran-shiny, r-cran-tibble, r-cran-units, r-cran-magrittr, r-cran-vctrs Suggests: r-cran-knitr, r-cran-lintr, r-cran-lwgeom, r-cran-testthat, r-cran-rmarkdown, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-jpmesh_2.1.0-1.ca2004.1_all.deb Size: 1308528 MD5sum: b66fead6cac11e7346d1edccbb2d5fb7 SHA1: ffdc0a74de33d12eddfc53c42b7502d158e1d798 SHA256: b0c8b72299d8daa47983151558a9b4fec325d88cab30e3e4ff025dbca92a432c SHA512: d9d1a232c1e168c153df8dbc606338107bd0bca29816e00f425f26aa348e8822eb90cd8ab6fd768c4b16228ef2fe9e1afd69b3953492ad33bf3ad818710d1cda Homepage: https://cran.r-project.org/package=jpmesh Description: CRAN Package 'jpmesh' (Utilities for Japanese Mesh Code) Helpful functions for using mesh code (80km to 100m) data in Japan. Visualize mesh code using 'ggplot2' and 'leaflet', etc. Package: r-cran-jpstat Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-pillar, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-vctrs, r-cran-navigatr, r-cran-lifecycle, r-cran-stickyr Suggests: r-cran-keyring, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-jpstat_0.4.0-1.ca2004.1_all.deb Size: 107500 MD5sum: 0ac9040f56d2415694480dd1f3f8b9b3 SHA1: 2853e37ad3e539e514e5019ee5a04803f6d900f7 SHA256: 8f164fbdd08c1115d095f6c8f8d6c732ee5f889c6298c2ec2dfabed5d5658fe4 SHA512: 98cab57518fced00d2542c9e8767a5b59ccd4d4524d7c1c3d0426d2c32c0961c88ac8f062a37f6557dae5d2090425ddd282198846837e54e70e33bf6bf5ff961 Homepage: https://cran.r-project.org/package=jpstat Description: CRAN Package 'jpstat' (Tools for Easy Use of 'e-Stat', 'RESAS' API, Etc) Provides tools to use API such as 'e-Stat' (), the portal site for Japanese government statistics, and 'RESAS' (Regional Economy and Society Analyzing System, ). Package: r-cran-jpsurv Architecture: all Version: 3.0.20-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1313 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-ggrepel, r-cran-scales Filename: pool/dists/focal/main/r-cran-jpsurv_3.0.20-1.ca2004.1_all.deb Size: 1306668 MD5sum: 00fb68a576527f75ed8c90da4f4fdaa6 SHA1: f4b631955c039e26784d5f61463aa3dabe71c499 SHA256: 17bcd2d108f711f6eb4d4b30caa98801c9010eab20c1f1bfd0cfc22334c0f7d5 SHA512: ee8d19f74b391e5faf456195d1e79f7a0d7a6d8f73081fac3fd7285a97601e04f837bb5f0254aecca749efa186e936cf14d2756955fff98d3286cd92b62ad03c Homepage: https://cran.r-project.org/package=JPSurv Description: CRAN Package 'JPSurv' (Joinpoint Model for Relative and Cause-Specific Survival) Contains functions for fitting a joinpoint proportional hazards model to relative survival or cause-specific survival data, including estimates of joinpoint years at which survival trends have changed and trend measures in the hazard and cumulative survival scale. See Yu et al.(2009) . Package: r-cran-jqbr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 530 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-htmltools, r-cran-jsonlite, r-cran-shiny Suggests: r-cran-bslib, r-cran-packer, r-cran-testthat Filename: pool/dists/focal/main/r-cran-jqbr_1.0.3-1.ca2004.1_all.deb Size: 68752 MD5sum: c39ba950e25b73981ed3e6a79c085f53 SHA1: b6d3e57f0e68f7b8ced6708d2de9b4bbb61d2d6b SHA256: dedbabfe381a056056c18850a3a0da55ba197d5ad8ae27280b4c94d87a538f1f SHA512: 034b9b55f5a56c948de970cc9054cf9e78c69409ff271120c44341d2587aaf5fae74a8c7d44a36c686fb8210ae6a8fba4553de3cc92cf9307c6fe8d036370b5f Homepage: https://cran.r-project.org/package=jqbr Description: CRAN Package 'jqbr' ('jQuery QueryBuilder' Input for 'Shiny') A highly configurable 'jQuery' plugin offering a simple interface to create complex queries/filters in 'Shiny'. The outputted rules can easily be parsed into a set of 'R' and/or 'SQL' queries and used to filter data. Custom parsing of the rules is also supported. For more information about 'jQuery QueryBuilder' see . Package: r-cran-jql Architecture: all Version: 3.6.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-pdist, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-jql_3.6.9-1.ca2004.1_all.deb Size: 50640 MD5sum: 7cba8a5017367aea11b7b8dc4babd092 SHA1: c42af03df21d774b4d620dde257badb833821b64 SHA256: c63b0e508a71d6b55afa088367be68f59c3c6d636c3b0b9f270c81020484fb4d SHA512: f2d805b02454c301881a891db616147bbac5be6bf1c3d9011a80d76b0eed1f38492ebdb938c0b3e69dd345ce0efe1a86f093a37cd65f9058bd2d6d33e27d5c00 Homepage: https://cran.r-project.org/package=JQL Description: CRAN Package 'JQL' (Jump Q-Learning for Individualized Interval-Valued Dose Rule) We provide tools to estimate the individualized interval-valued dose rule (I2DR) that maximizes the expected beneficial clinical outcome for each individual and returns an optimal interval-valued dose, by using the jump Q-learning (JQL) method. The jump Q-learning method directly models the conditional mean of the response given the dose level and the baseline covariates via jump penalized least squares regression under the framework of Q learning. We develop a searching algorithm by dynamic programming in order to find the optimal I2DR with the time complexity O(n2) and spatial complexity O(n). To alleviate the effects of misspecification of the Q-function, a residual jump Q-learning is further proposed to estimate the optimal I2DR. The outcome of interest includes the best partition of the entire dosage of interest, the regression coefficients of each partition, and the value function under the estimated I2DR as well as the Wald-type confidence interval of value function constructed through the Bootstrap. Package: r-cran-jquerylib Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1556 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-jquerylib_0.1.4-1.ca2004.1_all.deb Size: 283308 MD5sum: c74ffb2670c426f752537f47e93f5646 SHA1: 923e20e292c84437f04554d2690499bd3c7e7efb SHA256: 763da4a156ff768b602ae7c944adbf3ae6e62951c9123b3c2e066a9e1813b148 SHA512: 589c2648e08619c14f7363ea0fc12327ac44c6eb701318cd0a7b3be997a57fe90d6e1b87111f3db180bacc11bb21d34f37a3cbfb1928eac83269f12b92d362b8 Homepage: https://cran.r-project.org/package=jquerylib Description: CRAN Package 'jquerylib' (Obtain 'jQuery' as an HTML Dependency Object) Obtain any major version of 'jQuery' () and use it in any webpage generated by 'htmltools' (e.g. 'shiny', 'htmlwidgets', and 'rmarkdown'). Most R users don't need to use this package directly, but other R packages (e.g. 'shiny', 'rmarkdown', etc.) depend on this package to avoid bundling redundant copies of 'jQuery'. 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The package introduces Jack-knife resampling in evolutionary distinctiveness prioritization analysis, as a way to evaluate the support of the ranking in area prioritization, and the persistence of a given area in a conservation analysis. The algorithm is described in: Miranda-Esquivel, D (2016) . 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A function is used to automatically compare and select models, as well as to present a variety of model-based statistics. Plotting functions are used to present category curves, as well as information, reliability and standard error functions. 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This includes finding the IRR and NPV of regularly spaced cash flows and annuities. Bond pricing and YTM calculations are included. In addition, Black Scholes option pricing and Greeks are also provided. 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The details of J-score is described in Ahmadinejad and Liu. (2021) . 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Package: r-cran-jsuparameters Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-jsuparameters_1.0.0-1.ca2004.1_all.deb Size: 30032 MD5sum: 1ddbfb7de31a2b5c0163aa1a92b076db SHA1: 3048f3e15b3ad50603d37b942ae07ac94c998777 SHA256: 121dd87b357f18dee8793a8c0a5219664ef29c5b86955aa5967571248e5a2279 SHA512: 52a6db5e0f327a9ef81dd92b2b9f96bfbedd4e65d6f0cafb96cd1b881fbf8d3fe54b07e521f68f19e08312df3032e73f934fd3b57c8ea45458ae78f596307357 Homepage: https://cran.r-project.org/package=JSUparameters Description: CRAN Package 'JSUparameters' (Estimate Parameters of the Best-Fitting JohnsonSU Distribution) Uses least squares optimisation to estimate the parameters of the best-fitting JohnsonSU distribution for a given dataset, with the possibility of the distributions corresponding to the limiting cases of the JohnsonSU distribution. 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Package: r-cran-juicr Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 832 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-rcurl Suggests: r-bioc-ebimage, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-juicr_0.1-1.ca2004.1_all.deb Size: 738572 MD5sum: ee5eb437b634c9617ed412ff61160465 SHA1: 238ad2e9c15bc89654924c738059ec06ab332c5d SHA256: c10bd6ded59a8cfc25e37d75f90b2a5dfcc469ef9ff4a312e2d4f6bf540f7378 SHA512: a64655990498a6f7cb060907507f22d427f4c6cf8fa88b8b58497e14b7e853b69b7161136e3e50d27cc3f4751df407474ead706a37c86fc97450bfe7aaf0e3f9 Homepage: https://cran.r-project.org/package=juicr Description: CRAN Package 'juicr' (Automated and Manual Extraction of Numerical Data fromScientific Images) Provides a GUI interface for automating data extraction from multiple images containing scatter and bar plots, semi-automated tools to tinker with extraction attempts, and a fully-loaded point-and-click manual extractor with image zoom, calibrator, and classifier. 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The Kantorovich distance is also known as the Monge-Kantorovich distance or the first Wasserstein distance. Package: r-cran-kaos Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-kaos_0.1.2-1.ca2004.1_all.deb Size: 31932 MD5sum: 81110a00aeba04d1dd36e5f1de608f18 SHA1: c8d3e293dd764150dde2a0034053f3125733e249 SHA256: 8b752f32c11e4c682371a6bb7ffc4e007fd41d0f5a7fa9ada1a5f889cbcb2493 SHA512: 11f12bde825d125da0b2fb68a1cc3682d2419546f31e22f87baeadbf09e7cc8bc2f9c1a25b4498a218a08eb4e543ebbb540e38cdb214634fc8dd086c91e9d2c3 Homepage: https://cran.r-project.org/package=kaos Description: CRAN Package 'kaos' (Encoding of Sequences Based on Frequency Matrix Chaos GameRepresentation) Sequences encoding by using the chaos game representation. Löchel et al. (2019) . Package: r-cran-kaphom Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-kaphom_0.3-1.ca2004.1_all.deb Size: 35940 MD5sum: dd59d022c166117bf579b0784f320be1 SHA1: 57c9f08db37b3146d860289b4a706b5d36e898fd SHA256: 0d155be47897d6de9de79213feb5e2a80f7bbe2c62514da62bb607f8705132bb SHA512: e2fe75d619b330c5e031657cec9b20c8e4fc75ddcfcdf5bc59d84ccbe056cbdcb1b338c099f46b7640711052e72928ca6418c4ca658b2d1bd572f88c2c092955 Homepage: https://cran.r-project.org/package=kaphom Description: CRAN Package 'kaphom' (Test the Homogeneity of Kappa Statistics) Tests the homogeneity of intraclass kappa statistics obtained from independent studies or a stratified study with binary results. It is desired to compare the kappa statistics obtained in multi-center studies or in a single stratified study to give a common or summary kappa using all available information. If the homogeneity test of these kappa statistics is not rejected, then it is possible to make inferences over a single kappa statistic that summarizes all the studies. Muammer Albayrak, Kemal Turhan, Yasemin Yavuz, Zeliha Aydin Kasap (2019) Jun-mo Nam (2003) Jun-mo Nam (2005) Mousumi Banerjee, Michelle Capozzoli, Laura McSweeney,Debajyoti Sinha (1999) Allan Donner, Michael Eliasziw, Neil Klar (1996) . Package: r-cran-kappagold Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-future.apply, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-dplyr, r-cran-irr, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kappagold_0.4.0-1.ca2004.1_all.deb Size: 84956 MD5sum: b27e6b461d168c56f5f50b13b5570f75 SHA1: c334577a2c80dd94b782a9033d002a7c28fadb63 SHA256: f11a54d2c76f82140f8322ce21765e168283e261cc2dc146eac72caa323044f7 SHA512: 9fd83b9ba34a880717ca48b66449ca5ed6f781ee3fdb4f523f55e0fc841df335e744b57b193d88b6fd7a3fbf9a20b0d244c4f4b76216c225aadb96c5d9f4cc79 Homepage: https://cran.r-project.org/package=kappaGold Description: CRAN Package 'kappaGold' (Agreement of Nominal Scale Raters (with a Gold Standard)) Estimate agreement of a group of raters with a gold standard rating on a nominal scale. For a single gold standard rater the average pairwise agreement of raters with this gold standard is provided. For a group of (gold standard) raters the approach of S. Vanbelle, A. Albert (2009) is implemented. Bias and standard error are estimated via delete-1 jackknife. Package: r-cran-kappagui Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-irr Filename: pool/dists/focal/main/r-cran-kappagui_2.0.2-1.ca2004.1_all.deb Size: 29812 MD5sum: e02c2d1745d453d811cc787b4b024e07 SHA1: 6414cb141cbc2b27dca7cd9c0f4e4ba917832b82 SHA256: 297a17c1a27e5c3b6ff2870f08fa0aa5203bf74f1c0bd9ebace43b6c3823672f SHA512: baa8ea51483d20ec3005a681558f9b2904384a7a614ec7a5a1efab38525c7318d95f0ca24632a0bb31b761275a034052c6d8f6b87b72e391d4e658cb84f5f5a1 Homepage: https://cran.r-project.org/package=KappaGUI Description: CRAN Package 'KappaGUI' (An R-Shiny Application for Calculating Cohen's and Fleiss' Kappa) Offers a graphical user interface for the evaluation of inter-rater agreement with Cohen's and Fleiss' Kappa. 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Includes functions for both the power-based and confidence interval-based methods, with binary or multinomial outcomes and two through six raters. 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This "vectorial Kappa" approach extends the principle of Cohen's Kappa index by calculating areas of intersected patches between two mosaics rather than agreement between pixels. It provides an exact alternative for patchy mosaics when a Kappa index is needed. Package: r-cran-karadacolor Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 454 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-crayon, r-cran-ggplot2 Suggests: r-cran-scales, r-cran-artsy Filename: pool/dists/focal/main/r-cran-karadacolor_0.1.5-1.ca2004.1_all.deb Size: 414616 MD5sum: 907fb7faafbb213fd94ef9033f9002d3 SHA1: 60473f7c95fcb99eb326485aaa025e0c30741c99 SHA256: dd872f61670d3ebdaafedfdc68f5fb45cfacfdc089668b78a72600a542d6dd89 SHA512: fa21370f697dd54b3b1ad33bc80e5a922541288faf4cc32bcd9850e4b3d3f77d4b34e69649bedb43918449ad7c7681da60882f24d49791b724168cf0e45594a3 Homepage: https://cran.r-project.org/package=KaradaColor Description: CRAN Package 'KaradaColor' (Color Palettes Inspired by Japanese Landscape and Culture) The palette includes motifs from Japanese landscape and culture. And it provides commands for color manipulation and 'ggplot2' color scales. Package: r-cran-karaoke Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tuner, r-cran-seewave Filename: pool/dists/focal/main/r-cran-karaoke_3.0-1.ca2004.1_all.deb Size: 12708 MD5sum: ee81419ba45ff2a5ca41e176a96c176f SHA1: f5dfb65bf2803cc25b9cf854013e3e9372023171 SHA256: 23e570d3d11b564aa9e30e2cc717097fa07ff47e86b98975d8f0db462cc679aa SHA512: 66b6b275e59be14462399d4dfd10645efcfb7b6feae607aa0ba14f95885ab40b9981784b077582c117ca0c081441f5a9dc8f67d48a827a0443308f2ff85e7ed3 Homepage: https://cran.r-project.org/package=karaoke Description: CRAN Package 'karaoke' (Remove Vocals from a Song) Attempts to remove vocals from a stereo '.wav' recording of a song. Package: r-cran-karel Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2650 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-magrittr, r-cran-gganimate, r-cran-gifski Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-karel_0.1.1-1.ca2004.1_all.deb Size: 1381848 MD5sum: 41c0ffa607bc4c37c69dc58e36bdfc49 SHA1: 5019417ac1ef8a097f16b4523636876a460bdbab SHA256: 7d74375d7c5e1a2753fac076b63065230695dc1de11b0cafb58dcc01cf57ae76 SHA512: 3149e67d9bc8fb8480f4c72a3e4d16e439103bd10275be635fa16f4699e7e92e3d59e1dbc422cb2e4ea6393711b5b1614621ef3e5067c333d69bcda46fa15175 Homepage: https://cran.r-project.org/package=karel Description: CRAN Package 'karel' (Learning programming with Karel the robot) This is the R implementation of Karel the robot, a programming language created by Dr. R. E. Pattis at Stanford University in 1981. Karel is an useful tool to teach introductory concepts about general programming, such as algorithmic decomposition, conditional statements, loops, etc., in an interactive and fun way, by writing programs to make Karel the robot achieve certain tasks in the world she lives in. Originally based on Pascal, Karel was implemented in many languages through these decades, including 'Java', 'C++', 'Ruby' and 'Python'. This is the first package implementing Karel in R. Package: r-cran-karen Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 719 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-matrix, r-cran-gaussquad, r-cran-scales, r-cran-mvtnorm, r-cran-tmvtnorm, r-cran-mass, r-cran-igraph, r-cran-xtable, r-cran-stringr, r-cran-abind, r-cran-expm Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-karen_1.0-1.ca2004.1_all.deb Size: 682556 MD5sum: b7dcf190cd6c6f635baa48d6b82965e2 SHA1: b059126ca3ac9ac0a4a77c96d715b6f13ceedcfe SHA256: 20c2c6ecf8dea5bf47b72667939e326e13f47d305555baaaf0336e819f486a39 SHA512: 2c745b38ca6d73d21e167946dfd71a95311e96a35098cd8510e6a570ec6e6a432bc65180f532a255689403a78bf30e4962e4b2a4d263cd3c738cebf92a5547bb Homepage: https://cran.r-project.org/package=Karen Description: CRAN Package 'Karen' (Kalman Reaction Networks) This is a stochastic framework that combines biochemical reaction networks with extended Kalman filter and Rauch-Tung-Striebel smoothing. This framework allows to investigate the dynamics of cell differentiation from high-dimensional clonal tracking data subject to measurement noise, false negative errors, and systematically unobserved cell types. Our tool can provide statistical support to biologists in gene therapy clonal tracking studies for a deeper understanding of clonal reconstitution dynamics. Further details on the methods can be found in L. Del Core et al., (2022) . Package: r-cran-karlen Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2889 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble Filename: pool/dists/focal/main/r-cran-karlen_0.0.2-1.ca2004.1_all.deb Size: 2861120 MD5sum: 82af62403aead9f5a9d16a833139385a SHA1: 7aaa1ce9d54ee191edac7448a2bce6f82a5e4a6c SHA256: 3e1080effd6a2c8b63151fb55088b47bd02c68f0049b8b5587d141e3dfed573a SHA512: 936666f9370ab5e12b2bf28f11dca51c0225bdd835708dadcac2d22780ff1d5d97d7501c56028fa0a69775aaec2c343ee772c6bf8c5516cbe68c1d0116683464 Homepage: https://cran.r-project.org/package=karlen Description: CRAN Package 'karlen' (Real-Time PCR Data Sets by Karlen et al. (2007)) Real-time quantitative polymerase chain reaction (qPCR) data sets by Karlen et al. (2007) . Provides one single tabular tidy data set in long format, encompassing 32 dilution series, for seven PCR targets and four biological samples. The targeted amplicons are within the murine genes: Cav1, Ccn2, Eln, Fn1, Rpl27, Hspg2, and Serpine1, respectively. Dilution series: scheme 1 (Cav1, Eln, Hspg2, Serpine1): 1-fold, 10-fold, 50-fold, and 100-fold; scheme 2 (Ccn2, Rpl27, Fn1): 1-fold, 10-fold, 50-fold, 100-fold and 1000-fold. For each concentration there are five replicates, except for the 1000-fold concentration, where only two replicates were performed. Each amplification curve is 40 cycles long. Original raw data file is Additional file 2 from "Statistical significance of quantitative PCR" by Y. Karlen, A. McNair, S. Perseguers, C. Mazza, and N. Mermod (2007) . Package: r-cran-karsts Architecture: all Version: 2.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3501 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-circular, r-cran-mvn, r-cran-tcltk2, r-cran-tserieschaos, r-cran-stlplus, r-cran-tseries, r-cran-forecast, r-cran-stinepack, r-cran-missforest, r-cran-nonlineartseries, r-cran-zoo, r-cran-rgl, r-cran-mgcv, r-cran-infotheo, r-cran-plot3d Filename: pool/dists/focal/main/r-cran-karsts_2.4.1-1.ca2004.1_all.deb Size: 3046280 MD5sum: 8271bcdf493b7834f6e1a1dda5eb595a SHA1: d1eccd4fd6660f483eda0a3e13a1d407a2e6e2d4 SHA256: f99e65bab0b039d5a1c9554f6503709768a2816e4d6d77166009858cb1c163a0 SHA512: f8f1619a9ca67452a7ba11d8b7a8bc32055407f001cd3e12e41aca90375cbdc376b3e8ceec25f4752897a6b7267d2b831179e6e907c40fef4d0506ee54b716f1 Homepage: https://cran.r-project.org/package=KarsTS Description: CRAN Package 'KarsTS' (An Interface for Microclimate Time Series Analysis) An R code with a GUI for microclimate time series, with an emphasis on underground environments. 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Package: r-cran-karyotapr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1894 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-singlecellexperiment, r-cran-circlize, r-cran-cli, r-bioc-complexheatmap, r-cran-dbscan, r-cran-dplyr, r-cran-fitdistrplus, r-bioc-genomicranges, r-cran-ggplot2, r-cran-gtools, r-bioc-iranges, r-cran-magrittr, r-cran-purrr, r-bioc-rhdf5, r-cran-rlang, r-bioc-s4vectors, r-bioc-summarizedexperiment, r-cran-tibble, r-cran-tidyr, r-cran-umap, r-cran-viridislite Suggests: r-bioc-biostrings, r-cran-knitr, r-cran-rmarkdown, r-bioc-rsamtools, r-cran-testthat Filename: pool/dists/focal/main/r-cran-karyotapr_1.0.1-1.ca2004.1_all.deb Size: 1419992 MD5sum: 710bf61072dfa64fb6a3c71de4f0658a SHA1: f72dccd57ddd045d4c2b149b1227379b8823a4fa SHA256: 18ba7f5b3b54e2951db9a3ee0d7c9e29af09af6e3c6e2fc5ae0d8f20557738d8 SHA512: 544351011ed5b8b5f46ddd24fba5b7f6cac39128205197de967ebbef938398c52ce6bfe91178893a20f404eb43392fb5147a8ba9b2122944f7c9f64b596739f7 Homepage: https://cran.r-project.org/package=karyotapR Description: CRAN Package 'karyotapR' (DNA Copy Number Analysis for Genome-Wide Tapestri Panels) Analysis of DNA copy number in single cells using custom genome-wide targeted DNA sequencing panels for the Mission Bio Tapestri platform. Users can easily parse, manipulate, and visualize datasets produced from the automated 'Tapestri Pipeline', with support for normalization, clustering, and copy number calling. Functions are also available to deconvolute multiplexed samples by genotype and parsing barcoded reads from exogenous lentiviral constructs. Package: r-cran-katex Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 860 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-v8 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-katex_1.5.0-1.ca2004.1_all.deb Size: 177652 MD5sum: a8d52809abed80145de704574af95791 SHA1: d26336133f68c8ec204637b651ccee3dbe96e8ca SHA256: 02bcb9f8378c2de37a3a6ecc8560359480cba1f9296e4e3e8dbd444c7fea4b3d SHA512: 12c41046a4088e43e1e5129ebcd762731344bb2c768fa8af282188a1cd769198efb94b6bd71f37069c3cc253853217ed0a34e8554d4376218da949b11dcb5e03 Homepage: https://cran.r-project.org/package=katex Description: CRAN Package 'katex' (Rendering Math to HTML, 'MathML', or R-Documentation Format) Convert latex math expressions to HTML and 'MathML' for use in markdown documents or package manual pages. The rendering is done in R using the V8 engine (i.e. server-side), which eliminates the need for embedding the 'MathJax' library into your web pages. In addition a 'math-to-rd' wrapper is provided to automatically render beautiful math in R documentation files. Package: r-cran-kayadata Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 810 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-magrittr, r-cran-forcats, r-cran-dplyr, r-cran-tidyr, r-cran-stringr, r-cran-scales, r-cran-purrr Suggests: r-cran-broom, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-kayadata_1.4.0-1.ca2004.1_all.deb Size: 699384 MD5sum: 5b2214866d911b2acf715d1d828f10ab SHA1: 2c84d23eb7897bebabbb68f4ccb0006c35500a19 SHA256: 5a308636537ccde2a54ace1c744d2a46f1442080b7207577d4a3a105a6795063 SHA512: 2130cbd9ce27c3a4f4c6daddd4f635fa022c4772d356285488d14c367a2667e2b7982345b229e099118fe1fcbd0465bc30e289c423af855944abf0e43df048dd Homepage: https://cran.r-project.org/package=kayadata Description: CRAN Package 'kayadata' (Kaya Identity Data for Nations and Regions) Provides data for Kaya identity variables (population, gross domestic product, primary energy consumption, and energy-related CO2 emissions) for the world and for individual nations, and utility functions for looking up data, plotting trends of Kaya variables, and plotting the fuel mix for a given country or region. The Kaya identity (Yoichi Kaya and Keiichi Yokobori, "Environment, Energy, and Economy: Strategies for Sustainability" (United Nations University Press, 1998) and ) expresses a nation's or region's greenhouse gas emissions in terms of its population, per-capita Gross Domestic Product, the energy intensity of its economy, and the carbon-intensity of its energy supply. 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Kernel density estimation with parametric starts involves fitting a parametric density to the data before making a correction with kernel density estimation, see Hjort & Glad (1995) . Asymmetric kernels make kernel density estimation more efficient on bounded intervals such as (0, 1) and the positive half-line. Supported asymmetric kernels are the gamma kernel of Chen (2000) , the beta kernel of Chen (1999) , and the copula kernel of Jones & Henderson (2007) . User-supplied kernels, parametric starts, and bandwidths are supported. 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Package: r-cran-kendallrandomwalks Architecture: all Version: 0.9.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 342 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-tibble, r-cran-actuar Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-kendallrandomwalks_0.9.4-1.ca2004.1_all.deb Size: 214156 MD5sum: 21ed1cf88dc33d533befc8e495af3eac SHA1: a07781afcd4c866fabbaf50f9f1207a8a0e91413 SHA256: da20350b26e000a867c899778ef034f78b64b58edb9af4bf3235cc9a549e3543 SHA512: d6dddb143927fe190c61545dcd4b809fdd08474ba83fbefa7a76882fd9ecc59af35595bbd3ef1d904ac5f0797b3901c9ae98dadbf1de60f2a5fe02d7390d6104 Homepage: https://cran.r-project.org/package=kendallRandomWalks Description: CRAN Package 'kendallRandomWalks' (Simulate and Visualize Kendall Random Walks and RelatedDistributions) Kendall random walks are a continuous-space Markov chains generated by the Kendall generalized convolution. This package provides tools for simulating these random walks and studying distributions related to them. For more information about Kendall random walks see Jasiulis-Gołdyn (2014) . Package: r-cran-kendl Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-kendl_1.1-1.ca2004.1_all.deb Size: 27528 MD5sum: a50fef3d70fa9ff5de5e2f42ab603b6b SHA1: 6f8a7723cceed64531881ade8dfc545ca240f613 SHA256: 159a3046ccb6e20310c49f62e863103aded4ba2c8bf8e291ad0f2871d2d5d6a5 SHA512: 42e4dfb195d0b101bfcfe44ff985a71c06e48c5ec2ee9ddea8a07f29127b2f8ad14491a2a1ea0454236430bb8b1e1619b78a7813bf101c097dd52d66605fd3bc Homepage: https://cran.r-project.org/package=KENDL Description: CRAN Package 'KENDL' (Kernel-Smoothed Nonparametric Methods for Environmental ExposureData Subject to Detection Limits) Calculate the kernel-smoothed nonparametric estimator for the exposure distribution in presence of detection limits. Package: r-cran-keng Architecture: all Version: 2024.12.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 240 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-car, r-cran-effectsize, r-cran-testthat Filename: pool/dists/focal/main/r-cran-keng_2024.12.15-1.ca2004.1_all.deb Size: 117260 MD5sum: 89ddf897a926f36af5eb570910c723dc SHA1: de754d05ea3d0b24bcb761fd36b47456d961619e SHA256: 090c89c5d5ad66745d174ba973f0fdcecbe0ade60ab0fdcb19c88fda93bb7114 SHA512: fd046df2b6b08e2778f86e1188b57e6ab15cde4ecaaa731cab08e3cb66038e4a37aec5d695c2cf020d293102fa101678a5b9ed61f56301d14ba9d53699cb5384 Homepage: https://cran.r-project.org/package=Keng Description: CRAN Package 'Keng' (Knock Errors Off Nice Guesses) Miscellaneous functions and data used in psychological research and teaching. Keng currently has a built-in dataset depress, and could (1) scale a vector; (2) compute the cut-off values of Pearson's r with known sample size; (3) test the significance and compute the post-hoc power for Pearson's r with known sample size; (4) conduct prior power analysis and plan the sample size for Pearson's r; (5) compare lm()'s fitted outputs using R-squared, f_squared, post-hoc power, and PRE (Proportional Reduction in Error, also called partial R-squared or partial Eta-squared); (6) calculate PRE from partial correlation, Cohen's f, or f_squared; (7) conduct prior power analysis and plan the sample size for one or a set of predictors in regression analysis; (8) conduct post-hoc power analysis for one or a set of predictors in regression analysis with known sample size. Package: r-cran-kensyn Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nlme, r-cran-lme4, r-cran-metafor Filename: pool/dists/focal/main/r-cran-kensyn_0.3-1.ca2004.1_all.deb Size: 68972 MD5sum: 255f6f3734bcea6ae76342913a68f9db SHA1: 20dadc05aa0a305a1246ccbdb74874ee3f965f57 SHA256: b97de09715d1929e3320e555e8812608a361cf3408b090d3eea673e7407f3821 SHA512: a34d56c4756ab14980ef69e52963c812188d253b2cff4085cdf07bc96208996306363689ddcc9e08fcc31b885374012d29055df4ed8222238479f1476249d034 Homepage: https://cran.r-project.org/package=KenSyn Description: CRAN Package 'KenSyn' (Knowledge Synthesis in Agriculture - From Experimental Networkto Meta-Analysis) Demo and dataset accompaying the books : De l'analyse des réseaux expérimentaux à la méta-analyse: Méthodes et applications avec le logiciel R pour les sciences agronomiques et environnementales (Published 2018-06-28, Quae, for french version) by David Makowski, Francois Piraux and Francois Brun - Knowledge Synthesis in Agriculture : from Experimental Network to Meta-Analysis (in preparation for 2018-06, Springer , for English version) by David Makowski, Francois Piraux and Francois Brun A full description of all the material is in both books. ACKNOWLEDGMENTS : The French network "RMT modeling and data analysis for agriculture" () have contributed to the development of this R package. This project and network are lead by ACTA (French Technical Institute for Agriculture) and was funded by a grant from the Ministry of Agriculture and Fishing of France. 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Package: r-cran-kerastuner Architecture: all Version: 0.1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-reticulate, r-cran-tensorflow, r-cran-rstudioapi, r-cran-plotly, r-cran-data.table, r-cran-rjsonio, r-cran-rjson, r-cran-tidyjson, r-cran-dplyr, r-cran-echarts4r, r-cran-crayon, r-cran-magick Suggests: r-cran-keras3, r-cran-knitr, r-cran-tfdatasets, r-cran-testthat, r-cran-purrr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-kerastuner_0.1.0.7-1.ca2004.1_all.deb Size: 96880 MD5sum: d3ab8dbcb21b22b4bae34d7377251345 SHA1: a92ce330ad1d93726e9fc5606555e2bf175446e0 SHA256: fa2ab6ae8f7c75754d2c69b0ed61233193a926d4345975027e7ebca08d813bc9 SHA512: 7d85e74a886f72dd25d1e0c56a042bc0db91f1d7b1495029cc103983aa58af6ff072510da86c660940d9eb4c2531701221d17f2fa04aa185720234f29a85818c Homepage: https://cran.r-project.org/package=kerastuneR Description: CRAN Package 'kerastuneR' (Interface to 'Keras Tuner') 'Keras Tuner' is a hypertuning framework made for humans. 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Package: r-cran-kerdaa Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-kerdaa_0.1.1-1.ca2004.1_all.deb Size: 20472 MD5sum: 3f587a93b0f9491fcbe341424c6d689c SHA1: bfbc3a65ca35eb129b030294832c37adfe3d81c4 SHA256: a83317920d10e2bdaa817e8077b83412fc7d200a95f1cea6de7d9ace29e873a8 SHA512: fd325342c0d9953680a93d74f9582ed8c874a8e19b847e17d030761e6c08b13127c24c6fecfaec965b8418125a688b7dcdda27d98442019a1d4d9e041e6d4514 Homepage: https://cran.r-project.org/package=kerDAA Description: CRAN Package 'kerDAA' (New Kernel-Based Test for Differential Association Analysis) A new practical method to evaluate whether relationships between two sets of high-dimensional variables are different or not across two conditions. Song, H. and Wu, M.C. (2023) . 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Package: r-cran-kernelfactory Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-randomforest, r-cran-auc, r-cran-genalg, r-cran-kernlab Filename: pool/dists/focal/main/r-cran-kernelfactory_0.3.0-1.ca2004.1_all.deb Size: 54720 MD5sum: e7a229191ccff736dde3c75aeb4dce02 SHA1: 908b815430069ffd5a4117ef790aea90484c145a SHA256: e2999a9a89b7afd65b648ecf09b9098a8f933ec1f2a3021a1daa5e0444fa67d6 SHA512: 8498e7cd2a31f2b43ab8a20767077b3cb89c61c08efd41ca56108cc487b359629fa462fec23d0a4d58e70c577a1c7d50ec23d92a019da5fd1789cb913263810c Homepage: https://cran.r-project.org/package=kernelFactory Description: CRAN Package 'kernelFactory' (Kernel Factory: An Ensemble of Kernel Machines) Binary classification based on an ensemble of kernel machines ("Ballings, M. and Van den Poel, D. (2013), Kernel Factory: An Ensemble of Kernel Machines. 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Package: r-cran-kernelheaping Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-ks, r-cran-sparr, r-cran-sp, r-cran-plyr, r-cran-dplyr, r-cran-fastmatch, r-cran-fitdistrplus, r-cran-gb2, r-cran-magrittr, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-kernelheaping_2.3.0-1.ca2004.1_all.deb Size: 171520 MD5sum: a774eaff10fe17ddb58843c54f85d6c6 SHA1: 2b76225504dd24975e3036df0fca55165a8da3ce SHA256: b13513f5c2f7628343c681642a6d8d466f3b5ac296d80da328553968745ee192 SHA512: 00590487312bad9413e99beaeee531365594daf10a17dcfc66638fe4a0da58d2bc219d2b9dfcdbca3f528195aeec0db8fce53037e3442346ae4df5222b8a53a6 Homepage: https://cran.r-project.org/package=Kernelheaping Description: CRAN Package 'Kernelheaping' (Kernel Density Estimation for Heaped and Rounded Data) In self-reported or anonymised data the user often encounters heaped data, i.e. data which are rounded (to a possibly different degree of coarseness). 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Package: r-cran-kernelphil Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-benchmarkme, r-cran-directlabels, r-cran-dplyr, r-cran-ggplot2, r-cran-gridextra, r-cran-hmisc, r-cran-pbapply, r-cran-rgdal, r-cran-reshape2, r-cran-wordspace Filename: pool/dists/focal/main/r-cran-kernelphil_0.1-1.ca2004.1_all.deb Size: 122668 MD5sum: 580e64eec6843c56fd5b394c6750aa48 SHA1: ad3b5c67388652e5eae39f16e4203bdb91ff181e SHA256: 2a0af56d2f8e71e2bc9315e44cf633e8f9b8d149338cbbf76e22d79ee8ca9076 SHA512: 0f3e403044f0c801a7aac67615e53a9f436201889777e7070f6fbd5f98be3967ac6b844406e395578857c2be182a438523cde4b459d65baaa22f844b94a7da00 Homepage: https://cran.r-project.org/package=kernelPhil Description: CRAN Package 'kernelPhil' (Kernel Smoothing Tools for Philology and Historical Dialectology) Contains kernel smoothing tools designed for use by historical dialectologists and philologists for exploring spatial and temporal patterns in noisy historical language data, such as that obtained from historical texts. The main way in which these might differ from other implementations of kernel smoothing is that they assume that the function (linguistic variable) being explored has the form of the relative frequency of a series of discrete possibilities (linguistic variants). This package also offers a way of exploring distributions in 2-dimensional space and in time with separate kernels, and tools for identifying appropriate bandwidths for these. Package: r-cran-kernelshap Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2014 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-foreach, r-cran-mass Suggests: r-cran-dofuture, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kernelshap_0.7.0-1.ca2004.1_all.deb Size: 237724 MD5sum: 832fd6f89634641f44418931b98986d7 SHA1: 8456efd4417e7cb3d7fadd452ba630f7caaeb8d8 SHA256: b976e00d5923824f41379f6975361cb1764a44c5cbca92627b3a846251ef6889 SHA512: d8cbb3b02049b6823d25872afbdcb1cf524d5d7c0e8576f499a22e5f8ca9e8a4b12e0a9246ab00b5f3b0d90e0ba372fa2b38b6536ca6707d21db1582f737122b Homepage: https://cran.r-project.org/package=kernelshap Description: CRAN Package 'kernelshap' (Kernel SHAP) Efficient implementation of Kernel SHAP, see Lundberg and Lee (2017), and Covert and Lee (2021) . Furthermore, for up to 14 features, exact permutation SHAP values can be calculated. The package plays well together with meta-learning packages like 'tidymodels', 'caret' or 'mlr3'. Visualizations can be done using the R package 'shapviz'. Package: r-cran-kernhaz Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rgl, r-cran-foreach, r-cran-doparallel, r-cran-ga Suggests: r-cran-survival Filename: pool/dists/focal/main/r-cran-kernhaz_0.1.0-1.ca2004.1_all.deb Size: 101624 MD5sum: a3e24cb4eb5df92b7832e66cb7f72c77 SHA1: 63cf046e25e0edf411b0198a7523d95fdd33ef95 SHA256: e7f8c4621a75346419a11de32a0f758b96d8834acb1b97e2a3bf48af8012108c SHA512: 82e7688a59a5c43e9ad1e95bca11416795097cd51b433edc7b7e431cf3eb57f7f93ef1033539af22ef3373a1b078c2d91c85c7d290ad07d4b096007bd86b9c71 Homepage: https://cran.r-project.org/package=kernhaz Description: CRAN Package 'kernhaz' (Kernel Estimation of Hazard Function in Survival Analysis) Producing kernel estimates of the unconditional and conditional hazard function for right-censored data including methods of bandwidth selection. Package: r-cran-kernopt Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 360 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kernopt_1.0.0-1.ca2004.1_all.deb Size: 163592 MD5sum: aa637d99ec0682ef24a94675222b4970 SHA1: 2b5642d3dad975119cab1c7da8a49c01faa7dbdd SHA256: 8dc9f236f90dec21b5618f410352a107f208b782d143e7cf4b2aaab5dc49720a SHA512: db6c7e4c3f35f72be4a9cce295e194a49306e03f0a09bebce4d425dc015de0640493974fb811baeea3dbc6a1f73cdba4f2d8dac5c81b6b73984a7c053e48936a Homepage: https://cran.r-project.org/package=kernopt Description: CRAN Package 'kernopt' (Estimating Count Data Distributions with Discrete OptimalSymmetric Kernel) Implementation of Discrete Symmetric Optimal Kernel for estimating count data distributions, as described by T. Senga Kiessé and G. Durrieu (2024) .The nonparametric estimator using the discrete symmetric optimal kernel was illustrated on simulated data sets and a real-word data set included in the package, in comparison with two other discrete symmetric kernels. Package: r-cran-kernplus Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-circular, r-cran-kernsmooth, r-cran-mixtools Filename: pool/dists/focal/main/r-cran-kernplus_0.1.2-1.ca2004.1_all.deb Size: 68136 MD5sum: 4dbd192e9db691b29450d083153767a0 SHA1: 050e62241648a9cc33851eaebf7656bac87d83f3 SHA256: 51712f9b0015322a596d525e070510c3b42b9b82d08e44e788c1351ed3a43f1c SHA512: f6aaf253e28e2bda43bac1b07a54f94ae10a3b61c28a51913cfc5324ed85c3b3bb028b6d852717e17b2792960b2791a17523a00ae0c2e7c03fd9c0ad2b81ffd6 Homepage: https://cran.r-project.org/package=kernplus Description: CRAN Package 'kernplus' (A Kernel Regression-Based Multidimensional Wind Turbine PowerCurve) Provides wind energy practitioners with an effective machine learning-based tool that estimates a multivariate power curve and predicts the wind power output for a specific environmental condition. Package: r-cran-kernscr Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-mvtnorm Suggests: r-cran-readxl, r-bioc-org.hs.eg.db Filename: pool/dists/focal/main/r-cran-kernscr_1.0.6-1.ca2004.1_all.deb Size: 100108 MD5sum: e81debc26e3699bcffdc928e28ac4c69 SHA1: 315f2f863ca5d7144e492e7dc3e55f52ff35f8a3 SHA256: 0b60ec59b1e6ec0501b133df07623990e64bbd1c368db29096d4375de89d59f9 SHA512: ab8b2a53f16e2c6ef5de16441e5e0786ecb638efc3af25a15d16f193cfe64b9d17fe2a1dc3337a5bbfa16d606c5357ab44563f208b0467935930055cf0933261 Homepage: https://cran.r-project.org/package=kernscr Description: CRAN Package 'kernscr' (Kernel Machine Score Test for Semi-Competing Risks) Kernel Machine Score Test for Pathway Analysis in the Presence of Semi-Competing Risks. Method is detailed in: Neykov, Hejblum & Sinnott (2018) . Package: r-cran-kernstadapt Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1630 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-misc3d, r-cran-sparr, r-cran-spatstat.explore, r-cran-spatstat.univar, r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-spatstat.utils, r-cran-spatstat.linnet Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-kernstadapt_0.4.0-1.ca2004.1_all.deb Size: 1573008 MD5sum: 10e1c7c28694080f12cab7a73fde182a SHA1: a9451b9d6cf989e46565c84c8e09727ec98c9d1f SHA256: 73781ee40371b45c9288f191911d353c84984657d6b04a4f194b2f247f8ffbc0 SHA512: 971ae354cad623a3206cb9b4aebfea6203a7c09d9c7b1e9b1b7fefebaf4135aa5562c3da312d977a5982d5041fc8cb800f2809490a1ae067ebd4035eba8b7ba0 Homepage: https://cran.r-project.org/package=kernstadapt Description: CRAN Package 'kernstadapt' (Adaptive Kernel Estimators for Point Process Intensities onLinear Networks) Adaptive estimation of the first-order intensity function of a spatio-temporal point process using kernels and variable bandwidths. The methodology used for estimation is presented in González and Moraga (2022). . Package: r-cran-kerntools Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1764 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-kernlab, r-cran-reshape2, r-cran-stringi Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kerntools_1.2.0-1.ca2004.1_all.deb Size: 1166160 MD5sum: 1b9305039d91e576fa8124c2969860b1 SHA1: ccdcbb72228304669cac32c504ef27f2e7b00c0a SHA256: 7f07ba77a78125dca35b9f1f38ecbf34136861e99d14104cba7083b5c7df9c56 SHA512: 51319f8772b24ec73438a453c4ca5201e09365a753519e037514ec39926fee0dbc793207ad107a8bd2371222011c074236b26549e75326262306268d6ae00241 Homepage: https://cran.r-project.org/package=kerntools Description: CRAN Package 'kerntools' (Kernel Functions and Tools for Machine Learning Applications) Kernel functions for diverse types of data (including, but not restricted to: nonnegative and real vectors, real matrices, categorical and ordinal variables, sets, strings), plus other utilities like kernel similarity, kernel Principal Components Analysis (PCA) and features' importance for Support Vector Machines (SVMs), which expand other 'R' packages like 'kernlab'. Package: r-cran-kertests Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-kertests_0.1.4-1.ca2004.1_all.deb Size: 24524 MD5sum: e09a08c888cf77f77037181c5f7987b1 SHA1: 84b86a6ab11f369a418ef688aec806f5ff6cc3a0 SHA256: 6f5c8a6deb20a3bc450fcff583f79a8f040f2c0e9f0c592b94eacd2203b6d2d6 SHA512: b6ec3c14eb0fbf302528c108073007235174829487b0354c6ab9ce99224e13838b3d40fd7aca73dc89a0f392c0cb6089e2e43b988a11d80e582b46cf533100ea Homepage: https://cran.r-project.org/package=kerTests Description: CRAN Package 'kerTests' (Generalized Kernel Two-Sample Tests) New kernel-based test and fast tests for testing whether two samples are from the same distribution. They work well particularly for high-dimensional data. Song, H. and Chen, H. (2023) . Package: r-cran-kesernetwork Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 999 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shinybs, r-cran-shiny, r-cran-htmltools, r-cran-config, r-cran-data.table, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-golem, r-cran-plotly, r-cran-reactable, r-cran-rintrojs, r-cran-rlang, r-cran-shinycssloaders, r-cran-shinydashboard, r-cran-shinydashboardplus, r-cran-shinyhelper, r-cran-shinywidgets, r-cran-stringr, r-cran-visnetwork, r-cran-yaml Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-shinytest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kesernetwork_0.1.0-1.ca2004.1_all.deb Size: 695160 MD5sum: a183d7be8440036db04eaf6c10ee3585 SHA1: 53deab11c4e455ce54e153aed99522604e7d940b SHA256: b126e941125d1efb9ae6a80f5a6bb221aaeb6b0bd84d1f29bb324db72d3e56da SHA512: 048e1e729b86e5df16cc7c5611566cfd6de61de7914b8e884e04a3da3441e8061f541df21b1b57ae6e0679c26cc407f697dea52eb91c5d8d4d2b3d573a171f00 Homepage: https://cran.r-project.org/package=kesernetwork Description: CRAN Package 'kesernetwork' (Visualization of the KESER Network) A shiny app to visualize the knowledge networks for the code concepts. Using co-occurrence matrices of EHR codes from Veterans Affairs (VA) and Massachusetts General Brigham (MGB), the knowledge extraction via sparse embedding regression (KESER) algorithm was used to construct knowledge networks for the code concepts. Background and details about the method can be found at Chuan et al. (2021) . Package: r-cran-keyboard Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 305 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rcpp, r-cran-iso, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-keyboard_0.1.3-1.ca2004.1_all.deb Size: 266936 MD5sum: 0d0c6378551848fc249b7be14e07ba0d SHA1: 19a8e80a1178f6ed136cf4aea01ab9c49bcaed9e SHA256: 95f2a807bb72432814dd66affa429afa26f96f57d2b574085a508c95309acff1 SHA512: 34022a1492e7a9cc9588ea070c0c73dd3a82df7fc0e371592c197824d5cdbe5087e9305a59ce89d8d2a442140e0c06fdfa31f6f0a5a390586c3025ac0998dece Homepage: https://cran.r-project.org/package=Keyboard Description: CRAN Package 'Keyboard' (Bayesian Designs for Early Phase Clinical Trials) We developed a package 'Keyboard' for designing single-agent, drug-combination, or phase I/II dose-finding clinical trials. The 'Keyboard' designs are novel early phase trial designs that can be implemented simply and transparently, similar to the 3+3 design, but yield excellent performance, comparable to those of more-complicated, model-based designs (Yan F, Mandrekar SJ, Yuan Y (2017) , Li DH, Whitmore JB, Guo W, Ji Y. (2017) , Liu S, Johnson VE (2016) , Zhou Y, Lee JJ, Yuan Y (2019) , Pan H, Lin R, Yuan Y (2020) ). The 'Keyboard' package provides tools for designing, conducting, and analyzing single-agent, drug-combination, and phase I/II dose-finding clinical trials. For more details about how to use this packge, please refer to Li C, Sun H, Cheng C, Tang L, and Pan H. (2022) "A software tool for both the maximum tolerated dose and the optimal biological dose finding trials in early phase designs". Manuscript submitted for publication. Package: r-cran-keyholder Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-tibble Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-keyholder_0.1.7-1.ca2004.1_all.deb Size: 88884 MD5sum: 14109c55cd68e8cf5231ef0b183b70c5 SHA1: 901b68eb372b38ab6aecad197faf0a564cb3b450 SHA256: 1224f8d0ce58b65eccf72b91ed78f0ed1fb5e6706da4ddfbcb43baf1b9c8dd64 SHA512: 16b1ed786eaaeec9acdd93f089407de4c3757fce0593e1e0e0b6e88dbc8f1c8b0e725bd76cbb9e1a3e18b68270a97087fc3614a2bb8b4b20b50cffa03812eeda Homepage: https://cran.r-project.org/package=keyholder Description: CRAN Package 'keyholder' (Store Data About Rows) Tools for keeping track of information, named "keys", about rows of data frame like objects. This is done by creating special attribute "keys" which is updated after every change in rows (subsetting, ordering, etc.). This package is designed to work tightly with 'dplyr' package. 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Package: r-cran-keytoenglish Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 286 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-openssl, r-cran-stringr, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-keytoenglish_0.2.1-1.ca2004.1_all.deb Size: 231120 MD5sum: 69c0f58732f152c917d7158260474b93 SHA1: 580b8193f28037f81035e55b2c188a20c5164d56 SHA256: da38fc0b4501dc85e59cb3058d9d983cda117e76c3a56cc8ff9d0ebb0f044c52 SHA512: fb4da43c45f23ae08ee751188deac4391d9dc5d29d8f29d32771a56d65f4710dbb8d783e0212d4f7bb32c4ab60ce49a2d912d3258613889d8f45de9811d8cc2c Homepage: https://cran.r-project.org/package=keyToEnglish Description: CRAN Package 'keyToEnglish' (Convert Data to Memorable Phrases) Convert keys and other values to memorable phrases. Includes some methods to build lists of words. Package: r-cran-kfa Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3521 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-doparallel, r-cran-flextable, r-cran-foreach, r-cran-gparotation, r-cran-knitr, r-cran-lavaan, r-cran-officer, r-cran-rmarkdown, r-cran-semtools, r-cran-simstandard Suggests: r-cran-semplot Filename: pool/dists/focal/main/r-cran-kfa_0.2.2-1.ca2004.1_all.deb Size: 3523796 MD5sum: 5f6526d3f4aceff1b4960fe7cda7b95b SHA1: 558cd7ed2ee2d7cbc8bd184a296862f5337a3b2d SHA256: c2b5bb3d2da9aaad52084af340bc7f3d894ee9a9c763e0d2cd8724d7b7da9682 SHA512: 13708e57143641882dc93c3f2a327b98dbc14d2a056494b470c05e0c2e0d5ed7dace11ba02ccab4d637073a15f44fae28d7b10787b35d4c0773d8e7484406584 Homepage: https://cran.r-project.org/package=kfa Description: CRAN Package 'kfa' (K-Fold Cross Validation for Factor Analysis) Provides functions to identify plausible and replicable factor structures for a set of variables via k-fold cross validation. The process combines the exploratory and confirmatory factor analytic approach to scale development (Flora & Flake, 2017) with a cross validation technique that maximizes the available data (Hastie, Tibshirani, & Friedman, 2009) . Also available are functions to determine k by drawing on power analytic techniques for covariance structures (MacCallum, Browne, & Sugawara, 1996) , generate model syntax, and summarize results in a report. Package: r-cran-kfda Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernlab, r-cran-mass Filename: pool/dists/focal/main/r-cran-kfda_1.0.0-1.ca2004.1_all.deb Size: 19388 MD5sum: ec568299c38238f8d3e7f266b8aee0bd SHA1: 3860d5cefe6a0582ad6ba71807a35a216d8086a0 SHA256: b23517732e713c4ce1bbb02079af3a5cafe69b3a61768f2e91dda295c3173454 SHA512: d2b6beee9433442dc4bf114895be8bf8e5f3f4d5fe11529594d9556fd378f7d828fa6d1bb7a6ae087b9307174c5b3cc736cbad63cdaabc5d061d8e30a3ee0847 Homepage: https://cran.r-project.org/package=kfda Description: CRAN Package 'kfda' (Kernel Fisher Discriminant Analysis) Kernel Fisher Discriminant Analysis (KFDA) is performed using Kernel Principal Component Analysis (KPCA) and Fisher Discriminant Analysis (FDA). There are some similar packages. First, 'lfda' is a package that performs Local Fisher Discriminant Analysis (LFDA) and performs other functions. In particular, 'lfda' seems to be impossible to test because it needs the label information of the data in the function argument. Also, the 'ks' package has a limited dimension, which makes it difficult to analyze properly. This package is a simple and practical package for KFDA based on the paper of Yang, J., Jin, Z., Yang, J. Y., Zhang, D., and Frangi, A. F. (2004) . Package: r-cran-kfigr Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-knitr Suggests: r-cran-ggplot2, r-cran-markdown Filename: pool/dists/focal/main/r-cran-kfigr_1.2.1-1.ca2004.1_all.deb Size: 43432 MD5sum: 1814c9ae68097ff825cd92b4b3b0b89e SHA1: 41f46d1df6585e8857d70f11cbfb639a67b1bba0 SHA256: 3bfdc2b5fe32092be52b11e7af5f18b9c1dc825a54959665a09ecf09dcb6d31e SHA512: ed0df0880eb61cce51aba25b6ff8a131af4b9b3ed0b95ad9c8356b8411044608e2235226bd90429e3c6eadf248bfb00254d127885e773c5d546fc2493b627d20 Homepage: https://cran.r-project.org/package=kfigr Description: CRAN Package 'kfigr' (Integrated Code Chunk Anchoring and Referencing for R MarkdownDocuments) A streamlined cross-referencing system for R Markdown documents generated with 'knitr'. R Markdown is an authoring format for generating dynamic content from R. 'kfigr' provides a hook for anchoring code chunks and a function to cross-reference document elements generated from said chunks, e.g. figures and tables. Package: r-cran-kfino Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2573 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-covr, r-cran-foreach, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-kfino_1.0.0-1.ca2004.1_all.deb Size: 858528 MD5sum: 7525b3d74d9c2aa8952b9310e641658b SHA1: c58c04b960c553159440e827df27757300de87f6 SHA256: becaf9d2c6d2a4e7981aaaee6423d12505fcb179c1d4fc8a6d55ff27e309f5dc SHA512: d082e38d8df019a394b550a8245b8349e08ab1e49e8fc336255bb5cfbe686c1adf905a362cec6edaa94e06446fd6891da3975f52b85a22786340c83a0ad0d3ab Homepage: https://cran.r-project.org/package=kfino Description: CRAN Package 'kfino' (Kalman Filter for Impulse Noised Outliers) A method for detecting outliers with a Kalman filter on impulsed noised outliers and prediction on cleaned data. 'kfino' is a robust sequential algorithm allowing to filter data with a large number of outliers. This algorithm is based on simple latent linear Gaussian processes as in the Kalman Filter method and is devoted to detect impulse-noised outliers. These are data points that differ significantly from other observations. 'ML' (Maximization Likelihood) and 'EM' (Expectation-Maximization algorithm) algorithms were implemented in 'kfino'. The method is described in full details in the following arXiv e-Print: . Package: r-cran-kfpca Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kader, r-cran-pracma, r-cran-fdapace, r-cran-fda Filename: pool/dists/focal/main/r-cran-kfpca_2.0-1.ca2004.1_all.deb Size: 85504 MD5sum: de24ca875251ccd7f431873be0c678f2 SHA1: 47982e2f83823a310e338bfaf0756416db4ab791 SHA256: dea52e4f39e96a2e0fc9a3afebbf29e783d715dcddd2e4e28084326aec3676ee SHA512: 36e9bff6f4e5afd4225772fc671019583edfba891fd322d36c430521716641ed820beb08932ff35948f3b1b267f3064bf29f40f4489966cc4116294dd0d9c56b Homepage: https://cran.r-project.org/package=KFPCA Description: CRAN Package 'KFPCA' (Kendall Functional Principal Component Analysis) Implementation for Kendall functional principal component analysis. Kendall functional principal component analysis is a robust functional principal component analysis technique for non-Gaussian functional/longitudinal data. The crucial function of this package is KFPCA() and KFPCA_reg(). Moreover, least square estimates of functional principal component scores are also provided. Refer to Rou Zhong, Shishi Liu, Haocheng Li, Jingxiao Zhang. (2021) . Rou Zhong, Shishi Liu, Haocheng Li, Jingxiao Zhang. (2021) . Package: r-cran-kfpls Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fda Filename: pool/dists/focal/main/r-cran-kfpls_1.0-1.ca2004.1_all.deb Size: 26396 MD5sum: 1d66e6c9e62391e40d02b1896934c096 SHA1: 1db3f6bee1d2fdb80dd749647f7a7125dd86230d SHA256: bd68a8b6f2ed9e346932b3f5d6bd8b9c4ebb07e3b72833718627593ab3f759e5 SHA512: 559b8b731af701a2f9b519306faba730c0e147b1f629dfd2b267e2d470399dc317ed15a5a4b4e7feeb5e75b656fe20f9d4c08f8610af4f8257d0b7d074507148 Homepage: https://cran.r-project.org/package=KFPLS Description: CRAN Package 'KFPLS' (Kernel Functional Partial Least Squares) Implementation for kernel functional partial least squares (KFPLS) method. KFPLS method is developed for functional nonlinear models, and the method does not require strict constraints for the nonlinear structures. The crucial function of this package is KFPLS(). Package: r-cran-kgc Architecture: all Version: 1.0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3478 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-shinythemes, r-cran-plyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kgc_1.0.0.2-1.ca2004.1_all.deb Size: 2467252 MD5sum: 68ada4e7ba363408152613e26e87d6f2 SHA1: 423fe510798f03ef03943b4e46324bcff149205a SHA256: 1b670e73746a93f0ae2216e85b4a81a2e0b0554c6af3a4edf90b295db99fe1ae SHA512: 131236c791ef706f79988ade064081fd222b76d53a6a7460857271d4962a0d97f60f138eb5bf6fa2c0f8ee47c84ef92af3a971620c711a0e69b4d154e3b88ac8 Homepage: https://cran.r-project.org/package=kgc Description: CRAN Package 'kgc' (Koeppen-Geiger Climatic Zones) Aids in identifying the Koeppen-Geiger (KG) climatic zone for a given location. The Koeppen-Geiger climate zones were first published in 1884, as a system to classify regions of the earth by their relative heat and humidity through the year, for the benefit of human health, plant and agriculture and other human activity [1]. This climate zone classification system, applicable to all of the earths surface, has continued to be developed by scientists up to the present day. Recently one of use (FZ) has published updated, higher accuracy KG climate zone definitions [2]. In this package we use these updated high-resolution maps as the data source [3]. We provide functions that return the KG climate zone for a given longitude and lattitude, or for a given United States zip code. In addition the CZUncertainty() function will check climate zones nearby to check if the given location is near a climate zone boundary. In addition an interactive shiny app is provided to define the KG climate zone for a given longitude and lattitude, or United States zip code. Digital data, as well as animated maps, showing the shift of the climate zones are provided on the following website . This work was supported by the DOE-EERE SunShot award DE-EE-0007140. [1] W. Koeppen, (2011) . [2] F. Rubel and M. Kottek, (2010) . [3] F. Rubel, K. Brugger, K. Haslinger, and I. Auer, (2016) . Package: r-cran-kgen Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rjson, r-cran-reticulate, r-cran-rappdirs, r-cran-checkmate, r-cran-pbapply, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-kgen_0.3.1-1.ca2004.1_all.deb Size: 79432 MD5sum: 781bdd8559cfb548b2b015740590badd SHA1: 57598cb20f8fb832dbbb37ba9ba9b0b260d3f9e9 SHA256: 8fd927f0b71e3eb89fb1eda3b2b3bb47f19a28878d30aeb4a56a91e64720cde9 SHA512: 1f705bf4fd3fcc51324f1263b94c6e7e6d8a49ead5c1955c7204d331ce99ec1b8502702b8468b6e281e2ac143e7bb61782b244324e8ea05308e85f820d6d69d7 Homepage: https://cran.r-project.org/package=kgen Description: CRAN Package 'kgen' (A Tool for Calculating Stoichiometric Equilibrium Constants (Ks)for Seawater) A unified software package simultaneously implemented in 'Python', 'R', and 'Matlab' providing a uniform and internally-consistent way of calculating stoichiometric equilibrium constants in modern and palaeo seawater as a function of temperature, salinity, pressure and the concentration of magnesium, calcium, sulphate, and fluorine. Package: r-cran-kgode Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 416 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-r6, r-cran-pracma, r-cran-pspline, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-kgode_1.0.4-1.ca2004.1_all.deb Size: 374200 MD5sum: 9c7ec1071bc39015d3861fc0fa8ab6a3 SHA1: 8984e18ea5adbab958f8362c6d65e132ed47776e SHA256: d99f2cde07dd033c971bb5b5aa82c6d7e40eaff2618f74b5327e47381bd9ac5a SHA512: 3b158cdda3eaffb5a4587faf52928a6137f014f27260a43cabf8abe3a68176a684bb26066fb9e09f1fc66deda7e2bdfd7c94a1dcc3e9c143f0110c6d99efa51d Homepage: https://cran.r-project.org/package=KGode Description: CRAN Package 'KGode' (Kernel Based Gradient Matching for Parameter Inference inOrdinary Differential Equations) The kernel ridge regression and the gradient matching algorithm proposed in Niu et al. (2016) and the warping algorithm proposed in Niu et al. (2017) are implemented for parameter inference in differential equations. Four schemes are provided for improving parameter estimation in odes by using the odes regularisation and warping. Package: r-cran-kgp Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 726 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-tibble Filename: pool/dists/focal/main/r-cran-kgp_1.1.1-1.ca2004.1_all.deb Size: 304160 MD5sum: 70434f297fc2702425678702713652b7 SHA1: 19719a6b0374f5dcf0999a59d5d6517d5d79a353 SHA256: 12d68bb7b293d65dac7151a3908da6ebf79ef1bf6eb5f668c1201226191b503f SHA512: 0b1df132b6d64f5f27aed3b72574e83e128124ddb80cb586881b153887371028ad2f0d75b71b64843b33bc3713124644d9482aa66cd6caa08727bc231d20f82f Homepage: https://cran.r-project.org/package=kgp Description: CRAN Package 'kgp' (1000 Genomes Project Metadata) Metadata about populations and data about samples from the 1000 Genomes Project, including the 2,504 samples sequenced for the Phase 3 release and the expanded collection of 3,202 samples with 602 additional trios. The data is described in Auton et al. (2015) and Byrska-Bishop et al. (2022) , and raw data is available at . See Turner (2022) for more details. Package: r-cran-kgraph Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1669 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-htmltools, r-cran-igraph, r-cran-magrittr, r-cran-opticskxi, r-cran-plyr, r-cran-proc, r-cran-rcolorbrewer, r-cran-reshape2, r-cran-sgraph, r-cran-shiny Suggests: r-cran-bslib, r-cran-data.table, r-cran-dt, r-cran-knitr, r-cran-nlpembeds, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kgraph_1.2.0-1.ca2004.1_all.deb Size: 1176900 MD5sum: 88f55d631cccd8563a5ff6760b4a59c5 SHA1: 40c41f0e6837abec6f44af5310d459343b16e398 SHA256: 5d1dc6f4a2c07821e077c32b5c5ba8b02bcb1d8f4d39464568a7d60a40477812 SHA512: d7e822bee89241c266eeb0cc8702fbe9402e678e190ab3302cf7a6630e2829917fda682f695c4a3e08a8d0e905af83b16e09b215f331b4c900848ccaf16e6367 Homepage: https://cran.r-project.org/package=kgraph Description: CRAN Package 'kgraph' (Knowledge Graphs Constructions and Visualizations) Knowledge graphs enable to efficiently visualize and gain insights into large-scale data analysis results, as p-values from multiple studies or embedding data matrices. The usual workflow is a user providing a data frame of association studies results and specifying target nodes, e.g. phenotypes, to visualize. The knowledge graph then shows all the features which are significantly associated with the phenotype, with the edges being proportional to the association scores. As the user adds several target nodes and grouping information about the nodes such as biological pathways, the construction of such graphs soon becomes complex. The 'kgraph' package aims to enable users to easily build such knowledge graphs, and provides two main features: first, to enable building a knowledge graph based on a data frame of concepts relationships, be it p-values or cosine similarities; second, to enable determining an appropriate cut-off on cosine similarities from a complete embedding matrix, to enable the building of a knowledge graph directly from an embedding matrix. The 'kgraph' package provides several display, layout and cut-off options, and has already proven useful to researchers to enable them to visualize large sets of p-value associations with various phenotypes, and to quickly be able to visualize embedding results. Two example datasets are provided to demonstrate these behaviors, and several live 'shiny' applications are hosted by the CELEHS laboratory and Parse Health, as the KESER Mental Health application based on Hong C. (2021) . Package: r-cran-kgschart Architecture: all Version: 1.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 452 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-abind, r-cran-deepnet, r-cran-ggplot2, r-cran-gridextra, r-cran-magrittr, r-cran-matrixstats, r-cran-nnet, r-cran-png, r-cran-shiny, r-cran-stringr Suggests: r-cran-jsonlite, r-cran-shinyjs, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kgschart_1.3.5-1.ca2004.1_all.deb Size: 390220 MD5sum: 4682cfae3b986e4d654fa39c5ca24284 SHA1: 78c725e528f8af648d92c28e7890045930905b3e SHA256: 55a52d6735a743cf4a03538115dd5b1fbe962fda321616434602262f65f05037 SHA512: 444296e2950ed8206350880e89cf48c72f39636db76869efaaf13f5fa07c436b3a6f55d0b9530add59d625122097f12c6f709e4ec4213b3dcf406a52d6a5e096 Homepage: https://cran.r-project.org/package=kgschart Description: CRAN Package 'kgschart' (KGS Rank Graph Parser) Restore underlining numeric data from rating history graph of KGS (an online platform of the game of go, ). A shiny application is also provided. Package: r-cran-khisr Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 327 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-dplyr, r-cran-httr2, r-cran-janitor, r-cran-jsonlite, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-withr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-khisr_1.0.6-1.ca2004.1_all.deb Size: 203008 MD5sum: 6111e748ea390cdef5adab912a30636e SHA1: 19f6d4e80b8ee464b04120a1c3745c9e47e0fc67 SHA256: a8c52d10da06aac075aaf9d20ca538f5f9ecf3f6c7e8c3e27566e9a2e6c58bde SHA512: eef20a828961f1e98480c5163985ff98902d4ee9706f9fddd4fa399b04387c9f6d379ca777983d14796ef3b795ba38e3e886fb38a5a7015f358edf636d96e44a Homepage: https://cran.r-project.org/package=khisr Description: CRAN Package 'khisr' (An R Client to Retrieve Data from DHIS2) Provides a user-friendly interface for interacting with the District Health Information Software 2 (DHIS2) instance. It streamlines data retrieval, empowering researchers, analysts, and healthcare professionals to obtain and utilize data efficiently. Package: r-cran-khq Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 275 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-openxlsx Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-khq_0.2.0-1.ca2004.1_all.deb Size: 94220 MD5sum: 0390dc96f31c78377d405df870944815 SHA1: 93855677a1b1821ecc1943a3ab2ecd81506c55e1 SHA256: adba6b8ae020d4111785093c4c244a4d2cf083bc8a60673000ce7e68e3a094e7 SHA512: b23fb942a13960b02ff35b8888a7b7c2bd53e9d4794a82c49a75b162a41ef34e0be154f6e251c3e4c3c1774bd3301a332bc5f33af741e8db782b4bdb5bafb161 Homepage: https://cran.r-project.org/package=KHQ Description: CRAN Package 'KHQ' (Methods for Calculating 'KHQ' Scores and 'KHQ5D' Utility IndexScores) The King's Health Questionnaire (KHQ) is a disease-specific, self-administered questionnaire designed specific to assess the impact of Urinary Incontinence (UI) on Quality of Life. The questionnaire was developed by Kelleher and collaborators (1997) . It is a simple, acceptable and reliable measure to use in the clinical setting and a research tool that is useful in evaluating UI treatment outcomes. The KHQ five dimensions (KHQ5D) is a condition-specific preference-based measure developed by Brazier and collaborators (2008) . Although not as popular as the SF6D and EQ-5D , the KHQ5D measures health-related quality of life (HRQoL) specifically for UI, not general conditions like the others two instruments mentioned. The KHQ5D ca be used in the clinical and economic evaluation of health care. The subject self-rates their health in terms of five dimensions: Role Limitation (RL), Physical Limitations (PL), Social Limitations (SL), Emotions (E), and Sleep (S). Frequently the states on these five dimensions are converted to a single utility index using country specific value sets, which can be used in the clinical and economic evaluation of health care as well as in population health surveys. This package provides methods to calculate scores for each dimension of the KHQ; converts KHQ item scores to KHQ5D scores; and also calculates the utility index of the KHQ5D. Package: r-cran-khroma Architecture: all Version: 1.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2878 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-ggraph, r-cran-knitr, r-cran-markdown, r-cran-rsvg, r-cran-scales, r-cran-spacesxyz, r-cran-svglite, r-cran-tinysnapshot, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-khroma_1.16.0-1.ca2004.1_all.deb Size: 1762332 MD5sum: 420c277728b0df597dc5557c187ed641 SHA1: d5ff8a66b79b6295cd0e64172d81b4420a2ce9e3 SHA256: 4f7a85d771f164f908bbeb6d7bb8ac103a6c843f792714bf8c644b8866743789 SHA512: 652758155f3f028b1d43813a6ec4380a2aa028074563cdcb146363d141c049601804822857dd8e1ae8b28610d630873b294a527ceeb0221038ed5d03e5cca526 Homepage: https://cran.r-project.org/package=khroma Description: CRAN Package 'khroma' (Colour Schemes for Scientific Data Visualization) Color schemes ready for each type of data (qualitative, diverging or sequential), with colors that are distinct for all people, including color-blind readers. This package provides an implementation of Paul Tol (2018) and Fabio Crameri (2018) color schemes for use with 'graphics' or 'ggplot2'. It provides tools to simulate color-blindness and to test how well the colors of any palette are identifiable. Several scientific thematic schemes (geologic timescale, land cover, FAO soils, etc.) are also implemented. Package: r-cran-kibior Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4974 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-data.table, r-cran-stringr, r-cran-purrr, r-cran-jsonlite, r-cran-rio, r-cran-dplyr, r-cran-magrittr, r-cran-tidyr, r-cran-elastic, r-bioc-biostrings, r-bioc-rsamtools, r-bioc-rtracklayer Suggests: r-cran-ggplot2, r-cran-readr, r-cran-xml2, r-cran-testthat, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-kibior_0.1.1-1.ca2004.1_all.deb Size: 1598680 MD5sum: ed1afa669985d053f48b6904afa63ea0 SHA1: d9c9a85a253df0fedd15eefb11112f214891b690 SHA256: 66da9bb48c0fcf1d16a796164eccab2a449e5125e19013a52e0e90f2f305f398 SHA512: 21546bcf2d41d7f70f17f6a7908a4e79b75972ff6a05e320a78c08feb97c85083c2d52fb5d4758876a7ba0e6cb2d5fea3af64ef4e875be0dd3001c1522822ea2 Homepage: https://cran.r-project.org/package=kibior Description: CRAN Package 'kibior' (A Simple Data Management and Sharing Tool) An interface to store, retrieve, search, join and share datasets, based on Elasticsearch (ES) API. As a decentralized, FAIR and collaborative search engine and database effort, it proposes a simple push/pull/search mechanism only based on ES, a tool which can be deployed on nearly any hardware. It is a high-level R-ES binding to ease data usage using 'elastic' package (S. Chamberlain (2020)) , extends joins from 'dplyr' package (H. Wickham et al. (2020)) and integrates specific biological format importation with Bioconductor packages such as 'rtracklayer' (M. Lawrence and al. (2009) ) , 'Biostrings' (H. Pagès and al. (2020) ) , and 'Rsamtools' (M. Morgan and al. (2020) ) , but also a long list of more common ones with 'rio' (C-h. Chan and al. (2018)) . Package: r-cran-kidney.epi Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1077 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-readxl, r-cran-openxlsx, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-kidney.epi_1.4.0-1.ca2004.1_all.deb Size: 526956 MD5sum: 4bce97dfc8ffb459036841f33c021b8a SHA1: 93e7d5b8e38ac0489bebd79cbd87a18cdb977b5e SHA256: 23d7c23264cad39cb8894ffbd69701b6a6f4569fc07f14f3415038a839a177dd SHA512: b065cc2133f3e2300910ee9cdee1e7e3ef486463965bdfa14566fd6455a3b2361bd4cb0b30543862dd613d2631fdb628e54c500db0631a6af98c39f932cad89b Homepage: https://cran.r-project.org/package=kidney.epi Description: CRAN Package 'kidney.epi' (Kidney-Related Functions for Clinical and EpidemiologicalResearch) Contains kidney care oriented functions. Current version contains functions for calculation of: - Estimated glomerular filtration rate by CKD-EPI (2021 and 2009), MDRD, CKiD, FAS, EKFC, etc. - Kidney Donor Risk Index and Kidney Donor Profile Index for kidney transplant donors. - Citation: Bikbov B. kidney.epi: Kidney-Related Functions for Clinical and Epidemiological Research. Scientific-Tools.Org, . . Package: r-cran-kidsides Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dbi, r-cran-rsqlite, r-cran-r.utils Suggests: r-cran-ggplot2, r-cran-dbplyr, r-cran-tidyr, r-cran-stringr, r-cran-ggthemes, r-cran-rlang, r-cran-ggrepel, r-cran-scales, r-cran-pacman, r-cran-dplyr, r-cran-rmarkdown, r-cran-knitr, r-cran-covr, r-cran-testthat, r-cran-dt, r-cran-gt, r-cran-lobstr, r-cran-prettyunits, r-cran-purrr, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-kidsides_0.5.0-1.ca2004.1_all.deb Size: 24116 MD5sum: afa2d6c14439c410a7ce235ec6be9a68 SHA1: 0c99d184755d37b2e156f2ea0bfcc42ef3028ae3 SHA256: b9cbcd360bc8f8b7c137e80a5c2f8fb3b0bc2ee07c071b262ee919bed16b8cf4 SHA512: fdd415162ab8866229660227bda9946556cd326f06b7f0e074b5ba2bcc34dc3c137d82e8e036949971dc1d50a32132ed602c87f8665a98ba34bb4c8b16387ab3 Homepage: https://cran.r-project.org/package=kidsides Description: CRAN Package 'kidsides' (Download, Cache, and Connect to KidSIDES) Caches and then connects to a 'sqlite' database containing half a million pediatric drug safety signals. The database is part of a family of resources catalogued at . The database contains 17 tables where the description table provides a map between the fields the field's details. The database was created by Nicholas Giangreco during his PhD thesis which you can read in Giangreco (2022) . The observations are from the Food and Drug Administration's Adverse Event Reporting System. Generalized additive models estimated drug effects across child development stages for the occurrence of an adverse event when exposed to a drug compared to other drugs. Read more at the methods detailed in Giangreco (2022) . Package: r-cran-kifidi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-kifidi_0.1.0-1.ca2004.1_all.deb Size: 21228 MD5sum: dc3f1b9124f175c6cd0ea132bb74a588 SHA1: a588bb749c7deff8751067efa059879975dd5ea9 SHA256: 3f99f37c5c25d49eeea4f22eb01b4b4d0aaca82d82bcd65a626c29a823e071bd SHA512: 878f9be5a291c9d79895bad9714dc8ac436104f9cdd74a1848a37befca7aa7ce27b0b2bad20d663df7101d1572f6fbffc241f38e1379fea54dfe0c3ee911ba6b Homepage: https://cran.r-project.org/package=Kifidi Description: CRAN Package 'Kifidi' (Summary Table and Means Plots) Optimized for handling complex datasets in environmental and ecological research, this package offers functionality that is not fully met by general-purpose packages. It provides two key functions, 'summarize_data()', which summarizes datasets, and 'plot_means()', which creates plots with error bars. 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Package: r-cran-kim Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1015 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-remotes Suggests: r-cran-boot, r-cran-ggplot2, r-cran-moments, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kim_0.6.1-1.ca2004.1_all.deb Size: 939896 MD5sum: ec374c7ea93dccca1e4bbfd146f54162 SHA1: 913a3d87a62aee3b422a7056a89f329bf5a37f1c SHA256: c6867d330365c031d074b717f9f238b7daae21bbeaf29068c9fefd7ee97e8629 SHA512: ffa5364d229d37ea6ec4cbf8400c31bd89c47f2aaee325f8392d7b340a927c7e6d2e90b10fd5f321c00184537898f9b5c2d7f9942408b892f9e1ae84e1cade43 Homepage: https://cran.r-project.org/package=kim Description: CRAN Package 'kim' (A Toolkit for Behavioral Scientists) A collection of functions for analyzing data typically collected or used by behavioral scientists. 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Package: r-cran-kin.cohort Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-kin.cohort_0.7-1.ca2004.1_all.deb Size: 157832 MD5sum: a866516ba46a6fdb0aab4fede10c6ef0 SHA1: 5488024053e8f15cb8c47290ef01e75c4c8187d8 SHA256: 95f09f5f51a9da99bdd54e72f10ddd61a42f9c5d75ff86ab85ce4f1cfb0cbfe6 SHA512: 3ec8f348f8100a3afa54a6b6dbf6dfc946e990d808631b1aa3ff6e28760f7d858ec15483c321d01ff4ded9692e6d09b47118128653a6253dc8ae84a51ca4954e Homepage: https://cran.r-project.org/package=kin.cohort Description: CRAN Package 'kin.cohort' (Analysis of Kin-Cohort Studies) Analysis of kin-cohort studies. kin.cohort provides estimates of age-specific cumulative risk of a disease for carriers and noncarriers of a mutation. The cohorts are retrospectively built from relatives of probands for whom the genotype is known. Currently the method of moments and marginal maximum likelihood are implemented. Confidence intervals are calculated from bootstrap samples. Most of the code is a translation from previous 'MATLAB' code by N. Chatterjee. Package: r-cran-kindisperse Architecture: all Version: 0.10.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1097 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-readr, r-cran-shiny, r-cran-shinythemes, r-cran-ggrepel, r-cran-fitdistrplus, r-cran-laplacesdemon, r-cran-here, r-cran-tibble, r-cran-magrittr, r-cran-plotly, r-cran-dplyr, r-cran-rlang, r-cran-tidyselect, r-cran-stringr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-kindisperse_0.10.2-1.ca2004.1_all.deb Size: 735692 MD5sum: b6d202e84a7763e534966afcc7c1a88e SHA1: 930ca79a5af0ee46617c510d162f97a981c4f2e7 SHA256: d98da07ff9bd46f2a6d5b3d207ef3ae02f19ca56e0e2d2a44da11826ce2be91f SHA512: b4ad4f61831c332416811dfe06bdd642d8cd4c2b158ef3284b6e323018f1ed9cec1067af3d19548ff2aaad46de5f28e907df5cdc18aca2955465d3157ddd95a0 Homepage: https://cran.r-project.org/package=kindisperse Description: CRAN Package 'kindisperse' (Simulate and Estimate Close-Kin Dispersal Kernels) Functions for simulating and estimating kinship-related dispersal. Based on the methods described in M. Jasper, T.L. Schmidt., N.W. Ahmad, S.P. Sinkins & A.A. Hoffmann (2019) "A genomic approach to inferring kinship reveals limited intergenerational dispersal in the yellow fever mosquito". Assumes an additive variance model of dispersal in two dimensions, compatible with Wright's neighbourhood area. Simple and composite dispersal simulations are supplied, as well as the functions needed to estimate parent-offspring dispersal for simulated or empirical data, and to undertake sampling design for future field studies of dispersal. For ease of use an integrated Shiny app is also included. 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The initial purpose was to create correlation structures that describe family relationships such as kinship and identity-by-descent, which can be used to model family data in mixed effects models, such as in the coxme function. Also includes a tool for pedigree drawing which is focused on producing compact layouts without intervention. Recent additions include utilities to trim the pedigree object with various criteria, and kinship for the X chromosome. 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There are two classes of models here, designed for use with confined aquifers: (1) for sealed wells, based on the model of Kitagawa et al (2011, ), and (2) for open wells, based on the models of Cooper et al (1965, ), Hsieh et al (1987, ), Rojstaczer (1988, ), Liu et al (1989, ), and Wang et al (2018, ). Wang's solution is a special exception which allows for leakage out of the aquifer (semi-confined); it is equivalent to Hsieh's model when there is no leakage (the confined case). These models treat strain (or aquifer head) as an input to the physical system, and fluid-pressure (or water height) as the output. The applicable frequency band of these models is characteristic of seismic waves, atmospheric pressure fluctuations, and solid earth tides. Package: r-cran-kitesquare Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 232 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tidyr, r-cran-dplyr, r-cran-ggplot2, r-cran-ggh4x, r-cran-scales, r-cran-rlang Suggests: r-cran-knitr, r-cran-quarto Filename: pool/dists/focal/main/r-cran-kitesquare_0.0.2-1.ca2004.1_all.deb Size: 137736 MD5sum: 0ce91564ffea19563fa444f9811c86af SHA1: ce921a5b98c824a3faf21be1028c7e8a5a0bfb92 SHA256: 899b180eea76ceb06ca48437fe6b27281d4a2e306e93345d250136214e852dc2 SHA512: d3de0a1df232bc48bb5b1910a3b7c8193e38353068cef39d73223840c8682807406958091f19723a36680ec6b2350c00a00e4bb27ca7a7cbcf6a7e401f9b27bc Homepage: https://cran.r-project.org/package=kitesquare Description: CRAN Package 'kitesquare' (Visualize Contingency Tables Using Kite-Square Plots) Create a kite-square plot for contingency tables using 'ggplot2', to display their relevant quantities in a single figure (marginal, conditional, expected, observed, chi-squared). 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Package: r-cran-kko Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-grpreg, r-cran-knockoff, r-cran-doparallel, r-cran-foreach, r-cran-extdist Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-kko_1.0.1-1.ca2004.1_all.deb Size: 68868 MD5sum: ed929e897b9dd3c9e15c711ee89fefc7 SHA1: 015dfadf3e48789eb5834304607d8c015208c648 SHA256: aacaaaea36e538dc7b7943f2844e9851a35c2c86945d7e7a0a4547094f8782ac SHA512: c5fb2492e567022158a405356e11407040cb50735f8496df789175a038a61716e17141d84956f6ea10341d134794760ff2a47d17821cdb7d4f9b2405e413b1c4 Homepage: https://cran.r-project.org/package=kko Description: CRAN Package 'kko' (Kernel Knockoffs Selection for Nonparametric Additive Models) A variable selection procedure, dubbed KKO, for nonparametric additive model with finite-sample false discovery rate control guarantee. 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The study which ran from 2008 to 2014 caught, tagged and released large Rainbow Trout and Bull Trout in Kootenay Lake by boat angling. The fish were tagged with internal acoustic tags and/or high reward external tags and subsequently detected by an acoustic receiver array as well as reported by anglers. The data are analysed by Thorley and Andrusak (1994) to estimate the natural and fishing mortality of both species. Package: r-cran-klexp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-klexp_1.0.0-1.ca2004.1_all.deb Size: 21416 MD5sum: e48ccb3278433326c568cfe1e674e927 SHA1: 301355697aca5cd634a4dc247d7a406f86cd7d6b SHA256: eee7eb4dcdfa01e6a4d7b0a23de02737f136e088ce00e4777bf20918e0fc353e SHA512: 915e58f2a2ecdbe5498d884c34f8343de371de09aa15a7c9059d9a257cb0883d4c7c9e9c94e26692bee9ad50190d8df81982938f8d4d673788b8e2544e2828d9 Homepage: https://cran.r-project.org/package=KLexp Description: CRAN Package 'KLexp' (Kernel_lasso Expansion) Provides the function to calculate the kernel-lasso expansion, Z-score, and max-min-scale standardization.It can increase the dimension of existed dataset and remove abundant features by lasso. Z Dai, L Jiayi, T Gong, C Wang (2021) . Package: r-cran-klic Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1926 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-cluster, r-cran-coca, r-cran-rcolorbrewer, r-cran-pheatmap Suggests: r-cran-rmosek, r-cran-tikzdevice, r-cran-mclust, r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-klic_1.0.4-1.ca2004.1_all.deb Size: 715520 MD5sum: 943cbaa22eac7aed5ef81c89ec315138 SHA1: 0c2087073b18f87133e665a447c8c62cafd61d5c SHA256: 15c300622b4a94f60b6df0c67515465d1471b9e5b5174cc4039872db783db5f4 SHA512: f515bab5950ca299e0c0d3fd6c55a24392d2c4924cfcb3d360d72c29f3e580b1553db4eccd7842b65d4063ce4474577ef67e7e51a243947511c38376a9e702e1 Homepage: https://cran.r-project.org/package=klic Description: CRAN Package 'klic' (Kernel Learning Integrative Clustering) Kernel Learning Integrative Clustering (KLIC) is an algorithm that allows to combine multiple kernels, each representing a different measure of the similarity between a set of observations. The contribution of each kernel on the final clustering is weighted according to the amount of information carried by it. As well as providing the functions required to perform the kernel-based clustering, this package also allows the user to simply give the data as input: the kernels are then built using consensus clustering. Different strategies to choose the best number of clusters are also available. For further details please see Cabassi and Kirk (2020) . Package: r-cran-klink Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 670 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-forrel, r-cran-norstr, r-cran-gt, r-cran-openxlsx, r-cran-pedfamilias, r-cran-pedmut, r-cran-pedprobr, r-cran-pedtools, r-cran-shiny, r-cran-shinydashboard, r-cran-shinyjs, r-cran-verbalisr, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-klink_1.1.0-1.ca2004.1_all.deb Size: 560840 MD5sum: 9cc89d9b75172e4158c9abe860c749c7 SHA1: c6d2671727c8a76933f41267043da5f69df9c1d9 SHA256: 396647b8bfb3ba5ad1c06507371fac37e433dd81b771ca296c823bf95dcde135 SHA512: 228b6c395d332412487aa5f8c93baeb17f826c6f6ad03e59b2c16ba9212ff362f5f32cd450996accd98ee17927e5074653e1b7d216e9a855f2490404e63032ba Homepage: https://cran.r-project.org/package=KLINK Description: CRAN Package 'KLINK' (Kinship Analysis with Linked Markers) A 'shiny' application for forensic kinship testing, based on the 'pedsuite' R packages. 'KLINK' is closely aligned with the (non-R) software 'Familias' and 'FamLink', but offers several unique features, including visualisations and automated report generation. The calculation of likelihood ratios supports pairs of linked markers, and all common mutation models. Package: r-cran-klovan Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1930 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-dplyr, r-cran-fields, r-cran-ggally, r-cran-ggforce, r-cran-ggplot2, r-cran-ggrepel, r-cran-gstat, r-cran-metr, r-cran-pracma, r-cran-sp, r-cran-tibble, r-cran-magrittr, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-sf, r-cran-spelling, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-klovan_0.1.0-1.ca2004.1_all.deb Size: 1406168 MD5sum: db4dfe40c244a1cdc4caa7c53d37ac2d SHA1: cae10a5cc4648412b9f95c51f3941fc8c6d7ae98 SHA256: c3bd7ba29a9da659a7faf3a1ba9b8cedd52959b18d4789af0c757847f2afd69d SHA512: 482088929e782cad9fb9d5efe7a1c43f123ecde3c133fdf3d7df1100d83eb397bf8da5e9c0960c5dbc47e3e11278cd1bf0207e65eacd08eefb36c2206fe70127 Homepage: https://cran.r-project.org/package=klovan Description: CRAN Package 'klovan' (Geostatistics Methods and Klovan Data) A comprehensive set of geostatistical, visual, and analytical methods, in conjunction with the expanded version of the acclaimed J.E. Klovan's mining dataset, are included in 'klovan'. This makes the package an excellent learning resource for Principal Component Analysis (PCA), Factor Analysis (FA), kriging, and other geostatistical techniques. Originally published in the 1976 book 'Geological Factor Analysis', the included mining dataset was assembled by Professor J. E. Klovan of the University of Calgary. Being one of the first applications of FA in the geosciences, this dataset has significant historical importance. As a well-regarded and published dataset, it is an excellent resource for demonstrating the capabilities of PCA, FA, kriging, and other geostatistical techniques in geosciences. For those interested in these methods, the 'klovan' datasets provide a valuable and illustrative resource. Note that some methods require the 'RGeostats' package. Please refer to the README or Additional_repositories for installation instructions. This material is based upon research in the Materials Data Science for Stockpile Stewardship Center of Excellence (MDS3-COE), and supported by the Department of Energy's National Nuclear Security Administration under Award Number DE-NA0004104. Package: r-cran-klsh Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 198 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-blink, r-cran-plyr, r-cran-rcpp, r-cran-stringi, r-cran-snowballc Suggests: r-cran-knitr, r-cran-ggplot2, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-klsh_0.1.0-1.ca2004.1_all.deb Size: 97600 MD5sum: 983e1a3f701d0e0d1438fa20216dc11d SHA1: 28c9d30663155fa8794e8df0ab35566789641e1f SHA256: 3a5f29bbdf91029a70f7530c3330da0adb2c35966f22372215db1bc7705f6b67 SHA512: d41a3d32fee99ff8eb2a3bec6f2310429757a6f89c9ce6ab6f39bec7d2ccac8e589ff14a6041f24aaaa8cbb51eac3ce78b8d014320e0efbb5b507ce8f96f0a40 Homepage: https://cran.r-project.org/package=klsh Description: CRAN Package 'klsh' (Blocking for Record Linkage) An implementation of the blocking algorithm KLSH in Steorts, Ventura, Sadinle, Fienberg (2014) , which is a k-means variant of locality sensitive hashing. The method is illustrated with examples and a vignette. Package: r-cran-klustr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 825 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-klustr_0.1.0-1.ca2004.1_all.deb Size: 194212 MD5sum: 3b1abe373370599d2e9d0e802a2109ad SHA1: e9d6b37db25dbc86a3c260b19cb2a7b3a6941410 SHA256: fc4cbf633fe7b7a534f5c252d90f32e59764f51ddcb55368431773b16aaa765a SHA512: 3801f9aea75257840203fb023813939efe15151aa9236e56e96fee6902670b233fd9be32250185674299b2da458a0e79f92efdd13563090e925d6aeab91a0670 Homepage: https://cran.r-project.org/package=klustR Description: CRAN Package 'klustR' (D3 Dynamic Cluster Visualizations) Used to create dynamic, interactive 'D3.js' based parallel coordinates and principal component plots in 'R'. The plots make visualizing k-means or other clusters simple and informative. Package: r-cran-km.ci Architecture: all Version: 0.5-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-km.ci_0.5-6-1.ca2004.1_all.deb Size: 67260 MD5sum: 8b73d8ce1225df5b71f6277b07f7d616 SHA1: 84645224b47af83602e22921342f27b8919d091c SHA256: c274df48510a13c30067e2fad8a232bb84c764c1d0a105d63f5bd2b1c81cbe42 SHA512: dbb0225a12c8c9fd05e5e5cf0074bd7e6173bb6d0b07abd668edec19c70c8dba31ad1d4a91f76ab4394be264af6469e205a02798dd08bfd3b2024dee1aacb909 Homepage: https://cran.r-project.org/package=km.ci Description: CRAN Package 'km.ci' (Confidence Intervals for the Kaplan-Meier Estimator) Computes various confidence intervals for the Kaplan-Meier estimator, namely: Peto's CI, Rothman CI, CI's based on Greenwood's variance, Thomas and Grunkemeier CI and the simultaneous confidence bands by Nair and Hall and Wellner. Package: r-cran-kmd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-rann, r-cran-proxy, r-cran-mlpack, r-cran-boot, r-cran-igraph Filename: pool/dists/focal/main/r-cran-kmd_0.1.0-1.ca2004.1_all.deb Size: 43740 MD5sum: 638d5b30665d3d26364bcda8300741c3 SHA1: 853bf146c276725d3b861dbe17801bc96f2af6b6 SHA256: 40bb8cbeae8941992d4f3555654231a35078b1df6ca65f1e1dca1bc083ffedb2 SHA512: 0f7fe9e01509b0d9302f99abb03b432dc59d38d1115383b89be14ed551d1a60f78bf6d6053fafe710186dd055aae73df14cc9fd6573ee0dbaad913acbf890732 Homepage: https://cran.r-project.org/package=KMD Description: CRAN Package 'KMD' (Kernel Measure of Multi-Sample Dissimilarity) Implementations of the kernel measure of multi-sample dissimilarity (KMD) between several samples using K-nearest neighbor graphs and minimum spanning trees. The KMD measures the dissimilarity between multiple samples, based on the observations from them. It converges to the population quantity (depending on the kernel) which is between 0 and 1. A small value indicates the multiple samples are from the same distribution, and a large value indicates the corresponding distributions are different. The population quantity is 0 if and only if all distributions are the same, and 1 if and only if all distributions are mutually singular. The package also implements the tests based on KMD for H0: the M distributions are equal against H1: not all the distributions are equal. Both permutation test and asymptotic test are available. These tests are consistent against all alternatives where at least two samples have different distributions. For more details on KMD and the associated tests, see Huang, Z. and B. Sen (2022) . Package: r-cran-kmda Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 323 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-kmda_1.0-1.ca2004.1_all.deb Size: 296352 MD5sum: efc3732c1b52d176d17ec661ce39f6ae SHA1: d094b7b007c7c67961d5b3a801b2ae2ff095b6ee SHA256: 009559e7a792e3d0276508edf262b1d1198e3703b92036c9ffc82e8692577b2f SHA512: 5043f65aedb62e06ebdfcf4252db923af0372dca9be0275fb346e039c52ee0a55d0b2dfe306d5a9e756cf521274f572162b3abbb92e89eaf6d19b402b98447b4 Homepage: https://cran.r-project.org/package=KMDA Description: CRAN Package 'KMDA' (Kernel-Based Metabolite Differential Analysis) Compute p-values of metabolite differential expression analysis using the kernel-based approach. Package: r-cran-kmeans.knn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-factoextra, r-cran-cluster, r-cran-ggplot2, r-cran-assertthat, r-cran-class, r-cran-caret Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kmeans.knn_0.1.0-1.ca2004.1_all.deb Size: 40036 MD5sum: fda8b0f12ada7eac73bdd68e3570931e SHA1: 64771bdcefd2cf3ebd7bad53563ec2d0853f787d SHA256: ba639fe5cc3110896fb2e70f513d3bdba29e507e583a76c8f3ec46a99c8f8d40 SHA512: 9c7f3b9d93d9aec254dbe52ed2c820181ddf46c26d9ee455ba7a78119d682bc5c5124e56e080d6052532dd64541e37a5418862c78956fc0fca016bf430d4da71 Homepage: https://cran.r-project.org/package=KMEANS.KNN Description: CRAN Package 'KMEANS.KNN' (KMeans and KNN Clustering Package) Implementation of Kmeans clustering algorithm and a supervised KNN (K Nearest Neighbors) learning method. It allows users to perform unsupervised clustering and supervised classification on their datasets. Additional features include data normalization, imputation of missing values, and the choice of distance metric. The package also provides functions to determine the optimal number of clusters for Kmeans and the best k-value for KNN: knn_Function(), find_Knn_best_k(), KMEANS_FUNCTION(), and find_Kmeans_best_k(). Package: r-cran-kmed Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 477 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-kmed_0.4.2-1.ca2004.1_all.deb Size: 262424 MD5sum: afcdf34d7e30abf9ff23819944d3a3e5 SHA1: ea019b39cb19aa96e9e6d1caeb2dc99481d2a054 SHA256: 0fb07c8b10fce0155950ea932517ec6169f126b398f7720b4f5da79ffa91488d SHA512: 927a660c2c8110c93874e8929f125f1b4512323cbf09f3637888b1d5ec3e7f9c0c0b202a1624ce4cd62a6bd9143ca37434d437cd8d905df5d24ae0395d21a607 Homepage: https://cran.r-project.org/package=kmed Description: CRAN Package 'kmed' (Distance-Based k-Medoids) Algorithms of distance-based k-medoids clustering: simple and fast k-medoids, ranked k-medoids, and increasing number of clusters in k-medoids. Calculate distances for mixed variable data such as Gower, Podani, Wishart, Huang, Harikumar-PV, and Ahmad-Dey. Cluster validation applies internal and relative criteria. The internal criteria includes silhouette index and shadow values. The relative criterium applies bootstrap procedure producing a heatmap with a flexible reordering matrix algorithm such as complete, ward, or average linkages. The cluster result can be plotted in a marked barplot or pca biplot. Package: r-cran-kmedians Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-foreach, r-cran-doparallel, r-cran-genieclust, r-cran-gmedian, r-cran-mvtnorm, r-cran-capushe, r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-kmedians_2.2.0-1.ca2004.1_all.deb Size: 60572 MD5sum: be4d70533c6c9b30971b674f9e751a6f SHA1: 179774b05e538ab6ef3974cfc3bae47d7d2c4b12 SHA256: d25d3f008391239272b1b636f3d979fa120e669469660ef996e3b294e98775eb SHA512: d5a1fc4381bb2d2a274f664ed863aad27cb3f54981a8d5401442a5ff21ba275d773fb65cb183ed549a53c2233851452bf0b19c50709787c5e8fecbddfc566756 Homepage: https://cran.r-project.org/package=Kmedians Description: CRAN Package 'Kmedians' (K-Medians) Online, Semi-online, and Offline K-medians algorithms are given. For both methods, the algorithms can be initialized randomly or with the help of a robust hierarchical clustering. The number of clusters can be selected with the help of a penalized criterion. We provide functions to provide robust clustering. Function gen_K() enables to generate a sample of data following a contaminated Gaussian mixture. Functions Kmedians() and Kmeans() consists in a K-median and a K-means algorithms while Kplot() enables to produce graph for both methods. Cardot, H., Cenac, P. and Zitt, P-A. (2013). "Efficient and fast estimation of the geometric median in Hilbert spaces with an averaged stochastic gradient algorithm". Bernoulli, 19, 18-43. . Cardot, H. and Godichon-Baggioni, A. (2017). "Fast Estimation of the Median Covariation Matrix with Application to Online Robust Principal Components Analysis". Test, 26(3), 461-480 . Godichon-Baggioni, A. and Surendran, S. "A penalized criterion for selecting the number of clusters for K-medians" Vardi, Y. and Zhang, C.-H. (2000). "The multivariate L1-median and associated data depth". Proc. Natl. Acad. Sci. USA, 97(4):1423-1426. . Package: r-cran-kmers Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-biostrings, r-bioc-biocgenerics, r-bioc-pwalign Suggests: r-cran-rcolorbrewer, r-cran-knitr, r-cran-rmarkdown, r-cran-unittest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kmers_2.1.0-1.ca2004.1_all.deb Size: 61988 MD5sum: 301ae400b59d84cb9f242640302cc706 SHA1: fab476b85841e1ca47762d1b13464cd9a58f23cd SHA256: 4b42e8af14f7c82cb7fae7047764cde2d872cc695b5e34644bd7e99233de780c SHA512: fdcaafae36b797706d8e3f52842a4a4daf98e1ae2199d8092cfe2ac3a61107618695a34afdbd120b54d0f4bc7ac71dcb7736c4f329f54ca734e4f814cd8ab466 Homepage: https://cran.r-project.org/package=kmeRs Description: CRAN Package 'kmeRs' (K-Mers Similarity Score Matrix and HeatMap) Similarity Score Matrix and HeatMap for nucleic and amino acid k-mers. Similarity score is evaluated by Point Accepted Mutation (PAM) and BLOcks SUbstitution Matrix (BLOSUM). The 30, 40, 70, 120, 250 and 62, 45, 50, 62, 80, 100 matrix versions are available for PAM and BLOSUM, respectively. Alignment is evaluated by local and global alignment. Package: r-cran-kmi Architecture: all Version: 0.5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mitools, r-cran-survival Filename: pool/dists/focal/main/r-cran-kmi_0.5.5-1.ca2004.1_all.deb Size: 72916 MD5sum: 82425e9669a77cb68ae1c20889bc4a97 SHA1: c8945803b238323f2037819a772abbcdc0ef4eef SHA256: fe48bcb4aa94d362d94afa007c20403249ed17ce039f7cbc31009d7a603d7bc9 SHA512: a6fd234f14dca624ab6a2de223ea82fc2e3365af0b21d8b744c243e11d26882a6b976ac2dbdd3b06a8053c1f8835d3926a6f3a937b3ebcfcc1eb41c29131e70f Homepage: https://cran.r-project.org/package=kmi Description: CRAN Package 'kmi' (Kaplan-Meier Multiple Imputation for the Analysis of CumulativeIncidence Functions in the Competing Risks Setting) Performs a Kaplan-Meier multiple imputation to recover the missing potential censoring information from competing risks events, so that standard right-censored methods could be applied to the imputed data sets to perform analyses of the cumulative incidence functions (Allignol and Beyersmann, 2010 ). Package: r-cran-kml3d Architecture: all Version: 2.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 392 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-clv, r-cran-rgl, r-cran-misc3d, r-cran-longitudinaldata, r-cran-kml Filename: pool/dists/focal/main/r-cran-kml3d_2.5.0-1.ca2004.1_all.deb Size: 292976 MD5sum: 73ebaee44f9ccffa36408bb768e41753 SHA1: cdfa99613261b4ab80405ebacae45cfd4d00d5c6 SHA256: 78f587eda83ab8eaf4fa75b0361832f3ac4c1f39097d5ff0de019b884b8acdda SHA512: b19620f30299275cba42558d0d80c0973be5b6dad6573b59f81bc59f072c391305a7f3b1c1dc1e0d0020dca7e07b51247815a140cb9f274a316c18f35d61f57f Homepage: https://cran.r-project.org/package=kml3d Description: CRAN Package 'kml3d' (K-Means for Joint Longitudinal Data) An implementation of k-means specifically design to cluster joint trajectories (longitudinal data on several variable-trajectories). Like 'kml', it provides facilities to deal with missing value, compute several quality criterion (Calinski and Harabatz, Ray and Turie, Davies and Bouldin, BIC,...) and propose a graphical interface for choosing the 'best' number of clusters. In addition, the 3D graph representing the mean joint-trajectories of each cluster can be exported through LaTeX in a 3D dynamic rotating PDF graph. Package: r-cran-kmltoshape Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-raster, r-cran-stringr, r-cran-sf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kmltoshape_0.1.0-1.ca2004.1_all.deb Size: 23824 MD5sum: 760314aa29e8467a28b2b3040a8507d9 SHA1: b3e5272b8a3c50b68b12c3bf2a847f9a019208ca SHA256: d42eda3b52e73834d59f2259d2f935741a8f05e07f0dda5d4a3dc98d03cf3f55 SHA512: ee862e33c20197823a4e43eb3ab85d791ed373dab9004438d7d35581f22f3367ffdd291e17bcd044fda26d8e57e3f14ff416ff7e9bb9a09103aa0b984c571154 Homepage: https://cran.r-project.org/package=KMLtoSHAPE Description: CRAN Package 'KMLtoSHAPE' (Preserving Attribute Values: Converting KML to Shapefile) The developed function is designed to facilitate the seamless conversion of KML (Keyhole Markup Language) files to Shapefiles while preserving attribute values. It provides a straightforward interface for users to effortlessly import KML data, extract relevant attributes, and export them into the widely compatible Shapefile format. The package ensures accurate representation of spatial data while maintaining the integrity of associated attribute information. For details see, Flores, G. (2021). . Whether for spatial analysis, visualization, or data interoperability, it simplifies the conversion process and empowers users to seamlessly work with geospatial datasets. Package: r-cran-kmodr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-kmodr_0.2.0-1.ca2004.1_all.deb Size: 24188 MD5sum: 8514a80a9b354e51febc2e1333a548a9 SHA1: 72b4c0e001a9b8eaa758dd4b88c78f9599e7b0e4 SHA256: 2659cb7683c24dc116532553ca426ac668863fd2e5eb2da5645ea4bd642df550 SHA512: b86de4465da2d04c6f3f8e9a0f3c2f8c4963de78177bc120ff6e8642900fd5ae85d2b3d073f11356629f24adb21df090293d05cad71a58fc669b60e7f3286b00 Homepage: https://cran.r-project.org/package=kmodR Description: CRAN Package 'kmodR' (K-Means with Simultaneous Outlier Detection) An implementation of the 'k-means--' algorithm proposed by Chawla and Gionis, 2013 in their paper, "k-means-- : A unified approach to clustering and outlier detection. SIAM International Conference on Data Mining (SDM13)", and using 'ordering' described by Howe, 2013 in the thesis, Clustering and anomaly detection in tropical cyclones". Useful for creating (potentially) tighter clusters than standard k-means and simultaneously finding outliers inexpensively in multidimensional space. 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Package: r-cran-kmsurv Architecture: all Version: 0.1-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-kmsurv_0.1-6-1.ca2004.1_all.deb Size: 120308 MD5sum: 2c48e2d0808d7401496d533270d3d6af SHA1: 34c4785b5864835de5d3134df636c291c02cd881 SHA256: 596f584e77408c7d5949db0a026bfdf307bf1892b6e2ce33aee128e54b49ce64 SHA512: 4f693cb8b91c2274994845a35f33659ab0ff8ed70c54c4d012414e86419a166c87d40e32e19ea31447f67ac5eea6f381767706097c49172f74f14693b8b0bff3 Homepage: https://cran.r-project.org/package=KMsurv Description: CRAN Package 'KMsurv' (Datasets from Klein and Moeschberger (1997), Survival Analysis) Datasets and functions for Klein and Moeschberger (1997), "Survival Analysis, Techniques for Censored and Truncated Data", Springer. 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(2019) . The KMunicate style consists of Kaplan-Meier curves with confidence intervals to quantify uncertainty and an extended risk table (per treatment arm) depicting the number of study subjects at risk, events, and censored observations over time. The resulting plots are built using 'ggplot2' and can be further customised to a certain extent, including themes, fonts, and colour scales. Package: r-cran-knapsacksampling Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lpsolve Filename: pool/dists/focal/main/r-cran-knapsacksampling_0.1.1-1.ca2004.1_all.deb Size: 27276 MD5sum: 7a916bacf05f8d691fac6de6c277a01e SHA1: 61ebdfeae0ae596a1d37624b2618cbe15f036bd2 SHA256: 43817b8630f41d8a5f0ec1da88182917f865d723a76891579bf199de75815ae7 SHA512: 9fe8dd4ff378ff9ef7d1fa35a22f7ac4a6e7528a1ead42820bf7951a720ffd211e4c54ac4d157ef520dbb316dba3bbcf7da24c594240d793a6e23f0494863adf Homepage: https://cran.r-project.org/package=KnapsackSampling Description: CRAN Package 'KnapsackSampling' (Generate Feasible Samples of a Knapsack Problem) The sampl.mcmc function creates samples of the feasible region of a knapsack problem with both equalities and inequalities constraints. Package: r-cran-kneearrower Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-signal Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-kneearrower_1.0.0-1.ca2004.1_all.deb Size: 50036 MD5sum: 56816f9fb54d5d4d73e899d45b78dfb0 SHA1: 320ff3ea74abc3350fdffa9ae6e944fa48356d99 SHA256: 2b2df57a809f3f37897750de11919e49d84462602b2748b7fabad2e6a6686460 SHA512: cf139fb2af88c300c59578f9dc348a0566d40043a7b5484b4fa1075b619136b86e76f98dd05cc2042b0fe9295786a4cc65b42f2a6f6e5b6ef2c8cbc84f9bdf97 Homepage: https://cran.r-project.org/package=KneeArrower Description: CRAN Package 'KneeArrower' (Finds Cutoff Points on Knee Curves) Given a set of points around a knee curve, analyzes first and second derivatives to find knee points. Package: r-cran-knfi Architecture: all Version: 1.0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1809 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-readxl, r-cran-stringr, r-cran-vegan, r-cran-tidyr, r-cran-biodiversityr, r-cran-data.table, r-cran-sf, r-cran-plotrix, r-cran-rlang, r-cran-cellranger, r-cran-broom, r-cran-ggplot2, r-cran-sp, r-cran-cowplot, r-cran-ggpubr, r-cran-drat, r-cran-purrr, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-knfi_1.0.1.9-1.ca2004.1_all.deb Size: 1767584 MD5sum: 37753566eb26e15194b3db3246b3378b SHA1: 13f6bb6a7b2d807669a3ff92cbe0cb06cfb98c29 SHA256: 348814bcafbec6f981728d157c1cb3bceaa6ddb1d5718466ca7ce5300e06421e SHA512: 48b5161157781a41702f67c2779926b6db12bf3a280bb9450718d86d0a6bfbd629cdcd6e2c893c03a263ef73f6ce2289d02ee648d097c143d46f98e35db0bed3 Homepage: https://cran.r-project.org/package=knfi Description: CRAN Package 'knfi' (Analysis of Korean National Forest Inventory Database) Understanding the current status of forest resources is essential for monitoring changes in forest ecosystems and generating related statistics. In South Korea, the National Forest Inventory (NFI) surveys over 4,500 sample plots nationwide every five years and records 70 items, including forest stand, forest resource, and forest vegetation surveys. Many researchers use NFI as the primary data for research, such as biomass estimation or analyzing the importance value of each species over time and space, depending on the research purpose. However, the large volume of accumulated forest survey data from across the country can make it challenging to manage and utilize such a vast dataset. To address this issue, we developed an R package that efficiently handles large-scale NFI data across time and space. The package offers a comprehensive workflow for NFI data analysis. It starts with data processing, where read_nfi() function reconstructs NFI data according to the researcher's needs while performing basic integrity checks for data quality.Following this, the package provides analytical tools that operate on the verified data. These include functions like summary_nfi() for summary statistics, diversity_nfi() for biodiversity analysis, iv_nfi() for calculating species importance value, and biomass_nfi() and cwd_biomass_nfi() for biomass estimation. Finally, for visualization, the tsvis_nfi() function generates graphs and maps, allowing users to visualize forest ecosystem changes across various spatial and temporal scales. This integrated approach and its specialized functions can enhance the efficiency of processing and analyzing NFI data, providing researchers with insights into forest ecosystems. The NFI Excel files (.xlsx) are not included in the R package and must be downloaded separately. Users can access these NFI Excel files by visiting the Korea Forest Service Forestry Statistics Platform to download the annual NFI Excel files, which are bundled in .zip archives. Please note that this website is only available in Korean, and direct download links can be found in the notes section of the read_nfi() function. 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The package is primarily aimed at authoring in the R 'markdown' format, and can provide outputs for web-based authoring such as linked text for inline citations. Cite using a 'DOI', URL, or 'bibtex' file key. See the package URL for details. 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Furthermore the package provides a general framework to benchmark tests of independence. Package: r-cran-knnp Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-paralleldist, r-cran-forecast, r-cran-doparallel, r-cran-foreach, r-cran-plyr Suggests: r-cran-tseries, r-cran-tsibble Filename: pool/dists/focal/main/r-cran-knnp_2.0.0-1.ca2004.1_all.deb Size: 50776 MD5sum: 4384367f671fbbe97289277fbb6bcda6 SHA1: d3a105917876fae0a7be56f246a463f16b611d50 SHA256: 31aa928d9e39b81f99107f23546d26a1762f9014f1e2fdbe3931e87ca244cfdf SHA512: 97a74dc1d41e72c15f3caf495928c49a9642ffb8e847c5cc82a74fe5002b2f4234f297ea05092c62f39d2184714324940b06a1bcbdf9f3274219c7baecc5975a Homepage: https://cran.r-project.org/package=knnp Description: CRAN Package 'knnp' (Time Series Prediction using K-Nearest Neighbors Algorithm(Parallel)) Two main functionalities are provided. One of them is predicting values with k-nearest neighbors algorithm and the other is optimizing the parameters k and d of the algorithm. These are carried out in parallel using multiple threads. Package: r-cran-knnshiny Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-rmarkdown, r-cran-dplyr, r-cran-caret, r-cran-e1071, r-cran-rhandsontable, r-cran-psycho, r-cran-fnn Filename: pool/dists/focal/main/r-cran-knnshiny_0.1.0-1.ca2004.1_all.deb Size: 70740 MD5sum: 1f2e78a73a503a7902f7a61299aab25a SHA1: 714afd8e702163e64967d45a43462fc9f563576c SHA256: 50273acdeed924c704c86f19d7dbe1875d99e89d4266ab06f2002d02e7cebfe6 SHA512: c1966c66e249a4da4a5d9e6c45795ddb4fda3a73bc0331a883bb33a4885fa7ad8851de303eef5122e3d1ae3b71b7900d51d17394c54970a512f5ee0076df1bca Homepage: https://cran.r-project.org/package=KNNShiny Description: CRAN Package 'KNNShiny' (Interactive Document for Working with KNN Analysis) An interactive document on the topic of K-nearest neighbour (KNN) using 'rmarkdown' and 'shiny' packages. Runtime examples are provided in the package function as well as at . Package: r-cran-knnvs Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-knnvs_0.1.0-1.ca2004.1_all.deb Size: 18188 MD5sum: dbb17406106dbc57e5506712a50c7858 SHA1: 2dfe47066f0a52ed3ae4b2045f558b4c6eabb5a7 SHA256: 75cbb85fab845afe61eee2b804c635f946a319931625b01edfb67939f03abb22 SHA512: 68aeebcb99712943b61692062f7ada515e6a7c9a7ee3dce518ac5866f17e6b2c57028dd6d96b787ab361ac19e8f4e8c616d7e80aa5dd8967567dcadb68f4e7ef Homepage: https://cran.r-project.org/package=kNNvs Description: CRAN Package 'kNNvs' (k Nearest Neighbors with Grid Search Variable Selection) k Nearest Neighbors with variable selection, combine grid search and forward selection to achieve variable selection in order to improve k Nearest Neighbors predictive performance. Package: r-cran-knnwtsim Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 300 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-knnwtsim_1.0.0-1.ca2004.1_all.deb Size: 241488 MD5sum: 9d317f446e4d59cdc5d7e0d6abaf6c43 SHA1: 5df66c510b9edc70ae0845f90d7c3572bfe074cc SHA256: bac8db9f1de2252afc194f80d0aa5d6f42b1b9a83041121ebe75e7ff9bb49b4c SHA512: 5048c44f77e18f19b34b159d61c950b3b91cde002554001515384531f1258a852e7f8057a18372533e8a1c71fc1b60fae0d31855d610e5332863cccf5bfcc86a Homepage: https://cran.r-project.org/package=knnwtsim Description: CRAN Package 'knnwtsim' (K Nearest Neighbor Forecasting with a Tailored Similarity Metric) Functions to implement K Nearest Neighbor forecasting using a weighted similarity metric tailored to the problem of forecasting univariate time series where recent observations, seasonal patterns, and exogenous predictors are all relevant in predicting future observations of the series in question. For more information on the formulation of this similarity metric please see Trupiano (2021) . Package: r-cran-knobi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 820 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-corrplot, r-cran-ggplot2, r-cran-gridextra, r-cran-optimx, r-cran-plot3d, r-cran-dplyr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-icessag Filename: pool/dists/focal/main/r-cran-knobi_0.1.0-1.ca2004.1_all.deb Size: 505264 MD5sum: e52ffde2a76bb563cdccc83ac0c9f778 SHA1: 687a07824df41511cb31e9fe8a650591feac0e52 SHA256: 9e39ed9ef4ac71ada5521a67b3d6139379990de1f1f5af4f5c2e117d794a6fd4 SHA512: c3dfddc83470152f670b7bf452cc03b3b45d019a4b45890c480457d06ac14d644c9b513be9215d7b97bd49437ac8b9d47f728d7cc837c750f878b92c3ff24fd9 Homepage: https://cran.r-project.org/package=knobi Description: CRAN Package 'knobi' (Known-Biomass Production Model (KBPM)) Application of a Known Biomass Production Model (KBPM): (1) the fitting of KBPM to each stock; (2) the estimation of the effects of environmental variability; (3) the retrospective analysis to identify regime shifts; (4) the estimation of forecasts. For more details see Schaefer (1954) , Pella and Tomlinson (1969) and MacCall (2002) . Package: r-cran-knockoff Architecture: all Version: 0.3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 296 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rdsdp, r-cran-matrix, r-cran-corpcor, r-cran-glmnet, r-cran-rspectra, r-cran-gtools Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown, r-cran-lars, r-cran-ranger, r-cran-stabs, r-cran-rptests, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-knockoff_0.3.6-1.ca2004.1_all.deb Size: 174144 MD5sum: 64924d80dd0d27affe4fd4c806147abe SHA1: 145d7e57a125aaf874b9933107f67e3fb5af2a25 SHA256: fe15a0c5b3d0fff011df558721ed9e4a7b22aa36bce0dbe2a70c916b3388e3a5 SHA512: 2c987ceeb9d1b0fdcc763d4026bf93255c0437442241672589e9ded665fa807fc1a9d5b97520877f3a7507f2ef7057ad5991af64f554e527a34c4f44a49dc36c Homepage: https://cran.r-project.org/package=knockoff Description: CRAN Package 'knockoff' (The Knockoff Filter for Controlled Variable Selection) The knockoff filter is a general procedure for controlling the false discovery rate (FDR) when performing variable selection. For more information, see the website below and the accompanying paper: Candes et al., "Panning for gold: model-X knockoffs for high-dimensional controlled variable selection", J. R. Statist. Soc. B (2018) 80, 3, pp. 551-577. Package: r-cran-knockoffhybrid Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-spatest Filename: pool/dists/focal/main/r-cran-knockoffhybrid_1.0.1-1.ca2004.1_all.deb Size: 63212 MD5sum: 34a5f4b666c395170782e4a8492dcc32 SHA1: 24b657deb0a07e8002da5fbe467c0c29ca72f469 SHA256: 6c5ab157a308110749df8f45c58ad0d667ffd99781324c23447e8863e6dbb599 SHA512: 4e8342196f0b53c76716fa09431efe999de18221161f1e09f4caa9acb770bf2131b265ef245baecccfb5c712e9b1d2649ef294ae947e4911122722f361750b23 Homepage: https://cran.r-project.org/package=KnockoffHybrid Description: CRAN Package 'KnockoffHybrid' (Hybrid Analysis of Population and Trio Data with KnockoffStatistics for FDR Control) Identification of putative causal variants in genome-wide association studies using hybrid analysis of both the trio and population designs. The package implements the method in the paper: Yang, Y., Wang, Q., Wang, C., Buxbaum, J., & Ionita-Laza, I. (2024). KnockoffHybrid: A knockoff framework for hybrid analysis of trio and population designs in genome-wide association studies. The American Journal of Human Genetics, in press. Package: r-cran-knockoffscreen Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-seqminer, r-cran-bigmemory, r-cran-compquadform, r-cran-data.table, r-cran-spatest, r-cran-irlba Filename: pool/dists/focal/main/r-cran-knockoffscreen_0.3.0-1.ca2004.1_all.deb Size: 84644 MD5sum: b7887e2bcd6c5f921bf76b0d38188d17 SHA1: aee74c66d1e7ab358db98b132434431f172a3178 SHA256: 2107783333d00d5767b49bf08462311716edebcec95ea4dd286ed58e62af250a SHA512: e6f162a3a6929d3ff350c3caa5895b07410a2c4b4686404eea18dce8abd47582eba512ee1e40d9f441424dc7d5ce25c183fc54dea382100d7485b640b6170d71 Homepage: https://cran.r-project.org/package=KnockoffScreen Description: CRAN Package 'KnockoffScreen' (Whole-Genome Sequencing Data Analysis via Knockoff Statistics) Functions for identification of putative causal loci in whole-genome sequencing data. The functions allow genome-wide association scan. It also includes an efficient knockoff generator for genetic data. Package: r-cran-knockofftrio Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-knockofftrio_1.1.0-1.ca2004.1_all.deb Size: 76308 MD5sum: 9c9aa6b6eba865925eeb6d96dd7b9cc2 SHA1: 9c4150a18e95ba93c628f1a4521494c4d27f0407 SHA256: 4697c0155304f34d1b32153b0ff54d7eaea19095dae07bb6c4fcc0a2d6b80aa2 SHA512: e289ccdee76fa676e0f5e0a8db34c30b628d8201c534fd1fb49cf52d905443c91703d2f35f889fbe44dac177f3a5ed22f138de3945d4a94e3e523eca9dc8922c Homepage: https://cran.r-project.org/package=KnockoffTrio Description: CRAN Package 'KnockoffTrio' (GWAS with Trio and Duo Data using Knockoff Statistics for FDRControl) Identification of putative causal variants in genome-wide association studies with trio and duo families. The package calculates the W feature statistics from KnockoffTrio and p-values from the family-based association test (FBAT) using trio and/or duo data. Compared to previous versions, a significant improvement has been made in Version 1.1.0 to allow the package to be applied not only to trio families but also to duo families. The package implements the methods in the paper: "Yang, Y., Wang, C., Liu, L., Buxbaum, J., He, Z., & Ionita-Laza, I. (2022). KnockoffTrio: A knockoff framework for the identification of putative causal variants in genome-wide association studies with trio design. The American Journal of Human Genetics, 109(10), 1761-1776." Package: r-cran-knotr Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2747 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-knotr_1.0-4-1.ca2004.1_all.deb Size: 1731428 MD5sum: fcabb346b36926c8a836d3deded6af2e SHA1: a92c2f944558bd92c161a302589827dc19a1808f SHA256: e398c3ef88e8b94022e290a933cb1ef117da094a55f5c28eed84e07f1e2ee157 SHA512: a54de39a883f533ac3bbeea5ad07f1fc5970d049e267bceb4ce7050655412fd2209207ba97664ece63187420d3947a4c156b8beda8856e24f18348308f3f5834 Homepage: https://cran.r-project.org/package=knotR Description: CRAN Package 'knotR' (Knot Diagrams using Bezier Curves) Makes visually pleasing diagrams of knot projections using optimized Bezier curves. 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Package: r-cran-kntnr Architecture: all Version: 0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-base64enc, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-lubridate, r-cran-purrr, r-cran-rlang, r-cran-rstudioapi, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-kntnr_0.4.4-1.ca2004.1_all.deb Size: 49020 MD5sum: a635b1d312481b8da4d8016d54d78f0d SHA1: dbd50129f53cb3ef824b2c499e54249ff06c1655 SHA256: aa3b5116f32ec17ddd59b4434b1c6a62de1b0f49bdedbc432887a70a16ee13ac SHA512: e8435d1252054217d436174d5c1400a1284b78d4eec08cd6ca65a0a2ee93c52839c0264d56606f2095ca7c9a1175718dd2ea32e07915bf4b5fd908a845b9fb44 Homepage: https://cran.r-project.org/package=kntnr Description: CRAN Package 'kntnr' (R Client for 'kintone' API) Retrieve data from 'kintone' () via its API. 'kintone' is an enterprise application platform. Package: r-cran-koboconnectr Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr2, r-cran-curl, r-cran-jsonlite, r-cran-mime, r-cran-openssl, r-cran-r6, r-cran-dplyr, r-cran-readxl, r-cran-rlang, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-koboconnectr_2.0.0-1.ca2004.1_all.deb Size: 78852 MD5sum: c51f973532317c846feca6906ad28fc8 SHA1: 0db597c9220218624fc06b9d995a64ee79a14b15 SHA256: dd5cbcc2c7fa9cd56dadd5592cb85339cca5a78564994534db81a884c7be16de SHA512: 7c9e8167c2b37a55a3d23351a7f39172c305f03dbae45b9017ca0ddfa213da32d20135a21195c2d154968733a9f51eccf4d7ed3b91da71a1bfc62717b56f79ec Homepage: https://cran.r-project.org/package=KoboconnectR Description: CRAN Package 'KoboconnectR' (Download Data from Kobotoolbox to R) Wrapper for 'Kobotoolbox' APIs ver 2 mentioned at , to download data from 'Kobotoolbox' to R. Small and simple package that adds immense convenience for the data professionals using 'Kobotoolbox'. Package: r-cran-kobt Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-knockoff, r-cran-spcov, r-cran-xgboost, r-cran-rdpack, r-cran-mass Filename: pool/dists/focal/main/r-cran-kobt_0.1.0-1.ca2004.1_all.deb Size: 31564 MD5sum: d5bbcc11a42daa69099e2a037cf1394b SHA1: bca13c2d9b08b88788a8d2c3dcabca39f1222a35 SHA256: b6535f210a60d7d2a86e8d90d5dfbb2e5eb098ccfd486d10a0ae1e0d2449da4c SHA512: 36f75fb77fad24c045a82b8c2c567a9aadfd55a8a9dbe89975809a386735d9dca5c966bc7e93f71f1e4d526584a8568d1d3945d12221f53fd39e1aa85f84b108 Homepage: https://cran.r-project.org/package=KOBT Description: CRAN Package 'KOBT' (Knockoff Boosted Tree) A novel strategy for conducting variable selection without prior model topology knowledge using the knockoff method (Barber and Candes (2015) ) with extreme boosted tree models (Chen and Guestrin (2016) ). This method is inspired by the original knockoff method, where the differences between original and knockoff variables are used for variable selection with false discovery rate control. In addition to the original knockoff generating methods, two new sampling methods are available to be implemented, namely the sparse covariance and principal component knockoff methods. As results, the indices of selected variables are returned. Package: r-cran-kofdata Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-jsonlite, r-cran-httr, r-cran-xts, r-cran-zoo Suggests: r-cran-tstools, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-kofdata_0.2.1-1.ca2004.1_all.deb Size: 47260 MD5sum: dfed134fac5a710e00310d079ed771d4 SHA1: 03e55aa3608eec704589c82ba9a311222705d1dc SHA256: b0b86966839de0992fb46968a53dab72f3202e769494ef405501305e32d9b843 SHA512: b50bd55b3c0724f07462b2a98e86495dd0fa4f4d4985b8b7c3f58523897e5a8479eccbf24a05293f91f232079cffc46030775edae293052e82424e51adf095b7 Homepage: https://cran.r-project.org/package=kofdata Description: CRAN Package 'kofdata' (Get Data from the 'KOF Datenservice' API) Read Swiss time series data from the 'KOF Data' API, . The API provides macro economic time series data mostly about Switzerland. 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The selection step is done by tournament selection based on ranks, and elitism may be used to retain a portion of the best solutions from one generation to the next. Population objective function values may optionally be evaluated in parallel. Package: r-cran-kogmwu Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 875 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pheatmap Filename: pool/dists/focal/main/r-cran-kogmwu_1.2-1.ca2004.1_all.deb Size: 864416 MD5sum: 56004d317b5cbd2563bbcb2b7ec26bde SHA1: a44785f46a394c15b4a98dbdc48c1b2f488c2e03 SHA256: 6f4e243efac869e05f440f93cc347ae5b71a810658ffb24a18d90a5122d0a842 SHA512: d4c0b08a69219653df937703419b8a81ae9912175774437cd3817574f758e1eb41c52bc2ad5e6ed739255284819e121a46a272deae5f823b3ac8bd857929d5fd Homepage: https://cran.r-project.org/package=KOGMWU Description: CRAN Package 'KOGMWU' (Functional Summary and Meta-Analysis of Gene Expression Data) Rank-based tests for enrichment of KOG (euKaryotic Orthologous Groups) classes with up- or down-regulated genes based on a continuous measure. The meta-analysis is based on correlation of KOG delta-ranks across datasets (delta-rank is the difference between mean rank of genes belonging to a KOG class and mean rank of all other genes). With binary measure (1 or 0 to indicate significant and non-significant genes), one-tailed Fisher's exact test for over-representation of each KOG class among significant genes will be performed. Package: r-cran-kokudosuuchi Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 484 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glue, r-cran-rlang, r-cran-sf, r-cran-stringr, r-cran-tibble Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-kokudosuuchi_1.0.0-1.ca2004.1_all.deb Size: 386644 MD5sum: 228e3941f2d717dc78451dabca163b3e SHA1: fb328148a51d8f76bbb2897e84f5d6be18f64ca0 SHA256: 96ed214ed6fb29527b4eb4cc473d40f92517823b4e61180cdd75d70ca526b3a8 SHA512: 5af3e71d35a48bd11adbd8fc945e979fe425cdcd357f797c15c37ec07f67f091b4c45f8c4bcd8ab071e8330b1dae6696daa673e6773d13ee9ab27c4e7a30068f Homepage: https://cran.r-project.org/package=kokudosuuchi Description: CRAN Package 'kokudosuuchi' (Utilities for 'Kokudo Suuchi') Provides utilities for 'Kokudo Suuchi', the GIS data service of the Japanese government. See for more information. Package: r-cran-kolaide Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-kolaide_0.0.1-1.ca2004.1_all.deb Size: 97368 MD5sum: 846431b899a737158d9b2d43652bc5fe SHA1: d7dfd7c7d7b2013885fb8add41a0ebd157aa521c SHA256: 0d179844ef6ab4b38119efd7f51b68284660f8bf4ce8a731dbe3dd8c86977243 SHA512: 3d264b989e55ba9020c5eea1846e301f89bd2fc4c521429a2011a9187512df3cd200049020e5624d84042ad145d6ab8a3616e5cda91b77a2410a719aae377a66 Homepage: https://cran.r-project.org/package=KOLaide Description: CRAN Package 'KOLaide' (Pick and Plot Key Opinion Leaders from a Network GivenConstraints) Assists researchers in choosing Key Opinion Leaders (KOLs) in a network to help disseminate or encourage adoption of an innovation by other network members. Potential KOL teams are evaluated using the ABCDE framework (Neal et al., 2025 ). This framework which considers: (1) the team members' Availability, (2) the Breadth of the team's network coverage, (3) the Cost of recruiting a team of a given size, and (4) the Diversity of the team's members, (5) which are pooled into a single Evaluation score. Package: r-cran-kollar Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 924 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-zoo, r-cran-ggforce, r-cran-tidyr, r-cran-ggpubr, r-cran-jpeg, r-cran-patchwork, r-cran-shiny, r-cran-plotly, r-cran-base64enc, r-cran-magick, r-cran-scales Filename: pool/dists/focal/main/r-cran-kollar_1.1.1-1.ca2004.1_all.deb Size: 835036 MD5sum: 51b6f663c6c8eb45858c9371796f1277 SHA1: 457f15955012d96a37a326daec38368b52b6c0e9 SHA256: 98ef6e34b4a54f9f304e92803a6d364b41fe3a68a6d33312358815e275646ddb SHA512: 851717493ee7130e1d7d2156b4ccbef66cbc01c4bc26abdd4ee4708a0f1a22673b97988504508e7247653b97797cc1faa4fc3e2f1dfbd69952168ecc7335368f Homepage: https://cran.r-project.org/package=kollaR Description: CRAN Package 'kollaR' (Event Classification, Visualization and Analysis of Eye TrackingData) Functions for analysing eye tracking data, including event detection, visualizations and area of interest (AOI) based analyses. The package includes implementations of the IV-T, I-DT, adaptive velocity threshold, and Identification by two means clustering (I2MC) algorithms. See separate documentation for each function. The principles underlying I-VT and I-DT algorithms are described in Salvucci & Goldberg (2000,\doi{10.1145/355017.355028}). Two-means clustering is described in Hessels et al. (2017, \doi{10.3758/s13428-016-0822-1}). The adaptive velocity threshold algorithm is described in Nyström & Holmqvist (2010,\doi{10.3758/BRM.42.1.188}). See a demonstration in the URL. Package: r-cran-komaletter Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1517 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rmarkdown Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-komaletter_0.5.0-1.ca2004.1_all.deb Size: 1208988 MD5sum: 780f5db8fe298934f1d15887c2817cd1 SHA1: 2ffeaf5cf7b03d2488a3a0d9c4debd47ed2fafeb SHA256: df346f5ac8eae0884591acef2f1dc6a4ef31ee9a67ba424ca563fc442fa3f212 SHA512: dd441b0be41adf14e131bc7fcf1473e55241a151c66ead7869fe795d88db37ac0c8a984192bb4176cdb151edf6025e92c72593ef340d41fc62f32c72759c45ad Homepage: https://cran.r-project.org/package=komaletter Description: CRAN Package 'komaletter' (Simply Beautiful PDF Letters from Markdown) Write beautiful yet customizable letters in R Markdown and directly obtain the finished PDF. Smooth generation of PDFs is realized by 'rmarkdown', the 'pandoc-letter' template and the 'KOMA-Script' letter class. 'KOMA-Script' provides enhanced replacements for the standard 'LaTeX' classes with emphasis on typography and versatility. 'KOMA-Script' is particularly useful for international writers as it handles various paper formats well, provides layouts for many common window envelope types (e.g. German, US, French, Japanese) and lets you define your own layouts. The package comes with a default letter layout based on 'DIN 5008B'. Package: r-cran-konfound Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 361 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-broom.mixed, r-cran-crayon, r-cran-dplyr, r-cran-ggplot2, r-cran-lavaan, r-cran-purrr, r-cran-rlang, r-cran-tidyr, r-cran-lme4, r-cran-tibble, r-cran-ggrepel, r-cran-pbkrtest, r-cran-ppcor Suggests: r-cran-covr, r-cran-devtools, r-cran-forcats, r-cran-knitr, r-cran-rmarkdown, r-cran-mice, r-cran-roxygen2, r-cran-testthat, r-cran-matrix Filename: pool/dists/focal/main/r-cran-konfound_1.0.3-1.ca2004.1_all.deb Size: 290328 MD5sum: e0f76bd22d6a80f73d06df0fbb571f9f SHA1: 68a67a5e0e1a683cfbd6925e6005a7b214e10d84 SHA256: c4aaa8ea900fd9064d639990098fffd33840d139c458d5277a605f055139fb74 SHA512: dbeff42371c188a3aa1ae2137f22ef62ed7da27d4a1dc5be8efd19a9757b8edc9405a67a8e5809f0b678e199046fa5a081638bc46beadf6f9027308fdd30d2e5 Homepage: https://cran.r-project.org/package=konfound Description: CRAN Package 'konfound' (Quantify the Robustness of Causal Inferences) Statistical methods that quantify the conditions necessary to alter inferences, also known as sensitivity analysis, are becoming increasingly important to a variety of quantitative sciences. A series of recent works, including Frank (2000) and Frank et al. (2013) extend previous sensitivity analyses by considering the characteristics of omitted variables or unobserved cases that would change an inference if such variables or cases were observed. These analyses generate statements such as "an omitted variable would have to be correlated at xx with the predictor of interest (e.g., the treatment) and outcome to invalidate an inference of a treatment effect". Or "one would have to replace pp percent of the observed data with nor which the treatment had no effect to invalidate the inference". We implement these recent developments of sensitivity analysis and provide modules to calculate these two robustness indices and generate such statements in R. In particular, the functions konfound(), pkonfound() and mkonfound() allow users to calculate the robustness of inferences for a user's own model, a single published study and multiple studies respectively. Package: r-cran-konya Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-rvest, r-cran-stringr, r-cran-jsonlite, r-cran-readr, r-cran-openxlsx Suggests: r-cran-testthat, r-cran-devtools, r-cran-roxygen2, r-cran-usethis Filename: pool/dists/focal/main/r-cran-konya_0.1.0-1.ca2004.1_all.deb Size: 17808 MD5sum: b5432bf0f12619118ba892fa3beee572 SHA1: cc6862067c3935edfa026800fc1a89201da04533 SHA256: 48cda67f6add402d84ae86f829ed1d09e2a8219b8c673382523024cf1facc77d SHA512: 8d8e26efd05ff1c0c7af6d19b1c56f94eaf15d47cf9fe8a97fce981c54b9104dca4977c20d1231e6a932ebd4bdc4fb43742ef04ce7ef264c31eeb253ed837cd0 Homepage: https://cran.r-project.org/package=konya Description: CRAN Package 'konya' (R Wrapper for Konya Municipality Open Data Portal) Call the data wrappers for Konya Metropolitan Municipality's Open Data Portal . This will return all datasets stored in different formats. Package: r-cran-kor.addrlink Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1374 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stringdist, r-cran-stringi Filename: pool/dists/focal/main/r-cran-kor.addrlink_1.0.1-1.ca2004.1_all.deb Size: 1355996 MD5sum: 00dd48d5ffad1c2a59e1c3b23983fe95 SHA1: 83de012276b986cf8fa4702cc3f3f6c612c0b166 SHA256: 6db460010b61dac64d0fb0865e2eab6e8201cd74270c6224cbc569aa6b6985f2 SHA512: f9248eb67dcf023e9d3a45b81b48360dc2983203937dfc8d918f7fa89c03256b82746fca7ca213ae5d7bd07f93f80da8d719714bbc0700778edefffd051be2d6 Homepage: https://cran.r-project.org/package=KOR.addrlink Description: CRAN Package 'KOR.addrlink' (Matching Address Data to Reference Index) Matches a data set with semi-structured address data, e.g., street and house number as a concatenated string, wrongly spelled street names or non-existing house numbers to a reference index. The methods are specifically designed for German municipalities ('KOR'-community) and German address schemes. Package: r-cran-korpus.lang.en Architecture: all Version: 0.1-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-korpus, r-cran-sylly.en Filename: pool/dists/focal/main/r-cran-korpus.lang.en_0.1-4-1.ca2004.1_all.deb Size: 20688 MD5sum: 7690588a0da0acf02f3e68ad476612d5 SHA1: c9181a43a36f6d17854b61541514d70cfff60e1a SHA256: 71a5ce70d033c1616785a5d33f9d93b0414325927ae46643a619c62c31b0a8fe SHA512: 97f5ddf119bf49f9639743b37075d1d7d7e0e59fc309bdaf00980db331cceee2112e68575a85499450481142ee78164ec095bb90400b358cbe52151f7f8e376d Homepage: https://cran.r-project.org/package=koRpus.lang.en Description: CRAN Package 'koRpus.lang.en' (Language Support for 'koRpus' Package: English) Adds support for the English language to the 'koRpus' package. To ask for help, report bugs, suggest feature improvements, or discuss the global development of the package, please consider subscribing to the koRpus-dev mailing list (). Package: r-cran-korpus Architecture: all Version: 0.13-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2040 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sylly, r-cran-data.table, r-cran-matrix Suggests: r-cran-testthat, r-cran-tm, r-cran-snowballc, r-cran-shiny, r-cran-knitr, r-cran-rmarkdown, r-cran-korpus.lang.en Filename: pool/dists/focal/main/r-cran-korpus_0.13-8-1.ca2004.1_all.deb Size: 1266000 MD5sum: e4d557e7fcfb350a55f6f2fa81c0ebfe SHA1: b3968f31fbb2486c450b2580251150a34d065da4 SHA256: e4c56a9a689c35ce0e50ce787e2de056b0eca86348ec1e0ed53a56391536761c SHA512: e0c86356e8f0940a0375180b7aa1f5d4a66c8a87daf794648474175ec3f8f0b0525288efc9d42069deb00d8d86ca120f6620cb1e7bad9e2225f90438807370ba Homepage: https://cran.r-project.org/package=koRpus Description: CRAN Package 'koRpus' (Text Analysis with Emphasis on POS Tagging, Readability, andLexical Diversity) A set of tools to analyze texts. Includes, amongst others, functions for automatic language detection, hyphenation, several indices of lexical diversity (e.g., type token ratio, HD-D/vocd-D, MTLD) and readability (e.g., Flesch, SMOG, LIX, Dale-Chall). Basic import functions for language corpora are also provided, to enable frequency analyses (supports Celex and Leipzig Corpora Collection file formats) and measures like tf-idf. Note: For full functionality a local installation of TreeTagger is recommended. It is also recommended to not load this package directly, but by loading one of the available language support packages from the 'l10n' repository . 'koRpus' also includes a plugin for the R GUI and IDE RKWard, providing graphical dialogs for its basic features. The respective R package 'rkward' cannot be installed directly from a repository, as it is a part of RKWard. To make full use of this feature, please install RKWard from (plugins are detected automatically). Due to some restrictions on CRAN, the full package sources are only available from the project homepage. To ask for help, report bugs, request features, or discuss the development of the package, please subscribe to the koRpus-dev mailing list (). Package: r-cran-kosel Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-ordinalnet Filename: pool/dists/focal/main/r-cran-kosel_0.0.1-1.ca2004.1_all.deb Size: 35464 MD5sum: ca2f3847fa7b46acb010a342d86aa558 SHA1: a33a6eb0ccb0a315893f388e84b2f2147a535272 SHA256: 59cdb222fe80fb28cf965b4c34844e541f151abb5db2c8800583f82dccd7b552 SHA512: f91644c5c511c83bb7667a8f0b26191dee6a6ef32516d57e424a94ea564cc79474b33a999324290ad04dbddaee53c91d456bde4fe383f3e950f411bc0c976382 Homepage: https://cran.r-project.org/package=kosel Description: CRAN Package 'kosel' (Variable Selection by Revisited Knockoffs Procedures) Performs variable selection for many types of L1-regularised regressions using the revisited knockoffs procedure. This procedure uses a matrix of knockoffs of the covariates independent from the response variable Y. The idea is to determine if a covariate belongs to the model depending on whether it enters the model before or after its knockoff. The procedure suits for a wide range of regressions with various types of response variables. Regression models available are exported from the R packages 'glmnet' and 'ordinalNet'. Based on the paper linked to via the URL below: Gegout A., Gueudin A., Karmann C. (2019) . Package: r-cran-kosis Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-httr, r-cran-jsonlite, r-cran-tibble Filename: pool/dists/focal/main/r-cran-kosis_0.0.1-1.ca2004.1_all.deb Size: 43712 MD5sum: 6db97c99d6bcca1e0ce4ae1bcf7f739e SHA1: 3576d5ace6ce4ba922e57f827a0de148b975c8ad SHA256: b524a14bc510794bc1ad253457c820d6ed16396ac938e2e086fa9df3254ac6af SHA512: 3d9fdbc9f6748a499914b8fbac15d2b4b2f939cab0b41169fd046c3c514a1df0074331ffc6a1c9d203e8d941ac98447dc4c54d1a944fdb22c7e64a84c251bf1b Homepage: https://cran.r-project.org/package=kosis Description: CRAN Package 'kosis' (Korean Statistical Information Service (KOSIS)) API wrapper to download statistical information from the Korean Statistical Information Service (KOSIS) . Package: r-cran-kpart Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-leaps Filename: pool/dists/focal/main/r-cran-kpart_1.2.2-1.ca2004.1_all.deb Size: 16596 MD5sum: 7bc7ef885ff4478fc05c80783d5a71ea SHA1: 295a9b5161081d860020230c09b2ebe888dd9357 SHA256: 61cffa5892650af10df89bfecb262373fa6c4248d1e02fa70dd9ff268c1854c6 SHA512: 966d194bea9f33bb9d9fb541bd7b187251ae481ae962d056bbcb81ef4b779a5473f35958d3875ae0a312490984199e2c96848e3291d6763d279ee54da974721b Homepage: https://cran.r-project.org/package=Kpart Description: CRAN Package 'Kpart' (Cubic Spline Fitting with Knot Selection) Cubic spline fitting along with knot selection, includes support for additional variables. Package: r-cran-kpc Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-kernlab, r-cran-rann, r-cran-proxy, r-cran-mlpack Filename: pool/dists/focal/main/r-cran-kpc_0.1.2-1.ca2004.1_all.deb Size: 86640 MD5sum: c55f19b005afcd29c9134483a61b4884 SHA1: a451305e0e54f3f842c3143c615bc53dc1ba9e49 SHA256: 65ae2373b043221aab35558220274dc0c81d3416c55e2e508da675cfba38bd72 SHA512: 16839cc8381a6f29c163d631c220e6e7fb452c9516e970591968906d335b61312df6fbe207ba858ff5f19f82cafbd2f8603c98aebb69664d7d2fff556744bd43 Homepage: https://cran.r-project.org/package=KPC Description: CRAN Package 'KPC' (Kernel Partial Correlation Coefficient) Implementations of two empirical versions the kernel partial correlation (KPC) coefficient and the associated variable selection algorithms. KPC is a measure of the strength of conditional association between Y and Z given X, with X, Y, Z being random variables taking values in general topological spaces. As the name suggests, KPC is defined in terms of kernels on reproducing kernel Hilbert spaces (RKHSs). The population KPC is a deterministic number between 0 and 1; it is 0 if and only if Y is conditionally independent of Z given X, and it is 1 if and only if Y is a measurable function of Z and X. One empirical KPC estimator is based on geometric graphs, such as K-nearest neighbor graphs and minimum spanning trees, and is consistent under very weak conditions. The other empirical estimator, defined using conditional mean embeddings (CMEs) as used in the RKHS literature, is also consistent under suitable conditions. Using KPC, a stepwise forward variable selection algorithm KFOCI (using the graph based estimator of KPC) is provided, as well as a similar stepwise forward selection algorithm based on the RKHS based estimator. For more details on KPC, its empirical estimators and its application on variable selection, see Huang, Z., N. Deb, and B. Sen (2022). “Kernel partial correlation coefficient – a measure of conditional dependence” (URL listed below). When X is empty, KPC measures the unconditional dependence between Y and Z, which has been described in Deb, N., P. Ghosal, and B. Sen (2020), “Measuring association on topological spaces using kernels and geometric graphs” , and it is implemented in the functions KMAc() and Klin() in this package. The latter can be computed in near linear time. Package: r-cran-kpcaig Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rgl, r-cran-kernlab, r-cran-ggplot2, r-cran-progress, r-cran-viridis, r-cran-wallomicsdata Filename: pool/dists/focal/main/r-cran-kpcaig_1.0.1-1.ca2004.1_all.deb Size: 44744 MD5sum: 5f37cf7abda4755575d7bfc0efb22d76 SHA1: fc84d740dd9ba01abeb41a604ffd324f392be641 SHA256: 1f84644e9e579652c82b8e169ad8f29b2d05f5269c46d96b70f1408db1e93994 SHA512: cbbb79c300d968b61400b55596b7c091e82f152049f32ff737ca657df6f71a7defe2a12d1e34c42f2003e3f781074c717725d4cb2ab0acb567741e592c0d8830 Homepage: https://cran.r-project.org/package=kpcaIG Description: CRAN Package 'kpcaIG' (Variables Interpretability with Kernel PCA) The kernelized version of principal component analysis (KPCA) has proven to be a valid nonlinear alternative for tackling the nonlinearity of biological sample spaces. However, it poses new challenges in terms of the interpretability of the original variables. 'kpcaIG' aims to provide a tool to select the most relevant variables based on the kernel PCA representation of the data as in Briscik et al. (2023) . It also includes functions for 2D and 3D visualization of the original variables (as arrows) into the kernel principal components axes, highlighting the contribution of the most important ones. Package: r-cran-kpcalg Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 284 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pcalg, r-cran-energy, r-cran-kernlab, r-cran-mgcv, r-cran-rspectra, r-bioc-graph Suggests: r-bioc-rgraphviz, r-cran-knitr Filename: pool/dists/focal/main/r-cran-kpcalg_1.0.1-1.ca2004.1_all.deb Size: 237984 MD5sum: 787f35146ca278acb2f7e3e7ff69ce70 SHA1: 1225f30d938363569f851b873e47cabcf3572457 SHA256: 4057a055c0ac28e4ac0e0781cdace967aee85da09345813a43957e73b9085d4e SHA512: 48cef6bd564f41bf1ac0d8e40d64ae35e4007ff7db94ee825061a86f811c1633c180628bb2ca05e044186dcc9fe42e73bded7a29f3026af9730a2c9d393c4eda Homepage: https://cran.r-project.org/package=kpcalg Description: CRAN Package 'kpcalg' (Kernel PC Algorithm for Causal Structure Detection) Kernel PC (kPC) algorithm for causal structure learning and causal inference using graphical models. kPC is a version of PC algorithm that uses kernel based independence criteria in order to be able to deal with non-linear relationships and non-Gaussian noise. 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The user selects "fixed" values for enough unknowns to leave as many variables as there are equations, which in most cases means the system is properly defined and a unique solution exists. The function, the fixed values and initial values for the remaining unknowns are fed to a nonlinear backsolver. The original version of "TK!Solver" , now a product of Universal Technical Systems () was the inspiration for this function. 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(2017,ISSN:0024-3795). "A New Kurtosis Matrix, with Statistical Applications". Package: r-cran-kutils Architecture: all Version: 1.73-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1150 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-foreign, r-cran-xtable, r-cran-plyr, r-cran-openxlsx, r-cran-runit Suggests: r-cran-rockchalk Filename: pool/dists/focal/main/r-cran-kutils_1.73-1.ca2004.1_all.deb Size: 724480 MD5sum: a0d313b42b39ee3392c3675b8c02910a SHA1: 5b3cdb72653b1563b16c65e8e7abdf935b28958d SHA256: 563bcc60fd0bed123adc2746412c8c93aeef1db35cbc706ff187eb385d78163c SHA512: 59106857727143b93df7a31636b211105945be170ec1f0e452ecfcadf2ba9eba0327740304e1b6d5339391372a367d108cba321e8d3fe8105736fa3ff769199d Homepage: https://cran.r-project.org/package=kutils Description: CRAN Package 'kutils' (Project Management Tools) Tools for data importation, recoding, and inspection. 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The correct implementation is shown with a verification example based on a USGS report (page 25, ). Package: r-cran-kzs Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3462 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lattice Filename: pool/dists/focal/main/r-cran-kzs_1.4.1-1.ca2004.1_all.deb Size: 3491372 MD5sum: e594e1061bf84eba9a526c52a87e2d08 SHA1: e02abda3da7a7f40d2cb3b80466f67b43c8856a0 SHA256: 76ac0b9b51e2103e514ce13b819207f72bb7c97164031128d8e5a101b7d32ecd SHA512: 43390d20c4923ec88f1967b563cc2519597a75abf344fc4285641f9978ed94d85771a9b579f28caade958f64a3b27590db86a69531e59bcb5d6621baf16804e3 Homepage: https://cran.r-project.org/package=kzs Description: CRAN Package 'kzs' (Kolmogorov-Zurbenko Spatial Smoothing and Applications) A spatial smoothing algorithm based on convolutions of finite rectangular kernels that provides sharp resolution in the presence of high levels of noise. Package: r-cran-l0tfinv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1272 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-l0tfinv_0.1.0-1.ca2004.1_all.deb Size: 445900 MD5sum: d79537cd2e303fcffdbe700d9b3c01c3 SHA1: e74172ffc51262fac70f564c9fd1ac4146d2d451 SHA256: bf30ece3936022220a3bc729331404aefa4a4b171274840fca8823ae0f437fe4 SHA512: 62ba2f5f6a44821509d9261f0821f9f06123236c44cc2acb8953318a91324d26545c0bb2097274081d645410b3fe6280d915bb5a7a7f6746da11dfb26f4750c0 Homepage: https://cran.r-project.org/package=L0TFinv Description: CRAN Package 'L0TFinv' (A Splicing Approach to the Inverse Problem of L0 Trend Filtering) Trend filtering is a widely used nonparametric method for knot detection. This package provides an efficient solution for L0 trend filtering, avoiding the traditional methods of using Lagrange duality or Alternating Direction Method of Multipliers algorithms. It employ a splicing approach that minimizes L0-regularized sparse approximation by transforming the L0 trend filtering problem. The package excels in both efficiency and accuracy of trend estimation and changepoint detection in segmented functions. References: Wen et al. (2020) ; Zhu et al. (2020); Wen et al. (2023) . Package: r-cran-l1ball Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vgam Filename: pool/dists/focal/main/r-cran-l1ball_0.1.0-1.ca2004.1_all.deb Size: 33384 MD5sum: 5c5f4ce41d558a9864655fcf32c646f8 SHA1: 81bb81238c68b9f5168d39d93ec43accfd3b6b09 SHA256: 2489625332d61cde01a4a8071353533b90f9601be2e7525cb4da8526812d2b8a SHA512: 9b900214d779e3df9c31396d06f9f8e0acd6fbe96c9d27de722dc810ca0a2f0ab69e3e3f5ca00c5f9922a06f86e1b8fd9757b0d03b2813b52df87aae98ea3a3e Homepage: https://cran.r-project.org/package=l1ball Description: CRAN Package 'l1ball' (L1-Ball Prior for Sparse Regression) Provides function for the l1-ball prior on high-dimensional regression. The main function, l1ball(), yields posterior samples for linear regression, as introduced by Xu and Duan (2020) . 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However, to fit the measurements of ~1000 genes in the ~500 color channels of LINCS L1000, every two landmark genes are designed to share a single channel. Thus, a deconvolution step is required to infer the expression values of each gene. Any errors in this step can be propagated adversely to the downstream analyses. We present a LINCS L1000 data peak calling R package l1kdeconv based on a new outlier detection method and an aggregate Gaussian mixture model. Upon the remove of outliers and the borrowing information among similar samples, l1kdeconv shows more stable and better performance than methods commonly used in LINCS L1000 data deconvolution. Package: r-cran-l1rotation Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 535 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-ggplot2, r-cran-magrittr, r-cran-matrixstats, r-cran-pracma, r-cran-scales Suggests: r-cran-knitr, r-cran-quarto, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-l1rotation_1.0.1-1.ca2004.1_all.deb Size: 467644 MD5sum: ef3eeb993440528f68868479587b3d6d SHA1: 2781f2ca676b6e2ba15f9f50492d5792020ea251 SHA256: beff1ca1c3098ff0da7a0bc917ca75a21675fbed5ab9e1cd7a6c89670fc2184a SHA512: 40b8c127089069be66d170fb0275b1f634b8c2f428b506c8bcad842435e3b2556d136ab309a9671379f566cb8c1a4354dd865b0361fb2fb58536a097ea511b95 Homepage: https://cran.r-project.org/package=l1rotation Description: CRAN Package 'l1rotation' (Identify Loading Vectors under Sparsity in Factor Models) Simplify the loading matrix in factor models using the l1 criterion as proposed in Freyaldenhoven (2025) . Given a data matrix, find the rotation of the loading matrix with the smallest l1-norm and/or test for the presence of local factors with main function local_factors(). 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Package: r-cran-l2densitygoftest Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fgarch, r-cran-nor1mix, r-cran-boot, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-l2densitygoftest_0.6.0-1.ca2004.1_all.deb Size: 57940 MD5sum: d0e65f6c931548c37f0eb325ac10eb19 SHA1: c0ba4a87a8925eb5c7c7044d6e80421eb349ee4d SHA256: 0b8acc487a630a95043d8da502a80b37b2d9803a529b6570b04efde6548bd735 SHA512: f2a2855c18b229dcd9333861d80f9a1612a3bf958819f5bcf96c5c65af8e1242ae312406a6a35d1bb45201ebe910344a44497a92f751f706de65c362dcddcc14 Homepage: https://cran.r-project.org/package=L2DensityGoFtest Description: CRAN Package 'L2DensityGoFtest' (Density Goodness-of-Fit Test) Provides functions for the implementation of a density goodness-of-fit test, based on piecewise approximation of the L2 distance. 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Improvements using the majorization-minimization (MM) principle from Liu, Chi, and Lange (2022+) added in Version 2.0. Package: r-cran-l2hdchange Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 414 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-l2hdchange_1.0-1.ca2004.1_all.deb Size: 384324 MD5sum: ca02f26ffd4c0f49ff2661c818d850c1 SHA1: b2a3d51fcee2cbf6068fe8c1aec4e664f4fa9038 SHA256: e89cb2724345c51904181e02bae9203d2b974fc3d8d4d9d79b3513f42ca09999 SHA512: e8d65918222efdb6bf84acdcf154a615e279e0e48b65a622779729a86aa93937746e3fbeddfc104fd3c1be8131f305b5ea5a94f844e1f4b888abe47991bddd3a Homepage: https://cran.r-project.org/package=L2hdchange Description: CRAN Package 'L2hdchange' (L2 Inference for Change Points in High-Dimensional Time Series) Provides a method for detecting multiple change points in high-dimensional time series, targeting dense or spatially clustered signals. See Li et al. (2023) "L2 Inference for Change Points in High-Dimensional Time Series via a Two-Way MOSUM". arXiv preprint . Package: r-cran-lab2clean Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1422 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-printr Filename: pool/dists/focal/main/r-cran-lab2clean_1.0.0-1.ca2004.1_all.deb Size: 682912 MD5sum: 0b04cb047d8f23b3a06f89f6ae9d4c4b SHA1: 694a70478a8b2ec8748db7b67b19025d8d21f243 SHA256: 204f2f54d6f4bc615b8c700e9f07d34d1eed80725cf090ae987bd10e347bc3d1 SHA512: 00d26a4c7705f1df2bad7734d5cbae8b4415b4c9d3666ef980b4a9d06f46b9c51750d9d2bf82f5b7317d09c14d946f939ed760f98b72bf53ed0d4012a2d28d2e Homepage: https://cran.r-project.org/package=lab2clean Description: CRAN Package 'lab2clean' (Automation and Standardization of Cleaning Clinical Lab Data) Navigating the shift of clinical laboratory data from primary everyday clinical use to secondary research purposes presents a significant challenge. Given the substantial time and expertise required for lab data pre-processing and cleaning and the lack of all-in-one tools tailored for this need, we developed our algorithm 'lab2clean' as an open-source R-package. 'lab2clean' package is set to automate and standardize the intricate process of cleaning clinical laboratory results. With a keen focus on improving the data quality of laboratory result values, our goal is to equip researchers with a straightforward, plug-and-play tool, making it smoother for them to unlock the true potential of clinical laboratory data in clinical research and clinical machine learning (ML) model development. Version 1.0 of the algorithm is described in detail in 'Zayed et al. (2024)' . Package: r-cran-labapplstat Architecture: all Version: 1.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-emmeans, r-cran-ggplot2, r-cran-ggraph, r-cran-vctrs Suggests: r-cran-isdals, r-cran-estimability, r-cran-dobson, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-labapplstat_1.4.4-1.ca2004.1_all.deb Size: 91924 MD5sum: e27ca54b0a96b8dc06679253890bbf10 SHA1: 855c618edce5a254b38186e6109720b8cfabe45d SHA256: 21064c8cfcc8ca3c31ce019f3708330fb8f1d4d0a349d4f69f4b69d87ad972f0 SHA512: 672d21c1bedffc7f39188e1849e79d42781bc5bc81892c3dbb8844deb8f09644f49678c92c567e1d9be86fe7a9c6b3253124d24dae4b70b4357ee138bd5e5ac4 Homepage: https://cran.r-project.org/package=LabApplStat Description: CRAN Package 'LabApplStat' (Miscellaneous Scripts from the Data Science Laboratory (UCPH)) Miscellaneous scripts, e.g. functionality to make and plot factor diagrams for the statistical design. Package: r-cran-label.switching Architecture: all Version: 1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-combinat, r-cran-lpsolve Filename: pool/dists/focal/main/r-cran-label.switching_1.8-1.ca2004.1_all.deb Size: 156020 MD5sum: d45b1fbba7a63547364cc2670be5d10f SHA1: 3b1a516d38a489ac2a1a092718d803902f4d9c92 SHA256: 4bf1d240b607b232ac84913073a456ef6d1ad5156af8186e974058ff8b245a62 SHA512: 60d2ab4b7448ec161eb7e8397df90f2b88cfa7f18ac8e9564e77f9345e2ad04fcd483600b3b115f68b2c89bfa92b8f42a4f8b48ac7c49b0b5a5b5fc1fdbb257e Homepage: https://cran.r-project.org/package=label.switching Description: CRAN Package 'label.switching' (Relabelling MCMC Outputs of Mixture Models) The Bayesian estimation of mixture models (and more general hidden Markov models) suffers from the label switching phenomenon, making the MCMC output non-identifiable. This package can be used in order to deal with this problem using various relabelling algorithms. Package: r-cran-labeler Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4883 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rmarkdown Suggests: r-cran-blastula, r-cran-keyring, r-cran-testthat Filename: pool/dists/focal/main/r-cran-labeler_0.4.0-1.ca2004.1_all.deb Size: 4472580 MD5sum: 9f23ab24ccedf0faf0d42f1eea406454 SHA1: 542df57d796efe6b7c242a2aa0e9bb003d8f0136 SHA256: b275c19d480d9b306f7bb29400d56a205f941cf10cc0bdcf712c46a305632d3e SHA512: 7f9b8c68fd7987a0b237a41e5eafff4b73fd63a2889ab0064536bbca7d9ec5139be7a39ec388efb0798b3cb0197d1a18dcfe945194c592529c6770c87acedfa6 Homepage: https://cran.r-project.org/package=labeleR Description: CRAN Package 'labeleR' (Automate the Production of Custom Labels, Badges, Certificates,and Other Documents) Create custom labels, badges, certificates and other documents. Automate the production of potentially large numbers of herbarium and collection labels, accreditation badges, attendance and participation certificates, etc, and deliver them automatically. Documents are generated in PDF format, which requires a working installation of 'LaTeX', such as 'TinyTeX'. 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Value labels include one-to-one and many-to-one labels for nominal and ordinal variables, as well as numerical range-based value labels for continuous variables. Convert value-labeled variables so each value is replaced by its corresponding value label. Add values-converted-to-labels columns to a value-labeled data frame while preserving parent columns. Filter and subset a value-labeled data frame using labels, while returning results in terms of values. Overlay labels in place of values in common R commands to increase interpretability. Generate tables of value frequencies, with categories expressed as raw values or as labels. Access data frames that show value-to-label mappings for easy reference. 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Package: r-cran-labelvector Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-hmisc, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-labelvector_0.1.2-1.ca2004.1_all.deb Size: 34580 MD5sum: 1d80c115878a45fd96fd435c30fe80f6 SHA1: a7371a0e6e096781225ffd668f15f64345682428 SHA256: 0d03864722480d599088c207d5a79e8843a84dc713314c8a9dfea5b6c0152ab3 SHA512: 43f2ca0905de18a08653d07775964de04b8199e296fe7c53e704de69608a006bae49346af19a89f99d19e68d30cc9cdb5bf526f804612e3ea237994322390e9a Homepage: https://cran.r-project.org/package=labelVector Description: CRAN Package 'labelVector' (Label Attributes for Atomic Vectors) Labels are a common construct in statistical software providing a human readable description of a variable. While variable names are succinct, quick to type, and follow a language's naming conventions, labels may be more illustrative and may use plain text and spaces. R does not provide native support for labels. Some packages, however, have made this feature available. Most notably, the 'Hmisc' package provides labelling methods for a number of different object. Due to design decisions, these methods are not all exported, and so are unavailable for use in package development. The 'labelVector' package supports labels for atomic vectors in a light-weight design that is suitable for use in other packages. Package: r-cran-lablaster Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr, r-cran-ggplot2, r-cran-smooth, r-cran-scales, r-cran-rlang Filename: pool/dists/focal/main/r-cran-lablaster_1.0.1-1.ca2004.1_all.deb Size: 44524 MD5sum: 8a1873fa9dc82ab208a0dc061daa19ec SHA1: bc878a5c2d5e36e8bdceb63acb25354ec15200b1 SHA256: 06fa551b709c7fd4522129585b9dac66e9085e606e3928e7b30cdd3671591b6b SHA512: cb18c98c814785e372d27e27b5f247766dc84b5022fdcc6c70a6b73cfae25ced05653e168cc92512205bb67aa43f05873799f767095e7902b412187bb14aa805 Homepage: https://cran.r-project.org/package=lablaster Description: CRAN Package 'lablaster' (Laser Ablation Blast Through Endpoint Detection) Imports a data frame containing a single time resolved laser ablation mass spectrometry analysis of a foraminifera (or other carbonate shell), then detects when the laser has burnt through the foraminifera test as a function of change in signal over time. Package: r-cran-labnorm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4482 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-glue, r-cran-purrr, r-cran-rappdirs, r-cran-scales, r-cran-tibble, r-cran-withr, r-cran-yesno Suggests: r-cran-covr, r-cran-mockery, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-labnorm_1.0.1-1.ca2004.1_all.deb Size: 3762268 MD5sum: 71525bdcdc317fa2f5693b27d824abfb SHA1: baa21e799a43ecee8c55bcd618b2683cac7c8b93 SHA256: 55ea45bc1f784df1b382cb5e45849e528e503c49eca4e245f7c53285b1a8f9a5 SHA512: 08c45be982911c60368f39b898b052f2a4e8c877d0fa55786dabf2a69638645a2541e02bfac3754e5723f02eb678f74104c7e33347d2ea73af02949fc28ab51b Homepage: https://cran.r-project.org/package=labNorm Description: CRAN Package 'labNorm' (Normalize Laboratory Measurements by Age and Sex) Provides functions for normalizing standard laboratory measurements (e.g. hemoglobin, cholesterol levels) according to age and sex, based on the algorithms described in "Personalized lab test models to quantify disease potentials in healthy individuals" (Netta Mendelson Cohen, Omer Schwartzman, Ram Jaschek, Aviezer Lifshitz, Michael Hoichman, Ran Balicer, Liran I. Shlush, Gabi Barbash & Amos Tanay, ). Allows users to easily obtain normalized values for standard lab results, and to visualize their distributions. See more at . Package: r-cran-labourmarketareas Architecture: all Version: 3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2122 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sp, r-cran-sf, r-cran-data.table, r-cran-spdep, r-cran-tmap Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-labourmarketareas_3.4-1.ca2004.1_all.deb Size: 1222360 MD5sum: d7f0ecee4b03606ee761925eab2b2d5d SHA1: bc844a1144d37d844fa5344821d46c93865bdd58 SHA256: 8433d3b284c610f3ea739d418664e9b1e02e8471dee7158eccaf5e8dbbd668ff SHA512: 114cc0c39276ba73196bec979d5f94b58c8d10939f96d012b919c84b8572e1ee86d15c5b401e1948b36ff14ea4c5a647887af6fbe1104ebee812e3ba46a231f8 Homepage: https://cran.r-project.org/package=LabourMarketAreas Description: CRAN Package 'LabourMarketAreas' (Identification, Tuning, Visualisation and Analysis of LabourMarket Areas) Produces Labour Market Areas from commuting flows available at elementary territorial units. It provides tools for automatic tuning based on spatial contiguity. It also allows for statistical analyses and visualisation of the new functional geography. Package: r-cran-labourr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2991 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-cld2, r-cran-magrittr, r-cran-stopwords, r-cran-stringdist Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-labourr_1.0.0-1.ca2004.1_all.deb Size: 2915284 MD5sum: afb4348577b5d73f703b68d960dd23e5 SHA1: 78e01e9346d7b377637df2fa62ff4138aedd149a SHA256: e12653df9d8c12734e19ac1910bc6780642339bb06c7660cdfe0f5f0f473ea03 SHA512: 63bb7317476264a751ac0acc236969a5e3fb3b99135c16df9a0b1c30253d5a6d9bf186a2c16b6b5a932b33bb3207cebd8c66a0b2dfd33950cc0377dbe22c606d Homepage: https://cran.r-project.org/package=labourR Description: CRAN Package 'labourR' (Classify Multilingual Labour Market Free-Text to StandardizedHierarchical Occupations) Allows the user to map multilingual free-text of occupations to a broad range of standardized classifications. The package facilitates automatic occupation coding (see, e.g., Gweon et al. (2017) and Turrell et al. (2019) ), where the ISCO to ESCO mapping is exploited to extend the occupations hierarchy, Le Vrang et al. (2014) . Document vectorization is performed using the multilingual ESCO corpus. A method based on the nearest neighbor search is used to suggest the closest ISCO occupation. Package: r-cran-labrs Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 438 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-knitr Suggests: r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-labrs_0.1.0-1.ca2004.1_all.deb Size: 350168 MD5sum: b793f46231a4ca30b19c9a5698eec6c7 SHA1: 774b1a918c359507a4d1f37d0cf589bac0f1c704 SHA256: c2eaeb421d4d308e9b2a24b3116d914fc33181532377c149ab7ea899336ef815 SHA512: 84ab9d01ebda7041663f63489c241ec9385ecfc6e7e145746ce1a85947aa8799f3ed50c76518c473506a11c45e370adfc5c4faf566bf692bd7b39594d2f75bb2 Homepage: https://cran.r-project.org/package=LabRS Description: CRAN Package 'LabRS' (Laboratorio di "Ricerca Sociale con R") Dati, scripts e funzioni per il libro "Ricerca sociale con R. Concetti e funzioni base per la ricerca sociale" (Datasets, scripts and functions to support the book "Ricerca sociale con R. Concetti e funzioni base per la ricerca sociale"). Package: r-cran-labsimplex Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3851 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-scatterplot3d, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-frf2 Filename: pool/dists/focal/main/r-cran-labsimplex_0.1.2-1.ca2004.1_all.deb Size: 2835292 MD5sum: 99311c42943ab7a327e5340ce8563788 SHA1: 3098a8e0f5f41b6ed72775a7e297024c9f60ed2b SHA256: d9361f35b12e4fe184a7b92f3ba4c7af69f78c9b50405090699174ffba7ee6fc SHA512: 975e8266ea80bb67aae9184e89c673ded2d28ea76241b8da0133c4b93e25c7b70aafbd4ebbd7a12c0a5943d7fbc29e4cbb62b46813c5f8e9a4b8c709147fe13c Homepage: https://cran.r-project.org/package=labsimplex Description: CRAN Package 'labsimplex' (Simplex Optimization Algorithms for Laboratory and ManufacturingProcesses) Simplex optimization algorithms as firstly proposed by Spendley et al. (1962) and later modified by Nelder and Mead (1965) for laboratory and manufacturing processes. The package also provides tools for graphical representation of the simplexes and some example response surfaces that are useful in illustrating the optimization process. Package: r-cran-labstatr Architecture: all Version: 1.0.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 248 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-labstatr_1.0.13-1.ca2004.1_all.deb Size: 185136 MD5sum: e7b9fb5b23e18f603f3bd29e6fe44a6c SHA1: 0dfb34a8555d6d630c4b7fa7a62d0e2825095164 SHA256: 8e5592f7ffc9572e7dd73c3adafa91ec5d3b30eb58c26350aa186416426cf504 SHA512: a0f2813bcb4c696b23896151324ecbeecd0fe747ca6f60579647bf631d28a5cca67a6b11dfd5c8b60776c00599abe72ddd0ff1dde319f4feca5c59032c9a95b9 Homepage: https://cran.r-project.org/package=labstatR Description: CRAN Package 'labstatR' (Libreria Del Laboratorio Di Statistica Con R) Insieme di funzioni di supporto al volume "Laboratorio di Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia, 2006. This package contains sets of functions defined in "Laboratorio di Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia, 2006. Function names and docs are in italian as well. Package: r-cran-labstats Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 260 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-labstats_1.0.1-1.ca2004.1_all.deb Size: 72248 MD5sum: f0e25ce25dfe07e33c26860917e388f6 SHA1: 8428bfaa59d0614a94072f6134fd5cc144301506 SHA256: c403d59c5c97ea38b96cad1994908eaace2cd2ef46c3f7539d13b0b81554edaf SHA512: adfe7d20f753f4926844582431caaf01613026f25dd2482a88deac9d516e60f075cf0229e0014ca527fd57ad7de921439e52b6047cdc8015f3c9e753a4fe65ff Homepage: https://cran.r-project.org/package=labstats Description: CRAN Package 'labstats' (Data Sets for the Book "Experimental Design for LaboratoryBiologists") Contains data sets to accompany the book: Lazic SE (2016). "Experimental Design for Laboratory Biologists: Maximising Information and Improving Reproducibility". Cambridge University Press. Package: r-cran-lacrmr Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 306 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-janitor, r-cran-sjmisc, r-cran-stringr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-httptest, r-cran-mockery Filename: pool/dists/focal/main/r-cran-lacrmr_1.0.5-1.ca2004.1_all.deb Size: 230508 MD5sum: 13173af1b1ec210909ad5451e9799ae2 SHA1: f4b77b6e1cfdd445fbd0e6ace46f039d99b07448 SHA256: 72d5d721bda0fd2cd40d4fb9850aab2b059e6017137cb231b71795759c5ea6e1 SHA512: c7faf66a7e3ddd5881059fe7ddd17a5a70eb5c757e3395e6fdeefe5d42e4578f2c9f5c461b1db6dbf5274b5fc47993ae57d67a4f55e78e7848149a14c4437878 Homepage: https://cran.r-project.org/package=lacrmr Description: CRAN Package 'lacrmr' (Connect to the 'Less Annoying CRM' API) Connect to the 'Less Annoying CRM' API with ease to get your crm data in a clean and tidy format. 'Less Annoying CRM' is a simple CRM built for small businesses, more information is available on their website . Package: r-cran-lactater Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 307 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magrittr, r-cran-broom, r-cran-dplyr, r-cran-ggplot2, r-cran-ggtext, r-cran-patchwork, r-cran-lubridate, r-cran-minpack.lm, r-cran-pracma, r-cran-rlang, r-cran-segmented, r-cran-stringr, r-cran-tidyr, r-cran-forcats Suggests: r-cran-bsplus, r-cran-covr, r-cran-datapasta, r-cran-glue, r-cran-knitr, r-cran-miniui, r-cran-rhandsontable, r-cran-rmarkdown, r-cran-shiny, r-cran-shinyjs, r-cran-shinywidgets, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-lactater_0.2.0-1.ca2004.1_all.deb Size: 267664 MD5sum: ee4704ac651983250dcee12d417b6ffa SHA1: 757d7bdc5d1a90bca9c14beabe9521856008aba6 SHA256: b9d4724a2473eda4b1d516c2ea5e2dc5b1ef2f94ed4298b9aef2544576707632 SHA512: b176004f19648083b5b98d4f39570161ac5c4e2adf89dc2fe6d0ab5c5e0ceaa34c4c9d092889db2400afac3f618a80e49b9697c2a6e7bbf058a54e46756e8b24 Homepage: https://cran.r-project.org/package=lactater Description: CRAN Package 'lactater' (Tools for Analyzing Lactate Thresholds) Set of tools for analyzing lactate thresholds from a step incremental test to exhaustion. Easily analyze the methods Log-log, Onset of Blood Lactate Accumulation (OBLA), Baseline plus (Bsln+), Dmax, Lactate Turning Point (LTP), and Lactate / Intensity ratio (LTratio) in cycling, running, or swimming. Beaver WL, Wasserman K, Whipp BJ (1985) . Heck H, Mader A, Hess G, Mücke S, Müller R, Hollmann W (1985) . Kindermann W, Simon G, Keul J (1979) . Skinner JS, Mclellan TH (1980) . Berg A, Jakob E, Lehmann M, Dickhuth HH, Huber G, Keul J (1990) PMID 2408033. Zoladz JA, Rademaker AC, Sargeant AJ (1995) . Cheng B, Kuipers H, Snyder A, Keizer H, Jeukendrup A, Hesselink M (1992) . Bishop D, Jenkins DG, Mackinnon LT (1998) . Hughson RL, Weisiger KH, Swanson GD (1987) . Jamnick NA, Botella J, Pyne DB, Bishop DJ (2018) . Hofmann P, Tschakert G (2017) . Hofmann P, Pokan R, von Duvillard SP, Seibert FJ, Zweiker R, Schmid P (1997) . Pokan R, Hofmann P, Von Duvillard SP, et al. (1997) . Dickhuth H-H, Yin L, Niess A, et al. (1999) . Package: r-cran-lactcurves Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 210 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-polynom, r-cran-orthopolynom Filename: pool/dists/focal/main/r-cran-lactcurves_1.1.0-1.ca2004.1_all.deb Size: 162324 MD5sum: b1c689954d2d53a9489a3c33500e43e9 SHA1: ba0f1281ca9f7c381aff948338b92147926c3914 SHA256: abc7c84c783ef910bfa68922229ad22583ae039d3db759938bb1439409a86b87 SHA512: 7b730326e485dc2a952732087be97f0727cf88b8d56f7ba605d44c6bbebb25ae62dbecb7c90ea5be53cffb7bf939fe8a701b853a8bc6c9b10a925a0436d7a742 Homepage: https://cran.r-project.org/package=lactcurves Description: CRAN Package 'lactcurves' (Lactation Curve Parameter Estimation) AllCurves() runs multiple lactation curve models and extracts selection criteria for each model. This package summarises the most common lactation curve models from the last century and provides a tool for researchers to quickly decide on which model fits their data best to proceed with their analysis. Start parameters were optimized based on a dataset with 1.7 million Holstein-Friesian cows. If convergence fails, the start parameters need to be manually adjusted. The models included in the package are taken from: (1) Michaelis-Menten: Michaelis, L. and M.L. Menten (1913). (1a) Michaelis-Menten (Rook): Rook, A.J., J. France, and M.S. Dhanoa (1993). (1b) Michaelis-Menten + exponential (Rook): Rook, A.J., J. France, and M.S. Dhanoa (1993). (2) Brody (1923): Brody, S., A.C. Ragsdale, and C.W. Turner (1923). (3) Brody (1924): Brody, S., C.W. Tuner, and A.C. Ragsdale (1924). (4) Schumacher: Schumacher, F.X. (1939) in Thornley, J.H.M. and J. France (2007). (4a) Schumacher (Lopez et al. 2015): Lopez, S. J. France, N.E. Odongo, R.A. McBride, E. Kebreab, O. AlZahal, B.W. McBride, and J. Dijkstra (2015). (5) Parabolic exponential (Adediran): Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O. Malau-Aduli (2012). (6) Wood: Wood, P.D.P. (1967). (6a) Wood reparameterized (Dhanoa): Dhanoa, M.S. (1981). (6b) Wood non-linear (Cappio-Borlino): Cappio-Borlino, A., G. Pulina, and G. Rossi (1995). (7) Quadratic Polynomial (Dave): Dave, B.K. (1971) in Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O. Malau-Aduli (2012). (8) Cobby and Le Du (Vargas): Vargas, B., W.J. Koops, M. Herrero, and J.A.M Van Arendonk (2000). (9) Papajcsik and Bodero 1: Papajcsik, I.A. and J. Bodero (1988). (10) Papajcsik and Bodero 2: Papajcsik, I.A. and J. Bodero (1988). (11) Papajcsik and Bodero 3: Papajcsik, I.A. and J. Bodero (1988). (12) Papajcsik and Bodero 4: Papajcsik, I.A. and J. Bodero (1988). (13) Papajcsik and Bodero 6: Papajcsik, I.A. and J. Bodero (1988). (14) Mixed log model 1 (Guo and Swalve): Guo, Z. and H.H. Swalve (1995). (15) Mixed log model 3 (Guo and Swalve): Guo, Z. and H.H. Swalve (1995). (16) Log-quadratic (Adediran et al. 2012): Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O. Malau-Aduli (2012). (17) Wilmink: J.B.M. Wilmink (1987). (17a) modified Wilmink (Jakobsen): Jakobsen J.H., P. Madsen, J. Jensen, J. Pedersen, L.G. Christensen, and D.A. Sorensen (2002). (17b) modified Wilmink (Laurenson & Strucken): Strucken E.M., Brockmann G.A., and Y.C.S.M. Laurenson (2019). (18) Bicompartemental (Ferguson and Boston 1993): Ferguson, J.D., and R. Boston (1993) in Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O. Malau-Aduli (2012). (19) Dijkstra: Dijkstra, J., J. France, M.S. Dhanoa, J.A. Maas, M.D. Hanigan, A.J. Rook, and D.E. Beever (1997). (20) Morant and Gnanasakthy (Pollott et al 2000): Pollott, G.E. and E. Gootwine (2000). (21) Morant and Gnanasakthy (Vargas et al 2000): Vargas, B., W.J. Koops, M. Herrero, and J.A.M Van Arendonk (2000). (22) Morant and Gnanasakthy (Adediran et al. 2012): Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O. Malau-Aduli (2012). (23) Khandekar (Guo and Swalve): Guo, Z. and H.H. Swalve (1995). (24) Ali and Schaeffer: Ali, T.E. and L.R. Schaeffer (1987). (25) Fractional Polynomial (Elvira et al. 2013): Elvira, L., F. Hernandez, P. Cuesta, S. Cano, J.-V. Gonzalez-Martin, and S. Astiz (2012). (26) Pollott multiplicative (Elvira): Elvira, L., F. Hernandez, P. Cuesta, S. Cano, J.-V. Gonzalez-Martin, and S. Astiz (2012). (27) Pollott modified: Adediran, S.A., D.A. Ratkowsky, D.J. Donaghy, and A.E.O. Malau-Aduli (2012). (28) Monophasic Grossman: Grossman, M. and W.J. Koops (1988). (29) Monophasic Power Transformed (Grossman 1999): Grossman, M., S.M. Hartz, and W.J. Koops (1999). (30) Diphasic (Grossman 1999): Grossman, M., S.M. Hartz, and W.J. Koops (1999). (31) Diphasic Power Transformed (Grossman 1999): Grossman, M., S.M. Hartz, and W.J. Koops (1999). (32) Legendre Polynomial (3th order): Jakobsen J.H., P. Madsen, J. Jensen, J. Pedersen, L.G. Christensen, and D.A. Sorensen (2002). (33) Legendre Polynomial (4th order): Jakobsen J.H., P. Madsen, J. Jensen, J. Pedersen, L.G. Christensen, and D.A. Sorensen (2002). (34) Legendre + Wilmink (Lidauer): Lidauer, M. and E.A. Mantysaari (1999). (35) Natural Cubic Spline (3 percentiles): White, I.M.S., R. Thompson, and S. Brotherstone (1999). (36) Natural Cubic Spline (4 percentiles): White, I.M.S., R. Thompson, and S. Brotherstone (1999). (37) Natural Cubic Spline (5 percentiles): White, I.M.S., R. Thompson, and S. Brotherstone (1999) (38) Natural Cubic Spline (defined knots according to Harrell 2001): Jr. Harrell, F.E. (2001). The selection criteria measure the goodness of fit of the model and include: Residual standard error (RSE), R-square (R2), log likelihood, Akaike information criterion (AIC), Akaike information criterion corrected (AICC), Bayesian Information Criterion (BIC), Durbin Watson coefficient (DW). The following model parameters are included: Residual sum of squares (RSS), Residual standard deviation (RSD), F-value (F) based on F-ratio test. Package: r-cran-lacunaritycovariance Architecture: all Version: 1.1-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 557 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-spatstat, r-cran-rcpproll, r-cran-spatstat.explore, r-cran-spatstat.geom, r-cran-spatstat.random Suggests: r-cran-cubature, r-cran-sf, r-cran-terra, r-cran-testthat Filename: pool/dists/focal/main/r-cran-lacunaritycovariance_1.1-7-1.ca2004.1_all.deb Size: 434932 MD5sum: 91c5193243e98f6434fc370e16506452 SHA1: 02048dea300972ca9a91f03fec1bed20d5ea8e25 SHA256: 6cdcb9507929b0759935a6624af61ef2faedb5335d2c7c2a6945b4973e027d38 SHA512: 0c183fc28ef789fe7f4bb9e80b6bf57e9f57d881b7f10211b0377846df115af27a32d3ed48849f1e4e53e9771a1c4b48cb9c8dc8986bfdaa8bce6c06106d55bf Homepage: https://cran.r-project.org/package=lacunaritycovariance Description: CRAN Package 'lacunaritycovariance' (Gliding Box Lacunarity and Other Metrics for 2D Random ClosedSets) Functions for estimating the gliding box lacunarity (GBL), covariance, and pair-correlation of a random closed set (RACS) in 2D from a binary coverage map (e.g. presence-absence land cover maps). Contains a number of newly-developed covariance-based estimators of GBL (Hingee et al., 2019) and balanced estimators, proposed by Picka (2000) , for covariance, centred covariance, and pair-correlation. Also contains methods for estimating contagion-like properties of RACS and simulating 2D Boolean models. Binary coverage maps are usually represented as raster images with pixel values of TRUE, FALSE or NA, with NA representing unobserved pixels. A demo for extracting such a binary map from a geospatial data format is provided. Binary maps may also be represented using polygonal sets as the foreground, however for most computations such maps are converted into raster images. The package is based on research conducted during the author's PhD studies. Package: r-cran-lad Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1940 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cowplot, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-tidyr, r-cran-tidyselect Filename: pool/dists/focal/main/r-cran-lad_0.1.0-1.ca2004.1_all.deb Size: 1795756 MD5sum: e22858552c753cdc95cea98326fc4c51 SHA1: 4cb2f25f432657e09ed562a324374db6de6f8a03 SHA256: 0a0826b24f8694fa6adc179e3ee62eebdbe0a5b1d8c32e8c969154df6b6abcb3 SHA512: b4c389321e00424f2c42d355ec38092818a985c5b7e85ee94e2e554106281dfa3a6d67f2f9b213ef69b55b240f12a5c65fc9fe10315a81d41b5b0367f25ee0b1 Homepage: https://cran.r-project.org/package=LAD Description: CRAN Package 'LAD' (Derive Leaf Angle Distribution (LAD) from Measured LeafInclination Angles) Calculate mean statistics and leaf angle distribution type from measured leaf inclination angles. LAD distribution is fitted using a two-parameters (mu, nu) Beta distribution and compared with six theoretical LAD distributions. Additional information is provided in Chianucci and Cesaretti (2022) . Package: r-cran-ladder Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 314 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-curl, r-cran-flextable, r-cran-gargle, r-cran-httpuv, r-cran-httr, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ladder_0.0.3-1.ca2004.1_all.deb Size: 235088 MD5sum: e5df9193dd8e6d79c26336c21a5d4549 SHA1: 25b92f0f1642a9bd2e2c61aeb8c1c2823d6482cd SHA256: 48278d2d7694146fc875e6ae24bf42c9459e53753d95e1d7a55afcd7e9f68d64 SHA512: bb604472d032c93d1e646b45007bb2499c8e534d42bf34eabaa21cf8fc1701a596926894b04ddbf5ae03d5023de04b5f5542a2c4ce768e1edcc4ae78711fb68d Homepage: https://cran.r-project.org/package=ladder Description: CRAN Package 'ladder' (Get on to the Slides) Create tables from within R directly on Google Slides presentations. Currently supports matrix, data.frame and 'flextable' objects. Package: r-cran-ladderfuelsr Architecture: all Version: 0.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1791 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-gdata, r-cran-ggplot2, r-cran-magrittr, r-cran-segmented, r-cran-stringr, r-cran-tidyr, r-cran-tibble, r-cran-tidyselect Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ladderfuelsr_0.0.7-1.ca2004.1_all.deb Size: 653516 MD5sum: f7f67dca8b5c8a0b82bda45e316dc90b SHA1: 30d2418e4596416ac3fd2bd8db89b4208cb44532 SHA256: c1460dfc9f35062f8b8d82e07dba19a1ef95433bf8e1bc72843483d5459b0c7a SHA512: 967d9306f7b54df6e1ac125ac513e97393aba99afed2500c909d8183e9931e31070cca52a4399fcb81f84ef7ea1363e3e8c929a842c9997931da2eac25a42c8b Homepage: https://cran.r-project.org/package=LadderFuelsR Description: CRAN Package 'LadderFuelsR' (Automated Tool for Vertical Fuel Continuity Analysis usingAirborne Laser Scanning Data) Set of tools for analyzing vertical fuel continuity at the tree level using Airborne Laser Scanning data. The workflow consisted of: 1) calculating the vertical height profiles of each segmented tree; 2) identifying gaps and fuel layers; 3) estimating the distance between fuel layers; and 4) retrieving the fuel layers base height and depth. Additionally, other functions recalculate previous metrics after considering distances greater than certain threshold. Moreover, the package calculates: i) the percentage of Leaf Area Density comprised in each fuel layer, ii) remove fuel layers with Leaf Area Density (LAD) percentage less than 10, and iii) recalculate the distances among the reminder ones. On the other hand, it identifies the crown base height (CBH) based on different criteria: the fuel layer with the highest LAD percentage and the fuel layers located at the largest- and at the last-distance. When there is only one fuel layer, it also identifies the CBH performing a segmented linear regression (breaking points) on the cumulative sum of LAD as a function of height. Finally, a collection of plotting functions is developed to represent: i) the initial gaps and fuel layers; ii) the fuels base height, depths and gaps with distances greater than certain threshold and, iii) the CBH based on different criteria. The methods implemented in this package are original and have not been published elsewhere. Package: r-cran-laeken Architecture: all Version: 0.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3303 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-mass Filename: pool/dists/focal/main/r-cran-laeken_0.5.3-1.ca2004.1_all.deb Size: 3095780 MD5sum: 3970c60233dc7d377d51565ed92f641f SHA1: 53f1cc27d649730a3fc6b0f2eff1132c350bab4d SHA256: 9b6a91d3c461a13b48a9c196209867f74e381945fae9d3cd4562b5a5fbdb5358 SHA512: 22d8ea75decbc442291e26a5150e00142f757e999d2042cd22abe8ae8f670808196cf434295f25a401fc4aaccc60cda1fe07b22392351ca30a5b412393a25c38 Homepage: https://cran.r-project.org/package=laeken Description: CRAN Package 'laeken' (Estimation of Indicators on Social Exclusion and Poverty) Estimation of indicators on social exclusion and poverty, as well as Pareto tail modeling for empirical income distributions. 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Package: r-cran-lagsequential Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-lagsequential_0.1.1-1.ca2004.1_all.deb Size: 153916 MD5sum: 0fb7f8e9efceea44a206e9fe5016193e SHA1: 6e16f6b20329970a64fc2d8139f25bdce75e46dd SHA256: 218b5adf81a68fbff9cd273438235b29c557ce445f63a5961c40cb9115a9db9a SHA512: 31c4583a72b7a3d9479531ff0905a664facad0dfd9d2924d4b7208807fa2fc34eb69645ed6b09ecb18206c12645d100d5338c2fa3d9815235c19d50d9ffb85b8 Homepage: https://cran.r-project.org/package=LagSequential Description: CRAN Package 'LagSequential' (Lag-Sequential Categorical Data Analysis) Lag-sequential analysis is a method of assessing of patterns (what tends to follow what?) in sequences of codes. The codes are typically for discrete behaviors or states. The functions in this package read a stream of codes, or a frequency transition matrix, and produce a variety of lag sequential statistics, including transitional frequencies, expected transitional frequencies, transitional probabilities, z values, adjusted residuals, Yule's Q values, likelihood ratio tests of stationarity across time and homogeneity across groups or segments, transformed kappas for unidirectional dependence, bidirectional dependence, parallel and nonparallel dominance, and significance levels based on both parametric and randomization tests. The methods are described in Bakeman & Quera (2011) , O'Connor (1999) , Wampold & Margolin (1982) , and Wampold (1995, ISBN:0-89391-919-5). Package: r-cran-lahman Architecture: all Version: 12.0-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6270 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr Suggests: r-cran-lattice, r-cran-ggplot2, r-cran-googlevis, r-cran-data.table, r-cran-vcd, r-cran-reshape2, r-cran-tidyr, r-cran-knitr, r-cran-rmarkdown, r-cran-car Filename: pool/dists/focal/main/r-cran-lahman_12.0-0-1.ca2004.1_all.deb Size: 6115844 MD5sum: ee09b3d62a8fc25f7d6d00b3b5be6433 SHA1: 2504add79ede0fff5f31c17c428e06c4585c4010 SHA256: a8075682319c06c5f64b4669e7bd831b956d131160965cd0a533f133aede9a7f SHA512: b00c8b9077482edbdd605664967c6324b7a9e951d167b2d8b65b534021d8f43ff0febff82cdfaeba2c0f965cca1384e8e2a8fda4349b26d09c96d7f45c281e4d Homepage: https://cran.r-project.org/package=Lahman Description: CRAN Package 'Lahman' (Sean 'Lahman' Baseball Database) Provides the tables from the 'Sean Lahman Baseball Database' as a set of R data.frames. It uses the data on pitching, hitting and fielding performance and other tables from 1871 through 2023, as recorded in the 2024 version of the database. Documentation examples show how many baseball questions can be investigated. Package: r-cran-lair Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 716 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-stringr, r-cran-terra Filename: pool/dists/focal/main/r-cran-lair_0.3.0-1.ca2004.1_all.deb Size: 641900 MD5sum: f2cf4287c2f7ae78c2ed523ae4412929 SHA1: b137b4c3118e39daf72d05a2eee3d28bff2f5dde SHA256: 943cb73bc93e713d292d417eb4d93a0e20a49ea6dc075ccf99efddf58991be29 SHA512: f6a9c65172905adb6221d6243de42196117682552b2ed2874f7be71e02a92cc86fbd973b89add7ce1686b672d6d19abf4a9a0ed338e53eca17fe5606d3e934bc Homepage: https://cran.r-project.org/package=LAIr Description: CRAN Package 'LAIr' (Converting NDVI to LAI of Field, Proximal and Satellite Data) Convert Leaf Area Index (LAI) from the Normalized Difference Vegetation Index (NDVI) using available equations from literature. Detailed description of conversion equations in Bajocco et al. 2022 . Package: r-cran-lakemorpho Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 445 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-raster, r-cran-sp, r-cran-sf, r-cran-geosphere, r-cran-cluster Filename: pool/dists/focal/main/r-cran-lakemorpho_1.3.2-1.ca2004.1_all.deb Size: 420080 MD5sum: 87a543b4afc14554af3e15de3a4b56f9 SHA1: 12d27135f0c4c3ddbf25742c47124e87e3147ac6 SHA256: a318d12d8ca93c32e2b6e2ad0d4db79028cdd8475b015c0aa9c5011c451f77df SHA512: 06c05efd10944344dedafe3c02b3972ce90b8608b1631a217f74c25d66489bc3fd176ba63bd703b9cc80629f7828123b98a5eddaa6c12617df7aacdb564ee232 Homepage: https://cran.r-project.org/package=lakemorpho Description: CRAN Package 'lakemorpho' (Lake Morphometry Metrics) Lake morphometry metrics are used by limnologists to understand, among other things, the ecological processes in a lake. Traditionally, these metrics are calculated by hand, with planimeters, and increasingly with commercial GIS products. All of these methods work; however, they are either outdated, difficult to reproduce, or require expensive licenses to use. The 'lakemorpho' package provides the tools to calculate a typical suite of these metrics from an input elevation model and lake polygon. The metrics currently supported are: fetch, major axis, minor axis, major/minor axis ratio, maximum length, maximum width, mean width, maximum depth, mean depth, shoreline development, shoreline length, surface area, and volume. Package: r-cran-laketemps Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1099 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-laketemps_0.5.1-1.ca2004.1_all.deb Size: 586252 MD5sum: eefeb02a546711edb85d843bf1bdfbaa SHA1: daa49f7ff4087c71cb2262f5501b2a2ab3856571 SHA256: 5b1dfd99eac222a2603d81b7ad582c0af551dc91dcf45d313bfc7d61d89b8ddd SHA512: 985a2bbfb801c7fff1c1731de7d04a023ef9121a552370e4b4e770a16164884e238f82c6cd4b933d1382294d3222536b88a4b1099a1b1149b59f57f5c2fdc23b Homepage: https://cran.r-project.org/package=laketemps Description: CRAN Package 'laketemps' (Lake Temperatures Collected by Situ and Satellite Methods from1985-2009) Lake temperature records, metadata, and climate drivers for 291 global lakes during the time period 1985-2009. Temperature observations were collected using satellite and in situ methods. Climatic drivers and geomorphometric characteristics were also compiled and are included for each lake. Data are part of the associated publication from the Global Lake Temperature Collaboration project (http://www.laketemperature.org). See citation('laketemps') for dataset attribution. Package: r-cran-lakhesis Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readr, r-cran-ca, r-cran-ggplot2, r-cran-rdpack, r-cran-shiny, r-cran-shinydashboard, r-cran-bslib Filename: pool/dists/focal/main/r-cran-lakhesis_0.0.1-1.ca2004.1_all.deb Size: 126040 MD5sum: 38558adb36d252fe99298ee8aac5cd91 SHA1: 55ed3ae5b062cbce851c34a32d0cec344cf9a02e SHA256: a3872c8d37d6c9a2823a4d82e915771872ac046dda98df525ac680a6cf23f92b SHA512: ec7705e1f73e0612c09d5a665831de2bfe5d7c3c39d5fc4105d6cc4bd30bc3e082579b6566cc558403b2f17fa85fd576f96fa908b8bd7b94f81df284db0cda9d Homepage: https://cran.r-project.org/package=lakhesis Description: CRAN Package 'lakhesis' (Consensus Seriation for Binary Data) Determining consensus seriations for binary incidence matrices, using a two-step process of Procrustes-fit correspondence analysis for heuristic selection of partial seriations and iterative regression to establish a single consensus. Contains the Lakhesis Calculator, a graphical platform for identifying seriated sequences. Collins-Elliott (2024) . Package: r-cran-lambda.r Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formatr Suggests: r-cran-testit Filename: pool/dists/focal/main/r-cran-lambda.r_1.2.4-1.ca2004.1_all.deb Size: 111252 MD5sum: bb9c959ad91491c7e9a37e5767b3bf0c SHA1: 0bfc6c26547b5ef5cff311be2209deec23e6a834 SHA256: a11a56409a65b21b415798fe6940c3d0826db6161fc123776076dfaa66603276 SHA512: d6daee7bb39799eb05ba345bd4677dbe4eb05402a5ec29f873626f7003bd3cffcf44ed314e26ec3fb7e6385e05d4c33de18ef2eedf1ad484807ba5ef250e7f18 Homepage: https://cran.r-project.org/package=lambda.r Description: CRAN Package 'lambda.r' (Modeling Data with Functional Programming) A language extension to efficiently write functional programs in R. 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The package allows users access to whichever reliability estimator is deemed most appropriate for their situation. 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Package: r-cran-lancor Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-acepack, r-cran-arrangements, r-cran-boot, r-cran-sn Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-lancor_0.1.2-1.ca2004.1_all.deb Size: 48000 MD5sum: 9fe9dac800efa861cd4c791b2bdb344d SHA1: ec95400e408e352b9ebb7f705534d97d8a571f3d SHA256: 0dba46324c505d477385d6b26f5a53b98af202e8734d174e41360c79802cf30f SHA512: 9d456db4656381b6613d223378ebdfe3d1e2ab7e40f893b1a73b5f4debd3966462969ab8ced57cbe9e581de4f6d897e69910aecc4970f7238354430c010b3948 Homepage: https://cran.r-project.org/package=lancor Description: CRAN Package 'lancor' (Statistical Inference via Lancaster Correlation) Implementation of the methods described in Holzmann, Klar (2024) . 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Package: r-cran-landcomp Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1147 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-future, r-cran-future.apply, r-cran-sf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-landcomp_0.0.5-1.ca2004.1_all.deb Size: 744068 MD5sum: 8e5e238adb73fad98e8f67517af977d7 SHA1: 12db0f6895df4d0be658c32a16ca62b7fbdfcd6e SHA256: 939f43b5217a9e6b73c2f612ae76d3e29589762d6b407bed95c3643ea1e9436a SHA512: 87b0a53f350a94ab4242129d698f4aee3373b2110b78dd6626a179b56e882a84fd963142da5b9a50f315e883ee54c1c2a9d21c26b660d393eacbf42562933fa4 Homepage: https://cran.r-project.org/package=LandComp Description: CRAN Package 'LandComp' (Analysing Landscape Composition and Structure at Multiple Scales) Changes of landscape diversity and structure can be detected soon if relying on landscape class combinations and analysing patterns at multiple scales. 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Package: r-cran-landest Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 299 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-landest_1.2-1.ca2004.1_all.deb Size: 272924 MD5sum: 4a954fada818fa97c30d0e1684e7270b SHA1: a762f9db6faec6ec0b69d9a0137d0d10b71f33c2 SHA256: 6908b9fee4582611159212713415fe0ac0fd6b0be12912f33ef5b9c953abf1ee SHA512: 71171b2d3059d6d99f25ecf2972530e41222c7de47c51a6935bf6cda82ef6cb614397072489cea50c27a2990655240d4c6de5eee191abbe5f5b823dd9dcb86d5 Homepage: https://cran.r-project.org/package=landest Description: CRAN Package 'landest' (Landmark Estimation of Survival and Treatment Effect) Provides functions to estimate survival and a treatment effect using a landmark estimation approach. Package: r-cran-landform Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-terra Filename: pool/dists/focal/main/r-cran-landform_0.2-1.ca2004.1_all.deb Size: 21872 MD5sum: 87f2b8fbedfdbd866bf0f38ee144d26c SHA1: c7afcd8ec1ee4c4b4c93fb2e434712cc55c17258 SHA256: 4e2bbcc3b2c643599198a531e0d1f4fd418ad4aabd53af59d9a6e2752d904e95 SHA512: 3f49380685761374b3dd6c36941b651c271ed4cd60d17e56ea1062aab4b30263f711bdee0051bc21e651ff47f50b5de4ff73de7750408982c1d74893edb022a2 Homepage: https://cran.r-project.org/package=landform Description: CRAN Package 'landform' (Topographic Position Index-Based Landform Classification) Provides a function for classifying a landscape into different categories based on the Topographic Position Index (TPI) and slope. It offers two types of classifications: Slope Position Classification, and Landform Classification. 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Package: r-cran-landmarking Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 788 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nlme, r-cran-riskregression, r-cran-dplyr, r-cran-pec, r-cran-prodlim, r-cran-survival, r-cran-mstate, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-jm Filename: pool/dists/focal/main/r-cran-landmarking_1.0.0-1.ca2004.1_all.deb Size: 587500 MD5sum: f1306c6353ffad8ebb3e8c85a766f954 SHA1: aaa0b6f4154b11670f9d4af3a47b4b308ed53814 SHA256: ea362a5c28797ccd54444e085ca2d7820a2d0ba5c7966e930552de255845e043 SHA512: ad89d96f36130caa4605108d95ac428c2435f381f3e8310d785207690d0badabbd01e4ed6352a27aa6a9419af8b0a1ef15a4f584d42870a54a3dbcbf22af4055 Homepage: https://cran.r-project.org/package=Landmarking Description: CRAN Package 'Landmarking' (Analysis using Landmark Models) The landmark approach allows survival predictions to be updated dynamically as new measurements from an individual are recorded. 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Package: r-cran-landmix Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-landmix_1.0-1.ca2004.1_all.deb Size: 68804 MD5sum: 4329157de01a9f2ac571532bb891cfe8 SHA1: fcb581f4957c67a92879c8aef70119335bda8e30 SHA256: fde1523a7410c0d9fcc8bb7d0dac5c60de3ed5b37d65f717219153f6bbdd5795 SHA512: cd23c1f68fcc9058efc7c5c9a0ec18498d90586a1aa5a31cb663a610dc4968dafd2aebdf8f80c0364754ddfc346ce8f0cddecab2baefda156cf924b3d70aa229 Homepage: https://cran.r-project.org/package=landmix Description: CRAN Package 'landmix' (Landmark Prediction for Mixture Data) Non-parametric prediction of survival outcomes for mixture data that incorporates covariates and a landmark time. Details are described in Garcia (2021) . Package: r-cran-landmulti Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-landpred, r-cran-nmof, r-cran-emdbook, r-cran-snow Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-landmulti_0.5.0-1.ca2004.1_all.deb Size: 180824 MD5sum: 5bf7885fa584c750e43ba804c3c69510 SHA1: 0d465668a4bc6128c377a7b5b3a5a89338943f6b SHA256: dcdb50321208a9260b95992da0b3999d059d04832474a87854cb2fdbba23916c SHA512: 0dc15af663153836327e80f5090e5edc7a0148df0a170eba95f2958299c75f7aa6ded4ebaa4e31a15ddf25974eddcc240ecec4905fce28b6cdfd0550a9982103 Homepage: https://cran.r-project.org/package=landmulti Description: CRAN Package 'landmulti' (Landmark Prediction with Multiple Short-Term Events) Contains functions for a flexible varying-coefficient landmark model by incorporating multiple short-term events into the prediction of long-term survival probability. For more information about landmark prediction please see Li, W., Ning, J., Zhang, J., Li, Z., Savitz, S.I., Tahanan, A., Rahbar.M.H., (2023+). "Enhancing Long-term Survival Prediction with Multiple Short-term Events: Landmarking with A Flexible Varying Coefficient Model". Package: r-cran-landpred Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-landpred_1.2-1.ca2004.1_all.deb Size: 159060 MD5sum: 6b3591783f6da41ca211bed1546babb7 SHA1: 0c6eb4975e33f0c41082d0df84df7ccd05533b8f SHA256: a756fb494da4e42c6c504dbece504dae422796939a1c411d8d558d822c63997e SHA512: a26e4b2db3fd9f22b931f6e90bdfc3175eab75fa5408d0297b19dac408f9aaf1ed99c426b6546db980017e2a9fc9c913dbe4ee9e0a10aef05a793388dcb2da9c Homepage: https://cran.r-project.org/package=landpred Description: CRAN Package 'landpred' (Landmark Prediction of a Survival Outcome) Provides functions for landmark prediction of a survival outcome incorporating covariate and short-term event information. For more information about landmark prediction please see: Parast, Layla, Su-Chun Cheng, and Tianxi Cai. Incorporating short-term outcome information to predict long-term survival with discrete markers. Biometrical Journal 53.2 (2011): 294-307, . Package: r-cran-landsat8 Architecture: all Version: 0.1-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 848 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rgdal, r-cran-sp Filename: pool/dists/focal/main/r-cran-landsat8_0.1-10-1.ca2004.1_all.deb Size: 301304 MD5sum: 0f2da7ff9306cc76232fdd91d5e5d560 SHA1: 32d0a9c28273ef54d6860485e6f0b9141e6ac3a0 SHA256: 12affd95d66725d837a69b7bef2d06179ebca07e298b12d21ee91ccfd3f295bb SHA512: ce2eac23b5685e383f9fdf505a044b26e8554f2a06bf51057548981a2260a61302440de7649af71f6929f8810e0d4d238ec16276df7d318d76a875b6de08c30a Homepage: https://cran.r-project.org/package=landsat8 Description: CRAN Package 'landsat8' (Landsat 8 Imagery Rescaled to Reflectance, Radiance and/orTemperature) Functions for converted Landsat 8 multispectral satellite imagery rescaled to the top of atmosphere (TOA) reflectance, radiance and/or at satellite brightness temperature using radiometric rescaling coefficients provided in the metadata file (MTL file). 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Package: r-cran-langevitour Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 649 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-htmlwidgets, r-cran-crosstalk, r-cran-rann, r-cran-assertthat Suggests: r-cran-shiny, r-cran-knitr, r-cran-rmarkdown, r-cran-ggally, r-cran-dt, r-cran-plotly, r-cran-palmerpenguins, r-cran-tourr, r-cran-geozoo, r-cran-liminal, r-cran-uwot Filename: pool/dists/focal/main/r-cran-langevitour_0.8.1-1.ca2004.1_all.deb Size: 319744 MD5sum: 55e7a6945e6f802cebbf5427a9f555d3 SHA1: 0da371e01aadf323fc7c85106b02adb9aa928e7c SHA256: d5003b3ec2697609ce716febc49ee1af8275c1b127cd3c76b334b02136d66899 SHA512: 467a98b118f0e0cd655f3c414767eafbad42972e10b16824d82bf56e8f44bc56ea7d581d29f073b135d67ef3b2f23348e40012d8ebe62c5f64a607996c1041df Homepage: https://cran.r-project.org/package=langevitour Description: CRAN Package 'langevitour' (Langevin Tour) An HTML widget that randomly tours 2D projections of numerical data. 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It converts continuous latent variables into ordinal categories to generate Likert scale item responses. Particularly useful for accurately modeling and analyzing survey data that use Likert scales, especially when applying statistical techniques that require metric data. Package: r-cran-latentbma Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 162 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-knitr, r-cran-mnormt, r-cran-progress, r-cran-reshape2 Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-latentbma_0.1.2-1.ca2004.1_all.deb Size: 93912 MD5sum: 8f1020f4be3de1f2a69159aa8462c936 SHA1: 8ddd9a967cf827d9ded22f1a45de545f9a3a8c28 SHA256: ac0d3438616aab891f966075e21c7e599d0e131ea0869327fb4235d55602a41c SHA512: e22192ec572a30cd46be91105201930ae399e11d709b6957290e20145d91cc0580115e8f2573b1dc3f02861de8755833ffde6ffc7ca9c28e5ae8cd6c670a1fc7 Homepage: https://cran.r-project.org/package=LatentBMA Description: CRAN Package 'LatentBMA' (Bayesian Model Averaging for Univariate Link Latent GaussianModels) Bayesian model averaging (BMA) algorithms for univariate link latent Gaussian models (ULLGMs). For detailed information, refer to Steel M.F.J. & Zens G. (2024) "Model Uncertainty in Latent Gaussian Models with Univariate Link Function" . The package supports various g-priors and a beta-binomial prior on the model space. It also includes auxiliary functions for visualizing and tabulating BMA results. Currently, it offers an out-of-the-box solution for model averaging of Poisson log-normal (PLN) and binomial logistic-normal (BiL) models. The codebase is designed to be easily extendable to other likelihoods, priors, and link functions. Package: r-cran-latentfactor Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 306 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bbmisc, r-cran-eganet, r-cran-fspe, r-cran-googledrive, r-cran-ineq, r-cran-lavaan, r-cran-matrix, r-cran-mlr, r-cran-mvtnorm, r-cran-psych, r-cran-rstudioapi, r-cran-xgboost Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-latentfactor_0.0.6-1.ca2004.1_all.deb Size: 278256 MD5sum: a7edf9f352cbd97cdbd8d1e088ff46cf SHA1: 0d9dd454f89b5d5307ea56740efa1cd8ffb7ff67 SHA256: efd1b5d780edf06b04885b58e1ac7ffcd01858a9b6262303f027ba0aee7a5e8b SHA512: 0efb68c64d9a0ac7f4a52c2e41e166d3ec0a5fbe5c4eb64e5d5d28da464bca7f86ff38f1c2dc72e52d54839f117fc22c2e34a1f9677d1756a7871b61f933c33e Homepage: https://cran.r-project.org/package=latentFactoR Description: CRAN Package 'latentFactoR' (Data Simulation Based on Latent Factors) Generates data based on latent factor models. 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Package: r-cran-latrend Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2081 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rdpack, r-cran-r.utils, r-cran-assertthat, r-cran-foreach, r-cran-data.table, r-cran-magrittr, r-cran-matrixstats, r-cran-rmarkdown, r-cran-rlang Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-knitr, r-cran-rcmdcheck, r-cran-pkgdown, r-cran-devtools, r-cran-cluster, r-cran-evaluate, r-cran-lme4, r-cran-covr, r-cran-lintr, r-cran-tinytex, r-cran-longitudinaldata, r-cran-kml, r-cran-lcmm, r-cran-mixtools, r-cran-flexmix, r-cran-fda, r-cran-funfem, r-cran-gridextra, r-cran-igraph, r-cran-crimcv, r-cran-dtwclust, r-cran-mixak, r-cran-mclust, r-cran-mclustcomp, r-cran-clvalid, r-cran-psych, r-cran-qqplotr, r-cran-doparallel, r-cran-simtool, r-cran-dplyr, r-cran-ggplot2, r-cran-caret, r-cran-tibble, r-cran-clustercrit Filename: pool/dists/focal/main/r-cran-latrend_1.6.1-1.ca2004.1_all.deb Size: 1563112 MD5sum: 86eb6928a7688aae45e60c7e0406ef51 SHA1: 35a19c6d87952133265c0fcceea754def5442908 SHA256: 4815d76d6beac98588e8ed4631704dbc09b9f27847c624a51c6d6e7e500cacfa SHA512: 9070fa7610eaac9575e92208e894e7feff157a92978b630b4011ccd146d95b0f3b6c898ef40ab383eefa8b372728365212c3bb66983b8bd9f37f3e6ba88caf19 Homepage: https://cran.r-project.org/package=latrend Description: CRAN Package 'latrend' (A Framework for Clustering Longitudinal Data) A framework for clustering longitudinal datasets in a standardized way. 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Package: r-cran-lavaan.mi Architecture: all Version: 0.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 618 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lavaan Suggests: r-cran-amelia, r-cran-mass, r-cran-mice, r-cran-testthat Filename: pool/dists/focal/main/r-cran-lavaan.mi_0.1-0-1.ca2004.1_all.deb Size: 526944 MD5sum: dc812f3d7b333dda8f92791de86d5a77 SHA1: 6ff3f959173d722412c59f3224fd878bba162e48 SHA256: 0ae48a522f82eb39ff635d13f543ced676dd28a148d9347d6d221134a2e16ac6 SHA512: 7f3094b43e125392acfad7e22a1813f343ee71acdfee26509fc23190fbd795a4a3d1efe50b896c72287c3f07bc74e39890df7edb881e07679cf691a3657fc20b Homepage: https://cran.r-project.org/package=lavaan.mi Description: CRAN Package 'lavaan.mi' (Fit Structural Equation Models to Multiply Imputed Data) The primary purpose of 'lavaan.mi' is to extend the functionality of the R package 'lavaan', which implements structural equation modeling (SEM). When incomplete data have been multiply imputed, the imputed data sets can be analyzed by 'lavaan' using complete-data estimation methods, but results must be pooled across imputations (Rubin, 1987, ). The 'lavaan.mi' package automates the pooling of point and standard-error estimates, as well as a variety of test statistics, using a familiar interface that allows users to fit an SEM to multiple imputations as they would to a single data set using the 'lavaan' package. Package: r-cran-lavaan.printer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lavaan Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-lavaan.printer_0.1.0-1.ca2004.1_all.deb Size: 83368 MD5sum: 26101e7ccc698fe75d9988f3f08c08c4 SHA1: d6d56729e8d66cb06032710233a158aea75bc807 SHA256: 1d336b2dfa09371a0868d7de3b5a7381d32412585ee1b4f7293d7d95a672c3b7 SHA512: a5aa7e5e492592d275d642bef3dd0c7ecbf4ef62144cf527752b16e4caf024d8de4df9863adc77c26313ad28a006da47d2abb04fc652ed136a815e52343ab4e3 Homepage: https://cran.r-project.org/package=lavaan.printer Description: CRAN Package 'lavaan.printer' (Helper Functions for Printing 'lavaan' Outputs) Helpers for customizing selected outputs from 'lavaan' by Rosseel (2012) and print them. The functions are intended to be used by package developers in their packages and so are not designed to be user-friendly. They are designed to be let developers customize the tables by other functions. Currently the parameter estimates tables of a fitted object are supported. Package: r-cran-lavaan.shiny Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-shinyace, r-cran-psych, r-cran-lavaan, r-cran-semplot Filename: pool/dists/focal/main/r-cran-lavaan.shiny_1.2-1.ca2004.1_all.deb Size: 45080 MD5sum: 048d69eb474be44d53eaf7d0a5b00395 SHA1: 9c5092e64b32fa4d7bf58a5c86e0f66278c8485a SHA256: 2c7a5102e603179da9d8699ea4cbf4b110eaec589ce76999a3357f6a9887822f SHA512: 10a46c6306e2b1bdeffcc747eba547bc8b6b94ce0bcd1ba7d738da846ea4481feb800670ca6d9e67cb828c97c7d429d0129aacc6611fe6f9daf0a3be59cd7bf3 Homepage: https://cran.r-project.org/package=lavaan.shiny Description: CRAN Package 'lavaan.shiny' (Latent Variable Analysis with Shiny) Interactive shiny application for working with different kinds of latent variable analysis, with the 'lavaan' package. Graphical output for models are provided and different estimators are supported. Package: r-cran-lavaan.survey Architecture: all Version: 1.1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 414 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-testthat, r-cran-mice, r-cran-mitools Filename: pool/dists/focal/main/r-cran-lavaan.survey_1.1.3.1-1.ca2004.1_all.deb Size: 388108 MD5sum: a9b1491e37eec375429a5f1fc1f321ca SHA1: 96d31aa186ac3b31d4870b7913a709fb3cd43aad SHA256: 7bf143bbe70d196f510f33b76ad0a8c99a53b86ff80b48aab3de064a9436b2e1 SHA512: 5fa647bc3a9db010ca8f531886bbe8b69ffdad3ce20eade161d481790f4d5659f801539315125410499cdafdae155f13a81920ca8a32f7ada3e27bfd58f3aa60 Homepage: https://cran.r-project.org/package=lavaan.survey Description: CRAN Package 'lavaan.survey' (Complex Survey Structural Equation Modeling (SEM)) Fit structural equation models (SEM) including factor analysis, multivariate regression models with latent variables and many other latent variable models while correcting estimates, standard errors, and chi-square-derived fit measures for a complex sampling design. Incorporate clustering, stratification, sampling weights, and finite population corrections into a SEM analysis. Wrapper around packages lavaan and survey. 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Package: r-cran-lavaangui Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2573 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-base64enc, r-cran-future, r-cran-haven, r-cran-jsonlite, r-cran-lavaan, r-cran-promises, r-cran-readr, r-cran-readxl, r-cran-shiny, r-cran-colorspace, r-cran-igraph, r-cran-dt, r-cran-plyr, r-cran-digest Filename: pool/dists/focal/main/r-cran-lavaangui_0.2.4-1.ca2004.1_all.deb Size: 846416 MD5sum: 814bdaadc7199740a16ac6e40e3e5537 SHA1: 326f1f9af1a5dbd7d9a9d5cbebad07b327f602bc SHA256: 18ce6e72466393a23c4cef813624f0e596b0862e21c2b160392f99c4adc8adad SHA512: 4feb6d6615c155e1dc441882a2cde1b6504242f6d0ace2142a3496c1203dbca77d8d92c953644ca4722fc31bdea86f840a640d6adc44288d3229637fcf19b4c4 Homepage: https://cran.r-project.org/package=lavaangui Description: CRAN Package 'lavaangui' (Graphical User Interface with Integrated 'Diagrammer' for'Lavaan') Provides a graphical user interface with an integrated diagrammer for latent variables from the 'lavaan' package. 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The package implements a general framework for selecting the subset of variables with relevant clustering information and discard those that are redundant and/or not informative. The variable selection method is based on the approach of Fop et al. (2017) and Dean and Raftery (2010) . Different algorithms are available to perform the selection: stepwise, swap-stepwise and evolutionary stochastic search. Concomitant covariates used to predict the class membership probabilities can also be included in the latent class analysis model. The selection procedure can be run in parallel on multiple cores machines. 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Package: r-cran-lcf Architecture: all Version: 1.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-quadprog Filename: pool/dists/focal/main/r-cran-lcf_1.7.0-1.ca2004.1_all.deb Size: 77648 MD5sum: c7380c9575ccb5e1be26caa869a029cc SHA1: 6fa686d682b9cdbfecbf861ba8c10fcd2374caf6 SHA256: dc73c05d1e84d4d0720e9be107d03db7b077484bd0510889ae7ec81d95dd8036 SHA512: 144b95ebe3aa4454c48629d87413ad84723d9a71623b25b9308c9481d0853c902e3e43ea99a0ddfbc57eabfecb0d71fd005a999d588764b96ed2432ca09231be Homepage: https://cran.r-project.org/package=LCF Description: CRAN Package 'LCF' (Linear Combination Fitting) Baseline correction, normalization and linear combination fitting (LCF) of X-ray absorption near edge structure (XANES) spectra. The package includes data loading of .xmu files exported from 'ATHENA' (Ravel and Newville, 2005) . Loaded spectra can be background corrected and all standards can be fitted at once. Two linear combination fitting functions can be used: (1) fit_athena(): Simply fitting combinations of standards as in ATHENA, (2) fit_float(): Fitting all standards with changing baseline correction and edge-step normalization parameters. 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A Bayesian perspective to inference and Markov chain Monte Carlo algorithms to obtain posterior estimates of model parameters. The reference paper is: Beom Seuk Hwang, Zhen Chen, Germaine M.Buck Louis, Paul S. Albert, (2018) "A Bayesian multi-dimensional couple-based latent risk model with an application to infertility". Biometrics, 75, 315-325. . 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This package provides interactive data visualizations for quality control (QC) samples, including total ion current chromatogram (TIC), base peak chromatogram (BPC), mass spectrum, extracted ion chromatogram (XIC), and feature detection results from internal standards or known metabolites. 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This implementation accounts for the implicit constraints on the parameter space. Other features such as standard errors, z tests and p-values use standard methods adapted from the results based on constrained optimization. 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The technical details of the model implemented here are described in Elliott, Michael R., Zhao, Zhangchen, Mukherjee, Bhramar, Kanaya, Alka, Needham, Belinda L., "Methods to account for uncertainty in latent class assignments when using latent classes as predictors in regression models, with application to acculturation strategy measures" (2020) In press at Epidemiology . 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Package: r-cran-ldaprototype Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 304 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-batchtools, r-cran-checkmate, r-cran-colorspace, r-cran-data.table, r-cran-dendextend, r-cran-fs, r-cran-future, r-cran-lda, r-cran-parallelmap, r-cran-progress Suggests: r-cran-covr, r-cran-rcolorbrewer, r-cran-testthat, r-cran-tosca Filename: pool/dists/focal/main/r-cran-ldaprototype_0.3.1-1.ca2004.1_all.deb Size: 257304 MD5sum: a2f73d7176871c2d9cb75c0c6742ea9f SHA1: 504afdf91936fa30cb0114fb0f25b3ba6a04944a SHA256: 75cd2a47a99940c63b8492296c38e9f5f777509d76597c366c4ad82557259a2e SHA512: abd01e81056e39012c56b63487268fc1b20ccbf15619dbf6c19e74b9c32889713a4d595a183fd1bd541bc08df7413b1318bd87073c726ae0b711e631740b51f6 Homepage: https://cran.r-project.org/package=ldaPrototype Description: CRAN Package 'ldaPrototype' (Prototype of Multiple Latent Dirichlet Allocation Runs) Determine a Prototype from a number of runs of Latent Dirichlet Allocation (LDA) measuring its similarities with S-CLOP: A procedure to select the LDA run with highest mean pairwise similarity, which is measured by S-CLOP (Similarity of multiple sets by Clustering with Local Pruning), to all other runs. LDA runs are specified by its assignments leading to estimators for distribution parameters. Repeated runs lead to different results, which we encounter by choosing the most representative LDA run as prototype. Package: r-cran-ldashiny Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2289 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-beepr, r-cran-broom, r-cran-chinese.misc, r-cran-dplyr, r-cran-dt, r-cran-highcharter, r-cran-htmlwidgets, r-cran-ldatuning, r-cran-plotly, r-cran-purrr, r-cran-quanteda, r-cran-shiny, r-cran-shinyalert, r-cran-shinybs, r-cran-shinycssloaders, r-cran-shinydashboard, r-cran-shinyjs, r-cran-shinywidgets, r-cran-snowballc, r-cran-stringr, r-cran-textminer, r-cran-tidyr, r-cran-tidytext, r-cran-tm, r-cran-topicmodels Suggests: r-cran-knitr, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-rmpfr, r-cran-scales, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-ldashiny_0.9.3-1.ca2004.1_all.deb Size: 667292 MD5sum: b66a3bc33cac45426a8ee1553b2f2b89 SHA1: 7cd9e5a16408a75d6b7be5433171486c91929792 SHA256: c5c8671ffef0ec18491d7dd96259ee9e9ede52a5e65a803f73c455f74b7ec646 SHA512: d5a3ff56848ec9735bcc927285c097bd77db61641c8c0a997c2755dab44e0ce124c6b71b01821a8fdca808fc835d60b46d07b3fd5f2d1bd6dbb2993b22ca9618 Homepage: https://cran.r-project.org/package=LDAShiny Description: CRAN Package 'LDAShiny' (User-Friendly Interface for Review of Scientific Literature) Contains the development of a tool that provides a web-based graphical user interface (GUI) to perform a review of the scientific literature under the Bayesian approach of Latent Dirichlet Allocation (LDA)and machine learning algorithms. The application methodology is framed by the well known procedures in topic modelling on how to clean and process data. Contains methods described by Blei, David M., Andrew Y. Ng, and Michael I. Jordan (2003) Allocation"; Thomas L. Griffiths and Mark Steyvers (2004) ; Xiong Hui, et al (2019) . Package: r-cran-ldatree Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1273 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-folda, r-cran-ggplot2, r-cran-magrittr, r-cran-visnetwork Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ldatree_0.2.0-1.ca2004.1_all.deb Size: 1058696 MD5sum: 544c40d0f31e8677c558dbca63985ba0 SHA1: 3f59f3e7e6272e7900bf7a6fb1e3ddaf28c41014 SHA256: 5974819085bfe0520289d52110e85944e4cebb91e8484e5e5fc247d210b517a9 SHA512: 172a524ae64dbdafb34b2334d316a03a0550e8eef68333778092905a78fd09e2b62c3af73cbb474e89979b586bd9991033bf08d068842173e2e0dffb7c2eca58 Homepage: https://cran.r-project.org/package=LDATree Description: CRAN Package 'LDATree' (Oblique Classification Trees with Uncorrelated LinearDiscriminant Analysis Splits) A classification tree method that uses Uncorrelated Linear Discriminant Analysis (ULDA) for variable selection, split determination, and model fitting in terminal nodes. 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LDA decomposes multivariate data into lower-dimension latent groupings, whose relative proportions are modeled using generalized Bayesian time series models that include abrupt changepoints and smooth dynamics. The methods are described in Blei et al. (2003) , Western and Kleykamp (2004) , Venables and Ripley (2002, ISBN-13:978-0387954578), and Christensen et al. (2018) . Package: r-cran-ldatuning Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-topicmodels, r-cran-slam, r-cran-rmpfr, r-cran-ggplot2, r-cran-reshape2, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tibble Filename: pool/dists/focal/main/r-cran-ldatuning_1.0.2-1.ca2004.1_all.deb Size: 495816 MD5sum: 1d0bebc5036389828211d4c3213b530b SHA1: f9355aa1531760cf3f68bf0c99c947613f34927f SHA256: ce0b46e39e11bb8690e2fea009a9a63544fb010e818c4fc4a7c735f6947daf56 SHA512: 9ce7bd562ab0d2f38100d1112eb05046a6a3f7ea8185c2110101697caa5fe6a7d36ffa8f864ecc97c137ebb7c90b564dd0593343777503d41531c4e2d8170655 Homepage: https://cran.r-project.org/package=ldatuning Description: CRAN Package 'ldatuning' (Tuning of the Latent Dirichlet Allocation Models Parameters) For this first version only metrics to estimate the best fitting number of topics are implemented. 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Package: r-cran-ldcorsv Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ldcorsv_1.3.3-1.ca2004.1_all.deb Size: 71948 MD5sum: e98cc5bfc9e0013da15b1958329252e9 SHA1: 981192b132101a9c29b51da8aa57000c50cd4f9c SHA256: 787e214a7ca009806d5dced2d41f16c1dc8eecea1498267a743645db762fc927 SHA512: 4e685f5c0e1611605ff72dda0f02590d4fb9fa739210edf3df37904799439cc297b9481ce98ebac68edf590a14641d6a6ae5bc2c92fe70398d7538a45ccdb423 Homepage: https://cran.r-project.org/package=LDcorSV Description: CRAN Package 'LDcorSV' (Linkage Disequilibrium Corrected by the Structure and theRelatedness) Four measures of linkage disequilibrium are provided: the usual r^2 measure, the r^2_S measure (r^2 corrected by the structure sample), the r^2_V (r^2 corrected by the relatedness of genotyped individuals), the r^2_VS measure (r^2 corrected by both the relatedness of genotyped individuals and the structure of the sample). Package: r-cran-ldhmm Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1489 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-gnorm, r-cran-optimx, r-cran-xts, r-cran-zoo, r-cran-moments, r-cran-scales, r-cran-ggplot2, r-cran-yaml Suggests: r-cran-knitr, r-cran-testthat, r-cran-depmixs4, r-cran-roxygen2, r-cran-r.rsp, r-cran-shape Filename: pool/dists/focal/main/r-cran-ldhmm_0.6.1-1.ca2004.1_all.deb Size: 1466960 MD5sum: 9845173048b15ce20d1420a4848c82af SHA1: 790afc48deea1c42cc26226c913cc87be3f5e80f SHA256: 295d5fc01a174ed752194122f8b50acc737e9c62166a75903cbf657d8fade81d SHA512: 1edf5e587badb6faf7f20aa6ff95f2a66492652c59d994a8cc842372300d21a08b25759acc9e93a503a134061121e2c696bb040f58a039cb7872d86c969bac96 Homepage: https://cran.r-project.org/package=ldhmm Description: CRAN Package 'ldhmm' (Hidden Markov Model for Financial Time-Series Based on LambdaDistribution) Hidden Markov Model (HMM) based on symmetric lambda distribution framework is implemented for the study of return time-series in the financial market. Major features in the S&P500 index, such as regime identification, volatility clustering, and anti-correlation between return and volatility, can be extracted from HMM cleanly. Univariate symmetric lambda distribution is essentially a location-scale family of exponential power distribution. Such distribution is suitable for describing highly leptokurtic time series obtained from the financial market. It provides a theoretically solid foundation to explore such data where the normal distribution is not adequate. The HMM implementation follows closely the book: "Hidden Markov Models for Time Series", by Zucchini, MacDonald, Langrock (2016). Package: r-cran-ldlcalc Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2144 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-caret, r-cran-caretensemble, r-cran-lares, r-cran-corrplot, r-cran-rcolorbrewer, r-cran-lattice, r-cran-resample, r-cran-moments, r-cran-ggplot2, r-cran-janitor, r-cran-philentropy Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-cubist, r-cran-earth, r-cran-gbm, r-cran-glmnet, r-cran-gridextra, r-cran-kernlab, r-cran-randomforest, r-cran-tidyr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ldlcalc_2.1-1.ca2004.1_all.deb Size: 1904920 MD5sum: 1f4501a7c70d67fd09f8ec089f0a6e83 SHA1: bb9d1be7884bd9f71908827fbcb164fa6863ea61 SHA256: 43b87ea05d6836cf16d4e8bc9c7c4ddc3b58fcef3ef3fd938c7898559caf5f5f SHA512: 83985aef955c782f95286dbfbc4c4a0e0bc16df4c95974f82e8e2d0c6ffbba122e60b74bb08d442330c43be1ebef4bcac6dd26b91fe62e17e5db22858223d000 Homepage: https://cran.r-project.org/package=LDLcalc Description: CRAN Package 'LDLcalc' (Calculate and Predict the Low Density Lipoprotein Values) A wide variety of ways to calculate (through equations) or predict (using 9 Machine learning methods as well as a stack algorithm combination of them all) the Low Density Lipoprotein values of patients based on the values of three other metrics, namely Total Cholesterol , Triglycerides and High Density Lipoprotein. 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This programmatic access facilitates researchers who are interested in performing batch queries in 1000 Genomes Project (2015) data using 'LDlink'. 'LDlink' is an interactive and powerful suite of web-based tools for querying germline variants in human population groups of interest. For more details, please see Machiela et al. (2015) . 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It accommodates both continuous and discrete covariates as well as interaction terms to be tested either singly or in combination, allows for adjustment of confounding covariates, and uses permutation-based p-values that can control for sample correlations. It can be applied to transformed data, and an omnibus test can combine results from analyses conducted on different transformation scales. It can also be used for testing presence-absence associations based on infinite number of rarefaction replicates, testing mediation effects of the microbiome, analyzing censored time-to-event outcomes, and for compositional analysis by fitting linear models to centered-log-ratio taxa count data. Package: r-cran-ldnn Architecture: all Version: 1.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-keras, r-cran-devtools, r-cran-reticulate, r-cran-tensorflow Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ldnn_1.10-1.ca2004.1_all.deb Size: 29544 MD5sum: 95b03102d596248470fb5f956826ffe3 SHA1: 45d6f04e1547b59ee486d62578c16f3f1f593b22 SHA256: e039e4119a10ba16ff585f83d460cc9492bee9686787765e3e261feaacc6a17e SHA512: 5bcc33a60f328c8338abd1f060a4f3161cd4524a7c32a85aad177c8b4edfeee6d80c489c6cf1eb95673f269926c13fdb879502c4d1522a8aa829cfa16ee41c77 Homepage: https://cran.r-project.org/package=LDNN Description: CRAN Package 'LDNN' (Longitudinal Data Neural Network) This is a Neural Network regression model implementation using 'Keras', consisting of 10 Long Short-Term Memory layers that are fully connected along with the rest of the inputs. 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(2016) Combining Linear Dimension Reduction Subspaces . 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The methodology is discussed and described in Almeida et al. (2019) and Stark et al. (2012) . Package: r-cran-leafstar Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-leafstar_1.0-1.ca2004.1_all.deb Size: 109848 MD5sum: 6ecde6a5531236e90274746aa69862d2 SHA1: 554349e850e2b2043ed5ae3eec1cc2f5d8d06a88 SHA256: 49bfcab084af193361c7c00f26ccc0017d22870f318a573f25c7b6b6bab3086d SHA512: e0124f98e31fc5be6cb6d81806f13ab2e7b7d813e775c473df9766f25f1c62bfb64b1271caa351b50e4fe1c283bd0c4fc3e92700b8b368eb79021186ead7f894 Homepage: https://cran.r-project.org/package=leafSTAR Description: CRAN Package 'leafSTAR' (Silhouette to Area Ratio of Tilted Surfaces) Implementation of trigonometric functions to calculate the exposure of flat, tilted surfaces, such as leaves and slopes, to direct solar radiation. It implements the equations in A.G. Escribano-Rocafort, A. Ventre-Lespiaucq, C. Granado-Yela, et al. (2014) in a few user-friendly R functions. All functions handle data obtained with 'Ahmes' 1.0 for Android, as well as more traditional data sources (compass, protractor, inclinometer). The main function (star()) calculates the potential exposure of flat, tilted surfaces to direct solar radiation (silhouette to area ratio, STAR). It is equivalent to the ratio of the leaf projected area to total leaf area, but instead of using area data it uses spatial position angles, such as pitch, roll and course, and information on the geographical coordinates, hour, and date. The package includes additional functions to recalculate STAR with custom settings of location and time, to calculate the tilt angle of a surface, and the minimum angle between two non-orthogonal planes. 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Read Vilela & Villalobos (2015) for details. Package: r-cran-lettervalue Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble, r-cran-glue, r-cran-purrr Filename: pool/dists/focal/main/r-cran-lettervalue_0.2.1-1.ca2004.1_all.deb Size: 21516 MD5sum: a663fc8950b43b5c09ef62179cef872e SHA1: 2f18817ab6de077a82c6336bc60ff0c03e4ec2d1 SHA256: 881929a8219ae770ac71c12f5e1245f1e20caaef066c4b99e3c38de2dd445999 SHA512: c9360dbcbad90a7d20dc7ef60f81e31b550a447d552e23ad33016017f60a4f7249280664074d51a928bd827403eb73012e365baadb9b8d5b6663d84764509538 Homepage: https://cran.r-project.org/package=lettervalue Description: CRAN Package 'lettervalue' (Computing Letter Values) Letter Values for the course Exploratory Data Analysis at Federal University of Bahia (Brazil). The approach implemented in the package is presented in the textbook of Tukey (1977) . 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We include many of the standard competitor types used in spoken word recognition research, such as functions to find cohorts, neighbors, and rhymes, amongst many others. The package includes documentation for using a variety of lexicon files, including those with form codes made up of multiple letters (i.e., phoneme codes) and also basic orthographies. Importantly, the code makes use of multiple CPU cores and vectorization when possible, making it extremely fast and able to handle large lexicons. Additionally, the package contains documentation for users to easily write new functions, allowing researchers to examine other relationships within a lexicon. Preprint: . Open access: . Citation: Li, Z., Crinnion, A.M. & Magnuson, J.S. (2021). . 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Package: r-cran-lifeinsurer Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1528 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-r6, r-cran-mortalitytables, r-cran-objectproperties, r-cran-lubridate, r-cran-openxlsx, r-cran-dplyr, r-cran-scales, r-cran-abind, r-cran-stringr, r-cran-rlang, r-cran-rmarkdown, r-cran-kableextra, r-cran-pander, r-cran-tidyr Suggests: r-cran-knitr, r-cran-magrittr, r-cran-tibble, r-cran-testthat, r-cran-fs, r-cran-here, r-cran-purrr Filename: pool/dists/focal/main/r-cran-lifeinsurer_1.0.1-1.ca2004.1_all.deb Size: 786756 MD5sum: 2ecc10cac1f362c66e5f79ac010820c4 SHA1: b9f4ad3e7cd5467ab57d4b68b7d650c8bde8c34e SHA256: 1a95e72b13c445fd78b7ada9d06bcd44090eca5a00e850740eccbbced8f04cf6 SHA512: f2d07100f546ca0f6e68cd42f3b988117ef35b1651041b99717639e035081717f364eef08b61f1fcee31bb87b7f3f9e45fb60d67355a85d8298f7a599f1f4bca Homepage: https://cran.r-project.org/package=LifeInsureR Description: CRAN Package 'LifeInsureR' (Modelling Traditional Life Insurance Contracts) R6 classes to model traditional life insurance contracts like annuities, whole life insurances or endowments. Such life insurance contracts provide a guaranteed interest and are not directly linked to the performance of a particular investment vehicle, but they typically provide (discretionary) profit participation. This package provides a framework to model such contracts in a very generic (cash-flow-based) way and includes modelling profit participation schemes, dynamic increases or more general contract layers, as well as contract changes (like sum increases or premium waivers). All relevant quantities like premium decomposition, reserves and benefits over the whole contract period are calculated and potentially exported to 'Excel'. Mortality rates are given using the 'MortalityTables' package. 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This package is useful for actuarial analyses and life insurance modeling, facilitating accurate financial projections. 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This package provides utilities for constructing Life Tables and Fertility Tables, related demographic parameters, and some simple graphs of interest. It also offers functions to transform the obtained data into a known format for better manipulation. This document is based on the article by Maia, Luiz, and Campanhola "Statistical Inference on Associated Fertility Life Table Parameters Using Jackknife Technique Computational Aspects" (April 2000, Journal of Economic Entomology, Volume 93, Issue 2) . 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Package: r-cran-likelihoodexplore Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lazyeval, r-cran-plyr Suggests: r-cran-covr Filename: pool/dists/focal/main/r-cran-likelihoodexplore_0.1.0-1.ca2004.1_all.deb Size: 88944 MD5sum: 7650c124dd1bedab4cdd3a4406d1a7cc SHA1: c52131adde8834f3d7a6c0105a64781d1ddf9d2d SHA256: 013bfc724b21a472e0cc4deb69ce78fb8de7fbc9782fa00a216e94ef76b8fd33 SHA512: 69c4c330c055299ca73d2af899a892997c90035170fab29bbbe26ed3b2debd04a3212844ec85225562e57de9652f3a81009ae8c2187ea53f3799075efbffc52b Homepage: https://cran.r-project.org/package=likelihoodExplore Description: CRAN Package 'likelihoodExplore' (Likelihood Exploration) Provides likelihood functions as defined by Fisher (1922) and a function that creates likelihood functions from density functions. The functions are meant to aid in education of likelihood based methods. 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The evidential approach used here is based on the book "Likelihood" by A.W.F. Edwards (1992, ISBN-13 : 978-0801844430), "Statistical Evidence" by R. Royall (1997, ISBN-13 : 978-0412044113), S.N. Goodman & R. Royall (2011) , "Understanding Psychology as a Science" by Z. Dienes (2008, ISBN-13 : 978-0230542310), S. Glover & P. Dixon and others. This package accompanies "Evidence-Based Statistics" by P. Cahusac (2020, ISBN-13 : 978-1119549802) . 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With 'liminal' you can create linked interactive graphics to diagnose the quality of a dimension reduction technique and explore the global structure of a dataset with a tour. A complete description of the method is discussed in ['Lee' & 'Laa' & 'Cook' (2020) ]. 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Package: r-cran-litriddle Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4907 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2 Suggests: r-cran-stylo, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-litriddle_1.0.0-1.ca2004.1_all.deb Size: 4786356 MD5sum: ec6fef0e61b5b6d1c871fcc0e1e1f07e SHA1: 943cf2255e51fb191721fea84e4914826d7931b9 SHA256: 49a027a5d63e0e6b3bffe9f6da37598f212c6188e1c75fd0866d921f6e3fba43 SHA512: 682974d6ebf7aab795da97974ff1b97f84379227759f7d3fe4928d896e3c77f90c32c8ceafab9fcea6981283e9ee2462da392737e7011203307e5fdd22376211 Homepage: https://cran.r-project.org/package=litRiddle Description: CRAN Package 'litRiddle' (Dataset and Tools to Research the Riddle of Literary Quality) Dataset and functions to explore quality of literary novels. 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The package will include (every other update) new functions in order to comprise useful tools in liquid-liquid extraction research. Package: r-cran-lm.beta Architecture: all Version: 1.7-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 312 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-xtable Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-lm.beta_1.7-2-1.ca2004.1_all.deb Size: 249268 MD5sum: a92acdb8db2cd51177c716c0314e1c79 SHA1: 03531438f95c289df7ab2c80e9fa360ef83e6893 SHA256: 734d0db51ca4fb9c7d685f86f725b620f43521d335ec2a1d557b3af3968ac1f2 SHA512: 04751ed4eba89774cedeb669599578dacdb87357c4c12b79fee371906edcd4cbf4fa3c9ae0bfc2e237d5a8e16169c81e39b65ca3b8ee776364a04900601a912f Homepage: https://cran.r-project.org/package=lm.beta Description: CRAN Package 'lm.beta' (Add Standardized Regression Coefficients to Linear-Model-Objects) Adds standardized regression coefficients to objects created by 'lm'. 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Functions within this package allow users to create bootstrap sampling distributions for model parameters, test hypotheses about parameters, and visualize the bootstrap sampling or null distributions. Methods implemented for linear models include the wild bootstrap by Wu (1986) , the residual and paired bootstraps by Efron (1979, ISBN:978-1-4612-4380-9), the delete-1 jackknife by Quenouille (1956) , and the Bayesian bootstrap by Rubin (1981) . 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This R package is based on the approach suggested by Smith (2005) and the 'Python' library 'PyLMD'. 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Package: r-cran-lmds Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertthat, r-cran-dynutils, r-cran-irlba, r-cran-matrix Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-lmds_0.1.0-1.ca2004.1_all.deb Size: 159968 MD5sum: 1112b265e7a2eca5f20b81bcfe47fe83 SHA1: 87771b8322ceda7506c08ee6fd0299de6fe184d3 SHA256: a1af4a0d3f40cc31f222dec9055f6ff2c0c49d5163fd2503086ba0e4622f90bf SHA512: 66e835ded1ccbd49d685a7ec23055072eae7f3ce336c057c66740228c8a8632d2298bac556fb0929b8b9e0e9c0af05278ca141965eca9d239e59e067fd3e763e Homepage: https://cran.r-project.org/package=lmds Description: CRAN Package 'lmds' (Landmark Multi-Dimensional Scaling) A fast dimensionality reduction method scaleable to large numbers of samples. Landmark Multi-Dimensional Scaling (LMDS) is an extension of classical Torgerson MDS, but rather than calculating a complete distance matrix between all pairs of samples, only the distances between a set of landmarks and the samples are calculated. Package: r-cran-lme4breeding Architecture: all Version: 1.0.63-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3515 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lme4, r-cran-matrix, r-cran-crayon Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-orthopolynom, r-cran-rspectra Filename: pool/dists/focal/main/r-cran-lme4breeding_1.0.63-1.ca2004.1_all.deb Size: 3039276 MD5sum: 31402a61783098c0dee2d88da8d32aba SHA1: 4c9edee23da60999ecdc36d17133619c90cc3b8d SHA256: f74edfe56b6257f8055bd0cb6c61e6c057354053a61e527b69675ee4663d037f SHA512: b6d390f57ac86f1ac9583fcdc7f8c8598c7bfd1a4496c4351fcb61212c3191442661626f68becd5b020b97875748d62748d758c8437e994ee3b6757a27994d1f Homepage: https://cran.r-project.org/package=lme4breeding Description: CRAN Package 'lme4breeding' (Relationship-Based Mixed-Effects Models) Fit relationship-based and customized mixed-effects models with complex variance-covariance structures using the 'lme4' machinery. The core computational algorithms are implemented using the 'Eigen' 'C++' library for numerical linear algebra and 'RcppEigen' 'glue'. Package: r-cran-lme4gs Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 429 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-matrix Suggests: r-cran-bglr Filename: pool/dists/focal/main/r-cran-lme4gs_0.1-1.ca2004.1_all.deb Size: 394624 MD5sum: db054ac88bbe39477f9126d3de0a9003 SHA1: 3d375e9c5951f4f5ab67c7dee7c9d0180ff1e437 SHA256: ae6c1c7fb24b10f52496908b760219d0beefb1592a7887347dba24d75e8cec80 SHA512: 7c7439397b5ef1513f89d85c8937ca1d6543422d13f2d945deaefc06e15b6f2c749471be1f56d66ca8109600621307e3b56c79abeccbd62c85c0d67349295b8e Homepage: https://cran.r-project.org/package=lme4GS Description: CRAN Package 'lme4GS' ('lme4' for Genomic Selection) Flexible functions that use 'lme4' as computational engine for fitting models used in Genomic Selection (GS). GS is a technology used for genetic improvement, and it has many advantages over phenotype-based selection. There are several statistical models that adequately approach the statistical challenges in GS, such as in linear mixed models (LMMs). The 'lme4' is the standard package for fitting linear and generalized LMMs in the R-package, but its use for genetic analysis is limited because it does not allow the correlation between individuals or groups of individuals to be defined. The 'lme4GS' package is focused on fitting LMMs with covariance structures defined by the user, bandwidth selection, and genomic prediction. The new package is focused on genomic prediction of the models used in GS and can fit LMMs using different variance-covariance matrices. Several examples of GS models are presented using this package as well as the analysis using real data. For more details see Caamal-Pat et.al. (2021) . Package: r-cran-lmec Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-lmec_1.0-1.ca2004.1_all.deb Size: 50516 MD5sum: 57fd4215e1d5cd7b44cee41559b27931 SHA1: f82a7d713e36e733255dc9bf956f4b18001c49b4 SHA256: b070ce16464858d8607cfdba24d0f8b70d0591fff36290a3118f9afb9bf7a27c SHA512: 512a121e3eb2fa32bc8483fb4f171b69e98b218d6780c0be3169dfb97150bdfb3b3a567b06fcee4fb02ec637e51fd97774f258dc60cf209fe16743651fad9960 Homepage: https://cran.r-project.org/package=lmec Description: CRAN Package 'lmec' (Linear Mixed-Effects Models with Censored Responses) This package includes a function to fit a linear mixed-effects model in the formulation described in Laird and Ware (1982) but allowing for censored normal responses. In this version, the with-in group errors are assumed independent and identically distributed. 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The package includes functions for estimating the sampling variance-covariance of variance component parameters using the inverse Fisher information. The variance components include the parameters of the random effects structure (for lme models), the variance structure, and the correlation structure. The expected and average forms of the Fisher information matrix are used in the calculations, and models estimated by full maximum likelihood or restricted maximum likelihood are supported. The package also includes a function for estimating standardized mean difference effect sizes (Pustejovsky, Hedges, and Shadish (2014) ) based on fitted lme or gls models. Package: r-cran-lmerconveniencefunctions Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 311 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4, r-cran-matrix, r-cran-lcfdata, r-cran-fields, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-lmerconveniencefunctions_3.0-1.ca2004.1_all.deb Size: 276608 MD5sum: 7d0954d5d0bc2b38230e0b651422b7c8 SHA1: 4bbed4037bc719d9fd0df46d4499762ce01f7c36 SHA256: a9bbafbb1f73e6c1af131a3e3663b4d2545354bf4443c87736d58699cae10a74 SHA512: a69a61c1bce7ba5022d8e1815a0690c0427103332b7f935fd1c9025d6eb332e5196fa4f0cf6837f4f74687f67559367469df13ab3d274769d07cb18461ad35d0 Homepage: https://cran.r-project.org/package=LMERConvenienceFunctions Description: CRAN Package 'LMERConvenienceFunctions' (Model Selection and Post-Hoc Analysis for (G)LMER Models) The main function of the package is to perform backward selection of fixed effects, forward fitting of the random effects, and post-hoc analysis using parallel capabilities. Other functionality includes the computation of ANOVAs with upper- or lower-bound p-values and R-squared values for each model term, model criticism plots, data trimming on model residuals, and data visualization. The data to run examples is contained in package LCF_data. 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The provided 'bootstrap()' function implements the parametric, residual, cases, random effect block (REB), and wild bootstrap procedures. An overview of these procedures can be found in Van der Leeden et al. (2008) , Carpenter, Goldstein & Rasbash (2003) , and Chambers & Chandra (2013) . 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By generating a null distribution of the test statistics through repeated permutations of the response variable, permutation tests provide a powerful alternative to traditional parameter tests (Holt et al. (2023) ). In this early version, we focus on the permutation tests over observed t values of beta coefficients, i.e.original t values generated by parameter tests. After generating a null distribution of the test statistic through repeated permutations of the response variable, each observed t values would be compared to the null distribution to generate a p-value. To improve the efficiency,a stop criterion (Anscombe (1953) ) is adopted to force permutation to stop if the estimated standard deviation of the value falls below a fraction of the estimated p-value. By doing so, we avoid the need for massive calculations in exact permutation methods while still generating stable and accurate p-values. 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Package: r-cran-lmmpar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrixcalc, r-cran-mnormt, r-cran-plyr, r-cran-doparallel, r-cran-bigmemory Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-lmmpar_0.1.0-1.ca2004.1_all.deb Size: 16620 MD5sum: 53ca57b818d7a818026a76b7e8924a31 SHA1: 241b9e17a5997318b602fa2ca5c021eb10d17337 SHA256: e8a6cbb3b5efc56a39fec272d8d49a68e0fd10939ed224e1a8a6476e1601808b SHA512: f06a91c9e01cc77a29c87c0b5643eab71112131957cc01362c1c752f9bade5571615b553e8e9fa120a84074be42a5666f828de4e54c89c7066d0357cc28c871e Homepage: https://cran.r-project.org/package=lmmpar Description: CRAN Package 'lmmpar' (Parallel Linear Mixed Model) Embarrassingly Parallel Linear Mixed Model calculations spread across local cores which repeat until convergence. Package: r-cran-lmmstar Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6291 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-copula, r-cran-doparallel, r-cran-foreach, r-cran-ggplot2, r-cran-lava, r-cran-matrix, r-cran-multcomp, r-cran-nlme, r-cran-numderiv, r-cran-rlang Suggests: r-cran-asht, r-cran-data.table, r-cran-ggh4x, r-cran-ggpubr, r-cran-lattice, r-cran-mvtnorm, r-cran-lme4, r-cran-lmertest, r-cran-mice, r-cran-nlmeu, r-cran-optimx, r-cran-pbapply, r-cran-psych, r-cran-publish, r-cran-qqtest, r-cran-r.rsp, r-cran-reshape2, r-cran-rmcorr, r-cran-scales, r-cran-testthat Filename: pool/dists/focal/main/r-cran-lmmstar_1.1.0-1.ca2004.1_all.deb Size: 3592688 MD5sum: c10776e9b513e8eb29fa4373876ea69f SHA1: 27ba6452f2eb0b2637ad4502b83787857b02ac22 SHA256: 975172707f3313f92bf5c2f71877044adade2142abb4ced2d198b5d1b989b22b SHA512: eec7d5d3993b16a3d72220caa9a0177e430ff17b9e5beadc9c07bfa431a9a10e6d27231ae7e43a6474a21ae4a0e10bb1c2d6570c2f9c9b9cfc28cc1d478a5a82 Homepage: https://cran.r-project.org/package=LMMstar Description: CRAN Package 'LMMstar' (Repeated Measurement Models for Discrete Times) Companion R package for the course "Statistical analysis of correlated and repeated measurements for health science researchers" taught by the section of Biostatistics of the University of Copenhagen. It implements linear mixed models where the model for the variance-covariance of the residuals is specified via patterns (compound symmetry, toeplitz, unstructured, ...). Statistical inference for mean, variance, and correlation parameters is performed based on the observed information and a Satterthwaite approximation of the degrees of freedom. Normalized residuals are provided to assess model misspecification. Statistical inference can be performed for arbitrary linear or non-linear combination(s) of model coefficients. Predictions can be computed conditional to covariates only or also to outcome values. Package: r-cran-lmodel2 Architecture: all Version: 1.7-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 414 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-lmodel2_1.7-4-1.ca2004.1_all.deb Size: 345168 MD5sum: 2373fed30566ad518b2a7a272893f96c SHA1: 2316dc55edfd21da9db73e99a0e9806b692f62c9 SHA256: 05a0f14b75a62c7c1281cd3a6775d4942236fc782a50a9873f945abfe6becddd SHA512: 41f6f86dcc76b156bb12144c7f63bf5834fe044e3bf29b5b74d17575b2d8d70d8bedbb5f10b768b6b8914e2ba4b603a40e32467179a6a06c9d2dc07af432adc3 Homepage: https://cran.r-project.org/package=lmodel2 Description: CRAN Package 'lmodel2' (Model II Regression) Computes model II simple linear regression using ordinary least squares (OLS), major axis (MA), standard major axis (SMA), and ranged major axis (RMA). Package: r-cran-lmofit Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2779 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lmom, r-cran-pracma, r-cran-ggplot2, r-cran-sf Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-lmofit_0.1.7-1.ca2004.1_all.deb Size: 2456876 MD5sum: 34e763a2f6950f1415c4a4eaa661c601 SHA1: ec12919a2dfa81caf9a63bd3bee5b7e451c586d4 SHA256: b25c984e9eb1ba99538d62d4b441f969e97159af2d4392201a7ae76d3f045b1f SHA512: 1e389a837835ce7ec966736f9ec8f7256d59281155f78dc77353bc4c3c36292c2664338873a8ebae25ad80bd3631a259fa1a80ec73f1ed18cbb4dac13289d0c5 Homepage: https://cran.r-project.org/package=LMoFit Description: CRAN Package 'LMoFit' (Advanced L-Moment Fitting of Distributions) A complete framework for frequency analysis is provided by 'LMoFit'. It has functions related to the determination of sample L-moments as in Hosking, J.R.M. (1990) , the fitting of various distributions as in Zaghloul et al. (2020) and Hosking, J.R.M. (2019) , besides plotting and manipulating L-space diagrams as in Papalexiou, S.M. & Koutsoyiannis, D. (2016) for two-shape parametric distributions on the L-moment ratio diagram. Additionally, the quantile, probability density, and cumulative probability functions of various distributions are provided in a user-friendly manner. Package: r-cran-lmomco Architecture: all Version: 2.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3605 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-goftest, r-cran-lmoments, r-cran-mass Suggests: r-cran-copbasic Filename: pool/dists/focal/main/r-cran-lmomco_2.5.1-1.ca2004.1_all.deb Size: 3187732 MD5sum: 70a9f6b248f60f4ece93dfc75f0ec17a SHA1: aa2c9f909e824a2061029187c97a91e6cf02d589 SHA256: 1a4edd6faf23261fcfde1d3f3e74639464c266c15124382704a8b63a51188f50 SHA512: 93a2deed56fd6b59a0dd089df8d22d08e79f42de514807edd5bcfd1dbc81ce74c859d642863164d5f79a0ec5e85bd9e7dfed6c441fcf2c22a9229a3ef1b6a5d4 Homepage: https://cran.r-project.org/package=lmomco Description: CRAN Package 'lmomco' (L-Moments, Censored L-Moments, Trimmed L-Moments, L-Comoments,and Many Distributions) Extensive functions for Lmoments (LMs) and probability-weighted moments (PWMs), distribution parameter estimation, LMs for distributions, LM ratio diagrams, multivariate Lcomoments, and asymmetric (asy) trimmed LMs (TLMs). Maximum likelihood and maximum product spacings estimation are available. Right-tail and left-tail LM censoring by threshold or indicator variable are available. LMs of residual (resid) and reversed (rev) residual life are implemented along with 13 quantile operators for reliability analyses. Exact analytical bootstrap estimates of order statistics, LMs, and LM var-covars are available. Harri-Coble Tau34-squared Normality Test is available. Distributions with L, TL, and added (+) support for right-tail censoring (RC) encompass: Asy Exponential (Exp) Power [L], Asy Triangular [L], Cauchy [TL], Eta-Mu [L], Exp. 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Package: r-cran-lmompi Architecture: all Version: 0.6.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lmom, r-cran-stringr Suggests: r-cran-spei Filename: pool/dists/focal/main/r-cran-lmompi_0.6.6-1.ca2004.1_all.deb Size: 36420 MD5sum: 31da367b33637eee319c9a7695887f41 SHA1: f0e5de9110e9fbe67dca0f660a64a54854a79490 SHA256: 9c0dc7e3411132571da8db1dbb9a0d33c11e5fe7e5f5090d56a5f3ca3ec412f1 SHA512: 3d6f062c3b2c74a468a6c6b6a721811686bc8634ee6e7f8653fbcfff56c063c160792a57e1e835c24c0d6068663c9863782f6f5b801474e3f97a0be8e02dc69c Homepage: https://cran.r-project.org/package=lmomPi Description: CRAN Package 'lmomPi' ((Precipitation) Frequency Analysis and Variability withL-Moments from 'lmom') It is an extension of 'lmom' R package: 'pel...()','cdf...()',qua...()' function families are lumped and called from one function per each family respectively in order to create robust automatic tools to fit data with different probability distributions and then to estimate probability values and return periods. The implemented functions are able to manage time series with constant and/or missing values without stopping the execution with error messages. The package also contains tools to calculate several indices based on variability (e.g. 'SPI' , Standardized Precipitation Index, see and ) for multiple time series or spatially gridded values. 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This package is an efficient tool to modify a reference load shape while matching the desired peak and load factor. The package offers both linear and non-linear method, described in . The user can control the shape of the final load shape by regulating certain parameters. The package provides validation metrics for assessing the derived load shape in terms of preserving time series properties. It also offers powerful graphics, that allows the user to visually assess the derived load shape. 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Including automated filtering of noise parameters and determination of breakpoints. Package: r-cran-lobstercatch Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-lobstercatch_0.1.0-1.ca2004.1_all.deb Size: 63720 MD5sum: 1bc1fd5a094c614061bec94fba2d2c72 SHA1: 0e5e3cb54f08d6fdd33a5b0b13f2ab98c071fcdf SHA256: 64c6feab13661fc202a798500a019eca512e66ebaff3b6dcbab56b4be87ba3c4 SHA512: ffab5a59440d8c3539e9cc1cd0bcf21e92d8de0320c03fb2a8eae7043f72743c3f139b106a562ac0335b8fadd9ee007e4281bc3c25c53c1f47f6c2c8d67ad248 Homepage: https://cran.r-project.org/package=LobsterCatch Description: CRAN Package 'LobsterCatch' (Models the Capture Processes in American Lobster Trap Fishery) Simulate lobster catch process in a trap fishery. Factors such as lobster density on ocean floor, their movement, trap saturation and bait shrinkage rate can be modeled. Details of the methods for modeling those processes can be found in: Addison and Bell (1997) . Package: r-cran-localcontrolstrategy Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2227 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cluster, r-cran-lattice Filename: pool/dists/focal/main/r-cran-localcontrolstrategy_1.4-1.ca2004.1_all.deb Size: 2236024 MD5sum: 1ac73c1660e616cac7948da1dfcf81f3 SHA1: b2af0d251a7475dd9edea4ed7eb6fe48d93f0ff2 SHA256: 44bcc0a48fae3af8fc000c7426c62a417044c11be107f7d449d47926358a6082 SHA512: b3a4983d6e9d5ca8d79193cae4666ad62360cce811d286407d85e20ad1bacf99dc154e1c8904ca2fc82112da85f54e2e364863bd84099a5c1003196e390e738e Homepage: https://cran.r-project.org/package=LocalControlStrategy Description: CRAN Package 'LocalControlStrategy' (Local Control Strategy for Robust Analysis of Cross-SectionalData) Especially when cross-sectional data are observational, effects of treatment selection bias and confounding are revealed by using the Nonparametric and Unsupervised "preprocessing" methods central to Local Control (LC) Strategy. The LC objective is to estimate the "effect-size distribution" that best quantifies a potentially causal relationship between a numeric y-Outcome variable and a t-Treatment or e-Exposure variable. Treatment variables are binary {either 1 = "new" or 0 = "control"}, while Exposure variables vary continuously over a finite range. LC Strategy starts by CLUSTERING experimental units (individual patients, US Counties, etc.) on their X-confounder characteristics. Clusters represent exclusive and exhaustive BLOCKS of relatively well-matched units. The implicit statistical model for LC is thus simple one-way ANOVA. Within-Block measures of effect-size are Local Rank Correlations (LRCs) when Exposure is numeric with (many) more than two levels. Otherwise, Treatment choice is Nested within BLOCKS, and effect-sizes are LOCAL Treatment Differences (LTDs) between Within-Cluster y-Outcome Means ["new" minus "control"]. An Instrumental Variable (IV) method is also provided so that Local Average y-Outcomes (LAOs) within BLOCKS may also contribute information for effect-size inferences ...assuming that X-Covariates influence only Treatment choice or Exposure level and otherwise have no direct effects on y-Outcome. Finally, a "Most-Like-Me" function provides histograms of effect-size distributions to aid Doctor-Patient or Researcher-Society communications about Heterogeneous Outcomes. Package: r-cran-localfda Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1051 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-localfda_1.0.0-1.ca2004.1_all.deb Size: 1040356 MD5sum: 8fdb21edb3f38768685af113d6f70896 SHA1: 97f102d05f9e3960944f8fde9cf86704c2ab28df SHA256: eed387477184a90789e5637c3eedd7f1a400a7bebda8d7366db25bb72d57d977 SHA512: 005a1126f736d266e08620c748fd7f688d389388776b8eb4a3ba3abe621b966b76500c4c047e22c00d6db1f72d815a16b2ab3975121a6c0460f481ecb3c3751d Homepage: https://cran.r-project.org/package=localFDA Description: CRAN Package 'localFDA' (Localization Processes for Functional Data Analysis) Implementation of a theoretically supported alternative to k-nearest neighbors for functional data to solve problems of estimating unobserved segments of a partially observed functional data sample, functional classification and outlier detection. The approximating neighbor curves are piecewise functions built from a functional sample. Instead of a distance on a function space we use a locally defined distance function that satisfies stabilization criteria. The package allows the implementation of the methodology and the replication of the results in Elías, A., Jiménez, R. and Yukich, J. (2020) . Package: r-cran-localice Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-checkmate Suggests: r-cran-covr, r-cran-h2o, r-cran-mlbench, r-cran-randomforest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-localice_0.1.1-1.ca2004.1_all.deb Size: 30224 MD5sum: 553a229becc5afede41e84c73169e676 SHA1: c01922a8e25775360928c5e4343d66ae910a105c SHA256: 9f2bb42d164af5fa6da720254904b2d6496e4954c96b7faca38495cebc07fd54 SHA512: 99bcd71c7585a92345e1874ab639487b46122be897f65f40cbdb4d70226a22c349a6b798125e94e63bfc6b505931c3456b5c78a09f6397c4518e916e8a69b83c Homepage: https://cran.r-project.org/package=localICE Description: CRAN Package 'localICE' (Local Individual Conditional Expectation) Local Individual Conditional Expectation ('localICE') is a local explanation approach from the field of eXplainable Artificial Intelligence (XAI). localICE is a model-agnostic XAI approach which provides three-dimensional local explanations for particular data instances. The approach is proposed in the master thesis of Martin Walter as an extension to ICE (see Reference). The three dimensions are the two features at the horizontal and vertical axes as well as the target represented by different colors. The approach is applicable for classification and regression problems to explain interactions of two features towards the target. For classification models, the number of classes can be more than two and each class is added as a different color to the plot. The given instance is added to the plot as two dotted lines according to the feature values. The localICE-package can explain features of type factor and numeric of any machine learning model. Automatically supported machine learning packages are 'mlr', 'randomForest', 'caret' or all other with an S3 predict function. For further model types from other libraries, a predict function has to be provided as an argument in order to get access to the model. Reference to the ICE approach: Alex Goldstein, Adam Kapelner, Justin Bleich, Emil Pitkin (2013) . 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Package: r-cran-localsolver Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-localsolver_2.3-1.ca2004.1_all.deb Size: 98340 MD5sum: 6db691728248f8a89ae2ea9da2358408 SHA1: 9b5b524f2b0854ab3573bf5413fc7b8db0ea13a9 SHA256: 8a18c856871256df4e4e7cf621be82dadf6d9357797a6a51ba514daf82247d69 SHA512: 5eafb2492fd9356e6d8176b94bcec607ae9feb3f5fc47803d1041e7c43520cd982ff167bc47e7d89fbcced3b94b92e8a72932772ec4c604a9cdfe19c13781c83 Homepage: https://cran.r-project.org/package=localsolver Description: CRAN Package 'localsolver' (R API to LocalSolver) The package converts R data onto input and data for LocalSolver, executes optimization and exposes optimization results as R data. LocalSolver (http://www.localsolver.com/) is an optimization engine developed by Innovation24 (http://www.innovation24.fr/). 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The package provides functions to locate 'Node.js', 'npm', 'LibreOffice', 'Microsoft Word', 'Microsoft PowerPoint', 'Microsoft Excel', 'Python', 'pip', 'Mozilla Firefox' and 'Google Chrome'. User can test the availability of a program with eventually a version and call it with function system2() or system(). This allows the use of a single function to retrieve the path to a program regardless of the operating system and its configuration. 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Customers make the decision to visit the location that is closest to them. The functions in this package include Prim algorithm (Prim (1957) ) to find the minimum spanning tree connecting all network vertices, an implementation of Dijkstra algorithm (Dijkstra (1959) ) to find the shortest distance and path between any two vertices, a self-developed algorithm using elimination of purely dominated strategies to find the equilibrium, and several plotting functions. 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Package: r-cran-logantree Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 239 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rocr, r-cran-caret, r-cran-caretensemble, r-cran-dplyr, r-cran-ggplot2, r-cran-rpart.plot, r-cran-tibble, r-cran-gbm Filename: pool/dists/focal/main/r-cran-logantree_0.1.1-1.ca2004.1_all.deb Size: 209668 MD5sum: 2a37d79e52537f275805110057e386b8 SHA1: 9a631b3b0985bf357ddd4f49740e71ff3a132f11 SHA256: 32db136a2912a7defda16a3c56e2031f851a45b7d64e5e445c8877e2bf43b67a SHA512: 1069df4872e11bcede54f7a5e6b1ec5c1d0e37babec74cdaaea91fabdbbc6885d8b20a11f856f9327d5ced55376fbf402da90e52554d6abb48da77c38ab4e9ad Homepage: https://cran.r-project.org/package=LOGANTree Description: CRAN Package 'LOGANTree' (Tree-Based Models for the Analysis of Log Files fromComputer-Based Assessments) Enables researchers to model log-file data from computer-based assessments using machine-learning techniques. It allows researchers to generate new knowledge by comparing the performance of three tree-based classification models (i.e., decision trees, random forest, and gradient boosting) to predict student's outcome. It also contains a set of handful functions for the analysis of the features' influence on the modeling. Data from the Climate control item from the 2012 Programme for International Student Assessment (PISA, ) is available for an illustration of the package's capability. He, Q., & von Davier, M. (2015) Boehmke, B., & Greenwell, B. M. (2019) . Package: r-cran-logbin Architecture: all Version: 2.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glm2, r-cran-turboem, r-cran-matrix, r-cran-itertools2, r-cran-iterators Suggests: r-cran-testthat, r-cran-vctrs Filename: pool/dists/focal/main/r-cran-logbin_2.0.6-1.ca2004.1_all.deb Size: 206804 MD5sum: 682d7c6ddbf5e72eb19ab2efc3442ec8 SHA1: 075e91659be5ca824a01a7bc99b41fc8fbe7f981 SHA256: d5d52f631424726a5d68eab8a3c821a771a0f01bb65b29ead998470e7e440f19 SHA512: e8b0d90d6aa8a1afb217e936104148eb3e30ddb97b51f418509e5034e82bb79a62e5d13458e250da19cb12b6a8cdc86e96daa42f17baf45caa3fc495a6922077 Homepage: https://cran.r-project.org/package=logbin Description: CRAN Package 'logbin' (Relative Risk Regression Using the Log-Binomial Model) Methods for fitting log-link GLMs and GAMs to binomial data, including EM-type algorithms with more stable convergence properties than standard methods. Package: r-cran-logcondens.mode Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 408 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-logcondens, r-cran-distr Filename: pool/dists/focal/main/r-cran-logcondens.mode_1.0.1-1.ca2004.1_all.deb Size: 371272 MD5sum: 389ffdfef2091bbae212bab2af074993 SHA1: fe65ce2ea6fedfa8c2885993f00d93923bd5e8cf SHA256: a522288e5413f67e9e726b3781862f79a8ad304e60ec52e3d002988bdf75866b SHA512: b3af4b3708ad5f656abdf7165951b22ec12976f5714b4d6532e9dd744bb4a720119217e248f90e1cbd88e0b4b59552720069a75c763c7d717429287079b00a04 Homepage: https://cran.r-project.org/package=logcondens.mode Description: CRAN Package 'logcondens.mode' (Compute MLE of Log-Concave Density on R with Fixed Mode, andPerform Inference for the Mode) Computes maximum likelihood estimate of a log-concave density with fixed and known location of the mode. Performs inference about the mode via a likelihood ratio test. Extension of the logcondens package. Package: r-cran-logcondens Architecture: all Version: 2.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 673 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ks Filename: pool/dists/focal/main/r-cran-logcondens_2.1.8-1.ca2004.1_all.deb Size: 561972 MD5sum: f6112bb1e0c0b003b8552fcedf0d8dc7 SHA1: 9913552d344999cb91c30ba61a3d488b3eaf454a SHA256: 6c70587568080c5c9dd146ba522eb23e6b3b9ee995195438d3a825ec71345854 SHA512: c69bf6b3abefea7ae92338d98d8aa4e94dbdaa6dd88d8529c2389a49deea16c73a58343c6b27cd0c8d24d3197415b3342949e3cfd6fe22d11634e0853bf020de Homepage: https://cran.r-project.org/package=logcondens Description: CRAN Package 'logcondens' (Estimate a Log-Concave Probability Density from Iid Observations) Given independent and identically distributed observations X(1), ..., X(n), compute the maximum likelihood estimator (MLE) of a density as well as a smoothed version of it under the assumption that the density is log-concave, see Rufibach (2007) and Duembgen and Rufibach (2009). The main function of the package is 'logConDens' that allows computation of the log-concave MLE and its smoothed version. In addition, we provide functions to compute (1) the value of the density and distribution function estimates (MLE and smoothed) at a given point (2) the characterizing functions of the estimator, (3) to sample from the estimated distribution, (5) to compute a two-sample permutation test based on log-concave densities, (6) the ROC curve based on log-concave estimates within cases and controls, including confidence intervals for given values of false positive fractions (7) computation of a confidence interval for the value of the true density at a fixed point. Finally, three datasets that have been used to illustrate log-concave density estimation are made available. Package: r-cran-logcondiscr Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-mvtnorm, r-cran-cobs Filename: pool/dists/focal/main/r-cran-logcondiscr_1.0.6-1.ca2004.1_all.deb Size: 85872 MD5sum: ef6ff70954e9a17459bd0d7e16f21648 SHA1: a2a0e9433afe992346bec0cd85a499f88abffb34 SHA256: 63860a17baeb5737d287a2081af12651097c3dc9d6461ac6b8c74809adbd4c7a SHA512: cffd47db02d3593ac2efe87241ba48a51d4a8cb73ad3b4135bb8968a93d5ed8fc6746932fe868c9d46833a41662be65d1276120248747ffff49af62060cddc89 Homepage: https://cran.r-project.org/package=logcondiscr Description: CRAN Package 'logcondiscr' (Estimate a Log-Concave Probability Mass Function from Discretei.i.d. Observations) Given independent and identically distributed observations X(1), ..., X(n), allows to compute the maximum likelihood estimator (MLE) of probability mass function (pmf) under the assumption that it is log-concave, see Weyermann (2007) and Balabdaoui, Jankowski, Rufibach, and Pavlides (2012). The main functions of the package are 'logConDiscrMLE' that allows computation of the log-concave MLE, 'logConDiscrCI' that computes pointwise confidence bands for the MLE, and 'kInflatedLogConDiscr' that computes a mixture of a log-concave PMF and a point mass at k. Package: r-cran-logger Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1869 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-botor, r-cran-covr, r-cran-crayon, r-cran-devtools, r-cran-glue, r-cran-jsonlite, r-cran-knitr, r-cran-mirai, r-cran-pander, r-cran-r.utils, r-cran-rmarkdown, r-cran-roxygen2, r-cran-rpushbullet, r-cran-rsyslog, r-cran-shiny, r-cran-slackr, r-cran-syslognet, r-cran-telegram, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-logger_0.4.0-1.ca2004.1_all.deb Size: 558492 MD5sum: 9f6f0ab38d59d6cf12360fd0a7895e95 SHA1: 766d6839336ec7d813a99ac33c8d5b248a872810 SHA256: 17734f771d1ec51f9746efcb901a20d7688049c76254ae5ec38c1833b9acf26c SHA512: 68050a100d50f2db7adc10d4e7adeedd2488633565bc01f36a9d13249c8d748d3b1e71019f69e66f6aef02918d6e7720de004310ab2d2e6eca2cbbf8b15d3e3a Homepage: https://cran.r-project.org/package=logger Description: CRAN Package 'logger' (A Lightweight, Modern and Flexible Logging Utility) Inspired by the the 'futile.logger' R package and 'logging' Python module, this utility provides a flexible and extensible way of formatting and delivering log messages with low overhead. Package: r-cran-logging Architecture: all Version: 0.10-108-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 192 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-crayon Filename: pool/dists/focal/main/r-cran-logging_0.10-108-1.ca2004.1_all.deb Size: 161408 MD5sum: 7d8570e691a700a6f69dec8c61a472c5 SHA1: 32ec47c385bda19da314452770af0f5bac9f9b27 SHA256: a825f7e5aa70c96692f197579121f0933a5b5e849ca45a9d992f7bf61e3d0e70 SHA512: 7d8f09ba898850ed7e5d3775fe877e23999f8d65f4327d278b0f75293259af5be269b86f05fddf80a632c43a56849d4046c4ba6c43e8230e57b7ccb7aee5123c Homepage: https://cran.r-project.org/package=logging Description: CRAN Package 'logging' (R Logging Package) Pure R implementation of the ubiquitous log4j package. It offers hierarchic loggers, multiple handlers per logger, level based filtering, space handling in messages and custom formatting. Package: r-cran-loggit Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-loggit_2.1.1-1.ca2004.1_all.deb Size: 57456 MD5sum: 0da8082db579441ed5a67ca8973f5ffd SHA1: 701c22a6809457eeefc3e3198347c700d95b6dcf SHA256: e76e9ee278496affa694a7131a2963378e39577300254a8497e4dcb363b2ee89 SHA512: 67eb750bbe88119b87ca70d751e806807ceb45f11721b4ce01f4bb27e1e07e810e4777626c1a769924c3e74e21e9fdc385dec62005aca18cb3b4d62895a8acea Homepage: https://cran.r-project.org/package=loggit Description: CRAN Package 'loggit' (Modern Logging for the R Ecosystem) An effortless 'ndjson' (newline-delimited 'JSON') logger, with two primary log-writing interfaces. It provides a set of wrappings for base R's message(), warning(), and stop() functions that maintain identical functionality, but also log the handler message to an 'ndjson' log file. 'loggit' also exports its internal 'loggit()' function for powerful and configurable custom logging. No change in existing code is necessary to use this package, and should only require additions to fully leverage the power of the logging system. 'loggit' also provides a log reader for reading an 'ndjson' log file into a data frame, log rotation, and live echo of the 'ndjson' log messages to terminal 'stdout' for log capture by external systems (like containers). 'loggit' is ideal for Shiny apps, data pipelines, modeling work flows, and more. Please see the vignettes for detailed example use cases. Package: r-cran-logib Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lubridate, r-cran-readxl Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-logib_0.2.0-1.ca2004.1_all.deb Size: 98708 MD5sum: 26bded79c94406f73f0af7f126fec0be SHA1: 30b3223e34f73716c2cbeb5cc5be36ff4816b077 SHA256: 432ff27521280e85d39954e06792a4815a54050e687946302f937ad37d4d0c7e SHA512: cd4af480527a7c646467f188216d082e5fad9dff669653157a13d2165016b16390f02ba43232dc7b7b3d2b4975fe9e210e983d94214f12efb3691dc4e652936b Homepage: https://cran.r-project.org/package=logib Description: CRAN Package 'logib' (Salary Analysis by the Swiss Federal Office for Gender Equality) Implementation of the Swiss Confederation's standard analysis model for salary analyses in R. The analysis is run at company-level and the model is intended for medium-sized and large companies. It can technically be used with 50 or more employees (apprentices, trainees/interns and expats are not included in the analysis). Employees with at least 100 employees are required by the Gender Equality Act to conduct an equal pay analysis. This package allows users to run the equal salary analysis in R, providing additional transparency with respect to the methodology and simple automation possibilities. Package: r-cran-logibin Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-partykit, r-cran-doparallel, r-cran-data.table, r-cran-foreach, r-cran-iterators Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-logibin_0.3-1.ca2004.1_all.deb Size: 75788 MD5sum: f05ab8b1a1063121d3af884b706d6506 SHA1: e6366a98f672fef6be327a8c94b92927f62d1d3d SHA256: 1478923f686ff9570162b54164a67819e0bd8e86acc5f9a6cd3a9a80184dcfba SHA512: 094c6818622c54a2a456ea80be9c9f2aa007167e9fd224200b242c6592f1bdb653745c60e6b254efd58233ff59976178f36bdc824d1cc382bacf2de974081106 Homepage: https://cran.r-project.org/package=logiBin Description: CRAN Package 'logiBin' (Binning Variables to Use in Logistic Regression) Fast binning of multiple variables using parallel processing. A summary of all the variables binned is generated which provides the information value, entropy, an indicator of whether the variable follows a monotonic trend or not, etc. It supports rebinning of variables to force a monotonic trend as well as manual binning based on pre specified cuts. The cut points of the bins are based on conditional inference trees as implemented in the partykit package. The conditional inference framework is described by Hothorn T, Hornik K, Zeileis A (2006) . Package: r-cran-logicforest Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-logicreg Suggests: r-cran-data.table, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-logicforest_2.1.1-1.ca2004.1_all.deb Size: 64556 MD5sum: 2461f6d8e3d8aa23bd60bdf399b2293f SHA1: 2315363f61b7376e5c491676ce671bca57b18e90 SHA256: 1017f11adf46fcf3d9715cbec08cdfd0482219f336508bf7be749fd42a87f609 SHA512: 114b3dd77c3daa6c7c4f60a441553da1449cd170b4c46096245add5d3197aa198e3c4f1a2241d6f32a52926e845e947cf8ee35c869dee4dc2e1428513c7e5bdd Homepage: https://cran.r-project.org/package=LogicForest Description: CRAN Package 'LogicForest' (Logic Forest) Two classification ensemble methods based on logic regression models. LogForest() uses a bagging approach to construct an ensemble of logic regression models. LBoost() uses a combination of boosting and cross-validation to construct an ensemble of logic regression models. Both methods are used for classification of binary responses based on binary predictors and for identification of important variables and variable interactions predictive of a binary outcome. Wolf, B.J., Slate, E.H., Hill, E.G. (2010) . Package: r-cran-logicoil Architecture: all Version: 0.99.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 523 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnet Filename: pool/dists/focal/main/r-cran-logicoil_0.99.0-1.ca2004.1_all.deb Size: 343828 MD5sum: 06a4644de02319dbb659b137eea5da92 SHA1: 17f4f4fe3d36b06376d940d9f61c5c3027cd8b80 SHA256: 3ee912ecd5c6b08ebfaa669b7fe82e635c38a1038bee6ae59fb1109210744c27 SHA512: 5d7987d5f6512322c0534ce0515862dd25178712d66ca8781309b01c414fc370b4e7d26e6c5edb7dcf7f589c3e56f5371289054a5fa38d75da6998a666471872 Homepage: https://cran.r-project.org/package=LOGICOIL Description: CRAN Package 'LOGICOIL' (LOGICOIL: multi-state prediction of coiled-coil oligomericstate) This package contains the functions necessary to run the LOGICOIL algorithm. LOGICOIL can be used to differentiate between antiparallel dimers, parallel dimers, trimers and higher-order coiled-coil sequence. By covering >90 percent of the known coiled-coil structures, LOGICOIL is a net improvement compared with other existing methods, which achieve a predictive coverage of around 31 percent of this population. As such, LOGICOIL is particularly useful for researchers looking to characterize novel coiled-coil sequences or studying coiled-coil containing protein assemblies. It may also be used to assist in the structural characterization of synthetic coiled-coil sequences. Package: r-cran-logihist Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-popbio Filename: pool/dists/focal/main/r-cran-logihist_1.1-1.ca2004.1_all.deb Size: 52988 MD5sum: 45276c7d11bc7ec6d6b6d33be2137fb3 SHA1: cc05658c5b5a1152e56d5e3ed78b7185084d0936 SHA256: 5d20e493160dfbae8fa312652e04b41e83efadb2e11a7e1c10689219b2121ddc SHA512: 72d4530c05f97cb7f28d8f372245a6fc007808dcf64586b5e7c9bf5f8c253b38f46dc72c781dfc226c1756013db97aef63c0b8a926c35dc8e53ed1a108b4f5ba Homepage: https://cran.r-project.org/package=logihist Description: CRAN Package 'logihist' (Combined Graphs for Logistic Regression) Provides histograms, boxplots and dotplots as alternatives to scatterplots of data when plotting fitted logistic regressions. Package: r-cran-login Architecture: all Version: 0.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 846 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cookies, r-cran-dbi, r-cran-digest, r-cran-emayili, r-cran-htmltools, r-cran-shiny, r-cran-shinybusy, r-cran-shinyjs, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-login_0.9.3-1.ca2004.1_all.deb Size: 636916 MD5sum: f3ccd244f48e3f4880975abda74ff77a SHA1: 945ce28c1bcfa7e327883fa72545c689dbc16372 SHA256: 5cb139a8019c3c6cd4bbb7f8338003c00150e1d3117c272ed60e2f9f182050f7 SHA512: 2ac5f21175df06d2b481301b5e66787b261a22cf53f0812c5026be5eb74ca58501d61323c05021383385d2ee32543532891eac223a526c3aa3fd7ce3b21c23f7 Homepage: https://cran.r-project.org/package=login Description: CRAN Package 'login' ('shiny' Login Module) Framework for adding authentication to 'shiny' applications. Provides flexibility as compared to other options for where user credentials are saved, allows users to create their own accounts, and password reset functionality. Bryer (2024) . Package: r-cran-logistic4p Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-logistic4p_1.6-1.ca2004.1_all.deb Size: 85200 MD5sum: 5d9a4c1dd9d16b17be625859ae849892 SHA1: 75592635578e84b577676c92412ecbb22fa411ac SHA256: 0bbe545e5ec7018dc9dc18f4e34aec81e7feb2bb31ad6313407175762575f7d2 SHA512: ad0a4034acead9cff20ba2cc934b218e7039732ba4efe06ddb9f92758b90bdfd4ecbf455b5f648e777811960381340a3b944eba65ac35bd817ddb47a60da18e1 Homepage: https://cran.r-project.org/package=logistic4p Description: CRAN Package 'logistic4p' (Logistic Regression with Misclassification in DependentVariables) Error in a binary dependent variable, also known as misclassification, has not drawn much attention in psychology. Ignoring misclassification in logistic regression can result in misleading parameter estimates and statistical inference. This package conducts logistic regression analysis with misspecification in outcome variables. Package: r-cran-logisticcopula Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 199 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-brglm2, r-cran-vinecopula, r-cran-rvinecopulib, r-cran-igraph, r-cran-numderiv, r-cran-stringr Filename: pool/dists/focal/main/r-cran-logisticcopula_0.1.0-1.ca2004.1_all.deb Size: 167564 MD5sum: 589c27dd15b2ac2dbc550d2ea5d57182 SHA1: 79ec2846166e19fc0350e2d8e4ec7cd6989a1c3b SHA256: 4816fc51947b736b3fd3fe88e37414ecbe20fe67407c2740b224ad28e32cb2c5 SHA512: 19f4bef74903f0cb8b6b7d7adc01017d2d4c825badaa790955554996d464dd0d2cd597104dcc1aeddd14adbbccb1e5faf67f80ec805e2620ace80f1556cd5e63 Homepage: https://cran.r-project.org/package=LogisticCopula Description: CRAN Package 'LogisticCopula' (A Copula Based Extension of Logistic Regression) An implementation of a method of extending a logistic regression model beyond linear effects of the co-variates. The extension in is constructed by first equating the logistic regression model to a naive Bayes model where all the margins are specified to follow natural exponential distributions conditional on Y, that is, a model for Y given X that is specified through the distribution of X given Y, where the columns of X are assumed to be mutually independent conditional on Y. Subsequently, the model is expanded by adding vine - copulas to relax the assumption of mutual independence, where pair-copulas are added in a stage-wise, forward selection manner. Some heuristics are employed during the process of selecting edges, as well as the families of pair-copula models. After each component is added, the parameters are updated by a (smaller) number of gradient steps to maximise the likelihood. When the algorithm has stopped adding edges, based the criterion that a new edge should improve the likelihood more than k times the number new parameters, the parameters are updated with a larger number of gradient steps, or until convergence. 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Package: r-cran-logrxaddin Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-logrx, r-cran-stringr, r-cran-miniui, r-cran-rstudioapi, r-cran-shiny, r-cran-waiter Filename: pool/dists/focal/main/r-cran-logrxaddin_0.0.1-1.ca2004.1_all.deb Size: 15816 MD5sum: 9aa92133ffba7c5d9a9e8289a697f66b SHA1: 925ded7397da7f4e4037488433a29facca71bff7 SHA256: d312030e0c40298e614730462973b9ab00dcf626b962580716ea8c5f76cb7219 SHA512: 433cf9ca559f50bc7ee8898258a420951333e199c683269076a12769d2daea3ca31e54fcf959f4a5affb6be352a43d34b3b068ba55948530b844eb58a68edaf6 Homepage: https://cran.r-project.org/package=logrxaddin Description: CRAN Package 'logrxaddin' (Addin for the 'logrx' Package) This is an extension package to 'logrx', which is a log creation program focused on Clinical Reporting within the Pharma Industry. This package enables a simple 'shiny-based' Add-in that provides a point and click interface to produce a log for a single program. 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To remedy this High dimensionality; low sample size (HDLSS) situation, we attempt to learn a lower-dimensional representation of the data before learning a classifier. That is, we project the data to a situation where the dimensionality is more manageable, and then are able to better apply standard classification or clustering techniques since we will have fewer dimensions to overfit. A number of previous works have focused on how to strategically reduce dimensionality in the unsupervised case, yet in the supervised HDLSS regime, few works have attempted to devise dimensionality reduction techniques that leverage the labels associated with the data. In this package and the associated manuscript Vogelstein et al. (2017) , we provide several methods for feature extraction, some utilizing labels and some not, along with easily extensible utilities to simplify cross-validative efforts to identify the best feature extraction method. Additionally, we include a series of adaptable benchmark simulations to serve as a standard for future investigative efforts into supervised HDLSS. Finally, we produce a comprehensive comparison of the included algorithms across a range of benchmark simulations and real data applications. Package: r-cran-lomb Architecture: all Version: 2.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2991 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-plotly, r-cran-pracma, r-cran-knitr Suggests: r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-lomb_2.5.0-1.ca2004.1_all.deb Size: 1608224 MD5sum: f137f4433f9688e8a12b26549ce50ea0 SHA1: ebaff2e7ac244989e2b0ed11de7f6eb9826457cf SHA256: 1049d27340cafca4dfabe041bdad37db39f63a1ec68d0f5b1235c6c7485dbd08 SHA512: 7c95ea13f4392d5619ce90e5a38b6a37af662dc41e243c6a0afc369a692a60cb35df6e9b56b2ad97163a2ea98bb1d073d15f6d23c275871deb506d17946f4d78 Homepage: https://cran.r-project.org/package=lomb Description: CRAN Package 'lomb' (Lomb-Scargle Periodogram) Computes the Lomb-Scargle Periodogram and actogram for evenly or unevenly sampled time series. Includes a randomization procedure to obtain exact p-values. Partially based on C original by Press et al. (Numerical Recipes) and the Python module Astropy. For more information see Ruf, T. (1999). The Lomb-Scargle periodogram in biological rhythm research: analysis of incomplete and unequally spaced time-series. Biological Rhythm Research, 30(2), 178-201. 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The array output can be used by the 'keras' package. Long short-term memory neural networks are described in: Hochreiter, S., & Schmidhuber, J. (1997) . 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It provides estimates by missing at random and missing not at random assumptions. In this R package, we present Bayesian approaches that statisticians and clinical researchers can easily use. The functions' methodology is based on the book "Bayesian Approaches in Oncology Using R and OpenBUGS" by Bhattacharjee A (2020) . 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The longitudinal cascade inputs longitudinal data to identify gaps in the HIV and related cascades by observing differences using time to event and survival methods. The stage definitions are set by the user, with default standard options. Outputs include graphics, datasets, and formal statistical tests. 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Package: r-cran-longiturf Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-randomforest, r-cran-rpart, r-cran-mvtnorm, r-cran-latex2exp Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-longiturf_0.9-1.ca2004.1_all.deb Size: 152944 MD5sum: 2488c84515a48dfb307fcd7659980549 SHA1: 8e0ba6b6703862efbacf7dacff16a36824b46f2f SHA256: b2a95dc872d5d7affe87c6b6b48706b1cf813b88770e120a1579c84f403b715d SHA512: 4dcef0af358133cb0cb1c02984b64d0ec03de313103ee4d85a9e321ea7d77ff9fb2c7c1ab27b3381d5766b57eee4b67269b41d11f22949b4df301053761ef913 Homepage: https://cran.r-project.org/package=LongituRF Description: CRAN Package 'LongituRF' (Random Forests for Longitudinal Data) Random forests are a statistical learning method widely used in many areas of scientific research essentially for its ability to learn complex relationships between input and output variables and also its capacity to handle high-dimensional data. However, current random forests approaches are not flexible enough to handle longitudinal data. In this package, we propose a general approach of random forests for high-dimensional longitudinal data. It includes a flexible stochastic model which allows the covariance structure to vary over time. Furthermore, we introduce a new method which takes intra-individual covariance into consideration to build random forests. The method is fully detailled in Capitaine et.al. (2020) Random forests for high-dimensional longitudinal data. 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Package: r-cran-loop Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-loop_1.1-1.ca2004.1_all.deb Size: 121488 MD5sum: 4c7fd96fcfc80967676584da1df5fce1 SHA1: 546b05633a35bef54b9d00617cbe1766c336b522 SHA256: 09231655787ee600ac5012e039a98adea7c185cb73bc24b06841d4cf4c821f65 SHA512: 7f306e62c761ba3f9b1474cd40a07f53f3d4e68c3feb4f6939e99df817137b13899a71019482028aeb3d17fb4a8fc89d4b249fcc44b28cb06da2603682d2a161 Homepage: https://cran.r-project.org/package=loop Description: CRAN Package 'loop' (loop decomposition of weighted directed graphs for life cycleanalysis, providing flexbile network plotting methods, andanalyzing food chain properties in ecology) The program can perform loop analysis and plot network structure (especially for food webs),including minimum spanning tree, loop decomposition of weighted directed graphs, and other network properties which may be related to food chain properties in ecology. Package: r-cran-loopanalyst Architecture: all Version: 1.2-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nlme Filename: pool/dists/focal/main/r-cran-loopanalyst_1.2-7-1.ca2004.1_all.deb Size: 218136 MD5sum: e1dedb106f440bdec292406f486d2971 SHA1: 4955d5f077e11559073a162bf750f011bb2fe395 SHA256: 52fb4192bda09d43c2227ecf114114ed82fc3e38ffea26c8a1bc91248f335811 SHA512: 279df2cb13a7c38a2d3b6658443b057d11f41e35703582ef383390ce88c73fa397701c4a1d955fb018f6cd900505b7130f5cf63bf5d624895ff308a6ba0352f3 Homepage: https://cran.r-project.org/package=LoopAnalyst Description: CRAN Package 'LoopAnalyst' (A Collection of Tools to Conduct Levins' Loop Analysis) Performs Levins' loop analysis of qualitatively-specified complex causal systems. 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Package: r-cran-loopdetectr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 350 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-numderiv Suggests: r-cran-desolve, r-cran-knitr, r-cran-markdown, r-cran-remotes, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-loopdetectr_0.1.2-1.ca2004.1_all.deb Size: 262944 MD5sum: ecfd9c97bb43128c078819486c30e21f SHA1: a935080d4a26a30d72731260914a5e625dbbd26d SHA256: 45e9a2b0d165eba30209990be0b71557385c84dd336241d4acb551d6636e14b4 SHA512: a22d4f4d3fc93635e4fe635c7b0bf3ab8fef4c1a73baf926672e933b8fc4be4aa3f27544dec0907421ad8324dc291b3c8c3a32ddc3696d56c73e2754ebd4347c Homepage: https://cran.r-project.org/package=LoopDetectR Description: CRAN Package 'LoopDetectR' (Comprehensive Feedback Loop Detection in ODE Models) Detect feedback loops (cycles, circuits) between species (nodes) in ordinary differential equation (ODE) models. 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Three main functions are provided in this package: (i) LASER(): it generates specially-designed artificial relevant samples for a given case; (ii) g2l.proc(): computes customized fdr(z|x); and (iii) rEB.proc(): performs empirical Bayes inference based on LASERs. The details can be found in Mukhopadhyay, S., and Wang, K (2021, ). 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In their standard formulation, however, they do not allow exploring how the hypothesized model deviates from the truth nor do they provide any insight into how the rejected model could be improved to better fit the data. To overcome these shortcomings, we establish a comprehensive framework for goodness-of-fit which naturally integrates modeling, estimation, inference and graphics. In this package, the deviance tests and comparison density plots are performed to conduct the LP smoothed inference, where the letter L denotes nonparametric methods based on quantiles and P stands for polynomials. Simulations methods are used to perform variance estimation, inference and post-selection adjustments. Algeri S. and Zhang X. (2020) . 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(2021) Robust Group Variable Screening Based on Maximum Lq-likelihood Estimation. Statistics in Medicine, 40:6818-6834.. 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(Hrsg.). (2016). "Large-Scale Assessment mit R: Methodische Grundlagen der österreichischen Bildungsstandardüberprüfung." Wien: facultas. (ISBN: 978-3-7089-1343-8, ) zur Verfügung. 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Reads object-oriented data produced by LSD simulation models and performs screening and global sensitivity analysis (Sobol decomposition method, Saltelli et al. (2008) ISBN:9780470725177). A Kriging or polynomial meta-model (Kleijnen (2009) ) is estimated using the simulation data to provide the data required by the Sobol decomposition. LSD (Laboratory for Simulation Development) is free software developed by Marco Valente and Marcelo C. Pereira (documentation and downloads available at ). 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Package: r-cran-lsl Architecture: all Version: 0.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2, r-cran-lavaan Filename: pool/dists/focal/main/r-cran-lsl_0.5.6-1.ca2004.1_all.deb Size: 166544 MD5sum: 2ea5941ffcb87d9e0fb948ab887e8334 SHA1: a1ee5807e4cb847ede7a0a6fc44442217997d0af SHA256: 2d8a224eda1fe2b0de29cf108dabc6998e01a9d34aacb1d4a8087acac53771bf SHA512: 558ac04d5b06d128b5a8a36c3ba4493b6d980c43fb3f33db09b42a8d28304ea20923fde989e4548cd420de5f23e054cd6887fa2f1bb1315b9b8235858bc0b8e6 Homepage: https://cran.r-project.org/package=lsl Description: CRAN Package 'lsl' (Latent Structure Learning) Fits structural equation modeling via penalized likelihood. Package: r-cran-lsm Architecture: all Version: 0.2.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 178 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-lsm_0.2.1.5-1.ca2004.1_all.deb Size: 139880 MD5sum: 722b1c4d9ab755b818d44db66aea5902 SHA1: 419716cccf7b8c4e39264943a4c041538e32e910 SHA256: 3fbf45b245c900a2172d1bf130bb0bf3ba552a4f0af97e62b438d0d6d6b80636 SHA512: 416d138d5bc1c1db828a6d2b24351a675eb8fe03e32b211a1e4a36ae45d2ef8efebd14787f52e3c62794e9befae584348052a21c0c4541055bb56c08e591aa9e Homepage: https://cran.r-project.org/package=lsm Description: CRAN Package 'lsm' (Estimation of the log Likelihood of the Saturated Model) When the values of the outcome variable Y are either 0 or 1, the function lsm() calculates the estimation of the log likelihood in the saturated model. This model is characterized by Llinas (2006, ISSN:2389-8976) in section 2.3 through the assumptions 1 and 2. The function LogLik() works (almost perfectly) when the number of independent variables K is high, but for small K it calculates wrong values in some cases. For this reason, when Y is dichotomous and the data are grouped in J populations, it is recommended to use the function lsm() because it works very well for all K. Package: r-cran-lsmeans Architecture: all Version: 2.30-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-emmeans Filename: pool/dists/focal/main/r-cran-lsmeans_2.30-2-1.ca2004.1_all.deb Size: 38764 MD5sum: a2ffb26d9a35214ea9c62ccbc850ef4c SHA1: 825c5661bb680b86ec8dc350135c3ed5a29e8e95 SHA256: 2f68f14ad0161e398b8cd537bb889192cc572bae863e8db40c938918efa5ca42 SHA512: cd33a91fabdee38431cd7ee74ccc3f4f6f3c3ad81997436751a395a071558e8f83fde15a74c8b8c3ab0772b21c673f2cc5e929d46d3754d0c26076d3a4ffc69f Homepage: https://cran.r-project.org/package=lsmeans Description: CRAN Package 'lsmeans' (Least-Squares Means) Obtain least-squares means for linear, generalized linear, and mixed models. Compute contrasts or linear functions of least-squares means, and comparisons of slopes. Plots and compact letter displays. Least-squares means were proposed in Harvey, W (1960) "Least-squares analysis of data with unequal subclass numbers", Tech Report ARS-20-8, USDA National Agricultural Library, and discussed further in Searle, Speed, and Milliken (1980) "Population marginal means in the linear model: An alternative to least squares means", The American Statistician 34(4), 216-221 . NOTE: lsmeans now relies primarily on code in the 'emmeans' package. 'lsmeans' will be archived in the near future. 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The pricing algorithms include variance reduction techniques such as Antithetic Variates and Control Variates. Additional functions are given to derive "price surfaces" at different volatilities and strikes, create 3-D plots, quickly generate Geometric Brownian motion, and calculate prices of European options with Black & Scholes analytical solution. Package: r-cran-lsmrealoptions Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 285 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-dplyr, r-cran-scales, r-cran-nfcp Filename: pool/dists/focal/main/r-cran-lsmrealoptions_0.2.1-1.ca2004.1_all.deb Size: 128864 MD5sum: 513515642732100775764a9880d8e1bf SHA1: 6c201630f90ca7969516482a783ae06dfb166bfd SHA256: 7b955ca7ddde3cbc529383c45b178ef30bb221b258e29285072837d31fb4b76c SHA512: 4c80952b6c709f1195c8caa82219f2911d407abfe306c07de1d2a2daf0579adc6f6961df771f6c2c6b1e3b5bd88dee6c8ae3f1d81538e1d619fc73e4c03a4c6f Homepage: https://cran.r-project.org/package=LSMRealOptions Description: CRAN Package 'LSMRealOptions' (Value American and Real Options Through LSM Simulation) The least-squares Monte Carlo (LSM) simulation method is a popular method for the approximation of the value of early and multiple exercise options. 'LSMRealOptions' provides implementations of the LSM simulation method to value American option products and capital investment projects through real options analysis. 'LSMRealOptions' values capital investment projects with cash flows dependent upon underlying state variables that are stochastically evolving, providing analysis into the timing and critical values at which investment is optimal. 'LSMRealOptions' provides flexibility in the stochastic processes followed by underlying assets, the number of state variables, basis functions and underlying asset characteristics to allow a broad range of assets to be valued through the LSM simulation method. Real options projects are further able to be valued whilst considering construction periods, time-varying initial capital expenditures and path-dependent operational flexibility including the ability to temporarily shutdown or permanently abandon projects after initial investment has occurred. The LSM simulation method was first presented in the prolific work of Longstaff and Schwartz (2001) . Package: r-cran-lsnstat Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-lsnstat_1.0.1-1.ca2004.1_all.deb Size: 24324 MD5sum: 9edb77e4aba1cddac62e50f9f7cb4b25 SHA1: baff59ea94d8f52dd7a3504fada433f97f5a8c6d SHA256: 7b54935adc8775d46b808e51e02c2731f83aa2483785a3458c11a834a218f45a SHA512: cb2a00b70bd4f724fe49087108ba060d9fcddcab2afe5fbe834c18489c528c5cd901d8fd2c8ebbe25c107c5022a944d7369db69ca2dbeff0057005f2895f5211 Homepage: https://cran.r-project.org/package=lsnstat Description: CRAN Package 'lsnstat' ('La Societe Nouvelle' API Access) Tools facilitating access to the 'macro_data' service of the 'La Societe Nouvelle' API. 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H., Thyholt, K., Næs, T. (2004) "A Comparison of Methods for Analysing Regression Models with Both Spectral and Designed Variables" Journal of Chemometrics, 18(10), 451--464, . Package: r-cran-lsplsglm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1663 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-lsplsglm_1.0-1.ca2004.1_all.deb Size: 1628924 MD5sum: a3ed48ca7428271b319faadd0348a5cf SHA1: f7dbd492157bda39d3b09011cc3cd0287e5c111f SHA256: aa262b5d3616e28765ada890d21fb562cb6dd0805c76931aed8ccba5fb850363 SHA512: cf633d94abf8be50d0a2e8cbff97f7f38f0fc7a505ab4e5576587623d117726fdc0b5fcf9b3a79d54edc5e4c011e3e254369f8726dd9cb8032b72ac4296ced9a Homepage: https://cran.r-project.org/package=lsplsGlm Description: CRAN Package 'lsplsGlm' (Classification using LS-PLS for Logistic Regression) Fit logistic regression models using LS-PLS approaches to analyse both clinical and genomic data. (C. Bazzoli and S. Lambert-Lacroix. (2017) Classification using LS-PLS with logistic regression based on both clinical and gene expression variables ). 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Learning Statistics with R: A Tutorial for Psychology Students and Other Beginners, Version 0.6. 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Over the past decade, remote sensing has become a key tool for monitoring and predicting environmental variables by using satellite data. This package presents the main applications in remote sensing for land surface monitoring and land cover mapping (soil, vegetation, water...). Tomlinson, C.J., Chapman, L., Thornes, E., Baker, C (2011) . Package: r-cran-lss2 Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-quantreg Suggests: r-cran-survival Filename: pool/dists/focal/main/r-cran-lss2_1.1-1.ca2004.1_all.deb Size: 27648 MD5sum: 5706f700e88ef9411c207253fbc62c65 SHA1: dd8642fa17e009ecdab9e7bb35b5e0f723fdb33d SHA256: 68f56a78b28b0c949c25c76c365a5fdcaf01f7d69bd041b206b19ea0c0a65ba2 SHA512: a14756b8fee7a51de6ea24ab6a41c1c54fe3d4246428ac2dd24d5d62955ad45909c15c71e1d0258499bde35fa2301462400741844131d50b58fadd74943586dc Homepage: https://cran.r-project.org/package=lss2 Description: CRAN Package 'lss2' (The Accelerated Failure Time Model to Right Censored Data Basedon Least-Squares Principle) Due to lack of proper inference procedure and software, the ordinary linear regression model is seldom used in practice for the analysis of right censored data. This paper presents an S-Plus/R program that implements a recently developed inference procedure (Jin, Lin and Ying, 2006) for the accelerated failure time model based on the least-squares principle. Package: r-cran-lst Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-terra Filename: pool/dists/focal/main/r-cran-lst_2.0.0-1.ca2004.1_all.deb Size: 45868 MD5sum: c3b340f803f495f34007d81853d98cba SHA1: 9a56a618c2d78ea375e96b303268891804d56b39 SHA256: f45062fac23ea42d2c959d3f91f43adbdf5e0e85a60da085d21511c55f37a949 SHA512: 7e16ac178f0363d7e69756e5fda2dc49e705cdb939963bf593a1fb2cabfdac274231d69ddf16f1ea2db4c2e9137c46a1ca9a29ac8bba24cecd90d6c0d729e6a4 Homepage: https://cran.r-project.org/package=LST Description: CRAN Package 'LST' (Land Surface Temperature Retrieval for Landsat 8) Calculates Land Surface Temperature from Landsat band 10 and 11. Revision of the Single-Channel Algorithm for Land Surface Temperature Retrieval From Landsat Thermal-Infrared Data. Jimenez-Munoz JC, Cristobal J, Sobrino JA, et al (2009). . Land surface temperature retrieval from LANDSAT TM 5. Sobrino JA, Jiménez-Muñoz JC, Paolini L (2004). . Surface temperature estimation in Singhbhum Shear Zone of India using Landsat-7 ETM+ thermal infrared data. Srivastava PK, Majumdar TJ, Bhattacharya AK (2009). . Mapping land surface emissivity from NDVI: Application to European, African, and South American areas. Valor E (1996). . On the relationship between thermal emissivity and the normalized difference vegetation index for natural surfaces. Van de Griend AA, Owe M (1993). . Land Surface Temperature Retrieval from Landsat 8 TIRS—Comparison between Radiative Transfer Equation-Based Method, Split Window Algorithm and Single Channel Method. Yu X, Guo X, Wu Z (2014). . Calibration and Validation of land surface temperature for Landsat8-TIRS sensor. Land product validation and evolution. Skoković D, Sobrino JA, Jimenez-Munoz JC, Soria G, Julien Y, Mattar C, Cristóbal J. (2014). 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Kaplan (2014) is a textbook for a first or second course in statistics that embraces data wrangling, causal reasoning, modeling, statistical adjustment, and simulation. 'LSTbook' supports the student-centered, tidy, pipeline-oriented computing style featured in the book. 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Package: r-cran-lsvar Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-mvtnorm, r-cran-pracma Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-lsvar_1.2-1.ca2004.1_all.deb Size: 52488 MD5sum: 2eb9ada4ecfcd789eb3d928cdf4b6f92 SHA1: f90c70f803cfca3766f4c6c8adda6ac1c82632ae SHA256: daf8b509f9174709d1af9a47da35aafb1f0300a5f9538f0b9415332ae340f67f SHA512: 0ea5300851f82a07aa331424dd4f5f3e95b44a5aac8fced1a94d115c422c92fad0cb5e1c407e2c7830842736abfbbc2925a6aec25700db366edc227cf3951eb6 Homepage: https://cran.r-project.org/package=LSVAR Description: CRAN Package 'LSVAR' (Estimation of Low Rank Plus Sparse Structured VectorAuto-Regressive (VAR) Model) Implementations of estimation algorithm of low rank plus sparse structured VAR model by using Fast Iterative Shrinkage-Thresholding Algorithm (FISTA). It relates to the algorithm in Sumanta, Li, and Michailidis (2019) . Package: r-cran-lswplib Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-waveslim, r-cran-wavethresh Filename: pool/dists/focal/main/r-cran-lswplib_0.1.0-1.ca2004.1_all.deb Size: 71252 MD5sum: ff92d2d3f16142fc0c5bfd1cbef92757 SHA1: 518b27677d2f70319baef693d7ea3109f3fdd9c0 SHA256: 1fef3c94e6558b8ca4322b9231f3aaf063e6bd281ae62bb56372da5ef156bf00 SHA512: ce05e25c35567532c9011216bb47e5d32f5cd838cabbad6bcf74c4bb85c1acac62a0ce14a20020ca4f737d78a63042a58e44f75c529ff0f889c873dfee151ce4 Homepage: https://cran.r-project.org/package=LSWPlib Description: CRAN Package 'LSWPlib' (Simulation and Spectral Estimation of Locally Stationary WaveletPacket Processes) Library of functions for the statistical analysis and simulation of Locally Stationary Wavelet Packet (LSWP) processes. The methods implemented by this library are described in Cardinali and Nason (2017) . 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LSS allows users to analyze large and complex corpora on arbitrary dimensions with seed words exploiting efficiency of word embeddings (SVD, Glove). It can generate word vectors on a users-provided corpus or incorporate a pre-trained word vectors. 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Features Gibbs sampling based log-linear (NB2) and power analyses (original by Oleksandr Ocheredko ) for tabulated data. Package: r-cran-ltar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-vars, r-cran-rtensor, r-cran-rtensor2, r-cran-gsignal Filename: pool/dists/focal/main/r-cran-ltar_0.1.0-1.ca2004.1_all.deb Size: 120476 MD5sum: c54ed3c456549392e33614f393486011 SHA1: 5775c6dd13f5ead55e7684dc0248cc81cc6fa560 SHA256: 652a9e4182054664092d5c75ab136663455369a66d13ff79445cf3814281b61b SHA512: 6f74d2957f727b1af97adeaa03cccd4d0e8f48663ce2b721fec74f4cac9f7ed057ebc50ae4048b534a5d5445494283c8819d9e1c082e0b3076f613cdc8bf0d1b Homepage: https://cran.r-project.org/package=LTAR Description: CRAN Package 'LTAR' (Tensor Forecasting Functions) A set of tools for forecasting the next step in a multidimensional setting using tensors. In the examples, a forecast is made of sea surface temperatures of a geographic grid (i.e. lat/long). Each observation is a matrix, the entries in the matrix and the sea surface temperature at a particular lattitude/longitude. Cates, J., Hoover, R. C., Caudle, K., Kopp, R., & Ozdemir, C. (2021) "Transform-Based Tensor Auto Regression for Multilinear Time Series Forecasting" in 2021 20th IEEE International Conference on Machine Learning and Applications (ICMLA) (pp. 461-466), IEEE . 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This approach can be used to assess changes in attribute mastery status and to evaluate the covariate effects on both the initial states and transition probabilities over time using latent logistic regression. Because stepwise approaches often yield biased estimates, correction for classification error probabilities (CEPs) is considered in this approach. The three-step approach for latent transition CDM with covariates involves the following steps: (1) fitting a CDM to the response data without covariates at each time point separately, (2) assigning examinees to latent states at each time point and computing the associated CEPs, and (3) estimating the latent transition CDM with the known CEPs and computing the regression coefficients. The method was proposed in Liang et al. (2023) and demonstrated using mental health data in Liang et al. (in press; annotated R code and data utilized in this example are available in Mendeley data) . 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Package: r-cran-lvnet Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 191 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-openmx, r-cran-glasso, r-cran-qgraph, r-cran-matrix, r-cran-psych, r-cran-mvtnorm, r-cran-corpcor, r-cran-dplyr, r-cran-lavaan, r-cran-semplot Filename: pool/dists/focal/main/r-cran-lvnet_0.3.5-1.ca2004.1_all.deb Size: 150872 MD5sum: 86455dbfc3b41f5bb76f0895dc7575d6 SHA1: bb1b16a8305746cf0dafd906d441c941be577821 SHA256: 488cfd27c470996c14db94730c03922d4dabc26403e40bf3526bf04eb4d266ed SHA512: 0a8f31996c0fa5d659b7642d73b3ddd848cd1fc1e3d2f78e5e0168bcb294cccb978cfc25c6af1c2e1278bab6046b1bb7c25fff3cfbd2d8ea3a80186e328c082b Homepage: https://cran.r-project.org/package=lvnet Description: CRAN Package 'lvnet' (Latent Variable Network Modeling) Estimate, fit and compare Structural Equation Models (SEM) and network models (Gaussian Graphical Models; GGM) using OpenMx. 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Package: r-cran-lzerospikeinference Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-lzerospikeinference_1.0.3-1.ca2004.1_all.deb Size: 62728 MD5sum: df1e2c415eeeea148e830a85770fbdc1 SHA1: d03a6304fcc14671b1fa48b4e3084bd2c94a6080 SHA256: 3b19a36851e81da0ebd7b46f4eab2401ae15fa113a6c9ca89ee720555135b240 SHA512: 00666d4567c1d751874a8833a06f6972d675f36a7f1db19f6e075b2aaeffb247e4eb5673012e481d3458066caddb93addf287c757622689b054435bf18f3402b Homepage: https://cran.r-project.org/package=LZeroSpikeInference Description: CRAN Package 'LZeroSpikeInference' (Exact Spike Train Inference via L0 Optimization) An implementation of algorithms described in Jewell and Witten (2017) . Package: r-cran-m2b Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 562 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-geosphere, r-cran-catools, r-cran-ggplot2, r-cran-randomforest, r-cran-caret Suggests: r-cran-adehabitatlt, r-cran-movehmm, r-cran-knitr, r-cran-diagrammer, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-m2b_1.1.0-1.ca2004.1_all.deb Size: 383116 MD5sum: 3c50bb8c7c540832d536b49a8dacec96 SHA1: 7e65f4e53423427606c2f19de8caa0f1eb027279 SHA256: 84f0b0bf46f0ea305194288a67f2de7804885970d24898801eae3bfe6a45b5aa SHA512: af5ef1c766d941575025607abc8325e9d933813752387ef048ed74f9818f7f93e5c73c917deb8dec02990d690b4a35e61ff7eda261b4e7156c8b5733e7ad7302 Homepage: https://cran.r-project.org/package=m2b Description: CRAN Package 'm2b' (Movement to Behaviour Inference using Random Forest) Prediction of behaviour from movement characteristics using observation and random forest for the analyses of movement data in ecology. From movement information (speed, bearing...) the model predicts the observed behaviour (movement, foraging...) using random forest. The model can then extrapolate behavioural information to movement data without direct observation of behaviours. The specificity of this method relies on the derivation of multiple predictor variables from the movement data over a range of temporal windows. This procedure allows to capture as much information as possible on the changes and variations of movement and ensures the use of the random forest algorithm to its best capacity. The method is very generic, applicable to any set of data providing movement data together with observation of behaviour. Package: r-cran-m2smf Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-m2smf_2.0-1.ca2004.1_all.deb Size: 58904 MD5sum: e8cd982883f18505870290445d8b200b SHA1: d30c88b4823f7a65e97a181e472bd611e4394fd0 SHA256: dbcdc5d7b97b643296011d6704569d9533a8b7f7ddb996965ed9a48c08d7440c SHA512: 6719224b7b712a5270895a0e54e57a4667251ddb2d8dece5e6ff8e8297bf95b90ae48df44afab695257ad93c6fc0cea5bd413ae18e8877fb722c483edcc874d0 Homepage: https://cran.r-project.org/package=M2SMF Description: CRAN Package 'M2SMF' (Multi-Modal Similarity Matrix Factorization for IntegrativeMulti-Omics Data Analysis) A new method to implement clustering from multiple modality data of certain samples, the function M2SMF() jointly factorizes multiple similarity matrices into a shared sub-matrix and several modality private sub-matrices, which is further used for clustering. Along with this method, we also provide function to calculate the similarity matrix and function to evaluate the best cluster number from the original data. 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Along with this method, we also provide function to calculate the similarity matrix and function to evaluate the best cluster number from the original data. Package: r-cran-m3 Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2243 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ncdf4, r-cran-sf, r-cran-maps, r-cran-mapdata Filename: pool/dists/focal/main/r-cran-m3_0.4-1.ca2004.1_all.deb Size: 1961788 MD5sum: 9efdb56c827ae9b504e3c31c2c8a7187 SHA1: aca098f9dae8b1d5a37aec782811586dfd11eaf0 SHA256: 49517449ff51fc7b19a6cbdcf512d9fa84d2140094b5620937d0fc6465efb5bd SHA512: b8aadd7caae5f0898fc855db86a743ef08a921515a6d16e1cf426fec3a7465dc3dc8f0808e7c1ca35666c5228c1cc275f8de70627947a355e2e4b352a7d61698 Homepage: https://cran.r-project.org/package=M3 Description: CRAN Package 'M3' (Reading M3 Files) Provides functions to read in and manipulate air quality model output from Models3-formatted files. 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Then the samples are classified by clustering the shared sub-matrix with kmeanspp(), a new version of kmeans() developed here to obtain concordant results. The package also provides the cluster number estimation by rotation cost. Moreover, cluster specific features could be retrieved using hypergeometric tests. 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The data itself is set of time series of different product sales in 'Walmart'. The package also includes a ready-to-use built-in M5 subset named 'tiny_m5'. For detailed information about the challenges, see: Makridakis, S. & Spiliotis, E. & Assimakopoulos, V. (2020). . 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Package: r-cran-maaper Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 254 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-genomicranges, r-bioc-genomicalignments, r-bioc-genomicfeatures, r-bioc-genomeinfodb, r-bioc-rsamtools, r-bioc-iranges, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-maaper_1.1.1-1.ca2004.1_all.deb Size: 208312 MD5sum: b86dd01898e9d6e7202f18c4b2cf4695 SHA1: f1ddf4dcaea66478a42eda9b7347f5e42bfb8b53 SHA256: 9f6bf326781564696fa7e5b982bf84a93adce9aedb1a6d2385b0b2a56cfe0de3 SHA512: b3d57bb2f5111f66c1a497aba22762835300df68eaa388aad42032df31a5b1233e84542e81277ea2ef6f5ca37acfc867f9f487dd8fdb45a3be82b4f4111815ad Homepage: https://cran.r-project.org/package=MAAPER Description: CRAN Package 'MAAPER' (Analysis of Alternative Polyadenylation Using 3' End-LinkedReads) A computational method developed for model-based analysis of alternative polyadenylation (APA) using 3' end-linked reads. 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Package: r-cran-maat Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3377 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-testdesign, r-cran-readxl, r-cran-mass, r-cran-diagram Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-knitr, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-maat_1.1.0-1.ca2004.1_all.deb Size: 1648456 MD5sum: 0f93e9347e4d6d8b054638fff28927fa SHA1: 6849a44b9164ac05f12aa86269d5760a78c59c86 SHA256: 17cbaf66ba73f84bad8c376a3970a352c6306ca3d842b843108f8affbba9a8aa SHA512: f2cc21fa257a3761df2bc18c4f36baf6c648c5e9f4250e8e8c2060481281cacf9e4ed7798d64d0f3ee4ae7dc807455bf8405020a237e361416c18dada156964d Homepage: https://cran.r-project.org/package=maat Description: CRAN Package 'maat' (Multiple Administrations Adaptive Testing) Provides an extension of the shadow-test approach to computerized adaptive testing (CAT) implemented in the 'TestDesign' package for the assessment framework involving multiple tests administered periodically throughout the year. This framework is referred to as the Multiple Administrations Adaptive Testing (MAAT) and supports multiple item pools vertically scaled and multiple phases (stages) of CAT within each test. Between phases and tests, transitioning from one item pool (and associated constraints) to another is allowed as deemed necessary to enhance the quality of measurement. Package: r-cran-mabacr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mabacr_0.1.0-1.ca2004.1_all.deb Size: 24556 MD5sum: ef09e0cd91ea77a2a6aeb9952925b3ec SHA1: c63766bd78ee287dfa6da140af532fad207ab156 SHA256: db0bc29e65461f7b7149d44b89d398299f49bf5839f3188cd4bf29c1306e8d25 SHA512: 63a60ddf2642474b223b8a91fba7fefb852621ecd3c36dc34330791921718433ac3544dca26fa089b639a30b4ce784f9ee940aa7dba44725e414c6c8d3e974ad Homepage: https://cran.r-project.org/package=mabacR Description: CRAN Package 'mabacR' (Assisting Decision Makers) Easy implementation of the MABAC multi-criteria decision method, that was introduced by Pamučar and Ćirović in the work entitled: "The selection of transport and handling resources in logistics centers using Multi-Attributive Border Approximation area Comparison (MABAC)" - - which aimed to choose implements for logistics centers. This package receives data, preferably in a spreadsheet, reads it and applies the mathematical algorithms inherent to the MABAC method to generate a ranking with the optimal solution according to the established criteria, weights and type of criteria. The data will be normalized, weighted by the weights, the border area will be determined, the distances to this border area will be calculated and finally a ranking with the optimal option will be generated. Package: r-cran-maboost Architecture: all Version: 1.0-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rpart, r-cran-c50 Filename: pool/dists/focal/main/r-cran-maboost_1.0-0-1.ca2004.1_all.deb Size: 90232 MD5sum: e6e7c207c4a1dae0fff4169ac1410dcb SHA1: 249bd2e4334030845f1aa66d4446455b9478fd1f SHA256: aca2e896675aba2bb8e408affbe053a32e5f98c8dfd051842e253b736f01e4c6 SHA512: 411b8251ef6c173bb447894d3af51b59fb68df4a6825bdae3bb89b82106b05f4f5bb8b6739c8878797cd3859d0efb636c934350671f5b67a3a5a1db0731ed355 Homepage: https://cran.r-project.org/package=maboost Description: CRAN Package 'maboost' (Binary and Multiclass Boosting Algorithms) Performs binary and multiclass boosting in maximum-margin, sparse, smooth and normal settings as described in "A Boosting Framework on Grounds of Online Learning" by T. Naghibi and B. Pfister, (2014). For further information regarding the algorithms, please refer to http://arxiv.org/abs/1409.7202 Package: r-cran-macbehaviour Architecture: all Version: 1.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openxlsx, r-cran-httr, r-cran-dplyr, r-cran-rjson Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-macbehaviour_1.2.8-1.ca2004.1_all.deb Size: 80644 MD5sum: 89ed4c67b442493fb79962ed276c0dac SHA1: 9cd191b82b692c1ddb92c15366973c84981fa7ff SHA256: 1d25a41e2a73770177f44eb39eec1d9371d6595619f86cfc3fdba50e7db875ed SHA512: d9a5d33426e429d14d928619315ded7df4934eb845fcb1c5cc0d37ffafdfc53dd5da8f9f9aece2f603a852c0ed102398cee93b70ce0da873c8f3c757d4ba4ae8 Homepage: https://cran.r-project.org/package=MacBehaviour Description: CRAN Package 'MacBehaviour' (Behavioural Studies of Large Language Models) Efficient way to design and conduct psychological experiments for testing the performance of large language models. 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Package: r-cran-macc Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 600 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4, r-cran-nlme, r-cran-optimx, r-cran-mass, r-cran-car Filename: pool/dists/focal/main/r-cran-macc_1.0.1-1.ca2004.1_all.deb Size: 583128 MD5sum: aac06976663d4fe2584c51c69a9a90fc SHA1: 93bfdaf23652bf2950b06990fbad27456b123450 SHA256: cc1f37941c6f2cdf60341e5d7d48a887e4b04114d691e672d8aaf4db66da2532 SHA512: 8711bc5a08ef7bd9740e908ab0c5c37fec94a84f477373ff858088ce1c049fe42c16ca9ee744cbd4644663f39cb97a5c096220ae993f20eb71ec674b104b23c7 Homepage: https://cran.r-project.org/package=macc Description: CRAN Package 'macc' (Mediation Analysis of Causality under Confounding) Performs causal mediation analysis under confounding or correlated errors. This package includes a single level mediation model, a two-level mediation model, and a three-level mediation model for data with hierarchical structures. Under the two/three-level mediation model, the correlation parameter is identifiable and is estimated based on a hierarchical-likelihood, a marginal-likelihood or a two-stage method. See Zhao, Y., & Luo, X. (2014), Estimating Mediation Effects under Correlated Errors with an Application to fMRI, for details. Package: r-cran-macer Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rentrez, r-cran-ape, r-cran-httr, r-cran-ggplot2, r-cran-pbapply, r-cran-png Filename: pool/dists/focal/main/r-cran-macer_0.2.1-1.ca2004.1_all.deb Size: 94968 MD5sum: fb78d5d11be49ded066c42c10a13ac7a SHA1: f15290410dec1bf2405b5ac45ed755a4578b00ad SHA256: 2f9f774c5d1b730252ba10a1919b11e6f4c07a5d6398b3926cfa964da9c2e2b7 SHA512: 0a0789ac1d37ba7ef941609ffd6f166ae71a419c755639a8086bcbafb3dfd7912c1d151f69a31f36a21fe0523418d831e302816109e629b1064933f16c2c27ee Homepage: https://cran.r-project.org/package=MACER Description: CRAN Package 'MACER' (Molecular Acquisition, Cleaning, and Evaluation in R 'MACER') To assist biological researchers in assembling taxonomically and marker focused molecular sequence data sets. 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The Ada and Archibald MacLeish Field Station is a 260-acre patchwork of forest and farmland located in West Whately, MA that provides opportunities for faculty and students to pursue environmental research, outdoor education, and low-impact recreation (see for more information). This package contains weather data over several years, and spatial data on various man-made and natural structures. Package: r-cran-maclinical Architecture: all Version: 1.0-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-party, r-cran-plsgenomics, r-cran-st, r-cran-e1071 Filename: pool/dists/focal/main/r-cran-maclinical_1.0-5-1.ca2004.1_all.deb Size: 94076 MD5sum: 0d504ab815b1f78c0ac594ead826ebe7 SHA1: 30b7d8b768bee7427c2b82b9527002466986e81f SHA256: aec57b3529d655beb77549123e91e09384f79c350ea16c799001c0e3acd211cc SHA512: 2b475a5ec385d8daf2fb4b21ea38cb5846aa4a750126b3208a4c184e20e1e9ab9513aee58afc3eda17b8e1c3853e00820dc902a2c3875127203c7f73de7793bf Homepage: https://cran.r-project.org/package=MAclinical Description: CRAN Package 'MAclinical' (Class prediction based on microarray data and clinicalparameters) 'Maclinical' implements class prediction using both microarray data and clinical parameters. It addresses the question of the additional predictive value of microarray data. 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Package: r-cran-maclogp Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bma, r-cran-plot.matrix, r-cran-rlist Filename: pool/dists/focal/main/r-cran-maclogp_0.1.1-1.ca2004.1_all.deb Size: 81116 MD5sum: 448ad20e2f27aaea4d103c6d0d153ae5 SHA1: cf7f2c061084dcaa9151e65363e12e91e7611fa5 SHA256: e87c2d83813845653e3578dabf36febda1ad9f40b3265f8f0a0a7af87037fab3 SHA512: 136c24ae8c69a48f132ccdf8c96429cbf7b89921d5a52f39360abd52535b78eba1a175c85953bb998a8b8dbb9a887c8b0c1902d6a5bcc392f99bd443557e3f5a Homepage: https://cran.r-project.org/package=maclogp Description: CRAN Package 'maclogp' (Measures of Uncertainty for Model Selection) Following the common types of measures of uncertainty for parameter estimation, two measures of uncertainty were proposed for model selection, see Liu, Li and Jiang (2020) . The first measure is a kind of model confidence set that relates to the variation of model selection, called Mac. The second measure focuses on error of model selection, called LogP. They are all computed via bootstrapping. This package provides functions to compute these two measures. Furthermore, a similar model confidence set adapted from Bayesian Model Averaging can also be computed using this package. Package: r-cran-macp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2159 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-zoo, r-cran-dplyr, r-cran-lsa, r-cran-wgcna, r-cran-tidyr, r-cran-tibble, r-cran-hmisc, r-cran-igraph, r-cran-prroc, r-cran-proc, r-cran-ggplot2, r-cran-fmsb, r-cran-stringr, r-cran-caret Suggests: r-cran-knitr, r-cran-ptw, r-cran-e1071, r-cran-kernlab, r-cran-ranger, r-cran-proxy, r-cran-infotheo, r-cran-gridextra, r-cran-philentropy, r-cran-randomforest, r-cran-gprofiler2, r-cran-purrr, r-bioc-minet, r-cran-entropy, r-cran-mcl, r-bioc-orthogene, r-cran-protti, r-cran-arules, r-cran-rmarkdown, r-bioc-biocstyle Filename: pool/dists/focal/main/r-cran-macp_0.1.0-1.ca2004.1_all.deb Size: 1039176 MD5sum: d5bbf2c7af5999eb0e89e2245b4daa80 SHA1: 51f84b4b7158e5fa8a8fd0277652361f39cbabbb SHA256: 77c62326f7fd3113638da25cce054bb3a47743643a1214eb31f9b98c9e4ff6fc SHA512: 36fd38458d088630e8430de87562147b96e37a7e536197bf7964f571b8de9673d1eba139bb8b2d6a3ead122522f4673bb8e83c8750f388449822835bc06f51fb Homepage: https://cran.r-project.org/package=MACP Description: CRAN Package 'MACP' (Macromolecular Assemblies from Co-Elution Profile (MACP)) The MACP employs machine learning algorithm for automated scoring of co-fractionation mass spectrometry (CF-MS) and then systematically map multi-protein complexes from these high-confidence protein-protein interactions (PPIs) using unsupervised learning (i.e., clustering). Package: r-cran-macrobiome Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1276 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-devtools, r-cran-palinsol, r-cran-raster, r-cran-rnaturalearthdata, r-cran-sf, r-cran-strex, r-cran-terra Filename: pool/dists/focal/main/r-cran-macrobiome_0.4.0-1.ca2004.1_all.deb Size: 1267620 MD5sum: 08dd73ad93bc1192d1fbd527834a9b18 SHA1: e8b40fbbc94e4c93ef27145c852a219dc9ac787c SHA256: 78e8f452b834aebe20c3d9743604c2e58b50232b5068af50cea81a1eeea0c70b SHA512: 7ae2768335ed7f1e39a99d32b9c17e94858806820c8c94f67bff88706db4e05920d531e699768cc20d11b4290b7e2201166a2b4a364b5ec359c6db65057b5473 Homepage: https://cran.r-project.org/package=macroBiome Description: CRAN Package 'macroBiome' (A Tool for Mapping the Distribution of the Biomes and Bioclimate) Procedures for simulating biomes by equilibrium vegetation models, with a special focus on paleoenvironmental applications. Three widely used equilibrium biome models are currently implemented in the package: the Holdridge Life Zone (HLZ) system (Holdridge 1947, ), the Köppen-Geiger classification (KGC) system (Köppen 1936, ) and the BIOME model (Prentice et al. 1992, ). Three climatic forest-steppe models are also implemented. An approach for estimating monthly time series of relative sunshine duration from temperature and precipitation data (Yin 1999, ) is also adapted, allowing process-based biome models to be combined with high-resolution paleoclimate simulation datasets (e.g., CHELSA-TraCE21k v1.0 dataset: ). Package: r-cran-macrocol Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-openxlsx, r-cran-httr, r-cran-lubridate, r-cran-readxl, r-cran-r.utils Filename: pool/dists/focal/main/r-cran-macrocol_0.1.0-1.ca2004.1_all.deb Size: 39240 MD5sum: 67ba916b903c5032af862fde32f38e77 SHA1: 8d9237aa2fb56157a9b660aab6708b618f784d30 SHA256: 7d7b9bb647033f3fa0904c422b949b3c1899fdc52f097e59be2966bf11c701cc SHA512: 5cf14aad3aabe9c78d74a0d053e114e3f3aee699e83e33a147a97a1b4baa1d0c0eec6f5d9f294df36e78e42caf39e2460974d76dae6b27a02fea0c3b1761b52a Homepage: https://cran.r-project.org/package=macrocol Description: CRAN Package 'macrocol' (Colombian Macro-Financial Time Series Generator) This repository aims to contribute to the econometric models' production with Colombian data, by providing a set of web-scrapping functions of some of the main macro-financial indicators. All the sources are public and free, but the advantage of these functions is that they directly download and harmonize the information in R's environment. No need to import or download additional files. You only need an internet connection! Package: r-cran-macrosyntr Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3540 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-igraph, r-cran-tidyr, r-cran-reshape2, r-cran-dplyr, r-cran-stringr, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-macrosyntr_0.3.3-1.ca2004.1_all.deb Size: 2337452 MD5sum: 9a27825727ae7b2046498771bbc7193b SHA1: 9d1325a3bbd4a45c98fc27181204e135571f2672 SHA256: 7ebe9cd0aeead87674828174257bd89d12b3fd0784c87e9ce127ab970a59e3b6 SHA512: aba5f4003186b5e137b7d4b5e0aa73fc8fdd8520578dcc6f0625480fef06220869ce74575faeec279adf9f65f9725b9260652c5e9e968640d66779c7a794665e Homepage: https://cran.r-project.org/package=macrosyntR Description: CRAN Package 'macrosyntR' (Draw Ordered Oxford Grids and Chord Diagrams) Use standard genomics file format (BED) and a table of orthologs to illustrate synteny conservation at the genome-wide scale. Significantly conserved linkage groups are identified as described in Simakov et al. (2020) and displayed on an Oxford Grid (Edwards (1991) ) or a chord diagram as in Simakov et al. (2022) . The package provides a function that uses a network-based greedy algorithm to find communities (Clauset et al. (2004) ) and so automatically order the chromosomes on the plot to improve interpretability. 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F., Trigg, D. J. and Walley, W. J. (2014). Arslan, N., Salur, A., Kalyoncu, H. et al.(2016) . Hilsenhoff W.L. (1987). Hilsenhoff. W.L. (1988) Barbour, M.T., Gerritsen, J., Snyder, B.D., and Stribling, J.B. (1999). Package: r-cran-maczic Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-pscl, r-cran-sandwich, r-cran-survival, r-cran-mediation, r-cran-emplik, r-cran-bb, r-cran-mathjaxr Suggests: r-cran-suppdists Filename: pool/dists/focal/main/r-cran-maczic_1.0.0-1.ca2004.1_all.deb Size: 234100 MD5sum: 5131e7917b72cdc368d73d77b6a1d45b SHA1: b45a20872da8d4a1217ee4a8d0266229ebd03d16 SHA256: 113ca6add6af6c538eb65a23a739a09dad8dda05043eda16fd4315168853566e SHA512: 4cc5094e4b6e9395cb3494f688686ecdce316ed180641b0888e495d53a775487e9efd83f24e8fa0ad549e9d49244242c27da5e534a79ec43cf634bca0a8b700c Homepage: https://cran.r-project.org/package=maczic Description: CRAN Package 'maczic' (Mediation Analysis for Count and Zero-Inflated Count Data) Performs causal mediation analysis for count and zero-inflated count data without or with a post-treatment confounder; calculates power to detect prespecified causal mediation effects, direct effects, and total effects; performs sensitivity analysis when there is a treatment- induced mediator-outcome confounder as described by Cheng, J., Cheng, N.F., Guo, Z., Gregorich, S., Ismail, A.I., Gansky, S.A. (2018) . Implements Instrumental Variable (IV) method to estimate the controlled (natural) direct and mediation effects, and compute the bootstrap Confidence Intervals as described by Guo, Z., Small, D.S., Gansky, S.A., Cheng, J. (2018) . This software was made possible by Grant R03DE028410 from the National Institute of Dental and Craniofacial Research, a component of the National Institutes of Health. 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'madshapR' provides functions primarily to evaluate and manipulate datasets and data dictionaries in preparation for data harmonization with the package 'Rmonize' and to facilitate integration and transfer between RStudio servers and secure Opal environments. 'madshapR' functions can be used independently but are optimized in conjunction with ‘Rmonize’ functions for streamlined and coherent harmonization processing. Package: r-cran-madsim Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 264 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-madsim_1.2.1-1.ca2004.1_all.deb Size: 238548 MD5sum: 4817e1c74d5cfd2f8fa3b3c921834f79 SHA1: 434aad2fc66cb3437173d302bf1c1e1a1fbb1e9e SHA256: 6c58bbbc4365ea080db9cdb2141d83bf4aaba2de2f18cfe67aeb6d621d9f16bb SHA512: 853f7ca172d0fe4959de45f94fdcf0a0e0c5f3a34c8bfe6e2d2daa1fcfe2b75cff262584510d9c5e471c843f22ca6a027201a7500824754f9575ae7c2a04bc93 Homepage: https://cran.r-project.org/package=madsim Description: CRAN Package 'madsim' (A Flexible Microarray Data Simulation Model) This function allows to generate two biological conditions synthetic microarray dataset which has similar behavior to those currently observed with common platforms. User provides a subset of parameters. Available default parameters settings can be modified. Package: r-cran-maestro Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3004 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-lifecycle, r-cran-logger, r-cran-lubridate, r-cran-purrr, r-cran-r.utils, r-cran-r6, r-cran-rlang, r-cran-roxygen2, r-cran-tictoc, r-cran-timechange Suggests: r-cran-asciicast, r-cran-diagrammer, r-cran-furrr, r-cran-future, r-cran-knitr, r-cran-quarto, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-maestro_0.6.0-1.ca2004.1_all.deb Size: 976540 MD5sum: df0910cc63d71ec77d785218b06be225 SHA1: e531907e74b2329a2a6b45a3375f3efc3ad61ab0 SHA256: 5a3c21936d37b41e61697ccc33c414a6e97ad17dda13d1bf3f8cb67a898ee58e SHA512: f7bed02c557802875c635325b629e3cd25084e2fcd419e914510d221aaa9fb1a61d69b6a85be83907a8bbf1a5596b7767744b85454f13cdf08e8c2187bff85fd Homepage: https://cran.r-project.org/package=maestro Description: CRAN Package 'maestro' (Orchestration of Data Pipelines) Framework for creating and orchestrating data pipelines. Organize, orchestrate, and monitor multiple pipelines in a single project. Use tags to decorate functions with scheduling parameters and configuration. Package: r-cran-maeswrap Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rgl, r-cran-lattice, r-cran-geometry, r-cran-stringr Filename: pool/dists/focal/main/r-cran-maeswrap_1.7-1.ca2004.1_all.deb Size: 107940 MD5sum: 313b04709e0b5b41827188e37f9bc9f3 SHA1: 0420e8c8c4a866a7862a131abc9d165ac53e3274 SHA256: 9498ff80a61f5ec880a0f9552ebf27ca54b27a60399d2f3c64855fe1d68cbb84 SHA512: 006541bc04a840f4e6dfe193ada047b460d28afde3e4d0dc514060abe88bc07a2fb93e5d2349f55cebd4f60104a6447eb181b26829295419d6a64832eafbf205 Homepage: https://cran.r-project.org/package=Maeswrap Description: CRAN Package 'Maeswrap' (Wrapper Functions for MAESTRA/MAESPA) A bundle of functions for modifying MAESTRA/MAESPA input files,reading output files, and visualizing the stand in 3D. Handy for running sensitivity analyses, scenario analyses, etc. Package: r-cran-mafdash Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7260 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rmarkdown, r-cran-knitr, r-bioc-tcgabiolinks, r-bioc-maftools, r-cran-dt, r-cran-htmltools, r-cran-flexdashboard, r-cran-bsplus, r-cran-crosstalk, r-cran-plotly, r-cran-canvasxpress, r-cran-dplyr, r-bioc-complexheatmap, r-cran-circlize, r-cran-ggbeeswarm, r-cran-ensurer, r-cran-data.table, r-bioc-genomicranges, r-bioc-iranges, r-cran-pheatmap, r-cran-tibble, r-cran-readr Suggests: r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-mafdash_0.2.1-1.ca2004.1_all.deb Size: 2503360 MD5sum: 86a0861222d5dd5eeb8d08ce4b45963e SHA1: 28b5435f2669086e9eb4952d7d5435fe855be41e SHA256: dd0d04017254d8f638d4262fba62ea316de381f92c8a941e08f7a2fa943b87c1 SHA512: 1fc3d53b96a0cece024988f3b90d21476c613158db6539b889b7677ca060233d79b91ee0c05a1c44dc8d57d614c64dfc56a3f5b4952ff357f99940f22f64aa37 Homepage: https://cran.r-project.org/package=MAFDash Description: CRAN Package 'MAFDash' (Create an HTML Dashboard to Visualize Data from MAF File) Mutation Annotation Format (MAF) is a tabular data format used for storing genetic mutation data. For example, The Cancer Genome Atlas (TCGA) project has made MAF files from each project publicly available. This package contains a set of tools to easily create an HTML dashboard to summarize and visualize data from MAF file. The resulting HTML file serves as a self-contained report that can be used to explore the result. Package: r-cran-mafr Architecture: all Version: 1.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate Filename: pool/dists/focal/main/r-cran-mafr_1.1.6-1.ca2004.1_all.deb Size: 24672 MD5sum: 3f9ba4a8336d9da698b1e6429d106e8e SHA1: a25f19010dd0e61eaca8ecabf2e55beba182b8cf SHA256: c4cd4927166b29d3fa4d6926f475ee634ce494e4d5973b90df6940bd54f7b97e SHA512: 060c17d44fb075ded96cb887f2574183a97f4ef7b0ce7077a7ef57c7358817678863a0c3679f318370e921cb864f10ca056d1788691ac60aab781fb71e3af92e Homepage: https://cran.r-project.org/package=mafR Description: CRAN Package 'mafR' (Interface for Masked Autoregressive Flows) Interfaces the Python library 'zuko' implementing Masked Autoregressive Flows. See Rozet, Divo and Schnake (2023) and Papamakarios, Pavlakou and Murray (2017) . Package: r-cran-magclass Architecture: all Version: 6.13.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1654 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-abind, r-cran-data.table Suggests: r-cran-covr, r-cran-knitr, r-cran-ncdf4, r-cran-pkgconfig, r-cran-raster, r-cran-rmarkdown, r-cran-terra, r-cran-testthat, r-cran-tibble, r-cran-withr Filename: pool/dists/focal/main/r-cran-magclass_6.13.2-1.ca2004.1_all.deb Size: 830328 MD5sum: e02c6ef2fc135d556ae1889e43c667db SHA1: 4b5a59bcd8aaa8a9ae5d9586215406c0adbb6d97 SHA256: 6afc9593403f5722b631e40a960c39ca0cff38cf599aa674231d351225eaeef5 SHA512: 7126954c37d3857d5085959f0156fb5f556c4e66ede9991d0fa07f25ad7fb06f062435fb49974ecfc2eb2bd84a4c08e07db89dc98ce541785d17ae1709fc1bf1 Homepage: https://cran.r-project.org/package=magclass Description: CRAN Package 'magclass' (Data Class and Tools for Handling Spatial-Temporal Data) Data class for increased interoperability working with spatial-temporal data together with corresponding functions and methods (conversions, basic calculations and basic data manipulation). The class distinguishes between spatial, temporal and other dimensions to facilitate the development and interoperability of tools build for it. Additional features are name-based addressing of data and internal consistency checks (e.g. checking for the right data order in calculations). Package: r-cran-magic Architecture: all Version: 1.6-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 468 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-abind Filename: pool/dists/focal/main/r-cran-magic_1.6-1-1.ca2004.1_all.deb Size: 390376 MD5sum: 84e05046553b3b7a425d2735d0944d30 SHA1: 9fe56d1a5029516bb07ff4e86717ade3916450c8 SHA256: 510bfd101ec43562bc5e5a0c9f06b6a1ccda4ea47bd4b8112975d00c6d9403c0 SHA512: ce4e1555e37ca885496c0cd3f0756cd7b2173f800290257e9afe994d4ea67339e354ba295439bf5aaf2587a1dc44fbc6a280d158964eafc54e64f3f33e8d7e9c Homepage: https://cran.r-project.org/package=magic Description: CRAN Package 'magic' (Create and Investigate Magic Squares) A collection of functions for the manipulation and analysis of arbitrarily dimensioned arrays. The original motivation for the package was the development of efficient, vectorized algorithms for the creation and investigation of magic squares and high-dimensional magic hypercubes. Package: r-cran-magicaxis Architecture: all Version: 2.4.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4044 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-celestial, r-cran-mass, r-cran-plotrix, r-cran-sm, r-cran-mapproj, r-cran-rann Suggests: r-cran-imager, r-cran-fst Filename: pool/dists/focal/main/r-cran-magicaxis_2.4.5-1.ca2004.1_all.deb Size: 3640052 MD5sum: fce5e3cc1bafab1ab83cee4b7e925c44 SHA1: d2c0d1f4ac7bf6c842c590ac488a42af1dfad608 SHA256: 71aca00ebf1ec52cb757e2ba5d32d81698d28d7b8a9d803d0253fb4ce58bd965 SHA512: d20f98ceee6af6f4fa38fa7cb4d567b677bf2fbca11a30d0d55949d4bb98fc1eb3db02e3cad9fb88fe478d8dd16b4400124d6733bf936803f955e363b25beae2 Homepage: https://cran.r-project.org/package=magicaxis Description: CRAN Package 'magicaxis' (Pretty Scientific Plotting with Minor-Tick and Log Minor-TickSupport) Functions to make useful (and pretty) plots for scientific plotting. Additional plotting features are added for base plotting, with particular emphasis on making attractive log axis plots. Package: r-cran-magicfor Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-magicfor_0.1.0-1.ca2004.1_all.deb Size: 35460 MD5sum: 5a744928024fb0704b8c808fc3931e77 SHA1: 039c2fa96dcd9e97851566aced1dbbe13f0c41e1 SHA256: 4999bfe722a714714758ce2608f83551981b01adce2e650f3fd899e59931b277 SHA512: 439669bc0b003353ab512f35b1780a743fe7097515af8448374664cfadabebb40f0158d66278b68cd3549ee53f71cd4ef6d5284dfafed58f700b1c65c20425df Homepage: https://cran.r-project.org/package=magicfor Description: CRAN Package 'magicfor' (Magic Functions to Obtain Results from for Loops) Magic functions to obtain results from for loops. Package: r-cran-magickgui Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 178 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magick Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-magickgui_1.3.1-1.ca2004.1_all.deb Size: 149268 MD5sum: fa16a9a9ff4121c5a2176ae92a2c2daf SHA1: 592ef4474dd8c57db414e3c26c3f7d59818620c4 SHA256: fda3f255d050439f01734f822c2d5159c9f4858f747758476bb41916caa1bef2 SHA512: 6804ac9c8629574e2ae3c48f899d42204b067d688a55570fe7f1c7262b8c7c9fb4ac05480fe02a51db7dbad5ac6a414802760dd66a0f1bfe4ad1bd0ab412fcfb Homepage: https://cran.r-project.org/package=magickGUI Description: CRAN Package 'magickGUI' (GUI Tools for Interactive Image Processing with 'magick') Enables us to use the functions of the package 'magick' interactively. Package: r-cran-magiclamp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-magiclamp_0.1.0-1.ca2004.1_all.deb Size: 19720 MD5sum: f82101b0a5c7c76752c0a1ee4007fd1b SHA1: 55eb4d4c8aa2cb14327bd1eb5ba6e411e23095e4 SHA256: 17526c3b3beb85e717aedd3d290ecdeb9eff4bb6c1b798e9daa952709bd81886 SHA512: 005a3f17110b0269d5de9bfb6f32fc899221cd5199b7c344bc02806dc7a71885fac875377065c642b5185a7ac1189bc611900919fd0405d3a3c5376975d59e8b Homepage: https://cran.r-project.org/package=magicLamp Description: CRAN Package 'magicLamp' ('WeMo Switch' Smart Plug Utilities) Set of utility functions to interact with 'WeMo Switch', a smart plug that can be remotely controlled via wifi. The provided functions make it possible to turn one or more 'WeMo Switch' plugs on and off in a scriptable fashion. More information about 'WeMo Switch' can be found at . Package: r-cran-magma.r Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 928 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tidyverse, r-cran-doparallel, r-cran-foreach, r-cran-metafor, r-cran-robumeta, r-cran-psych, r-cran-ggplot2, r-cran-janitor, r-cran-overlapping, r-cran-purrr, r-cran-tibble, r-cran-dplyr, r-cran-tidyselect, r-cran-rlang, r-cran-stddiff Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-magma.r_1.0.4-1.ca2004.1_all.deb Size: 377028 MD5sum: 008f0520ea5c6c9439df87b083d28670 SHA1: a439778fd1a3daafdba23513866f7db704576e65 SHA256: ef2892ef382f4796e5fdbd17366370add32644318930f5c748a4a5d774d0acd3 SHA512: a79b18a50ff6c0bb1ee57d2263cc63eee97573a45a75f3485c022c86a8a89e3c699f55425bc754529e697326e939ecbae4f7f29153bc575cef64f64926b5f600 Homepage: https://cran.r-project.org/package=MAGMA.R Description: CRAN Package 'MAGMA.R' (MAny-Group MAtching) Balancing quasi-experimental field research for effects of covariates is fundamental for drawing causal inference. Propensity Score Matching deals with this issue but current techniques are restricted to binary treatment variables. Moreover, they provide several solutions without providing a comprehensive framework on choosing the best model. The MAGMA R-package addresses these restrictions by offering nearest neighbor matching for two to four groups. It also includes the option to match data of a 2x2 design. In addition, MAGMA includes a framework for evaluating the post-matching balance. The package includes functions for the matching process and matching reporting. We provide a tutorial on MAGMA as vignette. More information on MAGMA can be found in Feuchter, M. D., Urban, J., Scherrer V., Breit, M. L., and Preckel F. (2022) . Package: r-cran-magmar Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2145 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-crul, r-cran-jsonlite Suggests: r-bioc-dittoseq, r-bioc-biocstyle, r-cran-vcr, r-cran-webmockr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-magmar_1.0.4-1.ca2004.1_all.deb Size: 408932 MD5sum: 4b18b8477c664766907c498a9c9d5b59 SHA1: 98c7b806c1d4164d99d96246eff3697fbd0458ad SHA256: a574a566ec61bbb4f2c6c3c2a6ecf923522092f9531a6ea5d9bd585f02fa6d9a SHA512: 22ea3e10bc0afc41e5ec5e51aa6fe95b8238c0f8af12b3e3baac484782bb8c0665a51c6c8c4e4da22a6a130ef919a3bfefaf275f47b7b2a130b0d1e7d5ef3da0 Homepage: https://cran.r-project.org/package=magmaR Description: CRAN Package 'magmaR' (R-Client for Interacting with the 'UCSF Data Library') A client for interacting with 'magma', the data warehouse of the 'UCSF Data Library'. 'magmaR' includes functions for querying and downloading data from 'magma', in order to enable working with such data in R, as well as for uploading local data to 'magma'. Package: r-cran-magnamwar Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3154 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-coxme, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-iterators, r-cran-lme4, r-cran-multcomp, r-cran-plyr, r-cran-qqman, r-cran-survival, r-cran-seqinr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-magnamwar_2.0.4-1.ca2004.1_all.deb Size: 1304616 MD5sum: bc8a00078e8e9f4bc05af568a7c23d10 SHA1: c09527557914203db585c095fdcb74b677721ee0 SHA256: 8996de219dfb33117c6246cd4543546f35faa15a35a68cda2f34bbe2134db234 SHA512: 64cd317567384d8fd2411311452179dcc43d3b6b5c86c963cd6b5c24603872bfb06109f670526f07cde255c1c374572879e892e9e2d47136cacf97b28058206d Homepage: https://cran.r-project.org/package=MAGNAMWAR Description: CRAN Package 'MAGNAMWAR' (A Pipeline for Meta-Genome Wide Association) Correlates variation within the meta-genome to target species phenotype variations in meta-genome with association studies. Follows the pipeline described in Chaston, J.M. et al. (2014) . 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It can perform miscellaneous tasks such as gene set enrichment and test analyses, identifying gene symbols and building co-expression network. It can also estimate sample size for atleast two-fold expression change. The current version is its slenderized form for compatable and flexible implementation. Package: r-cran-maic Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc, r-cran-matrixstats, r-cran-weights Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-maic_0.1.4-1.ca2004.1_all.deb Size: 54324 MD5sum: 38dd3f10217d7b16a4528ed9bdb76f68 SHA1: 6385b85107c73a02fd5b93fdbd77f5cd8aec0e14 SHA256: ccf4ff1af78765128b44afefe045d0a41e7b85baeb52121fdb1d5e3941a4c403 SHA512: 563b5a1d2c50963efb5b96785cff12a8ef277a68016ceb5cb15986d8dcc0d0143e18914d27ae199b1e3c156cd9f17c50e34fcdb22cbef20fe9b867342d8b748a Homepage: https://cran.r-project.org/package=maic Description: CRAN Package 'maic' (Matching-Adjusted Indirect Comparison) A generalised workflow for generation of subject weights to be used in Matching-Adjusted Indirect Comparison (MAIC) per Signorovitch et al. (2012) , Signorovitch et al (2010) . In MAIC, unbiased comparison between outcomes of two trials is facilitated by weighting the subject-level outcomes of one trial with weights derived such that the weighted aggregate measures of the prognostic or effect modifying variables are equal to those of the sample in the comparator trial. The functions and classes included in this package wrap and abstract the process demonstrated in the UK National Institute for Health and Care Excellence Decision Support Unit (NICE DSU)'s example (Phillippo et al, (2016) [see URL]), providing a repeatable and easily specifiable workflow for producing multiple comparison variable sets against a variety of target studies, with preprocessing for a number of aggregate target forms (e.g. mean, median, domain limits). Package: r-cran-maicchecks Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-tidyr, r-cran-ggplot2, r-cran-lpsolve, r-cran-quadprog Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-maicchecks_0.2.0-1.ca2004.1_all.deb Size: 97668 MD5sum: 758dc7a99e61df8ee766bd77bae36105 SHA1: 4ad510ee4916da8c00a1531e96104118b7c4cc24 SHA256: 2b8ea3180f3b984533808cb23b85a3d21e7369188a310cb6073963df240b6096 SHA512: eaae2af260ef7f8f73d1484c3c2e46da226141165c2df2f20c9ed9b4502b27f8e9bed27e128737390c3eaa81aa7be0ecdf4a8a78b3e049714aecf3e060bdbf6d Homepage: https://cran.r-project.org/package=maicChecks Description: CRAN Package 'maicChecks' (Exact Matching and Matching-Adjusted Indirect Comparison (MAIC)) The second version (0.2.0) contains implementation for exact matching which is an alternative to propensity score matching (see Glimm & Yau (2025)). The initial version (0.1.2) contains a collection of easy-to-implement tools for checking whether a MAIC can be conducted, as well as an alternative way of calculating weights (see Glimm & Yau (2021) .) Package: r-cran-maicplus Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1927 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-lubridate, r-cran-matrixstats, r-cran-mass, r-cran-boot, r-cran-stringr, r-cran-lmtest, r-cran-sandwich Suggests: r-cran-knitr, r-cran-testthat, r-cran-ggplot2, r-cran-rmarkdown, r-cran-dplyr, r-cran-survminer, r-cran-flexsurv, r-cran-tibble, r-cran-vdiffr, r-cran-checkmate Filename: pool/dists/focal/main/r-cran-maicplus_0.1.2-1.ca2004.1_all.deb Size: 1432076 MD5sum: abce4d4bdb331b83dd0583ac3316961b SHA1: bde6b99db4b18d1b8e3f9dae6bcd5597cf39d673 SHA256: f8d58fb43ee8098b590d1ee65f7eab61c9b619916c62b9d163d4e46b4b986682 SHA512: b09f23a4d492be8184e0620c323869bc4c58a6f9d62e9f2e766372570dd7acac8fe6b8c67dd09e21b5f2b4ed80748caba16537cdeeee96757387844b2641b0ff Homepage: https://cran.r-project.org/package=maicplus Description: CRAN Package 'maicplus' (Matching Adjusted Indirect Comparison) Facilitates performing matching adjusted indirect comparison (MAIC) analysis where the endpoint of interest is either time-to-event (e.g. overall survival) or binary (e.g. objective tumor response). The method is described by Signorovitch et al (2012) . Package: r-cran-maictools Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 199 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-boot, r-cran-broom, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-survival, r-cran-survminer, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-vim Suggests: r-cran-haven, r-cran-testthat, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-maictools_0.1.1-1.ca2004.1_all.deb Size: 166380 MD5sum: 273c77fe50dde339d75d917c88acfa11 SHA1: 86c00be9aaeb4a0030bc94295381b2d09d4a8051 SHA256: 59098de4f3163fc51fdbf6235ecdbef6088f3c07f087597b8a652bdf35cd958f SHA512: f3c093fd591ed0b7d1365074045eb5e1cc0e8ba87f3243ee69c1fcb9954cd2315b48cb4ec198d571c08095b49249e0213e28390968cd9a4065c037e76aa38392 Homepage: https://cran.r-project.org/package=MAICtools Description: CRAN Package 'MAICtools' (Performing Matched-Adjusted Indirect Comparisons (MAIC)) A generalised workflow for Matching-Adjusted Indirect Comparison (MAIC) analysis, which supports both anchored and non-anchored MAIC methods. In MAIC, unbiased trial outcome comparison is achieved by weighting the subject-level outcomes of the intervention trial so that the weighted aggregate measures of prognostic or effect-modifying variables match those of the comparator trial. Measurements supported include time-to-event (e.g., overall survival) and binary (e.g., objective tumor response). The method is described in Signorovitch et al. (2010) and Signorovitch et al. (2012) . Package: r-cran-mail Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mail_1.0-1.ca2004.1_all.deb Size: 12208 MD5sum: 3f5e3e6a42afc8fb9e7ef4887c548acb SHA1: 54448fffb204067cca3693d12727ef6d9b99ac43 SHA256: e2b5910bef9a6c5ed468f715e01346ab7c4ca19cdaf2de56cad2b6f9b03023a2 SHA512: 2125a0b9f8c77e66ea600a1a6ee0b5c5a908dd9cff541680d02c80b482e0d416e20a31fb01879d7b328bd699c88c6e73275d925f035f39506d59d7039797720e Homepage: https://cran.r-project.org/package=mail Description: CRAN Package 'mail' (Sending Email Notifications from R) Easy to use package for sending email notifications with status information from R Package: r-cran-mailchimpr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-curl Filename: pool/dists/focal/main/r-cran-mailchimpr_0.1.0-1.ca2004.1_all.deb Size: 22244 MD5sum: 33a3b721730bdc2d526a9db83fa05f0d SHA1: 5671570d1a6a2a1b7a39f0df87d9956e030c6e39 SHA256: c1f17405254e1eb1bdc3f1e12f6809844eb434f2ddf6c6be3acf3bc2300627c8 SHA512: 409bb1079d038f1e7dcc904b672382ca55417c3ff51503fc628a2411f21787fd51280dce7366384e66136a61a4ce2b1c228d68622eb4120be0d50b6341392cae Homepage: https://cran.r-project.org/package=mailchimpR Description: CRAN Package 'mailchimpR' (Get Mailchimp Data via the 'Windsor.ai' API) Collect your data on digital marketing campaigns from Mailchimp using the 'Windsor.ai' API . 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With this package you can parse markdown documents as the body of email, and the 'yaml' header to specify the subject line of the email. Any '{}' braces in the email will be encoded with 'glue::glue()'. You can preview the email in the RStudio viewer pane, and send (draft) email using 'gmailr'. Package: r-cran-mailr Architecture: all Version: 0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 811 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjava, r-cran-stringr, r-cran-r.utils, r-cran-assertthat Filename: pool/dists/focal/main/r-cran-mailr_0.8-1.ca2004.1_all.deb Size: 747268 MD5sum: 94b28ab307e73f6e274e989cfa0d5c39 SHA1: 68cd56e8d0f1e9f8b7a592c386172ed02954c18f SHA256: 2d86dcba08bff1a8daf4f915158fd40d5158968fbd326593fd08389d1628347b SHA512: f877bc68f99445492e5c4650907e505ab8f73ab840bfaae7443b1bcd67d02a86ad1b30fb62d977d388527e15f628ee5ad7e86993d920116d649fa7c5931ceba3 Homepage: https://cran.r-project.org/package=mailR Description: CRAN Package 'mailR' (A Utility to Send Emails from R) Interface to Apache Commons Email to send emails from R. Package: r-cran-mailtor Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-glue Filename: pool/dists/focal/main/r-cran-mailtor_0.1.0-1.ca2004.1_all.deb Size: 12560 MD5sum: 8c437d95fc1fce772fe42980e55a2997 SHA1: 4e90445ca7ef7d79969eae8252f2f89dd2384957 SHA256: a8f295fb42fecf7b365d3751a04d2b9897f3edad33b2513f4afe4b484a548e04 SHA512: 10a00933235c6f0522ac133c21e74d8aacba9fde3e0299c17da4dd7608f1f1c188e066839eaeb5d805eb37b8d9e5a019638cd1656e171812deda5d72351d25af Homepage: https://cran.r-project.org/package=mailtoR Description: CRAN Package 'mailtoR' (Creates a Friendly User Interface for Emails Sending in 'shiny') Allows the user to generate a friendly user interface for emails sending. The user can choose from the most popular free email services ('Gmail', 'Outlook', 'Yahoo') and his default email application. 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Package: r-cran-mainexistingdatasets Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-config, r-cran-dplyr, r-cran-dt, r-cran-glue, r-cran-golem, r-cran-htmltools, r-cran-htmlwidgets, r-cran-magrittr, r-cran-openxlsx, r-cran-pkgload, r-cran-processx, r-cran-rlang, r-cran-sf, r-cran-shiny, r-cran-spdata, r-cran-tidyr, r-cran-tmap, r-cran-tmaptools Suggests: r-bioc-bioccheck, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mainexistingdatasets_1.0.2-1.ca2004.1_all.deb Size: 51944 MD5sum: 41feed12e4409b46632ed1a9dcb78ae6 SHA1: 2303536742f8a57a83e0094091c74c5a30b408e2 SHA256: 0b6a49de2046a64431245adc72a157a56a5e3455c72cdd4014f2155fbc73eea0 SHA512: 24ad7b08162432bc1826e14e40dfce96d00502cf04d4c8987b56c34bf080492a776c47bb20d80712d27c87f51ff3e9f01bb67a8b06e43558496641acf042f0e3 Homepage: https://cran.r-project.org/package=MainExistingDatasets Description: CRAN Package 'MainExistingDatasets' (Main Existing Human Datasets) Shiny for Open Science to visualize, share, and inventory the main existing human datasets for researchers. Package: r-cran-majesticr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-urltools Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-majesticr_0.1.1-1.ca2004.1_all.deb Size: 17868 MD5sum: f69fc6c067b9b823bb782e3b35ad1563 SHA1: 8a90db5845c7364dabb74a735ca6537ed4828949 SHA256: e757da3ce3bc61db3d9d09a39b686372a44cb4ea39848bc9505129a188fa1328 SHA512: 799fa153c1b368238f8e6dfe57e83ebed37a076d6fbe81c8793abd718fcd88a777742abc7b61f5cf94a49194714b8d0bc61f3f1414b7d1e40e8fb79986feb100 Homepage: https://cran.r-project.org/package=majesticR Description: CRAN Package 'majesticR' (R Interface to Access the 'Majestic' API) Implements methods for querying backlink data from 'Majestic' using its API (). 'Majestic' API uses a basic authentication with an API key. This package is used in the "Do You Need Backlinks for SEO" tutorial . Package: r-cran-majkmeans Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-majkmeans_0.1.0-1.ca2004.1_all.deb Size: 28368 MD5sum: 2a8e2c62498f6356d1988795ce049086 SHA1: 87999553f3a60a7785857786575cccf8aa28190e SHA256: 5c7545c7a570781b7580af86d9e0f67ca01453a259cce09ef1f1181b236ccd34 SHA512: f9a10e74c463a52091499e97f989c39cb52c6d913d344b761303a55e7821038ee590e21e789a7ef4141bb5380dda9d21e4610febf290f98d147f204398cf22fa Homepage: https://cran.r-project.org/package=MajKMeans Description: CRAN Package 'MajKMeans' (k-Means Algorithm with a Majorization-Minimization Method) A hybrid of the K-means algorithm and a Majorization-Minimization method to introduce a robust clustering. The reference paper is: Julien Mairal, (2015) . The two most important functions in package 'MajKMeans' are cluster_km() and cluster_MajKm(). cluster_km() clusters data without Majorization-Minimization and cluster_MajKm() clusters data with Majorization-Minimization method. Both of these functions calculate the sum of squares (SS) of clustering. 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The two most important functions in package 'MajMinKmeans' are cluster_km() and cluster_MajKm(). Cluster_km() clusters data without Majorization-Minimization and cluster_MajKm() clusters data with Majorization-Minimization method. Both of these functions calculate the sum of squares (SS) of clustering. Another useful function is MajMinOptim(), which helps to find the optimum values of the Majorization-Minimization estimator. 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In short: run an R script if underlying files have changed, otherwise do nothing. Package: r-cran-makemyprior Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3885 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-matrix, r-cran-shiny, r-cran-shinyjs, r-cran-shinybs, r-cran-visnetwork, r-cran-rlang, r-cran-mass Suggests: r-cran-rstan, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-makemyprior_1.2.2-1.ca2004.1_all.deb Size: 1154692 MD5sum: 92a86fedb8abb3f59a8d7714fffa836c SHA1: 9a673f489d99be0d422a12831eb56f4877099fdc SHA256: 2e7369a16a017da75a6ec1760454662c80b9e66f613f2041ca5aaf2d916a741b SHA512: 914180b222cc062da47ea0e98c2dde6c4c77c54a7958dd09b21cfff5eeadcd88fd8924c6a599a9d11826e88b7b08545e20f500542f5d66a5290032445ae786c8 Homepage: https://cran.r-project.org/package=makemyprior Description: CRAN Package 'makemyprior' (Intuitive Construction of Joint Priors for Variance Parameters) Tool for easy prior construction and visualization. It helps to formulates joint prior distributions for variance parameters in latent Gaussian models. The resulting prior is robust and can be created in an intuitive way. A graphical user interface (GUI) can be used to choose the joint prior, where the user can click through the model and select priors. An extensive guide is available in the GUI. The package allows for direct inference with the specified model and prior. Using a hierarchical variance decomposition, we formulate a joint variance prior that takes the whole model structure into account. In this way, existing knowledge can intuitively be incorporated at the level it applies to. Alternatively, one can use independent variance priors for each model components in the latent Gaussian model. Details can be found in the accompanying scientific paper: Hem, Fuglstad, Riebler (2024, Journal of Statistical Software, ). 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Segments of the pipeline are specified in much the same way a 'Make' rule is, by declaring an executable recipe (which might be an R script), along with the corresponding targets and dependencies. When the entire pipeline is run through, only those recipes that need to be executed will be. Meanwhile, execution metadata is captured behind the scenes for later inspection. Package: r-cran-makeproject Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-makeproject_1.0-1.ca2004.1_all.deb Size: 14644 MD5sum: d2bb74aa907a3dff8519ea2ef4ea1e0f SHA1: 744f4e6c929008cc9109031af5b30019bb598086 SHA256: 8a0066761ff042afb9900378341f9c926bc04795a443e8cb6d4f616e16ee0d9b SHA512: 654099f55d8a663a70fc90b452bfff709e229a7c33231c12cb8796a80b4393b51b8697607f39a6b5b81e5ec5fa825e8fc57f62c5279e00d73e37bb6bf66103b1 Homepage: https://cran.r-project.org/package=makeProject Description: CRAN Package 'makeProject' (Creates an empty package framework for the LCFD format) This package creates an empty framework of files and directories for the "Load, Clean, Func, Do" structure described by Josh Reich. Package: r-cran-maketools Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 723 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sys Suggests: r-cran-curl, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-maketools_1.3.2-1.ca2004.1_all.deb Size: 250804 MD5sum: d132fcb453c3ceab7b91d3bd4ce31883 SHA1: f54b3af45278a2d379ccd8d7a29628aec4a49f3e SHA256: 7f4c353a26a56bc8c61e0b9dfc3d465ed94ab439bb031185a2472f0e85147317 SHA512: 38de3271b8708ba4776140a3c97352732e1dfa2e460ac99c9ae7bddc203de5a28afdfc2124e2a7dc461b8b39243fbf566bdacc6da58be3caba60b1e62355f552 Homepage: https://cran.r-project.org/package=maketools Description: CRAN Package 'maketools' (Exploring and Testing the Toolchain and System Libraries) Helper functions that interface with the system utilities to learn about the local build environment. Lets you explore 'make' rules to test the local configuration, or query 'pkg-config' to find compiler flags and libs needed for building packages with external dependencies. Also contains tools to analyze which libraries that a installed R package linked to by inspecting output from 'ldd' in combination with information from your distribution package manager, e.g. 'rpm' or 'dpkg'. 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Package: r-cran-makl Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-auc, r-cran-grplasso Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-makl_1.0.1-1.ca2004.1_all.deb Size: 30424 MD5sum: 7aff2b9d2427759351222af7ca5c5a05 SHA1: 7b91f88cb0efe44daccefeef997e380c9a74c641 SHA256: 79fd8ea3440fa7a3ddb5c416514cd500252d1216d6ba0b0ece37e55ff6d5371b SHA512: e0291e51e7ef019fd3bb2c69b546ee2dd85eb4d0f1385be2815f635d121a1ca31a7b415f4eac5d6b06243914b3b358bbb913f931c6307d343030384f45ff6f1d Homepage: https://cran.r-project.org/package=MAKL Description: CRAN Package 'MAKL' (Multiple Approximate Kernel Learning (MAKL)) R package associated with the Multiple Approximate Kernel Learning (MAKL) algorithm proposed in . The algorithm fits multiple approximate kernel learning (MAKL) models that are fast, scalable and interpretable. Package: r-cran-malani Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-e1071 Filename: pool/dists/focal/main/r-cran-malani_1.0-1.ca2004.1_all.deb Size: 38916 MD5sum: 829c0be9c33be5592cd8e3269cfd51de SHA1: f633007a3bc5a0e986a2ccfefe6c24e6e45239dc SHA256: 3dbd13ff517f285a23204e4f271c5214caf4ecdbc6a96ef9b18fd79613aefdbf SHA512: e18e457e38612f38f924d6d6b3f0c3747de93352812f5362c2a5d903d472f8b5cf71de2518a21996eb58aea7df52cb72ad6c50994f1c0519de7876e83b416dcf Homepage: https://cran.r-project.org/package=malani Description: CRAN Package 'malani' (Machine Learning Assisted Network Inference) Find dark genes. These genes are often disregarded due to no detected mutation or differential expression, but are important in coordinating the functionality in cancer networks. Package: r-cran-malariaatlas Architecture: all Version: 1.6.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2363 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-xml2, r-cran-gridextra, r-cran-httr, r-cran-dplyr, r-cran-tidyr, r-cran-rlang, r-cran-sf, r-cran-lifecycle, r-cran-terra, r-cran-tidyterra, r-cran-ows4r, r-cran-future.apply, r-cran-lubridate, r-cran-jsonlite, r-cran-stringr, r-cran-ggnewscale Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-palettetown, r-cran-magrittr, r-cran-tibble, r-cran-rdhs Filename: pool/dists/focal/main/r-cran-malariaatlas_1.6.4-1.ca2004.1_all.deb Size: 1797068 MD5sum: 63e9403b6919993b356dc30851d518df SHA1: e1d6354c352ce54bebfecc58011376194e9a51ee SHA256: a5ce0989f0704e2d45a4ddaf1dc4f97cb7bef10d31d6a49487a59dcd66b72f0f SHA512: b5ff6f52b1acf6cc8bfb253509ff04ca239e4b8f844f2d18a7745451c0927c134c938121ad5d4bb58a3d83239ea89a40242f50a7fc5a16069676f3581b0a5848 Homepage: https://cran.r-project.org/package=malariaAtlas Description: CRAN Package 'malariaAtlas' (An R Interface to Open-Access Malaria Data, Hosted by the'Malaria Atlas Project') A suite of tools to allow you to download all publicly available parasite rate survey points, mosquito occurrence points and raster surfaces from the 'Malaria Atlas Project' servers as well as utility functions for plotting the downloaded data. Package: r-cran-malaytextr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-rlang, r-cran-stringr Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-malaytextr_0.1.3-1.ca2004.1_all.deb Size: 78656 MD5sum: d4260675bceb3f8ccacfa5959f97c279 SHA1: 16a3e5c441985eed55710a774a6336955c94cb66 SHA256: ea8270c6edbea409d3fe3be8982a55f888eca965b78b4236eedd31a4b153fce5 SHA512: 9e3dc104e80ac2b002b32829272027349f2fb30ed875e35913bd82216d8f6baceb099a83e401fa32a9542585eba8dcdd224f33db6883aa96cc2ae2a63b88836d Homepage: https://cran.r-project.org/package=malaytextr Description: CRAN Package 'malaytextr' (Text Mining for Bahasa Malaysia) It is designed to work with text written in Bahasa Malaysia. We provide functions and data sets that will make working with Bahasa Malaysia text much easier. For word stemming in particular, we will look up the Malay words in a dictionary and then proceed to remove "extra suffix" as explained in Khan, Rehman Ullah, Fitri Suraya Mohamad, Muh Inam UlHaq, Shahren Ahmad Zadi Adruce, Philip Nuli Anding, Sajjad Nawaz Khan, and Abdulrazak Yahya Saleh Al-Hababi (2017) . This package includes a dictionary of Malay words that may be used to perform word stemming, a dataset of Malay stop words, a dataset of sentiment words and a dataset of normalized words. Package: r-cran-maldicellassay Architecture: all Version: 0.4.47-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4942 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-nplr, r-cran-dplyr, r-cran-tidyr, r-cran-forcats, r-cran-scales, r-cran-maldiquant, r-cran-maldiquantforeign, r-cran-tibble, r-cran-svmisc, r-cran-purrr Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-maldicellassay_0.4.47-1.ca2004.1_all.deb Size: 4510988 MD5sum: 7c9a092bf8ee5099ec989e72c5010d31 SHA1: b4da26cdd321b9196f4289e04b86f138234b4a19 SHA256: 554cbe2b6f42dd2753c9dabd9f5ecdde3cd3358eb25e512671d18f2df2c6df8b SHA512: 0e9c123f793a65024c1a482a5000a425473ad9ad84aef59e8bee281e13f9bb4876634eec7a358595dfc940093f6c5401de9f890ce9f6905611a7deeacaf94fe5 Homepage: https://cran.r-project.org/package=MALDIcellassay Description: CRAN Package 'MALDIcellassay' (Automated MALDI Cell Assays Using Dose-Response Curve Fitting) Conduct automated cell-based assays using Matrix-Assisted Laser Desorption/Ionization (MALDI) methods for high-throughput screening of signals responsive to treatments. The package efficiently identifies high variance signals and fits dose-response curves to them. Quality metrics such as Z', V', log2FC, and CRS are provided for evaluating the potential of signals as biomarkers. The methodologies were introduced by Weigt et al. (2018) and refined by Unger et al. (2021) . Package: r-cran-maldipickr Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2818 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-lifecycle, r-cran-magrittr, r-cran-maldiquant, r-cran-readbrukerflexdata, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-coop, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-maldipickr_1.3.1-1.ca2004.1_all.deb Size: 1598776 MD5sum: 1277ab8a728e753fbf3bd4fbeeeee983 SHA1: 837b38f1000a67713a9413811870374407a6345a SHA256: dba23ada03d1b42ebd1d36cfc2ddab75c4f37ea354f78c96adccc0f9363c7ff1 SHA512: cc18a7e94e6d1823e95cefd93d5a1ac60fb736d77119a4b39025632daaa2d7c42df941cfdb365760243b0f91d353203c48616a025fce0ed5c56666b368c63852 Homepage: https://cran.r-project.org/package=maldipickr Description: CRAN Package 'maldipickr' (Dereplicate and Cherry-Pick Mass Spectrometry Spectra) Convenient wrapper functions for the analysis of matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF) spectra data in order to select only representative spectra (also called cherry-pick). The package covers the preprocessing and dereplication steps (based on Strejcek, Smrhova, Junkova and Uhlik (2018) ) needed to cluster MALDI-TOF spectra before the final cherry-picking step. It enables the easy exclusion of spectra and/or clusters to accommodate complex cherry-picking strategies. Alternatively, cherry-picking using taxonomic identification MALDI-TOF data is made easy with functions to import inconsistently formatted reports. 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(2018) ). Package: r-cran-mall Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-fs, r-cran-glue, r-cran-jsonlite, r-cran-ollamar, r-cran-rlang Suggests: r-cran-dbplyr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mall_0.1.0-1.ca2004.1_all.deb Size: 119004 MD5sum: 866cbf379b34c87e92e53fa420514d91 SHA1: 150c71f7656119fb8632c10c6ba06e39c7ed9b3c SHA256: e24a84e8b264cde7f35a9a003573e31fb7d147708a50554401cea574a64e21b2 SHA512: 70863f3fd4b4441e2d6478603ddf7d5b4266e8e7c19b34bfaa37bacc7147f18a21ae10af535f6550e9f9a89b61a6f1f5b9610944d86758ecdf418502ec388977 Homepage: https://cran.r-project.org/package=mall Description: CRAN Package 'mall' (Run Multiple Large Language Model Predictions Against a Table,or Vectors) Run multiple 'Large Language Model' predictions against a table. The predictions run row-wise over a specified column. It works using a one-shot prompt, along with the current row's content. The prompt that is used will depend of the type of analysis needed. Package: r-cran-mallet Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4385 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rjava, r-cran-checkmate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mallet_1.3.0-1.ca2004.1_all.deb Size: 3959072 MD5sum: dbf301c14515576acac04df3ad47c8df SHA1: 74e87d864e21ce690e89a7e7a7f9ca1bdc459154 SHA256: 6ab8f23559d52895bf265fa179f510b7fc83d554188fe2a9203d6ebffec87339 SHA512: fd585673d48b2ff0cbe54e21a92d0954185713e9fdfb50a2c931a3eb68ce82b1a9bcea89c43169e1d2ef37c3fd7f09c8fc37735a70c7c1298e1252edb486eb80 Homepage: https://cran.r-project.org/package=mallet Description: CRAN Package 'mallet' (An R Wrapper for the Java Mallet Topic Modeling Toolkit) An R interface for the Java Machine Learning for Language Toolkit (mallet) to estimate probabilistic topic models, such as Latent Dirichlet Allocation. We can use the R package to read textual data into mallet from R objects, run the Java implementation of mallet directly in R, and extract results as R objects. The Mallet toolkit has many functions, this wrapper focuses on the topic modeling sub-package written by David Mimno. The package uses the rJava package to connect to a JVM. Package: r-cran-malvinas Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 311 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-malvinas_0.1.0-1.ca2004.1_all.deb Size: 280232 MD5sum: 81238f1a68a938f57d05564653e2b3ae SHA1: 4339796909dc13d113a1b9c22ab87ac7e162d63f SHA256: 7315f19bf08c39e864fcc36c71c522c7f4054831b01ffbfe076acf44e2b83bc5 SHA512: 1b15ddf20d6556c4e659ac7abf6ff823aa0a8ea47c668a569db5c41bf9f1c1fdb095cd305d63500fec4505e68e63e5e1f89a54ce0d0a813497d99ed76f564065 Homepage: https://cran.r-project.org/package=malvinas Description: CRAN Package 'malvinas' (Islas Malvinas, Georgias Del Sur y Sándwich Del Sur) Data sets related to the Islas Malvinas /// Sets de datos relacionados a las Islas Malvinas - La Nación Argentina ratifica su legítima e imprescriptible soberanía sobre las islas Malvinas, Georgias del Sur y Sándwich del Sur y los espacios marítimos e insulares correspondientes, por ser parte integrante del territorio nacional. La recuperación de dichos territorios y el ejercicio pleno de la soberanía, respetando el modo de vida de sus habitantes y conforme a los principios del Derecho Internacional, constituyen un objetivo permanente e irrenunciable del pueblo argentino. Package: r-cran-managedcloudprovider Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 462 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dockerparallel, r-cran-adagio, r-cran-jsonlite Suggests: r-cran-markdown, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-readr Filename: pool/dists/focal/main/r-cran-managedcloudprovider_1.0.0-1.ca2004.1_all.deb Size: 311516 MD5sum: 8c5ae260cb79142738d0c2a9addd5ca4 SHA1: cabae09eef90b0cd2f1501958a5b4ef48b95fc42 SHA256: 636f69f90c01230a71533b0d998eaeaea32342bea5bf18dcf29c7c9a75549b96 SHA512: 69f3b9730e34a4f1577bb730b454ff4a2653706cce0b7169ad90cdf923ce21631116b5e53583cd3eb5cf1bc35180f004de01ff1c324454307e6eecc617f5b64d Homepage: https://cran.r-project.org/package=ManagedCloudProvider Description: CRAN Package 'ManagedCloudProvider' (Providing the Kubernetes-Like Functions for the Non-KubernetesCloud Service) Providing the kubernetes-like class 'ManagedCloudProvider' as a child class of the 'CloudProvider' class in the 'DockerParallel' package. The class is able to manage the cloud instance made by the non-kubernetes cloud service. For creating a provider for the non-kubernetes cloud service, the developer needs to define a reference class inherited from 'ManagedCloudProvider' and define the method for the generics runDockerWorkerContainers(), getDockerWorkerStatus() and killDockerWorkerContainers(). For more information, please see the vignette in this package and . Package: r-cran-managelocalrepo Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-assertthat Filename: pool/dists/focal/main/r-cran-managelocalrepo_0.1.5-1.ca2004.1_all.deb Size: 23948 MD5sum: 105c576386a2191586cc7cab44add33b SHA1: 0a461c0ef03747849feeb8d4c99eaa78afb3b0b0 SHA256: 0d01cc7dc44f905d3f491d55ed75103b7e964215837ade553b0e4328959c2476 SHA512: 061dcdd9b54716d4fd5b6b278df6330309c2b3f09f1cb10ebeb45f6ebadd428236379c50c9df8ee0726a65a9cc05a23f807f4a2cb3a2abe7ab92d68831565729 Homepage: https://cran.r-project.org/package=managelocalrepo Description: CRAN Package 'managelocalrepo' (Manage a CRAN-Style Local Repository) This will allow easier management of a CRAN-style repository on local networks (i.e. not on CRAN). This might be necessary where hosted packages contain intellectual property owned by a corporation. Package: r-cran-mancie Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 592 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mancie_1.4-1.ca2004.1_all.deb Size: 572540 MD5sum: 47363d273e72b0c7e87420cb5fecdc5d SHA1: 0a29071c3878abde5df1bd4eae6edce06491c33e SHA256: 532bafb803ab17499832b09670a097e459dc8e25bd8444223627e93767bde174 SHA512: 46ed488ebea4ef5e79cb2a0e6b41d54fa070aefb90be930de0c878eee88bc159f8bb77dd11fe05f02f3d38a60d630c5bb782e36d3ca49e71c7e7f1f1050d13bf Homepage: https://cran.r-project.org/package=MANCIE Description: CRAN Package 'MANCIE' (Matrix Analysis and Normalization by Concordant InformationEnhancement) High-dimensional data integration is a critical but difficult problem in genomics research because of potential biases from high-throughput experiments. We present MANCIE, a computational method for integrating two genomic data sets with homogenous dimensions from different sources based on a PCA procedure as an approximation to a Bayesian approach. Package: r-cran-mand Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7420 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-msma, r-cran-oro.nifti, r-cran-oro.dicom, r-cran-imager, r-cran-caret Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mand_2.0-1.ca2004.1_all.deb Size: 978188 MD5sum: 104454cefca573f5d67df408435f3a0f SHA1: 3f956d20059ae58a1498e02efa8f29e13e72de95 SHA256: 1a0c245dc559f37976f2ebc7394d4fe6a8321ae1199be8f236cb6482b0bdacf5 SHA512: 972627ec8d3b108842482372a0d1b94f77b1af0e807e654bff7e28be3159cd001809fbc3260a843670bb4343c4a31defa92766c6d75ba94a0260f78b56c1b1f5 Homepage: https://cran.r-project.org/package=mand Description: CRAN Package 'mand' (Multivariate Analysis for Neuroimaging Data) Several functions can be used to analyze neuroimaging data using multivariate methods based on the 'msma' package. The functions used in the book entitled "Multivariate Analysis for Neuroimaging Data" (2021, ISBN-13: 978-0367255329) are contained. Package: r-cran-mandalar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-mandalar_0.1.0-1.ca2004.1_all.deb Size: 48728 MD5sum: bf8a2a74b17ff72530335d84ef0901c5 SHA1: c5b7ce010e3cced268054f852082c36701cf5325 SHA256: 6055f49e63810ed93d4cf3a81d2a9a22634075ea8550cbb036fd519e8432a1f9 SHA512: b4b8b9449c584a77099561009ed3d4024c627501cb714019942b519bd61bd485dee967b66c16cabfe696527431538e8d2fbf8f2a2f070d97c6a65caaded91691 Homepage: https://cran.r-project.org/package=MandalaR Description: CRAN Package 'MandalaR' (Building Mandalas from Parametric Equations of Classical Curves) Provides an algorithm for creating mandalas. From the perspective of classic mathematical curves and rigid movements on the plane, the package allows you to select curves and produce mandalas from the curve. The algorithm was developed based on the book by Alcoforado et. al. entitled "Art, Geometry and Mandalas with R" (2022) in press by the USP Open Books Portal. Package: r-cran-manet Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mcmcpack, r-cran-combinat, r-cran-igraph, r-cran-mclust Filename: pool/dists/focal/main/r-cran-manet_2.0-1.ca2004.1_all.deb Size: 49276 MD5sum: 1148f636edeb84d9eba3cc53588d37b4 SHA1: 9c75c27f2250adf64c2f501331291a8336a3c085 SHA256: 253735adb60201dff419a791f82c43ae432bd6e84069e1175879adda34364ec4 SHA512: ca4f9a7d75c048c8aa96ef80fe5483b753b728920d8af3893f29cf19c63935df98932ddbdcac07dc50659c0c48680ef25a09a6c691c42498e5ea0f04fb08f65c Homepage: https://cran.r-project.org/package=manet Description: CRAN Package 'manet' (Multiple Allocation Model for Actor-Event Networks) Mixture model with overlapping clusters for binary actor-event data. Parameters are estimated in a Bayesian framework. Model and inference are described in Ranciati, Vinciotti, Wit (2017) Modelling actor-event network data via a mixture model under overlapping clusters. Submitted. Package: r-cran-mangotraining Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1963 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mangotraining_1.1.1-1.ca2004.1_all.deb Size: 1880172 MD5sum: facd50539b477fc87649fd231e222033 SHA1: 1804121bc9ca98f3dd815726a6f37c75aeff3440 SHA256: 9fd69aa2ad450a07bbcb39a3eff5f99c8db46a30fc10b1338da217538f5ff8ce SHA512: 65726bd088bc37bc070b5b627cca7e6d8a928a2408cdef78b84a47c8e57daa94939035cecb0a585af6e2cfebc1d0128f23f4f82df2adbe0ba14ab31f9a531daf Homepage: https://cran.r-project.org/package=mangoTraining Description: CRAN Package 'mangoTraining' (Mango Solutions Training Datasets) Datasets to be used primarily in conjunction with Mango Solutions training materials but also for the book 'SAMS Teach Yourself R in 24 Hours' (ISBN: 978-0-672-33848-9). Version 1.0-7 is largely for use with the book; however, version 1.1 has a much greater focus on use with training materials, whilst retaining compatibility with the book. Package: r-cran-mangrove Architecture: all Version: 1.21-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 425 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-kinship2 Filename: pool/dists/focal/main/r-cran-mangrove_1.21-1.ca2004.1_all.deb Size: 344480 MD5sum: b8746703f04a0a0fe47f085b0dd8b499 SHA1: cfda492cd675b7f0a3eb9f7ca2f7733ddf201311 SHA256: 812dffe25fb3d1c4c8cd2af8055339ad949d887c4159c7abc71425dae50648e3 SHA512: 456fa7f852b82116886fe7009d5fa9dc372bf02165a99f2d5057861ba023f5602c0090a8e390e76402875fedd7f1d1396af952037a0ea416cc72a01cc26fbaf2 Homepage: https://cran.r-project.org/package=Mangrove Description: CRAN Package 'Mangrove' (Risk Prediction on Trees) Methods for performing genetic risk prediction from genotype data. You can use it to perform risk prediction for individuals, or for families with missing data. Package: r-cran-manhattanly Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 523 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-plotly, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-manhattanly_0.3.0-1.ca2004.1_all.deb Size: 438288 MD5sum: 41dae57e18835fb59faf5257c97231a3 SHA1: 31df694afd99a5238b3b08801455b5c3395f882f SHA256: df90b0e68977750ad6883152004c51a1319f19b0f1093d0a226734d276c7900d SHA512: 24d5d6b1da556cb76ae71f78e6fe9801ec2c8a1b132408b24c07370b5888eb89be75c4e897ff8c0b3b9cadcfe69e920300a14ed76e3ecbfc72b646f5bf8a575e Homepage: https://cran.r-project.org/package=manhattanly Description: CRAN Package 'manhattanly' (Interactive Q-Q and Manhattan Plots Using 'plotly.js') Create interactive manhattan, Q-Q and volcano plots that are usable from the R console, in 'Dash' apps, in the 'RStudio' viewer pane, in 'R Markdown' documents, and in 'Shiny' apps. Hover the mouse pointer over a point to show details or drag a rectangle to zoom. A manhattan plot is a popular graphical method for visualizing results from high-dimensional data analysis such as a (epi)genome wide association study (GWAS or EWAS), in which p-values, Z-scores, test statistics are plotted on a scatter plot against their genomic position. Manhattan plots are used for visualizing potential regions of interest in the genome that are associated with a phenotype. Interactive manhattan plots allow the inspection of specific value (e.g. rs number or gene name) by hovering the mouse over a cell, as well as zooming into a region of the genome (e.g. a chromosome) by dragging a rectangle around the relevant area. This work is based on the 'qqman' package and the 'plotly.js' engine. It produces similar manhattan and Q-Q plots as the 'manhattan' and 'qq' functions in the 'qqman' package, with the advantage of including extra annotation information and interactive web-based visualizations directly from R. Once uploaded to a 'plotly' account, 'plotly' graphs (and the data behind them) can be viewed and modified in a web browser. Package: r-cran-manhplot Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3517 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-ggplot2, r-cran-ggrepel, r-cran-gridextra Suggests: r-cran-r.utils, r-cran-testthat Filename: pool/dists/focal/main/r-cran-manhplot_1.1-1.ca2004.1_all.deb Size: 872004 MD5sum: 467468136a5e3a1b473af2f21e739988 SHA1: 0411e3b1dbf5150e351fbe31eb58dc058f0748c4 SHA256: e01a5c4813b7b4b717aac735edf18fc29b0998156184618321d91236ede763b5 SHA512: e1fdf988dd8771677a3e26cfd1c0afe71d30f1c92279f1be665bb8a6658e5ad065e395409f23371bdbe36d1b408899d691573e804690afdc8f6347ce8e640688 Homepage: https://cran.r-project.org/package=manhplot Description: CRAN Package 'manhplot' (The Manhattan++ Plot) This plot integrates annotation into a manhattan plot. The plot is implemented as a heatmap, which is binned using -log10(p-value) and chromosome position. Annotation currently supported is minor allele frequency and gene function high impact variants. Package: r-cran-manifestor Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 801 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlp, r-cran-tm, r-cran-magrittr, r-cran-httr, r-cran-jsonlite, r-cran-functional, r-cran-zoo, r-cran-psych, r-cran-base64enc, r-cran-htmlwidgets, r-cran-dt, r-cran-htmltools, r-cran-purrr, r-cran-readr, r-cran-dplyr, r-cran-tidyselect, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-r.rsp, r-cran-haven, r-cran-readxl, r-cran-devtools, r-cran-formatr, r-cran-highr Filename: pool/dists/focal/main/r-cran-manifestor_1.6.0-1.ca2004.1_all.deb Size: 446880 MD5sum: 8781329a71c01a484c8c04be04b06452 SHA1: 7c6bdf8daa802c2bb2fbe6e64d5b2c2125ef9ce0 SHA256: f0a895a0b1d8829f2fe60485c6734bdbdd7c0a181ab6d5192d3f402767098b64 SHA512: 18d9c5b7270b40809bb9f4a1ad80713d6c93a6a6661f2cb976bb215274a35f96394732840fe6512b3dfdf45dd1a6d1a544f1782ceedc8544749684a3a5b3c86e Homepage: https://cran.r-project.org/package=manifestoR Description: CRAN Package 'manifestoR' (Access and Process Data and Documents of the Manifesto Project) Provides access to coded election programmes from the Manifesto Corpus and to the Manifesto Project's Main Dataset and routines to analyse this data. The Manifesto Project collects and analyses election programmes across time and space to measure the political preferences of parties. The Manifesto Corpus contains the collected and annotated election programmes in the Corpus format of the package 'tm' to enable easy use of text processing and text mining functionality. Specific functions for scaling of coded political texts are included. Package: r-cran-manipulate Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-manipulate_1.0.1-1.ca2004.1_all.deb Size: 44028 MD5sum: 11a25bb937e80aadc98b676df33d6401 SHA1: 82ab85c55230b5c60e1130de0643f3cc73f17501 SHA256: 000e5912f2d705b313676e737ddb8299522c46272ca4005b308f4b209ae427f4 SHA512: accc7ca96497bf84bd0fb1642aeee444a46861a327a6e75e2d04900c23d9f100e0794377c38322301dfc4572f0d07fedda13da6058d86af0440420d6e7cc045d Homepage: https://cran.r-project.org/package=manipulate Description: CRAN Package 'manipulate' (Interactive Plots for RStudio) Interactive plotting functions for use within RStudio. The manipulate function accepts a plotting expression and a set of controls (e.g. slider, picker, checkbox, or button) which are used to dynamically change values within the expression. When a value is changed using its corresponding control the expression is automatically re-executed and the plot is redrawn. Package: r-cran-manipulatewidget Architecture: all Version: 0.11.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3944 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-miniui, r-cran-htmltools, r-cran-htmlwidgets, r-cran-knitr, r-cran-base64enc, r-cran-codetools, r-cran-webshot, r-cran-shinyjs Suggests: r-cran-dygraphs, r-cran-leaflet, r-cran-plotly, r-cran-xts, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-manipulatewidget_0.11.1-1.ca2004.1_all.deb Size: 2379572 MD5sum: b1f780ad5ba59a39acd1a4dbebcade85 SHA1: 7e8f435fa64cdebe5bd8567c3bccdc357798cd92 SHA256: 9a6cef30676284bcb814809809755af93f0fcac2b7fa689b2829e175b82acc4c SHA512: 57889f6c532fdbe6ac996db84703e42da959d98aa725586415ddfd7a58d85f6d0f8e8b027f6c5b81e1894f1940ebc26c42ddd0bc6b44c473a80878d755c7d0b5 Homepage: https://cran.r-project.org/package=manipulateWidget Description: CRAN Package 'manipulateWidget' (Add Even More Interactivity to Interactive Charts) Like package 'manipulate' does for static graphics, this package helps to easily add controls like sliders, pickers, checkboxes, etc. that can be used to modify the input data or the parameters of an interactive chart created with package 'htmlwidgets'. Package: r-cran-manorm2 Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5344 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-locfit, r-cran-scales, r-cran-statmod Suggests: r-cran-gplots, r-cran-desctools, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-manorm2_1.2.2-1.ca2004.1_all.deb Size: 4033964 MD5sum: e7baa74306510d2c4c88f19eef8cad8a SHA1: baed6fb5b9a828e3e86898bc0638919d304e3e6a SHA256: ee5a7eed9148f6bf7d528b695a99128519e116167f7d077295fdbc925d74793a SHA512: c80ed8fa5ba7d9d06499782f70442592a85460debe4cb05454038e8cd8ec8f19aba3b0b4905c912ec27ff9bf64452a98c81ec62b1f398e3a71b8e45bebab89de Homepage: https://cran.r-project.org/package=MAnorm2 Description: CRAN Package 'MAnorm2' (Tools for Normalizing and Comparing ChIP-seq Samples) Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) is the premier technology for profiling genome-wide localization of chromatin-binding proteins, including transcription factors and histones with various modifications. This package provides a robust method for normalizing ChIP-seq signals across individual samples or groups of samples. It also designs a self-contained system of statistical models for calling differential ChIP-seq signals between two or more biological conditions as well as for calling hypervariable ChIP-seq signals across samples. Refer to Tu et al. (2021) and Chen et al. (2022) for associated statistical details. Package: r-cran-manova.rm Architecture: all Version: 0.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1091 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-plyr, r-cran-mass, r-cran-matrix, r-cran-magic, r-cran-plotrix, r-cran-ellipse, r-cran-multcomp, r-cran-data.table Suggests: r-cran-nparld, r-cran-knitr, r-cran-rmarkdown, r-cran-hsaur3, r-cran-tidyr, r-cran-ggplot2, r-cran-gfd, r-cran-testthat Filename: pool/dists/focal/main/r-cran-manova.rm_0.5.4-1.ca2004.1_all.deb Size: 508328 MD5sum: 8d7784014886888aa3baf7bd36f383a0 SHA1: 192564d47b0b6367dc533238efe35706c8d0c828 SHA256: e10f188aeca90ff1dfe0421ea5811e9a7cd043b9011722afab665294fa8a5966 SHA512: a84310c8c4e5db5bf336e413998e205d296de61977471b83a98400e6cdd9bf11f5d4cc373060b9d5f9a4d5681bfdb62480776fd2b39ef5ecaaeddc80e02d6b91 Homepage: https://cran.r-project.org/package=MANOVA.RM Description: CRAN Package 'MANOVA.RM' (Resampling-Based Analysis of Multivariate Data and RepeatedMeasures Designs) Implemented are various tests for semi-parametric repeated measures and general MANOVA designs that do neither assume multivariate normality nor covariance homogeneity, i.e., the procedures are applicable for a wide range of general multivariate factorial designs. In addition to asymptotic inference methods, novel bootstrap and permutation approaches are implemented as well. These provide more accurate results in case of small to moderate sample sizes. Furthermore, post-hoc comparisons are provided for the multivariate analyses. Friedrich, S., Konietschke, F. and Pauly, M. (2019) . Package: r-cran-mantaid Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 344 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-biomart, r-cran-caret, r-cran-keras, r-cran-mlr3tuning, r-cran-mlr3, r-cran-ggplot2, r-cran-data.table, r-cran-magrittr, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-ggcorrplot, r-cran-reshape2, r-cran-scutr, r-cran-paradox, r-cran-rcolorbrewer, r-cran-purrr, r-cran-dplyr Suggests: r-cran-mlr3hyperband, r-cran-mlr3learners, r-cran-ranger, r-cran-rpart, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-mantaid_1.0.4-1.ca2004.1_all.deb Size: 275284 MD5sum: 37bc46603fe577c93b7e106ab54e08d9 SHA1: 9a350618745d20cf2e6f986ccb0f8e62bbb28a31 SHA256: a6bf186627e3f4e5ad6bd8a824538f24e2bdd4d697496ec0e48d63260bfde3e4 SHA512: 71857230e908c6f7aa285c07bc70dfc13eebdd707cd019dec3d940bcccc441b852c9735bc14f9868c3a1149650173fd132dbc5f5993224c1792983aebe56f011 Homepage: https://cran.r-project.org/package=MantaID Description: CRAN Package 'MantaID' (A Machine-Learning Based Tool to Automate the Identification ofBiological Database IDs) The number of biological databases is growing rapidly, but different databases use different IDs to refer to the same biological entity. The inconsistency in IDs impedes the integration of various types of biological data. To resolve the problem, we developed 'MantaID', a data-driven, machine-learning based approach that automates identifying IDs on a large scale. The 'MantaID' model's prediction accuracy was proven to be 99%, and it correctly and effectively predicted 100,000 ID entries within two minutes. 'MantaID' supports the discovery and exploitation of ID patterns from large quantities of databases. (e.g., up to 542 biological databases). An easy-to-use freely available open-source software R package, a user-friendly web application, and API were also developed for 'MantaID' to improve applicability. To our knowledge, 'MantaID' is the first tool that enables an automatic, quick, accurate, and comprehensive identification of large quantities of IDs, and can therefore be used as a starting point to facilitate the complex assimilation and aggregation of biological data across diverse databases. Package: r-cran-manydata Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3092 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-messydates, r-cran-dtplyr, r-cran-ggplot2, r-cran-httr, r-cran-jsonlite, r-cran-purrr, r-cran-remotes, r-cran-stringr, r-cran-tidyr Suggests: r-cran-testthat, r-cran-readr, r-cran-knitr, r-cran-rmarkdown, r-cran-ggvenndiagram, r-cran-manynet, r-cran-rlang Filename: pool/dists/focal/main/r-cran-manydata_1.0.3-1.ca2004.1_all.deb Size: 1570044 MD5sum: a112c1f0cd9e6c4536270e0e43a424e9 SHA1: fcfa9ae8401f4e68516b7c75ce34cde5b976cbef SHA256: 56e7da780acd5a0e976736787619e6f23cb85d59c4d9ae0f96678b3bec0190ed SHA512: 69eef9853438bed2d74170a42b1fa0668ab7efedfaa45b936dae7e16ac6c28722ae865f51fa505b53953c889eca7abc8e57783780962826bf10de6d31eeec309 Homepage: https://cran.r-project.org/package=manydata Description: CRAN Package 'manydata' (A Portal for Global Governance Data) This is the core package for the many packages universe. It includes functions to help researchers work with and contribute to event datasets on global governance. Package: r-cran-manydist Architecture: all Version: 0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-entropy, r-cran-matrix, r-cran-fastdummies, r-cran-data.table, r-cran-philentropy, r-cran-cluster, r-cran-purrr, r-cran-dplyr, r-cran-tidyr, r-cran-forcats, r-cran-tibble, r-cran-magrittr, r-cran-fpc, r-cran-recipes, r-cran-rsample, r-cran-rfast, r-cran-readr, r-cran-distances Suggests: r-cran-palmerpenguins Filename: pool/dists/focal/main/r-cran-manydist_0.4.4-1.ca2004.1_all.deb Size: 102816 MD5sum: 92fbe9abae7c17ce236cd619ab3a0c46 SHA1: d9bfcb4c7cfb9a45342f77b6a5be648a0dc1a66e SHA256: 96acc2502446b3c7fd2ca0e3919e5ad094899767d6cd0c61983f9694052ab451 SHA512: c5b875df7ae795184d8483af11406ca92a9bb78148c66226f271d372dd43dcead336b8c3ed205ca455fcedba9ed26b764b3b212bfd521940566db77f0fed55ec Homepage: https://cran.r-project.org/package=manydist Description: CRAN Package 'manydist' (Unbiased Distances for Mixed-Type Data) A comprehensive framework for calculating unbiased distances in datasets containing mixed-type variables (numerical and categorical). The package implements a general formulation that ensures multivariate additivity and commensurability, meaning that variables contribute equally to the overall distance regardless of their type, scale, or distribution. Supports multiple distance measures including Gower's distance, Euclidean distance, Manhattan distance, and various categorical variable distances such as simple matching, Eskin, occurrence frequency, and association-based distances. Provides tools for variable scaling (standard deviation, range, robust range, and principal component scaling), and handles both independent and association-based category dissimilarities. Implements methods to correct for biases that typically arise from different variable types, distributions, and number of categories. Particularly useful for cluster analysis, data visualization, and other distance-based methods when working with mixed data. Methods based on van de Velden et al. (2024) "Unbiased mixed variables distance". Package: r-cran-manyivsnets Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 360 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-readr, r-cran-igraph, r-cran-ggplot2, r-cran-ggraph, r-cran-aer, r-cran-lmtest, r-cran-sandwich, r-cran-magrittr Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-pkgdown, r-cran-knitr, r-cran-rtransferentropy, r-cran-tidyr, r-cran-viridis, r-cran-countrycode, r-cran-spelling Filename: pool/dists/focal/main/r-cran-manyivsnets_0.1.1-1.ca2004.1_all.deb Size: 162964 MD5sum: 9ebbddf9d8f584f9315117041312aa5d SHA1: 6fcd361487b30062501253be939b4d1b7a85dbd4 SHA256: f080755fb5edae1cb914fff2cfbb3f41e6bcbd2f80c5136aaaea5a5f7f4b4f16 SHA512: 799d8a5ad2aa8d0b331a8f8a237197dd0268f80e9acf2706653926a2de761b13229552b1c7451e3d7faf170b6cf0b5b8a662b3dc67d2ddb4545ea727945f0414 Homepage: https://cran.r-project.org/package=ManyIVsNets Description: CRAN Package 'ManyIVsNets' (Environmental Phillips Curve Analysis with Multiple InstrumentalVariables and Networks) Comprehensive toolkit for Environmental Phillips Curve analysis featuring multidimensional instrumental variable creation, transfer entropy causal discovery, network analysis, and state-of-the-art econometric methods. Implements geographic, technological, migration, geopolitical, financial, and natural risk instruments with robust diagnostics and visualization. Provides 24 different instrumental variable approaches with empirical validation. Methods based on Phillips (1958) , transfer entropy by Schreiber (2000) , and weak instrument tests by Stock and Yogo (2005) . Package: r-cran-manymodelr Architecture: all Version: 0.3.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3554 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-metrics, r-cran-e1071, r-cran-dplyr, r-cran-ggplot2, r-cran-lme4, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-manymodelr_0.3.9-1.ca2004.1_all.deb Size: 620224 MD5sum: 0dbbad41adbbc90868515f16c93f1628 SHA1: 5825028afc7112f3afe24b1a1c58fa82e224501b SHA256: 16d0645f9bc831446035f037f04ca7bf9a18fbda03cd4bfb1dca800b088864d9 SHA512: d49836d4f3d96a06f06d26e3bc1252b1995cc4beb2408a44c5d4b459efea6548f79d7d64433759e4d6ac78ceb7965c4e6a1bb9926060da3e46e92fb70a0d6171 Homepage: https://cran.r-project.org/package=manymodelr Description: CRAN Package 'manymodelr' (Build and Tune Several Models) Frequently one needs a convenient way to build and tune several models in one go.The goal is to provide a number of machine learning convenience functions. It provides the ability to build, tune and obtain predictions of several models in one function. The models are built using functions from 'caret' with easier to read syntax. Kuhn(2014) . Package: r-cran-manymome.table Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-manymome, r-cran-flextable Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest, r-cran-lavaan, r-cran-officer Filename: pool/dists/focal/main/r-cran-manymome.table_0.4.0-1.ca2004.1_all.deb Size: 70272 MD5sum: ab4ca013dcc93f6e3b6e1b1ac28adab0 SHA1: f7b488d54661bc1cce62d03d5323dc22e070f4d6 SHA256: 011a5212a6d3b0724ae6efd2a1d0aa7966a505178bb8896062e40a68480cf2e8 SHA512: 3f661a31ea3570d6f3837d8f914d19c7676c691b8494be5d2eb98f075e2b4fd40897d24ba24973c156edf59b40d1117b00e7c5f1a43dfa62025e4f8c05ffeec9 Homepage: https://cran.r-project.org/package=manymome.table Description: CRAN Package 'manymome.table' (Publication-Ready Tables for 'manymome' Results) Converts results from the 'manymome' package, presented in Cheung and Cheung (2023) , to publication-ready tables. Package: r-cran-manymome Architecture: all Version: 0.2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3445 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lavaan, r-cran-boot, r-cran-pbapply, r-cran-ggplot2, r-cran-igraph, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-lavaan.mi, r-cran-amelia, r-cran-mice, r-cran-testthat Filename: pool/dists/focal/main/r-cran-manymome_0.2.9-1.ca2004.1_all.deb Size: 2831680 MD5sum: 93361ad03479d10dd64729b60aa886d7 SHA1: 1d28ba39c9729a05d1ee15f9ea515bffbd92bf8c SHA256: b7c3e8c5df24bea1f6a02247a41f2a5e9a913e518cab5237419e6316ce0268a9 SHA512: 38f1c85926a3b4599795ffc5b10b5b54e6a3999b89da371a776bab70dddb8cf35b68895316a0891e3cbfff81bfabe813e52e38be5a46b3d3284073c06b74b7fc Homepage: https://cran.r-project.org/package=manymome Description: CRAN Package 'manymome' (Mediation, Moderation and Moderated-Mediation After ModelFitting) Computes indirect effects, conditional effects, and conditional indirect effects in a structural equation model or path model after model fitting, with no need to define any user parameters or label any paths in the model syntax, using the approach presented in Cheung and Cheung (2024) . Can also form bootstrap confidence intervals by doing bootstrapping only once and reusing the bootstrap estimates in all subsequent computations. Supports bootstrap confidence intervals for standardized (partially or completely) indirect effects, conditional effects, and conditional indirect effects as described in Cheung (2009) and Cheung, Cheung, Lau, Hui, and Vong (2022) . Model fitting can be done by structural equation modeling using lavaan() or regression using lm(). Package: r-cran-manynet Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4268 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-ggraph, r-cran-igraph, r-cran-network, r-cran-pillar, r-cran-tidygraph Suggests: r-cran-biocmanager, r-cran-concaveman, r-cran-gganimate, r-cran-ggdendro, r-cran-ggforce, r-cran-gifski, r-cran-graphlayouts, r-cran-knitr, r-cran-learnr, r-cran-netdiffuser, r-cran-patchwork, r-cran-readxl, r-cran-rmarkdown, r-cran-rsiena, r-cran-sna, r-cran-testthat, r-cran-tibble, r-cran-tidyr, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-manynet_1.5.1-1.ca2004.1_all.deb Size: 2290084 MD5sum: 160a95bdb40c6e01b17d66db3bbb8057 SHA1: 6d6df1e8b1d36a4091bf945bdcb2be3a95c5e458 SHA256: 76ec1c7ca9c78f26bb89995a70be962d87e186dc05df997014a83728de949bb8 SHA512: cde98bd9e996a6e7ea00ce417c9cd79cfac49f2beaa6b54669eeeab879fd39beb183023647cea218393c324a04253eb814324e7579d4ed9a8fac5481ec430f96 Homepage: https://cran.r-project.org/package=manynet Description: CRAN Package 'manynet' (Many Ways to Make, Modify, Map, Mark, and Measure MyriadNetworks) Many tools for making, modifying, mapping, marking, measuring, and motifs and memberships of many different types of networks. All functions operate with matrices, edge lists, and 'igraph', 'network', and 'tidygraph' objects, and on one-mode, two-mode (bipartite), and sometimes three-mode networks. The package includes functions for importing and exporting, creating and generating networks, modifying networks and node and tie attributes, and describing and visualizing networks with sensible defaults. Package: r-cran-manytests Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-manytests_1.2-1.ca2004.1_all.deb Size: 23880 MD5sum: fdb1a8154bd28f1562065fd13f1ddfe5 SHA1: a055830940aa5e01026e01e9f8301e581863a6d9 SHA256: 5baa63ce910e51418636814cdc5921b4a51940c797762d5808e4c58a90a4be5b SHA512: 9e99b21c32f768cfe69c5bea4dce316c135346bac3fd73d34e7485c3030e45c8728a507abcb1aeb0cd8d010d67f03f7b47427a91112ec57b906d733bf08a670b Homepage: https://cran.r-project.org/package=ManyTests Description: CRAN Package 'ManyTests' (Multiple Testing Procedures of Cox (2011) and Wong and Cox(2007)) Performs the multiple testing procedures of Cox (2011) and Wong and Cox (2007) . Package: r-cran-maoea Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reticulate, r-cran-nsga2r, r-cran-lhs, r-cran-nnet, r-cran-stringr, r-cran-randtoolbox, r-cran-e1071, r-cran-mass, r-cran-gtools, r-cran-pracma Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-maoea_0.6.2-1.ca2004.1_all.deb Size: 188488 MD5sum: 1ee28725b077528028c78630fe5ebae5 SHA1: fa3a9547f22bc1334e617f9b37d08e5c11a485f8 SHA256: 5fdb377a7011f66db4f372ab3c0fbe45fa5b21304100a3a64ee4b5577f0fa015 SHA512: b02fe5b5b8ade9664e7075cd1878cb44049424deeafd79f9fc25c8be4417ce39cc05113bf47060e21b7b57b80070a1f7ffaef1a1162170959e439782fa7b1c31 Homepage: https://cran.r-project.org/package=MaOEA Description: CRAN Package 'MaOEA' (Many Objective Evolutionary Algorithm) A set of evolutionary algorithms to solve many-objective optimization. Hybridization between the algorithms are also facilitated. Available algorithms are: 'SMS-EMOA' 'NSGA-III' 'MO-CMA-ES' The following many-objective benchmark problems are also provided: 'DTLZ1'-'DTLZ4' from Deb, et al. (2001) and 'WFG4'-'WFG9' from Huband, et al. (2005) . Package: r-cran-map2ncbi Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rentrez Filename: pool/dists/focal/main/r-cran-map2ncbi_1.5-1.ca2004.1_all.deb Size: 84788 MD5sum: b604a6051bffb8bedf33f0783a6aab97 SHA1: cc6bb817b814a2cc213bd0f8dbb2e1d92481e7c1 SHA256: ce51e6a292931ff36e7a24880d6c512fb44aca328a972941bc2bbe79985945ba SHA512: 667547757661f7826a151663d992a1a1ee13c66c8b8fbb99a6cc9ca8bd175630c1cd7de3c0832831be77314c188e0493afd18a0cff771a86ce85dfd0d5361263 Homepage: https://cran.r-project.org/package=Map2NCBI Description: CRAN Package 'Map2NCBI' (Mapping Markers to the Nearest Genomic Feature) Allows the user to generate a list of features (gene, pseudo, RNA, CDS, and/or UTR) directly from NCBI database for any species with a current build available. Option to save downloaded and formatted files is available, and the user can prioritize the feature list based on type and assembly builds present in the current build used. The user can then use the list of features generated or provide a list to map a set of markers (designed for SNP markers with a single base pair position available) to the closest feature based on the map build. This function does require map positions of the markers to be provided and the positions should be based on the build being queried through NCBI. Package: r-cran-map Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-flexmix, r-cran-matrix, r-cran-magrittr Suggests: r-cran-knitr, r-cran-proc, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-map_1.0.0-1.ca2004.1_all.deb Size: 98776 MD5sum: 8dab729de9619908b16f12046690fb84 SHA1: 612efdfbd8e1d52069c5d6221166e00b4e66ef1c SHA256: ea0c9794fd35d3a4f7a0522a78bd9bbacebd70e56658db4c0ee7b5c5f5949b0e SHA512: 1ffa83c3eac9b4dc979005bd809825bce4517bb266e7374f5b674fa04165f57cc5fc829e56a37fb987d88ba07821836ee7f416968235ff5f9d6c5a544fdfde66 Homepage: https://cran.r-project.org/package=MAP Description: CRAN Package 'MAP' (Multimodal Automated Phenotyping) Electronic health records (EHR) linked with biorepositories are a powerful platform for translational studies. A major bottleneck exists in the ability to phenotype patients accurately and efficiently. Towards that end, we developed an automated high-throughput phenotyping method integrating International Classification of Diseases (ICD) codes and narrative data extracted using natural language processing (NLP). Specifically, our proposed method, called MAP (Map Automated Phenotyping algorithm), fits an ensemble of latent mixture models on aggregated ICD and NLP counts along with healthcare utilization. The MAP algorithm yields a predicted probability of phenotype for each patient and a threshold for classifying subjects with phenotype yes/no (See Katherine P. Liao, et al. (2019) .). Package: r-cran-mapa Architecture: all Version: 2.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 147 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-forecast, r-cran-rcolorbrewer, r-cran-smooth Filename: pool/dists/focal/main/r-cran-mapa_2.0.7-1.ca2004.1_all.deb Size: 111036 MD5sum: cfd1d092e94aa1fb2d8436b07316235e SHA1: d8acd5132c55cab81abe95e63c8e5d0fe0bd611f SHA256: b2a46774c7c754a2a1d235f439b97525f16a48f549d3fb18c87c7481778daeb0 SHA512: d4de4a0e1201482c79851e7b1d4832c96bec02432b2cbc1be10c1263b663fb2fb25a92cfb10c2f5b81f038cd34afe755b3bad23d933b722a07771e1024979509 Homepage: https://cran.r-project.org/package=MAPA Description: CRAN Package 'MAPA' (Multiple Aggregation Prediction Algorithm) Functions and wrappers for using the Multiple Aggregation Prediction Algorithm (MAPA) for time series forecasting. MAPA models and forecasts time series at multiple temporal aggregation levels, thus strengthening and attenuating the various time series components for better holistic estimation of its structure. For details see Kourentzes et al. (2014) . Package: r-cran-mapaccuracy Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mapaccuracy_0.1.2-1.ca2004.1_all.deb Size: 40440 MD5sum: 4f7f5e8168f68e6b017066c4aeb9d268 SHA1: fd8cac5114b9225ccdc1a8faedceaf911758e427 SHA256: c2a6923bf8291ef2b4abc376973fe91a7fa6f33f8fe4114a3bf1b8c3acf24571 SHA512: 3aead4a2be1d9715f209229f7e6fad6340539fd415efe4361071d8b7e306953a1ff4214bf6daaff953d5676b90485e792a35f1c28f37b1535632682c6262ecd9 Homepage: https://cran.r-project.org/package=mapaccuracy Description: CRAN Package 'mapaccuracy' (Unbiased Thematic Map Accuracy and Area) Unbiased estimators of overall and per-class thematic map accuracy and area published in Olofsson et al. (2014) and Stehman (2014) . Package: r-cran-mapbayr Architecture: all Version: 0.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 399 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-mrgsolve, r-cran-progress, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-lubridate, r-cran-minqa, r-cran-scales, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-mapbayr_0.10.0-1.ca2004.1_all.deb Size: 287308 MD5sum: 882aac12e7c3cd19c9f962f53753a13a SHA1: 2effe25ac342a46c3c28649e6096e23dffe51c36 SHA256: 4e7285b31305fc92cfc4f0ddd53a6bd47762116b1c848e5da88f857f39b42074 SHA512: 6e2ef027c794ec4d9d07416cea1a3f18fd3bffdb44a1c0b6c509eb6cb32a4fd37f6f8f4a20dd4986f50b6954ab9a8c4c18182fcc03b9c5d153133e050f0c28e5 Homepage: https://cran.r-project.org/package=mapbayr Description: CRAN Package 'mapbayr' (MAP-Bayesian Estimation of PK Parameters) Performs maximum a posteriori Bayesian estimation of individual pharmacokinetic parameters from a model defined in 'mrgsolve', typically for model-based therapeutic drug monitoring. 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See for more information about the 'Mapbox' APIs. Package: r-cran-mapboxer Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1461 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-htmlwidgets, r-cran-htmltools, r-cran-yaml, r-cran-purrr, r-cran-geojsonsf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-shiny Filename: pool/dists/focal/main/r-cran-mapboxer_0.4.0-1.ca2004.1_all.deb Size: 687264 MD5sum: 13564f0796a61adda3f7869dd2f53dd2 SHA1: 9b6346fcd4bae64f814f35a2013850fc3553059e SHA256: 11c9c91706dab89f53ba39359c22098cf95ce257578e814b7705af67790cc047 SHA512: a8cf4826b4fa651a1ed59111b50581f6a75c8d2afd6c11570764201f5bd2a69fde2b0de4a4ca69f733396197c584f1f8b6bfbcd65647aef87ed5b8b8d62422ad Homepage: https://cran.r-project.org/package=mapboxer Description: CRAN Package 'mapboxer' (An R Interface to 'Mapbox GL JS') Makes 'Mapbox GL JS' , an open source JavaScript library that uses WebGL to render interactive maps, available within R via the 'htmlwidgets' package. 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Package: r-cran-mapcan Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4951 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-mapcan_0.0.1-1.ca2004.1_all.deb Size: 3981396 MD5sum: 70da6bb9416527fa51d14c3d9232b00a SHA1: 03038e15ad4c85c56321cfc07cd67ad80be9408b SHA256: 53e7d6a0f8ef25853083aaa7ec864c69a7bb4ac7fb83c833372096413ff4b7d7 SHA512: 2980b494ffa8b0e9028dc3d65621b2e67a5b67167af8c119795933ba0b9d12065d45cfd175fda54ae7223e61b19c5fe3bd11dac66be43fa99b816064c45c2b86 Homepage: https://cran.r-project.org/package=mapcan Description: CRAN Package 'mapcan' (Tools for Plotting Canadian Choropleth Maps and ChoroplethAlternatives) A variety of functions that make it easy to plot standard choropleth maps as well as choropleth alternatives in 'ggplot2'. Package: r-cran-mapchina Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4386 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sf Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-rcolorbrewer, r-cran-showtext Filename: pool/dists/focal/main/r-cran-mapchina_0.1.0-1.ca2004.1_all.deb Size: 4368996 MD5sum: 639dfe16de22946a114b9155e78acd36 SHA1: 69666cb7d65f619c83a45e049b0882cdedccbcdf SHA256: 3a7bfe1fd2ba228ff4b392a0cb043bf067dc0dec0413e04f53886fdcfc58537a SHA512: bba430624151256364c24fc3d000d84473861c84ea4ca21561a999585398d46c03c53ac210f269103f1d0c8dcbcf3e1303e5e00bab73ac0893846004f442f73e Homepage: https://cran.r-project.org/package=mapchina Description: CRAN Package 'mapchina' (China Administrative Divisions Geospatial Shapefile Data) Geospatial shapefile data of China administrative divisions to the county/district-level. 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Inference focuses on identifiable cross-strata differences, as described by Riebler and Held (2010) . Methods for handling complex survey data via the 'survey' package are included, as described in Mercer et al. (2014) . 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Package: r-cran-mapgam Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1562 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sp, r-cran-gam, r-cran-survival, r-cran-sf, r-cran-colorspace, r-cran-pbsmapping Suggests: r-cran-maps, r-cran-mapproj Filename: pool/dists/focal/main/r-cran-mapgam_1.3-1.ca2004.1_all.deb Size: 1555492 MD5sum: c70e9595109401d03c6139e7a2c798b3 SHA1: 00236be178f7005b4172c33352b22792f2721e54 SHA256: 13c78651ed72c0c6e29c44b081f79328e75027cc6a8ebbfb81629ce3a31bbfb6 SHA512: 460b696d93102dc18d73b00cad384ce5247b7bd12fc03e72d3a4f4cf57bf0d7dad7b64182e1ce4fb9a7bd8fdca49cd8be83c2d2cdf9890025c8ae905504152b4 Homepage: https://cran.r-project.org/package=MapGAM Description: CRAN Package 'MapGAM' (Mapping Smoothed Effect Estimates from Individual-Level Data) Contains functions for mapping odds ratios, hazard ratios, or other effect estimates using individual-level data such as case-control study data, using generalized additive models (GAMs) or Cox models for smoothing with a two-dimensional predictor (e.g., geolocation or exposure to chemical mixtures) while adjusting linearly for confounding variables, using methods described by Kelsall and Diggle (1998), Webster at al. (2006), and Bai et al. (2020). Includes convenient functions for mapping point estimates and confidence intervals, efficient control sampling, and permutation tests for the null hypothesis that the two-dimensional predictor is not associated with the outcome variable (adjusting for confounders). 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Package: r-cran-mapindia Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1652 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-mapindiatools, r-cran-rlang, r-cran-sf, r-cran-vdiffr Suggests: r-cran-knitr, r-cran-patchwork, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mapindia_1.0.1-1.ca2004.1_all.deb Size: 1447856 MD5sum: 975c81efd1fd337626a86b08a530eedd SHA1: efeadb2c80fef57312e5cb7358b3e26708f90489 SHA256: 9fcc2896f667b1acc4300f5e20c6d211e233a989d61d4bbac87d3edc6ddb76ea SHA512: d8771984acd699eb5b8a18dda77f720e57f0a7bce964f5bd3e48e2f7b992e232e00ee2536935cab5214e39e75a30909f21da801a7657d755ef3557a8dfff0aca Homepage: https://cran.r-project.org/package=mapindia Description: CRAN Package 'mapindia' (Plot Map of the Indian Subcontinent) Get map data frames for the Indian subcontinent with different region levels (e.g., district, state). 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It offers conveniences in fitting, comparing and extrapolating models of biological processes such as physiology and phenology. These spatial extrapolations can be informative by themselves, but also complement traditional correlative species distribution models, by mixing environmental and process-based predictors. Caetano et al (2020) . 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Package: r-cran-maplegend Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-tinytest, r-cran-covr Filename: pool/dists/focal/main/r-cran-maplegend_0.3.0-1.ca2004.1_all.deb Size: 135772 MD5sum: b82ca4abb74cae00ff625716c603d6c2 SHA1: c1da0d16c77faaf00f29b0f097c055351d41b642 SHA256: 9dfcca7d445621069877cdd44da20745701855e3c35c7001d48d76ea6449523d SHA512: ed0f1e7c8d9f19ad33fdac4bbeabcd302811fa161745e6705787f76a11d5eb54fbc9209540be379a7d6d95af749248bf8825426becc1b21fbe9842dbce5eb6cc Homepage: https://cran.r-project.org/package=maplegend Description: CRAN Package 'maplegend' (Legends for Maps) Create legends for maps and other graphics. Thematic maps need to be accompanied by legible legends to be fully comprehensible. This package offers a wide range of legends useful for cartography, some of which may also be useful for other types of graphics. 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Recently, adverse changes in human land use practices and climatic responses to increased greenhouse gas emissions, put these biodiversity areas under a variety of different threats. The present package helps to analyse a number of biodiversity indicators based on freely available geographical datasets. It supports computational efficient routines that allow the analysis of potentially global biodiversity portfolios. The primary use case of the package is to support evidence based reporting of an organization's effort to protect biodiversity areas under threat and to identify regions were intervention is most duly needed. 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A 'shiny' app allows users to create admixture maps interactively. Jenkins TL (2024) . Package: r-cran-mapper Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 312 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fastcluster Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mapper_2.2.0-1.ca2004.1_all.deb Size: 253372 MD5sum: 427454ba8e4638df07a2e9c30a1b8d44 SHA1: 4da5bef317c7c92187867b344760c85d2550592d SHA256: a93ed4d3a435e0fd2688691d1e86d4b7c654edef9a6195d6fc1f97b27c776860 SHA512: ed04fb4b063a535edf533ca8ca99eb4e6f9363793a98f6c704f96f732d1559a197f33a31ff86f8026c41c1c6f27ef5b459097c464ced420af538a394c25c31b8 Homepage: https://cran.r-project.org/package=mappeR Description: CRAN Package 'mappeR' (Construct and Visualize TDA Mapper Graphs) Topological data analysis (TDA) is a method of data analysis that uses techniques from topology to analyze high-dimensional data. 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The mapping process requires to link the data with coordinates and then generate the correspondent map. This package provide coordinates, linking and mapping functions for an automatic, flexible and easy approach of external functions. The package provides an easy, flexible and automatic unit. Geographical coordinates are provided in the package and automatically linked with the input data to generate maps with internal provided functions or external functions. Provide an easy, flexible and automatic approach to potentially download updated coordinates, to link statistical units with coordinates and to aggregate variables based on the spatial hierarchy of units. The object returned from the package can be used for thematic maps with the build-in functions provided in mapping or with other packages already available. Package: r-cran-mappings Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mappings_0.1-1.ca2004.1_all.deb Size: 34360 MD5sum: afad769a55c0a7fedeccae2f8b9c1dec SHA1: 18789f12564e8b758ac21287f52308f9d89f160f SHA256: 3029c73fde368c1f3a550ea38e3f5a1c51937a90b81d50b8c059b73f65094c18 SHA512: d79a22b5484ad758ce970b2a0b9b029c23bcd3ebb26650a35bc44d56c2e89cbb4d9078978cd2d32c6fdc3fba961be17a25f29f6d7722d6a653a580080525f5ff Homepage: https://cran.r-project.org/package=mappings Description: CRAN Package 'mappings' (Functions for Transforming Categorical Variables) Easily create functions to map between different sets of values, such as for re-labelling categorical variables. Package: r-cran-mapplots Architecture: all Version: 1.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 419 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-shapefiles Filename: pool/dists/focal/main/r-cran-mapplots_1.5.3-1.ca2004.1_all.deb Size: 350296 MD5sum: 9a5c3dd1eedbffd91140d4894659a8a2 SHA1: 8d26782560a409b09afd4359c0584c4a4d3ff8ac SHA256: ada7abb043f23dd4a414f3f929ce9fdae1a8b1b73eba794de84f82c19675d245 SHA512: b73f8d04161f7fcf13b5ec6eb2090aa93fc5b04dc3784538f9cff43f86730858d053e080895a599f9662d429583e7997d7b8f647536a6e49aac0de99f8a9e4ec Homepage: https://cran.r-project.org/package=mapplots Description: CRAN Package 'mapplots' (Data Visualisation on Maps) Create simple maps; add sub-plots like pie plots to a map or any other plot; format, plot and export gridded data. The package was developed for displaying fisheries data but most functions can be used for more generic data visualisation. Package: r-cran-mappp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-memoise, r-cran-progress, r-cran-pbmcapply, r-cran-parallelly, r-cran-purrr, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mappp_1.0.0-1.ca2004.1_all.deb Size: 24464 MD5sum: fa66ab3e53e09beaaa78efc968396ad1 SHA1: b08f213521e63edfd225596477da512130ee65ce SHA256: 08f939634e42764057fe86e53b8e6ca23eceab4b22ec4f8d7f467b676ad26713 SHA512: 74fe308d4bef7ce93852f54aca08e66c85f7d115bbe9bb12ca4cc93d15322a4ee10ad567de9474c7a5907f1b875d012aa2432d1a6792f1c39f4e6a38a7cec2e1 Homepage: https://cran.r-project.org/package=mappp Description: CRAN Package 'mappp' (Map in Parallel with Progress) Provides one function, which is a wrapper around purrr::map() with some extras on top, including parallel computation, progress bars, error handling, and result caching. 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Includes functions to visualize occurrence data from 'spocc', 'rgbif', and other packages. Mapping options included for base R plots, 'ggplot2', 'leaflet' and 'GitHub' 'gists'. Package: r-cran-mapreasy Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2748 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp, r-cran-rgdal, r-cran-hmisc Filename: pool/dists/focal/main/r-cran-mapreasy_1.0-1.ca2004.1_all.deb Size: 703140 MD5sum: d0c0130e24d2f4b750928bddae8bb88c SHA1: 3fa6ff007cf5e40efa605e52638466f3420b5a56 SHA256: af701efee6543638889aa9b8164f0336d056d3ff42120528a9f7884589915844 SHA512: 80e509104e03eadd3fc2cc5cc395f451867a3eceed0f7bc098b3b65ac9a016da2e5225689ee35b5dd031041248748b7f35739c07f22c6ae07f054a2557c871e3 Homepage: https://cran.r-project.org/package=mapReasy Description: CRAN Package 'mapReasy' (Producing Administrative Boundary Map with Additional FeaturesEmbedded) Produce administrative boundary map, visualize and compare different factors on map, tracking latitude and longitude, bubble plot. The package provides some handy functions to produce different administrative maps easily. Functions to obtain colorful visualization of different regions of interest and sub-divisional administrative map at different levels are included. This csn be used to increase feasibility of mapping disease pattern across different regions (disease mapping) with appropriate colors having intensity coherent with magnitude of prevalence. In many surveys, information on location of sample are collected. Sometimes it is of interest to quick look at the spreadness of the collected sample, check if any observation falls outside of the survey area and identify them. The package provides unique function to perform these tasks easily. Besides, some additional features have been added to make ad-lib comparison of different factors across the region through these maps. Visual presentation of two different variables on a particular map using two way bubble plot is also provided. Simple bar chart and pie chart can be produced on map to compare several factors.This package will be helpful to researchers-both statistician and non-statistician, to create geographic location wise plotting of different indicators. These types of maps are used in different research areas such public health, economics, environment, journalism etc. It provides functions that will also be helpful to users to create map using two indicators at a time (for example, shade on a map will give the information of one indicator variable, bar/pie/bubble chart will give the information on another indicator). Users only need to select the indicator's value and country wise region specific shapefile and run the functions to find their graphs quickly.The distinguishable features of the functions in this package are they are easy to understand to new R users who are searching some ad-lib functions to produce administrative map with different features and easy to use for those who are unfamiliar with file format of spatial data or geographic location data. Functions in this package adopt, compile and implement functions from some well-known packages on handling spatial data to make an user friendly functionality. So users do not need any additional knowledge about spatial statistics or geographic location data. All the examples presented in this package use shapefile of country Bangladesh downloaded from . Users are requested to visit , then select Download, then choose country and shapefile from country and File format dropdown menu. After downloading the shapefile of any particular country as compressed file, unzip the file and keep them in a known directory or working directory. Shapefiles of respective countries will be required to produce corresponding country maps. Use shapefile of corresponding country to produce all types of maps available in this package. Package: r-cran-mapsapi Architecture: all Version: 0.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2985 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-xml2, r-cran-sf, r-cran-bitops, r-cran-stars, r-cran-rgooglemaps, r-cran-httr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-leaflet, r-cran-ggplot2, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-mapsapi_0.5.4-1.ca2004.1_all.deb Size: 1690264 MD5sum: eebeb36c45469d5af5d42755919f0761 SHA1: 813f4ba30735c34ae3c09e1ba923b75c32d172c3 SHA256: f045eb9ceec11ecf925fdb4e71c2a4ffcbf8d4955ef28d160c9d0bfed240781f SHA512: 1662a2baf31eb97f8b96c214119a7bbde4f8ef4c8806b04ce1150dfb4c1e80b0d389a7d11d0927a1c902db37a4f4574f9dcfe44d70f558e38ee0d479f1db1d34 Homepage: https://cran.r-project.org/package=mapsapi Description: CRAN Package 'mapsapi' ('sf'-Compatible Interface to 'Google Maps' APIs) Interface to the 'Google Maps' APIs: (1) routing directions based on the 'Directions' API, returned as 'sf' objects, either as single feature per alternative route, or a single feature per segment per alternative route; (2) travel distance or time matrices based on the 'Distance Matrix' API; (3) geocoded locations based on the 'Geocode' API, returned as 'sf' objects, either points or bounds; (4) map images using the 'Maps Static' API, returned as 'stars' objects. 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Package: r-cran-marmot Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-parsec Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-marmot_0.0.4-1.ca2004.1_all.deb Size: 154192 MD5sum: 8a8d60c096a1fb4d4ab99077615220e5 SHA1: b67f8e6dd60691fa86951aa9fa0699d8dcc13b20 SHA256: 9dfed22dbdd1312c5fbef636447f7a0e1eff78aa517c60e13e2bd4750b4dfefc SHA512: 55967937305c79c7bb35f648c52021d103bbebef8ff9cd009dce405f4857c2e2246d71171caa61614f4e96d5573030e76476aafe906ec36933b5d5a5695454e1 Homepage: https://cran.r-project.org/package=MARMoT Description: CRAN Package 'MARMoT' (Matching on Poset-Based Average Rank for Multiple Treatments(MARMoT)) It contains the function to apply MARMoT balancing technique discussed in: Silan, Boccuzzo, Arpino (2021) , Silan, Belloni, Boccuzzo, (2023) ; furthermore it contains a function for computing the Deloof's approximation of the average rank (and also a parallelized version) and a function to compute the Absolute Standardized Bias. Package: r-cran-marp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 278 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gtools, r-cran-statmod, r-cran-vgam Suggests: r-cran-knitr, r-cran-devtools, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-marp_0.1.0-1.ca2004.1_all.deb Size: 223172 MD5sum: 272bffe4b948301884be43d8b2c9441a SHA1: 25b84231811c369126b774a4b064a4ba30b7d10a SHA256: 9e7ab7cd8c58f4db5ac1977a35087d7a7c8f2c0df627ddacdde7fb004aef1457 SHA512: 85d3262759cd900b271fcc93eab8aa1b0c50f113c314e6c44c0edacaa36151b77963f852462ca2759fc79fa774c1588594ad0679db8d50ef8c067affcc6234b0 Homepage: https://cran.r-project.org/package=marp Description: CRAN Package 'marp' (Model-Averaged Renewal Process) To implement a model-averaging approach with different renewal models, with a primary focus on forecasting large earthquakes. Based on six renewal models (i.e., Poisson, Gamma, Log-Logistics, Weibull, Log-Normal and BPT), model-averaged point estimates are calculated using AIC (or BIC) weights. Additionally, both percentile and studentized bootstrapped model-averaged confidence intervals are constructed. In comparison, point and interval estimation from the individual or "best" model (determined via model selection) can be retrieved. Package: r-cran-marradistrees Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-marradistrees_1.0-1.ca2004.1_all.deb Size: 16372 MD5sum: d557ada8400aa9c49e2a7493584c88c9 SHA1: 4b1771a8376a2f515f438a26f176f018ad6ecd58 SHA256: 6b96f84f6166bb72c5aa6ab3cbe4005657cf1c1951c66b1be5a39a80d21d6d37 SHA512: 918a46bc96fc450e6c2ba3419f8c3525a3878177984b6687d41ec43de458a3d222c18f062bff00afb619cd396182ca36749ffd9abf82a118e260c47c142ca78c Homepage: https://cran.r-project.org/package=marradistrees Description: CRAN Package 'marradistrees' (Plots a Tree-Like Representation of a Numerical Variable(Marradi's Tree)) Provides a single function plotting Marradi's trees: a graphical representation of a numerical variable for comparing the variable mean and standard deviation across subgroups. See A. Marradi "L'analisi monovariata" (1993, ISBN: 9788820496876). Package: r-cran-mars Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 309 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-corpcor, r-cran-matrixcalc Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mars_0.2.2-1.ca2004.1_all.deb Size: 179320 MD5sum: 3772bad24716dcb092c7bf7e2dcd825d SHA1: 3a09e904ce89396f5f098ba37128b79030c1bd86 SHA256: d17f49f57018a2b72a2671e0f43db5f5742cbba62adafb9becfd931321924846 SHA512: 674dda51306e8ee1e80ad891bad1bd00708b3add02ea0e834ce980ba039374189f383f7fa3df8d36237529dc93f3227952838646dadd2e8faaa6fea50e8476b7 Homepage: https://cran.r-project.org/package=mars Description: CRAN Package 'mars' (Meta Analysis and Research Synthesis) Includes functions for conducting univariate and multivariate meta-analysis. This includes the estimation of the asymptotic variance-covariance matrix of effect sizes. For more details see Becker (1992) , Cooper, Hedges, and Valentine (2019) , and Schmid, Stijnen, and White (2020) . Package: r-cran-marsannhybrid Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-neuralnet, r-cran-earth Filename: pool/dists/focal/main/r-cran-marsannhybrid_0.1.0-1.ca2004.1_all.deb Size: 12956 MD5sum: 68160209f796e6246e2bfde59ab80182 SHA1: 4dea091efae274216d1c3c33595ea39db1e17986 SHA256: e11ddae4a0118774b1172a8ae10acaf1a4a37f0e326c38733990efc4221e018d SHA512: 987b6e6a97796c762315ae1ae41148125101a28f82c79a6c2860b204f602df3eaeba0fbce20b9495c17ba870d1c4f41a02a9e08de13905bc49912c5632e39c31 Homepage: https://cran.r-project.org/package=MARSANNhybrid Description: CRAN Package 'MARSANNhybrid' (MARS Based ANN Hybrid Model) Multivariate Adaptive Regression Spline (MARS) based Artificial Neural Network (ANN) hybrid model is combined Machine learning hybrid approach which selects important variables using MARS and then fits ANN on the extracted important variables. Package: r-cran-marsgwr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-qpdf, r-cran-numbers, r-cran-earth Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-marsgwr_0.1.0-1.ca2004.1_all.deb Size: 28180 MD5sum: 6a1cc2fc42b3f561cdad9d1508c55e8e SHA1: 4869813c0c572e93ee05afa181d9e5d57adeaa94 SHA256: 555bd774e1b92ed67b02a875884bea3f1d7beb384f9b2d21cc29a5ec220994f1 SHA512: 5b68d3ae724b16f8bddc35e59969c4ad04638b859e430047b1c7414da69bec65dd14c1f60691e40a31f354e3a47bd6a5e3fd32ef6b501e97252c83e4563863d7 Homepage: https://cran.r-project.org/package=MARSGWR Description: CRAN Package 'MARSGWR' (A Hybrid Spatial Model for Capturing Spatially VaryingRelationships Between Variables in the Data) It is a hybrid spatial model that combines the strength of two widely used regression models, MARS (Multivariate Adaptive Regression Splines) and GWR (Geographically Weighted Regression) to provide an effective approach for predicting a response variable at unknown locations. The MARS model is used in the first step of the development of a hybrid model to identify the most important predictor variables that assist in predicting the response variable. For method details see, Friedman, J.H. (1991). .The GWR model is then used to predict the response variable at testing locations based on these selected variables that account for spatial variations in the relationships between the variables. This hybrid model can improve the accuracy of the predictions compared to using an individual model alone.This developed hybrid spatial model can be useful particularly in cases where the relationship between the response variable and predictor variables is complex and non-linear, and varies across locations. Package: r-cran-marss Architecture: all Version: 3.11.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4691 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-generics, r-cran-kfas, r-cran-mvtnorm, r-cran-nlme Suggests: r-cran-forecast, r-cran-ggplot2, r-cran-hmisc, r-cran-knitr Filename: pool/dists/focal/main/r-cran-marss_3.11.9-1.ca2004.1_all.deb Size: 3486420 MD5sum: 9e4655a41439cfda6c1bf2d3917f88ba SHA1: 16b16f24dea7cb1d77a5ce83487aa75562c0db0b SHA256: 2779331f87b981054a3c7e0a66e179d621004b4fdfde25ffde1b7b574f9295cc SHA512: c3f8a8e15493c5062231ea548d612c81e866d336bccb6bd43f0c60899fc789bfb8a4c9479888c05dce170fd0bf8a03c1fe1728105afea25c08649e8c5b40c9a1 Homepage: https://cran.r-project.org/package=MARSS Description: CRAN Package 'MARSS' (Multivariate Autoregressive State-Space Modeling) The MARSS package provides maximum-likelihood parameter estimation for constrained and unconstrained linear multivariate autoregressive state-space (MARSS) models, including partially deterministic models. MARSS models are a class of dynamic linear model (DLM) and vector autoregressive model (VAR) model. Fitting available via Expectation-Maximization (EM), BFGS (using optim), and 'TMB' (using the 'marssTMB' companion package). Functions are provided for parametric and innovations bootstrapping, Kalman filtering and smoothing, model selection criteria including bootstrap AICb, confidences intervals via the Hessian approximation or bootstrapping, and all conditional residual types. See the user guide for examples of dynamic factor analysis, dynamic linear models, outlier and shock detection, and multivariate AR-p models. Online workshops (lectures, eBook, and computer labs) at . Package: r-cran-marssvrhybrid Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-e1071, r-cran-earth Filename: pool/dists/focal/main/r-cran-marssvrhybrid_0.1.0-1.ca2004.1_all.deb Size: 13072 MD5sum: 5d94f30bd29a522b5454fc430ef992e8 SHA1: 2f890e50c051fca836bec5ce729f4c66bdccb6d5 SHA256: 882785258db3a8b169a2fae7d297d6547488ccc0d8e13d495b23d68c184a0333 SHA512: af2b4a0e3c8f6396c294e232eb1945783daab75f54bb3c8649a6ef6f324b349377acee331fa627a4c297e1ff6158f1586a8b6fc73404390e6722341f8319cf33 Homepage: https://cran.r-project.org/package=MARSSVRhybrid Description: CRAN Package 'MARSSVRhybrid' (MARS SVR Hybrid) Multivariate Adaptive Regression Spline (MARS) based Support Vector Regression (SVR) hybrid model is combined Machine learning hybrid approach which selects important variables using MARS and then fits SVR on the extracted important variables. Package: r-cran-marvel Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4518 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-matrix, r-cran-plyr, r-cran-scales Suggests: r-bioc-annotationdbi, r-bioc-biostrings, r-bioc-bsgenome, r-bioc-bsgenome.hsapiens.ncbi.grch38, r-bioc-clusterprofiler, r-cran-factoextra, r-cran-factominer, r-cran-fitdistrplus, r-bioc-genomicranges, r-cran-ggnewscale, r-cran-ggrepel, r-cran-gridextra, r-cran-gtools, r-bioc-iranges, r-cran-kableextra, r-cran-knitr, r-cran-ksamples, r-cran-markdown, r-bioc-mast, r-bioc-org.hs.eg.db, r-bioc-org.mm.eg.db, r-cran-pheatmap, r-cran-reshape2, r-cran-rmarkdown, r-bioc-s4vectors, r-cran-stringr, r-cran-textclean, r-cran-twosamples, r-bioc-wiggleplotr Filename: pool/dists/focal/main/r-cran-marvel_1.4.0-1.ca2004.1_all.deb Size: 3821764 MD5sum: 4d6efa4f24f4fae0d70d1333a5b23f48 SHA1: c16dd077c2b785ef9fd976b5c0696a041dab15bb SHA256: 339182c9525b9e9879149170beb6bebcb6d876e3aa862aa1ec2023f381af3e17 SHA512: 09f0f37535198fdedaccc36dbd8dd94959c3d36938cae9014cfb7411575abe8e83c04253e5b674c5825a363c02e233555c6cb0fe83e66a6769b536c6317b501a Homepage: https://cran.r-project.org/package=MARVEL Description: CRAN Package 'MARVEL' (Revealing Splicing Dynamics at Single-Cell Resolution) Alternative splicing represents an additional and underappreciated layer of complexity underlying gene expression profiles. 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Package: r-cran-masscor Architecture: all Version: 0.0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 502 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-metrology Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-masscor_0.0.7.1-1.ca2004.1_all.deb Size: 427812 MD5sum: 94f2b767cb4d931ddddfba72802c7b5f SHA1: 28750d6f2b630e44fbb1d8a2d82eebb818fb6856 SHA256: efa6705fa125932cdc5aeaa14f5d49c38b9f9335a271ab826dcbd7be387fe383 SHA512: 2c16ac14b64e58a89c419cb332a9eed9711ede3f5af6c9cc48d089a4fbc856171037db803de78c9ae3457e9b83c04e9cfe73ad010e5cad969cc680d05d0b2af4 Homepage: https://cran.r-project.org/package=masscor Description: CRAN Package 'masscor' (Mass Measurement Corrections) Mass measurement corrections and uncertainties using calibration data, as recommended by EURAMET's guideline No. 18 (2015) ISBN:978-3-942992-40-4 . The package provides classes, functions, and methods for storing information contained in calibration certificates and converting balance readings to both conventional mass and real mass. For the latter, the Magnitude of the Air Buoyancy Correction factor employs models (such as the CIMP-2007 formula revised by Picard, Davis, Gläser, and Fujii (2008) ) to estimate the local air density using measured environmental conditions. 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Key functions from 'MASS' are imported and re-exported to avoid masking conflicts. In addition we provide some additional functions mainly used to illustrate coding paradigms and techniques, such as Gramm-Schmidt orthogonalisation and generalised eigenvalue problems. 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Logs are are stored as tidy data frames which can then be analyzed using 'tidyverse' style tools. Package: r-cran-matchbook Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-matchbook_1.0.7-1.ca2004.1_all.deb Size: 85748 MD5sum: 0a02e41bbf16400c0c49ff03791aa9b0 SHA1: b7362282c4d90e1dee690e7e2295be3ba8e12a13 SHA256: dc59ed3d53fec331d0bce130922e407e79de087ab86ff64556381b22651eadb1 SHA512: 3edd9364ff4f99f5741047f28d7fe0c9a350bd6f53556957c0d2c5943edc39ce07ae51e488ae072b3cebfc5aea05bcc0187b88c36a007e0db7e4b5e340f4f5f8 Homepage: https://cran.r-project.org/package=matchbook Description: CRAN Package 'matchbook' (Wrapper for the 'Matchbook' API) Provides a wrapper for the some basic functionality around the 'Matchbook' REST API. 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Package: r-cran-matchedcc Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 283 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-binom Suggests: r-cran-testthat, r-cran-readr, r-cran-vctrs, r-cran-stringr, r-cran-purrr, r-cran-knitr, r-cran-rmarkdown, r-cran-rstata Filename: pool/dists/focal/main/r-cran-matchedcc_0.1.1-1.ca2004.1_all.deb Size: 216328 MD5sum: 44c389f257f42b8d49245d7b9565015f SHA1: 4cc99e086c95b5cce42260abca646ddd1c1c14f6 SHA256: b5b5a26a38e7968ade41b0d0d44fe11337208d5fe75db5d028fbbc1688a8642c SHA512: 4150f22fef2926bdaf1cf0cd89b2d342162b0c3b834f739a540b4dfa0645cc5830d4ff164f040556261a21e856f457ff1674d402dc9378dcee4c4a79f80d07d5 Homepage: https://cran.r-project.org/package=matchedcc Description: CRAN Package 'matchedcc' ('Stata'-Like Matched Case-Control Analysis) Calculate multiple statistics with confidence intervals for matched case-control data including risk difference, risk ratio, relative difference, and the odds ratio. Results are equivalent to those from 'Stata', and you can choose how to format your input data. Methods used are those described on page 56 the 'Stata' documentation for "Epitab - Tables for Epidemologists" . Package: r-cran-matchfeat Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-clue, r-cran-foreach Filename: pool/dists/focal/main/r-cran-matchfeat_1.0-1.ca2004.1_all.deb Size: 186540 MD5sum: 2103d111c5d0def8b2861e6574ebc29d SHA1: aef60f07d3243723bc1bfbbef54fef328e8a4b71 SHA256: 607b218a0eb673160bf2e851bd10cbf33bd5cc000adab3cf418732c518867001 SHA512: df3d73c89ac9dc88399e51e07bc003e1ac40a3a962c1c228e7d594407d5deaa92830787a1de21b48bc5b7ed1acd72cb57d601f5eb0e6a3092dfda0e37bab434c Homepage: https://cran.r-project.org/package=matchFeat Description: CRAN Package 'matchFeat' (One-to-One Feature Matching) Statistical methods to match feature vectors between multiple datasets in a one-to-one fashion. Given a fixed number of classes/distributions, for each unit, exactly one vector of each class is observed without label. The goal is to label the feature vectors using each label exactly once so to produce the best match across datasets, e.g. by minimizing the variability within classes. Statistical solutions based on empirical loss functions and probabilistic modeling are provided. The 'Gurobi' software and its 'R' interface package are required for one of the package functions (match.2x()) and can be obtained at (free academic license). For more details, refer to Degras (2022) "Scalable feature matching for large data collections" and Bandelt, Maas, and Spieksma (2004) "Local search heuristics for multi-index assignment problems with decomposable costs". Package: r-cran-matchgate Architecture: all Version: 0.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-locpol Filename: pool/dists/focal/main/r-cran-matchgate_0.0.10-1.ca2004.1_all.deb Size: 21224 MD5sum: 7c6624a7b346f861be28e41fd879bfae SHA1: c200efe350d2a9ad9743e7e4082094a7ce2a8b81 SHA256: 3cf27f556b8a7f62ab0b12067e5e09b3be8f0e6931cfe2a7f5ab28a59a609ac2 SHA512: 6752bfed34eeef814b348f5a798fa534b6aa0c56bcc24d676185e4e879ce459641f12f56a9d36a0dbc4fd58d68f623c180a6919fdf2d9370d4ffc56fea2c27b8 Homepage: https://cran.r-project.org/package=MatchGATE Description: CRAN Package 'MatchGATE' (Estimate Group Average Treatment Effects with Matching) Two novel matching-based methods for estimating group average treatment effects (GATEs). The match_y1y0() and match_y1y0_bc() functions are used for imputing the potential outcomes based on matching and bias-corrected matching techniques, respectively. The EstGATE() function is employed to estimate the GATE after imputing the potential outcomes. Package: r-cran-matchlinreg Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 592 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-hmisc, r-cran-matching Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-matchlinreg_0.8.1-1.ca2004.1_all.deb Size: 475692 MD5sum: fffa1a57812a6f837bcf160d0fbc71fa SHA1: a082300fefd93fcbd02eeb931e61ba91466c57a1 SHA256: 16d1a90aae3f4f609d7906d192f2dfdfa476b5327989b9e52b13c04cbdbdb01a SHA512: 1f335122b6cb0e431ff0e224f09f9c1470b20ea0f6ef84e7a3462f905de5d8eec88759996c6e78b05f17cbb30f0d5596e0621855e7fad85695855c559c817a74 Homepage: https://cran.r-project.org/package=MatchLinReg Description: CRAN Package 'MatchLinReg' (Combining Matching and Linear Regression for Causal Inference) Core functions as well as diagnostic and calibration tools for combining matching and linear regression for causal inference in observational studies. Package: r-cran-matchmaker Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rlang, r-cran-forcats, r-cran-cli Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-matchmaker_0.1.1-1.ca2004.1_all.deb Size: 53912 MD5sum: 60f7ee5568006516fce2bdec38c0a4c9 SHA1: 17b0fd8be80c1f60dd5c089a77a4f838e1246585 SHA256: 50cd848c29b8968699acfd63d48a764ba54fd82ddca504891874bad6461dd437 SHA512: 3939f4c0691886423397ce5b6bda79f25eca556b05b5598e22e12471d0ddba989413475f7d4ac17b2472b882a49bd9ea3cfd8ff4c9df2711a560e1cdc65d9f0c Homepage: https://cran.r-project.org/package=matchmaker Description: CRAN Package 'matchmaker' (Flexible Dictionary-Based Cleaning) Provides flexible dictionary-based cleaning that allows users to specify implicit and explicit missing data, regular expressions for both data and columns, and global matches, while respecting ordering of factors. 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Functions for checking balance at the cluster and individual levels are also provided, as are methods for permutation-inference-based outcome analysis. Details in Pimentel et al. (2018) . The optmatch package, which is useful for running many of the provided functions, may be downloaded from Github at if not available on CRAN. Package: r-cran-matchr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rlang Filename: pool/dists/focal/main/r-cran-matchr_0.1.0-1.ca2004.1_all.deb Size: 106360 MD5sum: cc28905418b80bc0588527f453d1a677 SHA1: c2d9e56fc7e320634291f9348550cdfecfaed1b0 SHA256: 0bb8f5272cec2eb0367cdc4d9dc2cee7b01ccd4786477451379035d59aab05ee SHA512: 94957c6c632c9171ad2574c8572c160710250a830d8b40ad26e893890cc76ff977892a824fc2880dc60f58412a58e57fcf4ffaebc7ebb2697477120aa1562378 Homepage: https://cran.r-project.org/package=matchr Description: CRAN Package 'matchr' (Pattern Matching and Enumerated Types in R) Inspired by pattern matching and enum types in Rust and many functional programming languages, this package offers an updated version of the 'switch' function called 'Match' that accepts atomic values, functions, expressions, and enum variants. 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Package: r-cran-matchthem Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 687 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matchit, r-cran-mice, r-cran-rlang, r-cran-survey, r-cran-weightit Suggests: r-cran-amelia, r-cran-cobalt, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-matchthem_1.2.1-1.ca2004.1_all.deb Size: 606372 MD5sum: 63249d79f938487d12ea52b06976640a SHA1: a03d103523cc693a3889c44a27555a46878caab0 SHA256: 8afb137eb7ba5885c6993bd3a85107ab8736e896258fcfd92e50eacf189236dc SHA512: d0d5d7ac5dd559caa65cfe0e6311305cd0327068022da326d2e81c16cec3eeea6c22a2566d1c11811aa042ac6c5cc1b5a17173311415157e89f0a74c2db011d4 Homepage: https://cran.r-project.org/package=MatchThem Description: CRAN Package 'MatchThem' (Matching and Weighting Multiply Imputed Datasets) Provides essential tools for the pre-processing techniques of matching and weighting multiply imputed datasets. The package includes functions for matching within and across multiply imputed datasets using various methods, estimating weights for units in the imputed datasets using multiple weighting methods, calculating causal effect estimates in each matched or weighted dataset using parametric or non-parametric statistical models, and pooling the resulting estimates according to Rubin's rules (please see for more details). 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We provide novel tools for multi-source transfer learning under statistical models based on model averaging strategies, including linear regression models, partially linear models. Unlike existing transfer learning approaches, this method integrates the auxiliary information through data-driven weight assignments to avoid negative transfer. This is the first package for transfer learning based on the optimal model averaging frameworks, providing efficient implementations for practitioners in multi-source data modeling. The details are described in Hu and Zhang (2023) . 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These density forecasts are then be used to produce coherent forecasts for any downside risk measure, e.g., value-at-risk, expected shortfall, downside entropy. Initially introduced by Adrian et al. (2019) to reveal the vulnerability of economic growth to financial conditions, the MaR approach is currently extensively used by international financial institutions to provide Value-at-Risk (VaR) type forecasts for GDP growth (Growth-at-Risk) or inflation (Inflation-at-Risk). This package provides methods for estimating these models. Datasets for the US and the Eurozone are available to allow testing of the Adrian et al (2019) model. This package constitutes a useful toolbox (data and functions) for private practitioners, scholars as well as policymakers. 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This package is used for teaching and research purposes at the Department of Finance and Risk Engineering, New York University, Polytechnic Institute, Brooklyn, NY 11201. Horn, R.A. (1990) Matrix Analysis. ISBN 978-0521386326. Lancaster, P. (1969) Theory of Matrices. ISBN 978-0124355507. Lay, D.C. (1995) Linear Algebra: And Its Applications. ISBN 978-0201845563. 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Furthermore, the concept of biobanding, or grouping of athletes based on their biological development, instead of their chronological age, has been widely researched. The goal of this package is to help professionals working in the field of strength & conditioning and talent ID obtain common maturation metrics and as well as to quickly visualize this information via several plotting options. For the methods behind the computed maturation metrics implemented in this package refer to Khamis, H. J., & Roche, A. F. (1994) , Mirwald, R.L et al., (2002) and Cumming, Sean P. et al., (2017) . 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If the experimental conditions are equal to 2, the p-value for Hotelling's t^2 test is calculated. If the experimental conditions are great than 2, the p-value for Wilks' Lambda is determined and post-hoc test is reported too. Three multiple comparison procedures, Dunnett, Tukey, and sequential pairwise comparison, are implemented. The program computes the p-values and FDR (false discovery rate) q-values for all gene sets. The p-values for individual genes in a significant gene set are also listed. MAVTgsa generates two visualization output: a p-value plot of gene sets (GSA plot) and a GST-plot of the empirical distribution function of the ranked test statistics of a given gene set. A Random Forests-based procedure is to identify gene sets that can accurately predict samples from different experimental conditions or are associated with the continuous phenotypes. 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(Meisner, A, Parikh, CR, and Kerr, KF (2017) .) 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Eick, Jamie T. Bridgham, Douglas P. Anderson, Michael J. Harms, and Joseph W. Thornton (2017), "Robustness of Reconstructed Ancestral Protein Functions to Statistical Uncertainty" . 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Package: r-cran-maxeff Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-rpart, r-cran-spatstat.geom Suggests: r-cran-knitr, r-cran-groupedhyperframe, r-cran-survival, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-maxeff_0.1.1-1.ca2004.1_all.deb Size: 73480 MD5sum: eabe8d5acc522b57ec53377282a04523 SHA1: 35aae1579365a1c2e739efb85b979d07fd84ce4f SHA256: 32b41675e79e037614890fdca99990c73b0331a1539c4902cb43bdd1d09f19c1 SHA512: 9ee9169d432ed7bef1cda49f648171244ea88fb1778d81b1c70c87dd3ae04055d9063264eadfb2c786546214d27515a0d78fce166449929054bcf6155ca94a6e Homepage: https://cran.r-project.org/package=maxEff Description: CRAN Package 'maxEff' (Additional Predictor with Maximum Effect Size) Methods of selecting one from many numeric predictors for a regression model, to ensure that the additional predictor has the maximum effect size. 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Package: r-cran-maxlike Architecture: all Version: 0.1-11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 548 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-raster Suggests: r-cran-dismo Filename: pool/dists/focal/main/r-cran-maxlike_0.1-11-1.ca2004.1_all.deb Size: 517388 MD5sum: 1de402fe7ac7c8b56effa71ce04f83e8 SHA1: 03e70410bac84c01b1c29a6492b5bbdd562509b7 SHA256: 346c5e0b1cc5ec87f89d88a6cba76582cc18fa0b51e237cb9dee6cc04c9c8779 SHA512: ede2b494639daa05e2afc35ed04bdf85e3ea0d42860b82da9eab6819a7257813bd2416fdbdabd1c0f877c73b5c7923b6b148db62973fc567452948001d17260f Homepage: https://cran.r-project.org/package=maxlike Description: CRAN Package 'maxlike' (Model Species Distributions by Estimating the Probability ofOccurrence Using Presence-Only Data) Provides a likelihood-based approach to modeling species distributions using presence-only data. 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The two main features available are the Monte Carlo method with tie-breaker, mc(), for discrete statistics, and the Maximized Monte Carlo, mmc(), for statistics with nuisance parameters. Package: r-cran-maxnet Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-maxnet_0.1.4-1.ca2004.1_all.deb Size: 67052 MD5sum: 366045052de0e74ea0d336cb6fb86fe4 SHA1: 15ac29885a2f057a10915e1447b79a860431416e SHA256: 6b2c02338a0b059e71f40ebdb12d9e82967f5eb78e60c413d74ea908a94cd40f SHA512: 9f4a283d4b1063c634697c4f19f0a1c60af203355dd64b8ec5adda6f296c3f0871fc7a4b372a18e88ed04c73a43eeebce5bcc7bc07556abe46341c926e7848ed Homepage: https://cran.r-project.org/package=maxnet Description: CRAN Package 'maxnet' (Fitting 'Maxent' Species Distribution Models with 'glmnet') Procedures to fit species distributions models from occurrence records and environmental variables, using 'glmnet' for model fitting. Model structure is the same as for the 'Maxent' Java package, version 3.4.0, with the same feature types and regularization options. See the 'Maxent' website for more details. Package: r-cran-maxskew Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-maxskew_1.1-1.ca2004.1_all.deb Size: 34048 MD5sum: 3fe59fb7d9c7cdd4a6099bac3612906c SHA1: 490a5ef0239b46127fbe9f2ab309f659ae0621d6 SHA256: 8f6cef0197a44731cdd79de29806eeea580678bb071bd970f9f1d56aad9fa236 SHA512: 38b4a296af5ed5206a4c88872c32a34513ac30a180128b85162d90173b6f1b624ca3de033c8e9fa2a75ddac42e87a82ff606b54facc501280cbf86fe2fc03949 Homepage: https://cran.r-project.org/package=MaxSkew Description: CRAN Package 'MaxSkew' (Orthogonal Data Projections with Maximal Skewness) It finds Orthogonal Data Projections with Maximal Skewness. The first data projection in the output is the most skewed among all linear data projections. The second data projection in the output is the most skewed among all data projections orthogonal to the first one, and so on. 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Additionally, the meta-sampling heuristic algorithm is realized for parameter estimation, which requires no model runs and is dimension-independent. A sampling scheme is also presented that allows model runs and uses the meta-sampling for point generation. A predictor is realized as the meta-sampling for the model output. All the algorithms leverage a machine learning method utilizing the maxima weighted Isolation Kernel approach, or 'MaxWiK'. The method involves transforming raw data to a Hilbert space (mapping) and measuring the similarity between simulated points and the maxima weighted Isolation Kernel mapping corresponding to the observation point. Comprehensive details of the methodology can be found in the papers Iurii Nagornov (2024) and Iurii Nagornov (2023) . 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Applications include all fields of environmental monitoring (e.g. air and water quality) where data are collected at stationary sites. 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Utility functions use these data sets to return values such as country, state, time zone, watershed, etc. associated with a set of longitude/latitude pairs. (They also make cool maps.) Package: r-cran-mazamatimeseries Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1399 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-geodist, r-cran-lubridate, r-cran-magrittr, r-cran-mazamacoreutils, r-cran-mazamarollutils, r-cran-rlang, r-cran-stringr Suggests: r-cran-knitr, r-cran-markdown, r-cran-testthat, r-cran-rmarkdown, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-mazamatimeseries_0.3.1-1.ca2004.1_all.deb Size: 1155016 MD5sum: 32c62aabcd57e3daae0ff7a62b4854ad SHA1: d8da3113e0f13eef5e9d2bc5ce0fb2272cabede4 SHA256: 6b280b247695b352bf313eb51aec42598310592c036b0e413f9722a6e42bb382 SHA512: 6d64eff763464e322b500d0313e9008c522803da65f03c3ccd4febb6acb6414ff33ab544dc390fa24b0412c466690cbe9c245120e5fe68753224bd42b33dbbae Homepage: https://cran.r-project.org/package=MazamaTimeSeries Description: CRAN Package 'MazamaTimeSeries' (Core Functionality for Environmental Time Series) Utility functions for working with environmental time series data from known locations. The compact data model is structured as a list with two dataframes. A 'meta' dataframe contains spatial and measuring device metadata associated with deployments at known locations. A 'data' dataframe contains a 'datetime' column followed by columns of measurements associated with each "device-deployment". Ephemerides calculations are based on code originally found in NOAA's "Solar Calculator" . Package: r-cran-mazealls Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3978 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-turtlegraphics Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-mazealls_0.2.0-1.ca2004.1_all.deb Size: 3870728 MD5sum: 06d64c76b2da695912882b34f7206b87 SHA1: 75201ee694786302e62a4d31080fcf8515594b3c SHA256: 442d665fa42b603fc812a819455b020d7e9d87230e0f307de86e0b049c7a82d2 SHA512: c7d052b862c4706145703590d57242ce6d445234de704ee0daeb614e15f2790c76c74a86851c9692ccb2de989855741c444c7ed5efa8e327e0267ce96f983530 Homepage: https://cran.r-project.org/package=mazealls Description: CRAN Package 'mazealls' (Generate Recursive Mazes) Supports the generation of parallelogram, equilateral triangle, regular hexagon, isosceles trapezoid, Koch snowflake, 'hexaflake', Sierpinski triangle, Sierpinski carpet and Sierpinski trapezoid mazes via 'TurtleGraphics'. Mazes are generated by the recursive method: the domain is divided into sub-domains in which mazes are generated, then dividing lines with holes are drawn between them, see J. Buck, Recursive Division, . Package: r-cran-mazegen Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph Filename: pool/dists/focal/main/r-cran-mazegen_0.1.3-1.ca2004.1_all.deb Size: 233424 MD5sum: abbe0deb93d64ca0046fd8a79eeca486 SHA1: b45506c4adc5c196835f036d17de47eca59eb5a5 SHA256: 62509c782d4b13e78bd35f8e2431a488001a0031027815fadaf8c61bbccc7062 SHA512: 6f83ce68d70912795a0be9dfc444d94b953f0548b7824bbc68aff9687dc2d67bf2295da95c63540f60ced3ffc1f0110f8a04979fd8b6f936468547da6a2381c3 Homepage: https://cran.r-project.org/package=mazeGen Description: CRAN Package 'mazeGen' (Elithorn Maze Generator) A maze generator that creates the Elithorn Maze (HTML file) and the functions to calculate the associated maze parameters (i.e. Difficulty and Ability). 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This software can be used for the analysis and presentation of melting curve data from microbead-based assays (surface melting curve analysis) and reactions in solution (e.g., quantitative PCR (qPCR), real-time isothermal Amplification). Further information are described in detail in two publications in The R Journal [ ; ]. Package: r-cran-mbmethpred Architecture: all Version: 0.1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4261 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-stringr, r-cran-ggplot2, r-cran-catools, r-cran-caret, r-cran-keras, r-cran-mass, r-cran-rtsne, r-cran-snftool, r-cran-class, r-cran-dplyr, r-cran-e1071, r-cran-proc, r-cran-randomforest, r-cran-readr, r-cran-reshape2, r-cran-reticulate, r-cran-rgl, r-cran-tensorflow, r-cran-xgboost Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-scales Filename: pool/dists/focal/main/r-cran-mbmethpred_0.1.4.3-1.ca2004.1_all.deb Size: 4232240 MD5sum: 27e42e92a821d56ac9588577928d3d67 SHA1: 80517e4d6fca31a8971c8a8081162e6b343581a7 SHA256: 517d4938326850d2897e75b3763f2582447290fc8f0474b2159364298f942000 SHA512: d3485bbfce4de5ad5f669d6a27df3b3ffe6c0aeecf9a19abc5b7bdb46f4f3e34312bc07ccbe214bf6eea5c08d291128de0b275faa2a831fc2c256cea605e8d9d Homepage: https://cran.r-project.org/package=MBMethPred Description: CRAN Package 'MBMethPred' (Medulloblastoma Subgroups Prediction) Utilizing a combination of machine learning models (Random Forest, Naive Bayes, K-Nearest Neighbor, Support Vector Machines, Extreme Gradient Boosting, and Linear Discriminant Analysis) and a deep Artificial Neural Network model, 'MBMethPred' can predict medulloblastoma subgroups, including wingless (WNT), sonic hedgehog (SHH), Group 3, and Group 4 from DNA methylation beta values. See Sharif Rahmani E, Lawarde A, Lingasamy P, Moreno SV, Salumets A and Modhukur V (2023), MBMethPred: a computational framework for the accurate classification of childhood medulloblastoma subgroups using data integration and AI-based approaches. Front. Genet. 14:1233657. for more details. Package: r-cran-mbmixture Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-numderiv Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-devtools, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-mbmixture_0.6-1.ca2004.1_all.deb Size: 44216 MD5sum: 3b4c050bdb66642dddbb338f51c1f3d8 SHA1: 07d820c0de46f020df730078d4806a9b121ae98f SHA256: 35d69107b4d405a4b2874f20cb7e8d475fa65d8ecaba75b3fac8923193969d7a SHA512: 4c92d0a360196411904c362d5619ea2e3f3a4edd2c1dd7da1421fd9cd2dcf8690aaba124d977dd62ca6efebb791c708d0c26bedea0cb3ccb248b8c17459c696f Homepage: https://cran.r-project.org/package=mbmixture Description: CRAN Package 'mbmixture' (Microbiome Mixture Analysis) Evaluate whether a microbiome sample is a mixture of two samples, by fitting a model for the number of read counts as a function of single nucleotide polymorphism (SNP) allele and the genotypes of two potential source samples. Lobo et al. (2021) . Package: r-cran-mbnmadose Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1871 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-scales, r-cran-dplyr, r-cran-r2jags, r-cran-rjags, r-cran-magrittr, r-cran-checkmate, r-cran-rdpack, r-cran-igraph, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-overlapping, r-cran-rcolorbrewer, r-cran-mcmcplots, r-cran-coda, r-cran-testthat, r-cran-crayon, r-cran-forestplot, r-cran-ggdist, r-cran-zoo, r-cran-lspline, r-cran-formatr, r-cran-netmeta, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mbnmadose_0.5.0-1.ca2004.1_all.deb Size: 1257496 MD5sum: e220dd230231c1e303a1d144b4ca9edb SHA1: d7c2329d6dda7c668e9b1e543a996f6b931578ae SHA256: 3ac99f26e0fbc746a85e451fc3e0a283eab2ae7750525979b3142346838fbd41 SHA512: 6da9d23de32c86a960a7236e1dd70ab852516b19f66976d352b113767c238d10086d284856207be17c7267d2f153c3f30128e730558bc107a22772cf1fd6162e Homepage: https://cran.r-project.org/package=MBNMAdose Description: CRAN Package 'MBNMAdose' (Dose-Response MBNMA Models) Fits Bayesian dose-response model-based network meta-analysis (MBNMA) that incorporate multiple doses within an agent by modelling different dose-response functions, as described by Mawdsley et al. 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Package: r-cran-mbnmatime Architecture: all Version: 0.2.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3024 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-cran-gridextra, r-cran-dplyr, r-cran-r2jags, r-cran-rjags, r-cran-reshape2, r-cran-magrittr, r-cran-checkmate, r-cran-igraph, r-cran-scales, r-cran-lspline, r-cran-crayon, r-cran-ggplot2, r-cran-ggdist, r-cran-png, r-cran-zoo, r-cran-rdpack Suggests: r-cran-overlapping, r-cran-hmisc, r-cran-rmarkdown, r-cran-testthat, r-cran-rcolorbrewer, r-cran-mcmcplots Filename: pool/dists/focal/main/r-cran-mbnmatime_0.2.6-1.ca2004.1_all.deb Size: 2533620 MD5sum: 21d50596144ab79335ec0e1edb395f44 SHA1: 62915bd7d1cc62ebf709fcf02a41f999ff4fa5cd SHA256: f419b942a93cfadd4886327df08c9a3b9f9095c728448cf32cc25d0a3437d8af SHA512: 367438fbd178ab3f40347e48f4779830359fdf41198352bc7233f8130953c43300373b8f4b6e69d4f9ddcefd1c7904b67d59f13af9d90af7004b8beadb76d041 Homepage: https://cran.r-project.org/package=MBNMAtime Description: CRAN Package 'MBNMAtime' (Run Time-Course Model-Based Network Meta-Analysis (MBNMA) Models) Fits Bayesian time-course models for model-based network meta-analysis (MBNMA) that allows inclusion of multiple time-points from studies. Repeated measures over time are accounted for within studies by applying different time-course functions, following the method of Pedder et al. (2019) . The method allows synthesis of studies with multiple follow-up measurements that can account for time-course for a single or multiple treatment comparisons. Several general time-course functions are provided; others may be added by the user. Various characteristics can be flexibly added to the models, such as correlation between time points and shared class effects. The consistency of direct and indirect evidence in the network can be assessed using unrelated mean effects models and/or by node-splitting. Package: r-cran-mboxr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reticulate, r-cran-tibble, r-cran-magrittr, r-cran-purrr, r-cran-dplyr, r-cran-lubridate, r-cran-stringr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-mboxr_0.2.0-1.ca2004.1_all.deb Size: 28652 MD5sum: 76c9a9676a0c06b82d62365b412e514a SHA1: f591b69c0149c5e8594908415159448f16de67f8 SHA256: a4fa3911b780103e6ee5f768a92774752a69e2c3381e2202d26cb6bb1afb3348 SHA512: 4fc282a1e2b578c3b4f51cdc4137b1556c0eeb4941f9f3167696bf65a6393cc912ce2508039e1ae22b8abb047483297ed1646e1640fcbe7fcb172c5a8a5b3194 Homepage: https://cran.r-project.org/package=mboxr Description: CRAN Package 'mboxr' (Reading, Extracting, and Converting an Mbox File into a Tibble) Importing and converting an mbox file into a tibble object. Package: r-cran-mbr Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-dplr, r-cran-mass, r-cran-matrix, r-cran-rfast Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mbr_0.0.1-1.ca2004.1_all.deb Size: 81252 MD5sum: 680612a8b4cb174cd64e3d4ad07232f9 SHA1: 174a3b7e2bf2f58deb7e1b772f11bf7531444541 SHA256: cdc399e717c47859c2ff4ab3d2ec2a834dcc05afe6eb7f356da75cb2b0a25949 SHA512: 73513bd9df44f21e8bc0c5c55992b95979a3c81a5e64cb1b632b0d363837571d6ac01b8f5302ba6cbe3989d0e22196c9457ddf581cf87b9a54e330c31e847424 Homepage: https://cran.r-project.org/package=mbr Description: CRAN Package 'mbr' (Mass Balance Reconstruction) Mass-balance-adjusted Regression algorithm for streamflow reconstruction at sub-annual resolution (e.g., seasonal or monthly). 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Usual dimension reduction methods in multivariate regression focus on the reduction of predictors, not responses. The response dimension reduction is theoretically founded in Yoo and Cook (2008) . Later, three model-based response dimension reduction approaches are proposed in Yoo (2016) and Yoo (2019) . The method by Yoo and Cook (2008) is based on non-parametric ordinary least squares, but the model-based approaches are done through maximum likelihood estimation. For two model-based response dimension reduction methods called principal fitted response reduction and unstructured principal fitted response reduction, chi-squared tests are provided for determining the dimension of the response subspace. Package: r-cran-mbreaks Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 449 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mbreaks_1.0.1-1.ca2004.1_all.deb Size: 312056 MD5sum: 09f03d112befc1d1451b07f2a32906a6 SHA1: eaeb89e6d4ef0711095425e28ebb14162484a845 SHA256: ba5c7ee7525b42b376b6a3b9cf38d9589279f029100336182f7b277dee23fbdb SHA512: f441b75a9660fecfa292cf7813b45109040802ed89b2200f38233fc05f733c4bc054c23a1bec261d8dfedea132328e138590716987d2cbd1ec6982c001b1d217 Homepage: https://cran.r-project.org/package=mbreaks Description: CRAN Package 'mbreaks' (Estimation and Inference for Structural Breaks in LinearRegression Models) Functions provide comprehensive treatments for estimating, inferring, testing and model selecting in linear regression models with structural breaks. The tests, estimation methods, inference and information criteria implemented are discussed in Bai and Perron (1998) "Estimating and Testing Linear Models with Multiple Structural Changes" . Package: r-cran-mbres Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-cowplot, r-cran-magrittr, r-cran-tibble, r-cran-dplyr, r-cran-forcats, r-cran-tidyr, r-cran-purrr, r-cran-data.table, r-cran-scales Suggests: r-cran-rprobsup Filename: pool/dists/focal/main/r-cran-mbres_0.1.7-1.ca2004.1_all.deb Size: 111060 MD5sum: 50aff4c896bad45cde77fa40ee77c5bc SHA1: d23c174646efba36615f41c0c830ae08f9b37b8e SHA256: 0694707f5a48db350961058f1253ab850796a9585be64a4a9144d20f5f2a09ee SHA512: 5d3e48e226e90117a60118e4c72334fab63dee8aa7ac422d195cc30944a64b206175a785ae9f3adc3a1a1a21e6e12fbd7c159b14240673becabdd59ce2869e33 Homepage: https://cran.r-project.org/package=mbRes Description: CRAN Package 'mbRes' (Exploration of Multiple Biomarker Responses using Effect Size) Summarize multiple biomarker responses of aquatic organisms to contaminants using Cliff’s delta, as described in Pham & Sokolova (2023) . 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Specifically, the package provides facilities for implementing general structural time series models, flexibly adding on different time series components (trend, season, cycle, and regression), simulating them, fitting them to multivariate correlated time series data, conducting feature selection on the regression component. Package: r-cran-mbx Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 280 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readxl, r-cran-openxlsx, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mbx_0.1.3-1.ca2004.1_all.deb Size: 72812 MD5sum: 994025f4d185dea8a0dd7c3fcd4aa057 SHA1: 368251f977b45b0957555c54d727735648c2c173 SHA256: 5d944971cb78de709c9e19e55732f4c972be819c7040566128487c1b549ec3af SHA512: 9719acaa5e2890ce7122c5c412f1dae2a2af451c1d8b19c916384af28ef193bfa50a0f1b49c189b69b3250084293c5700843ad4017faafbf737fa358a41c72e9 Homepage: https://cran.r-project.org/package=mbX Description: CRAN Package 'mbX' (A Comprehensive Microbiome Data Processing Pipeline) Provides tools for cleaning, processing, and preparing microbiome sequencing data (e.g., 16S rRNA) for downstream analysis. Supports CSV, TXT, and 'Excel' file formats. 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Package: r-cran-mc.heterogeneity Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-metafor, r-cran-boot.heterogeneity Suggests: r-cran-hsaur3, r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mc.heterogeneity_0.1.2-1.ca2004.1_all.deb Size: 56148 MD5sum: 512485043cc5411042e7708838c5436e SHA1: 81e6385acc71c11cb7947e0e4876cc6880dd6b77 SHA256: e0e797fd6fd7c4c75bb4716d223ad135a69c3f128083c3baf25aca9abb4ee108 SHA512: 9a1d73995460b6976ca7fc2abad77c6d19607d2b8e99769a8c5d3027bee987b22efcb456cc838490bb0cf006ef5f1da625818ee1f7c9b59dbcfa7fd40bf1ae07 Homepage: https://cran.r-project.org/package=mc.heterogeneity Description: CRAN Package 'mc.heterogeneity' (A Monte Carlo Based Heterogeneity Test for Meta-Analysis) Implements a Monte Carlo Based Heterogeneity Test for standardized mean differences (d), Fisher-transformed Pearson's correlations (r), and natural-logarithm-transformed odds ratio (OR) in Meta-Analysis Studies. Depending on the presence of moderators, this Monte Carlo Based Test can be implemented in the random or mixed-effects model. This package uses rma() function from the R package 'metafor' to obtain parameter estimates and likelihood, so installation of R package 'metafor' is required. This approach refers to the studies of Hedges (1981) , Hedges & Olkin (1985, ISBN:978-0123363800), Silagy, Lancaster, Stead, Mant, & Fowler (2004) , Viechtbauer (2010) , and Zuckerman (1994, ISBN:978-0521432009). Package: r-cran-mc2d Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1820 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm, r-cran-ggplot2, r-cran-ggpubr Suggests: r-cran-fitdistrplus, r-cran-survival, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mc2d_0.2.1-1.ca2004.1_all.deb Size: 1395856 MD5sum: 10b1c52a417a629434406db072f19702 SHA1: a0909f59b35c4dad4885eab39ae083911157178c SHA256: 747ef13ca56ef9ef03918b4e2b1ede1ce57c715524f7eaa2049cb01af527d8d5 SHA512: 55691e452e5773bc92c75541b21af8e8ad4869908cb6493b474fc75b78ae8bdf35cd5e7a10136f4f36ba5932ce2fd7869d8f7d98afd8632842fabbda86bd4a3b Homepage: https://cran.r-project.org/package=mc2d Description: CRAN Package 'mc2d' (Tools for Two-Dimensional Monte-Carlo Simulations) A complete framework to build and study Two-Dimensional Monte-Carlo simulations, aka Second-Order Monte-Carlo simulations. Also includes various distributions (pert, triangular, Bernoulli, empirical discrete and continuous). Package: r-cran-mc2topath Architecture: all Version: 0.0.16-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 916 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rnetcdf Filename: pool/dists/focal/main/r-cran-mc2topath_0.0.16-1.ca2004.1_all.deb Size: 366040 MD5sum: 407816ca257cb49bff838ee391454fac SHA1: 8235d1b51e3e6c1c691c0e94fcfab4436f14da0f SHA256: 602f57fc980d029bcedf0eacdb28777c5f64dc9c959570e52091b0fa78b2c87b SHA512: 357fc46cffab85eda3a7e3f8e6ce1dc54fc6144e027a5e81afaf5f74f5bf09a29d96c3035d672b3756a47cf6a707a5327ca488314998cd3c39e3c01a534f575a Homepage: https://cran.r-project.org/package=MC2toPath Description: CRAN Package 'MC2toPath' (Translates information from netcdf files with MC2 output intointer-PVT transitions) Post processes MC2 output, especially for use by Path or ST-Sim. MC2 (short for "MC1 version 2") is a dynamic global vegetation model (en.wikipedia.org/wiki/DGVM). Path (essa.com/tools/path) and ST-Sim (www.apexrms.com) are state-and-transition model (STM) engines. MC2 has a user website at sites.google.com/site/mc1dgvmusers. Since 2001, MC1 has been used to simulate changes in natural vegetation due to climate change at scales from regional to global. In 2012, MC1 was reimplemented in C++ to make it faster and to reduce storage requirements. This newer version is referred to as MC2, an abbreviation of "MC1 version 2". Beginning in 2011, output from MC1 and MC2 has been used to inform regional state-and-transition model simulations by the U.S. Forest Service and the Washington State Department of Natural Resources. Projects to date have involved study areas in central Oregon, the Olympic Peninsula, the Blue Mountains ecoregion, southwestern Oregon, and southeastern Oregon. In the first of this series of projects, the netCDF output files from MC2 were manually post-processed, mostly in Excel, to produce input .csv files for the STM engines. Beginning with the second project, R scripts were used to automate the post-processing work. These R scripts have been collected into the MC2toPath R-package. Package: r-cran-mcauchyd Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rgl, r-cran-mass, r-cran-lifecycle, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mcauchyd_1.3.3-1.ca2004.1_all.deb Size: 59680 MD5sum: 6cb832df0b12d3efefa40ac13f44a3cc SHA1: f5e5a4448fdb3019bf059eec37ea3624a14a404e SHA256: b6a9e93a29fb3b84741bc61ea12118d35a3fdca52e11a6bc568c5415f105788f SHA512: e1492367b550e0068ac64af1c2f7d091cfc613c23c6800774dd7a986e6d0454f0170444ab80999198c01b3eea877110ac90fd01839d4b6fc73a4377d4d853d70 Homepage: https://cran.r-project.org/package=mcauchyd Description: CRAN Package 'mcauchyd' (Multivariate Cauchy Distribution; Kullback-Leibler Divergence) Distance between multivariate Cauchy distributions, as presented by N. Bouhlel and D. Rousseau (2022) . Manipulation of multivariate Cauchy distributions. Package: r-cran-mcavariants Architecture: all Version: 2.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-ggrepel, r-cran-gridextra, r-cran-plotly Filename: pool/dists/focal/main/r-cran-mcavariants_2.6.1-1.ca2004.1_all.deb Size: 90120 MD5sum: e7a3712e79fae735d194232c0619744d SHA1: 303eb896a820d19fb12162f9b95effdda9da03c3 SHA256: 2b22053a2da21123fc3d51dbbec015d576b1f973c11fd5016294103f47bab908 SHA512: e556a221b774146f28ebb63bb5d24674c6052ed246d70a318939a59ba82e68320b6910d1a01dbc4a3e03453fd6520908dd8e3b3ab1b53409b879cbbcffa7934b Homepage: https://cran.r-project.org/package=MCAvariants Description: CRAN Package 'MCAvariants' (Multiple Correspondence Analysis Variants) Provides two variants of multiple correspondence analysis (ca): multiple ca and ordered multiple ca via orthogonal polynomials of Emerson. Package: r-cran-mcb Architecture: all Version: 0.1.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-leaps, r-cran-lars, r-cran-mass, r-cran-glmnet, r-cran-ncvreg, r-cran-smoothmest, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-flare, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mcb_0.1.15-1.ca2004.1_all.deb Size: 61900 MD5sum: 28a08c9f16c2cd6356cd901ce1b8562d SHA1: 3617b601e78d10b13e27a5e083c368ebf8b81ef2 SHA256: fe6ae667d5f30870e29fd7b701a04acbd0083e8b2c2abcade5371e5926551c2a SHA512: df727d8c3ea3b0428d12d617117ae4b50320fbe14d2b0179961dc3dd8544265a61221ff220e96fffc40c8e306a94f9888102e453af7749b5202c4ebdbf2591c9 Homepage: https://cran.r-project.org/package=mcb Description: CRAN Package 'mcb' (Model Confidence Bounds) When choosing proper variable selection methods, it is important to consider the uncertainty of a certain method. The model confidence bound for variable selection identifies two nested models (upper and lower confidence bound models) containing the true model at a given confidence level. A good variable selection method is the one of which the model confidence bound under a certain confidence level has the shortest width. When visualizing the variability of model selection and comparing different model selection procedures, model uncertainty curve is a good graphical tool. A good variable selection method is the one of whose model uncertainty curve will tend to arch towards the upper left corner. This function aims to obtain the model confidence bound and draw the model uncertainty curve of certain single model selection method under a coverage rate equal or little higher than user-given confidential level. About what model confidence bound is and how it work please see Li,Y., Luo,Y., Ferrari,D., Hu,X. and Qin,Y. (2019) Model Confidence Bounds for Variable Selection. Biometrics, 75:392-403. . Besides, 'flare' is needed only you apply the SQRT or LAD method ('mcb' totally has 8 methods). Although 'flare' has been archived by CRAN, you can still get it in and the latest version is useful for 'mcb'. Package: r-cran-mcbackscattering Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mcbackscattering_0.1.1-1.ca2004.1_all.deb Size: 85556 MD5sum: 7bddd7746301effad966294c88ca3602 SHA1: d2a184b67aaa1a0a6a17f5175265af687f9c80ba SHA256: 5ad5a3efbaccdc4649d3ebd876676371e5ccc8067e7bbd7568c926b871543c2d SHA512: a90d5e447befa0ec559ae5e5e5c613411b307a16d5c2459a5b60a36050c9215fad521a8cbf454817478c5cb2107ee4c4c308ec6cef502d9dd57adce006879015 Homepage: https://cran.r-project.org/package=MCBackscattering Description: CRAN Package 'MCBackscattering' (Monte Carlo Simulation for Surface Backscattering) Monte Carlo simulation is a stochastic method computing trajectories of photons in media. Surface backscattering is performing calculations in semi-infinite media and summarizing photon flux leaving the surface. This simulation is modeling the optical measurement of diffuse reflectance using an incident light beam. The semi-infinite media is considered to have flat surface. Media, typically biological tissue, is described by four optical parameters: absorption coefficient, scattering coefficient, anisotropy factor, refractive index. The media is assumed to be homogeneous. Computational parameters of the simulation include: number of photons, radius of incident light beam, lowest photon energy threshold, intensity profile (halo) radius, spatial resolution of intensity profile. You can find more information and validation in the Open Access paper. Laszlo Baranyai (2020) . Package: r-cran-mcbette Architecture: all Version: 1.15.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2816 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-babette, r-cran-beautier, r-cran-beastier, r-cran-curl, r-cran-devtools, r-cran-mauricer, r-cran-rmpfr, r-cran-testit, r-cran-txtplot Suggests: r-cran-ape, r-cran-ggplot2, r-cran-hunspell, r-cran-knitr, r-cran-lintr, r-cran-markdown, r-cran-nltt, r-cran-phangorn, r-cran-rappdirs, r-cran-rmarkdown, r-cran-spelling, r-cran-stringr, r-cran-testthat, r-cran-tracerer Filename: pool/dists/focal/main/r-cran-mcbette_1.15.3-1.ca2004.1_all.deb Size: 2006456 MD5sum: ff0274e25eba2017d4a0ec7d9c83ac43 SHA1: c33529310b3f7bcc080658aab2b6f4702e8e0989 SHA256: e4bce2c32aad5eb2f1631c83b38f9eb31bc097c254a8089c029521e3cd389c92 SHA512: 08e364e9975f0804101b29f99e8491c8845fca00c5f3344710a6e60da14e7dbb0e9c087b62e29d23da7f0d0bbe39edd987810a59d5dc66036182341192503cbc Homepage: https://cran.r-project.org/package=mcbette Description: CRAN Package 'mcbette' (Model Comparison Using 'babette') 'BEAST2' () is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'mcbette' allows to do a Bayesian model comparison over some site and clock models, using 'babette' (). Package: r-cran-mcbftest Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-mcbftest_0.1.0-1.ca2004.1_all.deb Size: 13064 MD5sum: f46e27d2b3c480c7c7cbc2e41ada7656 SHA1: 0437ec42d915c4d3c17e1cc869cfe54fd7e73a0e SHA256: 86a2cf25f781d87f4889abf0ca35c0dfb8c074aa619bbf1137d3cb634e81dab7 SHA512: 305c5274e6d7d94d1b7e79ce509f2a92fcf79156ab97d8e63773381699b1bdbfce655d818c8a11675ac4c814005d5c67a0923fc84bb32c0f3bc3df972462684d Homepage: https://cran.r-project.org/package=mcBFtest Description: CRAN Package 'mcBFtest' (Monte Carlo Based Tests for the Behrens Fisher Problem as anAlternative to Welch's t-Approximation) Monte Carol based tests for the Behrens Fisher Problem enhance the statistical power and performs better than Welch's t-approximation, see Ullah et al. (2019). Package: r-cran-mcbiopi Architecture: all Version: 1.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mcbiopi_1.1.6-1.ca2004.1_all.deb Size: 30912 MD5sum: 7de15b19086ea1efe6974e89d799a306 SHA1: d48dd9cb4b783be69402c50978b4e03054848e68 SHA256: 0befb30c48232adbd8fdd9af129d44188a179c2598d126aecdeff59f0ee42336 SHA512: 6a8a19bde0f67b624d2808ff89cfd2c1c055c38b0c5eba81ee7ffb13ff021f1b70a68e98188934c793afd721d5f32f1421a1da92e508a8fe0aef0cbfd27453f6 Homepage: https://cran.r-project.org/package=mcbiopi Description: CRAN Package 'mcbiopi' (Matrix Computation Based Identification of Prime Implicants) Computes the prime implicants or a minimal disjunctive normal form for a logic expression presented by a truth table or a logic tree. Has been particularly developed for logic expressions resulting from a logic regression analysis, i.e. logic expressions typically consisting of up to 16 literals, where the prime implicants are typically composed of a maximum of 4 or 5 literals. Package: r-cran-mcboost Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 610 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-backports, r-cran-checkmate, r-cran-data.table, r-cran-mlr3, r-cran-mlr3misc, r-cran-mlr3pipelines, r-cran-r6, r-cran-rmarkdown, r-cran-rpart, r-cran-glmnet Suggests: r-cran-curl, r-cran-lgr, r-cran-formattable, r-cran-tidyverse, r-cran-practools, r-cran-mlr3learners, r-cran-mlr3oml, r-cran-neuralnet, r-cran-paradox, r-cran-knitr, r-cran-ranger, r-cran-xgboost, r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mcboost_0.4.3-1.ca2004.1_all.deb Size: 309928 MD5sum: b6ec85892aff6670b8e7264d197d00cd SHA1: 1c4cd2714e833cc3c9bde878e5ad756bec127bcc SHA256: 328dc621cbc7b0d76c41db9b845d9db93ca2ae148b01efdc0b08ab280c58e046 SHA512: c0275177d240c871c50a537a22bb959f7ed8cc26d4ec97e6ad358f3f44f0cceff9eaef82baafd133d843a257a9c41a2a828190bfad44eadd21a4a6e5087de5fc Homepage: https://cran.r-project.org/package=mcboost Description: CRAN Package 'mcboost' (Multi-Calibration Boosting) Implements 'Multi-Calibration Boosting' (2018) and 'Multi-Accuracy Boosting' (2019) for the multi-calibration of a machine learning model's prediction. 'MCBoost' updates predictions for sub-groups in an iterative fashion in order to mitigate biases like poor calibration or large accuracy differences across subgroups. Multi-Calibration works best in scenarios where the underlying data & labels are unbiased, but resulting models are. This is often the case, e.g. when an algorithm fits a majority population while ignoring or under-fitting minority populations. Package: r-cran-mcc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mcc_1.0-1.ca2004.1_all.deb Size: 38120 MD5sum: f6f571a55e969700102eb05e6ad90123 SHA1: 270373d5c2fc0fdda1f7face3308e332696959d5 SHA256: ab38ed73a0ecfcf57ddc21b49c2d2b018bf43a1de9cde17723129e0251f1f093 SHA512: 0287b711580c764a19c77cd34a8bee7d55493a4caadebff1d0a4998c6f731da064a2be64063d7ac14fc09454c5a3a32e3a4253f3ca3eb42e9420590d40e2461e Homepage: https://cran.r-project.org/package=mcc Description: CRAN Package 'mcc' (Moment Corrected Correlation) A number of biomedical problems involve performing many hypothesis tests, with an attendant need to apply stringent thresholds. Often the data take the form of a series of predictor vectors, each of which must be compared with a single response vector, perhaps with nuisance covariates. Parametric tests of association are often used, but can result in inaccurate type I error at the extreme thresholds, even for large sample sizes. Furthermore, standard two-sided testing can reduce power compared to the doubled p-value, due to asymmetry in the null distribution. Exact (permutation) testing approaches are attractive, but can be computationally intensive and cumbersome. MCC is an approximation to exact association testing of two vectors that is accurate and fast enough for standard use in high-throughput settings, and can easily provide standard two-sided or doubled p-values. Package: r-cran-mcca Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnet, r-cran-rpart, r-cran-e1071, r-cran-mass, r-cran-proc, r-cran-caret, r-cran-rgl Filename: pool/dists/focal/main/r-cran-mcca_0.7.0-1.ca2004.1_all.deb Size: 102068 MD5sum: b68e6286fc79f5353209061ba536c6e5 SHA1: c4574500fd8d6d097a24c90388d6654840d60a89 SHA256: 26231a046c6e426caf205a564cccd71d1be07e5ef77ce85ff4f66dc39e0f6c30 SHA512: 35ff0236216748137090dc64fc9566ba763d7d92f878fe4f3b0c26680c29d0c4d3dfbf502507d192830b2bb6d2a4918a61d5af1cbb78ae8148882800b5b080d8 Homepage: https://cran.r-project.org/package=mcca Description: CRAN Package 'mcca' (Multi-Category Classification Accuracy) It contains six common multi-category classification accuracy evaluation measures. All of these measures could be found in Li and Ming (2019) . Specifically, Hypervolume Under Manifold (HUM), described in Li and Fine (2008) . Correct Classification Percentage (CCP), Integrated Discrimination Improvement (IDI), Net Reclassification Improvement (NRI), R-Squared Value (RSQ), described in Li, Jiang and Fine (2013) . Polytomous Discrimination Index (PDI), described in Van Calster et al. (2012) . Li et al. (2018) . We described all these above measures and our mcca package in Li, Gao and D'Agostino (2019) . Package: r-cran-mccf1 Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-rocr Filename: pool/dists/focal/main/r-cran-mccf1_1.1-1.ca2004.1_all.deb Size: 23436 MD5sum: c0cb19455adf11f631f41a79cc5e2213 SHA1: 2b56b1277b919638149fab691c577c5541da3100 SHA256: cee5b821e71d139eabe87281146b32f60c5d6bf9039bf3d35a9c6e81a0af21a5 SHA512: 026524fc466448b68cfa4c9ae98212396c8f85cb1db0922e14c141c1655c97082a48eb78d734425f836d84e0b94011e1d78c74bc3b07108cfb42ea898b6bbb03 Homepage: https://cran.r-project.org/package=mccf1 Description: CRAN Package 'mccf1' (Creates the MCC-F1 Curve and Calculates the MCC-F1 Metric andthe Best Threshold) The MCC-F1 analysis is a method to evaluate the performance of binary classifications. The MCC-F1 curve is more reliable than the Receiver Operating Characteristic (ROC) curve and the Precision-Recall (PR)curve under imbalanced ground truth. The MCC-F1 analysis also provides the MCC-F1 metric that integrates classifier performance over varying thresholds, and the best threshold of binary classification. Package: r-cran-mccm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-polycor, r-cran-lavaan, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mccm_0.1.0-1.ca2004.1_all.deb Size: 180616 MD5sum: 969c530054e70f5bcde1d2522b13995f SHA1: 26a7acb746456f8feb34cc9b61158bae842156d6 SHA256: ff9e86db900619a93b150a1d946a1c34a5d67f2b22835cf721708b8bbfd0b688 SHA512: a16a9602f2c4e5f720482f3884724cd5d6c58db26689d02caa7d77a0ab13460414f86d0ae7068482069c1df397c4257bd034ef283e35fba5cd7306d511b16e9a Homepage: https://cran.r-project.org/package=MCCM Description: CRAN Package 'MCCM' (Mixed Correlation Coefficient Matrix) The IRLS (Iteratively Reweighted Least Squares) and GMM (Generalized Method of Moments) methods are applied to estimate mixed correlation coefficient matrix (Pearson, Polyseries, Polychoric), which can be estimated in pairs or simultaneously. For more information see Peng Zhang and Ben Liu (2024) ; Ben Liu and Peng Zhang (2024) . 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Sébastien Bigaret, Richard Hodgett, Patrick Meyer, Tatyana Mironova, Alexandru Olteanu (2017) Supporting the multi-criteria decision aiding process : R and the MCDA package, Euro Journal On Decision Processes, Volume 5, Issue 1 - 4, pages 169 - 194 . 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Bisson and Jiwei Zhao (2021) . Package: r-cran-mcl Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-expm Filename: pool/dists/focal/main/r-cran-mcl_1.0-1.ca2004.1_all.deb Size: 18868 MD5sum: 1c6b345aee61fed3c73c96b08a8dd41f SHA1: 6b008bcba7f5befed2fe9598f8f7d009c7cc9b76 SHA256: e4a23b0be5c0dd0949d5632967c69b83d409ece372ae1379ec60ccb033428d6a SHA512: a0ad2575b9178dc6ae116f4d2f8f439e48232f26575314df2b6c9629c830454366c978081deeab9ff63cdfd7f6929213c541c2ec4b6ab545a19dff43ac3f894f Homepage: https://cran.r-project.org/package=MCL Description: CRAN Package 'MCL' (Markov Cluster Algorithm) Contains the Markov cluster algorithm (MCL) for identifying clusters in networks and graphs. The algorithm simulates random walks on a (n x n) matrix as the adjacency matrix of a graph. It alternates an expansion step and an inflation step until an equilibrium state is reached. 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Control genes are not required but can be incorporated as Bayesian priors or, when template abundances correlate with conditions, as trackers of global effects (common to all genes). The package also implements a lognormal model for higher-abundance data and a "classic" model involving multi-gene normalization on a by-sample basis. Several plotting functions are included to extract and visualize results. The detailed tutorial is available here: . 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It contains some extreme datasets, and functions that perform the runs of posterior points of the GPD and GEV distribution. The package calculate some important extreme measures like return level for each t periods of time, and some plots as the predictive distribution, and return level plots. 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It supports the new edge reversal move from Grzegorczyk and Husmeier (2008) and the Markov blanket resampling from Su and Borsuk (2016) . It supports three priors: a prior controlling for structure complexity from Koivisto and Sood (2004) , an uninformative prior and a user-defined prior. The three main problems that can be addressed by this R package are selecting the most probable structure based on a cache of pre-computed scores, controlling for overfitting, and sampling the landscape of high scoring structures. It allows us to quantify the marginal impact of relationships of interest by marginalizing out over structures or nuisance dependencies. Structural MCMC seems an elegant and natural way to estimate the true marginal impact, so one can determine if it's magnitude is big enough to consider as a worthwhile intervention. 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This allows Bayesian models to be fitted without the inclusion of derived parameters which add unnecessary clutter and slow model fitting. For more information on MCMC samples see Brooks et al. (2011) . 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Two samplers are proposed: the 'differential.evolution' sampler from ter Braak and Vrugt (2008) and the 'stretch' sampler from Goodman and Weare (2010) . 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For more information see Brooks et al. (2011) . 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Functions support simple and straightforward subsetting of model parameters within the calls, and produce presentable and 'publication-ready' output. MCMC output may be derived from Bayesian model output fit with 'Stan', 'NIMBLE', 'JAGS', and other software. 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However, in recent years, routinely collected family planning services data (Service Statistics) have been used as a supplementary data source to bridge gaps in the surveys. The use of service statistics comes with the caveat that adjustments need to be made for missing private sector contributions to the contraceptive method supply chain. Evaluating the supply source of modern contraceptives often relies on Demographic Health Surveys (DHS), where many countries do not have recent data beyond 2015/16. Fortunately, in the absence of recent surveys we can rely on statistical model-based estimates and projections to fill the knowledge gap. We present a Bayesian, hierarchical, penalized-spline model with multivariate-normal spline coefficients, to account for across method correlations, to produce country-specific,annual estimates for the proportion of modern contraceptive methods coming from the public and private sectors. This package provides a quick and convenient way for users to access the DHS modern contraceptive supply share data at national and subnational administration levels, estimate, evaluate and plot annual estimates with uncertainty for a sample of low- and middle-income countries. Methods for the estimation of method supply shares at the national level are described in Comiskey, Alkema, Cahill (2022) . 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With implementations for binomial proportions in a 2xk setting (risk difference and odds ratio), poly-3-adjusted tumour rates, biodiversity indices (multinomial data) and expected values under lognormal assumption. Approximative power calculation for multiple contrast tests of binomial and Gaussian data. 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Many functions rely on the 'DoseFinding' package. This package makes it so the user does not need to provide or calculate the mu vector and S matrix. Instead, the user typically supplies the data in its raw form, and this package will calculate the needed objects and passes them into the 'DoseFinding' functions. If the user wishes to primarily use the functions provided in the 'DoseFinding' package, a singular function (prepareGen()) will provide mu and S. The package currently handles power analysis and the MCP-Mod procedure for negative binomial, Poisson, and binomial data. The MCP-Mod procedure can also be applied to survival data, but power analysis is not available. Bretz, F., Pinheiro, J. C., and Branson, M. (2005) . Buckland, S. T., Burnham, K. P. and Augustin, N. H. (1997) . Pinheiro, J. C., Bornkamp, B., Glimm, E. and Bretz, F. (2014) . 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More information on the Medicare program, as well as guidance for the publicly available data this package targets, can be found on CMS's website covering publicly available data. See . 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Package: r-cran-medits Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1746 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-rgdal, r-cran-sp, r-cran-raster, r-cran-rgeos, r-cran-hms, r-cran-tibble, r-cran-vegan Filename: pool/dists/focal/main/r-cran-medits_0.1.7-1.ca2004.1_all.deb Size: 1668140 MD5sum: 6eac8bb7027729b995bf1ea3463e7249 SHA1: 9735f1aedd5407847ba3a9344d46c6ddc0d62dd8 SHA256: cf645590cdc0625ce0cbf9dcdaf67ce2d551994391f3af802b412fa3a1ea6a6f SHA512: 777c7e3f771f39d65cead3e34ae6f55ad2659b6fda2edd456af411118fbec3f6e1bb823f265f110395e62eb1bdada51c2569d1349efe86b3583fc31d35ab08f4 Homepage: https://cran.r-project.org/package=MEDITS Description: CRAN Package 'MEDITS' (Analysis of MEDITS-Like Survey Data) Set of functions working with survey data in the format of the MEDITS project . In this version, functions use TA, TB and TC tables respectively containing haul, catch and aggregated biological data. 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The features of each species is recorded by manually viewing the medicinal plant repository available at (). You can also download repository of leaf images of 1099 medicinal plants in Sri Lanka. 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Package: r-cran-medrxivr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 878 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-curl, r-cran-jsonlite, r-cran-httr, r-cran-stringr, r-cran-rlang, r-cran-bib2df, r-cran-tibble, r-cran-progress, r-cran-lubridate, r-cran-purrr, r-cran-data.table Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-kableextra, r-cran-spelling Filename: pool/dists/focal/main/r-cran-medrxivr_0.1.1-1.ca2004.1_all.deb Size: 362180 MD5sum: 25cd2876711ecfb66cabb930554aa555 SHA1: 2dbc04085a8f6d6fb352d61e2b68f1b23dcc5014 SHA256: 836e0634e25771c3c0708643459423c6f814d043365f183ba67107fa59898aa0 SHA512: b376e8d3e93cff997196ef7cd3a50fe0049bccea498b3f85579c62452f3d080b30d1ffc1fd415658d94283c388ed2fb7fb0f72016a4c1ea31cc37d91a753407e Homepage: https://cran.r-project.org/package=medrxivr Description: CRAN Package 'medrxivr' (Access and Search MedRxiv and BioRxiv Preprint Data) An increasingly important source of health-related bibliographic content are preprints - preliminary versions of research articles that have yet to undergo peer review. The two preprint repositories most relevant to health-related sciences are medRxiv and bioRxiv , both of which are operated by the Cold Spring Harbor Laboratory. 'medrxivr' provides programmatic access to the 'Cold Spring Harbour Laboratory (CSHL)' API , allowing users to easily download medRxiv and bioRxiv preprint metadata (e.g. title, abstract, publication date, author list, etc) into R. 'medrxivr' also provides functions to search the downloaded preprint records using regular expressions and Boolean logic, as well as helper functions that allow users to export their search results to a .BIB file for easy import to a reference manager and to download the full-text PDFs of preprints matching their search criteria. Package: r-cran-medscan Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-hdmt, r-cran-locfdr, r-cran-qqman, r-bioc-qvalue, r-cran-fdrtool Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-medscan_1.0.2-1.ca2004.1_all.deb Size: 33532 MD5sum: 13d8cb792ef0fe2ce14e696ea90d00d0 SHA1: 7e2e9a73705cb3b0c5f0cba397adc6af257216af SHA256: 554120e62cad9e2d03c14c4db60701a652bd492def32bc8c033bd6229ef82f40 SHA512: a64a088abb06364a7060b8ff035bb23520e9e105e06eb08a0d28885e8c0fe925fee15c4db6f763aab91afdea8a030ba4cd462839da5bd377c128dd111fc60dc1 Homepage: https://cran.r-project.org/package=medScan Description: CRAN Package 'medScan' (Large Scale Single Mediator Hypothesis Testing) A collection of methods for large scale single mediator hypothesis testing. The six included methods for testing the mediation effect are Sobel's test, Max P test, joint significance test under the composite null hypothesis, high dimensional mediation testing, divide-aggregate composite null test, and Sobel's test under the composite null hypothesis. Du et al (2023) . 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(2021) . A range of flexible precision parameter settings corresponding to weighted generalisations of the Hamming distance metric are considered, along with the potential inclusion of a noise component. Gating covariates can be supplied in order to relate sequences to baseline characteristics and sampling weights are also accommodated. The models are fitted using the EM algorithm and tools for visualising the results are also provided. Package: r-cran-medsurvey Architecture: all Version: 1.1.1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4006 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-survey, r-cran-lavaan Filename: pool/dists/focal/main/r-cran-medsurvey_1.1.1.3.0-1.ca2004.1_all.deb Size: 4060696 MD5sum: 91e3dfa2ef36e35072831ec54fd7352f SHA1: f669b035c5a27945ce2feef617b5a1c513761cf1 SHA256: e48b35def9edd2abfb9c614579666c715106e4e68a632583be64f04b5557ead6 SHA512: 9ddfd3f6df62fe7c24383766d44fd186978dcdfbf1cb90be6d874e72a87afc4362837dc1dccfe238bc51e951e6cbb62aecd3a0b3fcc63286003a2b97751074da Homepage: https://cran.r-project.org/package=MedSurvey Description: CRAN Package 'MedSurvey' (Linear Mediation Analysis for Complex Surveys Using BalancedRepeated Replication) It is a computer tool to conduct linear mediation analysis for complex surveys using multi-stage sampling and Balanced Repeated Replication (BRR). Specifically, the mediation analysis method using balanced repeated replications was proposed by Mai, Ha, and Soulakova (2019) . The current version can only handle continuous mediators and outcomes. The development of 'MedSurvey' was sponsored by American Lebanese Syrian Associated Charities (ALSAC). However, the contents of MedSurvey do not necessarily represent the policy of the ALSAC. Package: r-cran-meerva Architecture: all Version: 0.2-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 375 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrixcalc Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-meerva_0.2-2-1.ca2004.1_all.deb Size: 330704 MD5sum: 342c70e2e97721e4a5a3addaee507b3b SHA1: f0f70646b2bbb7bbf30b535bcca7bb62d0736549 SHA256: 9424d7ebeda0a2245f8ce3f3909de3f2a4290b4ba8c3b7acfa762a36f50372d8 SHA512: d5bc8882d0292a25227fbaa0c9a9bf5ba82e8b13ed1abe06f13d6b1dbc44d55177cef6b39b81416eafa65098b239e22a9ed4f6e254143f6646e031824e8e913a Homepage: https://cran.r-project.org/package=meerva Description: CRAN Package 'meerva' (Analysis of Data with Measurement Error Using a ValidationSubsample) Sometimes data for analysis are obtained using more convenient or less expensive means yielding "surrogate" variables for what could be obtained more accurately, albeit with less convenience; or less conveniently or at more expense yielding "reference" variables, thought of as being measured without error. Analysis of the surrogate variables measured with error generally yields biased estimates when the objective is to make inference about the reference variables. Often it is thought that ignoring the measurement error in surrogate variables only biases effects toward the null hypothesis, but this need not be the case. Measurement errors may bias parameter estimates either toward or away from the null hypothesis. If one has a data set with surrogate variable data from the full sample, and also reference variable data from a randomly selected subsample, then one can assess the bias introduced by measurement error in parameter estimation, and use this information to derive improved estimates based upon all available data. Formulaically these estimates based upon the reference variables from the validation subsample combined with the surrogate variables from the whole sample can be interpreted as starting with the estimate from reference variables in the validation subsample, and "augmenting" this with additional information from the surrogate variables. This suggests the term "augmented" estimate. The meerva package calculates these augmented estimates in the regression setting when there is a randomly selected subsample with both surrogate and reference variables. Measurement errors may be differential or non-differential, in any or all predictors (simultaneously) as well as outcome. The augmented estimates derive, in part, from the multivariate correlation between regression model parameter estimates from the reference variables and the surrogate variables, both from the validation subset. Because the validation subsample is chosen at random any biases imposed by measurement error, whether non-differential or differential, are reflected in this correlation and these correlations can be used to derive estimates for the reference variables using data from the whole sample. The main functions in the package are meerva.fit which calculates estimates for a dataset, and meerva.sim.block which simulates multiple datasets as described by the user, and analyzes these datasets, storing the regression coefficient estimates for inspection. The augmented estimates, as well as how measurement error may arise in practice, is described in more detail by Kremers WK (2021) and is an extension of the works by Chen Y-H, Chen H. (2000) , Chen Y-H. (2002) , Wang X, Wang Q (2015) and Tong J, Huang J, Chubak J, et al. (2020) . 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It supports easy processing of the data along with cross tabulation and relational data tables for samples and taxa. An object of class `mefa' is a project specific compendium of the data and can be easily used in further analyses. Methods are provided for extraction, aggregation, conversion, plotting, summary and reporting of `mefa' objects. Reports can be generated in plain text or LaTeX format. Vignette contains worked examples. Package: r-cran-mefdind Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rvest, r-cran-stringr Filename: pool/dists/focal/main/r-cran-mefdind_0.1-1.ca2004.1_all.deb Size: 49996 MD5sum: 9d879af9cfc1f2bb026401e861e583c5 SHA1: f02108dedcb7b807dff799b9c057206965c52af8 SHA256: 5caf9b80a0ce6a8b4211855e73bce0857cea31ee4b8631f7a9703944e025d4c0 SHA512: 399369bec54bc48dc4770c79722f2fc61cf31ba3da9922fe395ec0a8da835f7629f56248236077184c561575aba3403c2639ffdf41131f4f68604385ed377c21 Homepage: https://cran.r-project.org/package=mefdind Description: CRAN Package 'mefdind' (Imports Data from MoE Spain) Imports indicator data provided by the Ministry of Education (MoE),Spain. The data is stored at Includes functions for reading, downloading, and selecting data for main series. This package is not sponsored or supported by the MoE Spain. Importa datos con indicadores del Ministerio de Educación y Formación Profesional (MEFD) de Españá. Los datos están en Contiene funciones para leer, descargar, y seleccionar bases de datos de series principales. Este paquete no es patrocinado o respaldado por el MEFD. Package: r-cran-mefm Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tensormiss Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mefm_0.1.1-1.ca2004.1_all.deb Size: 53356 MD5sum: 8a09a5ad719db75012b034767ab6762b SHA1: b08c1dc1c9b521ff64200c0473a887befc560fd7 SHA256: caf4b7dd9efd876ca042f1d869f5fcc889d51cf199d48151c22a7e30739005d9 SHA512: fbb5c17b537de9abec41c4f9cebda778e7b847df9d2fdb33a6193f55417270d51b7fa0dfaa0a6aee140aca877f0a0f049da95955093ef0b1a583dd4da3a83778 Homepage: https://cran.r-project.org/package=MEFM Description: CRAN Package 'MEFM' (Perform MEFM Estimation on Matrix Time Series) To perform main effect matrix factor model (MEFM) estimation for a given matrix time series as described in Lam and Cen (2024) . Estimation of traditional matrix factor models is also supported. Supplementary functions for testing MEFM over factor models are included. Package: r-cran-megb Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gbm, r-cran-mass, r-cran-latex2exp Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-megb_0.1-1.ca2004.1_all.deb Size: 42044 MD5sum: 6476486082dd596e90d0f5d9dce835e2 SHA1: 0a3b8fc3bb889cf3e40dd36cf6612575b4761592 SHA256: 887e7849b6956d38ddd8bff1c7e3cc4235c4d0b4d787333cb089af56e7eb3094 SHA512: a322854ce2453b744ef940bd818664efb78bd4455b158b55e065847da001155dfe57ba9fad0fc6eaa3bafd12bcbbda0632ac0d56ea71de620cfbac890b4a68a5 Homepage: https://cran.r-project.org/package=MEGB Description: CRAN Package 'MEGB' (Gradient Boosting for Longitudinal Data) Gradient boosting is a powerful statistical learning method known for its ability to model complex relationships between predictors and outcomes while performing inherent variable selection. However, traditional gradient boosting methods lack flexibility in handling longitudinal data where within-subject correlations play a critical role. In this package, we propose a novel approach Mixed Effect Gradient Boosting ('MEGB'), designed specifically for high-dimensional longitudinal data. 'MEGB' incorporates a flexible semi-parametric model that embeds random effects within the gradient boosting framework, allowing it to account for within-individual covariance over time. Additionally, the method efficiently handles scenarios where the number of predictors greatly exceeds the number of observations (p>>n) making it particularly suitable for genomics data and other large-scale biomedical studies. Package: r-cran-meifly Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-leaps, r-cran-mass, r-cran-plyr Filename: pool/dists/focal/main/r-cran-meifly_0.3.1-1.ca2004.1_all.deb Size: 37404 MD5sum: 0d897e8a554cf43fdd43dc645b891f01 SHA1: a40282df0e689cace9c4304b5210883d305d3c5b SHA256: 24f9624c19a8ccc34f7def9cf5f82b9050dd6b84b4632a2c0552a988ee03c3a8 SHA512: 8731839f7e0de97e71f28b1ecc5892513280fcc38fa25c5f97d3726cfda56cb77eb72abd6ad939bcb81f4ec687e4a8dddc2c35f4eb37fbf672d54f9717862a04 Homepage: https://cran.r-project.org/package=meifly Description: CRAN Package 'meifly' (Interactive Model Exploration using 'GGobi') Exploratory model analysis with . Fit and graphical explore ensembles of linear models. Package: r-cran-mekko Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mekko_0.1.0-1.ca2004.1_all.deb Size: 83444 MD5sum: 0d730946e633c067fd6c9f441828e51b SHA1: d4d828e910d91ffff3a7b64fad63221e52139796 SHA256: 5dfdd4e703cd341558b1bd6ba5e18778dcc3e590a86089b1fd7e8628b41d86b7 SHA512: 60ca41f24ec10d910c1f723285a414ecb95164ffa713c16f5a1db235169d4a83640d46b8844e6f820c0b304aa9b7921786aa4b8f6a7f768adcdd6d2d409279eb Homepage: https://cran.r-project.org/package=mekko Description: CRAN Package 'mekko' (Variable Width Bar Charts: Bar Mekko) Create variable width bar charts i.e. "bar mekko" charts to include important quantitative context. Closely related to mosaic, spine (or spinogram), matrix, submarine, olympic, Mondrian or product plots and tree maps. Package: r-cran-mem Architecture: all Version: 2.18-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 447 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sm, r-cran-boot, r-cran-rcolorbrewer, r-cran-mclust, r-cran-ggplot2, r-cran-tidyr, r-cran-dplyr, r-cran-purrr, r-cran-rcpproll, r-cran-envstats Suggests: r-cran-magick Filename: pool/dists/focal/main/r-cran-mem_2.18-1.ca2004.1_all.deb Size: 408944 MD5sum: e1acca0828e936b7a27badbd72c84b7b SHA1: bb0ab8100b35dab9068d8a2529bf348f2e35921b SHA256: ee920cbc7e7597d3007941feca77f9258dc4047c1b762a74b8b46968aa328bec SHA512: 0af7c171ff361ff1a7a0a11dcba0c9bdf0a14a02a1e596f4865adcfce5ae8b74862dfa6d126314c1d69093b23cca2edbac3f542cfc7ddeacb0ad3ba4984a2541 Homepage: https://cran.r-project.org/package=mem Description: CRAN Package 'mem' (The Moving Epidemic Method) The Moving Epidemic Method, created by T Vega and JE Lozano (2012, 2015) , , allows the weekly assessment of the epidemic and intensity status to help in routine respiratory infections surveillance in health systems. Allows the comparison of different epidemic indicators, timing and shape with past epidemics and across different regions or countries with different surveillance systems. Also, it gives a measure of the performance of the method in terms of sensitivity and specificity of the alert week. Package: r-cran-memapp Architecture: all Version: 2.16-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1519 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-shinydashboard, r-cran-shinywidgets, r-cran-shinybs, r-cran-shinyjs, r-cran-rcolorbrewer, r-cran-tidyr, r-cran-dplyr, r-cran-stringr, r-cran-stringi, r-cran-dt, r-cran-formattable, r-cran-ggplot2, r-cran-plotly, r-cran-mem Suggests: r-cran-openxlsx, r-cran-readxl, r-cran-foreign, r-cran-haven, r-cran-readods, r-cran-rodbc, r-cran-magick Filename: pool/dists/focal/main/r-cran-memapp_2.16-1.ca2004.1_all.deb Size: 153612 MD5sum: b06beeaa499bc987f166bce25cae21f6 SHA1: 3b5cf7932f04f08dfdbd22a0484fceaf66afaf9c SHA256: b3b1eba773c18e32218bd1944e557827eed2ede01c6be04c247b51c90140adc7 SHA512: 3ea573ce41221dc94db702e66e3c0e0ab19cd9929d14f610be6c9f197835839ce8f2c6623056af8c25c4e7c800d02b764a6faa66daed3edf38226a0f2fff7981 Homepage: https://cran.r-project.org/package=memapp Description: CRAN Package 'memapp' (The Moving Epidemic Method Web Application) The Moving Epidemic Method, created by T Vega and JE Lozano (2012, 2015) , , allows the weekly assessment of the epidemic and intensity status to help in routine respiratory infections surveillance in health systems. Allows the comparison of different epidemic indicators, timing and shape with past epidemics and across different regions or countries with different surveillance systems. Also, it gives a measure of the performance of the method in terms of sensitivity and specificity of the alert week. 'memapp' is a web application created in the Shiny framework for the 'mem' R package. Package: r-cran-meme Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4126 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridgraphics, r-cran-magick, r-cran-showtext, r-cran-sysfonts Suggests: r-cran-cowplot, r-cran-ggimage, r-cran-knitr, r-cran-rmarkdown, r-cran-prettydoc, r-cran-shadowtext Filename: pool/dists/focal/main/r-cran-meme_0.2.3-1.ca2004.1_all.deb Size: 3176264 MD5sum: 8c1791c18652179c69e1dd31c8dd0654 SHA1: a64824fed70ef1e6214381f3281439f0a79ea6e7 SHA256: b368f1b7c97f8f15d1b76327e76d17195934cb1d99ce7d21b1bda8df766a4ee4 SHA512: 08772e3ef02fdc5ce228c291e226427759cd18a5ca8e9298c1d0ae03f14f186a8f7cbd6a00660c87281f7bab15d15b70e70a2591298dcd95fdedd10697a27c45 Homepage: https://cran.r-project.org/package=meme Description: CRAN Package 'meme' (Create Meme) The word 'Meme' was originated from the book, 'The Selfish Gene', authored by Richard Dawkins (1976). It is a unit of culture that is passed from one generation to another and correlates to the gene, the unit of physical heredity. The internet memes are captioned photos that are intended to be funny, ridiculous. Memes behave like infectious viruses and travel from person to person quickly through social media. The 'meme' package allows users to make custom memes. Package: r-cran-memery Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-showtext, r-cran-sysfonts, r-cran-png, r-cran-jpeg, r-cran-cairo, r-cran-ggplot2, r-cran-cowplot, r-cran-magrittr, r-cran-purrr, r-cran-shiny, r-cran-shinycssloaders, r-cran-shinybs, r-cran-colourpicker Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-magick, r-cran-gifski Filename: pool/dists/focal/main/r-cran-memery_0.6.0-1.ca2004.1_all.deb Size: 110320 MD5sum: 6e5d2a941a5aba88f5848b184f1e76f5 SHA1: d3fcf2082f76ee3c3e34e41e3eb4f889bc486165 SHA256: 9448924ed224867f3fbaf53418b3c815a805e872c33760aa2cfce9e355148135 SHA512: 20980e77237a7326411c6460c5371dbf29777bcabdb0d3e2b09c5ee4b47b5ddced0bba23f67657c7f36dde73ce8c3f00836095cacf2ad795788465ba2229737d Homepage: https://cran.r-project.org/package=memery Description: CRAN Package 'memery' (Internet Memes for Data Analysts) Generates internet memes that optionally include a superimposed inset plot and other atypical features, combining the visual impact of an attention-grabbing meme with graphic results of data analysis. The package differs from related packages that focus on imitating and reproducing standard memes. Some packages do this by interfacing with online meme generators whereas others achieve this natively. This package takes the latter approach. It does not interface with online meme generators or require any authentication with external websites. It reads images directly from local files or via URL and meme generation is done by the package. While this is similar to the 'meme' package available on CRAN, it differs in that the focus is on allowing for non-standard meme layouts and hybrids of memes mixed with graphs. While this package can be used to make basic memes like an online meme generator would produce, it caters primarily to hybrid graph-meme plots where the meme presentation can be seen as a backdrop highlighting foreground graphs of data analysis results. The package also provides support for an arbitrary number of meme text labels with arbitrary size, position and other attributes rather than restricting to the standard top and/or bottom text placement. This is useful for proper aesthetic interleaving of plots of data between meme image backgrounds and overlain text labels. The package offers a selection of templates for graph placement and appearance with respect to the underlying meme. Graph templates also permit additional template-specific customization. Animated gif support is provided but this is optional and functional only if the 'magick' package is installed. 'magick' is not required unless gif functionality is desired. Package: r-cran-memgene Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1730 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ade4, r-cran-gdistance, r-cran-raster, r-cran-sp, r-cran-vegan Suggests: r-cran-adegenet, r-cran-geosphere, r-cran-knitr Filename: pool/dists/focal/main/r-cran-memgene_1.0.2-1.ca2004.1_all.deb Size: 1472036 MD5sum: 4fabb415045b130c4908a03c25da0eef SHA1: 77cade23b13da1e62fe3ff30e7cd3277b9e1b223 SHA256: 5e20d1bfcf121f0c5b6fcc0265b8ae53764d80fc7edb42afbb1d37f59a71ad3d SHA512: e2993f76f9820c1766bc02fa7d8d21fc2432ffa1a18490e6ea2aa5529ef34c684ef533cabc62925039f6215c349db950501a2e7fe6a4229343ef4ceaead6ab54 Homepage: https://cran.r-project.org/package=memgene Description: CRAN Package 'memgene' (Spatial Pattern Detection in Genetic Distance Data Using Moran'sEigenvector Maps) Can detect relatively weak spatial genetic patterns by using Moran's Eigenvector Maps (MEM) to extract only the spatial component of genetic variation. Has applications in landscape genetics where the movement and dispersal of organisms are studied using neutral genetic variation. Package: r-cran-memify Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-memify_0.1.1-1.ca2004.1_all.deb Size: 23392 MD5sum: c26df8c9b83f79d080f04b59ce17522f SHA1: 0478d91210150b39eb4d603e8394f04a2a2a9217 SHA256: 0cc79224ac58c13bff340673bce05a04980c1b1bc0f82885bef5bfe85fffb1bb SHA512: 00ed250b8bf8f1a8bd67731f1b73cb08c7882b8f0932066caa005f070c36d764c122a8ab05d295905a047a64aa523603f8278f5cd454997a9f07c345b6951b73 Homepage: https://cran.r-project.org/package=memify Description: CRAN Package 'memify' (Constructing Functions That Keep State) A simple way to construct and maintain functions that keep state i.e. remember their argument lists. This can be useful when one needs to repeatedly invoke the same function with only a small number of argument changes at each invocation. Package: r-cran-memochange Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 453 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-forecast, r-cran-fracdiff, r-cran-longmemoryts, r-cran-sandwich, r-cran-strucchange, r-cran-longmemo Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-xts, r-cran-zoo, r-cran-data.table Filename: pool/dists/focal/main/r-cran-memochange_1.1.2-1.ca2004.1_all.deb Size: 280248 MD5sum: 441245f94ab2da310f73d251662afa15 SHA1: 0ea43ec42e114c4d6b10cf26a48c07207d8a1cc4 SHA256: 6b159e5e6ca974e8946ddeaf662b52d73ce9b8ce801a398b23786450c1d1118b SHA512: 838dd6f2f9a253f563abfc67f06e0a87547c4d208869b19d0ea471ce3563bb09792ecc93ab3e95914f8c386f63adedb603f290253f69731dc09a67f9eb885953 Homepage: https://cran.r-project.org/package=memochange Description: CRAN Package 'memochange' (Testing for Structural Breaks under Long Memory and Testing forChanges in Persistence) Test procedures and break point estimators for persistent processes that exhibit structural breaks in mean or in persistence. On the one hand the package contains the most popular approaches for testing whether a time series exhibits a break in persistence from I(0) to I(1) or vice versa, such as those of Busetti and Taylor (2004) and Leybourne, Kim, and Taylor (2007). The approach by Martins and Rodrigues (2014), which allows to detect changes from I(d1) to I(d2) with d1 and d2 being non-integers, is included as well. In case the tests reject the null of constant persistence, various breakpoint estimators are available to detect the point of the break as well as the order of integration in the two regimes. On the other hand the package contains the most popular approaches to test for a change-in-mean of a long-memory time series, which were recently reviewed by Wenger, Leschinski, and Sibbertsen (2018). These include memory robust versions of the CUSUM, sup-Wald, and Wilcoxon type tests. The tests either utilize consistent estimates of the long-run variance or a self normalization approach in their test statistics. Betken (2016) Busetti and Taylor (2004) Dehling, Rooch and Taqqu (2012) Harvey, Leybourne and Taylor (2006) Horvath and Kokoszka (1997) Hualde and Iacone (2017) Iacone, Leybourne and Taylor (2014) Leybourne, Kim, Smith, and Newbold (2003) Leybourne and Taylor (2004) Leybourne, Kim, and Taylor (2007): Martins and Rodrigues (2014) Shao (2011) Sibbertsen and Kruse (2009) Wang (2008) Wenger, Leschinski and Sibbertsen (2018) . Package: r-cran-memofunc Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-digest, r-cran-uuid, r-cran-magrittr Suggests: r-cran-testthat, r-cran-devtools, r-cran-roxygen2, r-cran-covr Filename: pool/dists/focal/main/r-cran-memofunc_1.0.2-1.ca2004.1_all.deb Size: 64412 MD5sum: f94012b51b5c861780701f22cb0d7b70 SHA1: bfe2201dd771202691677ac6daf3312085e8d67f SHA256: 11930208134eeabc11b6d5d217af9c04e73e6e2a21e8641d6c7a82ecb363dac5 SHA512: 6b0b1ad1acc4fb450c7dcc8b57874f15f95e6d176cb26632eb4020ac357f8cd39daeab1bbcacc3b91522cf40305df70dfb6fa4514aba0d3c735ec01311951e91 Homepage: https://cran.r-project.org/package=memofunc Description: CRAN Package 'memofunc' (Function Memoization) A simple way to memoize function results to improve performance by eliminating unnecessary computation or data retrieval activities. Package: r-cran-memoir Architecture: all Version: 1.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 633 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bookdown, r-cran-distill, r-cran-rmarkdown, r-cran-rmdformats, r-cran-usethis Suggests: r-cran-knitr, r-cran-pkgdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-memoir_1.3-1-1.ca2004.1_all.deb Size: 153856 MD5sum: 0b9b80df94b634c89359ff88b0720641 SHA1: 7241d47af7b045569dc01e3750aad47c66a7c5b8 SHA256: 0629d8c0dea9082cb6789642158fc2d0407a27961556c3ed022ff0ebf8c990c5 SHA512: 1e97588b3afb2df48460692869889479e4f40657e1e963ff3e597b6bcd1f2173cfae84183838d5836d3532cd34813de339cb7075c5a934986704ef9c626460b2 Homepage: https://cran.r-project.org/package=memoiR Description: CRAN Package 'memoiR' (R Markdown and Bookdown Templates to Publish Documents) Producing high-quality documents suitable for publication directly from R is made possible by the R Markdown ecosystem. 'memoiR' makes it easy. It provides templates to knit memoirs, articles and slideshows with helpers to publish the documents on GitHub Pages and activate continuous integration. 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Package: r-cran-memor Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-yaml, r-cran-rmarkdown, r-cran-knitr Suggests: r-cran-kableextra, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-memor_0.2.3-1.ca2004.1_all.deb Size: 190836 MD5sum: 8161f325216fbc4a803d8d659f2ff16f SHA1: ce8e2926383cfe92b736d4a1a0e3d62875bf9285 SHA256: 0214ed20474e3ce5cbf29a1cc1bc7fccd8faf2a95509b3de800916d39430245c SHA512: b3649a397bd64b6ac1b047a42c4a2cfd6ec18a2778ea9fe085708867c9114988064874f68d1cb3c1e6a15b8b0e7f0a614978a916ecd3ae8812e3fa88395ef17a Homepage: https://cran.r-project.org/package=memor Description: CRAN Package 'memor' (A 'rmarkdown' Template that Can be Highly Customized) A 'rmarkdown' template that supports company logo, contact info, watermarks and more. Currently restricted to 'Latex'/'Markdown'; a similar 'HTML' theme will be added in the future. Package: r-cran-memoria Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1295 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-ranger, r-cran-cowplot, r-cran-viridis, r-cran-viridislite, r-cran-zoo, r-cran-stringr, r-cran-hh, r-cran-tidyr Suggests: r-cran-devtools, r-cran-formatr, r-cran-kableextra, r-cran-magrittr, r-cran-knitr, r-cran-rmarkdown, r-cran-rpart, r-cran-rpart.plot, r-cran-randomforest, r-cran-virtualpollen Filename: pool/dists/focal/main/r-cran-memoria_1.0.0-1.ca2004.1_all.deb Size: 1122096 MD5sum: bd13b8ce43ce44b773afe34343ee5f40 SHA1: 5b09f438b93d2bab3958393b32c42e39f54e6f73 SHA256: 53d89b87a47d528652180e236f27a1a3ee0013c606bcd304d8e9d73bc94e9b63 SHA512: 5b0ececf29252706960dda4b1c8e47e3286bb661e53c564a6ea432e098e433004e0a8fba05dd91194571f7bb79efa3bac0ca8afb0beef32c72dff1145bcd34f8 Homepage: https://cran.r-project.org/package=memoria Description: CRAN Package 'memoria' (Quantifying Ecological Memory in Palaeoecological Datasets andOther Long Time-Series) Tools to quantify ecological memory in long time-series with Random Forest models (Breiman 2001 ) fitted with the 'ranger' library (Wright and Ziegler 2017 ). Particularly oriented to palaeoecological datasets and simulated pollen curves produced by the 'virtualPollen' package, but also applicable to other long time-series involving a set of environmental drivers and a biotic response. 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Hardware Reading and Merging (HRM), which uses order statistics to merge; and MUlti-Correlation HEM (MUCH) which merges using a multivariate normal distribution. The reference paper for HRM is: S. Vilardell, I. Serra, R. Santalla, E. Mezzetti, J. Abella and F. J. Cazorla, "HRM: Merging Hardware Event Monitors for Improved Timing Analysis of Complex MPSoCs," in IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems, vol. 39, no. 11, pp. 3662-3673, Nov. 2020, . For MUCH: S. Vilardell, I. Serra, E. Mezzetti, J. Abella, and F. J. Cazorla. 2021. "MUCH: exploiting pairwise hardware event monitor correlations for improved timing analysis of complex MPSoCs". In Proceedings of the 36th Annual ACM Symposium on Applied Computing (SAC '21). Association for Computing Machinery. . This work has been supported by the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 772773). 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The deconvolution part uses the algorithm described in Koh et al. (2009) . The alignment part is based on functions from the 'speaq' package, described in Beirnaert et al. (2018) and Vu et al. (2011) . A detailed description and evaluation of an early version of the package, 'MetaboDecon1D v0.2.2', can be found in Haeckl et al. (2021) . 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Package: r-cran-metabolic Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 249 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble, r-cran-magrittr, r-cran-usethis, r-cran-dplyr, r-cran-ggplot2, r-cran-ggfittext, r-cran-cli, r-cran-forcats, r-cran-ggimage, r-cran-patchwork, r-cran-scales, r-cran-stringr, r-cran-tidyr, r-cran-purrr, r-cran-meta, r-cran-glue, r-cran-rmarkdown Suggests: r-cran-knitr, r-cran-here, r-cran-rd2roxygen, r-cran-kableextra, r-cran-fansi, r-cran-downloadthis, r-cran-spelling Filename: pool/dists/focal/main/r-cran-metabolic_0.1.2-1.ca2004.1_all.deb Size: 203692 MD5sum: e037550139fb1edf97be82ca2e9decba SHA1: 69cf3e1516ea544fa8fee625d8a094fd2ccfe452 SHA256: 4622b32e3bdd911fafade58bc8c87ece9fde3b84d52e065fb01566a0aeebf1c9 SHA512: 7bbd5b6185dc5309987cd67fa7963e1603a486af611d522e7529f434c4f349f349abfb00ebd3dbd578e796820a236eebaf8cf1015c10b44903f5b2960e7cfb7a Homepage: https://cran.r-project.org/package=metabolic Description: CRAN Package 'metabolic' (Datasets and Functions for Reproducing Meta-Analyses) Dataset and functions from the meta-analysis published in Medicine & Science in Sports & Exercise. It contains all the data and functions to reproduce the analysis. "Effectiveness of HIIE versus MICT in Improving Cardiometabolic Risk Factors in Health and Disease: A Meta-analysis". Felipe Mattioni Maturana, Peter Martus, Stephan Zipfel, Andreas M Nieß (2020) . Package: r-cran-metabolicsurv Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 604 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-superpc, r-cran-glmnet, r-cran-matrixstats, r-cran-survminer, r-cran-survival, r-cran-rms, r-cran-tidyr, r-cran-pls, r-cran-rdpack, r-cran-ggplot2, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metabolicsurv_1.1.2-1.ca2004.1_all.deb Size: 509412 MD5sum: 9757f4cee1cd4770e46b1a228c5e97fe SHA1: a86fc9a903a0ec05e47b82d37769ad7f1cc27840 SHA256: 850359a48204e10753a6945216b2837b17076761d52a16a8032b5bc1ed126580 SHA512: cd19e8e71529912b289b2d04abfe3ead9096b0932c58cd77a0dd832d7a97dad347de9088a3935b93f4fd1629290ce508a5e55a65aa8d97e2cdae652a2275ae09 Homepage: https://cran.r-project.org/package=MetabolicSurv Description: CRAN Package 'MetabolicSurv' (A Biomarker Validation Approach for Classification andPredicting Survival Using Metabolomics Signature) An approach to identifies metabolic biomarker signature for metabolic data by discovering predictive metabolite for predicting survival and classifying patients into risk groups. Classifiers are constructed as a linear combination of predictive/important metabolites, prognostic factors and treatment effects if necessary. Several methods were implemented to reduce the metabolomics matrix such as the principle component analysis of Wold Svante et al. (1987) , the LASSO method by Robert Tibshirani (1998) , the elastic net approach by Hui Zou and Trevor Hastie (2005) . Sensitivity analysis on the quantile used for the classification can also be accessed to check the deviation of the classification group based on the quantile specified. Large scale cross validation can be performed in order to investigate the mostly selected predictive metabolites and for internal validation. During the evaluation process, validation is accessed using the hazard ratios (HR) distribution of the test set and inference is mainly based on resampling and permutations technique. Package: r-cran-metabolicsyndrome Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metabolicsyndrome_0.1.3-1.ca2004.1_all.deb Size: 14440 MD5sum: ea8f554878656c15258c7b47500ec1fe SHA1: d2494c2869ffcb289798fc87f3e97c3b7fd78bcb SHA256: 8ef9d82d6ad9365f897e224eb5399c0a20f2e4e3f8d824fe1a70b293f1d187e5 SHA512: 0203c7944b8a362f55c3eaeef9229853fe9a4ba8d5a074b46cb8c70c1e8744ce8526d9c9cba51de3d9f99f8efa41d794561a573c5635a94fcbf8207247e5fa60 Homepage: https://cran.r-project.org/package=MetabolicSyndrome Description: CRAN Package 'MetabolicSyndrome' (Diagnosis of Metabolic Syndrome) The modified Adult Treatment Panel -III guidelines (ATP-III) proposed by American Heart Association (AHA) and National Heart, Lung and Blood Institute (NHLBI) are used widely for the clinical diagnosis of Metabolic Syndrome. The AHA-NHLBI criteria advise using parameters such as waist circumference (WC), systolic blood pressure (SBP), diastolic blood pressure (DBP), fasting plasma glucose (FPG), triglycerides (TG) and high-density lipoprotein cholesterol (HDLC) for diagnosis of metabolic syndrome. Each parameter has to be interpreted based on the proposed cut-offs, making the diagnosis slightly complex and error-prone. This package is developed by incorporating the modified ATP-III guidelines, and it will aid in the easy and quick diagnosis of metabolic syndrome in busy healthcare settings and also for research purposes. The modified ATP-III-AHA-NHLBI criteria for the diagnosis is described by Grundy et al ., (2005) . Package: r-cran-metabolighter Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 213 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-httr, r-cran-dplyr, r-cran-purrr, r-cran-crayon Suggests: r-cran-covr, r-cran-testthat, r-cran-tibble, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-metabolighter_0.1.3-1.ca2004.1_all.deb Size: 149360 MD5sum: 03a43ba31e2140772f2f14a037afe77b SHA1: b23b3698659d918e001f54ac6981bda4d354dbb3 SHA256: 985d438240f933bf903c8901b53743a83ac3ec5ac75d65733630607ab4547c1f SHA512: f07f06d1387316d1be0a58e602d61ffcacc1601be2579f0bf89ea42f1db1ca9004487e01d2f4efc6088c12ad16cc00ef6475c09da94200493a6cd8b9a8834959 Homepage: https://cran.r-project.org/package=metabolighteR Description: CRAN Package 'metabolighteR' (Interface to the 'Metabolights' REST API) Access to the 'Metabolights' REST API . Retrieve elements of publicly available 'Metabolights' studies. Package: r-cran-metabolomicsbasics Architecture: all Version: 1.4.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 339 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-c50, r-cran-caret, r-cran-e1071, r-cran-interpretmsspectrum, r-bioc-pcamethods, r-cran-plyr, r-cran-rpart, r-cran-rlang, r-cran-webchem Suggests: r-bioc-mixomics, r-bioc-ropls, r-bioc-xcms Filename: pool/dists/focal/main/r-cran-metabolomicsbasics_1.4.5-1.ca2004.1_all.deb Size: 307360 MD5sum: ae16e8f7dc892871218406f6d6f9ef0e SHA1: 55b42228a262daba5490d52a50518f147407518b SHA256: 733097198bdb22e440a1769a11de5282dd62b9b82bbdbf03d7b5489919f9bc73 SHA512: 3ecb856e798753d43f2c54a2eb86c434959e1dfe86f86ab4595dec3358553b83c239e7d1d5ac51026f2d4151d4b4cfe1736e3eb8f9adc502aee8172bad166397 Homepage: https://cran.r-project.org/package=MetabolomicsBasics Description: CRAN Package 'MetabolomicsBasics' (Basic Functions to Investigate Metabolomics Data Matrices) A set of functions to investigate raw data from (metabol)omics experiments intended to be used on a raw data matrix, i.e. following peak picking and signal deconvolution. Functions can be used to normalize data, detect biomarkers and perform sample classification. A detailed description of best practice usage may be found in the publication . Package: r-cran-metabolomicsr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2524 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-data.table, r-cran-plotroc Suggests: r-cran-ggthemes, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-lme4, r-cran-nlme, r-cran-broom, r-cran-reshape2, r-bioc-impute, r-bioc-m3c, r-cran-fnn, r-cran-rcolorbrewer, r-cran-readxl, r-cran-survival, r-cran-future, r-cran-pbapply, r-cran-future.apply, r-cran-progressr, r-cran-ggrepel, r-cran-here, r-cran-ggstatsplot, r-cran-cowplot, r-cran-proc, r-bioc-biocstyle, r-cran-mass, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-metabolomicsr_1.0.0-1.ca2004.1_all.deb Size: 1704412 MD5sum: 9c980d1e84d037b7f2735f95fc9f4944 SHA1: 18f351903c31bed8817b5195e904c0746c026c27 SHA256: dbc6b89ff1d048b39520e0acf087458e993504d0ef405b2f271d8ecc7a39dbef SHA512: f296d5676d748bad62b89728ac985dcf23cb172f7713cbf5e12e3a8d756d8585963067200d64af33b9a80f642ece5c1d6e6acea6bfc265e0efdaf723b99fdcf9 Homepage: https://cran.r-project.org/package=metabolomicsR Description: CRAN Package 'metabolomicsR' (Tools for Metabolomics Data) Tools to preprocess, analyse, and visualize metabolomics data. We included a set of functions for sample and metabolite quality control, outlier detection, missing value imputation, dimensional reduction, normalization, data integration, regression, metabolite annotation, enrichment analysis, and visualization of data and results. The package is designed to be a comprehensive R package that can be easily used by researchers with basic R programming skills. The framework designed here is versatile and is extensible to other various methods. Package: r-cran-metabolssmf Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 972 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-laplacesdemon, r-cran-nmf, r-cran-doparallel, r-cran-foreach, r-cran-iterators, r-cran-lsei, r-cran-mclust, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-caroline, r-cran-ggsci, r-cran-biocmanager, r-bioc-biobase Filename: pool/dists/focal/main/r-cran-metabolssmf_0.1.0-1.ca2004.1_all.deb Size: 917472 MD5sum: 34e02f2088c0fc53872a35d2b81e14d3 SHA1: 30a7243553c361539b01d87c07155e1dd602a089 SHA256: 5afef9aab118d3016e483aed2ab7afc112a7fa96c916a7b271616a695680a6cd SHA512: 5d9cf29986c611550f0a05f8b57f35d3a3157714449622596e05ee721c3ccbdcf72f4d6a84a606a0a36fbdf00c3dccc187df850ae12c4d85689e0ce565701182 Homepage: https://cran.r-project.org/package=MetabolSSMF Description: CRAN Package 'MetabolSSMF' (Simplex-Structured Matrix Factorisation for MetabolomicsAnalysis) Provides a framework to perform soft clustering using simplex-structured matrix factorisation (SSMF). The package contains a set of functions for determining the optimal number of prototypes, the optimal algorithmic parameters, the estimation confidence intervals and the diversity of clusters. Abdolali, Maryam & Gillis, Nicolas (2020) . Package: r-cran-metaboqc Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr Filename: pool/dists/focal/main/r-cran-metaboqc_1.1-1.ca2004.1_all.deb Size: 54500 MD5sum: 077ca25de2960bd14f62024568727e50 SHA1: 08d07161ae587dbaf2b068a14225a0a0492e40e2 SHA256: fb78bf99d5400e0b797ee98095ae81503416d62bd6dfb97513fd061a992b77b8 SHA512: 593c5960d168e4cea1268251813f9c17d8190f7473226a7350f56e6ac3b678b9edeb69d8b204bc891a4a845c29c4703741628aef7925faa1ac2ff74d34f5e692 Homepage: https://cran.r-project.org/package=MetaboQC Description: CRAN Package 'MetaboQC' (Normalize Metabolomic Data using QC Signal) Takes QC signal for each day and normalize metabolomic data that has been acquired in a certain period of time. At least three QC per day are required. Package: r-cran-metabup Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-partitions Filename: pool/dists/focal/main/r-cran-metabup_0.1.3-1.ca2004.1_all.deb Size: 22012 MD5sum: 191034957d13eff2249c856dcc4f4252 SHA1: f221f5dd0d15c2ce9be5b253ec890bf3a2dc68c1 SHA256: cbe28189e341e02f874fa8c1496eefb4b0ff92849647454fbe15c32fdb7cb043 SHA512: a5c5567f499a5a7d55b1308c79c9c3caea9bee8c078a33d20b77085bfca3c399088705e926f5cc3ccd7dfeb2872e3db375b2aa8c3ace8b9378623b46dfbda8d1 Homepage: https://cran.r-project.org/package=metabup Description: CRAN Package 'metabup' (Bayesian Meta-Analysis Using Basic Uncertain Pooling) Contains functions that allow Bayesian meta-analysis (1) with binomial data, counts(y) and total counts (n) or, (2) with user-supplied point estimates and associated variances. Case (1) provides an analysis based on the logit transformation of the sample proportion. This methodology is also appropriate for combining data from sample surveys and related sources. The functions can calculate the corresponding similarity matrix. More details can be found in Cahoy and Sedransk (2023), Cahoy and Sedransk (2022) , Evans and Sedransk (2001) , and Malec and Sedransk (1992) . Package: r-cran-metacluster Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-factoextra, r-cran-cluster, r-cran-dbscan, r-cran-dplyr, r-cran-seqinr, r-bioc-biostrings Filename: pool/dists/focal/main/r-cran-metacluster_0.1.1-1.ca2004.1_all.deb Size: 66688 MD5sum: 6faeeb1c7bd73342354ea36c4ab1554c SHA1: cdab2295171ec1f3820c2d50e28839db74a387e7 SHA256: 89808c889ffa7926fdf986c0d5f8050494b3f9118d25ae96c75333d417c2389a SHA512: 34dd73013214f1cb528750976834c6ac6885fc1b2eb0aaad2e1f35cb33f4a311f03fceecc36b74fc946b24d2a5d5e9541c5f0a14f3364cd19bb2bfb75a49617b Homepage: https://cran.r-project.org/package=metaCluster Description: CRAN Package 'metaCluster' (Metagenomic Clustering) Clustering in metagenomics is the process of grouping of microbial contigs in species specific bins. This package contains functions that extract genomic features from metagenome data, find the number of clusters for that given data and find the best clustering algorithm for binning. Package: r-cran-metacom Architecture: all Version: 1.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vegan Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-metacom_1.5.3-1.ca2004.1_all.deb Size: 63040 MD5sum: 0b8a64a7268efd6e84025f80f5b7020d SHA1: 8d84c21de7617ebbc0c11e53d6bf21c020d04d89 SHA256: 3e5cb1a2d22893de171d00490d0522ad2947adf535412a8921264c14af0e6b36 SHA512: 7b7ded3c9c5599aa20d64865f65e5788527adb0bdaa3ce4ff130915603f71f01332a2dd3d12a1f8371ccb19ecf57d48ce01bb57964f966af4fa32e1513fe8fa2 Homepage: https://cran.r-project.org/package=metacom Description: CRAN Package 'metacom' (Analysis of the 'Elements of Metacommunity Structure') Functions to analyze coherence, boundary clumping, and turnover following the pattern-based metacommunity analysis of Leibold and Mikkelson 2002 . The package also includes functions to visualize ecological networks, and to calculate modularity as a replacement to boundary clumping. Package: r-cran-metacomp Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1152 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-plyr, r-cran-dplyr, r-cran-data.table, r-cran-ggplot2, r-cran-cairo Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-metacomp_1.1.2-1.ca2004.1_all.deb Size: 237084 MD5sum: 81a9b17c0bc53dfb413010c171c45417 SHA1: d6fdbb34db669ddea3c59a10df46021bc109cac6 SHA256: 814e6b84db26807ac53974100c00a43a075558491fab82793f034e81f4594aca SHA512: 20dcec45ff1dab5a32c75c09a170c5d79d7bbc5ad323f4111f7a44b9c66caa421ebafb3b4b1cad433a6e05e0728ad4563edbb2af291b90e78613f647bc9a701b Homepage: https://cran.r-project.org/package=MetaComp Description: CRAN Package 'MetaComp' (EDGE Taxonomy Assignments Visualization) Implements routines for metagenome sample taxonomy assignments collection, aggregation, and visualization. Accepts the EDGE-formatted output from GOTTCHA/GOTTCHA2, BWA, Kraken, MetaPhlAn, DIAMOND, and Pangia. Produces SVG and PDF heatmap-like plots comparing taxa abundances across projects. Package: r-cran-metaconfoundr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2384 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-shiny, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-covr, r-cran-knitr, r-cran-metafor, r-cran-patchwork, r-cran-readr, r-cran-rio, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-metaconfoundr_0.1.2-1.ca2004.1_all.deb Size: 1778136 MD5sum: 0a1320e8f3f5aab8f1e3633b9ebbfb94 SHA1: d33fe2b9ea6a594aadd83818034d6bd297d68254 SHA256: 1a22eb066837a46b10c450c92554569478ebbfee69ef7b6feb95c7205c2d7bf2 SHA512: 487f2871ae483e24eaac77c66aa2d59354e49d72fbd5f38cd88a47c0c31dc04675039bbeafe1314fa203119a95eb71dc802cf905cad2c5b85619e26aebd0ecb6 Homepage: https://cran.r-project.org/package=metaconfoundr Description: CRAN Package 'metaconfoundr' (Visualize 'Confounder' Control in Meta-Analyses) Visualize 'confounder' control in meta-analysis. 'metaconfoundr' is an approach to evaluating bias in studies used in meta-analyses based on the causal inference framework. Study groups create a causal diagram displaying their assumptions about the scientific question. From this, they develop a list of important 'confounders'. Then, they evaluate whether studies controlled for these variables well. 'metaconfoundr' is a toolkit to facilitate this process and visualize the results as heat maps, traffic light plots, and more. Package: r-cran-metaconvert Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1216 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-comparedf, r-cran-metafor, r-cran-mvtnorm, r-cran-estimraw, r-cran-rio Suggests: r-cran-testthat, r-cran-metaumbrella, r-cran-toster, r-cran-esc, r-cran-epir, r-cran-compute.es, r-cran-meta, r-cran-effectsize, r-cran-metautility, r-cran-knitr, r-cran-dt, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metaconvert_1.0.3-1.ca2004.1_all.deb Size: 792136 MD5sum: 6b3cbbed2c844e666230b50b17650a7c SHA1: 25171bc30fcc74f02edf1bf86c39991179b93c49 SHA256: 44cc2737ed56a04784686b2bd14b13a9741137eb3430398743e6edcb9e1412ac SHA512: b847795c864e5ecbf2791423ba3964901b717d0a1f8e6b938a5eaa467b255b12610769f7d6575171f985b09b994f63be8544bcbc6ae41b37eee5dc61681d65ea Homepage: https://cran.r-project.org/package=metaConvert Description: CRAN Package 'metaConvert' (An Automatic Suite for Estimation of Various Effect SizeMeasures) Automatically estimate 11 effect size measures from a well-formatted dataset. Various other functions can help, for example, removing dependency between several effect sizes, or identifying differences between two datasets. This package is mainly designed to assist in conducting a systematic review with a meta-analysis but can be useful to any researcher interested in estimating an effect size. Package: r-cran-metacor Architecture: all Version: 1.0-2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rmeta, r-cran-gsl Filename: pool/dists/focal/main/r-cran-metacor_1.0-2.1-1.ca2004.1_all.deb Size: 24784 MD5sum: a4b4b9f188188ed2aae7e93caa1bf079 SHA1: 38117346a96bfc30c5edb7caf56fbc955e0ade0c SHA256: 574a2269f926d1d399a3210ea6e55af2c345671a88b48c710e613232afbe44f1 SHA512: 147a05f017947cbd7447141597b592d9acbaa7841e323e296d2e64a72abbf72f8724fdb5a05f2df0dfbd9abd514838e13aede51d05e98b562b3fa68c8b84ca8c Homepage: https://cran.r-project.org/package=metacor Description: CRAN Package 'metacor' (Meta-Analysis of Correlation Coefficients) Implement the DerSimonian-Laird (DSL) and Olkin-Pratt (OP) meta-analytical approaches with correlation coefficients as effect sizes. Package: r-cran-metacore Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3030 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-tidyr, r-cran-dplyr, r-cran-stringr, r-cran-magrittr, r-cran-xml2, r-cran-purrr, r-cran-readxl, r-cran-rlang, r-cran-tibble, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-metacore_0.1.3-1.ca2004.1_all.deb Size: 1327424 MD5sum: 1880b5698f068b68f8b4b7d66f8b1238 SHA1: 30b906ac5a32b84e1ecaf5d9d5700c6a7b259956 SHA256: 6bf6daee4b29cc2c77e0b90ea46987b555dee144946825bff5c7a550046bff2f SHA512: b529a8a1a9347808f386763e9a39a2cb590b301c2dd0062fe30a58b7114b0a915432cc9aaaf4f8f82b028d684126748ec1e32cbef549eb74f55c527561c21f8a Homepage: https://cran.r-project.org/package=metacore Description: CRAN Package 'metacore' (A Centralized Metadata Object Focus on Clinical Trial DataProgramming Workflows) Create an immutable container holding metadata for the purpose of better enabling programming activities and functionality of other packages within the clinical programming workflow. Package: r-cran-metaculr Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 730 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-ggplot2, r-cran-httr, r-cran-jsonlite, r-cran-progress, r-cran-tidyr, r-cran-verification, r-cran-clipr, r-cran-spatstat.geom, r-cran-ggrepel, r-cran-assertthat, r-cran-cowplot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metaculr_0.4.1-1.ca2004.1_all.deb Size: 431100 MD5sum: 72a2c021cd9699c6917680df524272b4 SHA1: a3cb54437d0d51a122f6f431628ebedd25032eee SHA256: 72b1a7a34f7f708cb890971cabe295642ecd737f5f81a0c57f2aff18200380c3 SHA512: 5dff232c682a1e61ba86095717cdf844b026fb1a22fdb7b521afa639417da25fb71a4ecc3012b4491a53d2b4793a1da487dc9508537b271ec6fa187b0b0fcc11 Homepage: https://cran.r-project.org/package=MetaculR Description: CRAN Package 'MetaculR' (Analyze Metaculus Predictions and Questions) Login, download, and analyze questions predicted by you and/or the Metaculus community by interacting with the Metaculus API, currently located at . Package: r-cran-metacycle Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1362 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gnm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metacycle_1.2.0-1.ca2004.1_all.deb Size: 1029264 MD5sum: d042f8be004304b61d3919156d8e0c56 SHA1: 143663834c6b8e99c7d8e121916e6eabdaaeaeee SHA256: 979eeaf9f393900d69b75e96de4e0de29f15b56fdf63230e1c46f241854a52fb SHA512: a8c7143f54235d73732e7817a0f7b415f5e7d6734f19c18465c06a04130fe6cd18550cef0599ad3731492fd04697b0ceb1f4ea9007965f83cdca29cdc0df1cee Homepage: https://cran.r-project.org/package=MetaCycle Description: CRAN Package 'MetaCycle' (Evaluate Periodicity in Large Scale Data) There are two functions-meta2d and meta3d for detecting rhythmic signals from time-series datasets. For analyzing time-series datasets without individual information, 'meta2d' is suggested, which could incorporates multiple methods from ARSER, JTK_CYCLE and Lomb-Scargle in the detection of interested rhythms. For analyzing time-series datasets with individual information, 'meta3d' is suggested, which takes use of any one of these three methods to analyze time-series data individual by individual and gives out integrated values based on analysis result of each individual. Package: r-cran-metadat Architecture: all Version: 1.4-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 943 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mathjaxr Suggests: r-cran-metafor, r-cran-numderiv, r-cran-biasedurn, r-cran-dfoptim, r-cran-igraph, r-cran-ape, r-cran-testthat, r-cran-digest, r-cran-lme4, r-cran-clubsandwich, r-cran-meta, r-cran-netmeta, r-cran-mvtnorm, r-cran-gridextra, r-cran-rms, r-cran-bayesmeta, r-cran-ellipse Filename: pool/dists/focal/main/r-cran-metadat_1.4-0-1.ca2004.1_all.deb Size: 892796 MD5sum: a40d61b67f33bbdf9c7d8ace37fe295e SHA1: 8ce42e7ca0b112759413c6532d4b907e6b566929 SHA256: a8cff005e4855133b1571831d0932206ed43446f873d2cf92f00f28cd37c8c09 SHA512: 10256aaa4cbf70bab7949200b78403c86f34af7d17727ba94e82143f2ec7ff48286a633d0590400b48c864da9c7051da4a064dfecfecb05521cabbfcb80ad9e5 Homepage: https://cran.r-project.org/package=metadat Description: CRAN Package 'metadat' (Meta-Analysis Datasets) A collection of meta-analysis datasets for teaching purposes, illustrating/testing meta-analytic methods, and validating published analyses. Package: r-cran-metadbparse Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 682 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rvest, r-cran-rcurl, r-cran-xml, r-cran-sparql, r-cran-pacman, r-cran-rcdk, r-cran-rjava, r-cran-pbapply, r-cran-envipat, r-cran-data.table, r-cran-rsqlite, r-cran-dbi, r-cran-gsubfn, r-cran-stringr, r-cran-wikidataqueryservicer, r-cran-webchem, r-cran-jsonlite, r-cran-r.utils, r-bioc-keggrest, r-cran-zip, r-bioc-chemminer, r-cran-xml2, r-cran-stringi, r-cran-reshape2, r-cran-hmisc, r-cran-httr, r-cran-rjsonio, r-cran-readxl, r-cran-cmmr, r-cran-progress, r-bioc-rdisop, r-cran-rlist Filename: pool/dists/focal/main/r-cran-metadbparse_2.0.0-1.ca2004.1_all.deb Size: 650752 MD5sum: 8f286a513aed394d243a62c3c65aa447 SHA1: 566252e465792b7e23e13cb0138fa8d026fc84ab SHA256: 72cffb5cab0570232c067d1fb8d9b0470e0668d254aed6b05202fc9176bbeab2 SHA512: b902b0c814daa8c0e6f933de7b3d482414564126f51201424664e44c60c9e98a73c997585494119b3aace2935b466d4ac47183c441bfd4fcafa92a84416caf38 Homepage: https://cran.r-project.org/package=MetaDBparse Description: CRAN Package 'MetaDBparse' (Annotate Mass over Charge Values with Databases and FormulaPrediction) Provides parsing functionality for over 30 metabolomics databases, with most available without having to create an account on given websites. Once parsed, calculates given adducts and isotope patterns and inserts into one big database which can be used to annotate unknown m/z values. Furthermore, formulas can be predicted for a given m/z, and these can be matched to ChemSpider, PubChem, SUPERNATURAL II, KNApSAcK and ChemIDplus for further annotation. Current databases available: HMDB, ChEBI, LMDB, BMDB, MCDB, ECMDB, Wikidata, mVOC, VMH, T3DB, Exposome Explorer, FooDB, MetaCyc (requires account), DrugBank (requires account), ReSPECT, MaConDa, Blood Exposome DB, KEGG, SMPDB, LIPID MAPS, MetaboLights, DimeDB, Phenol Explorer, MassBank, YMDB, PAMDB, ANPDB, Metabolomics Workbench, PharmGKB, Reactome, mVOC and STOFF. Featured in the 'MetaboShiny' package (Wolthuis, J. (2019) ). Package: r-cran-metadeconfoundr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 750 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-detectseparation, r-cran-lmtest, r-cran-foreach, r-cran-doparallel, r-cran-futile.logger, r-cran-lme4, r-cran-ggplot2, r-cran-reshape2, r-cran-rlang Suggests: r-cran-pander, r-cran-knitr, r-cran-gridextra, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-metadeconfoundr_1.0.2-1.ca2004.1_all.deb Size: 553088 MD5sum: bff665aac08c3f33ad2bb497abb6dbb0 SHA1: 66580f9730dddd365139c9efe3f8768c7625bc9f SHA256: 06bb94a216c9948e1fd729a254b4fd66850d499236a57ff10cc5ca4b24a3d8ec SHA512: 2472ab1e7c7d0c47d26bcca28475468cfc817a10fad7c6e5a6ec2b2daf81e112e24c275a3c8170589b1bcffb95a362a1401a7aa1ec5a5d4addc92c207a6f8ab1 Homepage: https://cran.r-project.org/package=metadeconfoundR Description: CRAN Package 'metadeconfoundR' (Covariate-Sensitive Analysis of Cross-Sectional High-DimensionalData) Using non-parametric tests, naive associations between omics features and metadata in cross-sectional data-sets are detected. In a second step, confounding effects between metadata associated to the same omics feature are detected and labeled using nested post-hoc model comparison tests, as first described in Forslund, Chakaroun, Zimmermann-Kogadeeva, et al. (2021) . The generated output can be graphically summarized using the built-in plotting function. Package: r-cran-metadigitise Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 694 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magick, r-cran-purrr Suggests: r-cran-mockery, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metadigitise_1.0.1-1.ca2004.1_all.deb Size: 425348 MD5sum: f33f966d5299a6bcb0f9d71739c906c9 SHA1: f50bbb03f79b63da795979e93e3869fce6e7da56 SHA256: cee7fcc8c75f4b83fc5bcbb6fef35dc02d6d94a57e22f4d97393da74e475f15c SHA512: 799f516ec48d44bb09fb4c86129e90da73381b16deff6edd1e230f6c69ffa4e6fee6ac14ab8a57a84dc8e0e2de3e04e6562be589e6b504785d2d35e526182a2d Homepage: https://cran.r-project.org/package=metaDigitise Description: CRAN Package 'metaDigitise' (Extract and Summarise Data from Published Figures) High-throughput, flexible and reproducible extraction of data from figures in primary research papers. metaDigitise() can extract data and / or automatically calculate summary statistics for users from box plots, bar plots (e.g., mean and errors), scatter plots and histograms. Package: r-cran-metaensembler Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 980 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gridextra, r-cran-caret, r-cran-ggplot2, r-cran-e1071, r-cran-gbm, r-cran-randomforest Suggests: r-cran-knitr, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-metaensembler_0.1.0-1.ca2004.1_all.deb Size: 403528 MD5sum: c0e4f6fe59940e9b3e1e622f4a820641 SHA1: 5221d7a2183aeb8bef129cb66213928e928661dc SHA256: afa5cbc2b998a36bfcb65f349795080ce2946ed875e0bf4540c33d2e6735b792 SHA512: 316c32b1fa6a9338dd60207ca0ff3ea2f62976d9cf6565b851e6922bbcb1199f00f9f3f1fe98effcb8de1c49a0938cd1f86586b9dbc6a6aea47d30a3df18dec0 Homepage: https://cran.r-project.org/package=metaEnsembleR Description: CRAN Package 'metaEnsembleR' (Automated Intuitive Package for Meta-Ensemble Learning) Extends the base classes and methods of 'caret' package for integration of base learners. The user can input the number of different base learners, and specify the final learner, along with the train-validation-test data partition split ratio. The predictions on the unseen new data is the resultant of the ensemble meta-learning of the heterogeneous learners aimed to reduce the generalization error in the predictive models. It significantly lowers the barrier for the practitioners to apply heterogeneous ensemble learning techniques in an amateur fashion to their everyday predictive problems. Package: r-cran-metafor Architecture: all Version: 4.8-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5425 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-metadat, r-cran-numderiv, r-cran-nlme, r-cran-mathjaxr, r-cran-pbapply, r-cran-digest Suggests: r-cran-lme4, r-cran-pracma, r-cran-minqa, r-cran-nloptr, r-cran-dfoptim, r-cran-ucminf, r-cran-lbfgsb3c, r-cran-subplex, r-cran-bb, r-cran-rsolnp, r-cran-alabama, r-cran-optimparallel, r-cran-optimx, r-cran-compquadform, r-cran-mvtnorm, r-cran-biasedurn, r-cran-epi, r-cran-survival, r-cran-glmmadaptive, r-cran-glmmtmb, r-cran-car, r-cran-multcomp, r-cran-gsl, r-cran-sp, r-cran-ape, r-cran-boot, r-cran-clubsandwich, r-cran-crayon, r-cran-r.rsp, r-cran-testthat, r-cran-rmarkdown, r-cran-wildmeta, r-cran-emmeans, r-cran-estmeansd, r-cran-metablue, r-cran-rstudioapi, r-cran-glmulti, r-cran-mumin, r-cran-mice, r-cran-amelia, r-cran-calculus Filename: pool/dists/focal/main/r-cran-metafor_4.8-0-1.ca2004.1_all.deb Size: 5061996 MD5sum: 166558b8fe689c5d571e92e7a5dee3e8 SHA1: 5ec9911516490b74b3c22964b87fcbccc1ab7c50 SHA256: 7f45eb91bc9c4d7e7830fc65d07194582bdfa1c6b3cd0b39faaaa809621f81da SHA512: 5ce60852c6f822796686ece9f786b3ade303ca4e156f4d9a1dc2940d6167ed35963efdd2e484a8cb060f5e3b390c5a67a34a57a6a6c88aa6ea5440f6beb1abd0 Homepage: https://cran.r-project.org/package=metafor Description: CRAN Package 'metafor' (Meta-Analysis Package for R) A comprehensive collection of functions for conducting meta-analyses in R. The package includes functions to calculate various effect sizes or outcome measures, fit equal-, fixed-, random-, and mixed-effects models to such data, carry out moderator and meta-regression analyses, and create various types of meta-analytical plots (e.g., forest, funnel, radial, L'Abbe, Baujat, bubble, and GOSH plots). For meta-analyses of binomial and person-time data, the package also provides functions that implement specialized methods, including the Mantel-Haenszel method, Peto's method, and a variety of suitable generalized linear (mixed-effects) models (i.e., mixed-effects logistic and Poisson regression models). Finally, the package provides functionality for fitting meta-analytic multivariate/multilevel models that account for non-independent sampling errors and/or true effects (e.g., due to the inclusion of multiple treatment studies, multiple endpoints, or other forms of clustering). Network meta-analyses and meta-analyses accounting for known correlation structures (e.g., due to phylogenetic relatedness) can also be conducted. An introduction to the package can be found in Viechtbauer (2010) . Package: r-cran-metaforest Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 241 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-metafor, r-cran-ranger, r-cran-data.table, r-cran-gtable Suggests: r-cran-testthat, r-cran-caret, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-metaforest_0.1.4-1.ca2004.1_all.deb Size: 171384 MD5sum: 5bc8b61a527da78f474300427234bea8 SHA1: a3e12958c2241b7f27eb435a3d013ba364f2e5d5 SHA256: fd57406084e8cd1a536ebf1211578add8fbf8f0252fa3f23bb13e79d72c24815 SHA512: 117c865e3003212d489f6013798d76584a018b5cecd8cd05c5d04ecea1fc47f471dde49e2c2aae6804ec1a992265339f486d78df8ef8c1a0eaa1083c98cfe03c Homepage: https://cran.r-project.org/package=metaforest Description: CRAN Package 'metaforest' (Exploring Heterogeneity in Meta-Analysis using Random Forests) Conduct random forests-based meta-analysis, obtain partial dependence plots for metaforest and classic meta-analyses, and cross-validate and tune metaforest- and classic meta-analyses in conjunction with the caret package. A requirement of classic meta-analysis is that the studies being aggregated are conceptually similar, and ideally, close replications. However, in many fields, there is substantial heterogeneity between studies on the same topic. Classic meta-analysis lacks the power to assess more than a handful of univariate moderators. MetaForest, by contrast, has substantial power to explore heterogeneity in meta-analysis. It can identify important moderators from a larger set of potential candidates (Van Lissa, 2020). This is an appealing quality, because many meta-analyses have small sample sizes. Moreover, MetaForest yields a measure of variable importance which can be used to identify important moderators, and offers partial prediction plots to explore the shape of the marginal relationship between moderators and effect size. Package: r-cran-metafuse Architecture: all Version: 2.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-matrix, r-cran-mass, r-cran-evd Filename: pool/dists/focal/main/r-cran-metafuse_2.0-1-1.ca2004.1_all.deb Size: 65588 MD5sum: a79aaa28d40fdff921d3dc1266c0ae31 SHA1: 0c493223be8a0fab143a8e15965fe669e0d93a14 SHA256: 05c3ee57e568ea826f04297c70e069c2133cb63896cb5054fa7d45a0384acb86 SHA512: 0c57db1c56bdaa3eb05dc6d3ade3474b8ef0375f82af0ad037e6e7e909194a3c1fdc011d5e5f15e07768d67f435f22e38ae75bfa54b0017d467d941a8517c5c0 Homepage: https://cran.r-project.org/package=metafuse Description: CRAN Package 'metafuse' (Fused Lasso Approach in Regression Coefficient Clustering) Fused lasso method to cluster and estimate regression coefficients of the same covariate across different data sets when a large number of independent data sets are combined. Package supports Gaussian, binomial, Poisson and Cox PH models. Package: r-cran-metagam Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 943 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mgcv, r-cran-ggplot2, r-cran-metafor, r-cran-rlang Suggests: r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metagam_0.4.0-1.ca2004.1_all.deb Size: 587136 MD5sum: 1cd9eee8eb6ab6dd11a500ff8b49355e SHA1: fb50f2ca14ee0ee029c372ebc4535b909eabef47 SHA256: 126ed6827f9b4b5f539dd1c7d644245d30229a1637039cf6c5a8ce803191313a SHA512: a763bfed81fbdc0d59956aad0feedbbc0d015cd969a4d0d0374f13adb03620797b19673360052e7e4ed394367f68a9c722b8cce75485774b4fdf0b96532379a9 Homepage: https://cran.r-project.org/package=metagam Description: CRAN Package 'metagam' (Meta-Analysis of Generalized Additive Models) Meta-analysis of generalized additive models and generalized additive mixed models. A typical use case is when data cannot be shared across locations, and an overall meta-analytic fit is sought. 'metagam' provides functionality for removing individual participant data from models computed using the 'mgcv' and 'gamm4' packages such that the model objects can be shared without exposing individual data. Furthermore, methods for meta-analysing these fits are provided. The implemented methods are described in Sorensen et al. (2020), , extending previous works by Schwartz and Zanobetti (2000) and Crippa et al. (2018) . Package: r-cran-metage Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5272 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-corrplot, r-cran-data.table, r-cran-dplyr, r-cran-emdbook, r-cran-furrr, r-cran-future, r-cran-ggplot2, r-cran-ggrepel, r-cran-gplots, r-cran-ks, r-cran-purrr, r-cran-qqman, r-cran-rfast, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-viridis, r-cran-yarrr Suggests: r-cran-dt, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-metage_1.2.1-1.ca2004.1_all.deb Size: 4760492 MD5sum: d1ff24368048467b101cc38a3ff420e1 SHA1: 5388e8ecef24f2128d99f7ba9274d5c484195309 SHA256: a7b241f35b7acc205e0f9eef7a0c48c5680ad4f6d7ab5195f79964afb7f919fb SHA512: a3b5d4d007054263f4757ba307a31d6284c22405762db7a05c617258c5eede196ece498e1ded34b5790228d97a1d3c7774b4bb34f98ada9485a2ae30a651b6af Homepage: https://cran.r-project.org/package=metaGE Description: CRAN Package 'metaGE' (Meta-Analysis for Detecting Genotype x Environment Associations) Provides functions to perform all steps of genome-wide association meta-analysis for studying Genotype x Environment interactions, from collecting the data to the manhattan plot. The procedure accounts for the potential correlation between studies. In addition to the Fixed and Random models, one can investigate the relationship between QTL effects and some qualitative or quantitative covariate via the test of contrast and the meta-regression, respectively. The methodology is available from: (De Walsche, A., et al. (2025) \doi{10.1371/journal.pgen.1011553}). Package: r-cran-metagear Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1069 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-mass, r-cran-metafor, r-cran-stringr Suggests: r-bioc-ebimage, r-cran-ape, r-cran-hexview, r-cran-rcurl, r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-metagear_0.7-1.ca2004.1_all.deb Size: 940508 MD5sum: b35feb35b21198e09d08f6efc28ef49a SHA1: 62e65a44c9ee1d9f9c2db45c1822005666b80545 SHA256: d93ecc9f2dfa22cc7a137afd390f0e08cd7da267781132719003212d94c25459 SHA512: 306c814f4f019d124d1f1c08d08f15be8c8d5ed872a1bc75b19eaf93b89f91d56b6b88316bee2c7b61f47272e5a3ffe81a4f72f606da6b98dff53f5ac19cb678 Homepage: https://cran.r-project.org/package=metagear Description: CRAN Package 'metagear' (Comprehensive Research Synthesis Tools for Systematic Reviewsand Meta-Analysis) Functionalities for facilitating systematic reviews, data extractions, and meta-analyses. It includes a GUI (graphical user interface) to help screen the abstracts and titles of bibliographic data; tools to assign screening effort across multiple collaborators/reviewers and to assess inter- reviewer reliability; tools to help automate the download and retrieval of journal PDF articles from online databases; figure and image extractions from PDFs; web scraping of citations; automated and manual data extraction from scatter-plot and bar-plot images; PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) flow diagrams; simple imputation tools to fill gaps in incomplete or missing study parameters; generation of random effects sizes for Hedges' d, log response ratio, odds ratio, and correlation coefficients for Monte Carlo experiments; covariance equations for modelling dependencies among multiple effect sizes (e.g., effect sizes with a common control); and finally summaries that replicate analyses and outputs from widely used but no longer updated meta-analysis software (i.e., metawin). Funding for this package was supported by National Science Foundation (NSF) grants DBI-1262545 and DEB-1451031. CITE: Lajeunesse, M.J. (2016) Facilitating systematic reviews, data extraction and meta-analysis with the metagear package for R. Methods in Ecology and Evolution 7, 323-330 . Package: r-cran-metaggr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 408 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metaggr_0.3.0-1.ca2004.1_all.deb Size: 327640 MD5sum: 15579ee10478351012f5dacfa1ac646f SHA1: e37dc800f17923023589882d11788b5f7bbfd739 SHA256: 7b21ac4d3044cc4eb2fa6ead89739f909055fabb1b132013740bfd4ff1afc994 SHA512: 2916188609cb06ce425ffa0eff553b66e1709db9fbc53c01676e08e3b8af7c949463828724af760e95d731941873ebc70dd6647df2777313ca219a881d73aa31 Homepage: https://cran.r-project.org/package=metaggR Description: CRAN Package 'metaggR' (Calculate the Knowledge-Weighted Estimate) According to a phenomenon known as "the wisdom of the crowds," combining point estimates from multiple judges often provides a more accurate aggregate estimate than using a point estimate from a single judge. However, if the judges use shared information in their estimates, the simple average will over-emphasize this common component at the expense of the judges’ private information. Asa Palley & Ville Satopää (2021) "Boosting the Wisdom of Crowds Within a Single Judgment Problem: Selective Averaging Based on Peer Predictions" proposes a procedure for calculating a weighted average of the judges’ individual estimates such that resulting aggregate estimate appropriately combines the judges' collective information within a single estimation problem. The authors use both simulation and data from six experimental studies to illustrate that the weighting procedure outperforms existing averaging-like methods, such as the equally weighted average, trimmed average, and median. This aggregate estimate -- know as "the knowledge-weighted estimate" -- inputs a) judges' estimates of a continuous outcome (E) and b) predictions of others' average estimate of this outcome (P). In this R-package, the function knowledge_weighted_estimate(E,P) implements the knowledge-weighted estimate. Its use is illustrated with a simple stylized example and on real-world experimental data. Package: r-cran-metahelper Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-confintr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-metahelper_1.0.0-1.ca2004.1_all.deb Size: 77180 MD5sum: e4ae908003fb09abdfb3da6ce2c66539 SHA1: abf175c8dce21a3848d5bdb9dee365e6ee3e70a3 SHA256: 2005150bad1f478f4f693c2f123625819096d474a8d67eb54e7748ee45254a0a SHA512: 57b6df1fdb0de4a2233f0713901b6fc76e296cac1e38cb9b2d90d0f5215a7d5efe26d8d64f4fad62e8462be5729d6d1cf389375fcc586bfcf36f0512340a33c2 Homepage: https://cran.r-project.org/package=metaHelper Description: CRAN Package 'metaHelper' (Transforms Statistical Measures Commonly Used for Meta-Analysis) Helps calculate statistical values commonly used in meta-analysis. It provides several methods to compute different forms of standardized mean differences, as well as other values such as standard errors and standard deviations. The methods used in this package are described in the following references: Altman D G, Bland J M. (2011) Borenstein, M., Hedges, L.V., Higgins, J.P.T. and Rothstein, H.R. (2009) Chinn S. (2000) Cochrane Handbook (2011) Cooper, H., Hedges, L. V., & Valentine, J. C. (2009) Cohen, J. (1977) Ellis, P.D. (2009) Goulet-Pelletier, J.-C., & Cousineau, D. (2018) Hedges, L. V. (1981) Hedges L. V., Olkin I. (1985) Murad M H, Wang Z, Zhu Y, Saadi S, Chu H, Lin L et al. (2023) Mayer M (2023) Stackoverflow (2014) Stackoverflow (2018) . Package: r-cran-metaheuristicopt Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-metaheuristicopt_2.0.0-1.ca2004.1_all.deb Size: 238544 MD5sum: 8ed9073062863eb0a3df4e8f939ab3c8 SHA1: 0268496c8ea7d4e567f287a4da0b89c1157a4397 SHA256: f348313a145c373db20cd1336844841635a278756c611851da6bb0cf793c9dd5 SHA512: 84282838b0170d8087a376311038dad92bfc662035a865591f6c24a9a30a26cc1b84561000dd9b389cf10b0fd44471d57cdeee49fb9e0a5dc2102ee060f0eb8d Homepage: https://cran.r-project.org/package=metaheuristicOpt Description: CRAN Package 'metaheuristicOpt' (Metaheuristic for Optimization) An implementation of metaheuristic algorithms for continuous optimization. Currently, the package contains the implementations of 21 algorithms, as follows: particle swarm optimization (Kennedy and Eberhart, 1995), ant lion optimizer (Mirjalili, 2015 ), grey wolf optimizer (Mirjalili et al., 2014 ), dragonfly algorithm (Mirjalili, 2015 ), firefly algorithm (Yang, 2009 ), genetic algorithm (Holland, 1992, ISBN:978-0262581110), grasshopper optimisation algorithm (Saremi et al., 2017 ), harmony search algorithm (Mahdavi et al., 2007 ), moth flame optimizer (Mirjalili, 2015 , sine cosine algorithm (Mirjalili, 2016 ), whale optimization algorithm (Mirjalili and Lewis, 2016 ), clonal selection algorithm (Castro, 2002 ), differential evolution (Das & Suganthan, 2011), shuffled frog leaping (Eusuff, Landsey & Pasha, 2006), cat swarm optimization (Chu et al., 2006), artificial bee colony algorithm (Karaboga & Akay, 2009), krill-herd algorithm (Gandomi & Alavi, 2012), cuckoo search (Yang & Deb, 2009), bat algorithm (Yang, 2012), gravitational based search (Rashedi et al., 2009) and black hole optimization (Hatamlou, 2013). Package: r-cran-metainc Architecture: all Version: 0.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 556 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-meta, r-cran-ggplot2, r-cran-confintr Suggests: r-cran-metafor Filename: pool/dists/focal/main/r-cran-metainc_0.2-1-1.ca2004.1_all.deb Size: 534520 MD5sum: 80fc3554cb82278a9e4257bdad306228 SHA1: 363fcac9e33642557a112c2de569102753665e1c SHA256: b97d2d5bfe0ef4c53d609ce673b75bffad9e85880993a3b175d250a6b757469b SHA512: b6925d29d126b588b4591975a5ea18996f9e9df8949262adc08c3815207146f4901f7bdc1931d7353492b34cf46b950e31fdf38627766e219cf271977c2b70f9 Homepage: https://cran.r-project.org/package=metainc Description: CRAN Package 'metainc' (Assessment of Inconsistency in Meta-Analysis using DecisionThresholds) Assessment of inconsistency in meta-analysis by calculating the Decision Inconsistency index (DI) and the Across-Studies Inconsistency (ASI) index. These indices quantify inconsistency taking into account outcome-level decision thresholds. Package: r-cran-metaintegration Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rsolnp, r-cran-corpcor, r-cran-mass, r-cran-knitr Filename: pool/dists/focal/main/r-cran-metaintegration_0.1.2-1.ca2004.1_all.deb Size: 78664 MD5sum: 8ffdf04a1f999e1138d6f726a5c57ef4 SHA1: f3211fa1970368af70db5935d4e0eba18f32561f SHA256: b7cf31495b293ae7004b4c1c9bd4aa85d526ec8686c169ca1ef3702b8526e108 SHA512: 6f81d32dda15470a5bc0d0d62df68bc214dde87c7d0b71a69ce4e96443706a6b09238c9d38fd6c1604ff01170e2a7638cb5fac79262bc0aad9ee2b59afca0eec Homepage: https://cran.r-project.org/package=MetaIntegration Description: CRAN Package 'MetaIntegration' (Ensemble Meta-Prediction Framework) An ensemble meta-prediction framework to integrate multiple regression models into a current study. Gu, T., Taylor, J.M.G. and Mukherjee, B. (2020) . A meta-analysis framework along with two weighted estimators as the ensemble of empirical Bayes estimators, which combines the estimates from the different external models. The proposed framework is flexible and robust in the ways that (i) it is capable of incorporating external models that use a slightly different set of covariates; (ii) it is able to identify the most relevant external information and diminish the influence of information that is less compatible with the internal data; and (iii) it nicely balances the bias-variance trade-off while preserving the most efficiency gain. The proposed estimators are more efficient than the naive analysis of the internal data and other naive combinations of external estimators. Package: r-cran-metaintegrator Architecture: all Version: 2.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4569 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biocmanager, r-cran-rmeta, r-bioc-multtest, r-cran-ggplot2, r-cran-rmisc, r-cran-gplots, r-bioc-biobase, r-cran-rmysql, r-cran-dbi, r-cran-stringr, r-bioc-preprocesscore, r-bioc-geoquery, r-bioc-geometadb, r-cran-rsqlite, r-cran-data.table, r-cran-ggpubr, r-cran-rocr, r-cran-zoo, r-cran-pracma, r-cran-coconut, r-cran-metrics, r-cran-manhattanly, r-cran-dt, r-cran-pheatmap, r-cran-plyr, r-cran-boot, r-cran-dplyr, r-cran-reshape2, r-cran-rmarkdown, r-bioc-annotationdbi, r-cran-hgnchelper, r-cran-magrittr, r-cran-readr, r-cran-plotly, r-cran-httpuv Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-runit, r-bioc-biocgenerics, r-cran-snplist, r-cran-magick Filename: pool/dists/focal/main/r-cran-metaintegrator_2.1.3-1.ca2004.1_all.deb Size: 3452636 MD5sum: c176a44bffffc2b5c52306388e9c3f6c SHA1: 923d1e0b44a11714b96ddec2c3878d677cd5d813 SHA256: 4e9db9975b0360134f425180a0b3573cce0222ae194b7a4d42df02fe4c2b18ec SHA512: 41afcc766670971d0734f741f61d6c5aac970849bcda3c0f57cbcf079d605a874a174629d9b28d3119b18a0a80cac49b3c05b5940f8cbb89102a33a19bfea9f2 Homepage: https://cran.r-project.org/package=MetaIntegrator Description: CRAN Package 'MetaIntegrator' (Meta-Analysis of Gene Expression Data) A pipeline for the meta-analysis of gene expression data. We have assembled several analysis and plot functions to perform integrated multi-cohort analysis of gene expression data (meta- analysis). Methodology described in: . Package: r-cran-metajam Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3611 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dataone, r-cran-dplyr, r-cran-eml, r-cran-emld, r-cran-lubridate, r-cran-purrr, r-cran-readr, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-xml Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metajam_0.3.1-1.ca2004.1_all.deb Size: 2617948 MD5sum: cf3cb667f02ae3b6ba1b62d085f305b7 SHA1: 14ed9211d534e1a1f8561caf7f1dc1a404b5b087 SHA256: f29eb542ada67f64e81052dea2656924f5328f6b632f32360a7091f03b210011 SHA512: 2f9da756df36419891e51067bf49798a4e43eaadd92f7acf3a68783c2093c8f6e67897c0b70417ffaeea646b4d017c0064eacd6e6a3c78a40f7ed5089571d351 Homepage: https://cran.r-project.org/package=metajam Description: CRAN Package 'metajam' (Easily Download Data and Metadata from 'DataONE') A set of tools to foster the development of reproducible analytical workflow by simplifying the download of data and metadata from 'DataONE' () and easily importing this information into R. Package: r-cran-metalandsim Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 14635 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-igraph, r-cran-e1071, r-cran-googlevis, r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-sp, r-cran-minpack.lm, r-cran-zipfr, r-cran-coda, r-cran-terra, r-cran-knitr Suggests: r-cran-rastervis Filename: pool/dists/focal/main/r-cran-metalandsim_2.0.0-1.ca2004.1_all.deb Size: 4105508 MD5sum: 1f9b8cc6a4dd6f86422863e0e46a3540 SHA1: b2f3a14d49b9188f2ec66ad4d04216d6449d87ed SHA256: 4c5ef111a58f57f5a9fbaf4f11403e054b18384d9821693f528d2693f42cece9 SHA512: 766f5321bcd91ca3899450d5236d5d4b7360187d6f9a320f026d5e45f7f9c973685bebde37cf0a5af87cb780bdfb3ff548abce849e98b1d4c63c0ef648262172 Homepage: https://cran.r-project.org/package=MetaLandSim Description: CRAN Package 'MetaLandSim' (Landscape and Range Expansion Simulation) Tools to generate random landscape graphs, evaluate species occurrence in dynamic landscapes, simulate future landscape occupation and evaluate range expansion when new empty patches are available (e.g. as a result of climate change). References: Mestre, F., Canovas, F., Pita, R., Mira, A., Beja, P. (2016) ; Mestre, F., Risk, B., Mira, A., Beja, P., Pita, R. (2017) ; Mestre, F., Pita, R., Mira, A., Beja, P. (2020) . Package: r-cran-metalik Architecture: all Version: 0.44.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-metalik_0.44.0-1.ca2004.1_all.deb Size: 67180 MD5sum: dcb9fdc0c7fa1f1a172e47a33b1e637d SHA1: b580c35a1c667b98978d980a81feb6af0f710f42 SHA256: 6151dbf091424c6ff7bd5cc1ec2ea80990944fd789ce9debc4470531e46310d7 SHA512: 4919891ca51239c6aae493d80096b817431a80a7409fd9fe786ea742191d741c0c559048d78bb4f758e2eebfc64a7492a5a3f8cc5a6791434ebb046fcbd796b0 Homepage: https://cran.r-project.org/package=metaLik Description: CRAN Package 'metaLik' (Likelihood Inference in Meta-Analysis and Meta-Regression Models) First- and higher-order likelihood inference in meta-analysis and meta-regression models. Package: r-cran-metalite.ae Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1976 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glue, r-cran-metalite, r-cran-r2rtf Suggests: r-cran-desctools, r-cran-covr, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-metalite.ae_0.1.3-1.ca2004.1_all.deb Size: 1023248 MD5sum: db1072a798b07a97a97186e79f965176 SHA1: 261fa0a5ebb31c6938accc40d7d1a36d9382cbd6 SHA256: 8678c9b8929bbb795a44fa5a1f5b980ba0170024b4a65b4497ab509fd023fab0 SHA512: 5dd628d822a126c5f436a70ca5e4b76d51cd0f1ca655e30375f1bbd0109b841f81cf4c61288b6fa03d71de420bf74d568acaede9f372a5361e5e43f5fc2d4cf2 Homepage: https://cran.r-project.org/package=metalite.ae Description: CRAN Package 'metalite.ae' (Adverse Events Analysis Using 'metalite') Analyzes adverse events in clinical trials using the 'metalite' data structure. The package simplifies the workflow to create production-ready tables, listings, and figures discussed in the adverse events analysis chapters of "R for Clinical Study Reports and Submission" by Zhang et al. (2022) . 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The package simplifies the workflow to create production-ready tables, listings, and figures discussed in the subject-level analysis chapters of "R for Clinical Study Reports and Submission" by Zhang et al. (2022) . Package: r-cran-metalite.table1 Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-metalite, r-cran-reactable, r-cran-htmltools, r-cran-r2rtf, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-table1, r-cran-devtools, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-metalite.table1_0.4.0-1.ca2004.1_all.deb Size: 33592 MD5sum: 1dd4d74428d0f216720e17a24b1b7cae SHA1: 2ad4969eb21110a28dfc620c28fafb4fa20a3502 SHA256: 2e757c7e2f53ab33a995d2ff020f991058db82583bb0440ca2b8302c270b10fd SHA512: 63b4ee85e606a2568bca212a4294451c1686783fef00068a76552baee81449e4ecf8f36b7614a46cbb0e7dbc0cab5779b0d8b2fec8b64e22238ba17651ff537b Homepage: https://cran.r-project.org/package=metalite.table1 Description: CRAN Package 'metalite.table1' (Interactive Table of Descriptive Statistics in HTML) Create an interactive table of descriptive statistics in HTML. This table is typically used for exploratory analysis in a clinical study (referred to as 'Table 1'). 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Package: r-cran-metamer Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 254 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-fnn, r-cran-progress Suggests: r-cran-shiny, r-cran-miniui, r-cran-testthat, r-cran-data.table, r-cran-covr, r-cran-sf Filename: pool/dists/focal/main/r-cran-metamer_0.3.0-1.ca2004.1_all.deb Size: 212088 MD5sum: 077ab3991c28ee149689aa87bbe880f4 SHA1: 53a0f41e38fd624cac0104ac27824af341885f08 SHA256: 402b28320b2badf07a937515dc122a89ed81e6281a5381462ca88fa8a5b3f970 SHA512: 77506f3eb93d08eb3e1efc45491885f561b4273aae3ff46c76dd63c97cfa760e0f6c85bf9d02c93f0498b068fb750c958349f034744cd39ef317f3ff2dfa0190 Homepage: https://cran.r-project.org/package=metamer Description: CRAN Package 'metamer' (Create Data with Identical Statistics) Creates data with identical statistics (metamers) using an iterative algorithm proposed by Matejka & Fitzmaurice (2017) . 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Parametric methods includes Additive Main Effects and Multiplicative Interaction (AMMI) analysis by Gauch (2013) , Ecovalence by Wricke (1965), Genotype plus Genotype-Environment (GGE) biplot analysis by Yan & Kang (2003) , geometric adaptability index by Mohammadi & Amri (2008) , joint regression analysis by Eberhart & Russel (1966) , genotypic confidence index by Annicchiarico (1992), Murakami & Cruz's (2004) method, power law residuals (POLAR) statistics by Doring et al. (2015) , scale-adjusted coefficient of variation by Doring & Reckling (2018) , stability variance by Shukla (1972) , weighted average of absolute scores by Olivoto et al. (2019a) , and multi-trait stability index by Olivoto et al. (2019b) . Non-parametric methods includes superiority index by Lin & Binns (1988) , nonparametric measures of phenotypic stability by Huehn (1990) , TOP third statistic by Fox et al. (1990) . Functions for computing biometrical analysis such as path analysis, canonical correlation, partial correlation, clustering analysis, and tools for inspecting, manipulating, summarizing and plotting typical multi-environment trial data are also provided. 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Calculate correlation network fastly, accelerate lots of analysis by parallel computing. Support for multi-omics data, search sub-nets fluently. Handle bigger data, more than 10,000 nodes in each omics. Offer various layout method for multi-omics network and some interfaces to other software ('Gephi', 'Cytoscape', 'ggplot2'), easy to visualize. Provide comprehensive topology indexes calculation, including ecological network stability. 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Package: r-cran-metap Architecture: all Version: 1.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 674 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice, r-cran-rdpack, r-cran-tfisher, r-cran-mutoss, r-cran-mathjaxr, r-cran-qqconf Filename: pool/dists/focal/main/r-cran-metap_1.12-1.ca2004.1_all.deb Size: 567644 MD5sum: cf8f2e7e9cb5fd642e8f985c36f7b1e9 SHA1: 7e3600e1cc12bc40867a23b7536bd0ca2f152660 SHA256: e56bccbe7621b621a1546aeb7a7d054973a11ad189e3a9c88f7d1e7167ba5e3e SHA512: 5f274fc5cf48e1db5bdb58b99fbca8b01ff0ba86767c38d162affa911ac2a198f808263a3667a5e74a7bebb519c88f73a3405afd36990acdf7a09993c5444daf Homepage: https://cran.r-project.org/package=metap Description: CRAN Package 'metap' (Meta-Analysis of Significance Values) The canonical way to perform meta-analysis involves using effect sizes. When they are not available this package provides a number of methods for meta-analysis of significance values including the methods of Edgington, Fisher, Lancaster, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate published results; and routines for graphical display. Package: r-cran-metapath Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1464 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biobase, r-bioc-gseabase, r-bioc-genefilter, r-bioc-impute Filename: pool/dists/focal/main/r-cran-metapath_1.0-1.ca2004.1_all.deb Size: 1464548 MD5sum: cf2c00ee119ba5b738e4a8f9562fecf4 SHA1: fb0b57ca70e4d20dbeeb8b53a9beec74fbd4830e SHA256: 64538eb51ad78065e58ccb2ea0b1dfed4593f379b56c3420649faf78c30e30be SHA512: 03a502433552442ed10c6e7d06670de507149e2fe782676508938ca9043e4fc59be491e7292b265a6414ad015ad296faa1668a45b2c9cca0d53ef63e61d03684 Homepage: https://cran.r-project.org/package=MetaPath Description: CRAN Package 'MetaPath' (Perform the Meta-Analysis for Pathway Enrichment Analysis (MAPE)) Perform the Meta-analysis for Pathway Enrichment (MAPE) methods introduced by Shen and Tseng (2010). It includes functions to automatically perform MAPE_G (integrating multiple studies at gene level), MAPE_P (integrating multiple studies at pathway level) and MAPE_I (a hybrid method integrating MAEP_G and MAPE_P methods). In the simulation and real data analyses in the paper, MAPE_G and MAPE_P have complementary advantages and detection power depending on the data structure. In general, the integrative form of MAPE_I is recommended to use. In the case that MAPE_G (or MAPE_P) detects almost none pathway, the integrative MAPE_I does not improve performance and MAPE_P (or MAPE_G) should be used. Reference: Shen, Kui, and George C Tseng. Meta-analysis for pathway enrichment analysis when combining multiple microarray studies.Bioinformatics (Oxford, England) 26, no. 10 (April 2010): 1316-1323. doi:10.1093/bioinformatics/btq148. http://www.ncbi.nlm.nih.gov/pubmed/20410053. Package: r-cran-metaplot Architecture: all Version: 0.8.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 398 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-encode, r-cran-lattice, r-cran-magrittr, r-cran-dplyr, r-cran-tidyr, r-cran-rlang, r-cran-gridextra, r-cran-gtable, r-cran-ggplot2, r-cran-scales Suggests: r-cran-csv, r-cran-nlme Filename: pool/dists/focal/main/r-cran-metaplot_0.8.4-1.ca2004.1_all.deb Size: 358848 MD5sum: 5dd1176f4ea89907d57cc92a491ee1da SHA1: d789a6292038d85c08eb8b84678f31d0fb215a8f SHA256: 7cbe7a78a5913cca2d2989d927055c0b7196028fecb073db34c0f237423db8a8 SHA512: ad095b4f18537b056aabb33f6a88da8d10f3945d93c2ea3b1b5f3473aa935e007564983775f185f97501781b9c1b6954e166de196f6770b27a0e63280e9dbb33 Homepage: https://cran.r-project.org/package=metaplot Description: CRAN Package 'metaplot' (Data-Driven Plot Design) Designs plots in terms of core structure. See 'example(metaplot)'. Primary arguments are (unquoted) column names; order and type (numeric or not) dictate the resulting plot. Specify any y variables, x variable, any groups variable, and any conditioning variables to metaplot() to generate density plots, boxplots, mosaic plots, scatterplots, scatterplot matrices, or conditioned plots. Use multiplot() to arrange plots in grids. Wherever present, scalar column attributes 'label' and 'guide' are honored, producing fully annotated plots with minimal effort. Attribute 'guide' is typically units, but may be encoded() to provide interpretations of categorical values (see '?encode'). Utility unpack() transforms scalar column attributes to row values and pack() does the reverse, supporting tool-neutral storage of metadata along with primary data. The package supports customizable aesthetics such as such as reference lines, unity lines, smooths, log transformation, and linear fits. The user may choose between trellis and ggplot output. Compact syntax and integrated metadata promote workflow scalability. Package: r-cran-metaplotr Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-metafor Filename: pool/dists/focal/main/r-cran-metaplotr_0.0.3-1.ca2004.1_all.deb Size: 134132 MD5sum: 157019cacdff840b9b9100a16145b088 SHA1: 9e176f4247bd51979c9b959b1ded859da8a64f81 SHA256: 7a0d659e44f76209732d5ed3850ec4f8dd0c58198e1b1e0bfaecb40d554b9d5a SHA512: 9386be27c8f0e9e5d728dc6194b70623f137e22dbab73e48e78de7cb86ec7a391762fe2f7f4beca81df5f6c76d8898006db6334406511ab95ff0a7b88db36e69 Homepage: https://cran.r-project.org/package=metaplotr Description: CRAN Package 'metaplotr' (Creates CrossHairs Plots for Meta-Analyses) Creates crosshairs plots to summarize and analyse meta-analysis results. In due time this package will contain code that will create other kind of meta-analysis graphs. Package: r-cran-metaplus Architecture: all Version: 1.0-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 627 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bbmle, r-cran-metafor, r-cran-boot, r-cran-numderiv, r-cran-mass, r-cran-fastghquad, r-cran-lme4, r-cran-rfast, r-cran-doparallel, r-cran-foreach Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-metaplus_1.0-6-1.ca2004.1_all.deb Size: 473008 MD5sum: dfa11444b6d3d2d9f6617995354f23bb SHA1: 0d3deb0e384aa9f9a29e084bf4271d71a76a509b SHA256: 0c1ab421a75d2129e662d2d1c43577e79c1d51d58709c566b474b075540fae06 SHA512: d752485bdea9c5982d549794b0719bd46b5ebe419869c2627af264697e2709301dd23e0b1dfcbceb40e24bc5432cbd686a58ff1972483de283c86bb50f3bd20f Homepage: https://cran.r-project.org/package=metaplus Description: CRAN Package 'metaplus' (Robust Meta-Analysis and Meta-Regression) Performs meta-analysis and meta-regression using standard and robust methods with confidence intervals based on the profile likelihood. Robust methods are based on alternative distributions for the random effect, either the t-distribution (Lee and Thompson, 2008 or Baker and Jackson, 2008 ) or mixtures of normals (Beath, 2014 ). Package: r-cran-metapost Architecture: all Version: 1.0-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gridbezier Suggests: r-cran-grimport Filename: pool/dists/focal/main/r-cran-metapost_1.0-6-1.ca2004.1_all.deb Size: 71800 MD5sum: 39b8ddaadded62f37470012912f08731 SHA1: cdada7f96c6d39bce462985b511997a7aa22ad04 SHA256: 841c5c53158786a34e50e3b59b5552401540af28462214615426b4b3b2a72ed1 SHA512: 8bc526bedad9a0604ebe7ece25b098666016bec11bd83431b971e7b0939294d96652c9d219899e4f0d2207ca44e3f553c1c492d892ad7b0c2078ecb88e0d5402 Homepage: https://cran.r-project.org/package=metapost Description: CRAN Package 'metapost' (Interface to 'MetaPost') Provides an interface to 'MetaPost' (Hobby, 1998) . There are functions to generate an R description of a 'MetaPost' curve, functions to generate 'MetaPost' code from an R description, functions to process 'MetaPost' code, and functions to read solved 'MetaPost' paths back into R. Package: r-cran-metapower Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2295 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cowplot, r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-magrittr, r-cran-tidyr, r-cran-rlang Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metapower_0.2.2-1.ca2004.1_all.deb Size: 1436820 MD5sum: c632547da7e27d35389327b82bcf1224 SHA1: c1ab026e953e548bc21c17ba06e92e23becda5ae SHA256: c827f8cd7a45f611296c0090c885b6b3c307112ef94a4afed0540001df42a210 SHA512: 3cd46a7b631f24954d9944761558fe67ad5ad84aef9c13bc6af3047a6d2635537d9c3196cc15697ce8ff8839ee1c01168cce2c0e19f913845bdb8422c654a9d4 Homepage: https://cran.r-project.org/package=metapower Description: CRAN Package 'metapower' (Power Analysis for Meta-Analysis) A simple and effective tool for computing and visualizing statistical power for meta-analysis, including power analysis of main effects (Jackson & Turner, 2017), test of homogeneity (Pigott, 2012), subgroup analysis, and categorical moderator analysis (Hedges & Pigott, 2004). Package: r-cran-metapro Architecture: all Version: 1.5.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-metap Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-metapro_1.5.11-1.ca2004.1_all.deb Size: 24112 MD5sum: 355aeef25ae74887988987d0eb1f5c88 SHA1: d5306c2e473f40520879e273ef3d3ee3bda96b29 SHA256: c7ddf44372313611471581f59545e7cbcc1b58c942852eef096d6411950899ee SHA512: 1e1b84a0de7c0ed5a85e167c8d4c741ea03a2838a01597738c98e6506af98119fa1b5aecbb35a68eea6412f97b4f6c2f4658bfcc7476c767c8574d16e18df4ee Homepage: https://cran.r-project.org/package=metapro Description: CRAN Package 'metapro' (Robust P-Value Combination Methods) The meta-analysis is performed to increase the statistical power by integrating the results from several experiments. The p-values are often combined in meta-analysis when the effect sizes are not available. The 'metapro' R package provides not only traditional methods (Becker BJ (1994, ISBN:0-87154-226-9), Mosteller, F. & Bush, R.R. (1954, ISBN:0201048523) and Lancaster HO (1949, ISSN:00063444)), but also new method named weighted Fisher’s method we developed. While the (weighted) Z-method is suitable for finding features effective in most experiments, (weighted) Fisher’s method is useful for detecting partially associated features. Thus, the users can choose the function based on their purpose. Yoon et al. (2021) "Powerful p-value combination methods to detect incomplete association" . Package: r-cran-metaprotr Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1193 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ade4, r-cran-dendextend, r-cran-dplyr, r-cran-ggforce, r-cran-ggrepel, r-cran-reshape2, r-cran-stringr, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-metaprotr_1.2.2-1.ca2004.1_all.deb Size: 1097728 MD5sum: 23679b6b23bf9dfba8402994d595186a SHA1: 7fac2ab68c74f7be9832f3459a7aae95f5e42468 SHA256: 115621e5f63031481a8d012a490143c8fbed953703871e1306af5e9191a325f8 SHA512: cda458c32e35da9f8b3d6c24020ac972edfdd9f33996a9491e879febf411fa0c9790d2b7624634b492fc11de8f220dfabaae3fd7c0941a7924e05964b1760f00 Homepage: https://cran.r-project.org/package=metaprotr Description: CRAN Package 'metaprotr' (Metaproteomics Post-Processing Analysis) Set of tools for descriptive analysis of metaproteomics data generated from high-throughput mass spectrometry instruments. These tools allow to cluster peptides and proteins abundance, expressed as spectral counts, and to manipulate them in groups of metaproteins. This information can be represented using multiple visualization functions to portray the global metaproteome landscape and to differentiate samples or conditions, in terms of abundance of metaproteins, taxonomic levels and/or functional annotation. The provided tools allow to implement flexible analytical pipelines that can be easily applied to studies interested in metaproteomics analysis. Package: r-cran-metaquant Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gld, r-cran-sld, r-cran-ggplot2, r-cran-plotly, r-cran-magrittr, r-cran-dplyr, r-cran-estmeansd Filename: pool/dists/focal/main/r-cran-metaquant_0.1.1-1.ca2004.1_all.deb Size: 104224 MD5sum: 988432e99a62849e5e54da5d266a5321 SHA1: 66ff4d4b99c401694344358f7a405cdfdd96a245 SHA256: e87048802321f9e5b842f46917d1f66e939a30f54fcbf3a506346745a1215da2 SHA512: 4cd9cf92965d45ffb60c6f5829e6b7453ac875bc14584b76514046704b48e12f8cc805cb75c3e9263bbdb5a5bc087e350dc1cc2eaa216b2ab739bbc9e89a7ba5 Homepage: https://cran.r-project.org/package=metaquant Description: CRAN Package 'metaquant' (Estimating Means, Standard Deviations and VisualisingDistributions using Quantiles) Implements a novel density-based approach for estimating unknown means, visualizing distributions, and meta-analyses of quantiles. A detailed vignettes with example datasets and code to prepare data and analyses is available at . The methods are described in the pre-print by De Livera, Prendergast and Kumaranathunga (2024, ). Package: r-cran-metarmst Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstpm2, r-cran-mvmeta, r-cran-meta, r-cran-survival, r-cran-survrm2 Filename: pool/dists/focal/main/r-cran-metarmst_1.0.0-1.ca2004.1_all.deb Size: 52608 MD5sum: abe11f62be3702d8702d2fb56467e4aa SHA1: 80a9f371ffe3dfc2af721a6d02be5818a555b99e SHA256: 752e0bc5b1d0775566807316e4e6e0eaa6b4fea5fd8b6b21a20b46959cb6ed0f SHA512: 795bd1d87d9a39477a07e03932929d0de3db3b9d66d5ae73f59aeb5cccd9804c5ef40c830d368c632699006d2f147be17ce1b6e1ea528adeea20d0704d9cef0b Homepage: https://cran.r-project.org/package=metaRMST Description: CRAN Package 'metaRMST' (Meta-Analysis of RMSTD) R implementation of a multivariate meta-analysis of randomized controlled trials (RCT) with the difference in restricted mean survival times (RMSTD). Use this package with individual patient level data from an RCT for a time-to-event outcome to determine combined effect estimates according to 4 methods: 1) a univariate meta-analysis using observed treatment effects, 2) a univariate meta-analysis using effects predicted by fitted Royston-Parmar flexible parametric models, 3) multivariate meta-analysis with analytically derived covariance, 4) multivariate meta-analysis with bootstrap derived covariance. This package computes all combined effects and provides an RMSTD curve with combined effect estimates and their confidence intervals. Package: r-cran-metarnaseq Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1358 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-bioc-deseq2, r-cran-venndiagram Filename: pool/dists/focal/main/r-cran-metarnaseq_1.0.8-1.ca2004.1_all.deb Size: 1274572 MD5sum: 561ad47d813ebc412f4311339238e487 SHA1: 3a2c5ba5d262cad08b6ea224392a57497dfadd0f SHA256: 3fd1381f800506715fc97ec94d2399c989ca0c5dfbf0b2ac19ccc8fc973f8ac7 SHA512: 006f71b794cfa1dbbc051ff60f851e1de62775e1391069b5a5c0a9b7079f779d78ac802e3250e232ef87fef4d831e129c217ebb1556ab4aacd83a7a892542dc0 Homepage: https://cran.r-project.org/package=metaRNASeq Description: CRAN Package 'metaRNASeq' (Meta-Analysis of RNA-Seq Data) Implementation of two p-value combination techniques (inverse normal and Fisher methods). A vignette is provided to explain how to perform a meta-analysis from two independent RNA-seq experiments. Package: r-cran-metasdtreg Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ordinal, r-cran-maxlik, r-cran-truncnorm, r-cran-matrix Filename: pool/dists/focal/main/r-cran-metasdtreg_0.2.2-1.ca2004.1_all.deb Size: 105496 MD5sum: 742681347b36307b8c5058a85364ead8 SHA1: e0c1b4c32024885fc911e776d9b38f2313f55a93 SHA256: b8605a5b1ba6b3b227cf6711bb14f619272d2f56553c3c8b45b416ed27e62408 SHA512: 4354e0d8cd5238ffd5a520c8d4e15f5757bddb69701f80595c2e64a590e201c4e9c5f5f3a615e2d79073463ad3ee6945ab285b84b407cbed1dfdd1b8398fb4b4 Homepage: https://cran.r-project.org/package=metaSDTreg Description: CRAN Package 'metaSDTreg' (Regression Models for Meta Signal Detection Theory) Regression methods for the meta-SDT model. The package implements methods for cognitive experiments of metacognition as described in Kristensen, S. B., Sandberg, K., & Bibby, B. M. (2020). Regression methods for metacognitive sensitivity. Journal of Mathematical Psychology, 94. . Package: r-cran-metasem Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2930 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openmx, r-cran-matrix, r-cran-mass, r-cran-ellipse, r-cran-mvtnorm, r-cran-numderiv, r-cran-lavaan Suggests: r-cran-metafor, r-cran-semplot, r-cran-r.rsp, r-cran-testthat, r-cran-matrixcalc Filename: pool/dists/focal/main/r-cran-metasem_1.5.0-1.ca2004.1_all.deb Size: 2072448 MD5sum: 5c530ddf69f848eae551c29656adb9d6 SHA1: 4a45b21d69f8d467d39de5c4795cf1ebd421cbb5 SHA256: 4634c95ae556cf68d002212b04c60835f74411b34376eb57279ee58253695580 SHA512: 22028fb014a5e457f33a8c0245ee7c0a8b1fd3b92dc88c30ec316999298611d60bb1328c19c1f9bcfead781711de0c479f143f6f9ee473021b21e7df3d01a572 Homepage: https://cran.r-project.org/package=metaSEM Description: CRAN Package 'metaSEM' (Meta-Analysis using Structural Equation Modeling) A collection of functions for conducting meta-analysis using a structural equation modeling (SEM) approach via the 'OpenMx' and 'lavaan' packages. It also implements various procedures to perform meta-analytic structural equation modeling on the correlation and covariance matrices, see Cheung (2015) . Package: r-cran-metasens Architecture: all Version: 1.5-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 334 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-meta Filename: pool/dists/focal/main/r-cran-metasens_1.5-3-1.ca2004.1_all.deb Size: 300316 MD5sum: 3cd161cddaf2f48e4a0b77622aaaab16 SHA1: 8446f322c2357662aae0379b8641021558b474e6 SHA256: 322e18717e18995e9220f7c1ed6bd1954033915c74e960c8bc6cf7e15844a56f SHA512: 37ba73d3485fb16a7bc55eb5cd6fc06caf7cadc835bf4f498601d43c380d7f15b065512fd0e2e7db8f1d19671b24cc1a65cf91de69b2e654fd0b01e89919e73c Homepage: https://cran.r-project.org/package=metasens Description: CRAN Package 'metasens' (Statistical Methods for Sensitivity Analysis in Meta-Analysis) The following methods are implemented to evaluate how sensitive the results of a meta-analysis are to potential bias in meta-analysis and to support Schwarzer et al. (2015) , Chapter 5 'Small-Study Effects in Meta-Analysis': - Copas selection model described in Copas & Shi (2001) ; - limit meta-analysis by Rücker et al. (2011) ; - upper bound for outcome reporting bias by Copas & Jackson (2004) ; - imputation methods for missing binary data by Gamble & Hollis (2005) and Higgins et al. (2008) ; - LFK index test and Doi plot by Furuya-Kanamori et al. (2018) . Package: r-cran-metasnf Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5035 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-cluster, r-cran-data.table, r-cran-digest, r-cran-dplyr, r-cran-ggplot2, r-cran-mass, r-cran-mclust, r-cran-progressr, r-cran-purrr, r-cran-rcolorbrewer, r-cran-rlang, r-cran-snftool, r-cran-tibble, r-cran-tidyr Suggests: r-cran-circlize, r-bioc-complexheatmap, r-bioc-interactivecomplexheatmap, r-cran-clv, r-cran-future, r-cran-future.apply, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggalluvial, r-cran-lifecycle, r-cran-dbscan Filename: pool/dists/focal/main/r-cran-metasnf_2.1.2-1.ca2004.1_all.deb Size: 3161172 MD5sum: de5ae33bf0cbce62281837e7403ad5b8 SHA1: a2db4b2674540674a73b282530c248fd20fa8028 SHA256: 18a0a39455a24f3424df08ac726071193a4435a7a09a4c2984d0792c133e8772 SHA512: 6cdb0c9440fc7cdaf07a05f2d216597a8e7b399282032fabe11820fc1a30276ab1df0c9e8f2238db2ff56ebf28c727a78fee21f2325a41af72a715a0d79b8ca1 Homepage: https://cran.r-project.org/package=metasnf Description: CRAN Package 'metasnf' (Meta Clustering with Similarity Network Fusion) Framework to facilitate patient subtyping with similarity network fusion and meta clustering. The similarity network fusion (SNF) algorithm was introduced by Wang et al. (2014) in . SNF is a data integration approach that can transform high-dimensional and diverse data types into a single similarity network suitable for clustering with minimal loss of information from each initial data source. The meta clustering approach was introduced by Caruana et al. (2006) in . Meta clustering involves generating a wide range of cluster solutions by adjusting clustering hyperparameters, then clustering the solutions themselves into a manageable number of qualitatively similar solutions, and finally characterizing representative solutions to find ones that are best for the user's specific context. This package provides a framework to easily transform multi-modal data into a wide range of similarity network fusion-derived cluster solutions as well as to visualize, characterize, and validate those solutions. Core package functionality includes easy customization of distance metrics, clustering algorithms, and SNF hyperparameters to generate diverse clustering solutions; calculation and plotting of associations between features, between patients, and between cluster solutions; and standard cluster validation approaches including resampled measures of cluster stability, standard metrics of cluster quality, and label propagation to evaluate generalizability in unseen data. Associated vignettes guide the user through using the package to identify patient subtypes while adhering to best practices for unsupervised learning. Package: r-cran-metasubtract Architecture: all Version: 1.60-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 423 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-metasubtract_1.60-1.ca2004.1_all.deb Size: 166644 MD5sum: eb6683a1cca40bfca4c99949ed4e7ed1 SHA1: 11516bf8384024971380f297bf8daa5487341416 SHA256: f1e936e04247c2c677a086017c138c13cb10ed609b1006f0fa92bb45a3f7f1e4 SHA512: 091fc434a9e3de016156996a228620e7e2de336a671c69401be4209616adeb21f16043e05ca5c516bb13da13ca1b08f22c7367656f8090f4e10f4b739ef9395a Homepage: https://cran.r-project.org/package=MetaSubtract Description: CRAN Package 'MetaSubtract' (Subtracting Summary Statistics of One or more Cohorts fromMeta-GWAS Results) If results from a meta-GWAS are used for validation in one of the cohorts that was included in the meta-analysis, this will yield biased (i.e. too optimistic) results. The validation cohort needs to be independent from the meta-Genome-Wide-Association-Study (meta-GWAS) results. 'MetaSubtract' will subtract the results of the respective cohort from the meta-GWAS results analytically without having to redo the meta-GWAS analysis using the leave-one-out methodology. It can handle different meta-analyses methods and takes into account if single or double genomic control correction was applied to the original meta-analysis. It can also handle different meta-analysis methods. It can be used for whole GWAS, but also for a limited set of genetic markers. See for application: Nolte I.M. et al. (2017); . Package: r-cran-metasurvival Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metasurvival_0.1.0-1.ca2004.1_all.deb Size: 53744 MD5sum: 690054c69016a0a0c7b393ebfd7db5ff SHA1: ea418b760fde55a8114116f4cb603448143abb0c SHA256: d9f55b15d0900478fcf44696fb3d246c5c9fee8581b2c44b8dec74d4d7f7080b SHA512: 12ee6939f9e8eb7751857e929b4e8a497795f3ea2bd4680b7481a8e3690dcc919a1ccb91bc943e0374ee7bd2409d2b9a0b471e06320714fd49f67895e03334ed Homepage: https://cran.r-project.org/package=metaSurvival Description: CRAN Package 'metaSurvival' (Meta-Analysis of a Single Survival Curve) To assess a summary survival curve from survival probabilities and number of at-risk patients collected at various points in time in various studies, and to test the between-strata heterogeneity. Package: r-cran-metatest Architecture: all Version: 1.0-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-metatest_1.0-5-1.ca2004.1_all.deb Size: 39092 MD5sum: a953ee593f343c89db1c2be29198ffe6 SHA1: 1a6c68000f31d0055d06221236d956068062561c SHA256: 5566546483540ec0551a243730e1bd73e5a36c6071ac5a24c1f9a1d2162f24ec SHA512: ee9e2bbebf5ab23d3e622b84bebd75e4879fd699698a9f766dbbb50649da331ea6989dcee09111d0ad6ea608cd06b39401331ed2c8641d0eb284bf5925ae2213 Homepage: https://cran.r-project.org/package=metatest Description: CRAN Package 'metatest' (Fit and Test Metaregression Models) Fits and tests meta regression models and generates a number of useful test statistics: next to t- and z-tests, the likelihood ratio, bartlett corrected likelihood ratio and permutation tests are performed on the model coefficients. Package: r-cran-metathis Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 423 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-htmltools, r-cran-knitr, r-cran-magrittr, r-cran-purrr Suggests: r-cran-rmarkdown, r-cran-shiny, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metathis_1.1.4-1.ca2004.1_all.deb Size: 198408 MD5sum: 41708ef9446e748a24ad5e6a8d073a48 SHA1: 3e8cc513e4d92ad469bda8712140321defae8e41 SHA256: 49133f327acbdfe725835055669350d80c8715747b3650f48206a1852d704a0b SHA512: b1101ececce0db0576fcda845a7c0429a439027bd409dfe6563cbfa725298e250fe327995872c7905f8838b3bdaa4aa7d190d9fd9bfd4d86664d129e7a7ea289 Homepage: https://cran.r-project.org/package=metathis Description: CRAN Package 'metathis' (HTML Metadata Tags for 'R Markdown' and 'Shiny') Create meta tags for 'R Markdown' HTML documents and 'Shiny' apps for customized social media cards, for accessibility, and quality search engine indexing. 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Package: r-cran-metatron Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4, r-cran-mpt, r-cran-matrix Filename: pool/dists/focal/main/r-cran-metatron_0.1-1-1.ca2004.1_all.deb Size: 71604 MD5sum: d035a6f0be7d413edb8aa29e2bf5bee1 SHA1: fc2eb43d4e1a2d3dbc69d17ef25a59258d42f04e SHA256: e45ea2a21bcae068c942986e8480541098d275d385fea6818e5430b588441177 SHA512: e30df46b2772a84c476e3e1e57e0d3117d11fc6d1910c20f9e3d57940c73721ca0495fd24ad0325c07e38f61061fff8d608e01f9253764d48027e015619c3e78 Homepage: https://cran.r-project.org/package=Metatron Description: CRAN Package 'Metatron' (Meta-analysis for Classification Data and Correction toImperfect Reference) This package allows doing meta-analysis for primary studies with classification outcomes in order to evaluate systematically the accuracies of classifiers, namely, the diagnostic tests. It provides functions to fit the bivariate model of Reitsma et al.(2005). Moreover, if the reference employed in the classification process isn't a gold standard, its deficit can be detected and its influence to the underestimation of the diagnostic test's accuracy can be corrected, as described in Botella et al.(2013). Package: r-cran-metaumbrella Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1801 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-meta, r-cran-metaconvert, r-cran-pwr, r-cran-powersurvepi, r-cran-readxl, r-cran-withr, r-cran-writexl, r-cran-xtable Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-spelling, r-cran-dt, r-cran-epir, r-cran-esc, r-cran-metafor Filename: pool/dists/focal/main/r-cran-metaumbrella_1.1.0-1.ca2004.1_all.deb Size: 748716 MD5sum: dab69312ea2b5e71328a81720053cb38 SHA1: e85fa4c237f3aad1762270a1825c10b616cb4811 SHA256: 6d80f64cfc282cadf5ed210e50d59e9acbcce0715851114abf9d35b44fc2edfe SHA512: 56717c8ccde9cd67648e0930fd0562e8dbe1b9c9e57875d92f9ca88beccebd565dd96d9ad31068ce01b701822a2c6c131086425a2a9b3fbebcbd8a5001a9f834 Homepage: https://cran.r-project.org/package=metaumbrella Description: CRAN Package 'metaumbrella' (Umbrella Review Package for R) A comprehensive range of facilities to perform umbrella reviews with stratification of the evidence in R. The package accomplishes this aim by building on three core functions that: (i) automatically perform all required calculations in an umbrella review (including but not limited to meta-analyses), (ii) stratify evidence according to various classification criteria, and (iii) generate a visual representation of the results. Note that if you are not familiar with R, the core features of this package are available from a web browser (). Package: r-cran-metautility Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 283 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-metafor, r-cran-metadat, r-cran-stringr, r-cran-purrr, r-cran-dplyr, r-cran-tidyr, r-cran-rlang Filename: pool/dists/focal/main/r-cran-metautility_2.1.2-1.ca2004.1_all.deb Size: 258852 MD5sum: b2affefbd804a50e4fba719bd8337ce6 SHA1: d9075347e4095b9f87c00e4adaf66f768b1a631b SHA256: 173146cec8c88edb7bd239b2a779f25e4846f0f5e6ea5873e40d3a47e0cd0d49 SHA512: 3d36a15de03785e00e6dd586e809a3d73800c1243bb9ffbea88360937ec2a73512842697562c4b81a1334cd1f032cfd270f1af4e594d54763e61ca0ea5c226b5 Homepage: https://cran.r-project.org/package=MetaUtility Description: CRAN Package 'MetaUtility' (Utility Functions for Conducting and Interpreting Meta-Analyses) Contains functions to estimate the proportion of effects stronger than a threshold of scientific importance (function prop_stronger), to nonparametrically characterize the distribution of effects in a meta-analysis (calib_ests, pct_pval), to make effect size conversions (r_to_d, r_to_z, z_to_r, d_to_logRR), to compute and format inference in a meta-analysis (format_CI, format_stat, tau_CI), to scrape results from existing meta-analyses for re-analysis (scrape_meta, parse_CI_string, ci_to_var). Package: r-cran-metavcov Architecture: all Version: 2.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-mixmeta, r-cran-metasem, r-cran-mvmeta, r-cran-mice Filename: pool/dists/focal/main/r-cran-metavcov_2.1.5-1.ca2004.1_all.deb Size: 196272 MD5sum: 5516c0ab1957ddf6af1cdf43dd9d8c4b SHA1: 8148726d6320294d51f464368c42940f2d4b72f8 SHA256: 3cd331d33836642557348a0a070680efd791219c3239fd9a5eeed96031d33743 SHA512: 35d554b05b263a336e2de4301fa131c9f5bc5274393baab970da4f886a1ca0f49728c86cc30848fffa0aec8685e5aa636032ea0dbe26a08b0b3fb47de6c78b3d Homepage: https://cran.r-project.org/package=metavcov Description: CRAN Package 'metavcov' (Computing Variances and Covariances, Visualization and MissingData Solution for Multivariate Meta-Analysis) Collection of functions to compute within-study covariances for different effect sizes, data visualization, and single and multiple imputations for missing data. Effect sizes include correlation (r), mean difference (MD), standardized mean difference (SMD), log odds ratio (logOR), log risk ratio (logRR), and risk difference (RD). Package: r-cran-metaviz Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2557 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-nullabor, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-metafor, r-cran-gridextra, r-cran-ggpubr Suggests: r-cran-cairo, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metaviz_0.3.1-1.ca2004.1_all.deb Size: 1645180 MD5sum: 45e1effd8616a1b2387d7708078a80cc SHA1: 7d9726dd5607fcf1722fdfd6532b010afb4e9d75 SHA256: 27511c60bc2b4d67f4f2d0c5f00f9ec6a136adb0d857a6afa0ee538f6618b04c SHA512: 87d48b2bf539a2ebdfe5145b14d5ceee5d1b28786d4c903f2152adfdfe17c7c7320517d7a4c41fad02665df7dd93fa570191f3c849aafcb09f88129dd533a2f9 Homepage: https://cran.r-project.org/package=metaviz Description: CRAN Package 'metaviz' (Forest Plots, Funnel Plots, and Visual Funnel Plot Inference forMeta-Analysis) A compilation of functions to create visually appealing and information-rich plots of meta-analytic data using 'ggplot2'. Currently allows to create forest plots, funnel plots, and many of their variants, such as rainforest plots, thick forest plots, additional evidence contour funnel plots, and sunset funnel plots. In addition, functionalities for visual inference with the funnel plot in the context of meta-analysis are provided. Package: r-cran-metawho Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 211 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-metafor, r-cran-dplyr, r-cran-forestmodel, r-cran-magrittr, r-cran-purrr, r-cran-rlang Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metawho_0.2.0-1.ca2004.1_all.deb Size: 121224 MD5sum: 4e87c8aa09211b63d3313cd8f8d303fa SHA1: 70692c241a2561f56a50220aebc0ce63a50aa8fd SHA256: 0f61604049613f9e4fdcc61e669908795a87bb86b1b458bc0a6460511f8f6d66 SHA512: 00a2f58596c99f4412496b73aa38ad1576a396820c6195a744c6c2f33051e2b23c34bebf1deb59fc31090af074629b32377abd4547ece8779581971210c87d7c Homepage: https://cran.r-project.org/package=metawho Description: CRAN Package 'metawho' (Meta-Analytical Implementation to Identify Who Benefits Mostfrom Treatments) A tool for implementing so called 'deft' approach (see Fisher, David J., et al. (2017) ) and model visualization. Package: r-cran-metbrewer Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-metbrewer_0.2.0-1.ca2004.1_all.deb Size: 63528 MD5sum: 61a999fb5a84e01186f92736bc70e216 SHA1: 7d43a17fe85ac071218431bb4ae7239bff039513 SHA256: cc2a78c65a00ec2ed4ce62cad0bd33f6bd9b58bbcb8099e706107ba1836dda15 SHA512: ffa8a3707f66e9255466951ba75c49af9ff15954e6bcbe614393ef0f2dc674070107e8ecc4926280bc3b1f477e63ef1d0039edab8d89c541a4d30af471906dbf Homepage: https://cran.r-project.org/package=MetBrewer Description: CRAN Package 'MetBrewer' (Color Palettes Inspired by Works at the Metropolitan Museum ofArt) Palettes Inspired by Works at the Metropolitan Museum of Art in New York. Currently contains over 50 color schemes and checks for colorblind-friendliness of palettes. 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It allows the metabolite classification in structurally-related modules and identifies common shared functional groups. The KODAMA algorithm is used to highlight structural similarity between metabolites. See Cacciatore S, Tenori L, Luchinat C, Bennett PR, MacIntyre DA. (2017) Bioinformatics , Cacciatore S, Luchinat C, Tenori L. (2014) Proc Natl Acad Sci USA , and Abdel-Shafy EA, Melak T, MacIntyre DA, Zadra G, Zerbini LF, Piazza S, Cacciatore S. (2023) Bioinformatics Advances . 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(2020) ) and spatio-temporal geostatistical (spatio-temporal regression Kriging (STRK)) interpolation for meteorological (Kilibarda et al. (2014) , Sekulić et al. (2020) ) and other environmental variables. Contains global spatio-temporal models calculated using publicly available data. 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Functions for calculating: reference evapotranspiration (ETref), extraterrestrial radiation (Ra), net radiation (Rn), saturation vapor pressure (satVP), global radiation (Rs), soil heat flux (G), daylight hours, and more. [1] Allen, R. G., Pereira, L. S., Raes, D., & Smith, M. (1998). Crop evapotranspiration-Guidelines for computing crop water requirements-FAO Irrigation and drainage paper 56. FAO, Rome, 300(9). Package: r-cran-metools Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 196 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-stringr, r-cran-tibble, r-cran-lubridate, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-metools_1.0.0-1.ca2004.1_all.deb Size: 161928 MD5sum: 695f57a3a256167d9d4d143fcc356aa0 SHA1: 82ab0d852db70f3175c689c0dc60a208e1a4493d SHA256: 4fec675aa69b170d1a9983fc3712ff2582c1da72d132a68a6b4cc9adca4402f2 SHA512: b9fff2bf131bd89d42db95a386eca19b2358043719e75c2ae2c7dba20fec7b576a14d339487c4308b5abca827f9020397245f89f61ae3d1a454ee87a58f568b6 Homepage: https://cran.r-project.org/package=metools Description: CRAN Package 'metools' (Macroeconomics Tools) Provides a number of functions to facilitate the handling and production of reports using time series data. 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Package: r-cran-metproc Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 658 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gplots, r-cran-fastcluster Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-metproc_1.0.1-1.ca2004.1_all.deb Size: 297196 MD5sum: 2f87870b87cfd4a55d2747640bb58db0 SHA1: db65926062370568186ac479e614a6f375e46537 SHA256: e4748299c6488fd91befa66a412723104ad40500ac390b00f63be97ad8e93026 SHA512: 3d91692f40fee9f08e370d55250925f5c348b3fa4b1292a72e40864eedaa4d296df5ceb0d527319a374bdd80069d5b1dea1935fd433239a6c3167a51e6cd17ed Homepage: https://cran.r-project.org/package=MetProc Description: CRAN Package 'MetProc' (Separate Metabolites into Likely Measurement Artifacts and TrueMetabolites) Split an untargeted metabolomics data set into a set of likely true metabolites and a set of likely measurement artifacts. This process involves comparing missing rates of pooled plasma samples and biological samples. The functions assume a fixed injection order of samples where biological samples are randomized and processed between intermittent pooled plasma samples. By comparing patterns of missing data across injection order, metabolites that appear in blocks and are likely artifacts can be separated from metabolites that seem to have random dispersion of missing data. The two main metrics used are: 1. the number of consecutive blocks of samples with present data and 2. the correlation of missing rates between biological samples and flanking pooled plasma samples. Package: r-cran-metr Architecture: all Version: 0.18.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4731 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-digest, r-cran-formula, r-cran-formula.tools, r-cran-ggplot2, r-cran-gtable, r-cran-memoise, r-cran-plyr, r-cran-scales, r-cran-sf, r-cran-stringr, r-cran-purrr, r-cran-isoband, r-cran-lubridate Suggests: r-cran-maps, r-cran-covr, r-cran-irlba, r-cran-knitr, r-cran-ncdf4, r-cran-pkgdown, r-cran-reshape2, r-cran-markdown, r-cran-testthat, r-cran-viridis, r-cran-cftime, r-cran-gridextra, r-cran-vdiffr, r-cran-proj4, r-cran-kriging, r-cran-terra, r-cran-here, r-cran-gsignal, r-cran-rnaturalearth Filename: pool/dists/focal/main/r-cran-metr_0.18.1-1.ca2004.1_all.deb Size: 3671156 MD5sum: 2ff8f7151436e47e0ff5a344df69b57e SHA1: 7927f59e50c9995f4baa60f4c522fd7e9ce9d7d0 SHA256: c0d22ec910bddbe7cbfa4aaeaed40241d8f43c766cec6016dd11c7cf6bbccc1d SHA512: 60d2cc3b18c34449e9ee56c703b36deed429c6aeea08f0b64fd5359bfd35a1a425a31a0591ae0fffb91a63306f11de5f41eebd51cb51118bd9b834b0a23f9381 Homepage: https://cran.r-project.org/package=metR Description: CRAN Package 'metR' (Tools for Easier Analysis of Meteorological Fields) Many useful functions and extensions for dealing with meteorological data in the tidy data framework. 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Package: r-cran-metrica Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3006 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-rlang, r-cran-tidyr, r-cran-dbi, r-cran-rsqlite, r-cran-ggpp, r-cran-minerva, r-cran-energy Suggests: r-cran-purrr, r-cran-knitr, r-cran-rmarkdown, r-cran-apsimx, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metrica_2.1.0-1.ca2004.1_all.deb Size: 2093304 MD5sum: b22a9ba35254b7d6e804840258836a65 SHA1: 43101044357631235932c297558ad7df9e5146c0 SHA256: bb2dd59c8b54aabc45534038abbc8fb66077824fef07ea7dfe75b981fda2a14c SHA512: 0640f96e884a7a0898c3fea4eeba62b1f75dad5a645a64ba45f91333862257f87aa869ca0bbac66e6f95966a94b547576d2dfb9d4fa69ee9f7f1ea189eddd628 Homepage: https://cran.r-project.org/package=metrica Description: CRAN Package 'metrica' (Prediction Performance Metrics) A compilation of more than 80 functions designed to quantitatively and visually evaluate prediction performance of regression (continuous variables) and classification (categorical variables) of point-forecast models (e.g. APSIM, DSSAT, DNDC, supervised Machine Learning). For regression, it includes functions to generate plots (scatter, tiles, density, & Bland-Altman plot), and to estimate error metrics (e.g. MBE, MAE, RMSE), error decomposition (e.g. lack of accuracy-precision), model efficiency (e.g. NSE, E1, KGE), indices of agreement (e.g. d, RAC), goodness of fit (e.g. r, R2), adjusted correlation coefficients (e.g. CCC, dcorr), symmetric regression coefficients (intercept, slope), and mean absolute scaled error (MASE) for time series predictions. For classification (binomial and multinomial), it offers functions to generate and plot confusion matrices, and to estimate performance metrics such as accuracy, precision, recall, specificity, F-score, Cohen's Kappa, G-mean, and many more. For more details visit the vignettes . Package: r-cran-metricminer Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 407 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-assertthat, r-cran-openssl, r-cran-gh, r-cran-getpass, r-cran-dplyr, r-cran-lubridate, r-cran-purrr, r-cran-tidyr, r-cran-googledrive, r-cran-googlesheets4, r-cran-janitor, r-cran-stringr, r-cran-magrittr, r-cran-rvest, r-cran-rprojroot, r-cran-yaml Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-metricminer_1.0.0-1.ca2004.1_all.deb Size: 218584 MD5sum: 74475e7233d903ef8e19e98352697c29 SHA1: 2e40cc5fa96d9bbd64db6fa1655e6edcef4fae2e SHA256: 04ee8a7719c16005236a7bfbb2cb181196eed6f2d12359801dcab24515e0292c SHA512: 596584610930411f663a64ea31ee69667386859eaf98ad2ae289299d709d5121a2cfe550353b4d8269d92827b2ec6906ad4b233415adc5fa07a1f7522bfeb173 Homepage: https://cran.r-project.org/package=metricminer Description: CRAN Package 'metricminer' (Mine Metrics from Common Places on the Web) Mine metrics on common places on the web through the power of their APIs (application programming interfaces). 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Package: r-cran-metrics Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-metrics_0.1.4-1.ca2004.1_all.deb Size: 81036 MD5sum: 8dc2c33a4cf1eec3102e004ac4a94af8 SHA1: 8724940867eb57782703c6483f07e7f5a0166a46 SHA256: 13be913d0bf6455defcfe34e13e7731e6d64fe63119f4ce9c524cff0ff0b3cb7 SHA512: af37484e363e3e85755d5345b029d6f4911c1d34faad24497f423561652e72929ce658ff053239c3a2dd8c274fe74f3540efeabb1f57c580c08930b07069f81b Homepage: https://cran.r-project.org/package=Metrics Description: CRAN Package 'Metrics' (Evaluation Metrics for Machine Learning) An implementation of evaluation metrics in R that are commonly used in supervised machine learning. It implements metrics for regression, time series, binary classification, classification, and information retrieval problems. 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Package: r-cran-metricsweighted Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 191 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-metricsweighted_1.0.4-1.ca2004.1_all.deb Size: 119800 MD5sum: 8b09554917f67c3203ee7c22c057a34f SHA1: 43ff435c8bed5880e43d38f2654752be0c914f46 SHA256: 33519a7987bc060411a4447abaeee92c0a78e8276ee68dec6233d4f49177e0ef SHA512: bd000274f2afa332c1ccc8d373e2f980c49c74a279713e167dad96efe153e44f4ac100c7c5e7be366b44e1712439b8b642bec76de92adb192784add6a43a608e Homepage: https://cran.r-project.org/package=MetricsWeighted Description: CRAN Package 'MetricsWeighted' (Weighted Metrics and Performance Measures for Machine Learning) Provides weighted versions of several metrics and performance measures used in machine learning, including average unit deviances of the Bernoulli, Tweedie, Poisson, and Gamma distributions, see Jorgensen B. (1997, ISBN: 978-0412997112). The package also contains a weighted version of generalized R-squared, see e.g. Cohen, J. et al. (2002, ISBN: 978-0805822236). Furthermore, 'dplyr' chains are supported. Package: r-cran-metrix Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-matrix, r-cran-stringr, r-cran-vegan Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-metrix_1.1.0-1.ca2004.1_all.deb Size: 144972 MD5sum: 033e945a468fb6b76007581234dc2d92 SHA1: 412abd02e6f87debd19d3ba0f52a675d3896796f SHA256: 670bc60e6cc05fbcb731c7ca12a183e354b2eeebf87f6ce7c15c9fcaa082701c SHA512: f3f67ad3d9dedb9c858ce90d537d13d4638a79e1908eab26827a9b0777c7f2b7c6aa86c0f068c886c1c40213c74a68f5714bca72e699126dbbabc207711c5367 Homepage: https://cran.r-project.org/package=metrix Description: CRAN Package 'metrix' (Water Quality Metrics Calculator) Calculate different metrics based on aquatic macroinvertebrate density data (individuals per square meter) to assess water quality (Prat N et al. 2009). 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With a free developer account, access their 'Metro Transparent Data Sets API' to return data frames of transit data for easy analysis. Package: r-cran-metrology Architecture: all Version: 0.9-29-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 869 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-numderiv, r-cran-robustbase Filename: pool/dists/focal/main/r-cran-metrology_0.9-29-2-1.ca2004.1_all.deb Size: 815676 MD5sum: e3a220d1ba5460c0cdfaa115d4a7e8d2 SHA1: 16afe3ef055ddeea5501e13a35dfeaa1927a26c1 SHA256: 2433e84fd2d293a437ab77073d5fb6ea01efef0cd5e363054e755628cecc5639 SHA512: 2439b812559565b8e984c7dda135dd3a6cd3da0b1a1e58fcac29f11218b6d9391dab58db369d6310a5f00af5a2c6209ff71165052fb33364aaefcf2f00371206 Homepage: https://cran.r-project.org/package=metRology Description: CRAN Package 'metRology' (Support for Metrological Applications) Provides classes and calculation and plotting functions for metrology applications, including measurement uncertainty estimation and inter-laboratory metrology comparison studies. Package: r-cran-metropolis Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 972 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda Suggests: r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-metropolis_0.1.8-1.ca2004.1_all.deb Size: 630696 MD5sum: 443869354b454a200f7c111808590655 SHA1: aa7ede1a37a55b8309e9c9c5bca6b3f0bb60e338 SHA256: b844f806582f408143eadfdbd747c2fe9070761b571c8b58dd49cb0f42922917 SHA512: e83848b9848af2c8945d64a389d4381e728470d64fed0586da390ec89f7ac56f01a2b8cc12516961b88368a331f7d8020308a4b49d1fe2350236b2f0169e6d5a Homepage: https://cran.r-project.org/package=metropolis Description: CRAN Package 'metropolis' (The Metropolis Algorithm) Learning and using the Metropolis algorithm for Bayesian fitting of a generalized linear model. The package vignette includes examples of hand-coding a logistic model using several variants of the Metropolis algorithm. 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Package: r-cran-metscanr Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 381 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-geosphere, r-cran-matlab, r-cran-leaflet, r-cran-plyr, r-cran-rcurl Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-metscanr_1.2.3-1.ca2004.1_all.deb Size: 350068 MD5sum: 5fa02e2d1e6d94aef78c6bfe4078ae05 SHA1: 8aa72cd1771098a68472b16bf49b41bb2e32b8d0 SHA256: 1ce97ce5b5a1bdfb84951c596968fc4686773db931f4755d78353bbbe63a311e SHA512: e3a9cc17f5f393a1a5b5ab52bad543ffc88c54b845d692a1b2f83d641d2f1cf1d99110a8b9f7e295ada3fd6ae504173a0b0c4d2cd72ff4aad9431cf4de562de8 Homepage: https://cran.r-project.org/package=metScanR Description: CRAN Package 'metScanR' (Find, Map, and Gather Environmental Data and Metadata) A tool for locating, mapping, and gathering environmental data and metadata, worldwide. Users can search for and filter metadata from > 157,000 environmental monitoring stations among 219 countries/territories and >20 networks/organizations via elevation, location, active dates, elements measured (e.g., temperature, precipitation), country, network, and/or known identifier. Future updates to the package will allow the user to obtain datasets from stations within the database. Package: r-cran-metsizer Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-metabolanalyze, r-cran-rfast, r-cran-shiny, r-cran-shinythemes, r-cran-vroom Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-metsizer_2.0.0-1.ca2004.1_all.deb Size: 69344 MD5sum: 854a1a7437de54962c31a3ca3465bb35 SHA1: 6199851474ff22f22b0154527d06bd5e3ea5093f SHA256: e3de8054691017085cdaa0cddd51ffc7d37afa893e7186839610e1ff80d88498 SHA512: 2c3425cdc5379f5a470221d2db2b2e16be66687872c9066b3ea36a7343ea54e2412a886920013e014c1901c6af0735cd7e2bb36aff5a96840db77afcf204764b Homepage: https://cran.r-project.org/package=MetSizeR Description: CRAN Package 'MetSizeR' (A Shiny App for Sample Size Estimation in MetabolomicExperiments) Provides a Shiny application to estimate the sample size required for a metabolomic experiment to achieve a desired statistical power. Estimation is possible with or without available data from a pilot study. Package: r-cran-metsyn Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach, r-cran-readr, r-cran-stringr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-metsyn_0.1.2-1.ca2004.1_all.deb Size: 27548 MD5sum: a96407bc6f921dbadd810f97c791f401 SHA1: 3fb394e5258db644ff6f719ec7637bf3e7fdbd41 SHA256: c4dd494f1992a5989d868d3e0af5f7c6c0fe882d0d7d827532dbdfd96182f8ed SHA512: 852b34e116cad3d74d35fac091673fd35ef851fe3d5ad4959100d346839184e48b4e3371177c2f0427b555b687458a721fe9d34e0ca28987ba633c944546ff7c Homepage: https://cran.r-project.org/package=metsyn Description: CRAN Package 'metsyn' (Interface with the Meteo France Synop Data API) Provides an interface with the Meteo France Synop data API (see for more information). The Meteo France Synop data are made of meteorological data recorded every three hours on 62 French meteorological stations. Package: r-cran-mevr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-envstats, r-cran-foreach, r-cran-doparallel, r-cran-bamlss, r-cran-mgcv Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mevr_1.1.1-1.ca2004.1_all.deb Size: 125244 MD5sum: b2a92988e18c8f6fc3d5108a2e1da0f3 SHA1: d1548cb634df5634c6ac982c10cbbf023f65faa9 SHA256: 8b5c50467e71f762325515dd10fa8dc95caa8f3d4b513380ca462f65cf14bb2f SHA512: 5e890a4a85e8cc8635c1da8d71f02b9e36f39a4cbfb05be8c202da36ff4b508a5b22e65a64f6fef81f63a9064be805963c6cf9758b23287946542a279abd3cb9 Homepage: https://cran.r-project.org/package=mevr Description: CRAN Package 'mevr' (Fitting the Metastatistical Extreme Value Distribution MEVD) Extreme value analysis with the metastatistical extreme value distribution MEVD (Marani and Ignaccolo, 2015, ) and some of its variants. In particular, analysis can be performed with the simplified metastatistical extreme value distribution SMEV (Marra et al., 2019, ) and the temporal metastatistical extreme value distribution TMEV (Falkensteiner et al., 2023, ). Parameters can be estimated with probability weighted moments, maximum likelihood and least squares. The data can also be left-censored prior to a fit. Density, distribution function, quantile function and random generation for the MEVD, SMEV and TMEV are included. In addition, functions for the calculation of return levels including confidence intervals are provided. For a description of use cases please see the provided references. 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Package: r-cran-mexicolors Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mexicolors_0.2.0-1.ca2004.1_all.deb Size: 14844 MD5sum: b55109a8d18d3903fabf17771cc8b13d SHA1: 0bd7c72e5ab9b7746d74ef6989aa82e52ac822a0 SHA256: 4909a9c120f6382a6280dcff9f0c64cfbecd7c622329f2944dc6af4a5a847efe SHA512: d5c4fed69ae9e0d230254f353f83ba1ef30523a51037d1df20ad01b1e15cfd76581d9a6a9ea68b91ab154f32342d2b8c171fbe15d534c2f3b02f73d57a75a882 Homepage: https://cran.r-project.org/package=mexicolors Description: CRAN Package 'mexicolors' (Mexican Politics-Inspired Color Palette Generator) A color palette generator inspired by Mexican politics, with colors ranging from red on the left to gray in the middle and green on the right. 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Package: r-cran-mexplorer Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnet, r-bioc-qusage Filename: pool/dists/focal/main/r-cran-mexplorer_1.0.0-1.ca2004.1_all.deb Size: 59212 MD5sum: cce1dea6a09f8ac96199e8d6a3e9fe02 SHA1: 4395cd6277b8bbdbaa05838ef83dbeebcd9b57a0 SHA256: 9dd03a935881a097864a990d21b25b0aac0573645623f6463304bf68957f43b5 SHA512: 67d0e6cbd9c24afbe684976b905ca8224049bc3d66f4652786607fd9ad6a57bdf22d65cc98f41d6553915f91c87ebd3f2058d49b839d1981b0997f8e2e9de0f9 Homepage: https://cran.r-project.org/package=mExplorer Description: CRAN Package 'mExplorer' (Identifying Master Gene Regulators from Gene Expression andDNA-Binding Data) The method 'm:Explorer' associates a given list of target genes (e.g. those involved in a biological process) to gene regulators such as transcription factors. Transcription factors that bind DNA near significantly many target genes or correlate with target genes in transcriptional (microarray or RNAseq data) are selected. Selection of candidate master regulators is carried out using multinomial regression models, likelihood ratio tests and multiple testing correction. Reference: m:Explorer: multinomial regression models reveal positive and negative regulators of longevity in yeast quiescence. Juri Reimand, Anu Aun, Jaak Vilo, Juan M Vaquerizas, Juhan Sedman and Nicholas M Luscombe. Genome Biology (2012) 13:R55 . 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In each case, the correlation between functions can be corrected for. Based on biodiversity and ecosystem function data, this software also facilitates graphics for assessing biodiversity-ecosystem functioning relationships across scales. Package: r-cran-mf Architecture: all Version: 4.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mf_4.3.2-1.ca2004.1_all.deb Size: 256996 MD5sum: f14ba6a396d6b22b5ab472f46abbbc5d SHA1: ba347d311a956eba64e2632c2307101ea8a06e62 SHA256: 1f940af94892f2a721db3327f4463f485a72db97c14de776bd8c908553538a03 SHA512: b61f5684083a15deab4f5d696bed5391b7f4b8244d36f2d55422a6c5ae826d6299c985add663cbc7cbe23ee615034996cbed50d964feb98c0337e980bff3f6a6 Homepage: https://cran.r-project.org/package=MF Description: CRAN Package 'MF' (Mitigated Fraction) Calculate MF (mitigated fraction) with clustering and bootstrap options. 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The package allows to compute functional diversity indices assessing the distribution of species (and of their dominance) in a given functional space for each assemblage and the overlap between assemblages in a given functional space, see: Chao et al. (2018) , Maire et al. (2015) , Mouillot et al. (2013) , Mouillot et al. (2014) , Ricotta and Szeidl (2009) . Graphical outputs are included. Visit the 'mFD' website for more information, documentation and examples. Package: r-cran-mfdb Architecture: all Version: 7.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3801 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-logging, r-cran-dbi, r-cran-duckdb, r-cran-getpass, r-cran-rlang, r-cran-rpostgres, r-cran-rsqlite Suggests: r-cran-dplyr, r-cran-dbplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-unittest Filename: pool/dists/focal/main/r-cran-mfdb_7.3-1-1.ca2004.1_all.deb Size: 605464 MD5sum: e640e0547586a4af634d6bab9539b2f8 SHA1: 941bd722ce7c29d7035a1f800b200ce89885ff57 SHA256: 57270db12c1193371cf7e27ec4026bc0e80db9c9b246da145508d9911f76aec1 SHA512: 8b08378540d422c92721bb442a495bb292781bbd5ef437f9525169f2127d2e52e14e8c818c4e938f4ee89badcef4842c27453de0fa9543669335f22c30cf0f98 Homepage: https://cran.r-project.org/package=mfdb Description: CRAN Package 'mfdb' (MareFrame DB Querying Library) Creates and manages a PostgreSQL database suitable for storing fisheries data and aggregating ready for use within a Gadget model. See for more information. Package: r-cran-mfdfa Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-numbers Filename: pool/dists/focal/main/r-cran-mfdfa_1.1-1.ca2004.1_all.deb Size: 38876 MD5sum: 5d4a04a3a260f07f2f4a8dac16864a15 SHA1: 67395aaafdeef3590a852bd58f79e774e378860e SHA256: 452dcef0dec4302d12b06c615d4c6964fb6e2c76a55636896cad7af9afc4aa69 SHA512: b6d63c78f7f79f17622608cca847bd6809066783d1fefa2a1ad504e9c01ec8a6c2265b48cbb5bdb782035200f3c4f64abefcf59ff0efe5edf011ebc5b983d544 Homepage: https://cran.r-project.org/package=MFDFA Description: CRAN Package 'MFDFA' (MultiFractal Detrended Fluctuation Analysis) Contains the MultiFractal Detrended Fluctuation Analysis (MFDFA), MultiFractal Detrended Cross-Correlation Analysis (MFXDFA), and the Multiscale Multifractal Analysis (MMA). The MFDFA() function proposed in this package was used in Laib et al. ( and ). See references for more information. Interested users can find a parallel version of the MFDFA() function on GitHub. Package: r-cran-mfdp Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mfdp_0.2.1-1.ca2004.1_all.deb Size: 28440 MD5sum: 5000419dfca117ad8b0cb37d91d97cd4 SHA1: a90eedacbf62bd81f75ff013d152711c9da0b3f4 SHA256: fbd41415b33f584433303b1902fce07dba6b8346a75a20f8a69b25361df0e8f7 SHA512: 2cff7f036224c1399d66b9b70c850fa8b3434341b24059fcd2cbc7e07bc508153bed3add4af1aa790a2817ef02f356cdec3274e55b331913a6502b125c556f8a Homepage: https://cran.r-project.org/package=mFDP Description: CRAN Package 'mFDP' (Control of the Median of the FDP) Methods for controlling the median of the false discovery proportion (mFDP). Depending on the method, simultaneous or non-simultaneous inference is provided. 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Package: r-cran-mfe Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 326 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-clustercrit, r-cran-ecol, r-cran-e1071, r-cran-infotheo, r-cran-mass, r-cran-rpart, r-cran-rrcov Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mfe_0.1.5-1.ca2004.1_all.deb Size: 191924 MD5sum: b364cb16888b0f2d200e79708be91cb5 SHA1: 7de6dc2b54b31cb43835d38a3f58701ced4a6b73 SHA256: eed1f065cf633ac51239a61774d70573ed0fc5b8e66401991c67f7e86d8c698a SHA512: cba0328de73549e39b0b72f86f0de70b06fdaf8935b5b108c8a2b33e78757d74928b591f7a57bbcc05c051047c414078b5e5d1ace681572317f7ea0888aece66 Homepage: https://cran.r-project.org/package=mfe Description: CRAN Package 'mfe' (Meta-Feature Extractor) Extracts meta-features from datasets to support the design of recommendation systems based on Meta-Learning. The meta-features, also called characterization measures, are able to characterize the complexity of datasets and to provide estimates of algorithm performance. The package contains not only the standard characterization measures, but also more recent characterization measures. By making available a large set of meta-feature extraction functions, tasks like comprehensive data characterization, deep data exploration and large number of Meta-Learning based data analysis can be performed. These concepts are described in the paper: Rivolli A., Garcia L., Soares c., Vanschoren J. and Carvalho A. (2018) . 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The framework for multiple-faction-leadership inference from coordinated activities or 'mFLICA' uses a notion of a leader as an individual who initiates collective patterns that everyone in a group follows. Given a set of time series of individual activities, our goal is to identify periods of coordinated activity, find factions of coordination if more than one exist, as well as identify leaders of each faction. For each time step, the framework infers following relations between individual time series, then identifying a leader of each faction whom many individuals follow but it follows no one. A faction is defined as a group of individuals that everyone follows the same leader. 'mFLICA' reports following relations, leaders of factions, and members of each faction for each time step. Please see Chainarong Amornbunchornvej and Tanya Berger-Wolf (2018) for methodology and Chainarong Amornbunchornvej (2021) for software when referring to this package in publications. 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Three variables can be obtained from the SIN model: dilatation, symmetry and translation. Examples of these methods can be found in Montes de Oca et al (2021) and Chenevière et al. (2009) . 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Key references are Royston and Altman (1994) and Royston and Sauerbrei (2008, ISBN:978-0-470-02842-1). In addition, it can model a sigmoid relationship between variable x and an outcome variable y using the approximate cumulative distribution transformation proposed by Royston (2014) . This feature distinguishes it from a standard fractional polynomial function, which lacks the ability to achieve such modeling. 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References - Michael Messer, Marietta Kirchner, Julia Schiemann, Jochen Roeper, Ralph Neininger and Gaby Schneider (2014), A multiple filter test for the detection of rate changes in renewal processes with varying variance . Stefan Albert, Michael Messer, Julia Schiemann, Jochen Roeper, Gaby Schneider (2017), Multi-scale detection of variance changes in renewal processes in the presence of rate change points . Michael Messer, Kaue M. Costa, Jochen Roeper and Gaby Schneider (2017), Multi-scale detection of rate changes in spike trains with weak dependencies . Michael Messer, Stefan Albert and Gaby Schneider (2018), The multiple filter test for change point detection in time series . Michael Messer, Hendrik Backhaus, Albrecht Stroh and Gaby Schneider (2019+) Peak detection in time series. 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Manipulation of multivariate generalised Gaussian distributions (methods presented by Gomez, Gomez-Villegas and Marin (1998) and Pascal, Bombrun, Tourneret and Berthoumieu (2013) ). 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Implemented models include: multinomial logit model, Dirichlet multinomial model, generalized Dirichlet multinomial model, and negative multinomial model. Making the best of the minorization-maximization (MM) algorithm and Newton-Raphson method, we derive and implement stable and efficient algorithms to find the maximum likelihood estimates. On a multi-core machine, multi-threading is supported. 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Package: r-cran-mgm Architecture: all Version: 1.2-15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 948 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-stringr, r-cran-hmisc, r-cran-qgraph, r-cran-gtools Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mgm_1.2-15-1.ca2004.1_all.deb Size: 921624 MD5sum: 234c08bb817572a027c68119cce2e641 SHA1: 527635852d6319c71dd2c3f0942af99f9207c17c SHA256: c9900715ea92ae86f828e934eabe10db3c856ab33b98e8859e8cd83139ace2c5 SHA512: 1ad1ed793c14686869a6859d4f15f5980090604d74ec692b5014ddbfbaeb1995a1cb6f11e8102eb6f7931c56fd72dcced8ab4b8715f8cfe3ab39f441e975a3ba Homepage: https://cran.r-project.org/package=mgm Description: CRAN Package 'mgm' (Estimating Time-Varying k-Order Mixed Graphical Models) Estimation of k-Order time-varying Mixed Graphical Models and mixed VAR(p) models via elastic-net regularized neighborhood regression. For details see Haslbeck & Waldorp (2020) . Package: r-cran-mgms2 Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4668 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maldiquant, r-cran-maldiquantforeign Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mgms2_1.0.2-1.ca2004.1_all.deb Size: 3510164 MD5sum: 359b104236bdd1bc75fea0747bf0b405 SHA1: 9c4020fbbc6fd17dc3976ac04ed341c000c1def3 SHA256: 2c542163a6ce75143fb7aa09493efd8cc0f9944ff59d815c12745a6d1775d8df SHA512: 25e952f5df939b08b5f31607fec8d45ac1c7a03501f9ee16d172c14264774515682b1ea7772949d8782f896b92d882f5b32c80f0b7fc2891f647703dca855439 Homepage: https://cran.r-project.org/package=MGMS2 Description: CRAN Package 'MGMS2' ('MGMS2' for Polymicrobial Samples) A glycolipid mass spectrometry technology has the potential to accurately identify individual bacterial species from polymicrobial samples. To develop bacterial identification algorithms (e.g. machine learning) using this glycolipid technology, it is necessary to generate a large number of various in-silico polymicrobial mass spectra that are similar to real mass spectra. 'MGMS2' (Membrane Glycolipid Mass Spectrum Simulator) generates such in-silico mass spectra, considering errors in m/z (mass-to-charge ratio) and variances of intensity values, occasions of missing signature ions, and noise peaks. It estimates summary statistics of monomicrobial mass spectra for each strain or species and simulates polymicrobial glycolipid mass spectra using the summary statistics of monomicrobial mass spectra. References: Ryu, S.Y., Wendt, G.A., Chandler, C.E., Ernst, R.K. and Goodlett, D.R. (2019) "Model-based Spectral Library Approach for Bacterial Identification via Membrane Glycolipids." Gibb, S. and Strimmer, K. (2012) "MALDIquant: a versatile R package for the analysis of mass spectrometry data." Package: r-cran-mgpd Architecture: all Version: 1.99-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 789 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-evd, r-cran-numderiv, r-cran-corpcor, r-cran-fields Filename: pool/dists/focal/main/r-cran-mgpd_1.99-1.ca2004.1_all.deb Size: 677372 MD5sum: 6a10d29bc1e2bf6903fd080d2abfb427 SHA1: 94910e1d7b889d50df03cabac64a37f4c2eeae60 SHA256: 040a87fe1d1ff3d375790b4b8a69ab8a7792d1dd3a53cf217edf725e796e9b57 SHA512: fe5dccf4f784ac0251a7770b288d27ef703e9fa894aaaf726fe149a0837243ed0222ab5ddb11dc8d76d952ba230eb836f4008a7ff595529349e941a0d57782a3 Homepage: https://cran.r-project.org/package=mgpd Description: CRAN Package 'mgpd' (mgpd: Functions for multivariate generalized Pareto distribution(MGPD of Type II)) Extends distribution and density functions to parametric multivariate generalized Pareto distributions (MGPD of Type II), and provides fitting functions which calculate maximum likelihood estimates for bivariate and trivariate models. (Help is under progress) Package: r-cran-mgpsdk Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 279 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-r6, r-cran-reticulate Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mgpsdk_1.0.0-1.ca2004.1_all.deb Size: 75220 MD5sum: 9ef1d742fb342d8139a3cefd22ebabee SHA1: 802375d0fe304d5b50f9ea229a4aed9f223178a8 SHA256: 6053f3082288bdecd686e67d20737e8216cd1c788c77e3f42121a5745cb742e4 SHA512: 66ad704869735dbf2cf20aa5b139911002f93642fa537ff5c244bbe3d201d8f67617fbed10d0151a820211099cb54d568ec1a737f052386d280046d535aeceba Homepage: https://cran.r-project.org/package=MGPSDK Description: CRAN Package 'MGPSDK' (Interact with the Maxar 'MGP' Application Programming Interfaces) Provides an interface to the Maxar Geospatial Platform (MGP) Application Programming Interface. It facilitates imagery searches using the MGP Streaming Application Programming Interface via the Web Feature Service (WFS) method, and supports image downloads through Web Map Service (WMS) and Web Map Tile Service (WMTS) Open Geospatial Consortium (OGC) methods. Additionally, it integrates with the Maxar Geospatial Platform Basemaps Application Programming Interface for accessing Maxar basemaps imagery and seamlines. The package also offers seamless integration with the Maxar Geospatial Platform Discovery Application Programming Interface, allowing users to search, filter, and sort Maxar content, while retrieving detailed metadata in formats like SpatioTemporal Asset Catalog (STAC) and GeoJSON. Package: r-cran-mgpstreamingsdk Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-r6, r-cran-reticulate Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mgpstreamingsdk_0.2.0-1.ca2004.1_all.deb Size: 56968 MD5sum: f4ab3cb16cee8a603f23989edfcbbc81 SHA1: 9709fbdf4d93f9586530307a853c71721c02f816 SHA256: be5e545c56bbd53ffcee591e255ed001b73d11bdeeec8742b84463cdbd8c41a9 SHA512: 3f6919b97bbfb09cfbbda31b2de01e64cbfdd078812ad098c68ad2163ceba4a5d6766083855feaae71e7665ab21b28ea4fa883f8acd2ec7c52c8e0ec2e11730a Homepage: https://cran.r-project.org/package=mgpStreamingSDK Description: CRAN Package 'mgpStreamingSDK' (Interact with the Maxar MGP Streaming API) This grants the functionality of the Maxar Geospatial Platform (MGP) Streaming API. It can search for images using the WFS method. It can Download images using WMS WMTS. 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Package: r-cran-mgsz Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 166 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biobase, r-cran-gsa, r-bioc-limma, r-cran-mass, r-cran-ismev Filename: pool/dists/focal/main/r-cran-mgsz_1.0-1.ca2004.1_all.deb Size: 132072 MD5sum: 0361b3efdbadc6285f0ef864ef2316c9 SHA1: 617e8715b877960293a787fb1e59fc7c88c6a705 SHA256: 0ce01dc7a231f64f1e26cf1bb9806cb59bce3d6f59418cbf5474e934676f0584 SHA512: 00c0b4e0997c821f9319e2fd66bda5b550773d8d79861daaad347a11aa996a24e47f6d0007be324b5503deb62088f1a64544cd70a0688a3c64fa61a7577ac264 Homepage: https://cran.r-project.org/package=mGSZ Description: CRAN Package 'mGSZ' (Gene set analysis based on GSZ-scoring function and asymptoticp-value) Performs gene set analysis based on GSZ scoring function and asymptotic p-value. It is different from GSZ in that it implements asymptotic p-values instead of empirical p-values. Asymptotic p-values are calculated by fitting suitable distribution model to the null distribution. Unlike empirical p-values, resolution of asymptotic p-values are independent of the number of permutations and hence requires considerably fewer permutations. In addition, this package allows gene set analysis with seven other popular gene set analysis methods. Package: r-cran-mgwnbr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-mgwnbr_0.2.0-1.ca2004.1_all.deb Size: 98324 MD5sum: 5185116e6fd882d3164003dd91856308 SHA1: e425161a1d5b240f7d070039eb745c7c19f7c634 SHA256: 57bec6d70a37d2d02388ff5d3a2d35b0770ccf00a5538ee4fedc8145a8d3237c SHA512: 3a797383c345d8a78934d47c1889aa4aab59a04877aa18f985f7325dba496af910915d27b07986ec796e95f9fb1705f1d506dca8623313b887b88b63dd705411 Homepage: https://cran.r-project.org/package=mgwnbr Description: CRAN Package 'mgwnbr' (Multiscale Geographically Weighted Negative Binomial Regression) Fits a geographically weighted regression model with different scales for each covariate. Uses the negative binomial distribution as default, but also accepts the normal, Poisson, or logistic distributions. Can fit the global versions of each regression and also the geographically weighted alternatives with only one scale, since they are all particular cases of the multiscale approach. Hanchen Yu (2024). "Exploring Multiscale Geographically Weighted Negative Binomial Regression", Annals of the American Association of Geographers . Fotheringham AS, Yang W, Kang W (2017). "Multiscale Geographically Weighted Regression (MGWR)", Annals of the American Association of Geographers . Da Silva AR, Rodrigues TCV (2014). "Geographically Weighted Negative Binomial Regression - incorporating overdispersion", Statistics and Computing . Package: r-cran-mgwrhw Architecture: all Version: 1.1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 951 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spgwr, r-cran-sf, r-cran-psych, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mgwrhw_1.1.1.5-1.ca2004.1_all.deb Size: 926024 MD5sum: 6c85ade14ca21b19d3818b76ec55d768 SHA1: 247e335cfcee044a012df096b1b69e145399b724 SHA256: 5260aa8da63f3ba629af3f3d2867e6438fa99b9b6db637e96886ca7295d3be3f SHA512: eb4617d7ff9526cd0e4dfe6fa9933d9b06badbb232ebd48c197a1551b9c7089e7121920e5ee131a4f0f0f475e6a7b4859a43ba2f9802c0c8dbb7496567ee2134 Homepage: https://cran.r-project.org/package=mgwrhw Description: CRAN Package 'mgwrhw' (Displays GWR (Geographically Weighted Regression) and Mixed GWROutput and Map) Display processing results using the GWR (Geographically Weighted Regression) method, display maps, and show the results of the Mixed GWR (Mixed Geographically Weighted Regression) model which automatically selects global variables based on variability between regions. This function refers to Yasin, & Purhadi. (2012). "Mixed Geographically Weighted Regression Model (Case Study the Percentage of Poor Households in Mojokerto 2008)". European Journal of Scientific Research, 188-196. . Package: r-cran-mhadaptive Architecture: all Version: 1.1-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-mhadaptive_1.1-8-1.ca2004.1_all.deb Size: 83908 MD5sum: 2575cc62986e516ce6ff5b0fc8a7a598 SHA1: 0803330d613b5d5060595213969c14a85454d88f SHA256: f30f8bc6aa7bc2faf5f828844208770f9f7d7723841241ad4dff33dce07fd58c SHA512: 530508b83bfb061fe01f246b1f7341790da4888308660569a9088d5b24566efc9b56ae18b26b3d96afb90b2b82b21f79d0160aff78c85094a3efa661cbcf394c Homepage: https://cran.r-project.org/package=MHadaptive Description: CRAN Package 'MHadaptive' (General Markov Chain Monte Carlo for Bayesian Inference usingadaptive Metropolis-Hastings sampling) Performs general Metropolis-Hastings Markov Chain Monte Carlo sampling of a user defined function which returns the un-normalized value (likelihood times prior) of a Bayesian model. The proposal variance-covariance structure is updated adaptively for efficient mixing when the structure of the target distribution is unknown. The package also provides some functions for Bayesian inference including Bayesian Credible Intervals (BCI) and Deviance Information Criterion (DIC) calculation. Package: r-cran-mhcnuggetsr Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 195 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rappdirs, r-cran-reticulate, r-cran-stringr, r-cran-tibble Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mhcnuggetsr_1.1-1.ca2004.1_all.deb Size: 122752 MD5sum: 857a999ad4265a5d252956fa51b04e1d SHA1: 7b2691047c426978a15f857b5734be7cc26219d5 SHA256: 7fc4d9a62d02b91aa3dc47372eacf3067aabf8917afa344b9b92173616d0dfab SHA512: 89219ba795c8937a12995c8e26362cd492445b88352d751f40a461916ee92dd5ba9025a2ba21f3a1745271f4756b43d93b615f602415d80b83fa74f6ad11f29f Homepage: https://cran.r-project.org/package=mhcnuggetsr Description: CRAN Package 'mhcnuggetsr' (Call MHCnuggets) MHCnuggets () is a Python tool to predict MHC class I and MHC class II epitopes. This package allows one to call MHCnuggets from R. Package: r-cran-mhctools Architecture: all Version: 1.5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 302 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv, r-cran-openxlsx Filename: pool/dists/focal/main/r-cran-mhctools_1.5.5-1.ca2004.1_all.deb Size: 231716 MD5sum: b39683ab8c2d1ae4bab95dfcdf6ca01a SHA1: df4cf569711553991c6115ebfdb06e558d72dcfa SHA256: dcbd09af9ee7c5e41ef95fba6f7c37a3dc3892830d64deffbccb269f0500c67a SHA512: e3b086f4549f584f7f774d801e1efb4ac1cc2320abbf4c437f6b9cf3529cd00cc04d10e49bd74a71c15f0dba412ab00628043ca778831edefc524697cc8aec8b Homepage: https://cran.r-project.org/package=MHCtools Description: CRAN Package 'MHCtools' (Analysis of MHC Data in Non-Model Species) Fifteen tools for bioinformatics processing and analysis of major histocompatibility complex (MHC) data. The functions are tailored for amplicon data sets that have been filtered using the dada2 method (for more information on dada2, visit ), but even other types of data sets can be analyzed. The ReplMatch() function matches replicates in data sets in order to evaluate genotyping success. The GetReplTable() and GetReplStats() functions perform such an evaluation. The CreateFas() function creates a fasta file with all the sequences in the data set. The CreateSamplesFas() function creates individual fasta files for each sample in the data set. The DistCalc() function calculates Grantham, Sandberg, or p-distances from pairwise comparisons of all sequences in a data set, and mean distances of all pairwise comparisons within each sample in a data set. The function additionally outputs five tables with physico-chemical z-descriptor values (based on Sandberg et al. 1998) for each amino acid position in all sequences in the data set. These tables may be useful for further downstream analyses, such as estimation of MHC supertypes. The BootKmeans() function is a wrapper for the kmeans() function of the 'stats' package, which allows for bootstrapping. Bootstrapping k-estimates may be desirable in data sets, where e.g. BIC- vs. k-values do not produce clear inflection points ("elbows"). BootKmeans() performs multiple runs of kmeans() and estimates optimal k-values based on a user-defined threshold of BIC reduction. The method is an automated and bootstrapped version of visually inspecting elbow plots of BIC- vs. k-values. The ClusterMatch() function is a tool for evaluating whether different k-means() clustering models identify similar clusters, and summarize bootstrap model stats as means for different estimated values of k. It is designed to take files produced by the BootKmeans() function as input, but other data can be analyzed if the descriptions of the required data formats are observed carefully. The PapaDiv() function compares parent pairs in the data set and calculate their joint MHC diversity, taking into account sequence variants that occur in both parents. The HpltFind() function infers putative haplotypes from families in the data set. The GetHpltTable() and GetHpltStats() functions evaluate the accuracy of the haplotype inference. The CreateHpltOccTable() function creates a binary (logical) haplotype-sequence occurrence matrix from the output of HpltFind(), for easy overview of which sequences are present in which haplotypes. The HpltMatch() function compares haplotypes to help identify overlapping and potentially identical types. The NestTablesXL() function translates the output from HpltFind() to an Excel workbook, that provides a convenient overview for evaluation and curating of the inferred putative haplotypes. Package: r-cran-mhda Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mhda_1.4-1.ca2004.1_all.deb Size: 48616 MD5sum: 4ac0ae9d749fc69d5d196bf02da81d98 SHA1: ff013000ec9987a8fbacba0122b09290739bbb51 SHA256: 3ca5ceb3d01ad6340f3c51da028f9376d907b45f6ec6e050feac99a4be806e83 SHA512: 1af39641c27e8b2cee4c90733a3dd78dc670eee7927e6195fcd5da256f431cf1c5669946a1e0924502ba0dd0d6f4a2c2aa4559c83de7e6ff63df2e4e15fc2773 Homepage: https://cran.r-project.org/package=MHDA Description: CRAN Package 'MHDA' (Massive Hierarchically Data Analysis) Three main functions about analyzing massive data (missing observations are allowed) considered from multiple layers of categories. Package: r-cran-mhg Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mhg_1.1-1.ca2004.1_all.deb Size: 33696 MD5sum: 823083e5f186775f9c8755501ba32811 SHA1: bd85cee1c0b07c2d7b32fe0ae0abab3f5790f6f9 SHA256: 7e951ad9dd43d5cfc4f73ce10242b4fe538cc3d8ee64102999d3b9a1c3902169 SHA512: 1f18b231e918c69dcd01f98620484409465319614115acce1a9ccda3f75a39243a42b833ada8b9066a8c93bfcae172e03b3da717a25ee32c8e7b8b4d46d0b848 Homepage: https://cran.r-project.org/package=mHG Description: CRAN Package 'mHG' (Minimum-Hypergeometric Test) Runs a minimum-hypergeometric (mHG) test as described in: Eden, E. (2007). Discovering Motifs in Ranked Lists of DNA Sequences. Haifa. Package: r-cran-mhqol Architecture: all Version: 0.14.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 173 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-assertthat, r-cran-tidyr, r-cran-shiny, r-cran-shinyalert, r-cran-dt, r-cran-writexl, r-cran-fmsb Suggests: r-cran-here, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mhqol_0.14.0-1.ca2004.1_all.deb Size: 98380 MD5sum: eab6da084a8e25361a6124f6f6072c5c SHA1: d8bee66669cf29c3a65d3fd40210920018aea7a3 SHA256: ca69793978ec330b106c0d6960a8a763b002db455e77372cfe5739ac8ee0486b SHA512: 610498a61fc2e3704a590f66af2822224824c36ba0c2ea67fa330eed526ad8483796f23e361a5686768a73007eb56cde5d4bec2387df9ddf891870c6c52d02c1 Homepage: https://cran.r-project.org/package=MHQoL Description: CRAN Package 'MHQoL' (Mental Health Quality of Life Toolkit) Transforms, calculates, and presents results from the Mental Health Quality of Life Questionnaire (MHQoL), a measure of health-related quality of life for individuals with mental health conditions. Provides scoring functions, summary statistics, and visualization tools to facilitate interpretation. For more details see van Krugten et al.(2022) . 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It is well known that the p values come from different distribution for null and alternatives, in this package we provide functions to detect that change. We provide a method for using the change in distribution of p values as a way to detect the true signals in the data. 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Given discrete p-values and their domains, the [method].p.adjust function returns adjusted p-values, which can be used to compare with the nominal significant level alpha and make decisions. For users' convenience, the functions also provide the output option for printing decision rules. Package: r-cran-mhtrajectoryr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-mhtrajectoryr_1.0.1-1.ca2004.1_all.deb Size: 35688 MD5sum: 46fcfa109865e2d08ebd5908d025d534 SHA1: d9441a020d9a2e9c09729718f08e8f144a58fb11 SHA256: 92dcd307cb35a194b5f698ab2e2950d6a3e202f9184190bac7617527dcea9d98 SHA512: f1160674b4e4a0a4aa1e5a612143c093ffddb8bbca25b3e25891d2c43fdb1faaf97f94485f1b98bc5bee5a41ca7573e6882d482a589d709d1788b9047c7636ba Homepage: https://cran.r-project.org/package=MHTrajectoryR Description: CRAN Package 'MHTrajectoryR' (Bayesian Model Selection in Logistic Regression for theDetection of Adverse Drug Reactions) Spontaneous adverse event reports have a high potential for detecting adverse drug reactions. However, due to their dimension, the analysis of such databases requires statistical methods. We propose to use a logistic regression whose sparsity is viewed as a model selection challenge. Since the model space is huge, a Metropolis-Hastings algorithm carries out the model selection by maximizing the BIC criterion. Package: r-cran-mi4p Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2738 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-emmeans, r-cran-foreach, r-cran-imp4p, r-bioc-impute, r-bioc-limma, r-cran-mice, r-cran-stringr Suggests: r-bioc-biobase, r-cran-knitr, r-cran-r.rsp, r-cran-markdown, r-cran-rmarkdown, r-bioc-dapar, r-bioc-proteomm Filename: pool/dists/focal/main/r-cran-mi4p_1.2-1.ca2004.1_all.deb Size: 2044136 MD5sum: 5b57ccb2bc5484e289c2c2eb4c14eda7 SHA1: 308ad838f95aea93e5b773fa2b688d21edb34ba3 SHA256: a1f1f84dfcbac118ee517094dbdb64af0c5a0e2ba445222d3cca289648c73f4c SHA512: b6cb2389685b5f60a9804641a62397ce1476ba4301ecd0e960e18bb441a3a98610399096b7c4038f1365a36bf3b10033811f6ce1dfbdfb0bb11759d92cb545e7 Homepage: https://cran.r-project.org/package=mi4p Description: CRAN Package 'mi4p' (Multiple Imputation for Proteomics) A framework for multiple imputation for proteomics is proposed by Marie Chion, Christine Carapito and Frederic Bertrand (2021) . It is dedicated to dealing with multiple imputation for proteomics. Package: r-cran-mi Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2248 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-matrix, r-cran-arm Suggests: r-cran-betareg, r-cran-lattice, r-cran-knitr, r-cran-mass, r-cran-nnet, r-cran-sn, r-cran-survival, r-cran-truncnorm, r-cran-foreign Filename: pool/dists/focal/main/r-cran-mi_1.1-1.ca2004.1_all.deb Size: 1852592 MD5sum: f8b45e9f786ff2fbf6e5e51b939ad34a SHA1: ec3b72e9e6ff408a763f45d288591d7f6a1be7e1 SHA256: 89f76dfa1e236c82cabf513b828ee3395e44f9e8fd5247abd6be82528b394763 SHA512: 3e0fdcf888c7e536454c079bd12426a1a977466e4c4be67f55ac79d8c035ee63d6aeefe83ef4b390cc34ee9e49e1b6ad94e2b4e7b1f2e7d9dc775496d29e5b0b Homepage: https://cran.r-project.org/package=mi Description: CRAN Package 'mi' (Missing Data Imputation and Model Checking) The mi package provides functions for data manipulation, imputing missing values in an approximate Bayesian framework, diagnostics of the models used to generate the imputations, confidence-building mechanisms to validate some of the assumptions of the imputation algorithm, and functions to analyze multiply imputed data sets with the appropriate degree of sampling uncertainty. Package: r-cran-miamaxent Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3120 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-e1071, r-cran-terra, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-miamaxent_1.3.1-1.ca2004.1_all.deb Size: 893624 MD5sum: 1b003a53497b40506ef4ead9becfd98a SHA1: 05b36609a899c769c594027ef678e7a1a1b7931b SHA256: 241c3bdd33dbb079b9fa799c9b64df0ccc0d3c6222d0adb1d719748ca854802e SHA512: e059bb698ef323de22f9b41a400afde61b11f3fc4d49e100cbb34e4910ae65a2011990816642a6d585d1184bf279c8f285c72eef5c2af8a3ee66bdc56b038e75 Homepage: https://cran.r-project.org/package=MIAmaxent Description: CRAN Package 'MIAmaxent' (A Modular, Integrated Approach to Maximum Entropy DistributionModeling) Tools for training, selecting, and evaluating maximum entropy (and standard logistic regression) distribution models. This package provides tools for user-controlled transformation of explanatory variables, selection of variables by nested model comparison, and flexible model evaluation and projection. It follows principles based on the maximum- likelihood interpretation of maximum entropy modeling, and uses infinitely- weighted logistic regression for model fitting. The package is described in Vollering et al. (2019; ). Package: r-cran-micar Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-micar_1.1.2-1.ca2004.1_all.deb Size: 127060 MD5sum: 51a7702ef07cd555894f35c231ab3a4a SHA1: 580649e0a6ce9408ef3382a8a6d00766b2939ab2 SHA256: 7bf9933163a2d841548d9e301c8174da3a6a5679f07fa31a3b8ce06a7c474a6b SHA512: cf1392d69463afb3551ef6ea692d4b6802d53f7d424dae447bd895b53004afec97d6cea94a4f41b5bf02ede9100cd499d2245beafd8c9832a3e586d102bdfb4e Homepage: https://cran.r-project.org/package=micar Description: CRAN Package 'micar' ('Mica' Data Web Portal Client) 'Mica' is a server application used to create data web portals for large-scale epidemiological studies or multiple-study consortia. 'Mica' helps studies to provide scientifically robust data visibility and web presence without significant information technology effort. 'Mica' provides a structured description of consortia, studies, annotated and searchable data dictionaries, and data access request management. This 'Mica' client allows to perform data extraction for reporting purposes. Package: r-cran-micd Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pcalg, r-cran-mice, r-bioc-rbgl, r-cran-rfast Suggests: r-cran-nnet, r-cran-ranger, r-bioc-rgraphviz, r-cran-testthat Filename: pool/dists/focal/main/r-cran-micd_1.1.1-1.ca2004.1_all.deb Size: 159848 MD5sum: f908040ff5e073e1219dbc48e92716a7 SHA1: 9bfa1d5e2565871134ee27e172dc96f2179c8f7f SHA256: 25669808c79ca5c2a36210fa88e2b78ecea498f3e6fa7d2b3f2b61450cde81cc SHA512: 9ca40faefd4d66cd0dcbf99042d8157551091e063f23ab4c0a7515d2240ee2dbda0d0b900b873d43d8abf01f776030c50c281f3fa6befaf35a3ccb1280dba293 Homepage: https://cran.r-project.org/package=micd Description: CRAN Package 'micd' (Multiple Imputation in Causal Graph Discovery) Modified functions of the package 'pcalg' and some additional functions to run the PC and the FCI (Fast Causal Inference) algorithm for constraint-based causal discovery in incomplete and multiply imputed datasets. Foraita R, Friemel J, Günther K, Behrens T, Bullerdiek J, Nimzyk R, Ahrens W, Didelez V (2020) ; Andrews RM, Foraita R, Didelez V, Witte J (2021) ; Witte J, Foraita R, Didelez V (2022) . Package: r-cran-miceafter Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 444 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival, r-cran-proc, r-cran-rms, r-cran-mice, r-cran-mitml, r-cran-mitools, r-cran-dplyr, r-cran-purrr, r-cran-tidyr, r-cran-tibble, r-cran-stringr, r-cran-car, r-cran-rlang, r-cran-magrittr Suggests: r-cran-foreign, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-bookdown, r-cran-readr Filename: pool/dists/focal/main/r-cran-miceafter_0.5.0-1.ca2004.1_all.deb Size: 308572 MD5sum: e27688933dd5f487a02f9659330abee4 SHA1: 3fc4166277dddbdef4528518d114230858fb7cc6 SHA256: e42cbdf2971348513b862850af5e4d0062c727dea6420e28b1a2e81863aa58af SHA512: 2f89ad15d66bdd584c94a352ef7b8319404d50a41cd905d095b39ac05f0d39d6e13af233c40b6ebcd6554fe3e0d2fd440a182182674ddf29d9307087d1a5c444 Homepage: https://cran.r-project.org/package=miceafter Description: CRAN Package 'miceafter' (Data and Statistical Analyses after Multiple Imputation) Statistical Analyses and Pooling after Multiple Imputation. A large variety of repeated statistical analysis can be performed and finally pooled. Statistical analysis that are available are, among others, Levene's test, Odds and Risk Ratios, One sample proportions, difference between proportions and linear and logistic regression models. Functions can also be used in combination with the Pipe operator. More and more statistical analyses and pooling functions will be added over time. Heymans (2007) . Eekhout (2017) . Wiel (2009) . Marshall (2009) . Sidi (2021) . Lott (2018) . Grund (2021) . Package: r-cran-micecon Architecture: all Version: 0.6-18-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 261 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-misctools, r-cran-plm Suggests: r-cran-ecdat, r-cran-systemfit Filename: pool/dists/focal/main/r-cran-micecon_0.6-18-1.ca2004.1_all.deb Size: 219924 MD5sum: a9b517152972c404eab7d6db3af00853 SHA1: b566ae33bc03fea17fd2938e5503a625bf2b4131 SHA256: bae75fe719de3ff3cd14e03bd5de58f3d9edcb851f60745877537a94e4395937 SHA512: c2150d615ca496a77b63fd00b97f502b91c7e44a34a9d124dd3cbe28f8f64a8547d83cc49eaabe1747a0725b92917f88f4a4e462a5dc29b6622c93ff5b42005c Homepage: https://cran.r-project.org/package=micEcon Description: CRAN Package 'micEcon' (Microeconomic Analysis and Modelling) Various tools for microeconomic analysis and microeconomic modelling, e.g. estimating quadratic, Cobb-Douglas and Translog functions, calculating partial derivatives and elasticities of these functions, and calculating Hessian matrices, checking curvature and preparing restrictions for imposing monotonicity of Translog functions. 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The econometric estimation can be done by the Kmenta approximation, or non-linear least-squares using various gradient-based or global optimisation algorithms. Some of these algorithms can constrain the parameters to certain ranges, e.g. economically meaningful values. Furthermore, the non-linear least-squares estimation can be combined with a grid-search for the rho-parameter(s). The estimation methods are described in Henningsen et al. (2021) . 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Package: r-cran-micemd Architecture: all Version: 1.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 503 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mice, r-cran-matrix, r-cran-mass, r-cran-nlme, r-cran-lme4, r-cran-mvmeta, r-cran-jomo, r-cran-mvtnorm, r-cran-digest, r-cran-abind, r-cran-gjrm, r-cran-mgcv, r-cran-mixmeta, r-cran-pbivnorm Suggests: r-cran-vim, r-cran-ggplot2, r-cran-data.table, r-cran-broom.mixed Filename: pool/dists/focal/main/r-cran-micemd_1.10.0-1.ca2004.1_all.deb Size: 467100 MD5sum: 35f86a88508cbb8d1a44c5c5f8600a62 SHA1: 6b1beba0ba1d874f4e7b82d08b76258ef2958c91 SHA256: e68c94f8ea53ab8a8294d51d775ff66b52277ab0c03cc813b8647604d6950e06 SHA512: bb6a389486db629c61346659e15ffbbdda0997a2e1cbd49017c62cfacb5b5442f30cfbb4a187e1d7488ca068eebfb0de7f99c82ec4d940fe3a973e77c3360330 Homepage: https://cran.r-project.org/package=micemd Description: CRAN Package 'micemd' (Multiple Imputation by Chained Equations with Multilevel Data) Addons for the 'mice' package to perform multiple imputation using chained equations with two-level data. Includes imputation methods dedicated to sporadically and systematically missing values. Imputation of continuous, binary or count variables are available. Following the recommendations of Audigier, V. et al (2018) , the choice of the imputation method for each variable can be facilitated by a default choice tuned according to the structure of the incomplete dataset. Allows parallel calculation and overimputation for 'mice'. Package: r-cran-micer Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-micer_0.2.0-1.ca2004.1_all.deb Size: 59340 MD5sum: ce36e396b2892ccf06fc390d2d44cd31 SHA1: fed1fa0b541e17c710b748b2d251d729801a41bb SHA256: 514ffd14d63ff14e94e92a0de412bfcb14744bb63bc8444b2f5b2a8d0dc3b46d SHA512: 9924741aab7d13b14249c529e7c94569753589261c7c7ad3ad5cfe1cab381ce5cd9c1f039896d41de65b3608c4353fbdea93f669757eff67fbe0be64e1ed08f3 Homepage: https://cran.r-project.org/package=micer Description: CRAN Package 'micer' (Map Image Classification Efficacy) Map image classification efficacy (MICE) adjusts the accuracy rate relative to a random classification baseline (Shao et al. (2021) and Tang et al. (2024)). Only the proportions from the reference labels are considered, as opposed to the proportions from the reference and predictions, as is the case for the Kappa statistic. This package offers means to calculate MICE and adjusted versions of class-level user's accuracy (i.e., precision) and producer's accuracy (i.e., recall) and F1-scores. Class-level metrics are aggregated using macro-averaging. Functions are also made available to estimate confidence intervals using bootstrapping and statistically compare two classification results. Package: r-cran-miceranger Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3235 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ranger, r-cran-data.table, r-cran-fnn, r-cran-ggplot2, r-cran-crayon, r-cran-corrplot, r-cran-ggpubr, r-cran-desctools, r-cran-foreach Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-doparallel, r-cran-testthat Filename: pool/dists/focal/main/r-cran-miceranger_1.5.0-1.ca2004.1_all.deb Size: 948984 MD5sum: e4d0e702448fd18350346c51d986521e SHA1: 23a77e60c2936dedb21e4190156f3bbf635bf0df SHA256: 0cd63324f829f885a1c8979d38c4cc59c4a275418dcc63c5db44c49f9f93bd59 SHA512: e0c329a1331dacb5ab7b74d916f876109b731b2f0d7cea46bb7b9e84da1eddf96806eac88fd7318486035d2d6795f1ba550b7f617942796ccea93f322896db4a Homepage: https://cran.r-project.org/package=miceRanger Description: CRAN Package 'miceRanger' (Multiple Imputation by Chained Equations with Random Forests) Multiple Imputation has been shown to be a flexible method to impute missing values by Van Buuren (2007) . Expanding on this, random forests have been shown to be an accurate model by Stekhoven and Buhlmann to impute missing values in datasets. They have the added benefits of returning out of bag error and variable importance estimates, as well as being simple to run in parallel. Package: r-cran-michelrodange Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-michelrodange_1.0.0-1.ca2004.1_all.deb Size: 150376 MD5sum: d969aec2ae619949f4360ae2c36df162 SHA1: 76d22a77f13267e31176fbd31e2167308ea0d203 SHA256: f0e89a95b1ef0d7670954c8bf4c276785e1652e30a832b303780be2050f1f2d9 SHA512: 0e7f4a629b75ffe696b61ea1f923c21f86ec6971d27eeeb3b8a09cb4d9d1e2825156c393c56926962ea8960192751544a49aa3fe7a0705ba1236ec95322bfaf1 Homepage: https://cran.r-project.org/package=michelRodange Description: CRAN Package 'michelRodange' (The Works (in Luxembourguish) of Michel Rodange) Michel Rodange was a Luxembourguish writer and poet who lived in the 19th century. His most notable work is Rodange (1872, ISBN:1166177424), ("Renert oder de Fuuß am Frack an a Ma'nsgrëßt"), but he also wrote many more works, including Rodange, Tockert (1928) ("D'Léierchen - Dem Léiweckerche säi Lidd") and Rodange, Welter (1929) ("Dem Grow Sigfrid seng Goldkuommer"). This package contains three datasets, each made from the plain text versions of his works available on . Package: r-cran-miclust Architecture: all Version: 1.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doby, r-cran-combinat, r-cran-flexclust, r-cran-irr, r-cran-matrixstats Suggests: r-cran-knitr, r-cran-xtable, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-miclust_1.2.8-1.ca2004.1_all.deb Size: 164240 MD5sum: 68904813acce1125382d6a2b8efe1375 SHA1: 2a29fa0b6e0d5d9ca3aff22a74351379a943df10 SHA256: 9e53549b26d66c39d501b72a6161b9b08b70fab1928af152c82063b197155f33 SHA512: ceb70b00fa4c98fece40b91cee3ed1fa028076b5d5d3e1bf82cf786f361f5a5f24e97ac2140896e559ed7a0b4df98318f12b8a2ed9bd5c7528a0ddeb03805ea8 Homepage: https://cran.r-project.org/package=miclust Description: CRAN Package 'miclust' (Multiple Imputation in Cluster Analysis) Implementation of a framework for cluster analysis with selection of the final number of clusters and an optional variable selection procedure. The package is designed to integrate the results of multiple imputed datasets while accounting for the uncertainty that the imputations introduce in the final results. In addition, the package can also be used for a cluster analysis of the complete cases of a single dataset. The package also includes specific methods to summarize and plot the results. The methods are described in Basagana et al. (2013) . Package: r-cran-micompr Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2119 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-biotools, r-cran-mvn, r-cran-testthat, r-cran-knitr, r-cran-roxygen2, r-cran-devtools Filename: pool/dists/focal/main/r-cran-micompr_1.2.0-1.ca2004.1_all.deb Size: 1679968 MD5sum: bc84edc54290760eed94a98418fbe53c SHA1: 18dcf244069b5fd3e3c6be7f98bbdc929452776b SHA256: 9401840c7e46ecb92a3f93c0284c3059c90c17c10c36cfde39cdba14b5acaec9 SHA512: 9f15199b9966ee5391aaee00ffb2cc15c35ea086db9020badbd981afdef4b8afb54284bbe56d40de167f71b901d65d0298e8dd11fa7fc31ee8d67f655430496d Homepage: https://cran.r-project.org/package=micompr Description: CRAN Package 'micompr' (Multivariate Independent Comparison of Observations) A procedure for comparing multivariate samples associated with different groups. It uses principal component analysis to convert multivariate observations into a set of linearly uncorrelated statistical measures, which are then compared using a number of statistical methods. The procedure is independent of the distributional properties of samples and automatically selects features that best explain their differences, avoiding manual selection of specific points or summary statistics. It is appropriate for comparing samples of time series, images, spectrometric measures or similar multivariate observations. This package is described in Fachada et al. (2016) . Package: r-cran-micoptcm Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-nleqslv, r-cran-survival, r-cran-distr Filename: pool/dists/focal/main/r-cran-micoptcm_1.1-1.ca2004.1_all.deb Size: 75460 MD5sum: 26b85986f557f765914153f9e3f8417a SHA1: 0d9af01c32c17e16909c4b6b09c333aa716a14e1 SHA256: 57ddcfec540b978faad5c584514cbe77f5c23ea399e0ecba456406b810efd333 SHA512: 93a23729f0ae14e0e174ed6c1413d06c94799d3f5bb681aaba46e6d99a9fffcfe44b274eefb57c235a05207892390e9ea9783f7a07f4bef6f9831e230d5361ba Homepage: https://cran.r-project.org/package=miCoPTCM Description: CRAN Package 'miCoPTCM' (Promotion Time Cure Model with Mis-Measured Covariates) Fits Semiparametric Promotion Time Cure Models, taking into account (using a corrected score approach or the SIMEX algorithm) or not the measurement error in the covariates, using a backfitting approach to maximize the likelihood. Package: r-cran-microbats Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-microbats_0.1-1-1.ca2004.1_all.deb Size: 15380 MD5sum: bf9cc1a5e5408c775aa5d612c5109d18 SHA1: 435726d52f077727404c495a7239dce4e76f09a5 SHA256: 6910727d5ffbd8eadb6d0112f4a3ceb2e949fcb092d4a5cbb174fd1ec4400462 SHA512: 8ed07bb147807b7b8fa275c09c786acffef6bc539b224af6c6439a0a53338d40676568e1aefd22895dc703f598e0116945a32c25691568d932c3ac8248a42c66 Homepage: https://cran.r-project.org/package=microbats Description: CRAN Package 'microbats' (An Implementation of Bat Algorithm in R) A nature-inspired metaheuristic algorithm based on the echolocation behavior of microbats that uses frequency tuning to optimize problems in both continuous and discrete dimensions. This R package makes it easy to implement the standard bat algorithm on any user-supplied function. The algorithm was first developed by Xin-She Yang in 2010 (, ). Package: r-cran-microbial Architecture: all Version: 0.0.21-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1101 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-plyr, r-cran-magrittr, r-cran-broom, r-bioc-phyloseq, r-cran-vegan, r-cran-rlang, r-cran-ggplot2, r-cran-ggpubr, r-bioc-deseq2, r-bioc-summarizedexperiment, r-bioc-s4vectors, r-cran-rstatix, r-cran-tidyr, r-cran-phangorn, r-cran-randomforest, r-bioc-edger Suggests: r-cran-markdown, r-bioc-dada2, r-cran-rmarkdown, r-cran-knitr, r-bioc-biostrings, r-bioc-decipher, r-cran-mass, r-cran-testthat Filename: pool/dists/focal/main/r-cran-microbial_0.0.21-1.ca2004.1_all.deb Size: 996576 MD5sum: 2c0abf9f5cfa60b97ec072366ac93f75 SHA1: f207b82d3e7304ab716162ae99dae6afdfc226a3 SHA256: 104934f5b8fae18e815c2759d9ffb01a626722aec2cb93d23da3b16954c73687 SHA512: fced67863eef29baca2f0d7546cb04c87e8dc09b992a0e1a863d4a7bea74d5cdbe632ec2246605f77f50c3649d61ec6af268f0940ac708cbe492d1253454b945 Homepage: https://cran.r-project.org/package=microbial Description: CRAN Package 'microbial' (Do 16s Data Analysis and Generate Figures) Provides functions to enhance the available statistical analysis procedures in R by providing simple functions to analysis and visualize the 16S rRNA data.Here we present a tutorial with minimum working examples to demonstrate usage and dependencies. Package: r-cran-microbialgrowth Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1112 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlstools Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-microbialgrowth_1.0.0-1.ca2004.1_all.deb Size: 762780 MD5sum: c07bb0fead217fc8e9ec6da4ac851626 SHA1: 82a510d9550031bcfbe9ad5d29fec87bf0e137c5 SHA256: 7552d5a4060ede3cca22f0808990b2b5901fb3b948e1f0e61034f8c44fcafdad SHA512: 39415cb089ede7af3416afcd97e2e9942572cd2436c922c04d4dd2cf15c9387c4ed708715afb938fbe66bbc10255f8df20ef2389306023b731d0f04e3f888144 Homepage: https://cran.r-project.org/package=MicrobialGrowth Description: CRAN Package 'MicrobialGrowth' (Estimates Growth Parameters from Models and Plots the Curve) Fit growth curves to various known microbial growth models automatically to estimate growth parameters. Growth curves can be plotted with their uncertainty band. Growth models are: modified Gompertz model (Zwietering et al. (1990) ), Baranyi model (Baranyi and Roberts (1994) ), Rosso model (Rosso et al. (1993) ) and linear model (Dantigny (2005) ). Package: r-cran-microbiomemqc Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readxl, r-cran-vegan Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-microbiomemqc_1.0.2-1.ca2004.1_all.deb Size: 20568 MD5sum: 50bfcad46a0229cef2e2203adf431297 SHA1: 1ea67a242e6c84e94357ea151a825776a12fda20 SHA256: bdaabfd674c85c00024cc6961228452a3eb1de4170421519516eb4fc5e419f22 SHA512: c47fa31d35005400aa5bdfb374dc23a18156cabbc17106110e6ea09187ac90c8f9762cc99a88354cc62d680ec152853f5601835fb5573973d8873f66a1a5300d Homepage: https://cran.r-project.org/package=microbiomeMQC Description: CRAN Package 'microbiomeMQC' (Calculate 4 Key Reporting Measures) Perform calculations for the WHO International Reference Reagents for the microbiome. Using strain, species or genera abundance tables generated through analysis of 16S ribosomal RNA sequencing or shotgun sequencing which included a reference reagent. This package will calculate measures of sensitivity, False positive relative abundance, diversity, and similarity based on mean average abundances with respect to the reference reagent. Package: r-cran-microbiomesurv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 888 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-survival, r-cran-survminer, r-cran-glmnet, r-cran-superpc, r-cran-lmtest, r-cran-gplots, r-cran-tidyr, r-cran-dplyr, r-bioc-microbiome, r-cran-pls Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-microbiomesurv_0.1.0-1.ca2004.1_all.deb Size: 775228 MD5sum: 3db5644d76ed00fedb8094e9a75da07f SHA1: ecf9987f9f672f8638f134c8f80fafd49f8f5e9d SHA256: 46da6f63be16182721f460365d56076d0fa5a6a44c895ca1acb0997e92eeb97e SHA512: 0434d7d232d81e68fdd11fc73218f83bd1a0ff2a6a83b315b01a8f58d78439f076d8a2c24b7b036d89bb25407314e83ad8108462e4e80b06a22adb8d3c0ef279 Homepage: https://cran.r-project.org/package=MicrobiomeSurv Description: CRAN Package 'MicrobiomeSurv' (Biomarker Validation for Microbiome-Based SurvivalClassification and Prediction) An approach to identify microbiome biomarker for time to event data by discovering microbiome for predicting survival and classifying subjects into risk groups. Classifiers are constructed as a linear combination of important microbiome and treatment effects if necessary. Several methods were implemented to estimate the microbiome risk score such as the LASSO method by Robert Tibshirani (1998) , Elastic net approach by Hui Zou and Trevor Hastie (2005) , supervised principle component analysis of Wold Svante et al. (1987) , and supervised partial least squares analysis by Inge S. Helland . Sensitivity analysis on the quantile used for the classification can also be accessed to check the deviation of the classification group based on the quantile specified. Large scale cross validation can be performed in order to investigate the mostly selected microbiome and for internal validation. During the evaluation process, validation is accessed using the hazard ratios (HR) distribution of the test set and inference is mainly based on resampling and permutations technique. Package: r-cran-microcontax Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2632 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-microseq Filename: pool/dists/focal/main/r-cran-microcontax_1.2-1.ca2004.1_all.deb Size: 2650996 MD5sum: 0bc2cd83cac6e8410084c1118b0f55c5 SHA1: c339409548c6b2834a92f552625df0a60132af22 SHA256: 20082099d1d181d4027da1fd1cbf86184b1b7f3835f9eaa617a594f73d48f46a SHA512: dc72bc654b3f9dd30ea7247b8bbb197f4da0b4eef84211fafcb57dbd0c05ed6a754708f10bfeb35f06ad9916eb815f2e56ba693eabba7caa1eff4a159db8017a Homepage: https://cran.r-project.org/package=microcontax Description: CRAN Package 'microcontax' (The ConTax Data Package) The consensus taxonomy for prokaryotes is a set of data-sets for best possible taxonomic classification based on 16S rRNA sequence data. 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Package: r-cran-microdatasus Architecture: all Version: 2.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1460 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-curl, r-cran-data.table, r-cran-dplyr, r-cran-dtplyr, r-cran-foreign, r-cran-lubridate, r-cran-magrittr, r-cran-rcurl, r-cran-read.dbc, r-cran-rlang, r-cran-stringi, r-cran-tibble, r-cran-zip Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-microdatasus_2.3.1-1.ca2004.1_all.deb Size: 1433004 MD5sum: 39987c693b98c6c68f142dbd7f2cae5a SHA1: fdf5456295b45612f6f9d1dd6b9bcbc106ddd91a SHA256: 6962d44bfbd5a48363f5d4ae1668194dad3bc6bef1d61bed8966071ab8a50c3d SHA512: a73117926ec937ca599879c4ef41a938ceb3543abb0b2f9648002fcdabe944cb8552132ebad81fc7e415b65cf53630672d0cd2bb9d64253e4a1eeb2a177376df Homepage: https://cran.r-project.org/package=microdatasus Description: CRAN Package 'microdatasus' (Download and Process 'DataSUS' Files) Downloads data files from 'DataSUS' health information systems from and process the data, including labeling categorical variables. Package: r-cran-microdatoses Architecture: all Version: 0.8.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 783 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-readr Filename: pool/dists/focal/main/r-cran-microdatoses_0.8.15-1.ca2004.1_all.deb Size: 130312 MD5sum: 9023aea2d2f1ef0f1c99cb834b54d691 SHA1: f64f06a7930825fca4eef970d59c9feee21032a5 SHA256: bf6c943d3bb4629c1eaccb5f18283590137bbcd188c420cbc242f385014fa3d6 SHA512: ce2d60ecad0aebb02272eca58aba8f7e5f41c9d69d190ede64e25412766bf9b2f25f9e4407a9d6df2a20d6c216d903436669d57c8a034288c842e9a86118e329 Homepage: https://cran.r-project.org/package=MicroDatosEs Description: CRAN Package 'MicroDatosEs' (Utilities for Official Spanish Microdata) Provides utilities for reading and processing microdata from Spanish official statistics with R. Package: r-cran-microdemic Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crul, r-cran-jsonlite, r-cran-data.table, r-cran-tibble, r-cran-httpcode Suggests: r-cran-testthat, r-cran-vcr Filename: pool/dists/focal/main/r-cran-microdemic_0.6.0-1.ca2004.1_all.deb Size: 39356 MD5sum: f3283f3e7babf6a98576627d3a7089e8 SHA1: 655097d0a62926c0ea28197a40046cd39f145497 SHA256: 0fa8a69c8172d4fe680e66e35f3b3d969033fff92652a5369f245d0cf06e15c9 SHA512: 5164a6b64411a8c82abf612c489005553436188cb93be80d9f5af937776ca86e1927b38a129a6b9bebca1baf895e2ce5550fe0cf635c89bbe59a8b2829127fe7 Homepage: https://cran.r-project.org/package=microdemic Description: CRAN Package 'microdemic' ('Microsoft Academic' API Client) The 'Microsoft Academic Knowledge' API provides programmatic access to scholarly articles in the 'Microsoft Academic Graph' (). Includes methods matching all 'Microsoft Academic' API routes, including search, graph search, text similarity, and interpret natural language query string. Package: r-cran-microdiluter Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggh4x, r-cran-ggplot2, r-cran-ggthemes, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-rstatix, r-cran-stringr, r-cran-tibble, r-cran-vctrs Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-microdiluter_1.0.1-1.ca2004.1_all.deb Size: 193136 MD5sum: bc1a5f6f1dc4290d44771645c6fb31da SHA1: f0d17ab9973a60ffea41af72260fd243801b7913 SHA256: b821df50aa4efd0688913042290b4976ba84dd1871645c62de01c298e3e8e277 SHA512: a7bf88db720dcf6f07856281e07ef5d0e807b209a91f0666d6bd5597f44ce30aa86ffdf3998126e55374c36a6f836c2f246342bd78e40cc970a8ce55121a3541 Homepage: https://cran.r-project.org/package=microdiluteR Description: CRAN Package 'microdiluteR' (Analysis of Broth Microdilution Assays) A framework for analyzing broth microdilution assays in various 96-well plate designs, visualizing results and providing descriptive and (simple) inferential statistics (i.e. summary statistics and sign test). The functions are designed to add metadata to 8 x 12 tables of absorption values, creating a tidy data frame. Users can choose between clean-up procedures via function parameters (which covers most cases) or user prompts (in cases with complex experimental designs). Users can also choose between two validation methods, i.e. exclusion of absorbance values above a certain threshold or manual exclusion of samples. A function for visual inspection of samples with their absorption values over time for certain group combinations helps with the decision. In addition, the package includes functions to subtract the background absorption (usually at time T0) and to calculate the growth performance compared to a baseline. Samples can be visually inspected with their absorption values displayed across time points for specific group combinations. Core functions of this package (i.e. background subtraction, sample validation and statistics) were inspired by the manual calculations that were applied in Tewes and Muller (2020) . Package: r-cran-microeco Architecture: all Version: 1.15.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3604 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-r6, r-cran-ape, r-cran-vegan, r-cran-rlang, r-cran-data.table, r-cran-magrittr, r-cran-dplyr, r-cran-tibble, r-cran-scales, r-cran-ggplot2, r-cran-rcolorbrewer, r-cran-reshape2, r-cran-igraph, r-cran-lifecycle Suggests: r-cran-gunifrac, r-cran-mass, r-cran-ggpubr, r-cran-randomforest, r-cran-ggdendro, r-cran-ggrepel, r-cran-agricolae, r-cran-gridextra, r-cran-picante, r-cran-pheatmap, r-cran-rgexf, r-cran-mice, r-cran-ggally Filename: pool/dists/focal/main/r-cran-microeco_1.15.0-1.ca2004.1_all.deb Size: 3556532 MD5sum: 484415e0e7507e75c6f124b34e869708 SHA1: 84ec4d1a790c53730ae949771f23a1a9e2588caf SHA256: 5af640ca7f226ad5e45379c518ff81cefe251c2391b1be1461d573c4da2329a3 SHA512: 19a625136d0f22601b7fc44514b7a5f7293db05132cd037315e0e83f8aa24ccf4837211d23e50a545aeaf8da7f4c0f3733447a98b8f879846671187bea19a5f3 Homepage: https://cran.r-project.org/package=microeco Description: CRAN Package 'microeco' (Microbial Community Ecology Data Analysis) A series of statistical and plotting approaches in microbial community ecology based on the R6 class. The classes are designed for data preprocessing, taxa abundance plotting, alpha diversity analysis, beta diversity analysis, differential abundance test, null model analysis, network analysis, machine learning, environmental data analysis and functional analysis. Package: r-cran-microhaplot Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1892 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dt, r-cran-dplyr, r-cran-ggplot2, r-cran-gtools, r-cran-magrittr, r-cran-scales, r-cran-shiny, r-cran-shinybs, r-cran-tidyr, r-cran-shinywidgets, r-cran-ggiraph Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-microhaplot_1.0.1-1.ca2004.1_all.deb Size: 1048204 MD5sum: bc9c83698950a474885da5927b750c3f SHA1: 7137fe663b9217e7bc5129879da1e8ed678f5433 SHA256: 4bd214dab244610cb5502b3a1940057d7f00db723881278fd15249f5e3a03a6c SHA512: 71a2317540fb7a3c1d77d8d51415d10ff8b63bf6852b8bd5d2a15d5eb873bf7749fcd5349230b2c1c9b97f0aac37b5f7f7d3312945db00df6b072c5f2ac8c810 Homepage: https://cran.r-project.org/package=microhaplot Description: CRAN Package 'microhaplot' (Microhaplotype Constructor and Visualizer) A downstream bioinformatics tool to construct and assist curation of microhaplotypes from short read sequences. Package: r-cran-microinverterdata Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1464 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-httr2, r-cran-purrr, r-cran-rlang, r-cran-tidyr, r-cran-units Suggests: r-cran-httptest2, r-cran-knitr, r-cran-lubridate, r-cran-pins, r-cran-rmarkdown, r-cran-tibble, r-cran-tsibble, r-cran-imputets, r-cran-testthat Filename: pool/dists/focal/main/r-cran-microinverterdata_0.4.0-1.ca2004.1_all.deb Size: 882260 MD5sum: a899628e447aa99dfef96be3a610134a SHA1: e3700efdcf727d80b6ee6d319019b3ec56f4d1fb SHA256: 8437ad663fbfe181f662413d74682a779d3c52c6dc0fe34bf78a55ee671e05bf SHA512: 314e234945ff5df817be17cb2c95441b0640d2f0490298984d57af98ceb8c62be47813131937aa145039a486802a87cc9287cf19cfaf97d3c1c4ea18732cb2c5 Homepage: https://cran.r-project.org/package=microinverterdata Description: CRAN Package 'microinverterdata' (Collect your Microinverter Data) Collect and normalize local microinverter energy and power production data through off-cloud API requests. Currently supports 'APSystems', 'Enphase', and 'Fronius' microinverters. Package: r-cran-micromacromultilevel Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-micromacromultilevel_0.4.0-1.ca2004.1_all.deb Size: 47268 MD5sum: 82fa7dddb265b51b64a3f954cfe7eac8 SHA1: f577b666be9cdd06839208ce67e8cf11cad52e47 SHA256: ec616edc129b6dbd8c7083e2c58e2f11be0dee289eaf88b8624602356450240c SHA512: 74d6cc9ab96f61b58c1b93fed953409290ef0ffbace1084d8801b5a85ebb84a07d497c942999b54be80a87b0269c1113c5aeadf1402830214285cc0e5c4f1d21 Homepage: https://cran.r-project.org/package=MicroMacroMultilevel Description: CRAN Package 'MicroMacroMultilevel' (Micro-Macro Multilevel Modeling) Most multilevel methodologies can only model macro-micro multilevel situations in an unbiased way, wherein group-level predictors (e.g., city temperature) are used to predict an individual-level outcome variable (e.g., citizen personality). In contrast, this R package enables researchers to model micro-macro situations, wherein individual-level (micro) predictors (and other group-level predictors) are used to predict a group-level (macro) outcome variable in an unbiased way. Package: r-cran-micromap Architecture: all Version: 1.9.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1752 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcolorbrewer, r-cran-sp, r-cran-sf, r-cran-ggplot2 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-micromap_1.9.10-1.ca2004.1_all.deb Size: 1345628 MD5sum: 010a124cd79bd63dc16c7224d19d43d6 SHA1: 145a44ce6bc3551b005d398e833b16c9dd95ef56 SHA256: a4e30b25108f8aac92eea01dd22c89679ab4d6b6f0f80fbcf7e75eddb1eb7d43 SHA512: 357d2cdc6ec5ed787e8ea4ed9a40896587d90d8fb0e767e96cf85615b0e67f9a2a907a1b06fff0631aa7868cef9f3dfa1f6c201dc342d6a29d1ba6bd40e37b4c Homepage: https://cran.r-project.org/package=micromap Description: CRAN Package 'micromap' (Linked Micromap Plots) This group of functions simplifies the creation of linked micromap plots. Please see for additional details. Package: r-cran-micromapst Architecture: all Version: 3.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3679 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-rcolorbrewer, r-cran-labeling, r-cran-sf, r-cran-spdep, r-cran-rmapshaper, r-cran-readxl, r-cran-writexl Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-micromapst_3.1.1-1.ca2004.1_all.deb Size: 3101708 MD5sum: 286f353b97105a85545cd5c5c6745aca SHA1: fd5eef63c00bf6d9b351e899d2d07d0a324a9087 SHA256: 4699b44c4a401bfab90730123da378752d73e5edde658d63555535fd5afde0e7 SHA512: beba6bf0b45d7ddb38a977349f9897840018a6e8c467b929381715d0eaec5ba10ffb8a53b8df2967b299d7b390f2b65a4c9498afa2845db823634459dee2c455 Homepage: https://cran.r-project.org/package=micromapST Description: CRAN Package 'micromapST' (Linked Micromap Plots for U. S. and Other Geographic Areas) Provides the users with the ability to quickly create linked micromap plots for a collection of geographic areas. Linked micromap plots are visualizations of geo-referenced data that link statistical graphics to an organized series of small maps or graphic images. The Help description contains examples of how to use the 'micromapST' function. Contained in this package are border group datasets to support creating linked micromap plots for the 50 U.S. states and District of Columbia (51 areas), the U. S. 20 Seer Registries, the 105 counties in the state of Kansas, the 62 counties of New York, the 24 counties of Maryland, the 29 counties of Utah, the 32 administrative areas in China, the 218 administrative areas in the UK and Ireland (for testing only), the 25 districts in the city of Seoul South Korea, and the 52 counties on the Africa continent. A border group dataset contains the boundaries related to the data level areas, a second layer boundaries, a top or third layer boundary, a parameter list of run options, and a cross indexing table between area names, abbreviations, numeric identification and alias matching strings for the specific geographic area. By specifying a border group, the package create linked micromap plots for any geographic region. The user can create and provide their own border group dataset for any area beyond the areas contained within the package with the 'BuildBorderGroup' function. In April of 2022, it was announced that 'maptools', 'rgdal', and 'rgeos' R packages would be retired in middle to end of 2023 and removed from the CRAN libraries. The 'BuildBorderGroup' function was dependent on these packages. 'micromapST' functions were not impacted by the retired R packages. Upgrading of 'BuildBorderGroup' function was completed and released with version 3.0.0 on August 10, 2023 using the 'sf' R package. References: Carr and Pickle, Chapman and Hall/CRC, Visualizing Data Patterns with Micromaps, CRC Press, 2010. Pickle, Pearson, and Carr (2015), micromapST: Exploring and Communicating Geospatial Patterns in US State Data., Journal of Statistical Software, 63(3), 1-25., . Copyrighted 2013, 2014, 2015, 2016, 2022, 2023, 2024, and 2025 by Carr, Pearson and Pickle. Package: r-cran-micromodal Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-htmltools Suggests: r-cran-bslib, r-cran-knitr, r-cran-rmarkdown, r-cran-shiny Filename: pool/dists/focal/main/r-cran-micromodal_1.0.0-1.ca2004.1_all.deb Size: 27652 MD5sum: f011d12fd7bff60e77d19a4796e33154 SHA1: 664eb07001978806faf3363bd0fd0ddf4ff5fe01 SHA256: 968fe3c7754d9765ca52e75fdeac724b7cae9ea7137139fe115c30f1be661d68 SHA512: 0c871f15aab9bc490bab7623c5f96a4141b92a609e8930134b52a6bbe8ecc41e0569504053365a46d774c8ae8cca6821c272f3440f466ee0bab228a1201723e8 Homepage: https://cran.r-project.org/package=micromodal Description: CRAN Package 'micromodal' (Create Simple and Elegant Modal Dialogs in 'shiny') Enables you to create accessible modal dialogs, with confidence and with minimal configuration. Package: r-cran-microniche Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-microniche_1.0.0-1.ca2004.1_all.deb Size: 80364 MD5sum: a4f6b220f7ca6efdf320591a1ff39a87 SHA1: 4641152e24c52ebb25534cd8e3956e18d10453c2 SHA256: fd722227f0d54f86e9aa68bbf88c86af798fc30b201574b1c0f87041ced87b00 SHA512: 941134415e6abf8345ec79cfd139abf66ac7da3fe9fdb9fddbf008da0e7647c79b0d3d555d93719a396e8bae62798b1c8b25b9fb19d5cfbfaaf279df69a40960 Homepage: https://cran.r-project.org/package=MicroNiche Description: CRAN Package 'MicroNiche' (Microbial Niche Measurements) Measures niche breadth and overlap of microbial taxa from large matrices. Niche breadth measurements include Levins' niche breadth (Bn) index, Hurlbert's Bn and Feinsinger's proportional similarity (PS) index. (Feinsinger, P., Spears, E.E., Poole, R.W. (1981) ). Niche overlap measurements include Levin's Overlap (Ludwig, J.A. and Reynolds, J.F. (1988, ISBN:0471832359)) and a Jaccard similarity index of Feinsinger's PS values between taxa pairs, as Proportional Overlap. Package: r-cran-micronutr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 560 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-micronutr_0.1.1-1.ca2004.1_all.deb Size: 428556 MD5sum: f9e14baef4f631710cd145e5d12b41dc SHA1: 2e45f12603afbc69d4fec6b0781399c3839384f3 SHA256: 54e994c20c2599178193776e98009691c6cb5d07533cd4ea01980e4805960680 SHA512: 1ab409fbac4eb9b4c8b85e8b660fbcaa3a7e8869571da8c3a3d6cfd0041ef8ee57aabbe2f2e1ca45be974b8babbfb6dd6211b7ae05eeabce4c3818f5985f801a Homepage: https://cran.r-project.org/package=micronutr Description: CRAN Package 'micronutr' (Determining Vitamin and Mineral Status of Populations) Vitamin and mineral deficiencies continue to be a significant public health problem. This is particularly critical in developing countries where deficiencies to vitamin A, iron, iodine, and other micronutrients lead to adverse health consequences. Cross-sectional surveys are helpful in answering questions related to the magnitude and distribution of deficiencies of selected vitamins and minerals. This package provides tools for calculating and determining select vitamin and mineral deficiencies based on World Health Organization (WHO) guidelines found at . Package: r-cran-micropan Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1715 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-microseq, r-cran-dplyr, r-cran-stringr, r-cran-igraph, r-cran-tibble, r-cran-rlang Filename: pool/dists/focal/main/r-cran-micropan_2.1-1.ca2004.1_all.deb Size: 1704372 MD5sum: 881d2a2a28d779b58dc226c6d3954300 SHA1: 00a8c75181f8620a28e0a3d24bf7511a12b2bf24 SHA256: caa5d1ae6cb7b9203ccf9f50646954c5dde83d1550f11b1495a3255dac787e37 SHA512: 78744873308a68834ebbf62eb9082ae63a6f640036677729f219d067f989ea4cfab104b9d6f2e2229cfcd9df566a3aedfd276d840c5116e91cf66d04d3621991 Homepage: https://cran.r-project.org/package=micropan Description: CRAN Package 'micropan' (Microbial Pan-Genome Analysis) A collection of functions for computations and visualizations of microbial pan-genomes. Package: r-cran-microplot Architecture: all Version: 1.0-45-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 713 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc, r-cran-hh, r-cran-lattice, r-cran-flextable, r-cran-officer, r-cran-ggplot2, r-cran-htmltools, r-cran-cowplot Suggests: r-cran-reshape2, r-cran-latticeextra, r-cran-xtable, r-cran-markdown, r-cran-rmarkdown, r-cran-knitr, r-cran-htmltable Filename: pool/dists/focal/main/r-cran-microplot_1.0-45-1.ca2004.1_all.deb Size: 487732 MD5sum: e6b0986d4d8949109dedf11c410997e9 SHA1: d9181d7969ff5141e883fb95acb639d850490a31 SHA256: 6d0544ac4d70297f1f3f53b08a43c37204963ed2fb1c58bd4606fd978d03a8d9 SHA512: bfa08e34c46b083959348b5216e2e2e70590b132a50ef55e0e63b66e7305f71ed8bdc1eeda07fdf72647debc99b076d6f61fa3749110934bc40aa09903c5d8a9 Homepage: https://cran.r-project.org/package=microplot Description: CRAN Package 'microplot' (Microplots (Sparklines) in 'LaTeX', 'Word', 'HTML', 'Excel') The microplot function writes a set of R graphics files to be used as microplots (sparklines) in tables in either 'LaTeX', 'HTML', 'Word', or 'Excel' files. For 'LaTeX', we provide methods for the Hmisc::latex() generic function to construct 'latex' tabular environments which include the graphs. These can be used directly with the operating system 'pdflatex' or 'latex' command, or by using one of 'Sweave', 'knitr', 'rmarkdown', or 'Emacs org-mode' as an intermediary. For 'MS Word', the msWord() function uses the 'flextable' package to construct 'Word' tables which include the graphs. There are several distinct approaches for constructing HTML files. The simplest is to use the msWord() function with argument filetype="html". Alternatively, use either 'Emacs org-mode' or the htmlTable::htmlTable() function to construct an 'HTML' file containing tables which include the graphs. See the documentation for our as.htmlimg() function. For 'Excel' use on 'Windows', the file examples/irisExcel.xls includes 'VBA' code which brings the individual panels into individual cells in the spreadsheet. Examples in the examples and demo subdirectories are shown with 'lattice' graphics, 'ggplot2' graphics, and 'base' graphics. Examples for 'LaTeX' include 'Sweave' (both 'LaTeX'-style and 'Noweb'-style), 'knitr', 'emacs org-mode', and 'rmarkdown' input files and their 'pdf' output files. Examples for 'HTML' include 'org-mode' and 'Rmd' input files and their webarchive 'HTML' output files. In addition, the as.orgtable() function can display a data.frame in an 'org-mode' document. The examples for 'MS Word' (with either filetype="docx" or filetype="html") work with all operating systems. The package does not require the installation of 'LaTeX' or 'MS Word' to be able to write '.tex' or '.docx' files. Package: r-cran-micropop Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3499 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-desolve, r-cran-visnetwork, r-cran-testthat Suggests: r-cran-rmarkdown, r-cran-r.rsp, r-cran-knitr, r-cran-webshot Filename: pool/dists/focal/main/r-cran-micropop_1.6-1.ca2004.1_all.deb Size: 831040 MD5sum: 0f40267663ff85b5f052d0de20c2ed45 SHA1: 3d3e6838364f95c7a82b1429b86fe156b365cf52 SHA256: 2b55a21e328ea089c2e46520dac2988cfcfe033f531216e171153cad15c3502d SHA512: ea2252c86fba5fab6c8034d096149d11e5253177d1f7cb580b2ee472accd5f8bf26361a75d4f60ebc9dff414243f60ad44399b048a38ff68bb20a355985a0cab Homepage: https://cran.r-project.org/package=microPop Description: CRAN Package 'microPop' (Process-Based Modelling of Microbial Populations) Modelling interacting microbial populations - example applications include human gut microbiota, rumen microbiota and phytoplankton. Solves a system of ordinary differential equations to simulate microbial growth and resource uptake over time. This version contains network visualisation functions. 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We found that the majority of these errors are detected in chimeric read caused by single-strand DNA with micro-homology. Our filtering pipeline focuses on the uneven distribution of the artifacts in each read and removes such errors in formalin-fixed and paraffin-embedded samples without over-eliminating the true mutations detected in fresh frozen samples. 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Enables access from R to data stored in 'Teams', 'SharePoint Online' and 'OneDrive', including the ability to list drive folder contents, upload and download files, send messages, and retrieve data lists. Also provides a full-featured 'Outlook' email client, with the ability to send emails and manage emails and mail folders. Package: r-cran-microstasis Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 198 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crayon, r-cran-fmsb, r-cran-future, r-cran-future.apply, r-cran-ggplot2, r-cran-ggside, r-cran-progressr, r-cran-reshape2, r-cran-stringr Filename: pool/dists/focal/main/r-cran-microstasis_0.1.0-1.ca2004.1_all.deb Size: 167544 MD5sum: 52e29009e83f39457e505fb16599b4f2 SHA1: d7d16fc1f45aefdca63d2f38d12f9ca427df6b77 SHA256: 45dc8dda09f5b7f07d2158dfb6b1d5a06f792c91f69dd1ac4b51cf09c12e5478 SHA512: 7af87a0802707406cbfc849e781f7ff7938f7fef967b133dd259ce62df3a07bae9aa5f0f6dc436d9045ac50b55cd1cb00d2f06806e4febcce98d2ed7e12bf944 Homepage: https://cran.r-project.org/package=microSTASIS Description: CRAN Package 'microSTASIS' (Microbiota STability ASsessment via Iterative cluStering) The toolkit 'µSTASIS' has been developed for the stability analysis of microbiota in a temporal framework by leveraging on iterative clustering. Concretely, the core function uses Hartigan-Wong k-means algorithm as many times as possible for stressing out paired samples from the same individuals to test if they remain together for multiple numbers of clusters over a whole data set of individuals. Moreover, the package includes multiple functions to subset samples from paired times, validate the results or visualize the output. Package: r-cran-microsynth Architecture: all Version: 2.0.51-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3207 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survey, r-cran-kernlab, r-cran-lowrankqp, r-cran-pracma Suggests: r-cran-mass, r-cran-xlsx, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-microsynth_2.0.51-1.ca2004.1_all.deb Size: 2281416 MD5sum: 42fff313e9f1532e2bc423111cc9b38e SHA1: d9e7adbe53f0972b66d4b7ad9729f494a1c58324 SHA256: 7780d88ea6ee0e53b2ad6dc330d99f01595c7eb11698589f5c9375d49d63d396 SHA512: 0236914cc5ee0789d2aaf450b3266f4d8fbba3eccad9bc4247eeab78a5b5870a952dd484244b99bc5ef129c081ac4aa4a6f4a8d4cae3abcbe6ef369f7d14e5dc Homepage: https://cran.r-project.org/package=microsynth Description: CRAN Package 'microsynth' (Synthetic Control Methods with Micro- And Meso-Level Data) A generalization of the 'Synth' package that is designed for data at a more granular level (e.g., micro-level). Provides functions to construct weights (including propensity score-type weights) and run analyses for synthetic control methods with micro- and meso-level data; see Robbins, Saunders, and Kilmer (2017) and Robbins and Davenport (2021) . Package: r-cran-micsim Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 727 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-snowfall, r-cran-rlecuyer Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-glue Filename: pool/dists/focal/main/r-cran-micsim_2.0.1-1.ca2004.1_all.deb Size: 467592 MD5sum: 125c7b5c3ad7117d2197c1f13d7ab256 SHA1: a1e23ce11127a354dec57b92802235407a6d8b5e SHA256: 97a90378dc23eb4e2d302aeff6578178466c4daa62c8e617a1aadfdd6f73e7eb SHA512: 8322a25d9417de8b527b519b9ef6ffba905209e13a1f605411ef62a651649b703206bed6d60303fe46023401ff4343dda2855e6d55fa147f6ca45fc69c29ae5b Homepage: https://cran.r-project.org/package=MicSim Description: CRAN Package 'MicSim' (Performing Continuous-Time Microsimulation) This toolkit allows performing continuous-time microsimulation for a wide range of life science (demography, social sciences, epidemiology) applications. Individual life-courses are specified by a continuous-time multi-state model as described in Zinn (2014) . Package: r-cran-micss Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-micss_0.2.0-1.ca2004.1_all.deb Size: 165852 MD5sum: 02406fd5d3f8d6860a1ea81c948f79e1 SHA1: e87433e31f957362081a0a339597783ac52400d4 SHA256: 8fe2a5634075d1f5b78cfe16660ae7ab55e2253ab06f05a260db98af0fe9be86 SHA512: ef0bf6a455d39d18e249285f2cbc2d8931cd3b32ac39ca369981a5977349af233e6df0252fa2f2b04ebbaeb8580a5a283186d9dd357fd470f23d5572b98e07e0 Homepage: https://cran.r-project.org/package=micss Description: CRAN Package 'micss' (Modified Iterative Cumulative Sum of Squares Algorithm) Companion package of Carrion-i-Silvestre & Sansó (2023): "Generalized Extreme Value Approximation to the CUMSUMQ Test for Constant Unconditional Variance in Heavy-Tailed Time Series". It implements the Modified Iterative Cumulative Sum of Squares Algorithm, which is an extension of the Iterative Cumulative Sum of Squares (ICSS) Algorithm of Inclan and Tiao (1994), and it checks for changes in the unconditional variance of a time series controlling for the tail index of the underlying distribution. The fourth order moment is estimated non-parametrically to avoid the size problems when the innovations are non-Gaussian (see, Sansó et al., 2004). Critical values and p-values are generated using a Generalized Extreme Value distribution approach. References Carrion-i-Silvestre J.J & Sansó A (2023) . Inclan C & Tiao G.C (1994) , Sansó A & Aragó V & Carrion-i-Silvestre J.L (2004) . Package: r-cran-mida Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-gbm, r-bioc-genefilter, r-bioc-limma, r-bioc-preprocesscore, r-cran-proc, r-cran-sqn Filename: pool/dists/focal/main/r-cran-mida_0.1.2-1.ca2004.1_all.deb Size: 152272 MD5sum: a8bcc9cdf7de696980db566a4fda8319 SHA1: 31911fe06ca880a9df617c5cbdfab8397d95abf3 SHA256: 59e0b1db460dc16fc5d42f84d03c4c61d4adc03590ff4e495ee78ba6b5b6dd08 SHA512: 39417fddc73d5d660095ab81694035d5011054f6cbe7b88a46efb38df2bb2ccacb57a02491799d52ae8b18af563384310e831f8eb924eac42a2a7875455ee63b Homepage: https://cran.r-project.org/package=MiDA Description: CRAN Package 'MiDA' (Microarray Data Analysis) Set of functions designed to simplify transcriptome analysis and identification of marker molecules using microarrays data. The package includes a set of functions that allows performing full pipeline of analysis including data normalization, summarisation, binary classification, FDR (False Discovery Rate) multiple comparison and the definition of potential biological markers. Package: r-cran-midas2 Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mcmcpack, r-cran-coda, r-cran-r2jags Filename: pool/dists/focal/main/r-cran-midas2_1.1.0-1.ca2004.1_all.deb Size: 47636 MD5sum: 0a375b57e34e30cc95b654007bde9fe2 SHA1: de7d2a2959698ecff383d4b06611aac3b35ec0b5 SHA256: 4409eebd6b5735f04f43255067f8ca12976787944fe043d75d01bd169232826a SHA512: 413abd55ae60c444ba3e6315262cdd3ffd60de38a735e424def524d931870cff6dd6a5bf1cda5b74261b5dea5f69ed6119bbd7f6977a2da5c98810ad25d0a546 Homepage: https://cran.r-project.org/package=midas2 Description: CRAN Package 'midas2' (Bayesian Platform Design with Subgroup EfficacyExploration(MIDAS-2)) The rapid screening of effective and optimal therapies from large numbers of candidate combinations, as well as exploring subgroup efficacy, remains challenging, which necessitates innovative, integrated, and efficient trial designs(Yuan, Y., et al. (2016) ). MIDAS-2 package enables quick and continuous screening of promising combination strategies and exploration of their subgroup effects within a unified platform design framework. We used a regression model to characterize the efficacy pattern in subgroups. Information borrowing was applied through Bayesian hierarchical model to improve trial efficiency considering the limited sample size in subgroups(Cunanan, K. M., et al. (2019) ). MIDAS-2 provides an adaptive drug screening and subgroup exploring framework to accelerate immunotherapy development in an efficient, accurate, and integrated fashion(Wathen, J. K., & Thall, P. F. (2017) ). Package: r-cran-midas Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-midas_1.0.1-1.ca2004.1_all.deb Size: 13936 MD5sum: 3bef58cfb94237f3f7e6c6332c2647d7 SHA1: a7dbbd30d3c3247ad6a5ad8ebe57092f3ee6df91 SHA256: 5e736ea0b2649b30d7336d25c75bd868c3aef96770160c74625723c71d2152a5 SHA512: dd3aad6feba2f62e145a6d4eddea49549fc34bb9bd6fa2cc1a9912a85fcba42e10a81ad0c9e1ea8d8dfe8d66d28aaee1ff7beb941a3d58ed71b6c2d6be8ed29b Homepage: https://cran.r-project.org/package=midas Description: CRAN Package 'midas' (Turn HTML 'Shiny') Contains functions for converting existing HTML/JavaScript source into equivalent 'shiny' functions. Bootstraps the process of making new 'shiny' functions by allowing us to turn HTML snippets directly into R functions. 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Allows estimation, model selection and forecasting for MIDAS regressions. Package: r-cran-midastouch Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mice Filename: pool/dists/focal/main/r-cran-midastouch_1.3-1.ca2004.1_all.deb Size: 22016 MD5sum: 92b88b13bc512a53adcb79d8b1aadb16 SHA1: 9827e18463b6991d52caa72b8ca14338f2540dd7 SHA256: 434834b5afeb4431cc375736b78cc3e3208a93f8bf37a4564a02fb26121e23ee SHA512: d472980ca4ce80488eff8aa4a6487cf3428df5602f33d74663247b1d1f1471236f6d2657866bdd027921b1a8777ade68e7e8b6af56bab0783128abb4fb08d6c4 Homepage: https://cran.r-project.org/package=midastouch Description: CRAN Package 'midastouch' (Multiple Imputation by Distance Aided Donor Selection) Contains the function mice.impute.midastouch(). Technically this function is to be run from within the 'mice' package (van Buuren et al. 2011), type ??mice. It substitutes the method 'pmm' within mice by 'midastouch'. The authors have shown that 'midastouch' is superior to default 'pmm'. Many ideas are based on Siddique / Belin 2008's MIDAS. Package: r-cran-midfieldr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3406 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-wrapr Suggests: r-cran-ggplot2, r-cran-here, r-cran-kableextra, r-cran-knitr, r-cran-mice, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-midfieldr_1.0.2-1.ca2004.1_all.deb Size: 2359128 MD5sum: 4845d429abc153aaa50abe33df78868e SHA1: d8236f5e1e0906dbda9cd9fe92d4d287695a4b2c SHA256: dd307bc95629d1fde56f9ebd0cfaae9babfe2a1c5b615296bd4c08aaec4147f7 SHA512: 51d34acbfd9759aab80d99a79d2d6916d0cb042463359149ace37df4fc19796eeaf27fe6459aa5a956c46251e39ea26678a83c23d3dd5a966972648eb28b6456 Homepage: https://cran.r-project.org/package=midfieldr Description: CRAN Package 'midfieldr' (Tools and Methods for Working with MIDFIELD Data in 'R') Provides tools and demonstrates methods for working with individual undergraduate student-level records (registrar's data) in 'R'. Tools include filters for program codes, data sufficiency, and timely completion. Methods include gathering blocs of records, computing quantitative metrics such as graduation rate, and creating charts to visualize comparisons. 'midfieldr' interacts with practice data provided in 'midfielddata', an R data package available at . 'midfieldr' also interacts with the full MIDFIELD database for users who have access. This work is supported by the US National Science Foundation through grant numbers 1545667 and 2142087. Package: r-cran-midi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3908 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-ggplot2, r-cran-plotly, r-cran-purrr, r-cran-r6, r-cran-rlang, r-cran-withr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-midi_0.1.0-1.ca2004.1_all.deb Size: 3920336 MD5sum: 257b2d73ad54df1d13e357cca243e0e8 SHA1: 617da8b76ed84dfb86fa0226b01578a97aa8604f SHA256: 5e194e15d102f3695e75d998f4826c4d5344c08d69360287a9740ee43ad23bd0 SHA512: 162162e58b8449136f97db94178e9c8d100bb0fcedcb8131d3d3571e4087a833d86a864c2c4663852ca3337dee3afe9d2f5f9dac77089ecc6b2547f372946c06 Homepage: https://cran.r-project.org/package=midi Description: CRAN Package 'midi' (Microstructure Information from Diffusion Imaging) An implementation of a taxonomy of models of restricted diffusion in biological tissues parametrized by the tissue geometry (axis, diameter, density, etc.). This is primarily used in the context of diffusion magnetic resonance (MR) imaging to model the MR signal attenuation in the presence of diffusion gradients. The goal is to provide tools to simulate the MR signal attenuation predicted by these models under different experimental conditions. The package feeds a companion 'shiny' app available at that serves as a graphical interface to the models and tools provided by the package. Models currently available are the ones in Neuman (1974) , Van Gelderen et al. (1994) , Stanisz et al. (1997) , Soderman & Jonsson (1995) and Callaghan (1995) . Package: r-cran-midn Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biasedurn Filename: pool/dists/focal/main/r-cran-midn_1.0-1.ca2004.1_all.deb Size: 35500 MD5sum: 60d3c91b1fc1e37b0eca35d68d839f47 SHA1: 8c01d109ee4a285b2823b65868a5b9bed702fe2b SHA256: 0cfa1abc60c9ede6673d4778f031b2a287bead1329ff53c5b71d7f1445490d71 SHA512: 4f4b189d0e89362b90af10fe8bd90214ce794f97ab898535269da2924cd4b9d9cc9a40a8b15e4aca56027a0add3fe9b3530b9c310845c2dee67e2e0a50325208 Homepage: https://cran.r-project.org/package=MIDN Description: CRAN Package 'MIDN' (Nearly Exact Sample Size Calculation for Exact PowerfulNonrandomized Tests for Differences Between BinomialProportions) Implementation of the mid-n algorithms presented in Wellek S (2015) Statistica Neerlandica 69, 358-373 for exact sample size calculation for superiority trials with binary outcome. Package: r-cran-midoc Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1081 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arm, r-cran-blorr, r-cran-dagitty, r-cran-glue, r-cran-lifecycle, r-cran-mfp2, r-cran-mice, r-cran-rlang, r-cran-rmarkdown Suggests: r-cran-knitr, r-cran-shiny, r-cran-testthat Filename: pool/dists/focal/main/r-cran-midoc_1.0.0-1.ca2004.1_all.deb Size: 422360 MD5sum: a0f0ffbf956b143881f0927456bb07b7 SHA1: 874e39921207c6c14ab94935428c434b3509e39a SHA256: 560f898d3637fd958ee60c24a83ebd81a0f87a8a8098e24a8584601ee0a588d2 SHA512: 12e340114b82edff9a9debac62cf4955e8f71ac8dc95053845c372e2918a32b3ec33389053e943fc08804dc7ae6e17dd576fa1fd1ff6fa4d50000465efe33844 Homepage: https://cran.r-project.org/package=midoc Description: CRAN Package 'midoc' (A Decision-Making System for Multiple Imputation) A guidance system for analysis with missing data. 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Package: r-cran-midr Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 597 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rcppeigen, r-cran-rlang Suggests: r-cran-ggplot2, r-cran-khroma, r-cran-knitr, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-scales, r-cran-shapviz, r-cran-testthat, r-cran-viridislite Filename: pool/dists/focal/main/r-cran-midr_0.5.0-1.ca2004.1_all.deb Size: 552644 MD5sum: 7faf24516d6f2c27a2985423586b7e4f SHA1: 5ed7ae891343d2b8b0a82c5cb2128e561926cb9c SHA256: 4c169172e76a555d1a8b0c504dde248e808a73bf4b0266fe80d6c5b06248dd81 SHA512: 8d7d29962450c6f28ac5ed14a56e160c56569208244b626755b59d506b5026f9152da4ebda4b57db02e271055a1f14a8273c1d02dd9e94e0385d9ba901699ec1 Homepage: https://cran.r-project.org/package=midr Description: CRAN Package 'midr' (Learning from Black-Box Models by Maximum InterpretationDecomposition) The goal of 'midr' is to provide a model-agnostic method for interpreting and explaining black-box predictive models by creating a globally interpretable surrogate model. The package implements 'Maximum Interpretation Decomposition' (MID), a functional decomposition technique that finds an optimal additive approximation of the original model. This approximation is achieved by minimizing the squared error between the predictions of the black-box model and the surrogate model. The theoretical foundations of MID are described in Iwasawa & Matsumori (2025) [Forthcoming], and the package itself is detailed in Asashiba et al. (2025) . Package: r-cran-midrangemcp Architecture: all Version: 3.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 242 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-smr, r-cran-writexl, r-cran-xtable Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-midrangemcp_3.1.3-1.ca2004.1_all.deb Size: 159812 MD5sum: 81bf7d75863d880bd620c8775b725a78 SHA1: 0c6d4854966b73e9014f7b54dcc580292b568cc2 SHA256: 86afa3243e549822b921bc8a543a08d2599522fd5a3342330e1ebba339468f71 SHA512: 22c8c2763a215a708587894dc04919134c79f1c973fc24fdd9e374c263cdaf556e683cbfcf3397882d3fa6b46f79a4be1adda6d18cffe8fda525c5404b7d602d Homepage: https://cran.r-project.org/package=midrangeMCP Description: CRAN Package 'midrangeMCP' (Multiple Comparisons Procedures Based on Studentized Midrangeand Range Distributions) Apply tests of multiple comparisons based on studentized 'midrange' and 'range' distributions. The tests are: Tukey Midrange ('TM' test), Student-Newman-Keuls Midrange ('SNKM' test), Means Grouping Midrange ('MGM' test) and Means Grouping Range ('MGR' test). The first two tests were published by Batista and Ferreira (2020) . The last two were published by Batista and Ferreira (2023) . Package: r-cran-miebl Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-miebl_0.1.0-1.ca2004.1_all.deb Size: 20952 MD5sum: cad06b25477ee0d2b6cfde9f98af066d SHA1: a4ae6b6cedaad41775233a4ac7062faf33f50d07 SHA256: a2c8c0f3ca3f7b9a11b5ea79207192cea1d125484d5b01c05f39cda09e6c5812 SHA512: eb9f2c77372c6ed2fa5c7fe814ee4e88bc79543440a373138282afda7da3435d7b8f406761617642ff193d0df5431457637204fca32478105e1fb82a7cb77e06 Homepage: https://cran.r-project.org/package=miebl Description: CRAN Package 'miebl' (Performance Criteria Modeler for Discrete Trial Training) Provides a tool for computing probabilities and other quantities that are relevant in selecting performance criteria for discrete trial training. The main function, miebl(), computes Bayesian and frequentist probabilities and bounds for each of n possible performance criterion choices when attempting to determine a student's true mastery level by counting their number of successful attempts at displaying learning among n trials. The reporting function miebl_re() takes output from miebl() and prepares it into a brief report for a specific criterion. miebl_cp() combines 2 to 5 distributions of true mastery level given performance criterion in one plot for comparison. Ramos (2025) . Package: r-cran-miesmuschel Architecture: all Version: 0.0.4-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2424 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-paradox, r-cran-mlr3misc, r-cran-checkmate, r-cran-r6, r-cran-bbotk, r-cran-data.table, r-cran-matrixstats, r-cran-lgr Suggests: r-cran-tinytest, r-cran-mlr3tuning, r-cran-mlr3, r-cran-mlr3learners, r-cran-ranger, r-cran-xgboost, r-cran-rpart Filename: pool/dists/focal/main/r-cran-miesmuschel_0.0.4-3-1.ca2004.1_all.deb Size: 1419676 MD5sum: f68b861d6e0be6f67d7f0919065da106 SHA1: 21bacc13cba946547dd8b9ff9baf56d87854fd58 SHA256: adaa38eddb09741d0778b73313faa1c898ce8eb4238dcaf5929e8c397ce3f3ab SHA512: f6bd5f89295a904967dc5861f0d5fb9fd4ceda55031c1f8446489252fa6a187333cdae1a9679fb81cfd46d87696340593ba55885c09c2492cc1cc00f9a818741 Homepage: https://cran.r-project.org/package=miesmuschel Description: CRAN Package 'miesmuschel' (Mixed Integer Evolution Strategies) Evolutionary black box optimization algorithms building on the 'bbotk' package. 'miesmuschel' offers both ready-to-use optimization algorithms, as well as their fundamental building blocks that can be used to manually construct specialized optimization loops. The Mixed Integer Evolution Strategies as described by Li et al. (2013) can be implemented, as well as the multi-objective optimization algorithms NSGA-II by Deb, Pratap, Agarwal, and Meyarivan (2002) . Package: r-cran-mifa Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 409 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mice, r-cran-dplyr, r-cran-checkmate Suggests: r-cran-psych, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tidyr, r-cran-covr Filename: pool/dists/focal/main/r-cran-mifa_0.2.1-1.ca2004.1_all.deb Size: 169456 MD5sum: a3322f4f0b5690bd55269687598ad52c SHA1: e65ab593a0ca42bb42d060556a858d2b20c8206f SHA256: 34c6aa8d02a7da166331319d4b4a051498d2c186cba92c10d8cf222edbdb2b68 SHA512: 5d041eab6e910974bcc83dec9c28ed88a609388d9ced0a576c54bd81e45a43bdf218689c933376232208230f76076782955e80910bc6c1b73c46b92431198f6e Homepage: https://cran.r-project.org/package=mifa Description: CRAN Package 'mifa' (Multiple Imputation for Exploratory Factor Analysis) Impute the covariance matrix of incomplete data so that factor analysis can be performed. 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Package: r-cran-migconnectivity Architecture: all Version: 0.4.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3567 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-coda, r-cran-geodist, r-cran-gplots, r-cran-mass, r-cran-ncf, r-cran-r2jags, r-cran-rmark, r-cran-sf, r-cran-shape, r-cran-terra, r-cran-vgam Suggests: r-cran-knitr, r-cran-maps, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-migconnectivity_0.4.7-1.ca2004.1_all.deb Size: 2863500 MD5sum: cff7dc2e8f000ad7acb805f2d25cb5e8 SHA1: e42e67cfb73cc42c7004e2076dabf27da03fd65d SHA256: ff9c59f5a3fdd2a4acf0c818536ad16bedeb5e71e7ccad8089638aa7c8e4ec8c SHA512: fad1ea8ab0da7ed32857e3aa22e6b5f53d1f005f509e9761aa082a8316f51fe8c8e0b873eee06f1136e032d53f4f801f4e23dbc9925f13f73e28a52e243cde81 Homepage: https://cran.r-project.org/package=MigConnectivity Description: CRAN Package 'MigConnectivity' (Estimate Migratory Connectivity for Migratory Animals) Allows the user to estimate transition probabilities for migratory animals between any two phases of the annual cycle, using a variety of different data types. Also quantifies the strength of migratory connectivity (MC), a standardized metric to quantify the extent to which populations co-occur between two phases of the annual cycle. Includes functions to estimate MC and the more traditional metric of migratory connectivity strength (Mantel correlation) incorporating uncertainty from multiple sources of sampling error. For cross-species comparisons, methods are provided to estimate differences in migratory connectivity strength, incorporating uncertainty. See Cohen et al. (2018) , Cohen et al. (2019) , and Roberts et al. (2023) for details on some of these methods. Package: r-cran-migee Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 210 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mice, r-cran-vim, r-cran-ggplot2, r-cran-lme4, r-cran-ggeffects, r-cran-dplyr, r-cran-readr, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-migee_0.1.0-1.ca2004.1_all.deb Size: 179220 MD5sum: 86616b85512ce522706c46c66bc0438f SHA1: ceea359f36366b1b3110647287a5d2ec9e610c9e SHA256: 3573974b0ff8b7d1ae5d406bdeb1b67e3f6c4220225f23613a9b32c45f631ede SHA512: 959bcb48680cc75052ebe4dda5431f8d15f0b5fc971e54c059d498949b3a311d3688b271bafd0687026bbea907ffed6b4b100a440f8b54c27dafec74085691f4 Homepage: https://cran.r-project.org/package=MIGEE Description: CRAN Package 'MIGEE' (Impute Missing Values and Fitting Linear Mixed Effect Model) Implements methods for estimating generalized estimating equations (GEE) with advanced options for flexible modeling and handling missing data. This package provides tools to fit and analyze GEE models for longitudinal data, allowing users to address missingness using a variety of imputation techniques. It supports both univariate and multivariate modeling, visualization of missing data patterns, and facilitates the transformation of data for efficient statistical analysis. Designed for researchers working with complex datasets, it ensures robust estimation and inference in longitudinal and clustered data settings. 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Package: r-cran-migraph Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3521 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-manynet, r-cran-dplyr, r-cran-future, r-cran-furrr, r-cran-generics, r-cran-purrr Suggests: r-cran-covr, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-migraph_1.5.0-1.ca2004.1_all.deb Size: 2470920 MD5sum: f32d1c8d639b3cfbf4a348d723836309 SHA1: 6c578a144628b7694b6a139e59f47182afe3a9da SHA256: cb4c95d8ceb0907ca858051d83c6222394d51a7f0e9344697816bfd51d9a180f SHA512: 9e02f90347a0ef515ef6bc41c64de1791c4ddfe8a862b1ce777f4c699f5e1a82abb10f9586516c6d1eab63a0f3d85847b1f7fb934da74e26d3119b5868ff72a4 Homepage: https://cran.r-project.org/package=migraph Description: CRAN Package 'migraph' (Inferential Methods for Multimodal and Other Networks) A set of tools for testing networks. It includes functions for univariate and multivariate conditional uniform graph and quadratic assignment procedure testing, and network regression. The package is a complement to 'Multimodal Political Networks' (2021, ISBN:9781108985000), and includes various datasets used in the book. Built on the 'manynet' package, all functions operate with matrices, edge lists, and 'igraph', 'network', and 'tidygraph' objects, and on one-mode and two-mode (bipartite) networks. Package: r-cran-migrate Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 272 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-tibble, r-cran-rlang, r-cran-cli, r-cran-glue Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-migrate_0.5.0-1.ca2004.1_all.deb Size: 171136 MD5sum: f06250b40e4ba4bcbd7223a27dccf0f2 SHA1: 60b6c073f0ff2d07d5e4b34b9bbdc5232133071a SHA256: 896761f5914b9c93b578b3259bfb57510f779ce2cface2082cfa10df08e99ede SHA512: 6bde3a60afffc80c3f2f946891fa5a572ac78f340e4afbd760d35476cab1262edf88facc70de550428b8bde211dad6b5b1a999b158a5080b5412b8b2a91b24b3 Homepage: https://cran.r-project.org/package=migrate Description: CRAN Package 'migrate' (Create Credit State Migration (Transition) Matrices) Tools to help convert credit risk data at two timepoints into traditional credit state migration (aka, "transition") matrices. At a higher level, 'migrate' is intended to help an analyst understand how risk moved in their credit portfolio over a time interval. References to this methodology include: 1. Schuermann, T. (2008) . 2. Perederiy, V. (2017) . 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Package: r-cran-migrationdetectr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-assertthat, r-cran-dplyr, r-cran-lifecycle, r-cran-lubridate, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-migrationdetectr_0.1.1-1.ca2004.1_all.deb Size: 80344 MD5sum: 06373a0aa7320138bb21a7834a460100 SHA1: 4527324b0186a1d0ea69b34ac025a8a21115a46c SHA256: 75dbd544a2dbe14351f4b11f3d84ceb7d45d20380149e784305e5f8336c9d375 SHA512: becc3687af85408dddbbd5a4ee03ce47855ba242786232881ff5c62203bedf11869a52f22924f671578297ad0238f7bf2e4fa060eba81565d51593bffeae66d3 Homepage: https://cran.r-project.org/package=MigrationDetectR Description: CRAN Package 'MigrationDetectR' (Segment-Based Migration Detection Algorithm) Detection of migration events and segments of continuous residence based on irregular time series of location data as published in Chi et al. (2020) . Package: r-cran-migui Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gwidgets2, r-cran-mi, r-cran-arm Suggests: r-cran-foreign, r-cran-gwidgets2tcltk Filename: pool/dists/focal/main/r-cran-migui_1.3-1.ca2004.1_all.deb Size: 76224 MD5sum: df42bcf7cdc9fa04333317a4e8bac5b7 SHA1: a2c498546d1af52ad233cddc61a9b7571160a9e4 SHA256: 6d7add59fdc0cb8ad1b3132ce62a782dcc65dd7ca9b6a17774baafa047e7ff10 SHA512: b4b5b060fa31fbdbd874a882f7190c754b2a6b18c7753fb4516f8ef7b8e4593f59bfcf634f3f9270c4a2cfd77088fc1a1c5608740279cf4779f19430b415d8d6 Homepage: https://cran.r-project.org/package=migui Description: CRAN Package 'migui' (Graphical User Interface to the 'mi' Package) This GUI for the mi package walks the user through the steps of multiple imputation and the analysis of completed data. Package: r-cran-miicd Architecture: all Version: 2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-mass, r-cran-mstate Filename: pool/dists/focal/main/r-cran-miicd_2.4-1.ca2004.1_all.deb Size: 129536 MD5sum: 21ee811c1b4291145515624cb4bd7ef3 SHA1: 913d91be629730c68bd4fcbe92dae8ed0b1731d8 SHA256: 9955b8a8c4cb60dbb7280833e11380071a98651816b9514953f56fde1a4c91ba SHA512: 9405ec4a0d79533fb59a967846034dd210ee59b8b0313211e689a9baef4a61d859d73a36a17afb23c1e79ca3826195d05c4adb6f4bae0f184c291ef101af7638 Homepage: https://cran.r-project.org/package=MIICD Description: CRAN Package 'MIICD' (Multiple Imputation for Interval Censored Data) Implements multiple imputation for proportional hazards regression with interval censored data or proportional sub-distribution hazards regression for interval censored competing risks data. The main functions allow to estimate survival function, cumulative incidence function, Cox and Fine & Gray regression coefficients and associated variance-covariance matrix. 'MIICD' functions call 'Surv', 'survfit' and 'coxph' from the 'survival' package, 'crprep' from the 'mstate' package, and 'mvrnorm' from the 'MASS' package. Package: r-cran-miipw Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 328 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-spatstat, r-cran-mice, r-cran-matrix, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-miipw_0.1.2-1.ca2004.1_all.deb Size: 257280 MD5sum: da59fc98d0f3c0ed1ebed551dc9d6623 SHA1: 61bb3a9185d59c0328d73be239d8ea13b0c978f8 SHA256: a9f164fc32ecdea1765d0652d0122db038d02127e564a049d2cdb886a36be99d SHA512: 244c5d66b6425352af5fb629562eb01b3c2606fc6cebb758c1f95f8756e46c1a19573af39965f2805e161b19c8a2efa277fabe0026d0474eef2cc1ffb8193919 Homepage: https://cran.r-project.org/package=MIIPW Description: CRAN Package 'MIIPW' (IPW and Mean Score Methods for Time-Course Missing Data) Contains functions for data analysis of Repeated measurement using GEE. Data may contain missing value in response and covariates. For parameter estimation through Fisher Scoring algorithm, Mean Score and Inverse Probability Weighted method combining with Multiple Imputation are used when there is missing value in covariates/response. Reference for mean score method, inverse probability weighted method is Wang et al(2007). Package: r-cran-miivefa Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-miivsem Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-mnormt, r-cran-lavaan, r-cran-mpsychor Filename: pool/dists/focal/main/r-cran-miivefa_0.1.2-1.ca2004.1_all.deb Size: 56036 MD5sum: 131f8a957fa87be64dfb4e4fdbe8ace6 SHA1: df893bf11930e98d4e7005ad86f0d40b19902c41 SHA256: 86d9f47b4bdf3f59dd7190b314eea8520eef8aa3fc1a3100df80f14c16c67e31 SHA512: 113cc72c134bee5081ba3aa6b0162f8052f43665a65e905ac9ad32d21e8714e20e017f56aadb9acb1e17fb707c10654203d0e98afb1aa222eca6e3a67caa0ad4 Homepage: https://cran.r-project.org/package=MIIVefa Description: CRAN Package 'MIIVefa' (Exploratory Factor Analysis Using Model Implied InstrumentalVariables) Data-driven approach for Exploratory Factor Analysis (EFA) that uses Model Implied Instrumental Variables (MIIVs). The method starts with a one factor model and arrives at a suggested model with enhanced interpretability that allows cross-loadings and correlated errors. Package: r-cran-miivsem Architecture: all Version: 0.5.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 309 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lavaan, r-cran-numderiv, r-cran-matrix, r-cran-car, r-cran-boot Filename: pool/dists/focal/main/r-cran-miivsem_0.5.8-1.ca2004.1_all.deb Size: 280084 MD5sum: 9839305a3754a7042bac446eedee0169 SHA1: e754f510a4eb294cbc963a10ac0fb69f22c9839e SHA256: ab4eb2a80e4f0ecda3d65a4b39f642262f9bd4059a4fb348b31c1fcdde6ca508 SHA512: 4384e4b490ac2f073bf68f5a3a7df910f38e9e1f46e73e95cecf2bca100ea07632f6697855ab59464f0b53dc331b69c75c6a39dd5db2fcf86bbb5a33202a3859 Homepage: https://cran.r-project.org/package=MIIVsem Description: CRAN Package 'MIIVsem' (Model Implied Instrumental Variable (MIIV) Estimation ofStructural Equation Models) Functions for estimating structural equation models using instrumental variables. Package: r-cran-mikropml Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2526 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-dplyr, r-cran-e1071, r-cran-glmnet, r-cran-kernlab, r-cran-mlmetrics, r-cran-randomforest, r-cran-rlang, r-cran-rpart, r-cran-xgboost Suggests: r-cran-assertthat, r-cran-dofuture, r-cran-forcats, r-cran-foreach, r-cran-future, r-cran-future.apply, r-cran-furrr, r-cran-ggplot2, r-cran-knitr, r-cran-progress, r-cran-progressr, r-cran-purrr, r-cran-rmarkdown, r-cran-rsample, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-mikropml_1.6.1-1.ca2004.1_all.deb Size: 2256472 MD5sum: 399a0fcba11edf897fff7f41156824ae SHA1: 2fa3916e56232372ebc0214ddd4abf2ca9a93b0b SHA256: 96ba9c728ecf4d17180bb98933695957dddc939f4cef3d498792019b8d0f4753 SHA512: 52eddd97fd098f6c99295e1f6ae2bab1475ab7cd89684a25e18f21ab7c36ab8b8603db2b6b67f6afdfc0197cae39cf0d0eb4af907b197ae7250a9e3b6a0d52f0 Homepage: https://cran.r-project.org/package=mikropml Description: CRAN Package 'mikropml' (User-Friendly R Package for Supervised Machine LearningPipelines) An interface to build machine learning models for classification and regression problems. 'mikropml' implements the ML pipeline described by Topçuoğlu et al. (2020) with reasonable default options for data preprocessing, hyperparameter tuning, cross-validation, testing, model evaluation, and interpretation steps. See the website for more information, documentation, and examples. Package: r-cran-milag Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 585 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-testthat, r-cran-minpack.lm, r-cran-nlsmicrobio Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-milag_1.0.5-1.ca2004.1_all.deb Size: 444244 MD5sum: 95ce22116c33d0f1675e3f14504f6a59 SHA1: c965ae437852dd8adf20a4187426d6841e8e55cb SHA256: 263f6e6b73dcac8f490ab711d8fb29cc3dbddd0bb70ab27fac6b8ea5582debba SHA512: 060c33f7ff87758a28f354571fa40eda1d8dc0f637087120629a57526de19f3fbd3609ca44607528c6eae725c5e3ce11cf0725dbbc9aaad5dcae7454b093a2ba Homepage: https://cran.r-project.org/package=miLAG Description: CRAN Package 'miLAG' (Calculates Microbial Lag Duration (on the Population Level) fromProvided Growth Curve Data) Microbial growth is often measured by growth curves i.e. a table of population sizes and times of measurements. This package allows to use such growth curve data to determine the duration of "microbial lag phase" i.e. the time needed for microbes to restart divisions. It implements the most commonly used methods to calculate the lag duration, these methods are discussed and described in Opalek et.al. 2022. Citation: Smug, B. J., Opalek, M., Necki, M., & Wloch-Salamon, D. (2024). Microbial lag calculator: A shiny-based application and an R package for calculating the duration of microbial lag phase. Methods in Ecology and Evolution, 15, 301–307 . Package: r-cran-milc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-milc_1.0-1.ca2004.1_all.deb Size: 231860 MD5sum: 119987729ea37a2a8ebd28b0d32d5fe9 SHA1: 5148760d3a5cc24465896e6df5a17b562afb8eaa SHA256: bb8de1586c11232318de8ff6abb49c9ba28a97f6c0a5b8881a185948e0c87e18 SHA512: 86842d14451d7b85230798cef0ab8bfa561b2d88ba27ed717794acaa7f4f30bc560432cc1d216cb63f9d561f3696dbf82f9c056ba93ab3d3d01e79b460fa27e9 Homepage: https://cran.r-project.org/package=MILC Description: CRAN Package 'MILC' (MIcrosimulation Lung Cancer (MILC) model) The MILC package is designed to predict individual trajectories using the continuous time microsimulation model MILC, that describes the natural history of lung cancer. Package: r-cran-mildsvm Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 485 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-e1071, r-cran-kernlab, r-cran-magrittr, r-cran-mvtnorm, r-cran-pillar, r-cran-proc, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-matrix, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mildsvm_0.4.0-1.ca2004.1_all.deb Size: 446028 MD5sum: 187edacab261322d91484bd808d35f4b SHA1: ef0c9340e51c379eea6e4c00c83cf28903458723 SHA256: b025c5f752c1a5a22d4024f61196f7818202fdbdf72a9a0ae1ca20315d795305 SHA512: 000b8ca5f2ea275ef1055ed66d800a7cc0d34ee5a3ffb1add0b9a922ee63788c8ae632559142e739d6670d0d192f52b2af8cd2d4a1268f4851eb5ee38384868f Homepage: https://cran.r-project.org/package=mildsvm Description: CRAN Package 'mildsvm' (Multiple-Instance Learning with Support Vector Machines) Weakly supervised (WS), multiple instance (MI) data lives in numerous interesting applications such as drug discovery, object detection, and tumor prediction on whole slide images. The 'mildsvm' package provides an easy way to learn from this data by training Support Vector Machine (SVM)-based classifiers. It also contains helpful functions for building and printing multiple instance data frames. The core methods from 'mildsvm' come from the following references: Kent and Yu (2022) ; Xiao, Liu, and Hao (2018) ; Muandet et al. (2012) ; Chu and Keerthi (2007) ; and Andrews et al. (2003) . Many functions use the 'Gurobi' optimization back-end to improve the optimization problem speed; the 'gurobi' R package and associated software can be downloaded from after obtaining a license. Package: r-cran-milineage Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 314 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-data.table, r-cran-geepack Filename: pool/dists/focal/main/r-cran-milineage_2.1-1.ca2004.1_all.deb Size: 282460 MD5sum: 7edab9a0c72bc86e5b784e647ce598e3 SHA1: ddd904e05cfe0affc73e4fbfe018d5ab5d400f33 SHA256: 3d7244591711fed9268b09d16d527125aa7718d828edcd51110e911e99f1f44e SHA512: 02fa6c035830785bdb64ad77756978402582c571a3c67bfe0fa02a7dbf9c4a25b2d9d0683abfa276626b6db68ee23ecd642ca68ca2f7b9613f0d4f4342316b4e Homepage: https://cran.r-project.org/package=miLineage Description: CRAN Package 'miLineage' (Association Tests for Microbial Lineages on a Taxonomic Tree) A variety of association tests for microbiome data analysis including Quasi-Conditional Association Tests (QCAT) described in Tang Z.-Z. et al.(2017) and Zero-Inflated Generalized Dirichlet Multinomial (ZIGDM) tests described in Tang Z.-Z. & Chen G. (2017, submitted). Package: r-cran-mimdo Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mimdo_0.1.0-1.ca2004.1_all.deb Size: 16984 MD5sum: 1bcf8884afb5ab9040a4a0e3dfefaa92 SHA1: 89fdb016e50b06f7d325f262476f47cc485d32b7 SHA256: c1363e86d40e1c7cc3d19214cb46f1f58c3657b28a7c982f69d2c11f1cf5cb05 SHA512: 166cba36051349908bfcb99ccc3d00b1573ff731f8e7959a5a84f63025d1771eda107357feaae0ca4241d563dde1389360a5e2aebde2350c78ece9b59a68063d Homepage: https://cran.r-project.org/package=mimdo Description: CRAN Package 'mimdo' (Multivariate Imputation by Mahalanobis Distance Optimization) Imputes missing values of an incomplete data matrix by minimizing the Mahalanobis distance of each sample from the overall mean [Labita, GJ.D. and Tubo, B.F. (2024) ]. Package: r-cran-mimer Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4034 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-amr, r-cran-dplyr, r-cran-fuzzyjoin, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-testthat, r-cran-data.table, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-mimer_1.0.4-1.ca2004.1_all.deb Size: 362672 MD5sum: f31db585032c124e4fd71d473161fd85 SHA1: b2373bfc4456173238942351e533f53f52bfb0f9 SHA256: 8b4ff76d88d50506226a43b0094b015b0568f8fb712e57fba3ef3d6532e09b0c SHA512: 5dc502cc9c76b6bb7ca4aa00f1cc497dd1667416d558204ee478093bcb987965ff80829cf4b34b09c1022e4a7c1abde6b50ce3f27f8fa0121c011b97e6f0cc1e Homepage: https://cran.r-project.org/package=MIMER Description: CRAN Package 'MIMER' (Data Wrangling for Antimicrobial Resistance Studies) Designed for analyzing the Medical Information Mart for Intensive Care(MIMIC) dataset, a repository of freely accessible electronic health records. MIMER(MIMIC-enabled Research) package, offers a suite of data wrangling functions tailored specifically for preparing the dataset for research purposes, particularly in antimicrobial resistance(AMR) studies. It simplifies complex data manipulation tasks, allowing researchers to focus on their primary inquiries without being bogged down by wrangling complexities. Package: r-cran-mimi Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 378 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-softimpute, r-cran-factominer, r-cran-doparallel, r-cran-foreach, r-cran-data.table, r-cran-rarpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mimi_0.2.0-1.ca2004.1_all.deb Size: 350500 MD5sum: d24070b96635f16489f87a6d10555cf1 SHA1: 2fbffd568ed662133052b8bcb11df1f281b77c18 SHA256: 39b896eee3e4c077e42611de723a451c02cf27359af6ebddc0ddf541e83dd5b7 SHA512: 8e78d427134e750a4a5c34ed1a6d70ceff8eec7801a91fd751c630fad28a250f479cdb8d80d2df47cbe51fbc3a7fb248476a512b3a3de3f75b076dea8335984f Homepage: https://cran.r-project.org/package=mimi Description: CRAN Package 'mimi' (Main Effects and Interactions in Mixed and Incomplete Data) Generalized low-rank models for mixed and incomplete data frames. The main function may be used for dimensionality reduction of imputation of numeric, binary and count data (simultaneously). Main effects such as column means, group effects, or effects of row-column side information (e.g. user/item attributes in recommendation system) may also be modelled in addition to the low-rank model. Geneviève Robin, Olga Klopp, Julie Josse, Éric Moulines, Robert Tibshirani (2018) . Package: r-cran-mimir Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2660 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-caret, r-cran-dt, r-cran-foreach, r-cran-ggplot2, r-cran-heatmaply, r-cran-matrixstats, r-cran-plotly, r-cran-proc, r-cran-purrr, r-cran-shiny, r-cran-shinycssloaders, r-cran-shinyfiles, r-cran-shinydashboard, r-cran-shinyjs, r-cran-shinywidgets, r-cran-survival, r-cran-survminer, r-cran-dplyr, r-cran-fs Suggests: r-cran-testthat, r-cran-ggfortify, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mimir_1.5-1.ca2004.1_all.deb Size: 2418216 MD5sum: a36aae83228ce7cdb94d131545ebef69 SHA1: 2057d28032d823911c79d5d7147bb9a292bf36b5 SHA256: 098aa009dd922b6199e05692d2a03d353ef9a1e7a85fc23432fba8695e8030dc SHA512: ec696f8ef81b576c547ef60aaf8c90886aa580bfaf753e66892347fcf920f5ade0a3b0f2754ab3cf3411aa13aa9c8696c62abe3c01861d0f238db9c5f0505b67 Homepage: https://cran.r-project.org/package=MiMIR Description: CRAN Package 'MiMIR' (Metabolomics-Based Models for Imputing Risk) Provides an intuitive framework for ad-hoc statistical analysis of 1H-NMR metabolomics by Nightingale Health. It allows to easily explore new metabolomics measurements assayed by Nightingale Health, comparing the distributions with a large Consortium (BBMRI-nl); project previously published metabolic scores [, , , , , ]; and calibrate the metabolic surrogate values to a desired dataset. Package: r-cran-mimisbm Architecture: all Version: 0.0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 312 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-blockmodels Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mimisbm_0.0.1.3-1.ca2004.1_all.deb Size: 189040 MD5sum: 5c3fe36ffc6225f81495b5e7b96e99f9 SHA1: 394df011ec75477fdc8a891e9427d350b0c86570 SHA256: 488891ca9630e8db74c9181cbd7a72d1c53559dcdc1ec2776144074c341dc619 SHA512: 7ab16a32493af789dcfd6bd353ad1beb489f11a6dde7c2cf9654b5f73142d3f01a6230b7f036694c9a01bf6549fa968a4f7d9d33b2709e44b3cc9d522e35652f Homepage: https://cran.r-project.org/package=mimiSBM Description: CRAN Package 'mimiSBM' (Mixture of Multilayer Integrator Stochastic Block Models) Our approach uses a mixture of multilayer stochastic block models to group co-membership matrices with similar information into components and to partition observations into different clusters. See De Santiago (2023, ISBN: 978-2-87587-088-9). Package: r-cran-mimix Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mitools Filename: pool/dists/focal/main/r-cran-mimix_1.0-1.ca2004.1_all.deb Size: 27456 MD5sum: 4c1a7c283202eb5483285c1cdde0e24f SHA1: 3541683f043bfe3e683ff041079a046be90b0640 SHA256: b7757583d921d238e0fc02a6415696d382e7bf6d83963488d075cf638c653a62 SHA512: 722cef79babc1f313a4e59a317d53df12138d7feb723b79c6404aaff848d057d8ab547cd4a78149f2f8094bb2b0555b1ce6560b5d6923506c94c89143160c35a Homepage: https://cran.r-project.org/package=MImix Description: CRAN Package 'MImix' (Mixture summary method for multiple imputation) Tools to combine results for multiply-imputed data using mixture approximations Package: r-cran-mimsunit Architecture: all Version: 0.11.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1078 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-catools, r-cran-tibble, r-cran-dplyr, r-cran-lubridate, r-cran-magrittr, r-cran-plyr, r-cran-readr, r-cran-r.utils, r-cran-stringr, r-cran-xts, r-cran-signal, r-cran-dygraphs, r-cran-shiny, r-cran-rcolorbrewer, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-pkgdown, r-cran-gridextra, r-cran-remotes Filename: pool/dists/focal/main/r-cran-mimsunit_0.11.2-1.ca2004.1_all.deb Size: 416208 MD5sum: 963312dcbcefc31feef943ccf2e38658 SHA1: 122b850404679b698fa6a1e43a6be98694d054c2 SHA256: 860c39ee343cfeef0e647c15f23565ea267ed6c61169dbc8a74a014e02feba9a SHA512: cd9ddbd360a745eced879a9c4e043da19fe48e87f9868c91ba5f7a3b6dda3eedbc9fce0d087bcdf173337df199d6cab23a257cf93119266f95f5d9a78dddd8af Homepage: https://cran.r-project.org/package=MIMSunit Description: CRAN Package 'MIMSunit' (Algorithm to Compute Monitor Independent Movement Summary Unit(MIMS-Unit)) The MIMS-unit algorithm is developed to compute Monitor Independent Movement Summary Unit, a measurement to summarize raw accelerometer data while ensuring harmonized results across different devices. It also includes scripts to reproduce results in the related publication (John, D., Tang. Q., Albinali, F. and Intille, S. (2019) ). Package: r-cran-mimsy Architecture: all Version: 0.6.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 685 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-lubridate, r-cran-openxlsx Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-xfun Filename: pool/dists/focal/main/r-cran-mimsy_0.6.5-1.ca2004.1_all.deb Size: 435080 MD5sum: 6646c3cd522b1f871d5e6dcd2a839041 SHA1: 4747a40e3848bf2c4b66bfa2741c55ccc8bb0055 SHA256: 7608c77defa8697416d5d2077222a1626b3af14fae77f273a9ab2793214afb7a SHA512: 7f16f029d203c4dc2ae4678e2337359d7ab0b73289e28cd10d6e5d9f92685b7f22fe38133571639a3ae35814b4558f164366ca31a926c42b14cf50ae97665866 Homepage: https://cran.r-project.org/package=mimsy Description: CRAN Package 'mimsy' (Calculate MIMS Dissolved Gas Concentrations Without Getting aHeadache) Calculate dissolved gas concentrations from raw MIMS (Membrane Inlet Mass Spectrometer) signal data. Use mimsy() on a formatted CSV file to return dissolved gas concentrations (mg and microMole) of N2, O2, Ar based on gas solubility at temperature, pressure, and salinity. See references Benson and Krause (1984), Garcia and Gordon (1992), Stull (1947), and Hamme and Emerson (2004) for more information. Easily save the output to a nicely-formatted multi-tab 'Excel' workbook with mimsy.save(). Supports dual-temperature standard calibration for dual-bath MIMS setups. Package: r-cran-minb Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-pscl Filename: pool/dists/focal/main/r-cran-minb_0.1.0-1.ca2004.1_all.deb Size: 48108 MD5sum: 692c637946338d817b1751164b087607 SHA1: 92d0075b3677d0a60184f61a3b9d41ea9f87b1e2 SHA256: 7e6e9227eb4828240ab595e93e640aeae16914dc18e3c52b2958623d5af929ce SHA512: 88a7bdc02f603caee40707a2511460b9bc2f95a35204fc18b9a58ef8326db9822ad26eb5cf943b60b0150a0f64392bb3cc427ae0261d2b3c2686cacd92321c26 Homepage: https://cran.r-project.org/package=minb Description: CRAN Package 'minb' (Multiple-Inflated Negative Binomial Model) Count data is prevalent and informative, with widespread application in many fields such as social psychology, personality, and public health. Classical statistical methods for the analysis of count outcomes are commonly variants of the log-linear model, including Poisson regression and Negative Binomial regression. However, a typical problem with count data modeling is inflation, in the sense that the counts are evidently accumulated on some integers. Such an inflation problem could distort the distribution of the observed counts, further bias estimation and increase error, making the classic methods infeasible. Traditional inflated value selection methods based on histogram inspection are easy to neglect true points and computationally expensive in addition. Therefore, we propose a multiple-inflated negative binomial model to handle count data modeling with multiple inflated values, achieving data-driven inflated value selection. The proposed approach provides simultaneous identification of important regression predictors on the target count response as well. More details about the proposed method are described in Li, Y., Wu, M., Wu, M., & Ma, S. (2023) . 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See Rotllan-Puig, X. & Traveset, A. (2021) . Package: r-cran-mind Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 777 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-mass, r-cran-matrix, r-cran-dplyr, r-cran-jwileymisc, r-cran-tm Filename: pool/dists/focal/main/r-cran-mind_1.1.0-1.ca2004.1_all.deb Size: 760332 MD5sum: 23e9288a02fd8186ae6c20bb5669b890 SHA1: c040e449ac6c1b990e4f413026c2f11f6a58bd7e SHA256: 854664d659357f4519eb53ca9560c4d789b4eb1016b0c2d97985ec39ffa320b5 SHA512: d7a3b0682fe5e57e500c455178078ed65d98360166f3c054cc5c67fa7dff5ea25199e59837d66b016820869227afb50b347d963cc50fbcdeedb42a382b333748 Homepage: https://cran.r-project.org/package=mind Description: CRAN Package 'mind' (Multivariate Model Based Inference for Domains) Allows users to produce estimates and MSE for multivariate variables using Linear Mixed Model. The package follows the approach of Datta, Day and Basawa (1999) . Package: r-cran-mindonstats Architecture: all Version: 0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 336 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mindonstats_0.11-1.ca2004.1_all.deb Size: 194148 MD5sum: 5b11d32db11683dab8b8211953f3c3ac SHA1: fbee39dd6a929f2786ecdc6e429cc8201294eafc SHA256: b6cec1ccb825d6ec3369b535513f28040daa7e2c78d4a22286d73e293390f945 SHA512: 8254c8ac9bf43d915a4a0b54b8b7cc072348577e4bb42feb67aa434e7a946fae267235948693da89934caf36ceb6d9ec8913486973127a457c9f46bc00bba739 Homepage: https://cran.r-project.org/package=MindOnStats Description: CRAN Package 'MindOnStats' (Data sets included in Utts and Heckard's Mind on Statistics) 66 data sets that were imported using read.table() where appropriate but more commonly after converting to a csv file for importing via read.csv(). 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Package: r-cran-minecitrus Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4710 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-minecitrus_1.0.0-1.ca2004.1_all.deb Size: 4736524 MD5sum: 077b7be58dbcc2c995a7cdbb16626d76 SHA1: 05f8ac575943929cd70e4069dc0549ca9a845ab6 SHA256: 2bbbfaf530628cd9f9fabea54597e75f44449ac41d4e26119528c38d5ee788ed SHA512: c20fcdcc23bb5087f4a857e70d994eb04b9b5486948922aceedbe0a855b79d56ea6647ac8e2e700423fb9712b3551730272a9348ce10b47d183ca36c28839043 Homepage: https://cran.r-project.org/package=mineCitrus Description: CRAN Package 'mineCitrus' (Extract and Analyze Median Molecule Intensity from 'citrus'Output) Citrus is a computational technique developed for the analysis of high dimensional cytometry data sets. This package extracts, statistically analyzes, and visualizes marker expression from 'citrus' data. This code was used to generate data for Figures 3 and 4 in the forthcoming manuscript: Throm et al. “Identification of Enhanced Interferon-Gamma Signaling in Polyarticular Juvenile Idiopathic Arthritis with Mass Cytometry”, JCI-Insight. For more information on Citrus, please see: Bruggner et al. (2014) . To download the 'citrus' package, please see . Package: r-cran-minedfind Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-iso, r-cran-ggplot2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-minedfind_0.1.3-1.ca2004.1_all.deb Size: 46180 MD5sum: 0547053c0603cd8066ebfbd190e5d091 SHA1: bd0b0f816a07c73bb19012c5070864cb23a4041d SHA256: aef57b47023d1fa1385870f81987613b6073a5b6b4da7106136564e88b580f12 SHA512: 40a3d952dd9ea6c5561234bc7ebef3841b3bfddf86ac35bd544b9e2a935afa435687f87fe9fc322a789374775db7a33f5929622bc16fb790a34b35df7380b582 Homepage: https://cran.r-project.org/package=MinEDfind Description: CRAN Package 'MinEDfind' (A Bayesian Design for Minimum Effective Dosing-Finding Trial) The nonparametric two-stage Bayesian adaptive design is a novel phase II clinical trial design for finding the minimum effective dose (MinED). This design is motivated by the top priority and concern of clinicians when testing a new drug, which is to effectively treat patients and minimize the chance of exposing them to subtherapeutic or overly toxic doses. It is used to design single-agent trials. Package: r-cran-minesweeper Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-gifski Filename: pool/dists/focal/main/r-cran-minesweeper_1.0.1-1.ca2004.1_all.deb Size: 61080 MD5sum: cf619851fec24b2a27a3845f57f55678 SHA1: b87d6ba37185526b9e57a43216f1d521b23d67bb SHA256: 1db99ce37153b61cb4293c059682a9e3f948e0e77b2e78d0d6921b651d0f05fd SHA512: 96b3f38b233e64dc04f5688af4894ad5eac49f384d33eca8129a8b405b4b4d8c364e13d5a05aba2c768e6308040b4ed2f3e08739841dc8c0e45206a582f7034d Homepage: https://cran.r-project.org/package=minesweeper Description: CRAN Package 'minesweeper' (Play Minesweeper) Play and record games of minesweeper using a graphics device that supports event handling. Replay recorded games and save GIF animations of them. Based on classic minesweeper as detailed by Crow P. (1997) . Package: r-cran-minesweepr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-complexheatmap, r-bioc-interactivecomplexheatmap, r-cran-dplyr, r-cran-gsignal, r-cran-mgc, r-cran-mmand, r-cran-hms, r-cran-rlang, r-cran-pals Filename: pool/dists/focal/main/r-cran-minesweepr_0.1.1-1.ca2004.1_all.deb Size: 62120 MD5sum: 026e9701d15ee7fa407d78e6fb903bf3 SHA1: 7947dddd34af9eaa47a2faab299bac521615c403 SHA256: 240344dd4cb5bf456cdf86357c451bcbc31306efe56b3b913b31e57e1a35f4db SHA512: aef5e4fe8dae55e8a455f6269a35bef66cd3d65c2ccd710a0fd841e3e9202f79b9f5c8882e3c4670d6602ed3e22f65e3420088c6c68ea84f4f20544798bcac16 Homepage: https://cran.r-project.org/package=mineSweepR Description: CRAN Package 'mineSweepR' (Mine Sweeper Game) This is the very popular mine sweeper game! The game requires you to find out tiles that contain mines through clues from unmasking neighboring tiles. Each tile that does not contain a mine shows the number of mines in its adjacent tiles. If you unmask all tiles that do not contain mines, you win the game; if you unmask any tile that contains a mine, you lose the game. For further game instructions, please run `help(run_game)` and check details. This game runs in X11-compatible devices with `grDevices::x11()`. Package: r-cran-miney Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-miney_0.1-1.ca2004.1_all.deb Size: 16028 MD5sum: 006401109c76329a75c0dda1d9998e3d SHA1: 58325ac3ba157d1b0ef8dac5c601645167b9bfc9 SHA256: 8590cb561a2315f76074fb04f4235a0b936f3156212b0677cd1e1b5787e198be SHA512: bcac5888aca0e09eaae374c93c8b5de8527a4ea524d2beada1947035289bb38c4b212903370cb83104be8cd15d44f5280efdcb3e0f93918299d1e8457eea080c Homepage: https://cran.r-project.org/package=Miney Description: CRAN Package 'Miney' (Implementation of the Well-Known Game to Clear Bombs from aGiven Field (Matrix)) This package implements the core idea of games known as 'Minesweeper' on Microsoft Windows or 'KMines' for KDE on Unix-like operating systems. Package: r-cran-minfactorial Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fmc Filename: pool/dists/focal/main/r-cran-minfactorial_0.1.0-1.ca2004.1_all.deb Size: 19096 MD5sum: 8da7355934f64e92b242e68e7d94f9ec SHA1: 55000a4319632e6f4c0729e77b0b46212d3128aa SHA256: 2c36205e4c21789142815fa42b1fd43a931450fba7cd36c2f983095a8cc017a6 SHA512: 606e630e217275e8e7c828baece6ca535857e65275ef41e4d93b71888530ff9e8d2dec651a5332a61a8b9d50c31ef0d10f74c5ab139c42bb678f3672ad7d232e Homepage: https://cran.r-project.org/package=minFactorial Description: CRAN Package 'minFactorial' (All Possible Minimally Changed Factorial Run Orders) In many agricultural, engineering, industrial, post-harvest and processing experiments, the number of factor level changes and hence the total number of changes is of serious concern as such experiments may consists of hard-to-change factors where it is physically very difficult to change levels of some factors or sometime such experiments may require normalization time to obtain adequate operating condition. For this reason, run orders that offer the minimum number of factor level changes and at the same time minimize the possible influence of systematic trend effects on the experimentation have been sought. Factorial designs with minimum changes in factors level may be preferred for such situations as these minimally changed run orders will minimize the cost of the experiments. For method details see, Bhowmik, A.,Varghese, E., Jaggi, S. and Varghese, C. (2017).This package used to construct all possible minimally changed factorial run orders for different experimental set ups along with different statistical criteria to measure the performance of these designs. It consist of the function minFactDesign(). Package: r-cran-minicran Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 596 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-igraph, r-cran-assertthat Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr, r-cran-withr, r-cran-mockery, r-cran-testthis, r-cran-roxygen2, r-cran-mockr, r-cran-spelling Filename: pool/dists/focal/main/r-cran-minicran_0.3.1-1.ca2004.1_all.deb Size: 406000 MD5sum: 5f4074b274aac9309dba9187c26eed0d SHA1: 3f28e6b3cb879cafc5ebb164af3d79e67985376f SHA256: 4779d9e41fc03689869c5e9c9b1f76a1999a06b9fbb9cf1bf3bb373b32a03da6 SHA512: ca6c995395afd011d8dabf88c4f6088d953c0f12b183154e22bed88b25fc6af6828f52b086336e2040cd710a178abdd7c443d20aaaa67dc8661444c242137b59 Homepage: https://cran.r-project.org/package=miniCRAN Description: CRAN Package 'miniCRAN' (Create a Mini Version of CRAN Containing Only Selected Packages) Makes it possible to create an internally consistent repository consisting of selected packages from CRAN-like repositories. The user specifies a set of desired packages, and 'miniCRAN' recursively reads the dependency tree for these packages, then downloads only this subset. The user can then install packages from this repository directly, rather than from CRAN. This is useful in production settings, e.g. server behind a firewall, or remote locations with slow (or zero) Internet access. Package: r-cran-minidown Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 372 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-katex, r-cran-knitr, r-cran-mime, r-cran-rmarkdown, r-cran-sass, r-cran-xfun Suggests: r-cran-callr, r-cran-dplyr, r-cran-purrr, r-cran-shiny, r-cran-testthat, r-cran-tidyr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-minidown_0.4.0-1.ca2004.1_all.deb Size: 83876 MD5sum: fa27656641de7375779dbbba298f7e40 SHA1: 5189f0cad207aff2a88b4adef499c05f60d1f130 SHA256: 5a5b513e9857fd9a22e4eb7d448498de0eb371ace05dfb1315da932cb930182d SHA512: 60fe5d71a7eac55f9550bc63b5dd6c791a0a901cbbf29e3e2d28cccd484d904d97dbbc04d91221d26d64f2fdb9db7aa3b84db0805e9cbe80e62b4cf7497717c0 Homepage: https://cran.r-project.org/package=minidown Description: CRAN Package 'minidown' (Create Simple Yet Powerful HTML Documents with Light Weight CSSFrameworks) Create minimal, responsive, and style-agnostic HTML documents with the lightweight CSS frameworks such as 'sakura', 'Water.css', and 'spcss'. Powerful features include table of contents floating as a sidebar, folding codes and results, and more. Package: r-cran-minigui Architecture: all Version: 0.8-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-minigui_0.8-1-1.ca2004.1_all.deb Size: 48796 MD5sum: 6d7171915b04fab5210ccce6264174e7 SHA1: 67e319c071cb69b0863eae957ab0e1a8bba4db68 SHA256: c68b3ac1dbea210adabbeeca73bf1339d884ebc5dc7a423df5f3b16d834a4bff SHA512: 71da9b9eac7530ed8197b312e8fdedb6961a22d497b934cfb585f1adbc1c655858d7b173fabc019dd9cab73585b349fdacbd3154f916544f37b99b8c496a2546 Homepage: https://cran.r-project.org/package=miniGUI Description: CRAN Package 'miniGUI' (Tcl/Tk Quick and Simple Function GUI) Quick and simple Tcl/Tk Graphical User Interface to call functions. Also comprises a very simple experimental GUI framework. Package: r-cran-minimalistgodb Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1973 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-minimalistgodb_1.1.0-1.ca2004.1_all.deb Size: 1734696 MD5sum: 7b48c29d3a4e1631732e30226f66d8fa SHA1: 5caffe740b206c88ef07532d59127331fb0ecb2a SHA256: b83aedd247994c18c6f1b4d5738c76a04b1f92089fbfb1157d65912d397c02e5 SHA512: becba473ea02ff1043a344baaf10a3c248ab7ccc3bcb95a44bbf449c7c4574f0cb33653576a0c9a893ba24166ac43fc9da1efad073222c339cbfce4a96f12379 Homepage: https://cran.r-project.org/package=minimalistGODB Description: CRAN Package 'minimalistGODB' (Build a Minimalist Gene Ontology (GO) Database (GODB)) Normally building a GODB is fairly complicated, involving downloading multiple database files and using these to build e.g. a 'mySQL' database. Accessing this database is also complicated, involving an intimate knowledge of the database in order to construct reliable queries. Here we have a more modest goal, generating GOGOA3, which is a stripped down version of the GODB that was originally restricted to human genes as designated by the HUGO Gene Nomenclature Committee (HGNC) (see ). I have now added about two dozen additional species, namely all species represented on the Gene Ontology download page . This covers most of the model organisms that are commonly used in bio-medical and basic research (assuming that anyone still has a grant to do such research). This can be built in a matter of seconds from 2 easily downloaded files (see and ), and it can be queried by e.g. w<-which(GOGOA3[,"HGNC"] %in% hgncList) where GOGOA3 is a matrix representing the minimalist GODB and hgncList is a list of gene identifiers. This database will be used in my upcoming package 'GoMiner' which is based on my previous publication (see Zeeberg, B.R., Feng, W., Wang, G. et al. (2003)). Relevant .RData files are available from GitHub (). Package: r-cran-minimalrsd Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-minimalrsd_1.0.0-1.ca2004.1_all.deb Size: 26064 MD5sum: 5e031cd3eb1f3f3c8a4fdded59b496d4 SHA1: 749285909fcef40fc4ad6fc6071cbb8fa83a0414 SHA256: 79fb1f86696eaf47d010cc5f04385625f1601683ce8b0396124f8738a780fe52 SHA512: 19d223e38e5ce913e186c5e1e1ca4249fdb185f0eef191e2fcb6a07d5a65795983d18a3107e2ed2a83d50c48650c69526fba7d81e914608cd6566298bae67852 Homepage: https://cran.r-project.org/package=minimalRSD Description: CRAN Package 'minimalRSD' (Minimally Changed CCD and BBD) Generate central composite designs (CCD)with full as well as fractional factorial points (half replicate) and Box Behnken designs (BBD) with minimally changed run sequence. Package: r-cran-minimap Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-minimap_0.1.0-1.ca2004.1_all.deb Size: 48220 MD5sum: 8677ff03d187a9db2f015c39d2df54bf SHA1: d262ce2a7db14f7c5b1a9e356cd8f576ea9bbe4a SHA256: 28e1efe111c8a8e11d37e9f362bdcbde2397216cfb5cefe885482d52ff5f603b SHA512: 4ae22a587871946cfe0e08d7955e58c59b45ecfde4117e45023845b3ee64f937cb18cd59ac8e4d50bd0ad8f795bcfde5d5ce9d60b1e97f611adb8d6e79b62543 Homepage: https://cran.r-project.org/package=minimap Description: CRAN Package 'minimap' (Create Tile Grid Maps) Create tile grid maps, which are like choropleth maps except each region is represented with equal visual space. Package: r-cran-minimapr Architecture: all Version: 0.0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-rsamtools, r-cran-pafr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-minimapr_0.0.1.3-1.ca2004.1_all.deb Size: 35364 MD5sum: c9454bcdc6fc4fcad2a69a2a2327d53f SHA1: 468b8066b55944b34ee9e07c72bba266b1017dd3 SHA256: 8a8ced3901f5b2abb58b0f4e99fb67371f8210cbee9a416fe3e5794998a22ca6 SHA512: d4a38896265f9bcfe188dbfb5df1964448925a3cfb45af012e602b1c6efe3109cafdd029423673fa49c5b4dd024a0015896c2ddb9bc867dfce0e271f055fdc3f Homepage: https://cran.r-project.org/package=minimapR Description: CRAN Package 'minimapR' (Wrapper for 'minimap2') Wrapper for 'Minimap2'. 'Minimap2' is a very valuable long read aligner for the Pacbio and Oxford Nanopore Technologies sequencing platforms. 'minimapR' is an R wrapper for 'minimap2' which was developed by Heng Li . *SPECIAL NOTES 1. Examples can only be run from 'GitHub' installation. 2. 'conda' or 'mamba' must be used to install 'minimapR' on your system. 3. For Windows users, 'minimap2' and 'samtools' can be installed via MSYS2, instructions are provided when 'minimap2_installation()' is run. Li, Heng (2018) "Minimap2: pairwise alignment for nucleotide sequences". Package: r-cran-minimax Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-minimax_1.1.1-1.ca2004.1_all.deb Size: 18508 MD5sum: 1d9baf8dd9df8f5d0499e4f3c313022c SHA1: 2742db22577293fd8d526364d812ec90e1b98048 SHA256: df7353ac52608c8e3321093df4eab3b77b37894300278b5df09b77e8c2fe8e56 SHA512: 16fb24f0c177150d5dd1ee82641d6147b47eaf40351b2e975e886f6f782ea44549038a1356b194e19df11c3809233f841b13761b44d654897cd4e1d20a4a3797 Homepage: https://cran.r-project.org/package=minimax Description: CRAN Package 'minimax' (The Minimax Distribution Family) The minimax family of distributions is a two-parameter family like the beta family, but computationally a lot more tractible. Package: r-cran-minimeta Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 487 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-meta, r-cran-shiny, r-cran-shinyjs, r-cran-shinywidgets, r-cran-colourpicker, r-cran-rhandsontable, r-cran-metafor, r-cran-markdown, r-cran-writexls, r-cran-readxl, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-minimeta_0.3.2-1.ca2004.1_all.deb Size: 398224 MD5sum: b6129e1c013e36a6d6c2b59c773de4ea SHA1: e02eaa003d6370bd0e58a145f9cbc66a7623928a SHA256: c481f218834033dc6565c5e5630833e7ade17f96ed6513b249d80e3fb713995a SHA512: abcc6ce9a400139f7579e120aad9227b281d9099d18e715d94b77d8f5e007e38d675d544c79032b3249676f914cbc1dd4c94a913aad90f6a46c85dc5f2081ffe Homepage: https://cran.r-project.org/package=miniMeta Description: CRAN Package 'miniMeta' (Web Application to Run Meta-Analyses) Shiny web application to run meta-analyses. Essentially a graphical front-end to package 'meta' for R. Can be useful as an educational tool, and for quickly analyzing and sharing meta-analyses. Provides output to quickly fill in GRADE (Grading of Recommendations, Assessment, Development and Evaluations) Summary-of-Findings tables. Importantly, it allows further processing of the results inside R, in case more specific analyses are needed. Package: r-cran-minimist Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-v8 Filename: pool/dists/focal/main/r-cran-minimist_0.1-1.ca2004.1_all.deb Size: 10952 MD5sum: 1c7bff168c97334b5e36ca19abb037ef SHA1: 04a878e4472cc34bc393842f4e6c566f4fff905b SHA256: 00898e6d7e9244d5149a0f3e6cdaaba261d61b2696443b031380ac146dfc06d1 SHA512: 9867166bd6ef91f89ecc366d4ce42b6120e0a101274e2ba41ed99116916b2356945a1061c3cfcf9c01a509cc84256446f847f14b10566bcffcef92151f4c1e33 Homepage: https://cran.r-project.org/package=minimist Description: CRAN Package 'minimist' (Parse Argument Options) A binding to the minimist JavaScript library. This module implements the guts of optimist's argument parser without all the fanciful decoration. Package: r-cran-minioclient Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fs, r-cran-glue, r-cran-processx, r-cran-jsonlite Suggests: r-cran-spelling, r-cran-testthat, r-cran-curl Filename: pool/dists/focal/main/r-cran-minioclient_0.0.6-1.ca2004.1_all.deb Size: 65832 MD5sum: b1c2aa500306662cd7ccd1caaaaaca3b SHA1: 4ce914378ec24d5e0a88d389f995ab08d19c7dab SHA256: 3f812fe1873b4fcd5169b8c5ec38077406d19137533d7f2322cf784cd559beef SHA512: 6703b8bd2f1453e5df09578b8080a1e42f237b445bf3983c92640f2c9dc8b124f081de85d8b9f4ab8991bbf1e1d0585f685c1bd277ca16ee9b763dc2accd8746 Homepage: https://cran.r-project.org/package=minioclient Description: CRAN Package 'minioclient' (Interface to the 'MinIO' Client) An R interface to the 'MinIO' Client. The 'MinIO' Client ('mc') provides a modern alternative to UNIX commands like 'ls', 'cat', 'cp', 'mirror', 'diff', 'find' etc. It supports 'filesystems' and Amazon "S3" compatible cloud storage service ("AWS" Signature v2 and v4). This package provides convenience functions for installing the 'MinIO' client and running any operations, as described in the official documentation, . This package provides a flexible and high-performance alternative to 'aws.s3'. Package: r-cran-minirand Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-minirand_0.1.3-1.ca2004.1_all.deb Size: 21512 MD5sum: 8485ef0b76c6256a20650096c5c4f372 SHA1: 983f557caf02c3215f63a605addad4df47cfe6ed SHA256: 0917ab267786b2d087be4e47e10aa7fb4d775b7ec775f450018df5e2f8145840 SHA512: 4634dd5b7f4b96229c5a87ace22c15f9c28f46d008d242df52ab54a8f27863e7fb4954ed0689883a6e6cf0dca60bbd4983a21c5bfe340b18c64f301c5b4adf92 Homepage: https://cran.r-project.org/package=Minirand Description: CRAN Package 'Minirand' (Minimization Randomization) Randomization schedules are generated in the schemes with k (k>=2) treatment groups and any allocation ratios by minimization algorithms. Package: r-cran-miniui Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-htmltools Filename: pool/dists/focal/main/r-cran-miniui_0.1.2-1.ca2004.1_all.deb Size: 35880 MD5sum: 8a874fda00a00f2dba522330e42e3474 SHA1: 9e73a517dfcfe934eb48a0867ceab29ab3097a43 SHA256: 23b1592c5ce63fffdf3623ddab49b7a9ca5cc869fec2cb07387f1614e092a651 SHA512: e626215dac63c613609c61032d163f5cb96a2feeb624ca76b473a62ca4d8373cf1c973cb6262fcbf377c82648ceef81f89be350ab68eb756ddba020a15b8db0a Homepage: https://cran.r-project.org/package=miniUI Description: CRAN Package 'miniUI' (Shiny UI Widgets for Small Screens) Provides UI widget and layout functions for writing Shiny apps that work well on small screens. Package: r-cran-minque Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 258 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-minque_2.0.0-1.ca2004.1_all.deb Size: 228364 MD5sum: e9b6252bfa742528ccdef0e88789a94c SHA1: 75081b8bf1c35aebecbae4be1750f7a3d269f5d8 SHA256: f69248b607fe692f9a730afb25f9f867386e32d637a440c8674a7930a7cfbb7c SHA512: 0772de4076b2bb6578d467f95d11a87f499f533bb92af057b2649c76f8de05773a59266cc7191078962a7424902391e0d1416d3f1aa97a9442acf152faad5509 Homepage: https://cran.r-project.org/package=minque Description: CRAN Package 'minque' (Various Linear Mixed Model Analyses) This package offers three important components: (1) to construct a use-defined linear mixed model, (2) to employ one of linear mixed model approaches: minimum norm quadratic unbiased estimation (MINQUE) (Rao, 1971) for variance component estimation and random effect prediction; and (3) to employ a jackknife resampling technique to conduct various statistical tests. In addition, this package provides the function for model or data evaluations.This R package offers fast computations for large data sets analyses for various irregular data structures. Package: r-cran-minsample1 Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-minsample1_0.1.0-1.ca2004.1_all.deb Size: 22668 MD5sum: 15b04e71df1af52bd287cf71f9a7396e SHA1: 515f9bf505a3aad04f9adfe6ba81ea6255dbdd45 SHA256: 8cff0e239936a5de420763f265ed7aafcf8a512f7c4a25d7fd7e8ff47b4e91b5 SHA512: 54127b11c9196d229a93289c682c8c09aaf6c4f5bf91c25fa25b22c5d144cba6c9125dd734a93687458953d56bf6bcbc6f6fb0888d66c698207fe4e5501e98a4 Homepage: https://cran.r-project.org/package=minsample1 Description: CRAN Package 'minsample1' (The Minimum Sample Size) Using this package, one can determine the minimum sample size required so that the absolute deviation of the sample mean and the population mean of a distribution becomes less than some pre-determined epsilon, i.e. it helps the user to determine the minimum sample size required to attain the pre-fixed precision level by minimizing the difference between the sample mean and population mean. Package: r-cran-minsample2 Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-minsample2_0.1.0-1.ca2004.1_all.deb Size: 22564 MD5sum: 30ccd5d177f6f0d44317e1d4b3db3778 SHA1: 7e4812b4a7d5658a21d19f0cb98e65a653f2976d SHA256: 7132e40edbab443dc307c6b8f11a9717ca0168cab546a054e77826bb5d26591b SHA512: 6b43790d65500d19dd6de9e0ee88ccd324c34810a45cea9eb3ffd29393691980034edbd23e98abdd516cafcadd0b7b7bf72473ffa4daf59ea5a893882a95e36d Homepage: https://cran.r-project.org/package=minsample2 Description: CRAN Package 'minsample2' (The Minimum Sample Size) Using this package, one can determine the minimum sample size required so that the mean square error of the sample mean and the population mean of a distribution becomes less than some pre-determined epsilon, i.e. it helps the user to determine the minimum sample size required to attain the pre-fixed precision level by minimizing the difference between the sample mean and population mean. Package: r-cran-minsnps Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3692 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-biocparallel, r-cran-data.table Suggests: r-cran-knitr, r-cran-testthat, r-cran-pkgdown, r-cran-rmarkdown, r-cran-withr Filename: pool/dists/focal/main/r-cran-minsnps_0.2.0-1.ca2004.1_all.deb Size: 345144 MD5sum: fe37cec9078ab6f6802313ab95fee273 SHA1: 330b6cdc3ee375c01d6f8832c5fa109f29b5b7cb SHA256: d2fe766af53afa9f17905e4d022df29396df45b555e0da337ce23cc2e082b07b SHA512: 3ff458b48a630357b33a1776cdf69c6ba2ecd6576885deddf9b134493d92bd86b0fad67816fb285d60e2a7def769bfa4fef3c0e1103210632dc60e22eea69a5f Homepage: https://cran.r-project.org/package=minSNPs Description: CRAN Package 'minSNPs' (Resolution-Optimised SNPs Searcher) This is a R implementation of "Minimum SNPs" software as described in "Price E.P., Inman-Bamber, J., Thiruvenkataswamy, V., Huygens, F and Giffard, P.M." (2007) "Computer-aided identification of polymorphism sets diagnostic for groups of bacterial and viral genetic variants." Package: r-cran-mint Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glasso, r-cran-trust, r-cran-mass, r-cran-testthat Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-mint_1.0.1-1.ca2004.1_all.deb Size: 45300 MD5sum: 61be1e64f4db3bedb4187cd7e947afe6 SHA1: e7eff130baa67f8803204f995eacd1aeefb27aef SHA256: 5aec55ddf65dd09f02f9bf0756e114117f796a0e4ed60da9b28245a7d6047d56 SHA512: 6fb7f7ce5ba107c2cb3a630fac7c11a01e1d288abb893df2ad1ec1541eed536ec3806eff31529dd6adbb4adebcabe3b1867b0f463f855f4e20ff4971dacfcfbc Homepage: https://cran.r-project.org/package=MInt Description: CRAN Package 'MInt' (Learn Direct Interaction Networks) Learns direct microbe-microbe interaction networks using a Poisson multivariate-normal hierarchical model with an L1 penalized precision matrix. Optimization is carried out using an iterative conditional modes algorithm. Package: r-cran-mintplates Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2361 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mintplates_1.0.1-1.ca2004.1_all.deb Size: 2386464 MD5sum: 9bf7296b8f7223d22b6d15a53b898f00 SHA1: 30f5ec021f149c1aacdda3d6fe65d1e3326ab815 SHA256: d462f0832b7e2b9350a95b202cd5d17b99accd56908dd0adbed2076a054eaa33 SHA512: 2afedfedb51f7c1c1b4260746405d730c899fcec677e13c09852294c4d49b6b0b3b1d15b6f21b3e561bada59233352e8da390d5089ebeed9f621b6aea3f315f3 Homepage: https://cran.r-project.org/package=MINTplates Description: CRAN Package 'MINTplates' (Encode "License-Plates" from Sequences and Decode Them Back) It can be used to create/encode molecular "license-plates" from sequences and to also decode the "license-plates" back to sequences. While initially created for transfer RNA-derived small fragments (tRFs), this tool can be used for any genomic sequences including but not limited to: tRFs, microRNAs, etc. The detailed information can reference to Pliatsika V, Loher P, Telonis AG, Rigoutsos I (2016) . It can also be used to annotate tRFs. The detailed information can reference to Loher P, Telonis AG, Rigoutsos I (2017) . 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Contents include a function for post-hoc quality control for removal of outlier sample sets, a median-based normalization method for use in datasets where there are no explicit controls and where most of the responses are of the wildtype/no response class (see accompanying paper). The package also includes a way to prioritize individuals of interest using am empirical cumulative distribution function. Methods for generating synthetic data as well as data from the Chloroplast 2010 project are included. 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This facilitates their use with packages 'plumber' by Schloerke and Allen (2022) and 'shiny' by Cheng, Allaire, Sievert, Schloerke, Xie, Allen, McPherson, Dipert and Borges (2022) . Package: r-cran-mirai Architecture: all Version: 2.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 511 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-nanonext Suggests: r-cran-cli, r-cran-litedown Filename: pool/dists/focal/main/r-cran-mirai_2.4.0-1.ca2004.1_all.deb Size: 260288 MD5sum: a32c6ede9e834ff53ae4f62608f55cda SHA1: 2b6ea44420db7e12598ea503655a3c9ca756fa6e SHA256: 760f1d8beee89a95126f849904fbf475059f2e9921a46b14ede067926d0ac2cc SHA512: 0ee8f13cd67bf7a24cd6925f08f355eee8069c8eb3d700adc9269eb447636ad67efa0c55eb52804c5df44071e14a5e84d4e99b5a0964342bcb77e45d2e7915e0 Homepage: https://cran.r-project.org/package=mirai Description: CRAN Package 'mirai' (Minimalist Async Evaluation Framework for R) Designed for simplicity, a 'mirai' evaluates an R expression asynchronously in a parallel process, locally or distributed over the network. Modern networking and concurrency, built on 'nanonext' and 'NNG', ensures reliable scheduling over fast inter-process communications or TCP/IP secured by TLS. Launch remote resources via SSH or cluster managers for distributed computing. The queued architecture scales efficiently to millions of tasks over thousands of connections, requiring no storage on the file system. Innovative features include event-driven promises, asynchronous parallel map, and seamless serialization of otherwise non-exportable reference objects. Package: r-cran-mirecsurv Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-compoissonreg, r-cran-matrixstats, r-cran-stringi Filename: pool/dists/focal/main/r-cran-mirecsurv_1.0.2-1.ca2004.1_all.deb Size: 61356 MD5sum: 15e0cfb758f1e7f6038f98fe3718e864 SHA1: 628012489133008efc78922b4fa60049d570d839 SHA256: b76d47d70cf75a4e02c59c6532cf891c8febf42b41553443a6643f417f82b3b9 SHA512: 09ef34a8fb52137497db10c939c338db05a517b240d7ed18891c55a030f934e99a13b1389479f8ebee33b30eeba5c50b9fee767a6d9fec445f40fa9f7b680e4c Homepage: https://cran.r-project.org/package=miRecSurv Description: CRAN Package 'miRecSurv' (Left-Censored Recurrent Events Survival Models) Fitting recurrent events survival models for left-censored data with multiple imputation of the number of previous episodes. See Hernández-Herrera G, Moriña D, Navarro A. (2020) . Package: r-cran-miretrieve Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2375 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-magrittr, r-cran-openxlsx, r-cran-plotly, r-cran-purrr, r-cran-readr, r-cran-readxl, r-cran-scales, r-cran-stringr, r-cran-tidyr, r-cran-tidytext, r-cran-wordcloud, r-cran-xml2, r-cran-zoo Suggests: r-cran-kableextra, r-cran-knitr, r-cran-reshape2, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-miretrieve_1.3.4-1.ca2004.1_all.deb Size: 2374576 MD5sum: 045af482807a8ad3989f8e5c790393e2 SHA1: 88249a229b05185d9a42d89ebf5e59c9942589c0 SHA256: dc5c2a7f11a91a236b1e83e88e8964cf26b3481d2b234018ca3862739d405f27 SHA512: 4778fa88f28e554483e33597c72176d9d34f98163e8676cbd4e4bb45c81eb35031e934ffb961153fe12a4037418601ce2b7f051c585e4084b85f64b785cd060e Homepage: https://cran.r-project.org/package=miRetrieve Description: CRAN Package 'miRetrieve' (miRNA Text Mining in Abstracts) Providing tools for microRNA (miRNA) text mining. miRetrieve summarizes miRNA literature by extracting, counting, and analyzing miRNA names, thus aiming at gaining biological insights into a large amount of text within a short period of time. To do so, miRetrieve uses regular expressions to extract miRNAs and tokenization to identify meaningful miRNA associations. In addition, miRetrieve uses the latest miRTarBase version 8.0 (Hsi-Yuan Huang et al. (2020) "miRTarBase 2020: updates to the experimentally validated microRNA–target interaction database" ) to display field-specific miRNA-mRNA interactions. The most important functions are available as a Shiny web application under . Package: r-cran-mirkat Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 483 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-compquadform, r-cran-quantreg, r-cran-gunifrac, r-cran-pearsonds, r-cran-lme4, r-cran-matrix, r-cran-permute, r-cran-mixtools, r-cran-survival Suggests: r-cran-knitr, r-cran-vegan, r-cran-rmarkdown, r-cran-magrittr, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-mirkat_1.2.3-1.ca2004.1_all.deb Size: 369044 MD5sum: 10ca447a6aa540c80828d8b84498bd14 SHA1: b05a858cb6a0eeed10fa19b7be8cfb1f3f20b8f9 SHA256: 0786ed823274cd2d2fa4434da8d25ad60feb2be0d4809fa7a442891bbe984a6a SHA512: 2504d49abd2b076dfb36181dd0e86f84b6dd96cd4ed3f2679a65d668aaabf0f671177321ecfe34daf3022ac8c8f2560aec4c03a26b54e1056eac086a75ad715a Homepage: https://cran.r-project.org/package=MiRKAT Description: CRAN Package 'MiRKAT' (Microbiome Regression-Based Kernel Association Tests) Test for overall association between microbiome composition data and phenotypes via phylogenetic kernels. The phenotype can be univariate continuous or binary (Zhao et al. (2015) ), survival outcomes (Plantinga et al. (2017) ), multivariate (Zhan et al. (2017) ) and structured phenotypes (Zhan et al. (2017) ). The package can also use robust regression (unpublished work) and integrated quantile regression (Wang et al. (2021) ). In each case, the microbiome community effect is modeled nonparametrically through a kernel function, which can incorporate phylogenetic tree information. Package: r-cran-mirnaqcd Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 818 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-proc, r-cran-qpdf Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mirnaqcd_1.1.3-1.ca2004.1_all.deb Size: 593032 MD5sum: 1c55d86e2c70a0d576a0e4a001fcac36 SHA1: 58c59ed05f1f789978c4a400b1be0fdb6eb87d07 SHA256: e53499e0a6afabbfd9f03c77b99afbdf3059bdcb654ed09cef2fe96e3385d074 SHA512: f0b481cb7983ab073dda4c7242fd2dff9200708f828dcf5e07b4b0660db7c213ca0c9596071fb3c6e33e1716148445f8cded4c0f3e33ee50d9c0c21f2367813e Homepage: https://cran.r-project.org/package=MiRNAQCD Description: CRAN Package 'MiRNAQCD' (Micro-RNA Quality Control and Diagnosis) A complete and dedicated analytical toolbox for quality control and diagnosis based on subject-related measurements of micro-RNA (miRNA) expressions. The package consists of a set of functions that allow to train, optimize and use a Bayesian classifier that relies on multiplets of measured miRNA expressions. The package also implements the quality control tools required to preprocess input datasets. In addition, the package provides a function to carry out a statistical analysis of miRNA expressions, which can give insights to improve the classifier's performance. The method implemented in the package was first introduced in L. Ricci, V. Del Vescovo, C. Cantaloni, M. Grasso, M. Barbareschi and M. A. Denti, "Statistical analysis of a Bayesian classifier based on the expression of miRNAs", BMC Bioinformatics 16:287, 2015 . The package is thoroughly described in M. Castelluzzo, A. Perinelli, S. Detassis, M. A. Denti and L. Ricci, "MiRNA-QC-and-Diagnosis: An R package for diagnosis based on MiRNA expression", SoftwareX 12:100569, 2020 . Please cite both these works if you use the package for your analysis. DISCLAIMER: The software in this package is for general research purposes only and is thus provided WITHOUT ANY WARRANTY. It is NOT intended to form the basis of clinical decisions. Please refer to the GNU General Public License 3.0 (GPLv3) for further information. Package: r-cran-mirrorselect Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-yulab.utils Filename: pool/dists/focal/main/r-cran-mirrorselect_0.0.3-1.ca2004.1_all.deb Size: 15272 MD5sum: 337607b7c9206b82b5c3b30f31913f66 SHA1: d5ca925d2ec7d8612d542f187fe9b090513840c1 SHA256: 3edad2ef4feb62a8fc10606b98c0665cdc31886fe4855b93297578df76276630 SHA512: 1400e64a25c72adbf24a367c98d95578d258dcb7e08e07ba8d249d5485cf5c1929d64daaef18c17c40b85e981861e9ea526573d45517c3e74d60ae8dae7dd260 Homepage: https://cran.r-project.org/package=mirrorselect Description: CRAN Package 'mirrorselect' (Test CRAN/Bioconductor Mirror Speed) Testing CRAN and Bioconductor mirror speed by recording download time of 'src/base/COPYING' (for CRAN) and 'packages/release/bioc/html/ggtree.html' (for Bioconductor). Package: r-cran-mirsea Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2044 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mirsea_1.1.1-1.ca2004.1_all.deb Size: 1366992 MD5sum: 99ac3f2aaf0bafd05ca0b62bc7389cce SHA1: 15f337fe90e34d6c539c05989026e2d47131945e SHA256: 1d05390f08d3d97ee52edd52b0c2ef42600ac793eb14e9f452e025d0466c5648 SHA512: eabd6cdf456baa62517b610536a6e8ab1f6cf93d6bd7ca27913291e0c71416315237bf59aabfbc901ffbbef41440529d147938856097e238958424581f8d5231 Homepage: https://cran.r-project.org/package=MiRSEA Description: CRAN Package 'MiRSEA' ('MicroRNA' Set Enrichment Analysis) The tools for 'MicroRNA Set Enrichment Analysis' can identify risk pathways(or prior gene sets) regulated by microRNA set in the context of microRNA expression data. (1) This package constructs a correlation profile of microRNA and pathways by the hypergeometric statistic test. The gene sets of pathways derived from the three public databases (Kyoto Encyclopedia of Genes and Genomes ('KEGG'); 'Reactome'; 'Biocarta') and the target gene sets of microRNA are provided by four databases('TarBaseV6.0'; 'mir2Disease'; 'miRecords'; 'miRTarBase';). (2) This package can quantify the change of correlation between microRNA for each pathway(or prior gene set) based on a microRNA expression data with cases and controls. (3) This package uses the weighted Kolmogorov-Smirnov statistic to calculate an enrichment score (ES) of a microRNA set that co-regulate to a pathway , which reflects the degree to which a given pathway is associated with the specific phenotype. (4) This package can provide the visualization of the results. 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The method permits researchers to model whether a survey respondent's answer to the sensitive item in a list experiment is different from his or her answer to an analogous direct question. 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Package: r-cran-misscompare Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4128 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-amelia, r-cran-data.table, r-cran-dplyr, r-cran-ggdendro, r-cran-ggplot2, r-cran-hmisc, r-cran-ltm, r-cran-magrittr, r-cran-mass, r-cran-matrix, r-cran-mi, r-cran-mice, r-cran-missforest, r-cran-missmda, r-bioc-pcamethods, r-cran-plyr, r-cran-rlang, r-cran-tidyr, r-cran-vim Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-misscompare_1.0.3-1.ca2004.1_all.deb Size: 2705776 MD5sum: b53e1adfb1f1c5ca276cc933773d7844 SHA1: c81bda462c7d54709ac99ae2cf97845ebabd6177 SHA256: b58bf337567a012c5fb499dccd615bdb8ec0407189ca600c14fcc1e04a8741fa SHA512: 01db10779aaa47a0d38fe3b2444a3e9faf1fabe222dd19199d791702741a56368b8f1ddf38e297724787146156353eecff7ffda103aef28bd0383596ef5c48ee Homepage: https://cran.r-project.org/package=missCompare Description: CRAN Package 'missCompare' (Intuitive Missing Data Imputation Framework) Offers a convenient pipeline to test and compare various missing data imputation algorithms on simulated and real data. These include simpler methods, such as mean and median imputation and random replacement, but also include more sophisticated algorithms already implemented in popular R packages, such as 'mi', described by Su et al. (2011) ; 'mice', described by van Buuren and Groothuis-Oudshoorn (2011) ; 'missForest', described by Stekhoven and Buhlmann (2012) ; 'missMDA', described by Josse and Husson (2016) ; and 'pcaMethods', described by Stacklies et al. (2007) . The central assumption behind 'missCompare' is that structurally different datasets (e.g. larger datasets with a large number of correlated variables vs. smaller datasets with non correlated variables) will benefit differently from different missing data imputation algorithms. 'missCompare' takes measurements of your dataset and sets up a sandbox to try a curated list of standard and sophisticated missing data imputation algorithms and compares them assuming custom missingness patterns. 'missCompare' will also impute your real-life dataset for you after the selection of the best performing algorithm in the simulations. The package also provides various post-imputation diagnostics and visualizations to help you assess imputation performance. Package: r-cran-missdiag Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 231 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula, r-cran-cobalt Suggests: r-cran-mice, r-cran-sbw, r-cran-ebal Filename: pool/dists/focal/main/r-cran-missdiag_1.0.1-1.ca2004.1_all.deb Size: 152448 MD5sum: 12f9e9021e31fb6e8c535f5a01dfe76b SHA1: 07f22b514effd3da5fdbb9e9005d539295d37563 SHA256: 00c5b97f265ba1d846e6a6769b6cd12dcf466d9535283d83f87a92135144984e SHA512: db91740c042f148399d2c3eed2c7520f1c9b66e83702d7fa244c2dbf9f32f318667a9d983cd155a1d1057072ac0d0170d2971dd06f9532c49521e63a299372c5 Homepage: https://cran.r-project.org/package=missDiag Description: CRAN Package 'missDiag' (Comparing Observed and Imputed Values under MAR and MCAR) Implements the computation of discrepancy statistics summarizing differences between the density of imputed and observed values and the construction of weights to balance covariates that are part of the missing data mechanism as described in Marbach (2021) . Package: r-cran-missforest Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 402 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-randomforest, r-cran-foreach, r-cran-itertools, r-cran-iterators, r-cran-dorng Suggests: r-cran-doparallel Filename: pool/dists/focal/main/r-cran-missforest_1.5-1.ca2004.1_all.deb Size: 343164 MD5sum: 4ded6b113157d440cc5e9e49887447e1 SHA1: 9df0e86c029ecd4bfa354c93f4a7c117872bd04b SHA256: 388076fb2d2a8e38b538fc90b4003f9d5ae32d5466085f85937e0662538cadc8 SHA512: f86c0ad81ecb27e97a22d19d95556135a951e11584cc5edcc07eaace926cd95c74d875729dbe7c87bb0bfac108a1701edca34c532ea88a54c251102d3e2bbcbc Homepage: https://cran.r-project.org/package=missForest Description: CRAN Package 'missForest' (Nonparametric Missing Value Imputation using Random Forest) The function 'missForest' in this package is used to impute missing values particularly in the case of mixed-type data. It uses a random forest trained on the observed values of a data matrix to predict the missing values. It can be used to impute continuous and/or categorical data including complex interactions and non-linear relations. It yields an out-of-bag (OOB) imputation error estimate without the need of a test set or elaborate cross-validation. It can be run in parallel to save computation time. Package: r-cran-missforestpredict Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 495 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ranger Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-missforestpredict_1.0.1-1.ca2004.1_all.deb Size: 216476 MD5sum: c2351ac5ab9a6c876725894d73541f9a SHA1: a522701d72b6dce91754ea07e212452b472b5d33 SHA256: 87091ffa68a93f95820fc2a1b5091f8da48d56f8b86a04a6a374d2b574ba7860 SHA512: 880a921738b02c09c192302ffab9c5aae59746dc2c7b885a82ee4a8d05cce68c7e3c9f44ec2ed58bb050a058f3100b595eb6d85a6643b541b52b09849391cd50 Homepage: https://cran.r-project.org/package=missForestPredict Description: CRAN Package 'missForestPredict' (Missing Value Imputation using Random Forest for PredictionSettings) Missing data imputation based on the 'missForest' algorithm (Stekhoven, Daniel J (2012) ) with adaptations for prediction settings. The function missForest() is used to impute a (training) dataset with missing values and to learn imputation models that can be later used for imputing new observations. The function missForestPredict() is used to impute one or multiple new observations (test set) using the models learned on the training data. For more details see Albu, E., Gao, S., Wynants, L., & Van Calster, B. (2024). missForestPredict--Missing data imputation for prediction settings . Package: r-cran-missinghandle Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-zoo, r-cran-imputets, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-missinghandle_0.1.1-1.ca2004.1_all.deb Size: 36200 MD5sum: 3b55155dce1a84e563caa65abafb9564 SHA1: 9baf68df945964eac4d7679942ceea14fccb9694 SHA256: 53e1cb34f28c17b4495ce40044081e7347e0462375cc4ff517e14d69e08a91b5 SHA512: e5fbdb41da22bee9b3dd0cfb41fe2651ee7f3fa60234e07434feec08d4334347d6a05246e013c359711b6ae287bc4485ef81cf59bcae55df322da13d8704d60b Homepage: https://cran.r-project.org/package=MissingHandle Description: CRAN Package 'MissingHandle' (Handles Missing Dates and Data and Converts into Weekly andMonthly from Daily) Many times, you will not find data for all dates. After first January, 2011 you may have next data on 20th January, 2011 and so on. Also available dates may have zero values. Try to gather all such kinds of data in different excel sheets of a single excel file. Every sheet will contain two columns (1st one is dates and second one is the data). After loading all the sheets into different elements of a list, using this you can fill the gaps for all the sheets and mark all the corresponding values as zeros. Here I am talking about daily data. Finally, it will combine all the filled results into one data frame (first column is date and other columns will be corresponding values of your sheets) and give one combined data frame. Number of columns in the data frame will be number of sheets plus one. Then imputation will be done. Daily to monthly and weekly conversion is also possible. More details can be found in Garai and others (2023) . 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The package can fit different types of statistical models under a fully Bayesian approach using the software 'JAGS' (which should be installed locally and which is loaded in 'missingHE' via the 'R' package 'R2jags'). Three classes of models can be fitted under a variety of missing data assumptions: selection models, pattern mixture models and hurdle models. In addition to model fitting, 'missingHE' provides a set of specialised functions to assess model convergence and fit, and to summarise the statistical and economic results using different types of measures and graphs. The methods implemented are described in Mason (2018) , Molenberghs (2000) and Gabrio (2019) . 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Package: r-cran-missmda Architecture: all Version: 1.19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 459 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-factominer, r-cran-ggplot2, r-cran-mice, r-cran-mvtnorm, r-cran-doparallel, r-cran-foreach Suggests: r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-missmda_1.19-1.ca2004.1_all.deb Size: 420144 MD5sum: f6c37530116524b83be5bd3794aed367 SHA1: 770063feea60ab767f3739a7d39b21969faccdcc SHA256: cc31538f1d44a7f2bda4ec48da9975c6031bff82f743a321f847df278faf5fa8 SHA512: 3987737f20047fa8ba54e0bc0a6b5eb9fc8a8aa76ea357c397b1820f633b35ba29e39929947953f9f4c4f0ae58b7c63c10fe6e42859e3a8734f2f2056ddfbbc6 Homepage: https://cran.r-project.org/package=missMDA Description: CRAN Package 'missMDA' (Handling Missing Values with Multivariate Data Analysis) Imputation of incomplete continuous or categorical datasets; Missing values are imputed with a principal component analysis (PCA), a multiple correspondence analysis (MCA) model or a multiple factor analysis (MFA) model; Perform multiple imputation with and in PCA or MCA. Package: r-cran-missmech Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-missmech_1.0.4-1.ca2004.1_all.deb Size: 146760 MD5sum: ca72a703095a645c5db8a66fc6c50a89 SHA1: ac222fbd3002cff8ff680ff36a8193de36fc2ae2 SHA256: fb59bc7b25cfb87baad681512b260065fe74b5dcafcd1f7f24c52abbe1ed53cf SHA512: 1ec4af3fd9a51571750d88f360f114e583feeffb46c9bb349504362f8a520adc55c866f60ec077292c5e93768f32eedad2de0a54d9fab216ee57066c5e0d5f6b Homepage: https://cran.r-project.org/package=MissMech Description: CRAN Package 'MissMech' (Testing Homoscedasticity, Multivariate Normality, and MissingCompletely at Random) To test whether the missing data mechanism, in a set of incompletely observed data, is one of missing completely at random (MCAR). For detailed description see Jamshidian, M. Jalal, S., and Jansen, C. (2014). "MissMech: An R Package for Testing Homoscedasticity, Multivariate Normality, and Missing Completely at Random (MCAR)", Journal of Statistical Software, 56(6), 1-31. . Package: r-cran-missmethods Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 333 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-lpsolve, r-cran-norm, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-missmethods_0.4.0-1.ca2004.1_all.deb Size: 259812 MD5sum: f179cc4931d77c260495144f3d2b4bf8 SHA1: a3458ad175263bdf9279611575e2b85f81bf5a5e SHA256: a95eb104fe0a8070c401fe0fbec66ac973a0a12ef81a51226af7ce1ec2d82afe SHA512: 73c552b0f0c9bc4e67abc634b65a18aaad091089db71f6050510575fe3602fe8a936989fab0d0ecd9fdbd1b35c9a4665f37463d413aeae536eb834863230088b Homepage: https://cran.r-project.org/package=missMethods Description: CRAN Package 'missMethods' (Methods for Missing Data) Supply functions for the creation and handling of missing data as well as tools to evaluate missing data methods. Nearly all possibilities of generating missing data discussed by Santos et al. (2019) and some additional are implemented. Functions are supplied to compare parameter estimates and imputed values to true values to evaluate missing data methods. Evaluations of these types are done, for example, by Cetin-Berber et al. (2019) and Kim et al. (2005) . Package: r-cran-misspi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 673 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lightgbm, r-cran-doparallel, r-cran-dosnow, r-cran-foreach, r-cran-ggplot2, r-cran-glmnet, r-cran-sis, r-cran-plotly Suggests: r-cran-e1071, r-cran-neuralnet Filename: pool/dists/focal/main/r-cran-misspi_0.1.0-1.ca2004.1_all.deb Size: 651356 MD5sum: 6982a721d623243df400521ad9cc80cd SHA1: 9334413b9d1cce7995a4d4f630ea4a9354b994d3 SHA256: 85b23f7c2e353eb9f93a358c8cbe16f2c55cf6a322f244031b430d879b88960b SHA512: 1f81f3c184d64247bea0002f51d8f380582a747e5567c4391a330d899709ae4a1c2149cfcc044b60f0a157be839ae5dfec80c3a5c31fa6236d112a074e417a81 Homepage: https://cran.r-project.org/package=misspi Description: CRAN Package 'misspi' (Missing Value Imputation in Parallel) A framework that boosts the imputation of 'missForest' by Stekhoven, D.J. and Bühlmann, P. (2012) by harnessing parallel processing and through the fast Gradient Boosted Decision Trees (GBDT) implementation 'LightGBM' by Ke, Guolin et al.(2017) . 'misspi' has the following main advantages: 1. Allows embrassingly parallel imputation on large scale data. 2. Accepts a variety of machine learning models as methods with friendly user portal. 3. Supports multiple initializations methods. 4. Supports early stopping that prohibits unnecessary iterations. Package: r-cran-missplot Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-missplot_0.1.0-1.ca2004.1_all.deb Size: 16528 MD5sum: e007dc222d73cdbc24f4d00c8321f549 SHA1: 55e0b6e1aa7a0e54bbd58420c9375b18630f18dd SHA256: a3e924ac24f4a2cc2e7201c4a8aa0ecad71a3f7c86350281f0dcb0794cc1f378 SHA512: 6f792346ae4758d2499a704b55e62af97bf0a820c63f67358b8356abf1a71acf1285d4e50caa17fbc7b1100561d581275ec921a2a2e1f27f315de610be8e1728 Homepage: https://cran.r-project.org/package=Missplot Description: CRAN Package 'Missplot' (Missing Plot Technique in Design of Experiment) A system for testing differential effects among treatments in case of Randomised Block Design and Latin Square Design when there is one missing observation. Methods for this process are as described in A.M.Gun,M.K.Gupta and B.Dasgupta(2019,ISBN:81-87567-81-3). Package: r-cran-missr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-norm, r-cran-tibble, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-missr_1.0.1-1.ca2004.1_all.deb Size: 129448 MD5sum: ded3f14545c99c4ab32c72c61c69ac58 SHA1: 50e6928b47946caae46bafd85231fc528c6a71fb SHA256: fe7c18645418ac07df19009bf2b4c6e394b3ef89eb0c15031e5a52383d2e51ac SHA512: b3c4d5d90df894e28f5908ecaa566a02b5c7e09bace6213eef597e7f9f9e4171530daba36a8d76256f138be4197631944230ccfaae29172332d16cafefbf3d2a Homepage: https://cran.r-project.org/package=missr Description: CRAN Package 'missr' (Classify Missing Data as MCAR, MAR, or MNAR) Classify missing data as missing completely at random (MCAR), missing at random (MAR), or missing not at random (MNAR). This step is required before handling missing data (e.g. mean imputation) so that bias is not introduced. See Little (1988) for the statistical rationale for the methods used. Package: r-cran-missranger Architecture: all Version: 2.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fnn, r-cran-ranger Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-missranger_2.6.1-1.ca2004.1_all.deb Size: 88800 MD5sum: 745085a8a7f232e8f2ae61a3540aa68a SHA1: e03814f091f2b5e06a1337b21690f6700e7b7456 SHA256: 1a45b6b1544c25f5fcec8b666589608f55e827e442a5f3307768a06c6822622f SHA512: d04bf6980803945f7067d2eb8f37ab5642cb4a5860ba9aa1b44d08a5b54be801584d5a24f1a780970b61fae51e627b8d1a4c2b34cdfa623da1ef287c1d656707 Homepage: https://cran.r-project.org/package=missRanger Description: CRAN Package 'missRanger' (Fast Imputation of Missing Values) Alternative implementation of the beautiful 'MissForest' algorithm used to impute mixed-type data sets by chaining random forests, introduced by Stekhoven, D.J. and Buehlmann, P. (2012) . Under the hood, it uses the lightning fast random forest package 'ranger'. Between the iterative model fitting, we offer the option of using predictive mean matching. This firstly avoids imputation with values not already present in the original data (like a value 0.3334 in 0-1 coded variable). Secondly, predictive mean matching tries to raise the variance in the resulting conditional distributions to a realistic level. This would allow, e.g., to do multiple imputation when repeating the call to missRanger(). Out-of-sample application is supported as well. Package: r-cran-mist Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-compquadform Filename: pool/dists/focal/main/r-cran-mist_1.0-1.ca2004.1_all.deb Size: 104068 MD5sum: b1548ff4e5a39afd1d4729ab5cdaa2f4 SHA1: db0a0329a3171dce29b5dbe557806fcc0005ca2e SHA256: e24241fd01f1f6cf365a6c55b65803c973f690166fe47837176d2185f695f1fd SHA512: 69c79529e82784f5b1b5c2e1328e9b67f14c46e857fb30fe3a585187415e6b4ee5887dd43ddf82eaa725efa4d0946051d752ce7faeb98f050d5d33be26064ec6 Homepage: https://cran.r-project.org/package=MiST Description: CRAN Package 'MiST' (Mixed effects Score Test for continuous outcomes) Test for association between a set of SNPS/genes and continuous or binary outcomes by including variant characteristic information and using (weighted) score statistics. 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Kenett and S. Zacks with contributions by D. Amberti, John Wiley and Sons, 2021, which is a third revised and expanded revision of "Modern Industrial Statistics: Design and Control of Quality and Reliability", R. Kenett and S. Zacks, Duxbury/Wadsworth Publishing, 1998. Package: r-cran-mistr Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1949 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-bbmle Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-pinp Filename: pool/dists/focal/main/r-cran-mistr_0.0.6-1.ca2004.1_all.deb Size: 1648260 MD5sum: 44d3d56ea323084e2dc903c56d866e2c SHA1: 6a5d7b7b6ad602d6f99d770ac9db5793e12e8029 SHA256: 287f8443311993240a24e138ff7f5cfe7227b6e459644adb36ef3b14e08215aa SHA512: d1f83c40f183da31d1215f31153df200111bb915c8363388741de36330bc1cf9bf992d0660925dd557f30b3a02597134d1c5c70c62c1badf30aa0e9a743eceb5 Homepage: https://cran.r-project.org/package=mistr Description: CRAN Package 'mistr' (Mixture and Composite Distributions) A flexible computational framework for mixture distributions with the focus on the composite models. 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Yanagida') Miscellaneous functions for (1) data management (e.g., grand-mean and group-mean centering, coding variables and reverse coding items, scale and cluster scores, reading and writing Excel and SPSS files), (2) descriptive statistics (e.g., frequency table, cross tabulation, effect size measures), (3) missing data (e.g., descriptive statistics for missing data, missing data pattern, Little's test of Missing Completely at Random, and auxiliary variable analysis), (4) multilevel data (e.g., multilevel descriptive statistics, within-group and between-group correlation matrix, multilevel confirmatory factor analysis, level-specific fit indices, cross-level measurement equivalence evaluation, multilevel composite reliability, and multilevel R-squared measures), (5) item analysis (e.g., confirmatory factor analysis, coefficient alpha and omega, between-group and longitudinal measurement equivalence evaluation), (6) statistical analysis (e.g., bootstrap confidence intervals, collinearity and residual diagnostics, dominance analysis, between- and within-subject analysis of variance, latent class analysis, t-test, z-test, sample size determination), and (7) functions to interact with 'Blimp' and 'Mplus'. Package: r-cran-misuvi Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 436 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-sf, r-cran-tigris Filename: pool/dists/focal/main/r-cran-misuvi_0.1.1-1.ca2004.1_all.deb Size: 405416 MD5sum: 80fffc44cb1bf7b92ecc6e50cc76412a SHA1: dcd26a44c70455ab2553ba9abe7ca34b1ec277ef SHA256: ec65d867f0a25abe4cc6329dd19cff351e58c5ab94749809d17fb0793788bd4e SHA512: 362bcd8e327f6f4034e4ce184a48e9bbc4c31bbd5e9d35ccf2041551919ae246c63f54adbc4a77662d333f81ef3b99838debf8055758b0ec47167b890128f44d Homepage: https://cran.r-project.org/package=misuvi Description: CRAN Package 'misuvi' (Access the Michigan Substance Use Vulnerability Index (MI-SUVI)) Easily import the MI-SUVI data sets. The user can import data sets with full metrics, percentiles, Z-scores, or rankings. Data is available at both the County and Zip Code Tabulation Area (ZCTA) levels. 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(1997) . Package: r-cran-mixchar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2402 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-minpack.lm, r-cran-nloptr, r-cran-zoo, r-cran-tmvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-mixchar_0.1.0-1.ca2004.1_all.deb Size: 1381092 MD5sum: 13233414a77d1947d36cede3b83ac9d6 SHA1: 8e9592c9e07826fe7a3dbbf666a7e7a5ef470c75 SHA256: 5615d56a3051bc5e7d925e8b3f452b97adb7360edd07b278134f474ae8bc45b6 SHA512: d1f0d223178fc956c772835b4cbc3d305c6bc08b10ba64fbe8e3f49f5c70741eab8bb2b3aa01409cd6c8abf6ec7a7fa64021ceb1278ec5c16bd40d260a982a0d Homepage: https://cran.r-project.org/package=mixchar Description: CRAN Package 'mixchar' (Mixture Model for the Deconvolution of Thermal Decay Curves) Deconvolution of thermal decay curves allows you to quantify proportions of biomass components in plant litter. Thermal decay curves derived from thermogravimetric analysis (TGA) are imported, modified, and then modelled in a three- or four- part mixture model using the Fraser-Suzuki function. The output is estimates for weights of pseudo-components corresponding to hemicellulose, cellulose, and lignin. For more information see: Müller-Hagedorn, M. and Bockhorn, H. (2007) , Órfão, J. J. M. and Figueiredo, J. L. (2001) , and Yang, H. and Yan, R. and Chen, H. and Zheng, C. and Lee, D. H. and Liang, D. T. (2006) . Package: r-cran-mixcomp Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 893 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-boot, r-cran-expm, r-cran-matrixcalc, r-cran-rsolnp, r-cran-kdensity Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mixcomp_0.1-2-1.ca2004.1_all.deb Size: 600236 MD5sum: 7b440026544067f9fc8ebd34c6bd7bab SHA1: f9fa149f8fd63a7502080b553f2428295fe4fd59 SHA256: 683c99636fac728c10ed6e054333b8c7604d4ff9a814be122e99b82b369ae97d SHA512: b73689a872203d946511404802a0a5532c73a9f077b910f0ee41e8166cf8cd04de18fe36577376964240d2ec9d0b8e5b27e2d008cbe9c7d5e8cdeede8756a30e Homepage: https://cran.r-project.org/package=mixComp Description: CRAN Package 'mixComp' (Estimation of Order of Mixture Distributions) Methods for estimating the order of a mixture model. The approaches considered are based on the following papers (extensive list of references is available in the vignette): 1. Dacunha-Castelle, Didier, and Elisabeth Gassiat. The estimation of the order of a mixture model. Bernoulli 3, no. 3 (1997): 279-299. . 2. Woo, Mi-Ja, and T. N. Sriram. Robust estimation of mixture complexity. Journal of the American Statistical Association 101, no. 476 (2006): 1475-1486. . 3. Woo, Mi-Ja, and T. N. Sriram. Robust estimation of mixture complexity for count data. Computational statistics & data analysis 51, no. 9 (2007): 4379-4392. . 4. Umashanger, T., and T. N. Sriram. L2E estimation of mixture complexity for count data. Computational statistics & data analysis 53, no. 12 (2009): 4243-4254. . 5. Karlis, Dimitris, and Evdokia Xekalaki. On testing for the number of components in a mixed Poisson model. Annals of the Institute of Statistical Mathematics 51, no. 1 (1999): 149-162. . 6. Cutler, Adele, and Olga I. Cordero-Brana. Minimum Hellinger Distance Estimation for Finite Mixture Models. Journal of the American Statistical Association 91, no. 436 (1996): 1716-1723. . A number of datasets are included. 1. accidents, from Karlis, Dimitris, and Evdokia Xekalaki. On testing for the number of components in a mixed Poisson model. Annals of the Institute of Statistical Mathematics 51, no. 1 (1999): 149-162. . 2. acidity, from Sybil L. Crawford, Morris H. DeGroot, Joseph B. Kadane & Mitchell J. Small (1992) Modeling Lake-Chemistry Distributions: Approximate Bayesian Methods for Estimating a Finite-Mixture Model, Technometrics, 34:4, 441-453. . 3. children, from Thisted, R. A. (1988). Elements of statistical computing: Numerical computation (Vol. 1). CRC Press. 4. faithful, from R package "datasets"; Azzalini, A. and Bowman, A. W. (1990). A look at some data on the Old Faithful geyser. Applied Statistics, 39, 357--365. . 5. shakespeare, from Efron, Bradley, and Ronald Thisted. "Estimating the number of unseen species: How many words did Shakespeare know?." Biometrika 63.3 (1976): 435-447. . Package: r-cran-mixcure Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-boot, r-cran-flexsurv, r-cran-survey, r-cran-gam, r-cran-timereg Filename: pool/dists/focal/main/r-cran-mixcure_2.0-1.ca2004.1_all.deb Size: 82588 MD5sum: 49ba6fd8ed32a3c36ac30d38f95971a4 SHA1: 92d79069f1803be7e5bb401ddf1c2b91debed7e1 SHA256: ebc1a4d8b4118a8e225b3fdcccd0773f365e09d8b413f08eea76eee16d250300 SHA512: debcbd9a293ae82655019de91e1b77429a0e0b2c23dfb42e7ed8f8cfe897735b0cd075985e55bda48e3e6661c7799653eb50d67e7a7554837d8fdec40e24d45b Homepage: https://cran.r-project.org/package=mixcure Description: CRAN Package 'mixcure' (Mixture Cure Models) Implementation of parametric and semiparametric mixture cure models based on existing R packages. See details of the models in Peng and Yu (2020) . Package: r-cran-mixdist Architecture: all Version: 0.5-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mixdist_0.5-5-1.ca2004.1_all.deb Size: 166412 MD5sum: f037e8f4209865dd2653e73fba684d25 SHA1: a6734c661922337d28b76d2ff5ce95339e3d831b SHA256: 0f7c252414b92d6e4371142edb638a7cc5413cdb0f8241799f4069d0ae09fb6d SHA512: 80907cce991e3958a1a5cb88f8d540e5fde63f810d327b6a56042dbbc6e0aa9031242260d9cb4cbcf4f24d3ebfbf7366099fbba261a25c6337e051d5ab4afef9 Homepage: https://cran.r-project.org/package=mixdist Description: CRAN Package 'mixdist' (Finite Mixture Distribution Models) Fit finite mixture distribution models to grouped data and conditional data by maximum likelihood using a combination of a Newton-type algorithm and the EM algorithm. Package: r-cran-mixedbiastest Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-matrix, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-plm Filename: pool/dists/focal/main/r-cran-mixedbiastest_0.3.0-1.ca2004.1_all.deb Size: 42584 MD5sum: c7580c5012155c7fc223ec9ff472066c SHA1: a2a570aebd85e82ba3508b8b7046fbcb3f1116e6 SHA256: 5ce01ca278762ae56e643d5b914bb14e0fc5d4acbc17f5a59951d7eeb9105cae SHA512: b8e9b72724fc8cd636cfd8f3d7d191fd3cb11fadcb2bfb5330232cb3c3cde16824955179b67c7de5d0536cbc4924dc702e74a5bb07e1322969ebc75e8c7dc794 Homepage: https://cran.r-project.org/package=mixedbiastest Description: CRAN Package 'mixedbiastest' (Bias Diagnostic for Linear Mixed Models) Provides a function to perform bias diagnostics on linear mixed models fitted with lmer() from the 'lme4' package. Implements permutation tests for assessing the bias of fixed effects, as described in Karl and Zimmerman (2021) . Karl and Zimmerman (2020) provide R code for implementing the test using 'mvglmmRank' output. Development of this package was assisted by 'GPT o1-preview' for code structure and documentation. Package: r-cran-mixedlevelrsds Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-tords, r-cran-frf2, r-cran-mass Filename: pool/dists/focal/main/r-cran-mixedlevelrsds_1.0.0-1.ca2004.1_all.deb Size: 171820 MD5sum: 950e36b9fe806bf51c99708bd62de776 SHA1: 371aa9188368b13888aa9cd73d0dbf080b718802 SHA256: 93af350f317e01a59a51fe00fa9f6d787741d675fbeb95ad23e88f07244fb9f4 SHA512: 52fe4a9f279f6c093f78c895aa80050da60dc2885f2604373e14a484b0c1f2ba3d753e98de06b6289117bc9c8fec96498f33ff900ef798bd1b1f6b12651631f5 Homepage: https://cran.r-project.org/package=MixedLevelRSDs Description: CRAN Package 'MixedLevelRSDs' (Mixed Level Response Surface Designs) Response Surface Designs (RSDs) involving factors not all at same levels are called Mixed Level RSDs (or Asymmetric RSDs). In many practical situations, RSDs with asymmetric levels will be more suitable as it explores more regions in the design space. (J.S. Mehta and M.N. Das (1968) . "Asymmetric rotatable designs and orthogonal transformations").This package contains function named ATORDs_I() for generating asymmetric third order rotatable designs (ATORDs) based on third order designs given by Das and Narasimham (1962). Function ATORDs_II() generates asymmetric third order rotatable designs developed using t-design of unequal set sizes, which are smaller in size as compared to design generated by function ATORDs_I(). In general, third order rotatable designs can be classified into two classes viz., designs that are suitable for sequential experimentation and designs for non-sequential experimentation. The sequential experimentation approach involves conducting the trials step by step whereas, in the non-sequential experimentation approach, the entire runs are executed in one go (M. N. Das and V. Narasimham (1962) . "Construction of Rotatable Designs through Balanced Incomplete Block Designs"). ATORDs_I() and ATORDs_II() functions generate non-sequential asymmetric third order designs. Function named SeqTORD() generates symmetric sequential third order design in blocks and also gives G-efficiency of the given design. Function named Asymseq() generates asymmetric sequential third order designs in blocks (M. Hemavathi, Eldho Varghese, Shashi Shekhar and Seema Jaggi (2020) . "Sequential asymmetric third order rotatable designs (SATORDs)"). In response surface design, situations may arise in which some of the factors are qualitative in nature (Jyoti Divecha and Bharat Tarapara (2017) . "Small, balanced, efficient, optimal, and near rotatable response surface designs for factorial experiments asymmetrical in some quantitative, qualitative factors"). The Function named QualRSD() generates second order design with qualitative factors along with their D-efficiency and G-efficiency. The function named RotatabilityQ() calculates a measure of rotatability (measure Q, 0 <= Q <= 1) given by Draper and Pukelshiem(1990) for given a design based on a second order model, (Norman R. Draper and Friedrich Pukelsheim(1990) . "Another look at rotatability"). Package: r-cran-mixedlsr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 241 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-grpreg, r-cran-purrr, r-cran-mass, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-mclust Filename: pool/dists/focal/main/r-cran-mixedlsr_0.1.0-1.ca2004.1_all.deb Size: 187320 MD5sum: ebcedfe453de0883e1f143cf07874181 SHA1: 806d1a65cfa2492e8d7143174eb30ea0acf465c7 SHA256: 2f2fddb2fef5a0f57a2444734a3b8549834f63897d194dfe0ba9807dc9d6e391 SHA512: ee24c76d6c5ead11061d72de57a1dd9ad52333e54829a35cfc4d886a951e8f66ad5a35f3b533590b54949d85b3606558c45419fc1d061a4ff073ad738d33bce7 Homepage: https://cran.r-project.org/package=mixedLSR Description: CRAN Package 'mixedLSR' (Mixed, Low-Rank, and Sparse Multivariate Regression onHigh-Dimensional Data) Mixed, low-rank, and sparse multivariate regression ('mixedLSR') provides tools for performing mixture regression when the coefficient matrix is low-rank and sparse. 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The models are all based on the generalized hyperbolic distribution. The first model 'MGHD' (Browne and McNicholas (2015) ) is the classical mixture of generalized hyperbolic distributions. The 'MGHFA' (Tortora et al. (2016) ) is the mixture of generalized hyperbolic factor analyzers for high dimensional data sets. The 'MSGHD' is the mixture of multiple scaled generalized hyperbolic distributions, the 'cMSGHD' is a 'MSGHD' with convex contour plots and the 'MCGHD', mixture of coalesced generalized hyperbolic distributions is a new more flexible model (Tortora et al. (2019). The paper related to the software can be found at . 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Package: r-cran-mixkernel Architecture: all Version: 0.9-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3402 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-mixomics, r-cran-ggplot2, r-cran-reticulate, r-cran-vegan, r-bioc-phyloseq, r-cran-corrplot, r-cran-psych, r-cran-quadprog, r-cran-ldrtools, r-cran-matrix, r-cran-markdown Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-mixkernel_0.9-2-1.ca2004.1_all.deb Size: 2179008 MD5sum: d7638d4f82604d0d8d31c32d473fee39 SHA1: b4ab4a4eb63d4273c37bb7b180135e27d079767a SHA256: 880635a7d9af5b4613b3cc1dc6a4964db990bc8185025e1ffdbeafd6c9a5c810 SHA512: 28969c0513fdcd429dbdb012c6534bb1c5396ef356808835e803bcbacf60e36aa7ac818d0dbbe2658a96f8f896ec351bef797daabb007a1c0539042ce2d08443 Homepage: https://cran.r-project.org/package=mixKernel Description: CRAN Package 'mixKernel' (Omics Data Integration Using Kernel Methods) Kernel-based methods are powerful methods for integrating heterogeneous types of data. mixKernel aims at providing methods to combine kernel for unsupervised exploratory analysis. 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Package: r-cran-mixmap Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 556 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-mixmap_1.3.4-1.ca2004.1_all.deb Size: 518080 MD5sum: 7b83050564f1222114017d5750e20fa8 SHA1: 9c0bfbe7b848b5eeaa454b2ef8b2ecdc206eed0c SHA256: 15e6d3a39a765af8fedd65ae74e7e81aa37b7e5b550dd47e675ac00aaf27025d SHA512: af9b62bfa3c3045c6de5fc69e0a7c12333414fd53d9081486a602c1b43f6066a4e436a9e487427a178dd42444695f2b0e2b7ce9beb9da6b3a641a0647e3dad82 Homepage: https://cran.r-project.org/package=MixMAP Description: CRAN Package 'MixMAP' (Implements the MixMAP Algorithm) A collection of functions to implement the MixMAP algorithm, which performs gene level tests of association using data from a previous GWAS or data from a meta-analysis of several GWAS. 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"The design of order-of-addition experiments." Journal of Quality Technology 51:3, 230-241, . Provides facility to construct component orthogonal arrays, see Jian-Feng Yang, Fasheng Sun and Hongquan Xu (2020). "A Component Position Model, Analysis and Design for Order-of-Addition Experiments." Technometrics, . Supports generation of fractional designs for order-of-addition mixture experiments. Analysis of data from order-of-addition mixture experiments is also supported. 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A generalized expectation-maximization framework is used for parameter estimation. See citation() for how to cite. 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Package: r-cran-mixtnb Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mixtnb_1.0-1.ca2004.1_all.deb Size: 30584 MD5sum: 652260d6dc751775ab434375d6216227 SHA1: e5ff6331b82f80326cf702eb879282f9bdfc1aa0 SHA256: d43200c0da56a908bc4d45a40cd4e3a204bfb1e5a377cbfc7279545b4a0d308f SHA512: a5a4234f215a3dec04f52285ca4cba0d8d64dcad780470b1e6405e2ef3a2c4dda7339b91e6ae3e437a1736bb01bf429d265c919a59f89f058c045fa9d488a854 Homepage: https://cran.r-project.org/package=mixtNB Description: CRAN Package 'mixtNB' (DE Analysis of RNA-Seq Data by Mixtures of NB) Differential expression analysis of RNA-Seq data when replicates under two conditions are available is performed. First, mixtures of Negative Binomial distributions are fitted on the data in order to estimate the dispersions, then the Wald test is computed. Package: r-cran-mixtox Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 613 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-minpack.lm Filename: pool/dists/focal/main/r-cran-mixtox_1.4.0-1.ca2004.1_all.deb Size: 588780 MD5sum: 0e7a6fe5e8f48a263ae3e70d41aa1752 SHA1: d65f0a10de86ef82001e89072a5402e2a5c225c0 SHA256: 110db66540217d69aeedeaa91b44629f19d1b3ddb47dd6871955f2325c8b00dc SHA512: 230e7088b4a93893c191e251433ad856df4cb770b284510139a3306ff56dacad2b722d826a3320f290e27e786697303f1858a4506060364b27bb0adbdc78f271 Homepage: https://cran.r-project.org/package=mixtox Description: CRAN Package 'mixtox' (Dose Response Curve Fitting and Mixture Toxicity Assessment) Curve Fitting of monotonic(sigmoidal) & non-monotonic(J-shaped) dose-response data. Predicting mixture toxicity based on reference models such as 'concentration addition', 'independent action', and 'generalized concentration addition'. Package: r-cran-mixtree Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph, r-cran-treespace, r-cran-vegan Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mixtree_0.0.1-1.ca2004.1_all.deb Size: 127752 MD5sum: f9f8bc13b502e880f8ebd39a2eff5882 SHA1: 143c50acf99094bd4790d3fa125ba5d5d5273fc7 SHA256: 7e59b75c1d87eac1f5cace33381b7a725c962e520014e12187917835d82eb1ed SHA512: b6216285bbca2211cb0bc10f480d93b6c052ff3682af8de2ce6ecac78d1f42aa5214b4a2daaadfc64a6341c706998f446cc439f3c1ed06e6e107ca08a306ca22 Homepage: https://cran.r-project.org/package=mixtree Description: CRAN Package 'mixtree' (A Statistical Framework for Comparing Sets of Trees) Statistical framework for comparing sets of trees using hypothesis testing methods. Designed for transmission trees, phylogenetic trees, and directed acyclic graphs (DAGs), the package implements chi-squared tests to compare edge frequencies between sets and PERMANOVA to analyse topological dissimilarities with customisable distance metrics, following Anderson (2001) . Package: r-cran-mixtur Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 509 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-rlang, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mixtur_1.2.1-1.ca2004.1_all.deb Size: 474976 MD5sum: 0d4635b6427b30e8253096edcd838fce SHA1: a5f18bd0271eceef0457f919d10462dd305bc427 SHA256: ce607dffa451b5a02d80d01061e4bcbe74108ed5181aaeed6f749f98d6aba4de SHA512: 307318a8c7d48932b0ae10cbe358067fe08feb80ad69bf175b138cd67cb2b4d20971c566ffdcb95869666fd9de4271cf4bd6b39504976b8b99b31c26d724a5f3 Homepage: https://cran.r-project.org/package=mixtur Description: CRAN Package 'mixtur' (Modelling Continuous Report Visual Short-Term Memory Studies) A set of utility functions for analysing and modelling data from continuous report short-term memory experiments using either the 2-component mixture model of Zhang and Luck (2008) or the 3-component mixture model of Bays et al. (2009) . Users are also able to simulate from these models. Package: r-cran-mixtureinf Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 329 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-quadprog Filename: pool/dists/focal/main/r-cran-mixtureinf_1.1-1.ca2004.1_all.deb Size: 279584 MD5sum: d9fed0e8459688a4aca0b4ce64d559cb SHA1: 1910ac5ec07ffad5df6405142c12d10a17aed16a SHA256: 540536f4bc32266c81a5ac3c5bf98d8a3c59c3a3e8fa857f5b6a85e8163e3744 SHA512: 50671d420fc9179930ba78ea84e3a276659c7a7bd060ea98d67b3ac27be87038380517813bfdaa6d6908a103468c7279b96eb831b62c7069a8ab793baa7260ec Homepage: https://cran.r-project.org/package=MixtureInf Description: CRAN Package 'MixtureInf' (Inference for Finite Mixture Models) Functions for computing the penalized maximum likelihood estimate (PMLE) or maximum likelihood estimate (MLE), testing the order of a finite mixture model using EM-test, drawing histogram of observations and the fitted density or probability mass function of the mixture model. Package: r-cran-mixturemissing Architecture: all Version: 3.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 311 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm, r-cran-mnormt, r-cran-cluster, r-cran-mass, r-cran-numderiv, r-cran-bessel, r-cran-mclust, r-cran-mice Filename: pool/dists/focal/main/r-cran-mixturemissing_3.0.4-1.ca2004.1_all.deb Size: 284804 MD5sum: 7413b280f41b3e000e87d7f0986eac68 SHA1: 06863f2af03fd94faa1935a7af49210ed9e9e130 SHA256: 9369729cbdcc19ed0a3b29cf8478ce136299454e371c8dab6da2de9085f0dc36 SHA512: 519d80c9cc070d920e9ec953da3508d62a4ab9a604799db960336206cdeabffcedd761ab53221a8af18827a9519bd6f83422d0043f900575769256cd26f89042 Homepage: https://cran.r-project.org/package=MixtureMissing Description: CRAN Package 'MixtureMissing' (Robust and Flexible Model-Based Clustering for Data Sets withMissing Values at Random) Implementations of various robust and flexible model-based clustering methods for data sets with missing values at random. Two main models are: Multivariate Contaminated Normal Mixture (MCNM, Tong and Tortora, 2022, ) and Multivariate Generalized Hyperbolic Mixture (MGHM, Wei et al., 2019, ). Mixtures via some special or limiting cases of the multivariate generalized hyperbolic distribution are also included: Normal-Inverse Gaussian, Symmetric Normal-Inverse Gaussian, Skew-Cauchy, Cauchy, Skew-t, Student's t, Normal, Symmetric Generalized Hyperbolic, Hyperbolic Univariate Marginals, Hyperbolic, and Symmetric Hyperbolic. Package: r-cran-mixtwice Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2153 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-alabama, r-cran-ashr, r-cran-fdrtool, r-cran-iso Filename: pool/dists/focal/main/r-cran-mixtwice_2.0-1.ca2004.1_all.deb Size: 2173588 MD5sum: 6fd3e0cff7ce7675206250310ed5f01d SHA1: 87cbe027608ab4aeb4daacc98e2c0357d9c88736 SHA256: 0bef1f0e3e9db19d843ad15308903c7925552f6a1cd86b5bda254e5117ddbfaa SHA512: 2f13451382cc231d85a9939ec3fc43946b860e70706c81f2c29101aaf740c2c5269a83054ea3714412e5eb18eecf903425dcaed668552a9eb35f3261601c4f4c Homepage: https://cran.r-project.org/package=MixTwice Description: CRAN Package 'MixTwice' (Large-Scale Hypothesis Testing by Variance Mixing) Implements large-scale hypothesis testing by variance mixing. It takes two statistics per testing unit -- an estimated effect and its associated squared standard error -- and fits a nonparametric, shape-constrained mixture separately on two latent parameters. It reports local false discovery rates (lfdr) and local false sign rates (lfsr). Manuscript describing algorithm of MixTwice: Zheng et al(2021) . Package: r-cran-mixvir Architecture: all Version: 3.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4054 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-bioc-biostrings, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-glue, r-cran-httr, r-cran-lubridate, r-cran-magrittr, r-cran-plotly, r-cran-readr, r-cran-shiny, r-cran-stringr, r-cran-tidyr, r-cran-vcfr Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-mixvir_3.5.0-1.ca2004.1_all.deb Size: 1778212 MD5sum: 50507ad974f33e49f248b489b4f32c99 SHA1: 590da5090849351cb576aebbb5b169ed1d3c10a1 SHA256: 8e1dab295e56ec53415e162ba7e80ad11eecd19ed54a1bf2b7808618d0ba1c88 SHA512: 7bb0e528125c232766ee30eb93ab0e2dc1d6c592c56a3e56e62a7169d4636256c0ce00d49828539340536485e74f9840811a7d9792936aeb8bfd4a85961153d3 Homepage: https://cran.r-project.org/package=MixviR Description: CRAN Package 'MixviR' (Analysis and Exploration of Mixed Microbial Genomic Samples) Tool for exploring DNA and amino acid variation and inferring the presence of target lineages from microbial high-throughput genomic DNA samples that potentially contain mixtures of variants/lineages. MixviR was originally created to help analyze environmental SARS-CoV-2/Covid-19 samples from environmental sources such as wastewater or dust, but can be applied to any microbial group. Inputs include reference genome information in commonly-used file formats (fasta, bed) and one or more variant call format (VCF) files, which can be generated with programs such as Illumina's DRAGEN, the Genome Analysis Toolkit, or bcftools. See DePristo et al (2011) and Danecek et al (2021) for these tools, respectively. Available outputs include a table of mutations observed in the sample(s), estimates of proportions of target lineages in the sample(s), and an R Shiny dashboard to interactively explore the data. Package: r-cran-mize Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 702 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-mize_0.2.4-1.ca2004.1_all.deb Size: 394260 MD5sum: 993fd1bb791642341b37b45bb6c9df43 SHA1: c4174dcba0f795270c2a1b19cd91d51ca77719c4 SHA256: b1b45feb4d2c53eb02ca65e7edca2ad2991e85d6291986217c978aa1354608dd SHA512: 0878604fc1fc01871fde0cec17dd80df62f3b37c7e98b4cf501c3f47fe6aad571291baaa68509801518c0c9febfcb19a0b2865d47fd81ac9f599671215c774a2 Homepage: https://cran.r-project.org/package=mize Description: CRAN Package 'mize' (Unconstrained Numerical Optimization Algorithms) Optimization algorithms implemented in R, including conjugate gradient (CG), Broyden-Fletcher-Goldfarb-Shanno (BFGS) and the limited memory BFGS (L-BFGS) methods. Most internal parameters can be set through the call interface. The solvers hold up quite well for higher-dimensional problems. Package: r-cran-mkclass Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-foreach, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-mkclass_0.5-1.ca2004.1_all.deb Size: 154656 MD5sum: dc85d9c804477e5f889859f6a8b5e176 SHA1: 3f5789fb101dffe41d405c0cb420f041379120d9 SHA256: 96a9a5441be2f4713dc475336a7590919375fcf3ba83f2db2a3c6c5e30eb3084 SHA512: 40b1fb528ee7047dde982cf2009c8b110e61d2a479ae9d3babdb157ff784039d23e50327a65ee45ea342f742456f49816f1b48ddba0b44cb2ff93f5c00bf796c Homepage: https://cran.r-project.org/package=MKclass Description: CRAN Package 'MKclass' (Statistical Classification) Performance measures and scores for statistical classification such as accuracy, sensitivity, specificity, recall, similarity coefficients, AUC, GINI index, Brier score and many more. Calculation of optimal cut-offs and decision stumps (Iba and Langley (1991), ) for all implemented performance measures. Hosmer-Lemeshow goodness of fit tests (Lemeshow and Hosmer (1982), ; Hosmer et al (1997), ). Statistical and epidemiological risk measures such as relative risk, odds ratio, number needed to treat (Porta (2014), ). Package: r-cran-mkdescr Architecture: all Version: 0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 586 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mkdescr_0.8-1.ca2004.1_all.deb Size: 372344 MD5sum: abb143f9d1a71ae4b8071e20499c70ee SHA1: 1c1c46878438d02dccb7f5fbcee122566238a512 SHA256: 007c07e21c956da1bd19aa4bf47867a34943823791b0c175a223dc835bf70327 SHA512: 587c9995f5159c9220edcd8d664bd1581c15e713cbe92d436f94e3d34d3ba42d00d59820b25412efb75ff75b784819efd349a06493abd767d3f03949fa7e215c Homepage: https://cran.r-project.org/package=MKdescr Description: CRAN Package 'MKdescr' (Descriptive Statistics) Computation of standardized interquartile range (IQR), Huber-type skipped mean (Hampel (1985), ), robust coefficient of variation (CV) (Arachchige et al. (2019), ), robust signal to noise ratio (SNR), z-score, standardized mean difference (SMD), as well as functions that support graphical visualization such as boxplots based on quartiles (not hinges), negative logarithms and generalized logarithms for 'ggplot2' (Wickham (2016), ISBN:978-3-319-24277-4). Package: r-cran-mkendall Architecture: all Version: 1.5-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mkendall_1.5-4-1.ca2004.1_all.deb Size: 22760 MD5sum: 22cfd415ef2a2d8da9dfe243379252cd SHA1: b74b7ed8f50599610a07c3289b405d1d3146b82b SHA256: 4a22edf6f114650972c9c83a2c7b375fc87d79d207eb63466e3caca55c6a6efd SHA512: cbbf77767ebfd5f47001591df016dccb825beb06c4e6aebf37d5073ffda4af5c9decf416e7134976170efb5257df74c22dda3168e7424d3c7c3586e9b2794076 Homepage: https://cran.r-project.org/package=MKendall Description: CRAN Package 'MKendall' (Matrix Kendall's Tau and Matrix Elliptical Factor Model) Large-scale matrix-variate data have been widely observed nowadays in various research areas such as finance, signal processing and medical imaging. Modelling matrix-valued data by matrix-elliptical family not only provides a flexible way to handle heavy-tail property and tail dependencies, but also maintains the intrinsic row and column structure of random matrices. We proposed a new tool named matrix Kendall's tau which is efficient for analyzing random elliptical matrices. By applying this new type of Kendell’s tau to the matrix elliptical factor model, we propose a Matrix-type Robust Two-Step (MRTS) method to estimate the loading and factor spaces. See the details in He at al. (2022) . In this package, we provide the algorithms for calculating sample matrix Kendall's tau, the MRTS method and the Matrix Kendall's tau Eigenvalue-Ratio (MKER) method which is used for determining the number of factors. Package: r-cran-mkin Architecture: all Version: 1.2.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3909 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-desolve, r-cran-r6, r-cran-inline, r-cran-numderiv, r-cran-lmtest, r-cran-pkgbuild, r-cran-nlme, r-cran-saemix, r-cran-rlang, r-cran-vctrs Suggests: r-cran-knitr, r-cran-rbenchmark, r-cran-tikzdevice, r-cran-testthat, r-cran-rmarkdown, r-cran-covr, r-cran-vdiffr, r-cran-benchmarkme, r-cran-tibble, r-cran-readxl Filename: pool/dists/focal/main/r-cran-mkin_1.2.10-1.ca2004.1_all.deb Size: 2792364 MD5sum: eea0b45d55b3ef15174d010da2771375 SHA1: 0763c3f1c294f76461d27b244a270e7bff03c8ba SHA256: 1a1dd56a9c33250dbd57573b6187db7dcc6ecf047a640ac943472be1609a4483 SHA512: 7a1288b6f64ca79ec3e55fd37dae9baa70b62a71e11971f47b3a9cc7295d60984d02e61f93d41f407d502f7c8d0659f35b24313a8709b563e8819fb123cff674 Homepage: https://cran.r-project.org/package=mkin Description: CRAN Package 'mkin' (Kinetic Evaluation of Chemical Degradation Data) Calculation routines based on the FOCUS Kinetics Report (2006, 2014). Includes a function for conveniently defining differential equation models, model solution based on eigenvalues if possible or using numerical solvers. If a C compiler (on windows: 'Rtools') is installed, differential equation models are solved using automatically generated C functions. Non-constant errors can be taken into account using variance by variable or two-component error models . Hierarchical degradation models can be fitted using nonlinear mixed-effects model packages as a back end . Please note that no warranty is implied for correctness of results or fitness for a particular purpose. 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(2000), ISBN:978-0-727-91375-3; Hedderich and Sachs (2018), ISBN:978-3-662-56657-2) including bootstrapped versions (Davison and Hinkley (1997), ISBN:978-0-511-80284-3) as well as Hsu (Hedderich and Sachs (2018), ISBN:978-3-662-56657-2), permutation (Janssen (1997), ), bootstrap (Davison and Hinkley (1997), ISBN:978-0-511-80284-3), intersection-union (Sozu et al. (2015), ISBN:978-3-319-22005-5) and multiple imputation (Barnard and Rubin (1999), ) t-test; furthermore, computation of intersection-union z-test as well as multiple imputation Wilcoxon tests. Graphical visualization by volcano and Bland-Altman plots (Bland and Altman (1986), ; Shieh (2018), ). 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Package: r-cran-mkmeans Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mkmeans_3.1-1.ca2004.1_all.deb Size: 24820 MD5sum: 2d86220a92483b0913a89ee2648c1d82 SHA1: 9a3a02ff908842b8b0ab9103b9547a271729cf6e SHA256: 86d8acd3b6a3cc4679291f40cb3e063e6943847844e97119a20e95aea85f8de0 SHA512: 93eee107f195d5ab9f0dc2c1c7039550c02992247b7a40e7089366e1dc1e309b79fe0050cd159d66a2f4650b7a1f6fa3a3340dc3505a60a03a6c74e5dba8de9d Homepage: https://cran.r-project.org/package=MKMeans Description: CRAN Package 'MKMeans' (A Modern K-Means (MKMeans) Clustering Algorithm) It's a Modern K-Means clustering algorithm allowing data of any number of dimensions, any initial center, and any number of clusters to expect. 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Package: r-cran-mkpower Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 709 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrixtests, r-cran-ggplot2, r-cran-mkdescr, r-cran-mkinfer, r-cran-qqplotr, r-cran-coin, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mkpower_1.0-1.ca2004.1_all.deb Size: 492796 MD5sum: 800d21367300a6fc5d054dff754b99d1 SHA1: 2a9f7c869b7d1d8dd73d75d2cc2081532cb99092 SHA256: cb9c91f20222f51a34cf17492f924a86f81e4eb401a09559d1c4e7f18af26570 SHA512: dfdce8f0dd67b81fd9ee3c1902e9de8c9ba2cf61110dd80c47b3547f34d0155bead4ea9e3606469003a8a7cc5dec6254af956de478729bda680bb376213efd75 Homepage: https://cran.r-project.org/package=MKpower Description: CRAN Package 'MKpower' (Power Analysis and Sample Size Calculation) Power analysis and sample size calculation for Welch and Hsu (Hedderich and Sachs (2018), ISBN:978-3-662-56657-2) t-tests including Monte-Carlo simulations of empirical power and type-I-error. Power and sample size calculation for Wilcoxon rank sum and signed rank tests via Monte-Carlo simulations. Power and sample size required for the evaluation of a diagnostic test(-system) (Flahault et al. (2005), ; Dobbin and Simon (2007), ) as well as for a single proportion (Fleiss et al. (2003), ISBN:978-0-471-52629-2; Piegorsch (2004), ; Thulin (2014), ), comparing two negative binomial rates (Zhu and Lakkis (2014), ), ANCOVA (Shieh (2020), ), reference ranges (Jennen-Steinmetz and Wellek (2005), ), multiple primary endpoints (Sozu et al. (2015), ISBN:978-3-319-22005-5), and AUC (Hanley and McNeil (1982), ). Package: r-cran-mkssd Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mkssd_1.2-1.ca2004.1_all.deb Size: 22088 MD5sum: 4aece1697b94872d29c28df1f7ee06c1 SHA1: 513e137a17f087cfed029adfea12822972c0a6d6 SHA256: 1dba1cac81feb8737f4b49eac8559452cfc3661ba5159c9d14821f75eec251fa SHA512: 7792d86ca699dfd66102eddd54670109b126359eea1978726ece9a38422cdf50eda4b8cb814e604272fa6df6a2e2594e4b8aff081f1b34cbf7e161e3fadf8c47 Homepage: https://cran.r-project.org/package=mkssd Description: CRAN Package 'mkssd' (Efficient Multi-Level k-Circulant Supersaturated Designs) Generates efficient balanced non-aliased multi-level k-circulant supersaturated designs by interchanging the elements of the generator vector. Attempts to generate a supersaturated design that has chisquare efficiency more than user specified efficiency level (mef). Displays the progress of generation of an efficient multi-level k-circulant design through a progress bar. The progress of 100% means that one full round of interchange is completed. More than one full round (typically 4-5 rounds) of interchange may be required for larger designs. Package: r-cran-ml.msbd Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 742 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-foreach Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-ml.msbd_1.2.1-1.ca2004.1_all.deb Size: 270852 MD5sum: 161c880adc7605a02aeb7fe5848f74d5 SHA1: f8b8405ab5f45e6cdb0350e03c21298ebdcb39b3 SHA256: 32ac3534b2693478d6c81aed93f5f0b708bfedc512a0e2fcae9989392e928467 SHA512: cc30993edfe07f54e98b772f3bd188e271036f99b067127c206c8b3f3e894993bd1646595cc2e9bec88c08899d3c11cf56fd9e2030f63fb8c2a4236a64bb2500 Homepage: https://cran.r-project.org/package=ML.MSBD Description: CRAN Package 'ML.MSBD' (Maximum Likelihood Inference on Multi-State Trees) Inference of a multi-states birth-death model from a phylogeny, comprising a number of states N, birth and death rates for each state and on which edges each state appears. Inference is done using a hybrid approach: states are progressively added in a greedy approach. For a fixed number of states N the best model is selected via maximum likelihood. Reference: J. Barido-Sottani, T. G. Vaughan and T. Stadler (2018) . Package: r-cran-ml2pvae Architecture: all Version: 1.0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 308 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-keras, r-cran-reticulate, r-cran-tensorflow, r-cran-tfprobability Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-ml2pvae_1.0.0.1-1.ca2004.1_all.deb Size: 263836 MD5sum: c3c7b487da4efb0e113d3c61361dbcd1 SHA1: 34574214640387736f25742f5aafde16e71ab03a SHA256: cbdffe2b95f6d2248e9b2c977936d1957cfd275ddce7af65469b1c77fb9428fc SHA512: 5b67823fceaed8076fc1b41dbcdfa9dad3908923d0a6e74ad5c927aa0af7d511b02f60279e7f39df262db250253176edbd3c593710ea71e9b6a1307ac255269f Homepage: https://cran.r-project.org/package=ML2Pvae Description: CRAN Package 'ML2Pvae' (Variational Autoencoder Models for IRT Parameter Estimation) Based on the work of Curi, Converse, Hajewski, and Oliveira (2019) . This package provides easy-to-use functions which create a variational autoencoder (VAE) to be used for parameter estimation in Item Response Theory (IRT) - namely the Multidimensional Logistic 2-Parameter (ML2P) model. To use a neural network as such, nontrivial modifications to the architecture must be made, such as restricting the nonzero weights in the decoder according to some binary matrix Q. The functions in this package allow for straight-forward construction, training, and evaluation so that minimal knowledge of 'tensorflow' or 'keras' is required. 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The list includes more than 100 functions for univariate continuous and discrete distributions, distributions that lie on the real line, the positive line, interval restricted, circular distributions. Further, multivariate continuous and discrete distributions, distributions for compositional and directional data, etc. Some references include Johnson N. L., Kotz S. and Balakrishnan N. (1994). "Continuous Univariate Distributions, Volume 1" , Johnson, Norman L. Kemp, Adrianne W. Kotz, Samuel (2005). "Univariate Discrete Distributions". and Mardia, K. V. and Jupp, P. E. (2000). "Directional Statistics". . 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The scope, at present, covers multilevel models where the set of nodes is nested within known blocks. The estimation method uses Monte-Carlo maximum likelihood estimation (MCMLE) methods to estimate a variety of canonical or curved exponential family models for binary random graphs. MCMLE methods for curved exponential-family random graph models can be found in Hunter and Handcock (JCGS, 2006). The package supports parallel computing, and provides methods for assessing goodness-of-fit of models and visualization of networks. 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'MLeval' can produce receiver operating characteristic (ROC) curves, precision-recall (PR) curves, calibration curves, and PR gain curves. 'MLeval' accepts a data frame of class probabilities and ground truth labels, or, it can automatically interpret the Caret train function results from repeated cross validation, then select the best model and analyse the results. 'MLeval' produces a range of evaluation metrics with confidence intervals. Package: r-cran-mlexperiments Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1294 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-kdry, r-cran-progress, r-cran-r6, r-cran-splittools Suggests: r-cran-class, r-cran-lintr, r-cran-mlbench, r-cran-mlr3measures, r-cran-parbayesianoptimization, r-cran-quarto, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlexperiments_0.0.5-1.ca2004.1_all.deb Size: 571308 MD5sum: b83282fb21f1956e5dcbfeb21b23d6c1 SHA1: b103a78c300e007c59e8e252445439e27b993ca9 SHA256: 7800577d5717b555a1ed81a1d74070fb6c23c5d7e03d82827a32830ee505d9a5 SHA512: 75c07790f4c6d2f10fbd5f041a89267b2b57516ba40f3d6c39735a810b7644d33b3632fd989eb1d058899e02737595423e58bb8d847d8db4557b1ad40ed27ddd Homepage: https://cran.r-project.org/package=mlexperiments Description: CRAN Package 'mlexperiments' (Machine Learning Experiments) Provides 'R6' objects to perform parallelized hyperparameter optimization and cross-validation. Hyperparameter optimization can be performed with Bayesian optimization (via 'ParBayesianOptimization' ) and grid search. The optimized hyperparameters can be validated using k-fold cross-validation. Alternatively, hyperparameter optimization and validation can be performed with nested cross-validation. While 'mlexperiments' focuses on core wrappers for machine learning experiments, additional learner algorithms can be supplemented by inheriting from the provided learner base class. Package: r-cran-mlf Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mlf_1.2.1-1.ca2004.1_all.deb Size: 44968 MD5sum: 2765c928c3748dc75466c9ec1ea07e4f SHA1: d4a46d076d1fe352b28562a8e8bea22fbf46052f SHA256: 175909786e96b4d3bb1947a70c2ee12c7753ae97e4622ec2aa245767888db50d SHA512: 2b58c6b0f1b6ebc46ff08eccab65c3eadf4208414395edd65fe98cbfcf124e232416837562c539e2ff6c9910148510a2c9fbd39c454a81f60ceee3f64e374adc Homepage: https://cran.r-project.org/package=mlf Description: CRAN Package 'mlf' (Machine Learning Foundations) Offers a gentle introduction to machine learning concepts for practitioners with a statistical pedigree: decomposition of model error (bias-variance trade-off), nonlinear correlations, information theory and functional permutation/bootstrap simulations. Székely GJ, Rizzo ML, Bakirov NK. (2007). . Reshef DN, Reshef YA, Finucane HK, Grossman SR, McVean G, Turnbaugh PJ, Lander ES, Mitzenmacher M, Sabeti PC. (2011). . 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This package offers implementations for several algorithms that extend this to nested structures: 'parent' and 'child' items for both of which constraints can be provided. The fitting algorithms include Iterative Proportional Updating , Hierarchical IPF , Entropy Optimization , and Generalized Raking . Additionally, a number of replication methods is also provided such as 'Truncate, replicate, sample' . Package: r-cran-mlflow Architecture: all Version: 2.22.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-base64enc, r-cran-forge, r-cran-fs, r-cran-git2r, r-cran-glue, r-cran-httpuv, r-cran-httr, r-cran-ini, r-cran-jsonlite, r-cran-openssl, r-cran-processx, r-cran-purrr, r-cran-rlang, r-cran-swagger, r-cran-tibble, r-cran-withr, r-cran-yaml, r-cran-zeallot Suggests: r-cran-carrier, r-cran-covr, r-cran-h2o, r-cran-keras, r-cran-lintr, r-cran-sparklyr, r-cran-stringi, r-cran-testthat, r-cran-reticulate, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-mlflow_2.22.1-1.ca2004.1_all.deb Size: 236480 MD5sum: c1ddbd4a4a7ba65b356d6709ad23b62d SHA1: 5d820aa38a8ceee01c2de2d1f0c17d4ad342637f SHA256: c3c45588a325471b2bf49b5f35697ff9c35b97e8a79dbdad0066c0b4037deb00 SHA512: 593b4aaebf63be28108f5da5e3c51a3999708ab060e371102ef38ab90ce44b0f15dfb9b3729a52b8afc48ed092fdcad8dfc1742387be07b8cceb32c6aaaea1fc Homepage: https://cran.r-project.org/package=mlflow Description: CRAN Package 'mlflow' (Interface to 'MLflow') R interface to 'MLflow', open source platform for the complete machine learning life cycle, see . This package supports installing 'MLflow', tracking experiments, creating and running projects, and saving and serving models. Package: r-cran-mlfs Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2025 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-pscl, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-mlfs_0.4.2-1.ca2004.1_all.deb Size: 2009196 MD5sum: aadf22d6a233c96018da6108f420b0cf SHA1: b1d05f04b4c6fdc0a7d276f3a05202044c1a9804 SHA256: fa61511c9ce959f42831506f5163ddc9dec218be58e163e9418021994d0e061a SHA512: 8fcf40b916810425edbba02955af6eac3d6d9a83619cd2c635ec2f5d80c0af41cab74d19b6f32f317d4a9eab4b2b66ec8a3b7bafc109455bb29b74d1c6d399a3 Homepage: https://cran.r-project.org/package=MLFS Description: CRAN Package 'MLFS' (Machine Learning Forest Simulator) Climate-sensitive forest simulator based on the principles of machine learning. It stimulates all key processes in the forest: radial growth, height growth, mortality, crown recession, regeneration and harvesting. The method for predicting tree heights was described by Skudnik and Jevšenak (2022) , while the method for predicting basal area increments (BAI) was described by Jevšenak and Skudnik (2021) . Package: r-cran-mlgdata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 307 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mlgdata_0.1.0-1.ca2004.1_all.deb Size: 236856 MD5sum: b42467d48cdf914e6413244618248d83 SHA1: 10d5180b4217db1d7f99b01d3a6e5c0be5de5186 SHA256: 2afb3cd3743c0210cf89f471dcbd6f384a0bf1684cfbbc6b7c754af6dab250aa SHA512: a156bbeed075c6f6b901cf54c42d7ab4576986723743d13d0186656a078f1be11bdd0c902133ee649029b5b8352e30148f1fdfd86319cbdae70bb5e200b390c0 Homepage: https://cran.r-project.org/package=MLGdata Description: CRAN Package 'MLGdata' (Datasets for Use with Salvan, Sartori and Pace (2020)) Contains the datasets for use with the book Salvan, Sartori and Pace (2020, ISBN:978-88-470-4002-1) "Modelli Lineari Generalizzati". Package: r-cran-mlgl Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 226 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gglasso, r-cran-mass, r-cran-matrix, r-cran-fastcluster, r-cran-factominer, r-cran-paralleldist Filename: pool/dists/focal/main/r-cran-mlgl_1.0.0-1.ca2004.1_all.deb Size: 186412 MD5sum: 646233e9c0e9fdfd9596eaa70e888629 SHA1: d79aaabf07f39d492bda57b52376aebd78ee464a SHA256: 81f38666d44b17adb990aa789a2b3cce5cc2159b4197f7cc90aed38a78544c23 SHA512: c603a1c8f855ef7ad726379d6e296c3e970d9291663a4c5f8a6184a82580286aa1261410bc3d0fd1bbbab7153ac23c98c1feeadc4df9167e3fa7fb5d1dbe1c5a Homepage: https://cran.r-project.org/package=MLGL Description: CRAN Package 'MLGL' (Multi-Layer Group-Lasso) It implements a new procedure of variable selection in the context of redundancy between explanatory variables, which holds true with high dimensional data (Grimonprez et al. (2023) ). 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Package: r-cran-mlim Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1080 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-h2o, r-cran-curl, r-cran-mice, r-cran-missranger, r-cran-memuse, r-cran-md.log Filename: pool/dists/focal/main/r-cran-mlim_0.3.0-1.ca2004.1_all.deb Size: 894912 MD5sum: 6a713618a96c04b1ecb16f6e5b960f37 SHA1: 9067e700d6ee645d11163088ee5d62b23f5c3d32 SHA256: c35771754dd662e1b05c96d985a1476a33a2ce467eb3e067b3124290c54ec754 SHA512: 990356ee7db069c13687d85b75f00e4f851fa7bc030a46cd177bb670c67ef92d60326ca506940135ed7349ae3b235ba7edaf2caac19280086d05fc409bb48435 Homepage: https://cran.r-project.org/package=mlim Description: CRAN Package 'mlim' (Single and Multiple Imputation with Automated Machine Learning) Machine learning algorithms have been used for performing single missing data imputation and most recently, multiple imputations. However, this is the first attempt for using automated machine learning algorithms for performing both single and multiple imputation. Automated machine learning is a procedure for fine-tuning the model automatic, performing a random search for a model that results in less error, without overfitting the data. The main idea is to allow the model to set its own parameters for imputing each variable separately instead of setting fixed predefined parameters to impute all variables of the dataset. Using automated machine learning, the package fine-tunes an Elastic Net (default) or Gradient Boosting, Random Forest, Deep Learning, Extreme Gradient Boosting, or Stacked Ensemble machine learning model (from one or a combination of other supported algorithms) for imputing the missing observations. This procedure has been implemented for the first time by this package and is expected to outperform other packages for imputing missing data that do not fine-tune their models. The multiple imputation is implemented via bootstrapping without letting the duplicated observations to harm the cross-validation procedure, which is the way imputed variables are evaluated. Most notably, the package implements automated procedure for handling imputing imbalanced data (class rarity problem), which happens when a factor variable has a level that is far more prevalent than the other(s). This is known to result in biased predictions, hence, biased imputation of missing data. However, the autobalancing procedure ensures that instead of focusing on maximizing accuracy (classification error) in imputing factor variables, a fairer procedure and imputation method is practiced. 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The package provides R6-based learners for the following algorithms: 'glmnet' , 'ranger' , 'xgboost' , and 'lightgbm' . These can be used directly with the 'mlexperiments' R package. 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The analysis method is described in Yu and Li (2020), "Third-Variable Effect Analysis with Multilevel Additive Models", PLoS ONE 15(10): e0241072. 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Package: r-cran-mlmhelpr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-rdpack, r-cran-mathjaxr Suggests: r-cran-clubsandwich, r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-mlmhelpr_0.1.1-1.ca2004.1_all.deb Size: 167428 MD5sum: d51b97b988a54ba5db4f9f55bda0426e SHA1: 7df7b2779a367914391934489836ca4f39714637 SHA256: e3c3a5954470c9ffac44abe617197798898dacbae3cbbfe711f3792e9e5306cf SHA512: 5b1b08303de10f5ec5068aa5b5edd3cb1627b95b2789c8e4ec687d56f54b65769537241f0d9b53779752a3149062ae7ca43b06deb03f59c14ce8eb3076d55096 Homepage: https://cran.r-project.org/package=mlmhelpr Description: CRAN Package 'mlmhelpr' (Multilevel/Mixed Model Helper Functions) A collection of miscellaneous helper function for running multilevel/mixed models in 'lme4'. This package aims to provide functions to compute common tasks when estimating multilevel models such as computing the intraclass correlation and design effect, centering variables, estimating the proportion of variance explained at each level, pseudo-R squared, random intercept and slope reliabilities, tests for homogeneity of variance at level-1, and cluster robust and bootstrap standard errors. The tests and statistics reported in the package are from Raudenbush & Bryk (2002, ISBN:9780761919049), Hox et al. (2018, ISBN:9781138121362), and Snijders & Bosker (2012, ISBN:9781849202015). Package: r-cran-mlmi Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-gsl, r-cran-norm, r-cran-cat, r-cran-mix, r-cran-matrix, r-cran-nlme Suggests: r-cran-bootimpute, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlmi_1.1.2-1.ca2004.1_all.deb Size: 100528 MD5sum: 1e629d7044a3bd28dc7a0e62d5074248 SHA1: a5537caff5d643f9be0bc034f466547a1b395ffe SHA256: dff95abfc743eec24d66ea08b1729161fa672fe43f30efcb9971e8d95c6ad8cb SHA512: c12048bdcc5bc9cbfaf6696caea7b44419dec3cafc01d43cfc891d4f103b254af045541cc2388a571cb5f122dc7260f98d8b001aa894e39790ddaac85495e695 Homepage: https://cran.r-project.org/package=mlmi Description: CRAN Package 'mlmi' (Maximum Likelihood Multiple Imputation) Implements so called Maximum Likelihood Multiple Imputation as described by von Hippel and Bartlett (2021) . A number of different imputations are available, by utilising the 'norm', 'cat' and 'mix' packages. Inferences can be performed either using combination rules similar to Rubin's or using a likelihood score based approach based on theory by Wang and Robins (1998) . Package: r-cran-mlml2r Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 956 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-bioc-minfi, r-cran-microbenchmark, r-bioc-geoquery, r-cran-knitr, r-cran-rmarkdown, r-bioc-illuminahumanmethylation450kmanifest Filename: pool/dists/focal/main/r-cran-mlml2r_0.3.3-1.ca2004.1_all.deb Size: 609932 MD5sum: e27500d20d8a0c025ba69e1d2bb58d38 SHA1: 5d6153b669c2b575b182efc1ee7c95ed98eb3320 SHA256: 50f65ddd3954220a732bbdacd0003e65fa164050648c7a3aa7049305a5e9e157 SHA512: d6f4ff1355f53f4ca8bbcade090834c63511179410ad2d8c87fb4ecd8923825f60db669c16042f563c5d53e4e703268736f6394cc724d0cfb4726aa89dcf781c Homepage: https://cran.r-project.org/package=MLML2R Description: CRAN Package 'MLML2R' (Maximum Likelihood Estimation of DNA Methylation andHydroxymethylation Proportions) Maximum likelihood estimates (MLE) of the proportions of 5-mC and 5-hmC in the DNA using information from BS-conversion, TAB-conversion, and oxBS-conversion methods. One can use information from all three methods or any combination of two of them. Estimates are based on Binomial model by Qu et al. (2013) and Kiihl et al. (2019) . Package: r-cran-mlmm.gwas Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 796 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mlmm.gwas_1.0.6-1.ca2004.1_all.deb Size: 732248 MD5sum: c110bf258f7c2557e044c63dc0a35851 SHA1: d1ba62428cf610a9532e8782aa2c87be20d3a64f SHA256: 388e88a9a4a919ed7d57289def67236f948ea96f6f6e62083e087ba36228ff24 SHA512: f885c4ea2095c32187216a11fe41cf71b797ab3a7887a625c990fba350d9a4696d9e7dc36b6d69d35a165a821edc4e98d6cc8977b29ea1196d0fbcc98495eae0 Homepage: https://cran.r-project.org/package=mlmm.gwas Description: CRAN Package 'mlmm.gwas' (Pipeline for GWAS Using MLMM) Pipeline for Genome-Wide Association Study using Multi-Locus Mixed Model from Segura V, Vilhjálmsson BJ et al. (2012) . The pipeline include detection of associated SNPs with MLMM, model selection by lowest eBIC and p-value threshold, estimation of the effects of the SNPs in the selected model and graphical functions. Package: r-cran-mlmoi Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3713 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-openxlsx, r-cran-rdpack, r-cran-rmpfr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mlmoi_0.1.2-1.ca2004.1_all.deb Size: 2332448 MD5sum: ba2a657f5998afa9629f664ec833eb55 SHA1: 6f9c833c56e8f8a455ef8869fe3e86a4b6f1e811 SHA256: eaefd7dbd367bfd54e54d3f5c8bada590ce19d2e332d8caaee13e4efc623a47c SHA512: b480ed74d4b81ea1b069303fb75eeb97f11f214365a7b7cd2905dcee1c4dd2b0c4eb4acd751b33d67d351573fedf3d4cd601b51d9feeacd10e8b60c720c68e67 Homepage: https://cran.r-project.org/package=MLMOI Description: CRAN Package 'MLMOI' (Estimating Frequencies, Prevalence and Multiplicity of Infection) The implemented methods reach out to scientists that seek to estimate multiplicity of infection (MOI) and lineage (allele) frequencies and prevalences at molecular markers using the maximum-likelihood method described in Schneider (2018) , and Schneider and Escalante (2014) . Users can import data from Excel files in various formats, and perform maximum-likelihood estimation on the imported data by the package's moimle() function. Package: r-cran-mlmpower Architecture: all Version: 1.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 430 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-lme4, r-cran-lmertest, r-cran-vartestnlme Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mlmpower_1.0.10-1.ca2004.1_all.deb Size: 201432 MD5sum: f125e7c049fc2ac9b43a0d788a64ac3f SHA1: e8f2d0a5c106abcf1a178a69a01163c6ebdad49e SHA256: 9aaab98cd1c38d73f7572e167de422974ba9e67b4692f0802bf21f328649b414 SHA512: 27243611576fb3ac444d6c8afd8c9c5b0d8be978d02e4825b58d4d3d4c7c6bd11461c362c5e6bb304d22e30ba3d9b7e83fa43c621639036f0d902fe15a03c9aa Homepage: https://cran.r-project.org/package=mlmpower Description: CRAN Package 'mlmpower' (Power Analysis and Data Simulation for Multilevel Models) A declarative language for specifying multilevel models, solving for population parameters based on specified variance-explained effect size measures, generating data, and conducting power analyses to determine sample size recommendations. The specification allows for any number of within-cluster effects, between-cluster effects, covariate effects at either level, and random coefficients. Moreover, the models do not assume orthogonal effects, and predictors can correlate at either level and accommodate models with multiple interaction effects. Package: r-cran-mlmrev Architecture: all Version: 1.0-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2182 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4 Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-mlmrev_1.0-8-1.ca2004.1_all.deb Size: 1801884 MD5sum: ac57de840837564d8f9a01860f8d2dfd SHA1: a6250595da2b22bc2c8a4bf31c71b68e4c044caf SHA256: d03a42374eba3a6f2c2266142f27c7c65511d6603c0537eba1fa0a33f16ab95d SHA512: 165facffc26cad7143e60ec858c27b33a08c60b0ba71bb40a32060e70314b8a8f20b089ac47d38276a7ec3c98f32ca43beea5e0fae1b92d78abb443c026d6b68 Homepage: https://cran.r-project.org/package=mlmRev Description: CRAN Package 'mlmRev' (Examples from Multilevel Modelling Software Review) Data and examples from a multilevel modelling software review as well as other well-known data sets from the multilevel modelling literature. Package: r-cran-mlms Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1161 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-jsonlite, r-cran-plotrix, r-cran-readxl, r-cran-sf, r-cran-stringi Suggests: r-cran-connectapi, r-cran-covr, r-cran-dm, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-fontawesome, r-cran-htmltools, r-cran-htmlwidgets, r-cran-inldata, r-cran-knitr, r-cran-pkgbuild, r-cran-pkgdown, r-cran-pkgload, r-cran-rcmdcheck, r-cran-reactable, r-cran-renv, r-cran-rmarkdown, r-cran-roxygen2, r-cran-tinytest, r-cran-v8, r-cran-webmap Filename: pool/dists/focal/main/r-cran-mlms_1.0.2-1.ca2004.1_all.deb Size: 589056 MD5sum: a2a01c80042a649bd0f1ca444afcbb9c SHA1: 2fc07a432771b4df196e37935af41bbf523ada2a SHA256: d62945aada4c30ce1da453df2efc3761600b1db9aae63890e9e403969449f1bf SHA512: 2e543ab8ddb0b4dec45a1a957627a12df8aaf99eff2466b6058da73b1f316ba269e9949880e8ec989785b357646898e00e8d712db02ab077e41beed83874bafb Homepage: https://cran.r-project.org/package=mlms Description: CRAN Package 'mlms' (Multilevel Monitoring System Data for Wells in the USGS INLAquifer Monitoring Network) Analysis-ready datasets detailing the Multilevel Monitoring System (MLMS) wells within the U.S. Geological Survey's (USGS) aquifer-monitoring network at the Idaho National Laboratory (INL) in Idaho, and the data collected within these wells. Supported by the U.S. Department of Energy (DOE), the USGS collected discrete measurements of hydraulic head at various depths from wells in the eastern Snake River Plain (ESRP) aquifer over several years. These measurements were derived from data on fluid pressure, fluid temperature, and atmospheric pressure. Each well was equipped with an MLMS, which included valved measurement ports, packer bladders, casing segments, and couplers. The MLMS facilitated monitoring at multiple hydraulically isolated depth intervals, reaching significant depths below the land surface. Additionally, groundwater samples were collected from these wells over multiple years and analyzed for various chemical and physical parameters. Package: r-cran-mlmtools Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1021 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-lme4, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-mlmtools_1.0.2-1.ca2004.1_all.deb Size: 933940 MD5sum: c3159e8bb9d748a09187b42b0b8d3d3a SHA1: 09f35e16c406f64e2a82eb411157d5b3d57eb8a5 SHA256: d4d491000fc3e20b840b5dfdec30608e201747c1a82ffa55f8719e74c929c616 SHA512: 637eb680293efe426118ab9592cf832e52cfc15a56d05aaca9c76ef9817aa8ffe7ba9689a74d9b8b04e1bf6c7be5058329fb1c21095c5c7d8d51a50d6645d896 Homepage: https://cran.r-project.org/package=mlmtools Description: CRAN Package 'mlmtools' (Multi-Level Model Assessment Kit) Multilevel models (mixed effects models) are the statistical tool of choice for analyzing multilevel data (Searle et al, 2009). These models account for the correlated nature of observations within higher level units by adding group-level error terms that augment the singular residual error of a standard OLS regression. Multilevel and mixed effects models often require specialized data pre-processing and further post-estimation derivations and graphics to gain insight into model results. The package presented here, 'mlmtools', is a suite of pre- and post-estimation tools for multilevel models in 'R'. Package implements post-estimation tools designed to work with models estimated using 'lme4''s (Bates et al., 2014) lmer() function, which fits linear mixed effects regression models. Searle, S. R., Casella, G., & McCulloch, C. E. (2009, ISBN:978-0470009598). Bates, D., Mächler, M., Bolker, B., & Walker, S. (2014) . Package: r-cran-mlmts Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2740 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quantspec, r-cran-waveslim, r-cran-rfast, r-cran-tsclust, r-cran-forecast, r-cran-tseries, r-cran-tsa, r-cran-tsfeatures, r-cran-tserieschaos, r-cran-freqdom, r-cran-e1071, r-cran-dtw, r-cran-psych, r-cran-complexplus, r-cran-mts, r-cran-matrix, r-cran-ggplot2, r-cran-multiwave, r-cran-mass, r-cran-fda.usc, r-cran-tsdist, r-cran-geigen, r-cran-desctools, r-cran-pracma, r-cran-pspline, r-cran-rdpack, r-cran-clusterr, r-cran-aid, r-cran-caret, r-cran-ranger, r-cran-igraph, r-cran-randomforest Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlmts_1.1.2-1.ca2004.1_all.deb Size: 2681256 MD5sum: a2cea8cbe2fe1f2e239de553fb2974e8 SHA1: c85216dd76cbb138c1e439dd5d580fa11724081a SHA256: e8bbd2f930d71f6cfdeb87d89ade5a4f01a054f42fe74fe9bfa896d875d122f4 SHA512: 3c02f795295eba36a4c823957c25f6b67ddf244864f85b6fdb1d471b3548a3d1a1ac4ea427b9a5f7db989f2f1efd27f7174830672ac0d5493d714fb77957e790 Homepage: https://cran.r-project.org/package=mlmts Description: CRAN Package 'mlmts' (Machine Learning Algorithms for Multivariate Time Series) An implementation of several machine learning algorithms for multivariate time series. The package includes functions allowing the execution of clustering, classification or outlier detection methods, among others. It also incorporates a collection of multivariate time series datasets which can be used to analyse the performance of new proposed algorithms. Some of these datasets are stored in GitHub data packages 'ueadata1' to 'ueadata8'. To access these data packages, run 'install.packages(c('ueadata1', 'ueadata2', 'ueadata3', 'ueadata4', 'ueadata5', 'ueadata6', 'ueadata7', 'ueadata8'), repos='')'. The installation takes a couple of minutes but we strongly encourage the users to do it if they want to have available all datasets of mlmts. Practitioners from a broad variety of fields could benefit from the general framework provided by 'mlmts'. Package: r-cran-mlmusingr Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1092 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-nlme, r-cran-matrix, r-cran-magrittr, r-cran-broom, r-cran-generics, r-cran-dplyr, r-cran-performance, r-cran-tibble, r-cran-wemix Filename: pool/dists/focal/main/r-cran-mlmusingr_0.4.0-1.ca2004.1_all.deb Size: 1065072 MD5sum: 0725ec911d29c0ea5f7072e3e98b0fc2 SHA1: 8d425dc2a2ce8d306152b36418b483d61211f772 SHA256: 08122c8eb9950d177c940389c6bedd0c05fc1b81da385a684ba45024db215ce2 SHA512: d78dd729752785498409fdeb5214974d7a1b59c645abf902f0c12bdaff1b66adbb42ec56c2dd5aa6b2322a6dbade912c7b38aedefcd4a1836596dd8d9fc75266 Homepage: https://cran.r-project.org/package=MLMusingR Description: CRAN Package 'MLMusingR' (Practical Multilevel Modeling) Convenience functions and datasets to be used with Practical Multilevel Modeling using R. The package includes functions for calculating group means, group mean centered variables, and displaying some basic missing data information. A function for computing robust standard errors for linear mixed models based on Liang and Zeger (1986) and Bell and 'McCaffrey' (2002) is included as well as a function for checking for level-one homoskedasticity (Raudenbush & Bryk, 2002, ISBN:076191904X). Package: r-cran-mlogit Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1433 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dfidx, r-cran-formula, r-cran-zoo, r-cran-lmtest, r-cran-statmod, r-cran-mass, r-cran-rdpack Suggests: r-cran-knitr, r-cran-car, r-cran-nnet, r-cran-lattice, r-cran-aer, r-cran-ggplot2, r-cran-texreg, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mlogit_1.1-2-1.ca2004.1_all.deb Size: 804644 MD5sum: 6ceb71f919588ed06024474f63d67082 SHA1: f5ea70698cabcbe859bc37ebcefe888181ab9cec SHA256: 885924ba709690325397ce56ebbabebfe684081bc0459817d85343c3b4055bd3 SHA512: 264b6a6c9b1b769201fae036165e27298f97c2fb8df9c8583ba03c16772baca1d0eeae54a2e584eaaa70c9eeee34c55d7eac76d24015f29ce0dd55c0ef9a15eb Homepage: https://cran.r-project.org/package=mlogit Description: CRAN Package 'mlogit' (Multinomial Logit Models) Maximum likelihood estimation of random utility discrete choice models. The software is described in Croissant (2020) and the underlying methods in Train (2009) . Package: r-cran-mlpreemption Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mlpreemption_1.0.1-1.ca2004.1_all.deb Size: 50048 MD5sum: 023c7b706cd4fcb5df530b6f4b9c11ee SHA1: d6198761463330b90aed0b4841b80371f324bc39 SHA256: 55a3f3843e49f21ae7825b0ac63c7a235fc1cb4703f82e0cc320b6d417f3dde8 SHA512: 559ce03a12608d1c8167dbea1cd11f3f2950757c6348b9cf44007c4e50c81639e14c8e048bc41ea95d147269ec634835f124ad15c96703223ce2911bd93bccf0 Homepage: https://cran.r-project.org/package=MLpreemption Description: CRAN Package 'MLpreemption' (Maximum Likelihood Estimation of the Niche Preemption Model) Provides functions for obtaining estimates of the parameter of the niche preemption model (also known as the geometric series), in particular a maximum likelihood estimator (Graffelman, 2021) . The niche preemption model is a widely used model in ecology and biodiversity studies. Package: r-cran-mlpugs Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 166 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-progress, r-cran-c50, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-mlpugs_0.2.0-1.ca2004.1_all.deb Size: 67560 MD5sum: fc2309f957112c8b3f270a05dbfbb15a SHA1: 125854a89d8095625b68825360e069712420606e SHA256: 3748d47902eba80c9a1d74bd64d4f0521d970f76798e82a020203285e0ca6191 SHA512: 92b6f53f790a8294d00e1df866b8a3b438882902911c61dadb7ae212dd7c5ddb26fff5ae04536f24db7935bcc35db342908d504d05572d82e646547780ad1d6e Homepage: https://cran.r-project.org/package=MLPUGS Description: CRAN Package 'MLPUGS' (Multi-Label Prediction Using Gibbs Sampling (and ClassifierChains)) An implementation of classifier chains (CC's) for multi-label prediction. Users can employ an external package (e.g. 'randomForest', 'C50'), or supply their own. The package can train a single set of CC's or train an ensemble of CC's -- in parallel if running in a multi-core environment. New observations are classified using a Gibbs sampler since each unobserved label is conditioned on the others. The package includes methods for evaluating the predictions for accuracy and aggregating across iterations and models to produce binary or probabilistic classifications. Package: r-cran-mlpwr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1679 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dicekriging, r-cran-digest, r-cran-ggplot2, r-cran-randtoolbox, r-cran-rlist, r-cran-rgenoud Suggests: r-cran-knitr, r-cran-lme4, r-cran-lmertest, r-cran-mirt, r-cran-pwr, r-cran-rmarkdown, r-cran-simr, r-cran-sn, r-cran-tidyr, r-cran-weightsvm Filename: pool/dists/focal/main/r-cran-mlpwr_1.1.1-1.ca2004.1_all.deb Size: 1190800 MD5sum: 907821b0decc08c6c036899a1562045f SHA1: 69aaf6a3a96bd0d7c2af2e6be73f40d8fe9ccf06 SHA256: 138ab5bd4c77c3b4499c3d51e8c6f5113e1aec09c3e2e810cf8a00907750c3fe SHA512: 942623157bd90943aa5795eb51906c60962144d54a9303b350b24bd958711f082979bdfd0897c968021972dd2cc21cd36a8dbf972f43198a07a989e83e9b5478 Homepage: https://cran.r-project.org/package=mlpwr Description: CRAN Package 'mlpwr' (A Power Analysis Toolbox to Find Cost-Efficient Study Designs) We implement a surrogate modeling algorithm to guide simulation-based sample size planning. The method is described in detail in our paper (Zimmer & Debelak (2023) ). It supports multiple study design parameters and optimization with respect to a cost function. It can find optimal designs that correspond to a desired statistical power or that fulfill a cost constraint. We also provide a tutorial paper (Zimmer et al. (2023) ). Package: r-cran-mlquantify Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-randomforest, r-cran-fnn Suggests: r-cran-corelearn Filename: pool/dists/focal/main/r-cran-mlquantify_0.2.0-1.ca2004.1_all.deb Size: 173072 MD5sum: 263d194d5714dbc416f9a42203ad40ec SHA1: 7dd4bafb04d9ef986fb04856ac7b730de56ce468 SHA256: 480b3bcf3a0aed359f679ea67e23cbd734d51043d08d327cae65d13d0b40958a SHA512: 70c1e38c38fcc510df5b3c743552e0132e7e3b3bdb05ae342b9611cb6bfe42e143ed7318332f4f3297e17732de547972cc8b5e920215acfff9d3fb1f781f0bd3 Homepage: https://cran.r-project.org/package=mlquantify Description: CRAN Package 'mlquantify' (Algorithms for Class Distribution Estimation) Quantification is a prominent machine learning task that has received an increasing amount of attention in the last years. The objective is to predict the class distribution of a data sample. This package is a collection of machine learning algorithms for class distribution estimation. This package include algorithms from different paradigms of quantification. These methods are described in the paper: A. Maletzke, W. Hassan, D. dos Reis, and G. Batista. The importance of the test set size in quantification assessment. In Proceedings of the Twenty-Ninth International Joint Conference on Artificial Intelligence, IJCAI20, pages 2640–2646, 2020. . Package: r-cran-mlr3 Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3741 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-r6, r-cran-backports, r-cran-checkmate, r-cran-cli, r-cran-data.table, r-cran-evaluate, r-cran-future, r-cran-future.apply, r-cran-lgr, r-cran-mlbench, r-cran-mlr3measures, r-cran-mlr3misc, r-cran-parallelly, r-cran-palmerpenguins, r-cran-paradox, r-cran-uuid Suggests: r-cran-matrix, r-cran-callr, r-cran-codetools, r-cran-future.callr, r-cran-mlr3data, r-cran-progressr, r-cran-remotes, r-cran-rhpcblasctl, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3_1.0.0-1.ca2004.1_all.deb Size: 2710568 MD5sum: 0f71426a05b9357b6daad1950d0d59b9 SHA1: df498f79b5399c1292f0dbf20fd6874b840cd943 SHA256: 9c7dd90bddc02b541d305410ff5433beb8d3050662cec2876c9bfaeab5a3a9d1 SHA512: ea5a08fb08cdcac8d3eeb4eede8219752925ce757f90f53a2168212f025eecbe5ec5fb4c1d59abbc1daa809d25c72a0fe4323b9f019e00bb946822a1d36e13a2 Homepage: https://cran.r-project.org/package=mlr3 Description: CRAN Package 'mlr3' (Machine Learning in R - Next Generation) Efficient, object-oriented programming on the building blocks of machine learning. Provides 'R6' objects for tasks, learners, resamplings, and measures. The package is geared towards scalability and larger datasets by supporting parallelization and out-of-memory data-backends like databases. While 'mlr3' focuses on the core computational operations, add-on packages provide additional functionality. Package: r-cran-mlr3batchmark Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-batchtools, r-cran-checkmate, r-cran-data.table, r-cran-lgr, r-cran-mlr3, r-cran-mlr3misc, r-cran-uuid Suggests: r-cran-renv, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3batchmark_0.2.1-1.ca2004.1_all.deb Size: 38348 MD5sum: 2c3deec0579fdd1357637b84a29aaef7 SHA1: 9d9c5fc78d040675394e5f6412d5802fd7a475a2 SHA256: b6d5f9de0bea497592568c8188a05891d9165eb7ab2fb521a54b44c7d4a98051 SHA512: 4c19267927b50050c1e9b51fb90a99b7f173f4e658e613c59b3d92fca74a71f96bcd80358eef93d0c971ac428575ece43d8246cb38621b68be648715da4ff553 Homepage: https://cran.r-project.org/package=mlr3batchmark Description: CRAN Package 'mlr3batchmark' (Batch Experiments for 'mlr3') Extends the 'mlr3' package with a connector to the package 'batchtools'. 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Package: r-cran-mlr3data Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3243 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-mlr3 Filename: pool/dists/focal/main/r-cran-mlr3data_0.9.0-1.ca2004.1_all.deb Size: 3282572 MD5sum: 4fa186ab13ca4efe91cbb0b0c7d38981 SHA1: 3f631c0ab76294be7aae8b119be17ae3303a7a74 SHA256: 1f2a698bfff18c3e8a0092f3f6c67c57ec6db689fc81967fa94c41a655a731cb SHA512: 0472366d4bde4807941e09150bcf79d65b419e5641e16886368a16bed8101f793db593afe9777b02e2f083aeab88082948590407e6ba5e59413c98aa9ce5a4f6 Homepage: https://cran.r-project.org/package=mlr3data Description: CRAN Package 'mlr3data' (Collection of Machine Learning Data Sets for 'mlr3') A small collection of interesting and educational machine learning data sets which are used as examples in the 'mlr3' book (), the use case gallery (), or in other examples. All data sets are properly preprocessed and ready to be analyzed by most machine learning algorithms. Data sets are automatically added to the dictionary of tasks if 'mlr3' is loaded. Package: r-cran-mlr3db Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 999 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mlr3, r-cran-r6, r-cran-backports, r-cran-checkmate, r-cran-data.table, r-cran-mlr3misc Suggests: r-cran-dbi, r-cran-rsqlite, r-cran-dbplyr, r-cran-dplyr, r-cran-duckdb, r-cran-future, r-cran-future.apply, r-cran-future.callr, r-cran-lgr, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-mlr3db_0.5.2-1.ca2004.1_all.deb Size: 503128 MD5sum: c3dfe558fb9f05498cd25027c5870f21 SHA1: f23b0ab266ccc3c240c740942a3d758d2b70e002 SHA256: 637ab3f51861416ceda75f410502c16dbe2d2386999da501caefdb5fb2d7f9c1 SHA512: 902330f7d30e18b01d150d1d5fb534ce4846a6b4cfd1ec85212a4a5387da7e58695d52af7c5cf9e8c3de75c25dcd7de2d26224556e98e47ba0d087ea7d99589a Homepage: https://cran.r-project.org/package=mlr3db Description: CRAN Package 'mlr3db' (Data Base Backend for 'mlr3') Extends the 'mlr3' package with a backend to transparently work with databases such as 'SQLite', 'DuckDB', 'MySQL', 'MariaDB', or 'PostgreSQL'. The package provides two additional backends: 'DataBackendDplyr' relies on the abstraction of package 'dbplyr' to interact with most DBMS. 'DataBackendDuckDB' operates on 'DuckDB' data bases and also on Apache Parquet files. Package: r-cran-mlr3fairness Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1268 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-ggplot2, r-cran-mlr3, r-cran-mlr3learners, r-cran-mlr3measures, r-cran-mlr3misc, r-cran-mlr3pipelines, r-cran-paradox, r-cran-r6, r-cran-rlang Suggests: r-cran-cccp, r-cran-cvxr, r-cran-pagedown, r-cran-fairml, r-cran-future, r-cran-iml, r-cran-kableextra, r-cran-knitr, r-cran-linprog, r-cran-lgr, r-cran-mlr3viz, r-cran-patchwork, r-cran-ranger, r-cran-rmarkdown, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3fairness_0.4.0-1.ca2004.1_all.deb Size: 923376 MD5sum: d3f0e9ae87b798934642b22333637893 SHA1: ecd915fe6398de26d243fb493f88f0dba4405ae4 SHA256: 720de5110e31a1bb74c9f09b559ce34245c1d8c8d1aaa8c74d45743402e95e5d SHA512: 8dd04021d390bafd101419e946f19f55b018978302c6b0d9dd2ce4d78e723159f65711eca1869bb5d924fc1c39678ddc3ac6fdf3dbca62339abdea5a4e28fe09 Homepage: https://cran.r-project.org/package=mlr3fairness Description: CRAN Package 'mlr3fairness' (Fairness Auditing and Debiasing for 'mlr3') Integrates fairness auditing and bias mitigation methods for the 'mlr3' ecosystem. This includes fairness metrics, reporting tools, visualizations and bias mitigation techniques such as "Reweighing" described in 'Kamiran, Calders' (2012) and "Equalized Odds" described in 'Hardt et al.' (2016) . Integration with 'mlr3' allows for auditing of ML models as well as convenient joint tuning of machine learning algorithms and debiasing methods. Package: r-cran-mlr3fda Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2039 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3, r-cran-mlr3pipelines, r-cran-checkmate, r-cran-data.table, r-cran-lgr, r-cran-mlr3misc, r-cran-paradox, r-cran-r6, r-cran-tf Suggests: r-cran-rpart, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-mlr3fda_0.2.0-1.ca2004.1_all.deb Size: 2012956 MD5sum: 067deddb23456e5c51fd365a4bb4ccdb SHA1: c8a8f0b6c99489906c9eb05722189e0ff6eea01b SHA256: 77769fcb9c05ebf0e2ab39ce22af789944675458378a0dfc5338909c64a58209 SHA512: 16131b53ac20bb52b30d143c5bba025a78396649498e09a9acfc99d18abda7323d5b8507ee131368a62a95bc2f534187e705c83ca21bb2bb25e512c46ba49095 Homepage: https://cran.r-project.org/package=mlr3fda Description: CRAN Package 'mlr3fda' (Extending 'mlr3' to Functional Data Analysis) Extends the 'mlr3' ecosystem to functional analysis by adding support for irregular and regular functional data as defined in the 'tf' package. The package provides 'PipeOps' for preprocessing functional columns and for extracting scalar features, thereby allowing standard machine learning algorithms to be applied afterwards. Available operations include simple functional features such as the mean or maximum, smoothing, interpolation, flattening, and functional 'PCA'. Package: r-cran-mlr3filters Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 680 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-backports, r-cran-checkmate, r-cran-data.table, r-cran-mlr3, r-cran-mlr3misc, r-cran-paradox, r-cran-r6 Suggests: r-cran-boruta, r-cran-care, r-cran-caret, r-cran-carsurv, r-cran-fselectorrcpp, r-cran-knitr, r-cran-lgr, r-cran-mlr3learners, r-cran-mlr3measures, r-cran-mlr3pipelines, r-cran-praznik, r-cran-rpart, r-cran-survival, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-mlr3filters_0.8.1-1.ca2004.1_all.deb Size: 402164 MD5sum: 9ff9611f594f6ca588da9620311ba64c SHA1: 3d4917f35cc8696a3481dc07d153386773ff15d5 SHA256: 2a2d3ec84c90c529d2b807bd9d1439e9cdc5803560ab75b964604da713bf9ba5 SHA512: 7b1410f358f8835386286806b85628c94541ce9383912ab32ed2a657829e83b60c558d57427a1338d39b95999360317c22a3c5baf26dfb1754a320124ca2bbc4 Homepage: https://cran.r-project.org/package=mlr3filters Description: CRAN Package 'mlr3filters' (Filter Based Feature Selection for 'mlr3') Extends 'mlr3' with filter methods for feature selection. Besides standalone filter methods built-in methods of any machine-learning algorithm are supported. Partial scoring of multivariate filter methods is supported. Package: r-cran-mlr3fselect Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 772 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3, r-cran-bbotk, r-cran-checkmate, r-cran-data.table, r-cran-lgr, r-cran-mlr3misc, r-cran-paradox, r-cran-r6, r-cran-stabm Suggests: r-cran-e1071, r-cran-genalg, r-cran-mlr3learners, r-cran-mlr3pipelines, r-cran-rpart, r-cran-fastvoter, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3fselect_1.3.0-1.ca2004.1_all.deb Size: 575912 MD5sum: 45c479439d5b71909f19d11cc8286c84 SHA1: 33ec75d84ad2bd44b7c2ec7462fc95110d666277 SHA256: 351a8bb1fa6bb51e51a6070ed1ee47d31967f136c5be4a322c9199c1638d662c SHA512: a603ef3a59110a8f1aa89e2ff2c4d8a01fdd9b2698a369aaa6a0490e14360a9a073a6dce3ff26615739a02860c42f297d13862727f94b82a70369b2685fe09e0 Homepage: https://cran.r-project.org/package=mlr3fselect Description: CRAN Package 'mlr3fselect' (Feature Selection for 'mlr3') Feature selection package of the 'mlr3' ecosystem. It selects the optimal feature set for any 'mlr3' learner. The package works with several optimization algorithms e.g. Random Search, Recursive Feature Elimination, and Genetic Search. Moreover, it can automatically optimize learners and estimate the performance of optimized feature sets with nested resampling. 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The implementation in mlr3hyperband features improved scheduling and parallelizes the evaluation of configurations. The package includes tuners for hyperparameter optimization in mlr3tuning and optimizers for black-box optimization in bbotk. Package: r-cran-mlr3inferr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 461 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3, r-cran-checkmate, r-cran-data.table, r-cran-future, r-cran-lgr, r-cran-mlr3measures, r-cran-mlr3misc, r-cran-paradox, r-cran-r6, r-cran-withr Suggests: r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3inferr_0.1.0-1.ca2004.1_all.deb Size: 319464 MD5sum: 71caabdf62bcd80198a2ed7702c05a11 SHA1: b26ca0b07c81fbbdc9a02c7fca80e0496c6353ec SHA256: daa3a638849abcbaa2d72946788e50da696759732585540122245afae981848c SHA512: 50b2584542e6f1c595d0d11bc01ca0dbe50edd9bf44dfaeb7f33755343c402f15899f56e9b80c7f61c94570eb1cd7b42e255adf8c2d943e13cc1892e0a6a99d5 Homepage: https://cran.r-project.org/package=mlr3inferr Description: CRAN Package 'mlr3inferr' (Inference on the Generalization Error) An 'mlr3' extension that provides various resampling-based confidence interval (CI) methods for estimating the generalization error. 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Extends 'mlr3' with interfaces to essential machine learning packages on CRAN. This includes, but is not limited to: (penalized) linear and logistic regression, linear and quadratic discriminant analysis, k-nearest neighbors, naive Bayes, support vector machines, and gradient boosting. Package: r-cran-mlr3measures Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 364 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-mlr3misc, r-cran-prroc Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3measures_1.0.0-1.ca2004.1_all.deb Size: 305888 MD5sum: 6c0e23b8d94f579f19174346007b2e19 SHA1: 57c7d77bff70c6822e45abfd3c10dd25889df041 SHA256: 2352856e55962c3cf10220c01699add0ce256a851d6a6687f00543feb3657869 SHA512: dbb327922b9f59118094374319241492748032dd00f884e362f0abac4383a6f44e5f01ea0a4ec583184615d6668c97404c7447850f444db8ee870d69acc75eb2 Homepage: https://cran.r-project.org/package=mlr3measures Description: CRAN Package 'mlr3measures' (Performance Measures for 'mlr3') Implements multiple performance measures for supervised learning. Includes over 40 measures for regression and classification. Additionally, meta information about the performance measures can be queried, e.g. what the best and worst possible performances scores are. Package: r-cran-mlr3pipelines Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3180 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-backports, r-cran-checkmate, r-cran-data.table, r-cran-digest, r-cran-lgr, r-cran-mlr3, r-cran-mlr3misc, r-cran-paradox, r-cran-r6, r-cran-withr Suggests: r-cran-ggplot2, r-cran-glmnet, r-cran-igraph, r-cran-knitr, r-cran-lme4, r-cran-mlbench, r-cran-bbotk, r-cran-mlr3filters, r-cran-mlr3learners, r-cran-mlr3measures, r-cran-nloptr, r-cran-quanteda, r-cran-rmarkdown, r-cran-rpart, r-cran-stopwords, r-cran-testthat, r-cran-visnetwork, r-cran-bestnormalize, r-cran-fastica, r-cran-kernlab, r-cran-smotefamily, r-cran-evaluate, r-cran-nmf, r-cran-mass, r-cran-gensa, r-cran-vtreat, r-cran-future, r-cran-htmlwidgets, r-cran-ranger, r-cran-themis Filename: pool/dists/focal/main/r-cran-mlr3pipelines_0.8.0-1.ca2004.1_all.deb Size: 1980320 MD5sum: d01e23af8899d18656937dd940040201 SHA1: bf68f01f264beeb2b4b64ad78340be92731f6c33 SHA256: 7034b3cbe216292294a2796612272dad7357bac10970d744d5ad4cc4b4790d48 SHA512: 4b725ce5076a7f733994a5ae9ab1b31da9909004e38c77912669e928e0d367a09193a9ca819384d83d9d8554ab776c4923c2da1765b2072ac826f55213ce104c Homepage: https://cran.r-project.org/package=mlr3pipelines Description: CRAN Package 'mlr3pipelines' (Preprocessing Operators and Pipelines for 'mlr3') Dataflow programming toolkit that enriches 'mlr3' with a diverse set of pipelining operators ('PipeOps') that can be composed into graphs. Operations exist for data preprocessing, model fitting, and ensemble learning. Graphs can themselves be treated as 'mlr3' 'Learners' and can therefore be resampled, benchmarked, and tuned. Package: r-cran-mlr3resampling Architecture: all Version: 2025.6.23-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1006 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-r6, r-cran-checkmate, r-cran-paradox, r-cran-mlr3, r-cran-mlr3misc, r-cran-batchtools, r-cran-filelock Suggests: r-cran-ggplot2, r-cran-animint2, r-cran-mlr3tuning, r-cran-lgr, r-cran-future, r-cran-testthat, r-cran-knitr, r-cran-markdown, r-cran-nc, r-cran-rpart, r-cran-directlabels, r-cran-mlr3torch, r-cran-torch Filename: pool/dists/focal/main/r-cran-mlr3resampling_2025.6.23-1.ca2004.1_all.deb Size: 603380 MD5sum: 411750dc8d16569d4a5e10e9f3d8eb3b SHA1: 7bcd6fae87394f537ecd38d6a2c7e832de99e135 SHA256: cde99e03538055fb9802af824844c1a03d54dd2325677e71f48b7e3ea054c640 SHA512: 5853c0cc3b1a391e5240d4fe619e5e0345888223efffbe1c06c28680aa06b0d234d378bb17d62bba7ca084f52ab515d795783b653c0529f322e1c93149883b18 Homepage: https://cran.r-project.org/package=mlr3resampling Description: CRAN Package 'mlr3resampling' (Resampling Algorithms for 'mlr3' Framework) A supervised learning algorithm inputs a train set, and outputs a prediction function, which can be used on a test set. If each data point belongs to a subset (such as geographic region, year, etc), then how do we know if subsets are similar enough so that we can get accurate predictions on one subset, after training on Other subsets? And how do we know if training on All subsets would improve prediction accuracy, relative to training on the Same subset? SOAK, Same/Other/All K-fold cross-validation, can be used to answer these questions, by fixing a test subset, training models on Same/Other/All subsets, and then comparing test error rates (Same versus Other and Same versus All). Also provides code for estimating how many train samples are required to get accurate predictions on a test set. Package: r-cran-mlr3shiny Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 348 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3, r-cran-mlr3measures, r-cran-mlr3learners, r-cran-mlr3pipelines, r-cran-mlr3viz, r-cran-metrics, r-cran-shiny, r-cran-shinydashboard, r-cran-shinyjs, r-cran-shinywidgets, r-cran-shinyalert, r-cran-data.table, r-cran-dt, r-cran-stringr, r-cran-plyr, r-cran-dplyr, r-cran-purrr, r-cran-patchwork, r-cran-ggparty, r-cran-ggally Suggests: r-cran-testthat, r-cran-shinytest, r-cran-devtools, r-cran-ranger, r-cran-e1071, r-cran-xgboost, r-cran-igraph, r-cran-readxl, r-cran-dalex, r-cran-dalextra, r-cran-bslib, r-cran-haven Filename: pool/dists/focal/main/r-cran-mlr3shiny_0.5.0-1.ca2004.1_all.deb Size: 141652 MD5sum: 79daf1ac496624139574cd6de021619b SHA1: a30f23bac66a9e97e0348238839b6497c5b74cff SHA256: 68c4b8c6c4ce98db2b10db0818d3177cd33865438f006fb22fca478f0d2fc77c SHA512: 631ce302aae58c6d03a5b59040e215ac2b545993129925fb8bbcad3ee99efcbcb0f9f7e468392cd1403756d9f4c1c8289344508b1ce78365215393361fdefbaa Homepage: https://cran.r-project.org/package=mlr3shiny Description: CRAN Package 'mlr3shiny' (Machine Learning in 'shiny' with 'mlr3') A web-based graphical user interface to provide the basic steps of a machine learning workflow. It uses the functionalities of the 'mlr3' framework. Package: r-cran-mlr3spatial Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2139 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mlr3, r-cran-checkmate, r-cran-data.table, r-cran-lgr, r-cran-mlr3misc, r-cran-r6, r-cran-sf, r-cran-terra Suggests: r-cran-bench, r-cran-future, r-cran-future.callr, r-cran-knitr, r-cran-mlr3learners, r-cran-paradox, r-cran-ranger, r-cran-raster, r-cran-rmarkdown, r-cran-rpart, r-cran-stars, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3spatial_0.5.0-1.ca2004.1_all.deb Size: 1903000 MD5sum: af06060dc00ba8f60e6ec76ee5e12255 SHA1: 3b54d6e9121b81a0985c6581876d477faa7b3b82 SHA256: 421955ca2f41507e360da3b16bb38e202f6fd7709c5e9d315bc343de6d0e8b84 SHA512: 84119c7b3aed6ff6fa7c1e19ee44b160432a03a37657ba2e60ff5d13b08dcf3371253543407ade759c05a882e41119d331a673d1372e7becb2525eb1dcd23c32 Homepage: https://cran.r-project.org/package=mlr3spatial Description: CRAN Package 'mlr3spatial' (Support for Spatial Objects Within the 'mlr3' Ecosystem) Extends the 'mlr3' ML framework with methods for spatial objects. Data storage and prediction are supported for packages 'terra', 'raster' and 'stars'. Package: r-cran-mlr3spatiotempcv Architecture: all Version: 2.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3813 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3, r-cran-checkmate, r-cran-data.table, r-cran-ggplot2, r-cran-mlr3misc, r-cran-paradox, r-cran-r6 Suggests: r-cran-bbotk, r-cran-blockcv, r-cran-caret, r-cran-cast, r-cran-ggsci, r-cran-ggtext, r-cran-here, r-cran-knitr, r-cran-lgr, r-cran-mlr3filters, r-cran-mlr3pipelines, r-cran-mlr3spatial, r-cran-mlr3tuning, r-cran-patchwork, r-cran-plotly, r-cran-rmarkdown, r-cran-rpart, r-cran-sf, r-cran-sperrorest, r-cran-terra, r-cran-testthat, r-cran-twosamples, r-cran-vdiffr, r-cran-withr Filename: pool/dists/focal/main/r-cran-mlr3spatiotempcv_2.3.2-1.ca2004.1_all.deb Size: 2418808 MD5sum: a7c474590f518494ecaee73203e0408a SHA1: 34cac53cff5f7cb7b340f149f4a667b33b2f10cc SHA256: 5383f820bbbc849908c454299e262359cab50a114948d8f91eadb9cac69843e0 SHA512: e767b58d1305cf32288b95d1a2fbee6a7c172a44d9d97d8aae69de330a508b85410753ab7bdab1a0f01800657b98bb828bcdc1d1e5f893a2b6a6265ef4e80dab Homepage: https://cran.r-project.org/package=mlr3spatiotempcv Description: CRAN Package 'mlr3spatiotempcv' (Spatiotemporal Resampling Methods for 'mlr3') Extends the mlr3 machine learning framework with spatio-temporal resampling methods to account for the presence of spatiotemporal autocorrelation (STAC) in predictor variables. STAC may cause highly biased performance estimates in cross-validation if ignored. A JSS article is available at . Package: r-cran-mlr3summary Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 281 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-backports, r-cran-checkmate, r-cran-data.table, r-cran-mlr3, r-cran-mlr3misc, r-cran-cli, r-cran-future.apply Suggests: r-cran-testthat, r-cran-iml, r-cran-mlr3pipelines, r-cran-mlr3fairness, r-cran-mlr3learners, r-cran-fastshap, r-cran-ranger, r-cran-rpart Filename: pool/dists/focal/main/r-cran-mlr3summary_0.1.0-1.ca2004.1_all.deb Size: 204656 MD5sum: 906f14b6a883914dc80db4a21dc5adf7 SHA1: da2f97a42093c562e42211d835baddafa65b112f SHA256: ad7a965a63761368c9884ff5a6b5de051f6665e222d3e87750b7e737606f7c8e SHA512: 4916c42a4639e4737985cfe0e9a5dea3bc17f7caef8bda0c42a1258613b99d14c62e1369efac057a913f45ee81c1f394bc1c49a5801eb0442807920969a048dd Homepage: https://cran.r-project.org/package=mlr3summary Description: CRAN Package 'mlr3summary' (Model and Learner Summaries for 'mlr3') Concise and interpretable summaries for machine learning models and learners of the 'mlr3' ecosystem. The package takes inspiration from the summary function for (generalized) linear models but extends it to non-parametric machine learning models, based on generalization performance, model complexity, feature importances and effects, and fairness metrics. Package: r-cran-mlr3superlearner Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3learners, r-cran-checkmate, r-cran-lgr, r-cran-mlr3, r-cran-data.table, r-cran-purrr, r-cran-cli, r-cran-glmnet Suggests: r-cran-ranger, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlr3superlearner_0.1.2-1.ca2004.1_all.deb Size: 36364 MD5sum: d95de1864ce2163d8f05dacfe159cfc5 SHA1: 1833bf54990f45cb4eb1638c8591efa6b722e5c0 SHA256: 46832ce4438b4fd806036a46a3cb05358de3b36b907e5f2736e55a290d0e344e SHA512: ce72d8bad306a90e464d5c850d077c429f0c51f2acd66faca0413ab93aa9df764b6d8e55c9023f1d670bd42a5956125b87e4e728d1ac404f07dde3e34e063ec2 Homepage: https://cran.r-project.org/package=mlr3superlearner Description: CRAN Package 'mlr3superlearner' (Super Learner Fitting and Prediction) An implementation of the Super Learner prediction algorithm from van der Laan, Polley, and Hubbard (2007) Installed-Size: 4172 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3, r-cran-mlr3pipelines, r-cran-torch, r-cran-backports, r-cran-checkmate, r-cran-data.table, r-cran-lgr, r-cran-mlr3misc, r-cran-paradox, r-cran-r6, r-cran-withr Suggests: r-cran-callr, r-cran-curl, r-cran-future, r-cran-ggplot2, r-cran-igraph, r-cran-jsonlite, r-cran-knitr, r-cran-mlr3tuning, r-cran-progress, r-cran-rmarkdown, r-cran-rpart, r-cran-viridis, r-cran-visnetwork, r-cran-testthat, r-cran-tfevents, r-cran-torchvision, r-cran-waldo Filename: pool/dists/focal/main/r-cran-mlr3torch_0.2.1-1.ca2004.1_all.deb Size: 2403940 MD5sum: a044a9557ed8992889a7911b3edec0a4 SHA1: 374091ab6b091b5c52347a811ebb133df343ff2b SHA256: 1cf660955e1e9fbf70125b66cbe2195a406b998afabb15d9e522841fc71f8a67 SHA512: 9d13af634390c0e7436cd248467cd089fe69877c22f2711d60a35de0a49f3cd134032779711dd1c9b2d1b6ed6fbe041ae62252a83fed27559abfa10c2a12c9ba Homepage: https://cran.r-project.org/package=mlr3torch Description: CRAN Package 'mlr3torch' (Deep Learning with 'mlr3') Deep Learning library that extends the mlr3 framework by building upon the 'torch' package. It allows to conveniently build, train, and evaluate deep learning models without having to worry about low level details. Custom architectures can be created using the graph language defined in 'mlr3pipelines'. Package: r-cran-mlr3tuning Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1170 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mlr3, r-cran-paradox, r-cran-bbotk, r-cran-checkmate, r-cran-cli, r-cran-data.table, r-cran-lgr, r-cran-mlr3misc, r-cran-r6 Suggests: r-cran-adagio, r-cran-future, r-cran-gensa, r-cran-irace, r-cran-knitr, r-cran-mirai, r-cran-mlflow, r-cran-mlr3learners, r-cran-mlr3pipelines, r-cran-nloptr, r-cran-rush, r-cran-rmarkdown, r-cran-rpart, r-cran-testthat, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-mlr3tuning_1.4.0-1.ca2004.1_all.deb Size: 772152 MD5sum: f04b7eef7fdd665b885e597952bf30ff SHA1: 1b25fa65bdbd9c39e9c280b66d0ed52d0bdf7457 SHA256: 6e3f26d6ba5646827c364947970e2c30911871e7ff1ef088481b693dc879faa8 SHA512: 5f7aad71e9e03a49bcc737c718b247413b325dee7f6546c995511413272997eaf36a8f6f156d6210cc69a3e79eceb2e0000da9c521c21ca1ba9fda93b422b543 Homepage: https://cran.r-project.org/package=mlr3tuning Description: CRAN Package 'mlr3tuning' (Hyperparameter Optimization for 'mlr3') Hyperparameter optimization package of the 'mlr3' ecosystem. It features highly configurable search spaces via the 'paradox' package and finds optimal hyperparameter configurations for any 'mlr3' learner. 'mlr3tuning' works with several optimization algorithms e.g. Random Search, Iterated Racing, Bayesian Optimization (in 'mlr3mbo') and Hyperband (in 'mlr3hyperband'). Moreover, it can automatically optimize learners and estimate the performance of optimized models with nested resampling. Package: r-cran-mlr3tuningspaces Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 543 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mlr3tuning, r-cran-cli, r-cran-checkmate, r-cran-data.table, r-cran-mlr3, r-cran-mlr3misc, r-cran-paradox, r-cran-r6 Suggests: r-cran-e1071, r-cran-bbotk, r-cran-glmnet, r-cran-mlr3learners, r-cran-mlr3pipelines, r-cran-ranger, r-cran-rpart, r-cran-testthat, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-mlr3tuningspaces_0.6.0-1.ca2004.1_all.deb Size: 352192 MD5sum: 9ba04c9646dbccdc6a00e4592341fa13 SHA1: f2a7257938e0139a97e2643c5a0c9227dfb0309e SHA256: f5e47ed25d9bc05c70cfcdbb4c6ade6dc2e649a371ed4f02d5484bd3cfbcf096 SHA512: 2fae499fa097479424ca320126f737f875db95469dabf0538c68626a79b30d551c70563f2f82cd035901b31d10486b940bb8a3110b51da3e58b4eb605096cf8d Homepage: https://cran.r-project.org/package=mlr3tuningspaces Description: CRAN Package 'mlr3tuningspaces' (Search Spaces for 'mlr3') Collection of search spaces for hyperparameter optimization in the 'mlr3' ecosystem. It features ready-to-use search spaces for many popular machine learning algorithms. The search spaces are from scientific articles and work for a wide range of data sets. Package: r-cran-mlr3verse Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlr3, r-cran-bbotk, r-cran-data.table, r-cran-mlr3cluster, r-cran-mlr3data, r-cran-mlr3filters, r-cran-mlr3fselect, r-cran-mlr3hyperband, r-cran-mlr3inferr, r-cran-mlr3learners, r-cran-mlr3mbo, r-cran-mlr3misc, r-cran-mlr3pipelines, r-cran-mlr3tuning, r-cran-mlr3tuningspaces, r-cran-mlr3viz, r-cran-paradox Suggests: r-cran-miesmuschel, r-cran-mlr3batchmark, r-cran-mlr3benchmark, r-cran-mlr3db, r-cran-mlr3fairness, r-cran-mlr3fda, r-cran-mlr3oml, r-cran-mlr3spatial, r-cran-mlr3spatiotempcv, r-cran-mlr3summary, r-cran-mlr3torch, r-cran-rush Filename: pool/dists/focal/main/r-cran-mlr3verse_0.3.1-1.ca2004.1_all.deb Size: 29964 MD5sum: cb7f03e7e6e77d59f3b63e184926ded2 SHA1: 675b0125c5554d419d8276caa8a8eaf7ac3f36f2 SHA256: d2133114ca1369823ea8b2b10e8a2cbf2b24ed93f72d5f9e57eb988e604e6930 SHA512: e5b542ca5a9d70efa2cb62531bcb914362a00db732e5252758e11611f8baa180955bc2a425deb336ab3d721a0e84584bd0cfc3791b12c2d28790e816969fd28a Homepage: https://cran.r-project.org/package=mlr3verse Description: CRAN Package 'mlr3verse' (Easily Install and Load the 'mlr3' Package Family) The 'mlr3' package family is a set of packages for machine-learning purposes built in a modular fashion. This wrapper package is aimed to simplify the installation and loading of the core 'mlr3' packages. Get more information about the 'mlr3' project at . Package: r-cran-mlr3viz Architecture: all Version: 0.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 368 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-ggplot2, r-cran-mlr3misc, r-cran-scales, r-cran-viridis Suggests: r-cran-bbotk, r-cran-cluster, r-cran-ggally, r-cran-ggdendro, r-cran-ggfortify, r-cran-ggparty, r-cran-glmnet, r-cran-knitr, r-cran-lgr, r-cran-mlr3, r-cran-mlr3cluster, r-cran-mlr3filters, r-cran-mlr3fselect, r-cran-mlr3inferr, r-cran-mlr3learners, r-cran-mlr3tuning, r-cran-paradox, r-cran-partykit, r-cran-patchwork, r-cran-precrec, r-cran-ranger, r-cran-rpart, r-cran-testthat, r-cran-vdiffr, r-cran-xgboost, r-cran-survminer Filename: pool/dists/focal/main/r-cran-mlr3viz_0.10.1-1.ca2004.1_all.deb Size: 301572 MD5sum: 01edc3ddf73fa67519262ea48d39c3c2 SHA1: 9d25ff2bd20c3c2a463825b8772c26be484af9a9 SHA256: 4e0e5bf07bcbac84e84502ec24255fec0461cb75a237e05eb34fee4aaaee7f30 SHA512: ddd1fecee0125f60d96991814a5515d0e3364ed390b9f97ad8e56475448e793a7469e68296130d6f960aa88b9fdd81c333ca6679d77ef565ef4046aef1abfec1 Homepage: https://cran.r-project.org/package=mlr3viz Description: CRAN Package 'mlr3viz' (Visualizations for 'mlr3') Visualization package of the 'mlr3' ecosystem. It features plots for mlr3 objects such as tasks, learners, predictions, benchmark results, tuning instances and filters via the 'autoplot()' generic of 'ggplot2'. The package draws plots with the 'viridis' color palette and applies the minimal theme. Visualizations include barplots, boxplots, histograms, ROC curves, and Precision-Recall curves. Package: r-cran-mlrcpo Architecture: all Version: 0.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3382 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-paramhelpers, r-cran-mlr, r-cran-bbmisc, r-cran-stringi, r-cran-checkmate, r-cran-backports Suggests: r-cran-care, r-cran-party, r-cran-rpart, r-cran-mlbench, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-mrmre, r-cran-digest, r-cran-praznik, r-cran-randomforestsrc, r-cran-randomforest, r-cran-ranger, r-cran-rfast, r-cran-fselector, r-cran-fselectorrcpp, r-cran-e1071, r-cran-fnn, r-cran-lintr, r-cran-hmisc, r-cran-fastica, r-cran-rex Filename: pool/dists/focal/main/r-cran-mlrcpo_0.3.8-1.ca2004.1_all.deb Size: 1908908 MD5sum: 75005e812acb08a0dba4d03f34ff23c9 SHA1: a160602e34024b85955f5a3e6d0a151f33deaad4 SHA256: 611a50c68d1258df870d06321cb0b603950222e244abefbc9c921b7ac4b64697 SHA512: c682457780d95a43389b6990054f12d55969540ec05cfaf790579c629029aef8e9d9b2bbf51797e4e7fe038f526332ea45031e08ac7f1242faea0dc66acf2ef7 Homepage: https://cran.r-project.org/package=mlrCPO Description: CRAN Package 'mlrCPO' (Composable Preprocessing Operators and Pipelines for MachineLearning) Toolset that enriches 'mlr' with a diverse set of preprocessing operators. Composable Preprocessing Operators ("CPO"s) are first-class R objects that can be applied to data.frames and 'mlr' "Task"s to modify data, can be attached to 'mlr' "Learner"s to add preprocessing to machine learning algorithms, and can be composed to form preprocessing pipelines. Package: r-cran-mlrintermbo Architecture: all Version: 0.5.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-backports, r-cran-checkmate, r-cran-data.table, r-cran-mlr3misc, r-cran-paradox, r-cran-r6, r-cran-lhs, r-cran-callr, r-cran-bbotk, r-cran-mlr3tuning Suggests: r-cran-mlr, r-cran-paramhelpers, r-cran-testthat, r-cran-rgenoud, r-cran-dicekriging, r-cran-emoa, r-cran-cmaesr, r-cran-randomforest, r-cran-smoof, r-cran-lgr, r-cran-mlr3, r-cran-mlr3learners, r-cran-mlr3pipelines, r-cran-mlrmbo, r-cran-ranger, r-cran-rpart, r-cran-mco Filename: pool/dists/focal/main/r-cran-mlrintermbo_0.5.1-1-1.ca2004.1_all.deb Size: 151204 MD5sum: c6164fca01b4d88f6b6986a33ffd9d51 SHA1: c6a9daadcaa5c737d783ec56682f6148fd599861 SHA256: 96849cf00a1fb1fe706781b392a819faf27a05c6a66c963599edd0501b390981 SHA512: 8322b010315b939910038f1c7e95ebb6c9f30bcea28561e3496aab79eb5fa9b547cb49f814f87ba6f18a33f8d94ab839df54cea182831bfb94682b04e6bc1dd8 Homepage: https://cran.r-project.org/package=mlrintermbo Description: CRAN Package 'mlrintermbo' (Model-Based Optimization for 'mlr3' Through 'mlrMBO') The 'mlrMBO' package can ordinarily not be used for optimization within 'mlr3', because of incompatibilities of their respective class systems. 'mlrintermbo' offers a compatibility interface that provides 'mlrMBO' as an 'mlr3tuning' 'Tuner' object, for tuning of machine learning algorithms within 'mlr3', as well as a 'bbotk' 'Optimizer' object for optimization of general objective functions using the 'bbotk' black box optimization framework. The control parameters of 'mlrMBO' are faithfully reproduced as a 'paradox' 'ParamSet'. Package: r-cran-mlrpro Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-car, r-cran-dplyr, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlrpro_0.1.2-1.ca2004.1_all.deb Size: 31448 MD5sum: ff4998e20cec8fe15885f64979cbde18 SHA1: 00261f7d706f6829537662a835368fa1452d5dfd SHA256: efca2c933d35b43737f63f75117eb6cf84ca43957debb6c81fa220aa3eb2b7bb SHA512: 3e7648d586fa4884008c8d6fff1840459d7b8f666e981ca536bcf530c319f5fadd1f92ca5dc9396b6c3a8fe9b3982bb46f09d942d0b899abc3363096b14b0c6d Homepage: https://cran.r-project.org/package=mlrpro Description: CRAN Package 'mlrpro' (Stepwise Regression with Assumptions Checking) The stepwise regression with assumptions checking and the possible Box-Cox transformation. Package: r-cran-mlsjunkgen Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mlsjunkgen_0.1.2-1.ca2004.1_all.deb Size: 81036 MD5sum: 0f60d88bf780cce7e9608b88bfc49345 SHA1: 62fea21baa4001d6470812a36c121aef5655a31d SHA256: c55539f5a23abf715786f068dfc53658462b8577f4572263d29efbc902bfc607 SHA512: 1844445e5e60649ccd65fb7d633226dfb4dcb77b4b6ea659f6ec8971c032239ab1cfe4128219909a85aeba12a513d599a4512e5b1a1b653db48737b68c74f94b Homepage: https://cran.r-project.org/package=mlsjunkgen Description: CRAN Package 'mlsjunkgen' (Use the MLS Junk Generator Algorithm to Generate a Stream ofPseudo-Random Numbers) Generate a stream of pseudo-random numbers generated using the MLS Junk Generator algorithm. Functions exist to generate single pseudo-random numbers as well as a vector, data frame, or matrix of pseudo-random numbers. Package: r-cran-mlstropalr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-tidyr, r-cran-stringr, r-cran-opalr, r-cran-fabr, r-cran-madshapr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-mlstropalr_1.0.3-1.ca2004.1_all.deb Size: 70328 MD5sum: e8f105951ca12988f16edccda3b3d049 SHA1: 6d8af38d4743fe0db60a7b4af5574db09e94f306 SHA256: b7305d8f49e078d71f344e31814bf503ab34a8743d22aecbc3d470c3d1c36859 SHA512: ac1fe8343c5fcb4ae18e473b8510b0b024328357aa6572227205f357e140cf484a50cf1dbef24cd0905684a9d50c9de7165ed5c6ffb16d0db64f79b616e75815 Homepage: https://cran.r-project.org/package=mlstrOpalr Description: CRAN Package 'mlstrOpalr' (Support Compatibility Between 'Maelstrom' R Packages and 'Opal'Environment) Functions to support compatibility between 'Maelstrom' R packages and 'Opal' environment. 'Opal' is the 'OBiBa' core database application for biobanks. It is used to build data repositories that integrates data collected from multiple sources. 'Opal Maelstrom' is a specific implementation of this software. This 'Opal' client is specifically designed to interact with 'Opal Maelstrom' distributions to perform operations on the R server side. The user must have adequate credentials. Please see for complete documentation. Package: r-cran-mlsurvlrnrs Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 799 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-kdry, r-cran-mlexperiments, r-cran-mllrnrs, r-cran-r6 Suggests: r-cran-glmnet, r-cran-lintr, r-cran-mlr3measures, r-cran-parbayesianoptimization, r-cran-quarto, r-cran-ranger, r-cran-rpart, r-cran-splittools, r-cran-survival, r-cran-testthat, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-mlsurvlrnrs_0.0.5-1.ca2004.1_all.deb Size: 241692 MD5sum: cbd25c65f773572e2ac327e60b3b5ddb SHA1: 6a267727cce4da37a3b8511276a73f3119b1a55c SHA256: 978bba29fdd708762cefaa9eeb3986d2db416c2fd3854f669d019f4a737fdd2b SHA512: d0b279a9096e60b65ac2280d280e1225d326da4774dd5ad5b58c4fabc2e1b4c79d6d1295f59d925f145e4370ef4c675030bd6b679a2ac78d1d5555bed527b673 Homepage: https://cran.r-project.org/package=mlsurvlrnrs Description: CRAN Package 'mlsurvlrnrs' (R6-Based ML Survival Learners for 'mlexperiments') Enhances 'mlexperiments' with additional machine learning ('ML') learners for survival analysis. The package provides R6-based survival learners for the following algorithms: 'glmnet' , 'ranger' , 'xgboost' , and 'rpart' . These can be used directly with the 'mlexperiments' R package. 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Package: r-cran-mltest Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mltest_1.0.3-1.ca2004.1_all.deb Size: 19920 MD5sum: 11b11f33fa795fae8cef9de73b0b7af3 SHA1: ab1eb5f334731313f64ff2ef0046b25eed7beca1 SHA256: 39a0ddd595d3ed1a76580a9394ea3e19fd01581759c09f0e750a9a0543f2606d SHA512: 8624f1f5a4262b07767d06cfe97d81879e49e1f4e999fa89121940b0db4b495964273abd3cc76547df9b7298ec719a9316aaa7db14a8f1ab9a6d1d25522a0a36 Homepage: https://cran.r-project.org/package=mltest Description: CRAN Package 'mltest' (Classification Evaluation Metrics) A fast, robust and easy-to-use calculation of multi-class classification evaluation metrics based on confusion matrix. Package: r-cran-mltools Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mltools_0.3.5-1.ca2004.1_all.deb Size: 108376 MD5sum: d0a8817b846d7c594112eeaa8209cd35 SHA1: b63db024ef9f6a658688b762126c3a99ce6c5dea SHA256: db483d90c82a2fc4677a85398350a6d40ebdc56c9d298a3a5ddc1ff1199892ff SHA512: 3534c84fbba96e232a1961cddaee9089ed77b34c617524ec87a07f9118ab0e309383487301f27fcbccf811443559096367d112d8fd16a4de263aef3c7c2e839d Homepage: https://cran.r-project.org/package=mltools Description: CRAN Package 'mltools' (Machine Learning Tools) A collection of machine learning helper functions, particularly assisting in the Exploratory Data Analysis phase. Makes heavy use of the 'data.table' package for optimal speed and memory efficiency. Highlights include a versatile bin_data() function, sparsify() for converting a data.table to sparse matrix format with one-hot encoding, fast evaluation metrics, and empirical_cdf() for calculating empirical Multivariate Cumulative Distribution Functions. Package: r-cran-mlvar Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 273 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lme4, r-cran-arm, r-cran-qgraph, r-cran-dplyr, r-cran-clustergeneration, r-cran-mvtnorm, r-cran-corpcor, r-cran-plyr, r-cran-abind, r-cran-mplusautomation, r-cran-graphicalvar, r-cran-rlang Filename: pool/dists/focal/main/r-cran-mlvar_0.5.2-1.ca2004.1_all.deb Size: 232808 MD5sum: 328c4105d6368a8228e9f49c15420974 SHA1: d3a07f280eeaa15190029402a14ddb0a8a345a3d SHA256: ab5a229d8dcd1b814c8781dfee0b768ad5b79c40f55761fc2eacdcfb2a3601f8 SHA512: d3a9773778c5219513e109a4e512a240be71f8efd38b8a28ec92f16a972d33cd40fbda4421baca46bba51cf2c9473c97b792a303de5cf552fc9bf197476eba41 Homepage: https://cran.r-project.org/package=mlVAR Description: CRAN Package 'mlVAR' (Multi-Level Vector Autoregression) Estimates the multi-level vector autoregression model on time-series data. Three network structures are obtained: temporal networks, contemporaneous networks and between-subjects networks. Package: r-cran-mlvsbm Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 607 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-r6, r-cran-blockmodels, r-cran-ape, r-cran-magrittr, r-cran-cluster Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-ggforce, r-cran-spelling, r-cran-cowplot, r-cran-reshape2, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-mlvsbm_0.2.4-1.ca2004.1_all.deb Size: 504288 MD5sum: 04c6da0f515a317ee8d16b27cfd55eca SHA1: d4b20a835f149167283f5366b04bb3bc6d06239f SHA256: 085aa44c545d848721d84bc94cbbfe48de44508da12448dfd07e041a9a699c00 SHA512: 6439af0d6c31dd1847ba38f4df5260fd54acda04c2900e40c7d934dd4b221063f09d589c7b17197683e3fc416520579d7a0386dd7d256c5734fed9923514d61c Homepage: https://cran.r-project.org/package=MLVSBM Description: CRAN Package 'MLVSBM' (A Stochastic Block Model for Multilevel Networks) Simulation, inference and clustering of multilevel networks using a Stochastic Block Model framework as described in Chabert-Liddell, Barbillon, Donnet and Lazega (2021) . A multilevel network is defined as the junction of two interaction networks, the upper level or inter-organizational level and the lower level or inter-individual level. The inter-level represents an affiliation relationship. Package: r-cran-mlxr Architecture: all Version: 4.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 636 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-xml, r-cran-rcpp, r-cran-reshape2, r-cran-gridextra, r-cran-shiny Filename: pool/dists/focal/main/r-cran-mlxr_4.2.0-1.ca2004.1_all.deb Size: 614688 MD5sum: 533addcda7ecf5329970bd0a6557fe41 SHA1: 8dfe42f7a4e4e2c77952221db67fb06b8a71c5e5 SHA256: 0ff3b9cc2cbb0ad2fb726baa8c457a9ebf5b6a31d44ba48914d68ff7f55b8925 SHA512: 85ab9559ca5d6e7b3e97853a51120f7bcdbaa2ecea3678eb26833a7456009790549a602afd9019b022b102a9dc3197497993e02211639bed2e6e293d83fb2c8c Homepage: https://cran.r-project.org/package=mlxR Description: CRAN Package 'mlxR' (Simulation of Longitudinal Data) Simulation and visualization of complex models for longitudinal data. The models are encoded using the model coding language 'Mlxtran' and automatically converted into C++ codes. That allows one to implement very easily complex ODE-based models and complex statistical models, including mixed effects models, for continuous, count, categorical, and time-to-event data. Package: r-cran-mm2s Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4010 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-gsva, r-cran-kknn, r-cran-lattice, r-cran-pheatmap Suggests: r-cran-knitr, r-cran-mm2sdata Filename: pool/dists/focal/main/r-cran-mm2s_1.0.6-1.ca2004.1_all.deb Size: 3670360 MD5sum: 6a2a1c78997cc105b96e507ddfd43658 SHA1: 5192eb3473e806f95098ba61475fa7e7f8ac84be SHA256: 2fcaaa67341ba09fcd1d9dae05a7442c144d443577aa9b75dd865690513ee3b6 SHA512: 57723ec2d15446be77519a5b5222c27c45b2855df50000b5f4a780ff097b6e697c140147fa1f7a6d2e47ff75462f19c6a0ab251d6d29d71cabb374a17604a43e Homepage: https://cran.r-project.org/package=MM2S Description: CRAN Package 'MM2S' (Single-Sample Classifier of Medulloblastoma Subtypes forMedulloblastoma Patient Samples, Mouse Models, and Cell Lines) A single-sample classifier that generates Medulloblastoma (MB) subtype predictions for single-samples of human Medulloblastoma (MB) patients and model systems, including cell lines and mouse-models. The MM2S algorithm uses a systems-based methodology that facilitates application of the algorithm on samples irrespective of their platform or source of origin. MM2S demonstrates > 96% accuracy for patients of well-characterized normal cerebellum, Wingless (WNT), or Sonic hedgehog (SHH) subtypes, and the less-characterized Group4 (86%) and Group3 (78.2%). MM2S also enables classification of MB cell lines and mouse models into their human counterparts.This package contains function for implementing the classifier onto human data and mouse data, as well as graphical rendering of the results as PCA (Principal Component Analysis) plots and heatmaps. Deena Gendoo and Benjamin Haibe-Kains (2016) . Package: r-cran-mm2sdata Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4821 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biobase Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-mm2sdata_1.0.3-1.ca2004.1_all.deb Size: 4897824 MD5sum: 553ab7453b6d31119bb68284b79b2248 SHA1: 7e85bc724afa6a0f4f8566a292d67de303e52207 SHA256: ca09821c8bfa1e39c655926075a1709107f429db5e4b4fdd046ce14c84d0d261 SHA512: d1761d4a8ef66f94472f27361c3960bded99e12804546562f558970e8b6e684e39ea10bc6f4274d18b179e5d68aa5289b725bc4f5ef92c3608aaa675f3520024 Homepage: https://cran.r-project.org/package=MM2Sdata Description: CRAN Package 'MM2Sdata' (Gene Expression Datasets for the 'MM2S' Package) Gene Expression datasets for the 'MM2S' package. Contains normalized expression data for Human Medulloblastoma ('GSE37418') as well as Mouse Medulloblastoma models ('GSE36594'). Deena Gendoo et al. (2015) . Package: r-cran-mm Architecture: all Version: 1.6-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 586 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magic, r-cran-abind, r-cran-quadform, r-cran-mathjaxr, r-cran-partitions, r-cran-oarray Filename: pool/dists/focal/main/r-cran-mm_1.6-8-1.ca2004.1_all.deb Size: 461768 MD5sum: 6e554c5ed39de58312b23ec31f16b0e2 SHA1: acf357bf301336814caa0cb603c54844541e948d SHA256: 5e1198d0c12b768c10f23a28d82f96ba58c3e5a79fa80d0e2e142d2a2a6032d6 SHA512: 663bbdd99a0b44d422d0b07b58095f4af8efe6faf97b7ba823102fdc75a0cb7ee961be0d1b940b3f16bb6bb9025bd630b818e58b2d6091a4432580ef2a32c1bf Homepage: https://cran.r-project.org/package=MM Description: CRAN Package 'MM' (The Multiplicative Multinomial Distribution) Various utilities for the Multiplicative Multinomial distribution. Package: r-cran-mma Architecture: all Version: 10.8-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1126 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gbm, r-cran-survival, r-cran-car, r-cran-gplots, r-cran-lattice Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mma_10.8-1-1.ca2004.1_all.deb Size: 926748 MD5sum: 95448f26938f94a90c6f625d69b7a782 SHA1: fbbaf61192a93f4c0aadb28255ef03ec78b18b55 SHA256: 62d630491f32dbe65bca423047b2c81300b6f8241a54d9b0e2dab656f16888ee SHA512: ee826125529795f155459731e26c0d88e2f73aaf652cc6882c3691500ee5e229cf0ceab645b0818690f39031fe20cbf090d6926a75d6bf3babf50db3ddd614d7 Homepage: https://cran.r-project.org/package=mma Description: CRAN Package 'mma' (Multiple Mediation Analysis) Used for general multiple mediation analysis. The analysis method is described in Yu and Li (2022) (ISBN: 9780367365479) "Statistical Methods for Mediation, Confounding and Moderation Analysis Using R and SAS", published by Chapman and Hall/CRC; and Yu et al.(2017) "Exploring racial disparity in obesity: a mediation analysis considering geo-coded environmental factors", published on Spatial and Spatio-temporal Epidemiology, 21, 13-23. Package: r-cran-mmabig Architecture: all Version: 3.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 320 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-glmnet, r-cran-mma, r-cran-survival, r-cran-car, r-cran-gplots Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mmabig_3.2-0-1.ca2004.1_all.deb Size: 178244 MD5sum: f2295f96be62e38b48d94c9a6fac57c9 SHA1: 64b45e80cd61a727647561fec23f6404157af959 SHA256: b81c686b2e225ccb4e86656efe536d192a4b27f43e5760fbc121d4b0a9195a9f SHA512: 38bd249b5f64fc4005b7fe97de95e5f65039dab326f92dcc3664f537a87d912c4c9f1c0fef5643453d9070dee3f54c5300cd19b12f4c907c0bec285949aaf969 Homepage: https://cran.r-project.org/package=mmabig Description: CRAN Package 'mmabig' (Multiple Mediation Analysis for Big Data Sets) Used for general multiple mediation analysis with big data sets. Package: r-cran-mmac Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 203 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mosaic, r-cran-mosaiccalc, r-cran-manipulate Filename: pool/dists/focal/main/r-cran-mmac_0.1.2-1.ca2004.1_all.deb Size: 152108 MD5sum: f9281528f0779f124539bbaf3cd4087a SHA1: 47555a9107b22cfc78fa0a435babbe234e452bc1 SHA256: d135ea67a697b94d5161cf7019dda95a70a6152d8c46ae94a106fca620a28b96 SHA512: 83d0153b46e3af46c87a1b7be049e9b07cc8f0b06bd35d6e8e3170320ee34408c8f03de1f025e5dba6f9a8ab6718a986ce2970b9e00347134870c1be04d0f562 Homepage: https://cran.r-project.org/package=MMAC Description: CRAN Package 'MMAC' (Data for Mathematical Modeling and Applied Calculus) Contains the data sets for the textbook "Mathematical Modeling and Applied Calculus" by Joel Kilty and Alex M. McAllister. The book will be published by Oxford University Press in 2018 with ISBN-13: 978-019882472. Package: r-cran-mmad Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-mmad_1.0.0-1.ca2004.1_all.deb Size: 167508 MD5sum: 28c33288f2b85405442340287b2b5f30 SHA1: e072ab1eebe33fe4430a1aa31ea806d9e6b1728d SHA256: e9851e40a8c2e0b2b26a160ac46d90952199aad4634a50c701975dc4366dde61 SHA512: 3adc852b62404dc75a93bccae780555374207c9a135144b6d3c5a74df99d9d0cec65dc72dc4c144af01dae8c476abb65ec2b7d4bc2020d11f0cfec94b7add11f Homepage: https://cran.r-project.org/package=MMAD Description: CRAN Package 'MMAD' (MM Algorithm Based on the Assembly-Decomposition Technology) The Minorize-Maximization(MM) algorithm based on Assembly-Decomposition(AD) technology can be used for model estimation of parametric models, semi-parametric models and non-parametric models. We selected parametric models including left truncated normal distribution, type I multivariate zero-inflated generalized poisson distribution and multivariate compound zero-inflated generalized poisson distribution; semiparametric models include Cox model and gamma frailty model; nonparametric model is estimated for type II interval-censored data. These general methods are proposed based on the following papers, Tian, Huang and Xu (2019) , Huang, Xu and Tian (2019) , Zhang and Huang (2022) . Package: r-cran-mmaqshiny Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 15863 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-cairo, r-cran-xts, r-cran-lubridate, r-cran-zoo, r-cran-catools, r-cran-ggplot2, r-cran-data.table, r-cran-dt, r-cran-dplyr, r-cran-leaflet, r-cran-stringr, r-cran-shiny, r-cran-xml, r-cran-shinyjs, r-cran-plotly Suggests: r-cran-testthat, r-cran-devtools, r-cran-usethis, r-cran-shinytest Filename: pool/dists/focal/main/r-cran-mmaqshiny_1.0.0-1.ca2004.1_all.deb Size: 3145176 MD5sum: 316c763289fa8e9cee39c102d5b465a3 SHA1: 891b2c5c03642a9af5ccab61b72ff76a7a683180 SHA256: 65c98c10ccdb32e53238c73a739947b73f1dde2e56b1b53e30a2c524d1246db2 SHA512: f40d49b53bf6c4a4b673359193e8096f9d00727682678c88d754de3ea3e3270c1169c4f7a6e05299a3848da974b6dd4ce798a11c914058143bdc7908437e4c62 Homepage: https://cran.r-project.org/package=mmaqshiny Description: CRAN Package 'mmaqshiny' (Explore Air-Quality Mobile-Monitoring Data) Mobile-monitoring or "sensors on a mobile platform", is an increasingly popular approach to measure high-resolution pollution data at the street level. Coupled with location data, spatial visualisation of air-quality parameters helps detect localized areas of high air-pollution, also called hotspots. In this approach, portable sensors are mounted on a vehicle and driven on predetermined routes to collect high frequency data (1 Hz). 'mmaqshiny' is for analysing, visualising and spatial mapping of high-resolution air-quality data collected by specific devices installed on a moving platform. 1 Hz data of PM2.5 (mass concentrations of particulate matter with size less than 2.5 microns), Black carbon mass concentrations (BC), ultra-fine particle number concentrations, carbon dioxide along with GPS coordinates and relative humidity (RH) data collected by popular portable instruments (TSI DustTrak-8530, Aethlabs microAeth-AE51, TSI CPC3007, LICOR Li-830, Garmin GPSMAP 64s, Omega USB RH probe respectively). It incorporates device specific cleaning and correction algorithms. RH correction is applied to DustTrak PM2.5 following the Chakrabarti et al., (2004) . Provision is given to add linear regression coefficients for correcting the PM2.5 data (if required). BC data will be cleaned for the vibration generated noise, by adopting the statistical procedure as explained in Apte et al., (2011) , followed by a loading correction as suggested by Ban-Weiss et al., (2009) . For the number concentration data, provision is given for dilution correction factor (if a diluter is used with CPC3007; default value is 1). The package joins the raw, cleaned and corrected data from the above said instruments and outputs as a downloadable csv file. Package: r-cran-mmarch.ac Architecture: all Version: 3.2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1844 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-refund, r-cran-denseflmm, r-cran-dplyr, r-cran-xlsx, r-cran-survival, r-cran-tidyr, r-cran-zoo, r-cran-ineq, r-cran-cosinor, r-cran-cosinor2, r-cran-abind, r-cran-accelerometry, r-cran-actcr, r-cran-actfrag, r-cran-minpack.lm, r-cran-kableextra, r-cran-ggir Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mmarch.ac_3.2.0.1-1.ca2004.1_all.deb Size: 1079392 MD5sum: 98aa40c5a8004169d3bec309241dd4d0 SHA1: 634ca08c8e9aab9387744bcff826b46f2a7ba705 SHA256: 3a8ffe962a17499aaed54fd7a24ca43cb237cf2c4b06ba21548379fe547c46e0 SHA512: 7ad781a24b0dc56730a6a0f03c1184e3719afd26511dbd27943b25fd76a5252b2ee0771f41b061e5bd9e6d55e01a7495bb1c6e1eb9c5ad095b01bd619837da1e Homepage: https://cran.r-project.org/package=mMARCH.AC Description: CRAN Package 'mMARCH.AC' (Processing of Accelerometry Data with 'GGIR' in mMARCH) Mobile Motor Activity Research Consortium for Health (mMARCH) is a collaborative network of studies of clinical and community samples that employ common clinical, biological, and digital mobile measures across involved studies. One of the main scientific goals of mMARCH sites is developing a better understanding of the inter-relationships between accelerometry-measured physical activity (PA), sleep (SL), and circadian rhythmicity (CR) and mental and physical health in children, adolescents, and adults. Currently, there is no consensus on a standard procedure for a data processing pipeline of raw accelerometry data, and few open-source tools to facilitate their development. The R package 'GGIR' is the most prominent open-source software package that offers great functionality and tremendous user flexibility to process raw accelerometry data. However, even with 'GGIR', processing done in a harmonized and reproducible fashion requires a non-trivial amount of expertise combined with a careful implementation. In addition, novel accelerometry-derived features of PA/SL/CR capturing multiscale, time-series, functional, distributional and other complimentary aspects of accelerometry data being constantly proposed and become available via non-GGIR R implementations. To address these issues, mMARCH developed a streamlined harmonized and reproducible pipeline for loading and cleaning raw accelerometry data, extracting features available through 'GGIR' as well as through non-GGIR R packages, implementing several data and feature quality checks, merging all features of PA/SL/CR together, and performing multiple analyses including Joint Individual Variation Explained (JIVE), an unsupervised machine learning dimension reduction technique that identifies latent factors capturing joint across and individual to each of three domains of PA/SL/CR. In detail, the pipeline generates all necessary R/Rmd/shell files for data processing after running 'GGIR' for accelerometer data. In module 1, all csv files in the 'GGIR' output directory were read, transformed and then merged. In module 2, the 'GGIR' output files were checked and summarized in one excel sheet. In module 3, the merged data was cleaned according to the number of valid hours on each night and the number of valid days for each subject. In module 4, the cleaned activity data was imputed by the average Euclidean norm minus one (ENMO) over all the valid days for each subject. Finally, a comprehensive report of data processing was created using Rmarkdown, and the report includes few exploratory plots and multiple commonly used features extracted from minute level actigraphy data. Reference: Guo W, Leroux A, Shou S, Cui L, Kang S, Strippoli MP, Preisig M, Zipunnikov V, Merikangas K (2022) Processing of accelerometry data with GGIR in Motor Activity Research Consortium for Health (mMARCH) Journal for the Measurement of Physical Behaviour, 6(1): 37-44. Package: r-cran-mmb Architecture: all Version: 0.13.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rdpack, r-cran-foreach, r-cran-doparallel Suggests: r-cran-devtools, r-cran-testthat, r-cran-covr, r-cran-e1071, r-cran-caret, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-ggpubr, r-cran-cowplot, r-cran-philentropy, r-cran-rtsne Filename: pool/dists/focal/main/r-cran-mmb_0.13.3-1.ca2004.1_all.deb Size: 191724 MD5sum: e41b175f4d9c89e8dcfd73faf0962596 SHA1: 05e6318b29c624b8382c60b63991032258d60624 SHA256: 4106ddd1f83c86fcf146ae226418a8382692338fdfa7759194acbb86bd449217 SHA512: 9de31a69bd2d5156b9949366157ec73017622465573ec40b3772a272fe8a34c956654915854f81c7299b7a40de782833645f98316929fd1674804f8489adc011 Homepage: https://cran.r-project.org/package=mmb Description: CRAN Package 'mmb' (Arbitrary Dependency Mixed Multivariate Bayesian Models) Supports Bayesian models with full and partial (hence arbitrary) dependencies between random variables. Discrete and continuous variables are supported, and conditional joint probabilities and probability densities are estimated using Kernel Density Estimation (KDE). The full general form, which implements an extension to Bayes' theorem, as well as the simple form, which is just a Bayesian network, both support regression through segmentation and KDE and estimation of probability or relative likelihood of discrete or continuous target random variables. This package also provides true statistical distance measures based on Bayesian models. Furthermore, these measures can be facilitated on neighborhood searches, and to estimate the similarity and distance between data points. Related work is by Bayes (1763) and by Scutari (2010) . Package: r-cran-mmc Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-mass Filename: pool/dists/focal/main/r-cran-mmc_0.0.3-1.ca2004.1_all.deb Size: 29768 MD5sum: f94255fdd402ceece31e4eeae88316ea SHA1: 036487a76874631862e493dd119586272a32418b SHA256: 3bd45e2271c6309dd552fe74bd53b01842d1b749b1d8edc7105856c28c4b81c4 SHA512: ebb1df70848428a2ec35f6e32cd5a7c5d8cc9db5a412d6491c290f2a25d899ddde3e54f1bda6a5afbd2f30983bb88d90e0bc902fb5d11cccd4f5b9241d331086 Homepage: https://cran.r-project.org/package=mmc Description: CRAN Package 'mmc' (Multivariate Measurement Error Correction) Provides routines for multivariate measurement error correction. Includes procedures for linear, logistic and Cox regression models. Bootstrapped standard errors and confidence intervals can be obtained for corrected estimates. Package: r-cran-mmcards Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mmcards_0.1.1-1.ca2004.1_all.deb Size: 34920 MD5sum: 31be9508e6022afd2ca13fd3d4536587 SHA1: a0b0694886d1f374d2beed5984e512d40e65c2d8 SHA256: 77019e92d1704533123d1ee0f4a6fca63c9a7fd85f1c3fa0b4fe0532db67d4c1 SHA512: e674c2113255faf6b1943f5cdae14092035d9063365db45e22da6f055453516a1ec56c514f2b11a9e0ba24c50c49e6d7881a491a849ae79ffb9852aea7f807c0 Homepage: https://cran.r-project.org/package=mmcards Description: CRAN Package 'mmcards' (Playing Cards Utility Functions) Early insights in probability theory were largely influenced by questions about gambling and games of chance, as noted by Blitzstein and Hwang (2019, ISBN:978-1138369917). In modern times, playing cards continue to serve as an effective teaching tool for probability, statistics, and even 'R' programming, as demonstrated by Grolemund (2014, ISBN:978-1449359010). The 'mmcards' package offers a collection of utility functions designed to aid in the creation, manipulation, and utilization of playing card decks in multiple formats. These include a standard 52-card deck, as well as alternative decks such as decks defined by custom anonymous functions and custom interleaved decks. Optimized for the development of educational 'shiny' applications, the package is particularly useful for teaching statistics and probability through card-based games. Functions include shuffle_deck(), which creates either a shuffled standard deck or a shuffled custom alternative deck; deal_card(), which takes a deck and returns a list object containing both the dealt card and the updated deck; and i_deck(), which adds image paths to card objects, further enriching the package's utility in the development of interactive 'shiny' application card games. Package: r-cran-mmcsd Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 290 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-knitr, r-cran-magrittr, r-cran-purrr, r-cran-rlist, r-cran-tibble, r-cran-tidyr Suggests: r-cran-rmarkdown, r-cran-simstudy, r-cran-kableextra, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-mmcsd_1.0.0-1.ca2004.1_all.deb Size: 235048 MD5sum: dd6071ab1c75e995749fb4912d4f5a6a SHA1: 4476c1e5fd5077cf36d8d53de09ca7fc46c298f2 SHA256: 54df379cb7c028e89c1e561c8d6fd64b93b9dd51da9c2500cfbb84ad5a5da6cd SHA512: 6b8ca5d142aca34cfe6d2f5470643b830c5bbea37ab9196d813ff350b8833b8beb48a6fc0aaa543d10a4b2d663e8d03c8599336e68a125501448e9f8b5f84e28 Homepage: https://cran.r-project.org/package=Mmcsd Description: CRAN Package 'Mmcsd' (Modeling Complex Longitudinal Data in a Quick and Easy Way) Matching longitudinal methodology models with complex sampling design. It fits fixed and random effects models and covariance structured models so far. It also provides tools to perform statistical tests considering these specifications as described in : Pacheco, P. H. (2021). "Modeling complex longitudinal data in R: development of a statistical package." . Package: r-cran-mmd Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-e1071, r-cran-plyr, r-cran-bigmemory Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mmd_1.0.0-1.ca2004.1_all.deb Size: 63568 MD5sum: a60057463d72efc9be10f86d5328ec0f SHA1: 80d1004b3718f8d98bbcd25d009a88d5c120872c SHA256: d9a191d8463c3bb238c85cacbf9737a0db59a26a5e1ba74beaacafba155ec7cd SHA512: 5ddb74e556b185224f0ebb8971cf817e7f72e61937e4f06c74366352ad54ec8501fe585073172be91a8d009af3828b26c341f208eaf754cab875db24b66bb15a Homepage: https://cran.r-project.org/package=MMD Description: CRAN Package 'MMD' (Minimal Multilocus Distance (MMD) for Source Attribution andLoci Selection) The aim of the package is two-fold: (i) To implement the MMD method for attribution of individuals to sources using the Hamming distance between multilocus genotypes. (ii) To select informative genetic markers based on information theory concepts (entropy, mutual information and redundancy). The package implements the functions introduced by Perez-Reche, F. J., Rotariu, O., Lopes, B. S., Forbes, K. J. and Strachan, N. J. C. Mining whole genome sequence data to efficiently attribute individuals to source populations. Scientific Reports 10, 12124 (2020) . See more details and examples in the README file. 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Please see the reference: Li X, Fu Y, Wang X, DeMeo DL, Tantisira K, Weiss ST, Qiu W. (2018) . 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Package: r-cran-mmem Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-jointdiag, r-cran-lme4, r-cran-matrixcalc, r-cran-psych, r-cran-stringr Filename: pool/dists/focal/main/r-cran-mmem_0.1.1-1.ca2004.1_all.deb Size: 47340 MD5sum: 19181c09b82df3920a1d1c417f884233 SHA1: 8c6ab6ea27977579d13c3b5f1fa4976d7a75eb1d SHA256: c80d834735e0e6556bf3e5a6f2e1bdab1162920a51c1104bd787266b93d41da2 SHA512: 23b14238dbcdc71da0e6e599865675d422bcad9cebeae1372f1742f0232f644b373dd6ebdd1e40cb42b38e134cf56eed75140228f612073d5045e285b01cb335 Homepage: https://cran.r-project.org/package=MMeM Description: CRAN Package 'MMeM' (Multivariate Mixed Effects Model) Analyzing data under multivariate mixed effects model using multivariate REML and multivariate Henderson3 methods. See Meyer (1985) and Wesolowska Janczarek (1984) . Package: r-cran-mmequiv Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-httr2, r-cran-lifecycle, r-cran-rlang Suggests: r-cran-dplyr, r-cran-httptest2, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-withr Filename: pool/dists/focal/main/r-cran-mmequiv_1.0.0-1.ca2004.1_all.deb Size: 163172 MD5sum: 12bbfaec1552732c212ef5bd405eea96 SHA1: 088a149589e4c80ac6daa11552bcf514a5e2e8e1 SHA256: fd852300a404dcc30ffef6a962fc168299d25f1bf13ea6551213a428be4ecdda SHA512: e21c851eb1b7a5a9de49f8d2319654fdb1761436d2dbdf8d6805d414e43ab2a4a4dda115defb09786e19aab1c31f2c6ea99af4aea43e994895e51284fb22e630 Homepage: https://cran.r-project.org/package=mmequiv Description: CRAN Package 'mmequiv' (Calculate Standardized Morphine Milligram Equivalent Doses) Calculate morphine milligram equivalents (MME) for opioid dose comparison using standardized methods. Can directly call the 'NIH HEAL MME Online Calculator' API or replicate API calculations on the user's local machine from the comfort of 'R'. Creation of the 'NIH HEAL MME Online Calculator' and the MME calculations implemented in this package are described in Adams MCB, Sward KA, Perkins ML, Hurley RW (2025) . Package: r-cran-mmibain Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2068 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bain, r-cran-broom, r-cran-car, r-cran-dt, r-cran-e1071, r-cran-ggplot2, r-cran-igraph, r-cran-lavaan, r-cran-mmcards, r-cran-psych, r-cran-shiny, r-cran-shinythemes Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mmibain_0.2.0-1.ca2004.1_all.deb Size: 1822604 MD5sum: d6e44d77375ed50390357512ca2d4d28 SHA1: 98561df5aa3a2c5e99b3517378d350fd3aaa87f1 SHA256: 221cbe8662d24bd36b3c8a0e7656010dcfefc0b46ddfb0ce18dca6c204d5a5f0 SHA512: 9776ed8fff6cf68e2a3e8de5d33a58b91daf996d07dde1f8dfb23751cc9745f344b9013ca3255ce5b24ffdc2e8aad5f8349336730bb3b7bd0b2afd185145e6a0 Homepage: https://cran.r-project.org/package=mmibain Description: CRAN Package 'mmibain' (Bayesian Informative Hypotheses Evaluation Web Applications) Researchers often have expectations about the relations between means of different groups or standardized regression coefficients; using informative hypothesis testing to incorporate these expectations into the analysis through order constraints increases statistical power Vanbrabant and Rosseel (2020) . Another valuable tool, the Bayes factor, can evaluate evidence for multiple hypotheses without concerns about multiple testing, and can be used in Bayesian updating Hoijtink, Mulder, van Lissa & Gu (2019) . The 'bain' R package enables informative hypothesis testing using the Bayes factor. The 'mmibain' package provides 'shiny' web applications based on 'bain'. The RepliCrisis() function launches a 'shiny' card game to simulate the evaluation of replication studies while the mmibain() function launches a 'shiny' application to fit Bayesian informative hypotheses evaluation models from 'bain'. 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The 'mmiCATs' package offers a suite of tools for working with CATs. The mmiCATs() function initiates a 'shiny' web application, facilitating the analysis of data utilizing CATs, as implemented in the cluster.im.glm() function from the 'clusterSEs' package. Additionally, the pwr_func_lmer() function is designed to simplify the process of conducting simulations to compare mixed effects models with CATs models. For educational purposes, the CloseCATs() function launches a 'shiny' application card game, aimed at enhancing users' understanding of the conditions under which CATs should be preferred over random intercept models. Package: r-cran-mminp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3671 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-magrittr, r-cran-omicspls Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-prettydoc, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mminp_0.1.0-1.ca2004.1_all.deb Size: 3630924 MD5sum: 9e9722f1c5e8dc06273a2887da6de57c SHA1: 3150fe64eece46466fba71d2d5592a6141d848a1 SHA256: aae9b67be5427d7cb770502a093b6b97cea831069bd4ec602133607876481aa3 SHA512: 3dbd1fa07726b0fadbabeafbb6f74eb3bb343049b8b46ad535eec5715d677bc110649dd7b0b2b3f9962ca33b3f47f62b77bc8feecdce0459b09957ebdaa08608 Homepage: https://cran.r-project.org/package=MMINP Description: CRAN Package 'MMINP' (Microbe-Metabolite Interactions-Based Metabolic ProfilesPredictor) Implements a computational framework to predict microbial community-based metabolic profiles with 'O2PLS' model. It provides procedures of model training and prediction. Paired microbiome and metabolome data are needed for modeling, and the trained model can be applied to predict metabolites of analogous environments using new microbial feature abundances. Package: r-cran-mmints Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dt, r-cran-pool, r-cran-rpostgres, r-cran-shiny, r-cran-shinyauthr, r-cran-sodium Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mmints_0.2.0-1.ca2004.1_all.deb Size: 54504 MD5sum: 41c944b5209a9cf08e42e63649431bba SHA1: 0da7fb0e6ff5a561bb7bb56690dadd566e5746db SHA256: 45c135a164fdf000696ef2296a868660847b27d0a8a5336ed2f5304dbf2e0045 SHA512: 787ea82230c0c6e55e45b27d3935cac3ffd42bae46e1c0375ffaf53c907a800cb8d26b534fa781a248234f0ade1ff851e9ffb6bb278013a374d8690ef91549b5 Homepage: https://cran.r-project.org/package=mmints Description: CRAN Package 'mmints' (Workflows for Building Web Applications) Sharing statistical methods or simulation frameworks through 'shiny' applications often requires workflows for handling data. To help save and display simulation results, the postgresUI() and postgresServer() functions in 'mmints' help with persistent data storage using a 'PostgreSQL' database. The 'mmints' package also offers data upload functionality through the csvUploadUI() and csvUploadServer() functions which allow users to upload data, view variables and their types, and edit variable types before fitting statistical models within the 'shiny' application. These tools aim to enhance efficiency and user interaction in 'shiny' based statistical and simulation applications. Package: r-cran-mmirestriktor Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2092 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dt, r-cran-mass, r-cran-mmcards, r-cran-pool, r-cran-restriktor, r-cran-rpostgres, r-cran-shiny, r-cran-shinythemes Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mmirestriktor_0.3.1-1.ca2004.1_all.deb Size: 1844804 MD5sum: eddc8edb4213fc1eab243869ed9b856d SHA1: f2b473e1a4fd81238f40d7793aebeaa04e448a0b SHA256: a93d8bfb8bcd9cc6ba6fbf0471a5f5c91c9843beffa4a2c3ed45a96bcfd61c3f SHA512: edf16d586a056ad2457895f67c321e6a4b5a698ec564c42bf13032c2cdc4179f74cbc92c3c0c646c3a047fa162428f5f86893bc8c72baa563416e58206bc9ec9 Homepage: https://cran.r-project.org/package=mmirestriktor Description: CRAN Package 'mmirestriktor' (Informative Hypothesis Testing Web Applications) Offering enhanced statistical power compared to traditional hypothesis testing methods, informative hypothesis testing allows researchers to explicitly model their expectations regarding the relationships among parameters. An important software tool for this framework is 'restriktor'. The 'mmirestriktor' package provides 'shiny' web applications to implement some of the basic functionality of 'restriktor'. The mmirestriktor() function launches a 'shiny' application for fitting and analyzing models with constraints. The FbarCards() function launches a card game application which can help build intuition about informative hypothesis testing. The iht_interpreter() helps interpret informative hypothesis testing results based on guidelines in Vanbrabant and Rosseel (2020) . Package: r-cran-mmlr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-mmlr_0.2.0-1.ca2004.1_all.deb Size: 68912 MD5sum: bcb55a86f4d516de875abbe88dcb763c SHA1: 966d2fec7df69353f3d4ebd0570322d11b5c1986 SHA256: ab87bac9b67963b114b20522f95e94c4c353716acdac58cbd5bec566a27bd3fa SHA512: d6a83ef421f2a53195f154f04ed59e2386c95be9917edbfba53feb6264c144dd869981c6ebb9306c4c3d55ee5e5eb3a0f177f35b8ffd9452ace82dbe0c497654 Homepage: https://cran.r-project.org/package=MMLR Description: CRAN Package 'MMLR' (Fitting Markov-Modulated Linear Regression Models) A set of tools for fitting Markov-modulated linear regression, where responses Y(t) are time-additive, and model operates in the external environment, which is described as a continuous time Markov chain with finite state space. Model is proposed by Alexander Andronov (2012) and algorithm of parameters estimation is based on eigenvalues and eigenvectors decomposition. Markov-switching regression models have the same idea of varying the regression parameters randomly in accordance with external environment. The difference is that for Markov-modulated linear regression model the external environment is described as a continuous-time homogeneous irreducible Markov chain with known parameters while switching models consider Markov chain as unobserved and estimation procedure involves estimation of transition matrix. These models have significant differences in terms of the analytical approach. Also, package provides a set of data simulation tools for Markov-modulated linear regression (for academical/research purposes). Research project No. 1.1.1.2/VIAA/1/16/075. 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Package: r-cran-mmoc Architecture: all Version: 0.1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4027 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-spectrum, r-cran-igraph, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-snftool, r-cran-plotly Filename: pool/dists/focal/main/r-cran-mmoc_0.1.1.0-1.ca2004.1_all.deb Size: 1058628 MD5sum: a7a155b8631c763a9a5d0c8cdf295f42 SHA1: 28cda8553e6ffbb2ab3e2cde1892984087925607 SHA256: b5e183274e15c114f999f20ddd8000d06bc40d500279d72a918983159deee70d SHA512: 696699150e6d7ade6d06bbc9d1a7f6292ae772b6a38c5ebf4dcf9d7a9ce4b8d15d0021029c40e87a83571b7627271ed6527cfda1f8ef83d7c25bbed1e028107b Homepage: https://cran.r-project.org/package=MMOC Description: CRAN Package 'MMOC' (Multi-Omic Spectral Clustering using the Flag Manifold) Multi-omic (or any multi-view) spectral clustering methods often assume the same number of clusters across all datasets. We supply methods for multi-omic spectral clustering when the number of distinct clusters differs among the omics profiles (views). Package: r-cran-mmod Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 335 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-adegenet, r-cran-pegas Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mmod_1.3.3-1.ca2004.1_all.deb Size: 288368 MD5sum: bfed6c2478fa4e1aacd228ab9260fe8d SHA1: cdf6492a7a9b90d3a4ebd1854675e76cd2efe6d8 SHA256: bb5ad9ee47ba8401c011417ddd88d16769fa4a3df99fc9d147302e0cd75515c3 SHA512: 5f0fb51d345e3a2185d2c9c987338f08a2a7710df8d16c42d25dd45763936c75ec8f2f702de3037e942849a73025a067f1abdae4647c3177f962366938a24d13 Homepage: https://cran.r-project.org/package=mmod Description: CRAN Package 'mmod' (Modern Measures of Population Differentiation) Provides functions for measuring population divergence from genotypic data. 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This software primarily concentrates on phylogenetic regression analysis, enabling implementation of tree transformation averaging and visualization functionality. Functions additionally support information theoretic approaches (Grueber, 2011 ; Garamszegi, 2011 ) such as model averaging and selection of phylogenetic models. Accessory functions are also implemented for coef standardization (Cade 2015), selection uncertainty, and variable importance (Burnham & Anderson 2000). There are other numerous functions for visualizing confounded variables, plotting phylogenetic trees, as well as reporting and exporting modeling results. Lastly, as challenges to ecology are inherently multifarious, and therefore often multi-dataset, this package features several functions to support the identification, interpolation, merging, and updating of missing data and outdated nomenclature. 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Package: r-cran-mmtsne Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mmtsne_0.1.0-1.ca2004.1_all.deb Size: 32484 MD5sum: 840aef5d07283661d0cdaf64e497e77b SHA1: 8bb9a50ff586861054ae229687c220d641559d39 SHA256: dbb1e4ba9d4a0e52ac646408fe585813c071a234833f79da51eff92b09e332cc SHA512: 5a8b5dc86ad7b0920e321e93279e1f5a3f873b6c15be74af253969ee1e7315f44bcf5723c38f885e5e0be9bd3ad3bfb2bc9fd832163710a0f007c8e7d1848870 Homepage: https://cran.r-project.org/package=mmtsne Description: CRAN Package 'mmtsne' (Multiple Maps t-SNE) An implementation of multiple maps t-distributed stochastic neighbor embedding (t-SNE). Multiple maps t-SNE is a method for projecting high-dimensional data into several low-dimensional maps such that non-metric space properties are better preserved than they would be by a single map. 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Assessing and Visualizing Matrix Variate Normality. and the relevant wikipedia page. 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Including also, the estimation process by maximum likelihood method, for details see Fabio, L. C; Villegas, C. L.; Carrasco, J.M.F and de Castro, M. (2023) and Fábio, L. C.; Villegas, C.; Mamun, A. S. M. A. and Carrasco, J. M. F. (2025) . 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In such networks, nodes represent biological elements, such as genes, proteins and microbes, and their interactions can be defined by edges, which can be either binary or weighted. The dysregulation of these networks can be associated with different clinical conditions such as diseases and response to treatments. However, such variations often occur locally and do not concern the whole network. To capture local variations of such networks, we propose multiplex network differential analysis (MNDA). MNDA allows to quantify the variations in the local neighborhood of each node (e.g. gene) between the two given clinical states, and to test for statistical significance of such variation. Yousefi et al. (2023) . 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It takes a specified scenario and a multinomial model to predict probabilities with a set of coefficients, drawn from a simulated sampling distribution. The simulated predictions allow for meaningful plots with means and confidence intervals. The methodological approach is based on the principles laid out by King, Tomz, and Wittenberg (2000) and Hanmer and Ozan Kalkan (2016) . 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The presentation has a template for solving problems on Multinomial Logistic Regression. Runtime examples are provided in the package function as well as at . Package: r-cran-mnm Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 338 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-icsnp, r-cran-spatialnp, r-cran-ellipse, r-cran-ics Suggests: r-cran-gamlss, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-mnm_1.0-4-1.ca2004.1_all.deb Size: 303272 MD5sum: cdabafb3c58c57074d9c5e56088ce469 SHA1: bf83d46749a364c7326b242cfe55a752f73fba3c SHA256: f878468e5af4aec5d0a00d670f7f510feff7a61213f46b1ddcd2777458fe7c77 SHA512: 82b1a821f1ec3f96a43e844d358edf81b4efd40243b852fb8a7dc86a6a225fc221b77723bf582e59ac1486a529cefd91bf37282b3c38a64afc98a00b747dfc50 Homepage: https://cran.r-project.org/package=MNM Description: CRAN Package 'MNM' (Multivariate Nonparametric Methods. An Approach Based on SpatialSigns and Ranks) Multivariate tests, estimates and methods based on the identity score, spatial sign score and spatial rank score are provided. The methods include one and c-sample problems, shape estimation and testing, linear regression and principal components. The methodology is described in Oja (2010) and Nordhausen and Oja (2011) . 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It combines two different methods to generate non-normal data, one with user-specified multivariate skewness and kurtosis (more details can be found in the paper: Qu, Liu, & Zhang, 2019 ), and the other with the given marginal skewness and kurtosis. The latter one is the widely-used Vale and Maurelli's method. It also contains a function to calculate univariate and multivariate (Mardia's Test) skew and kurtosis. Package: r-cran-mnormtest Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rmpfr Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-yaml, r-cran-testthat, r-cran-devtools, r-cran-roxygen2, r-cran-pkgbuild, r-cran-covr, r-cran-usethis, r-cran-dt Filename: pool/dists/focal/main/r-cran-mnormtest_1.1.1-1.ca2004.1_all.deb Size: 63468 MD5sum: 4474b77567c0237a9dffd12cf0b31e77 SHA1: ae894db59593852292bda147f2e1ef2555e49264 SHA256: 065fcbfd97a5040019c96852ec74d26da205e4dc36ba9a5274f394ed7545ffda SHA512: 10064073679935681a5fcd809207aeb50c7fba7e829c5b2c2deac3e393ebfaf76036ccf7c7c6cad847decf829a6cb7ec338922ff66c2685f6dbd71d2a512edb8 Homepage: https://cran.r-project.org/package=MNormTest Description: CRAN Package 'MNormTest' (Multivariate Normal Hypothesis Testing) Hypothesis testing of the parameters of multivariate normal distributions, including the testing of a single mean vector, two mean vectors, multiple mean vectors, a single covariance matrix, multiple covariance matrices, a mean and a covariance matrix simultaneously, and the testing of independence of multivariate normal random vectors. Huixuan, Gao (2005, ISBN:9787301078587), "Applied Multivariate Statistical Analysis". 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Provides the necessary functions to plot the MNREAD curve and estimate automatically the four MNREAD parameters: Maximum Reading Speed, Critical Print Size, Reading Acuity and Reading Accessibility Index. Parameters can be estimated either with the standard method or with a nonlinear mixed-effects (NLME) modeling. See Calabrese et al. 2018 for more details . 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The framework allows you to list available modules and select a module of interest using a basic e-mail interface. After selecting a specific module, you can either run it as is or provide input via the e-mail interface. After parsing your request, R will send the results back to your mobile device. 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Package: r-cran-moc.gapbk Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-amap, r-cran-nsga2r, r-cran-foreach, r-cran-doparallel, r-cran-dosnow, r-cran-dompi Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-moc.gapbk_0.1.3-1.ca2004.1_all.deb Size: 48356 MD5sum: b1fe06e3cb5ed2037a6b819e13dc2d2e SHA1: 785159aa01d77865665130cc46ee5abf405909e6 SHA256: 1f086d6d59e2085061de946fa736f2cc2e419288a42435e13c20af6cd977bd93 SHA512: 55f5a32b65850d974cd255948151d1bf9a9d84c10075534981886a4e2b04c6467afc7e8a36436c8d9fbbf29bd720edfac000a0c1c057001708d683ae776251ee Homepage: https://cran.r-project.org/package=moc.gapbk Description: CRAN Package 'moc.gapbk' (Multi-Objective Clustering Algorithm Guided by a-PrioriBiological Knowledge) Implements the Multi-Objective Clustering Algorithm Guided by a-Priori Biological Knowledge (MOC-GaPBK) which was proposed by Parraga-Alava, J. et. al. (2018) . Package: r-cran-mocca Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cclust, r-cran-clue, r-cran-cluster, r-cran-class Filename: pool/dists/focal/main/r-cran-mocca_1.4-1.ca2004.1_all.deb Size: 48732 MD5sum: 1bf70095333c57c2212a4764d71fae82 SHA1: 4c5219eaf409145caf697cbceedb32c1d8bdcec0 SHA256: e666e67fccfaf5f3f02bc9355434be87f09d7d0fffe8426175d39a3f7320596f SHA512: fb02b391f421e99c0030e81d352947ee635e66d6a6aaa7f6b4946723b17ce98f79ef70f4f3d10c72e81817da1f481c84ec0ddba3870d7c63e92cb518736764d7 Homepage: https://cran.r-project.org/package=MOCCA Description: CRAN Package 'MOCCA' (Multi-Objective Optimization for Collecting Cluster Alternatives) Provides methods to analyze cluster alternatives based on multi-objective optimization of cluster validation indices. For details see Kraus et al. (2011) . 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These novel modules remove unwanted technical variation, identify open chromatin, robustly models repeated measures in single cell data, implement advanced statistical frameworks to model zero-inflation for differential and co-accessibility analyses, and integrate with existing databases and modules for downstream analyses to reveal biological insights. MOCHA provides a statistical foundation for complex downstream analysis to help advance the potential of single cell ATAC-seq for applied studies. Methods for zero-inflated statistics are as described in: Ghazanfar, S., Lin, Y., Su, X. et al. (2020) . Pimentel, Ronald Silva, "Kendall's Tau and Spearman's Rho for Zero-Inflated Data" (2009) . Package: r-cran-mockery Architecture: all Version: 0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-testthat Suggests: r-cran-knitr, r-cran-r6, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mockery_0.4.4-1.ca2004.1_all.deb Size: 40608 MD5sum: dffc5c05fbac5b2cebd4a1748d67dc19 SHA1: 4e7204805009027eb5b2c069aa7090cb3316d83c SHA256: 87e25b4a2dbced4c8378a2af35e28c84b3db2d2e9aa9da93c33f498a35fab234 SHA512: e2d71d42b32a6084c319db5d1258d22aab19d7af7e5883ab14fc483fd395d39f7b641bc4ebc3df5e697eeee11b64e5998d04dab3cbc21562032a52417ef4a758 Homepage: https://cran.r-project.org/package=mockery Description: CRAN Package 'mockery' (Mocking Library for R) The two main functionalities of this package are creating mock objects (functions) and selectively intercepting calls to a given function that originate in some other function. It can be used with any testing framework available for R. 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Package: r-cran-mod09nrt Architecture: all Version: 0.14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mod09nrt_0.14-1.ca2004.1_all.deb Size: 33200 MD5sum: a399547953fe42592e04fc7dccf1951e SHA1: 24d5a7c691ea1f4d6bc7927591f552d5327b7a06 SHA256: 1127cba9408adbed6857f1e0e75d7b75705f580aacd5249597c9d1d2d1ac1317 SHA512: 34819adfc344b1e0f8ec29368d6f155224473b450b96afb2a9b0f66126fbf02b15db32373561d542310eb07f1318b726cc2a938d1ffcf8d0d8325fc5fe671257 Homepage: https://cran.r-project.org/package=mod09nrt Description: CRAN Package 'mod09nrt' (Extraction of Bands from MODIS Surface Reflectance Product MOD09NRT) Package for processing downloaded MODIS Surface reflectance Product HDF files. Specifically, MOD09 surface reflectance product files, and the associated MOD03 geolocation files (for MODIS-TERRA). 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Package: r-cran-mod2rm Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-scales Filename: pool/dists/focal/main/r-cran-mod2rm_0.2.1-1.ca2004.1_all.deb Size: 52136 MD5sum: 55cb712d60ce2ac8ac9c7f0f9ddaea8a SHA1: c00c933d746f17caf95d7c5bf0d419e1ee0aed08 SHA256: 8fd9db7711ea776678ca48a4b89655417e940dbe871020d524aebd8de8fcd8a4 SHA512: da70a4bce28fbd5abf771b4f6a76b71ad4c6bf6411da11c873d89d7741f3af991e5a065feb4829f56897183c12d419675d64dad03948f8d5060e160f613446bc Homepage: https://cran.r-project.org/package=mod2rm Description: CRAN Package 'mod2rm' (Moderation Analysis for Two-Instance Repeated Measures Designs) Multiple moderation analysis for two-instance repeated measures designs, with up to three simultaneous moderators (dichotomous and/or continuous) with additive or multiplicative relationship. Includes analyses of simple slopes and conditional effects at (automatically determined or manually set) values of the moderator(s), as well as an implementation of the Johnson-Neyman procedure for determining regions of significance in single moderator models. Based on Montoya, A. K. (2018) "Moderation analysis in two-instance repeated measures designs: Probing methods and multiple moderator models" . Package: r-cran-mod Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-mod_0.1.3-1.ca2004.1_all.deb Size: 46848 MD5sum: f3f3357805014f5bdc5bba31c7c1d8fe SHA1: 757cd891aa9830273e685bfa9257bf325439e7bf SHA256: 6b83b88d50777046ce4d542cdc3ee8c43d69cc9ae61d7c6196325c18ee4ce89f SHA512: 38cf478d24c261d04ef5fc4fb485508c59d436d3f9cb1f1b06790a07a7fda7eda436afa97a970790c7fe8685b1502a72ee13e17f58383cdfe3dd33f979475ba4 Homepage: https://cran.r-project.org/package=mod Description: CRAN Package 'mod' (Lightweight and Self-Contained Modules for Code Organization) Creates modules inline or from a file. Modules can contain any R object and be nested. Each module have their own scope and package "search path" that does not interfere with one another or the user's working environment. Package: r-cran-modacdc Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ccp, r-cran-data.table, r-cran-doparallel, r-cran-foreach, r-cran-genieclust, r-cran-genio, r-cran-ggplot2, r-cran-partition, r-cran-tibble, r-cran-tidyr Suggests: r-cran-cca Filename: pool/dists/focal/main/r-cran-modacdc_2.0.1-1.ca2004.1_all.deb Size: 104008 MD5sum: 9a86b09514d84ccb571144ef4023263a SHA1: 22d96667232eb5d6479fa14ae4e9c675f0423856 SHA256: 999c5be2676f66f4336fd0d840a63ea64dea29f718ada20b085c33e0c01c91d6 SHA512: 9f93d406e29ef06dc6ba674b39d90c5a43c4c56956c12e11f2ecb2322d80639a98e5a39894b5abcd98741411079a387ed47c7440150ba7cf3d34968b99170a25 Homepage: https://cran.r-project.org/package=modACDC Description: CRAN Package 'modACDC' (Association of Covariance for Detecting DifferentialCo-Expression) A series of functions to implement association of covariance for detecting differential co-expression (ACDC), a novel approach for detection of differential co-expression that simultaneously accommodates multiple phenotypes or exposures with binary, ordinal, or continuous data types. Users can use the default method which identifies modules by Partition or may supply their own modules. Also included are functions to choose an information loss criterion (ILC) for Partition using OmicS-data-based Complex trait Analysis (OSCA) and Genome-wide Complex trait Analysis (GCTA). The manuscript describing these methods is as follows: Queen K, Nguyen MN, Gilliland F, Chun S, Raby BA, Millstein J. "ACDC: a general approach for detecting phenotype or exposure associated co-expression" (2023) . 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These model-based non-parametric clustering techniques can extract clusters in very high dimensions with arbitrary density shapes. By default clustering is performed over several resolutions and the results are summarised as a hierarchical tree. Associated plot functions are also provided. There is a package vignette that provides many examples. This version adheres to CRAN policy of not spanning more than two child processes by default. 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Package: r-cran-modeest Architecture: all Version: 2.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fbasics, r-cran-stable, r-cran-stabledist, r-cran-statip Suggests: r-cran-evd, r-cran-knitr, r-cran-mvtnorm, r-cran-testthat, r-cran-vgam Filename: pool/dists/focal/main/r-cran-modeest_2.4.0-1.ca2004.1_all.deb Size: 141880 MD5sum: b8dfedf997a9b2d8d38d65035f771648 SHA1: 1d46cb536415221bdcaae0043e89b47bb1e903ef SHA256: 2edf564f9e8c6795de6166367d2a9876cb973bb6a5b8efa1300fcc9be99e0c5d SHA512: 5de9090e2d552f0b983de2959bed500a799abf67d5a117f73858adc786c5ed25a8c34588da68d233ca48bae57d6bdf067455af829bb3293cf1aac7bcbcf04a07 Homepage: https://cran.r-project.org/package=modeest Description: CRAN Package 'modeest' (Mode Estimation) Provides estimators of the mode of univariate data or univariate distributions. Package: r-cran-modehunt Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-modehunt_1.0.8-1.ca2004.1_all.deb Size: 104192 MD5sum: e15062c1244636a57df56076d313c076 SHA1: 069ece286172d80cf02857afd5ec3f3e71825e41 SHA256: f0417e64e79360b66fa7aa6b4bcc3f28aa1bbe932af0339c02babf8a1dc1f915 SHA512: 427ec96253d3d5f641c2aec97f321e3b29243e2356157f7452b90d8078ea018825d2de08134496af2b3b942f236b9f389f56f532b149846a75293955808ea41e Homepage: https://cran.r-project.org/package=modehunt Description: CRAN Package 'modehunt' (Multiscale Analysis for Density Functions) Given independent and identically distributed observations X(1), ..., X(n) from a density f, provides five methods to perform a multiscale analysis about f as well as the necessary critical values. The first method, introduced in Duembgen and Walther (2008), provides simultaneous confidence statements for the existence and location of local increases (or decreases) of f, based on all intervals I(all) spanned by any two observations X(j), X(k). The second method approximates the latter approach by using only a subset of I(all) and is therefore computationally much more efficient, but asymptotically equivalent. Omitting the additive correction term Gamma in either method offers another two approaches which are more powerful on small scales and less powerful on large scales, however, not asymptotically minimax optimal anymore. Finally, the block procedure is a compromise between adding Gamma or not, having intermediate power properties. The latter is again asymptotically equivalent to the first and was introduced in Rufibach and Walther (2010). Package: r-cran-model4you Architecture: all Version: 0.9-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-partykit, r-cran-sandwich, r-cran-ggplot2, r-cran-formula, r-cran-gridextra, r-cran-survival Suggests: r-cran-mvtnorm, r-cran-th.data, r-cran-psychotools, r-cran-strucchange, r-cran-plyr, r-cran-knitr, r-cran-ggbeeswarm, r-cran-mass Filename: pool/dists/focal/main/r-cran-model4you_0.9-8-1.ca2004.1_all.deb Size: 150812 MD5sum: fb81e1d456cb50805d03c827b42056df SHA1: c68c3b34f7eeba78bb2e1408ac87da67c2961074 SHA256: 6f4cb8a83a0339df7cbb5267abf4a22ef75e0b9c9bf8049feb58fbab82e3a9e3 SHA512: 5f159b798dea0b4a4f296de4434c5829264a6761772f4849728d84871c192007c0cf331ef3d08d3522b7b980a8aa2a4c51752070a4f8c569ae544280bb5da618 Homepage: https://cran.r-project.org/package=model4you Description: CRAN Package 'model4you' (Stratified and Personalised Models Based on Model-Based Treesand Forests) Model-based trees for subgroup analyses in clinical trials and model-based forests for the estimation and prediction of personalised treatment effects (personalised models). Currently partitioning of linear models, lm(), generalised linear models, glm(), and Weibull models, survreg(), is supported. Advanced plotting functionality is supported for the trees and a test for parameter heterogeneity is provided for the personalised models. For details on model-based trees for subgroup analyses see Seibold, Zeileis and Hothorn (2016) ; for details on model-based forests for estimation of individual treatment effects see Seibold, Zeileis and Hothorn (2017) . 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Package: r-cran-modelmatrixmodel Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-modelmatrixmodel_0.1.0-1.ca2004.1_all.deb Size: 30772 MD5sum: f36b0035438c43bd9084155cba321831 SHA1: 43eca45c6ac6e8c3110e38c656c7c2a017146c4a SHA256: 58850072e02cefbcb816b4174aadcc38464eb9e9483fbad75fe16540ec5f4631 SHA512: 711d8f357633db9e7c8320ef85832342f7a3dc0eadf1460f78dc24e7d1b73fe347ced01cbb533c265dc0330802d49b0fad91800de91cdc414ce826b4a543a965 Homepage: https://cran.r-project.org/package=ModelMatrixModel Description: CRAN Package 'ModelMatrixModel' (Create Model Matrix and Save the Transforming Parameters) The model.matrix() function in R is convenient for transforming training dataset for modeling. But it does not save any parameter used in transformation, so it is hard to apply the same transformation to test dataset or new dataset. This package is created to solve the problem. Package: r-cran-modelobj Architecture: all Version: 4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 631 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-modelobj_4.3-1.ca2004.1_all.deb Size: 526572 MD5sum: c3b5315d9cbf6351ca11a4c6534c15fb SHA1: 37479a616d0494867fec93b65be49653a3494957 SHA256: bc595077687c7e517807db4ccc448184203a1736e22b679c8ba003bba5b03442 SHA512: c9335fce2283337855eaae16a183760194882c03b08c394bca15703553750c1f830ce07b8866dafd1312ec705d9e9916231f5ae62987f2d11e690c56c427d98b Homepage: https://cran.r-project.org/package=modelObj Description: CRAN Package 'modelObj' (A Model Object Framework for Regression Analysis) A utility library to facilitate the generalization of statistical methods built on a regression framework. Package developers can use 'modelObj' methods to initiate a regression analysis without concern for the details of the regression model and the method to be used to obtain parameter estimates. The specifics of the regression step are left to the user to define when calling the function. The user of a function developed within the 'modelObj' framework creates as input a 'modelObj' that contains the model and the R methods to be used to obtain parameter estimates and to obtain predictions. In this way, a user can easily go from linear to non-linear models within the same package. Package: r-cran-modelplotr Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1169 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-magrittr, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-ggfittext, r-cran-scales, r-cran-rlang Suggests: r-cran-mlr, r-cran-caret, r-cran-randomforest, r-cran-e1071, r-cran-h2o, r-cran-keras, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-xgboost, r-cran-stringr, r-cran-kableextra, r-cran-lattice, r-cran-ranger, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-modelplotr_1.1.0-1.ca2004.1_all.deb Size: 777952 MD5sum: 0c247878afaf09128087cbb72d3b3902 SHA1: d7794125a90fafa8ac2fe7cd286476937120823b SHA256: a3c54073469ac2c0dab19b5a64b7728c34435058536bc294f6eba33049441db3 SHA512: 29f559092de86e1e02f5d15003e2b53243ff957ef3864f543a21e2fd248ba43fbe4432655482dd226f343d0c4520d161eeccda6d1d9efb5baa461199f1ac66de Homepage: https://cran.r-project.org/package=modelplotr Description: CRAN Package 'modelplotr' (Plots to Evaluate the Business Performance of Predictive Models) Plots to assess the quality of predictive models from a business perspective. Using these plots, it can be shown how implementation of the model will impact business targets like response on a campaign or return on investment. Different scopes can be selected: compare models, compare datasets or compare target class values and various plot customization and highlighting options are available. targets like response on a campaign. Different scopes can be selected: compare models, compare datasets or compare target class values and various plot customization and highlighting options are available. Package: r-cran-modelr Architecture: all Version: 0.1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 240 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-broom, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-vctrs Suggests: r-cran-covr, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-modelr_0.1.11-1.ca2004.1_all.deb Size: 200288 MD5sum: 6e52db57f7d22429f99ced5ad8b1bd17 SHA1: 12077fcc5b170ac9be363acc7ca67ff87c1f856d SHA256: 02ce7ce309b4bec5ac166fb09f1bbd14f1d12d49876d7268624cc38c23f03865 SHA512: c5199b056c9c691087980cdda99f645baa566cc4227d04fba47ae12faf3ebeac3d15bdded89c644b909d8ea16c2c37888c2caad75587b524fbe72bf0499c0fe1 Homepage: https://cran.r-project.org/package=modelr Description: CRAN Package 'modelr' (Modelling Functions that Work with the Pipe) Functions for modelling that help you seamlessly integrate modelling into a pipeline of data manipulation and visualisation. Package: r-cran-modelroc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-do, r-cran-tmcn, r-cran-rocit, r-cran-survivalroc Suggests: r-cran-ggdca, r-cran-rms Filename: pool/dists/focal/main/r-cran-modelroc_1.0-1.ca2004.1_all.deb Size: 49000 MD5sum: a0803b724f837c335caca990fc50599e SHA1: 6a331494abdf9c13e3f6d024d7171bfe17040fbc SHA256: 3ad5b314e75a3bed82a469df7614e932525f98bd7e7b185c4667f55b1844c714 SHA512: c996db1b5e41f70290a0201125bf85fcf80497acb94596ca0c17d2780666268ee67ba7a0945ca1e83235340d0c65857a41dafeea2377b39b859fe4d9768fa7dc Homepage: https://cran.r-project.org/package=modelROC Description: CRAN Package 'modelROC' (Model Based ROC Analysis) The ROC curve method is one of the most important and commonly used methods for model accuracy assessment, which is one of the most important elements of model evaluation. The 'modelROC' package is a model-based ROC assessment tool, which directly works for ROC analysis of regression results for logistic regression of binary variables, including the glm() and lrm() commands, and COX regression for survival analysis, including the cph() and coxph() commands. The most important feature of 'modelROC' is that both the model and the independent variables can be analysed simultaneously, and for survival analysis multiple time points and area under the curve analysis are supported. Still, flexible visualisation is possible with the 'ggplot2' package. Reference are Kelly H. Zou (1998) and P J Heagerty (2000) . Package: r-cran-modelsse Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-delaporte Filename: pool/dists/focal/main/r-cran-modelsse_0.1-3-1.ca2004.1_all.deb Size: 128116 MD5sum: 7792f359369cfc859ab8d51995d1d88a SHA1: 6c844049bad6326209da52d2a9a3ee980ab1dd54 SHA256: 35b12b90dd61f19eced0deba5b569e1bc8f2d41f19b6b28d3536da3fa1750dd5 SHA512: 9a0388f5e562c54605167797936c984d26a3a5bb8168e506077b120feb8a94e4e51c6c2468f343fac72bb73d7c9aace5f0dbf623919b0b52850e8bb0c9c60a38 Homepage: https://cran.r-project.org/package=modelSSE Description: CRAN Package 'modelSSE' (Modelling Infectious Disease Superspreading from Contact TracingData) Comprehensive analytical tools are provided to characterize infectious disease superspreading from contact tracing surveillance data. The underlying theoretical frameworks of this toolkit include branching process with transmission heterogeneity (Lloyd-Smith et al. (2005) ), case cluster size distribution (Nishiura et al. (2012) , Blumberg et al. (2014) , and Kucharski and Althaus (2015) ), and decomposition of reproduction number (Zhao et al. (2022) ). Package: r-cran-modelstudio Architecture: all Version: 3.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1405 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dalex, r-cran-ingredients, r-cran-ibreakdown, r-cran-r2d3, r-cran-jsonlite, r-cran-progress, r-cran-digest Suggests: r-cran-parallelmap, r-cran-ranger, r-cran-xgboost, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-spelling Filename: pool/dists/focal/main/r-cran-modelstudio_3.1.2-1.ca2004.1_all.deb Size: 324620 MD5sum: 390baa1e1b1629b1e810237a95f4669d SHA1: cdaec44f519d36affc8c0c4b3f6cd71a8b05f675 SHA256: 224e0eb04943f813c37cb05d9f3b1fb48e2f22eceb7483edf0f9671615d9e857 SHA512: 07d5c6732135f4119e7dae37fa4f8ae459c2f494348067db6af525f9c3fad5e23dafad6d8c3aeb6ef0ebf6c2790e5b082f06028398e8034d1699a394e1413fb1 Homepage: https://cran.r-project.org/package=modelStudio Description: CRAN Package 'modelStudio' (Interactive Studio for Explanatory Model Analysis) Automate the explanatory analysis of machine learning predictive models. Generate advanced interactive model explanations in the form of a serverless HTML site with only one line of code. This tool is model-agnostic, therefore compatible with most of the black-box predictive models and frameworks. The main function computes various (instance and model-level) explanations and produces a customisable dashboard, which consists of multiple panels for plots with their short descriptions. It is possible to easily save the dashboard and share it with others. modelStudio facilitates the process of Interactive Explanatory Model Analysis introduced in Baniecki et al. (2023) . Package: r-cran-modelsummary Architecture: all Version: 2.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4674 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-generics, r-cran-glue, r-cran-insight, r-cran-parameters, r-cran-performance, r-cran-tables, r-cran-tinytable Suggests: r-cran-aer, r-cran-altdoc, r-cran-amelia, r-cran-betareg, r-cran-bookdown, r-cran-brms, r-cran-broom, r-cran-broom.mixed, r-cran-car, r-cran-clubsandwich, r-cran-correlation, r-cran-covr, r-cran-did, r-cran-digest, r-cran-dt, r-cran-estimatr, r-cran-fixest, r-cran-flextable, r-cran-future, r-cran-future.apply, r-cran-gamlss, r-cran-ggdist, r-cran-ggplot2, r-cran-gh, r-cran-gt, r-cran-gtextras, r-cran-haven, r-cran-huxtable, r-cran-labelled, r-cran-irdisplay, r-cran-ivreg, r-cran-kableextra, r-cran-knitr, r-cran-lavaan, r-cran-lfe, r-cran-lme4, r-cran-lmtest, r-cran-magick, r-cran-magrittr, r-cran-marginaleffects, r-cran-mass, r-cran-mgcv, r-cran-mice, r-cran-nlme, r-cran-nnet, r-cran-officer, r-cran-openxlsx, r-cran-pandoc, r-cran-pscl, r-cran-psych, r-cran-randomizr, r-cran-remotes, r-cran-rmarkdown, r-cran-rstanarm, r-cran-rsvg, r-cran-sandwich, r-cran-spelling, r-cran-survey, r-cran-survival, r-cran-tibble, r-cran-tictoc, r-cran-tidyselect, r-cran-tidyverse, r-cran-tinysnapshot, r-cran-tinytest, r-cran-tinytex, r-cran-webshot2, r-cran-wesanderson Filename: pool/dists/focal/main/r-cran-modelsummary_2.4.0-1.ca2004.1_all.deb Size: 3512888 MD5sum: 3e6f6190e83254f897f946009e61f493 SHA1: 409057c172d2619e8f2853aaadb423ade4102e14 SHA256: dcb6e66de5c13ab554229753aad79542d781ad88666b4533104930088d3ddbce SHA512: 7c603477d075fb00a4158b04f58545d02c75e5092142a4af8884734772b1ac7179154d67953ff33e2aa5d8e39070721a1097e09ea01f9f7047686b38d651c780 Homepage: https://cran.r-project.org/package=modelsummary Description: CRAN Package 'modelsummary' (Summary Tables and Plots for Statistical Models and Data:Beautiful, Customizable, and Publication-Ready) Create beautiful and customizable tables to summarize several statistical models side-by-side. Draw coefficient plots, multi-level cross-tabs, dataset summaries, balance tables (a.k.a. "Table 1s"), and correlation matrices. This package supports dozens of statistical models, and it can produce tables in HTML, LaTeX, Word, Markdown, PDF, PowerPoint, Excel, RTF, JPG, or PNG. Tables can easily be embedded in 'Rmarkdown' or 'knitr' dynamic documents. Details can be found in Arel-Bundock (2022) . Package: r-cran-modeltests Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-generics, r-cran-purrr, r-cran-testthat, r-cran-tibble Suggests: r-cran-covr Filename: pool/dists/focal/main/r-cran-modeltests_0.1.6-1.ca2004.1_all.deb Size: 70660 MD5sum: e5d5357081959f6998c422910f2245ee SHA1: 827553895935eb3e32c1819ef1ee210a6db76861 SHA256: d5a9df7f446110ca14ce053a8d864f420552f1c8d5fe87418d7b91cc75943e16 SHA512: 35df1aaff3af4bae54bf4568760b6b360edc7ec90d897f67ad6be6985cb922cecdacabb763a997c67bce4e26830c50831542357ce0570c897e2d8ad37de8b234 Homepage: https://cran.r-project.org/package=modeltests Description: CRAN Package 'modeltests' (Testing Infrastructure for Broom Model Generics) Provides a number of testthat tests that can be used to verify that tidy(), glance() and augment() methods meet consistent specifications. 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Package: r-cran-modeltime.ensemble Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2739 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-modeltime, r-cran-modeltime.resample, r-cran-tune, r-cran-rsample, r-cran-yardstick, r-cran-workflows, r-cran-recipes, r-cran-timetk, r-cran-tibble, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-stringr, r-cran-rlang, r-cran-cli, r-cran-generics, r-cran-magrittr, r-cran-tictoc, r-cran-doparallel, r-cran-foreach, r-cran-glmnet Suggests: r-cran-gt, r-cran-dials, r-cran-earth, r-cran-testthat, r-cran-tidymodels, r-cran-xgboost, r-cran-lubridate, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-modeltime.ensemble_1.0.4-1.ca2004.1_all.deb Size: 1601780 MD5sum: 6e01dbf8cad022bdab55c0e584aebd20 SHA1: 44be4207c79bc2ae4dd9fbeaca07c7dbc0e0e4fb SHA256: eb422f178377e22bfe0366e07874563508fda0731c516fef366ca62c6dafd8a4 SHA512: d943b4045c1bb0b945eee95a4913745a740f8e1addd2a33752078ffc01a7831f8e33c70591214d8198ece35abcb85daa8a1547742816e1fb9e9fedd96e897f55 Homepage: https://cran.r-project.org/package=modeltime.ensemble Description: CRAN Package 'modeltime.ensemble' (Ensemble Algorithms for Time Series Forecasting with Modeltime) A 'modeltime' extension that implements time series ensemble forecasting methods including model averaging, weighted averaging, and stacking. 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Available models include 'DeepAR', 'N-BEATS', and 'N-BEATS' Ensemble. Refer to "GluonTS - Probabilistic Time Series Modeling" (). Package: r-cran-modeltime.h2o Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 895 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-modeltime, r-cran-h2o, r-cran-magrittr, r-cran-rlang, r-cran-tibble, r-cran-timetk, r-cran-dplyr, r-cran-parsnip, r-cran-purrr, r-cran-tidyr, r-cran-stringr, r-cran-glue, r-cran-fs Suggests: r-cran-tidymodels, r-cran-workflows, r-cran-tidyverse, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-modeltime.h2o_0.1.1-1.ca2004.1_all.deb Size: 857312 MD5sum: 8a588428fa6115e1745b4c3486be7947 SHA1: 09d5d4992bf818f69dbe2ec35cc1c8dfc5ee6b76 SHA256: c01ee5141f0a48d00bd0aa792db33799a34b6b1457df16f5ed5fb5554ffc7e22 SHA512: 90748ae1feb86cb8b725c94b13250cfa950607728861fd95e2b7a973ab285c021101631266d7c0b892494a6237ca31431c497071d9ff294c3472a9f77018eeca Homepage: https://cran.r-project.org/package=modeltime.h2o Description: CRAN Package 'modeltime.h2o' (Modeltime 'H2O' Machine Learning) Use the 'H2O' machine learning library inside of 'modeltime'. Available models include 'AutoML' for Automatic Machine Learning. Please see H2O.ai for more information . Package: r-cran-modeltime.resample Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1605 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-modeltime, r-cran-tune, r-cran-rsample, r-cran-workflows, r-cran-parsnip, r-cran-recipes, r-cran-dials, r-cran-yardstick, r-cran-timetk, r-cran-tibble, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-forcats, r-cran-glue, r-cran-stringr, r-cran-ggplot2, r-cran-plotly, r-cran-cli, r-cran-crayon, r-cran-magrittr, r-cran-rlang, r-cran-progressr, r-cran-tictoc, r-cran-hardhat Suggests: r-cran-roxygen2, r-cran-testthat, r-cran-tidymodels, r-cran-tidyverse, r-cran-tidyquant, r-cran-glmnet, r-cran-lubridate, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-remotes Filename: pool/dists/focal/main/r-cran-modeltime.resample_0.2.3-1.ca2004.1_all.deb Size: 1307632 MD5sum: 4daba5cef1f3f24806d56725dc23db95 SHA1: d8fcbf44bad3c67e48842ebe357f14e27cab44c8 SHA256: b7bd21a639af76480d09fcbd38f19fe294eed54150fe3397ed7ad6fd5c6f7aa0 SHA512: 5f9bf137e77f06a6b02cf3162a2659afbbb99e3ffe2525df0ad6468e94b42b423b9c45887421b1c7d79077ccf1b09b4e4405c90cf056632b6c45c92a78438d3f Homepage: https://cran.r-project.org/package=modeltime.resample Description: CRAN Package 'modeltime.resample' (Resampling Tools for Time Series Forecasting) A 'modeltime' extension that implements forecast resampling tools that assess time-based model performance and stability for a single time series, panel data, and cross-sectional time series analysis. Package: r-cran-modeltime Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3725 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stanheaders, r-cran-timetk, r-cran-parsnip, r-cran-dials, r-cran-yardstick, r-cran-workflows, r-cran-hardhat, r-cran-rlang, r-cran-glue, r-cran-plotly, r-cran-reactable, r-cran-gt, r-cran-ggplot2, r-cran-tibble, r-cran-tidyr, r-cran-dplyr, r-cran-purrr, r-cran-stringr, r-cran-forcats, r-cran-scales, r-cran-janitor, r-cran-parallelly, r-cran-doparallel, r-cran-foreach, r-cran-magrittr, r-cran-forecast, r-cran-xgboost, r-cran-prophet, r-cran-cli, r-cran-tidymodels Suggests: r-cran-rstan, r-cran-slider, r-cran-sparklyr, r-cran-workflowsets, r-cran-recipes, r-cran-rsample, r-cran-tune, r-cran-lubridate, r-cran-testthat, r-cran-kernlab, r-cran-glmnet, r-cran-thief, r-cran-smooth, r-cran-greybox, r-cran-earth, r-cran-randomforest, r-cran-trelliscopejs, r-cran-knitr, r-cran-rmarkdown, r-cran-webshot, r-cran-qpdf, r-cran-tsrepr Filename: pool/dists/focal/main/r-cran-modeltime_1.3.1-1.ca2004.1_all.deb Size: 3018412 MD5sum: 280bc7824a9f3047067c91a6cb8a6832 SHA1: dbd83b835a0c1b83414eefa2b74330b39f302175 SHA256: c5d16013ce7b1f443616fa8af74bb3cbc19655c4dcd23ac7f249fbd4d7459640 SHA512: 66394a8463b705a3ddf63d2225862935aad1bf8db21789d587517c51422d23781e64ec8ec75a8be1659b4b7ec1051d93325e185e0cf57917add7ed1db188a83c Homepage: https://cran.r-project.org/package=modeltime Description: CRAN Package 'modeltime' (The Tidymodels Extension for Time Series Modeling) The time series forecasting framework for use with the 'tidymodels' ecosystem. Models include ARIMA, Exponential Smoothing, and additional time series models from the 'forecast' and 'prophet' packages. Refer to "Forecasting Principles & Practice, Second edition" (). Refer to "Prophet: forecasting at scale" (.). 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However, if you find the implemented ideas interesting we would be very interested in a discussion of this proposal. Contributions are more than welcome! 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Package: r-cran-modiscloud Architecture: all Version: 0.14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-date, r-cran-sp, r-cran-sfsmisc, r-cran-raster, r-cran-rgdal Filename: pool/dists/focal/main/r-cran-modiscloud_0.14-1.ca2004.1_all.deb Size: 136060 MD5sum: fa950b8d33137a12840ea315615c0745 SHA1: 7705bcee80985b0d5f2cb55f404fc1e5a4d5a9fb SHA256: c4707aa244d4c427fdf33fc43bfa6a3ff056e716ff09c72d4fe685436489659c SHA512: 436416521fc8a586089d7cd7396b4664398c923ee550eb38f49d2606b870cd0c78152f73269530e4385aa4c13ff8a245f51b4f0f7497a790dbc04b0384c11296 Homepage: https://cran.r-project.org/package=modiscloud Description: CRAN Package 'modiscloud' (R tools for processing Level 2 Cloud Mask products from MODIS) Package for processing downloaded MODIS Cloud Product HDF files and derived files. Specifically, MOD35_L2 cloud product files, and the associated MOD03 geolocation files (for MODIS-TERRA); and MYD35_L2 cloud product files, and the associated MYD03 geolocation files (for MODIS-AQUA). The package will be most effective if the user installs MRTSwath (MODIS Reprojection Tool for swath products; https://lpdaac.usgs.gov/tools/modis_reprojection_tool_swath), and adds the directory with the MRTSwath executable to the default R PATH by editing ~/.Rprofile. Package: r-cran-modisfast Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 443 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-dplyr, r-cran-httr, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rvest, r-cran-sf, r-cran-stringr, r-cran-terra, r-cran-xml2, r-cran-cli Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-mapview, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-appeears Filename: pool/dists/focal/main/r-cran-modisfast_1.0.0-1.ca2004.1_all.deb Size: 404316 MD5sum: 7cf3543adb2941b6551fd806c8e1c0ae SHA1: 043d371a9697757517497671b5b6b46baa5ba1ef SHA256: b903b53cd0e7eea0a7e40560fc671933fd1d3ba613af81d608225d06e46b27e4 SHA512: 1e7ffd152bf664aa6dce24f9a20e51c65dbf7f60f150985f6c1c3a56db69d00c433aff94579df5ce19c2a46e78e36f69beebd4fae2ce21705be8343a57518515 Homepage: https://cran.r-project.org/package=modisfast Description: CRAN Package 'modisfast' (Fast and Efficient Access to MODIS Earth Observation Data) Programmatic interface to several NASA Earth Observation 'OPeNDAP' servers (Open-source Project for a Network Data Access Protocol) (). Allows for easy downloads of MODIS subsets, as well as other Earth Observation datacubes, in a time-saving and efficient way : by sampling it at the very downloading phase (spatially, temporally and dimensionally). 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Allows for easy downloads of 'MODIS' time series directly to your R workspace or your computer. Package: r-cran-modistsp Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2616 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-assertthat, r-cran-bitops, r-cran-data.table, r-cran-gdalutilities, r-cran-geojsonio, r-cran-httr, r-cran-jsonlite, r-cran-raster, r-cran-sf, r-cran-stringr, r-cran-xml2, r-cran-xts Suggests: r-cran-dplyr, r-cran-dt, r-cran-formatr, r-cran-ggplot2, r-cran-httptest, r-cran-knitr, r-cran-leafem, r-cran-leaflet, r-cran-magrittr, r-cran-mapedit, r-cran-png, r-cran-rappdirs, r-cran-rmarkdown, r-cran-shiny, r-cran-shinyalert, r-cran-shinydashboard, r-cran-shinyfiles, r-cran-shinyjs, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-tibbletime, r-cran-tidyr, r-cran-qpdf, r-cran-webshot, r-cran-xtable Filename: pool/dists/focal/main/r-cran-modistsp_2.1.0-1.ca2004.1_all.deb Size: 1651972 MD5sum: 973fdec225880e03fabe3474e82dfd9a SHA1: 778ff285a301b8d5964357e7d0c2cb03d8ccc593 SHA256: 2b856baf1020abcb9bac9d4274a085af02319f5a74f645f176f58086f8153aa6 SHA512: fa750946a6c4f6069499bc0c7b22ef952ed4d1ae5056d2407e1877f96adfb7615852adf6010f4db4a57a3b4e3cab084f30384b87a7fe69e6ca0852720e13d49a Homepage: https://cran.r-project.org/package=MODIStsp Description: CRAN Package 'MODIStsp' (Find, Download and Process MODIS Land Products Data) Allows automating the creation of time series of rasters derived from MODIS satellite land products data. It performs several typical preprocessing steps such as download, mosaicking, reprojecting and resizing data acquired on a specified time period. All processing parameters can be set using a user-friendly GUI. Users can select which layers of the original MODIS HDF files they want to process, which additional quality indicators should be extracted from aggregated MODIS quality assurance layers and, in the case of surface reflectance products, which spectral indexes should be computed from the original reflectance bands. For each output layer, outputs are saved as single-band raster files corresponding to each available acquisition date. Virtual files allowing access to the entire time series as a single file are also created. Command-line execution exploiting a previously saved processing options file is also possible, allowing users to automatically update time series related to a MODIS product whenever a new image is available. For additional documentation refer to the following article: Busetto and Ranghetti (2016) . Package: r-cran-modmarg Architecture: all Version: 0.9.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 223 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-sandwich, r-cran-aer Filename: pool/dists/focal/main/r-cran-modmarg_0.9.6-1.ca2004.1_all.deb Size: 93352 MD5sum: fdd8cba515ec3f14cc70b68dab4ffed1 SHA1: 48acc04c5f1e86e2b4f0449ae0524467783b76f4 SHA256: 16418cb3cb02744db965d1503715f0e74c945a8b1bdee1269b93933bced75df8 SHA512: 8ec80dfe32e067a5896b847b789d3cbf878fd983ad1edef170ea53e7ac504639b961911e82e75d488c2a5ca331c1c6d54b5c436ba662ab06a13b7693d3bb8558 Homepage: https://cran.r-project.org/package=modmarg Description: CRAN Package 'modmarg' (Calculating Marginal Effects and Levels with Errors) Calculate predicted levels and marginal effects, using the delta method to calculate standard errors. This is an R-based version of the 'margins' command from Stata. Package: r-cran-modmax Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 238 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools, r-cran-igraph Filename: pool/dists/focal/main/r-cran-modmax_1.1-1.ca2004.1_all.deb Size: 214052 MD5sum: 4d421d7b5cf55e6578c61a4dba8dbfec SHA1: a6e0a741e270f6887c9b850a14074374266ec00a SHA256: f171ef3f5ec692dfaa53eef09945deb6127ec58effe6828f403f91f1878b5750 SHA512: 9004777b61c9f972afc01a0ae4d2180e1d3b0dddebc73eb02b252806c84bb1c5e097f59bffe526a5bbcc7990b5a2a04e0bbd001821844c3694a3af0c04733763 Homepage: https://cran.r-project.org/package=modMax Description: CRAN Package 'modMax' (Community Structure Detection via Modularity Maximization) The algorithms implemented here are used to detect the community structure of a network. These algorithms follow different approaches, but are all based on the concept of modularity maximization. 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This package provides a set of convenience functions to transform a 'MatLab'-style optimization modeling structure to its 'ROI' equivalent. 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In the location case, one can thus obtain halfspace depth contours in two to six dimensions. Hallin, M., Paindaveine, D. and Šiman, M. (2010) Multivariate quantiles and multiple-output regression quantiles: from L1 optimization to halfspace depth. Annals of Statistics 38, 635-669 For more references about the method, see Help pages. Package: r-cran-modstatr Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4613 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-boot, r-cran-jmuoutlier, r-cran-ellipse, r-cran-hypergeo, r-cran-gsl Suggests: r-cran-biostatr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-modstatr_1.3.3-1.ca2004.1_all.deb Size: 3602524 MD5sum: 7d77f26d0bedda7c77dbba2476fd23b0 SHA1: 88a2514cbf7ef2fa62e3d697b80a1f2db5e0acf2 SHA256: 5b1ff490c90d2dcb4f80d98f34cc9cb3b5a6cde89e8860c7df5fcc51dfed8c8f SHA512: 28c6c1ea76603076d8c6cd36d144216b877153b75b176de2451450004bcbe40a1a01a897e20e3f09ea3044603639cba78dd9535418ac0cc263394b6dfb676df9 Homepage: https://cran.r-project.org/package=ModStatR Description: CRAN Package 'ModStatR' (Statistical Modelling in Action with R) Datasets and functions for the book "Modélisation statistique par la pratique avec R", F. Bertrand, E. Claeys and M. Maumy-Bertrand (2019, ISBN:9782100793525, Dunod, Paris). The first chapter of the book is dedicated to an introduction to the R statistical software. The second chapter deals with correlation analysis: Pearson, Spearman and Kendall simple, multiple and partial correlation coefficients. New wrapper functions for permutation tests or bootstrap of matrices of correlation are provided with the package. The third chapter is dedicated to data exploration with factorial analyses (PCA, CA, MCA, MDA) and clustering. The fourth chapter is dedicated to regression analysis: fitting and model diagnostics are detailed. The exercises focus on covariance analysis, logistic regression, Poisson regression, two-way analysis of variance for fixed or random factors. Various example datasets are shipped with the package: for instance on pokemon, world of warcraft, house tasks or food nutrition analyses. 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They can be used as a sub unit within packages or in scripts. Package: r-cran-modygliani Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4605 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-modygliani_1.0-1.ca2004.1_all.deb Size: 1039120 MD5sum: 95775a5d12a2c86d7e4c410e5bd5acc3 SHA1: f03e1de2be3bb2dcbf6cf73ce45a0e77b84d252e SHA256: c0ef943a1596de3a2e407002c4ff2fa27c7999bc3a7fe2f11502d8ab817ebc5a SHA512: 946d5e8331d7956b2c993e22ef7def7502071bf286c34caec099cf4a0a399feea76d2e5a8dd29cb320b284aa68665f891a5304ba1a373687c87e9541570ad50e Homepage: https://cran.r-project.org/package=modygliani Description: CRAN Package 'modygliani' (MOlecular DYnamics GLobal ANalysis) RMSD and Internal Energy analysis of NAMD and YASARA Molecular Dynamics output files. Allows to comparison of different dynamics per different complexes. Input files have to be ASCII files tab separated. 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The full framework is documented in a paper published in the Journal of Statistical Software []. Package: r-cran-moeclust Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2379 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice, r-cran-matrixstats, r-cran-mclust, r-cran-mvnfast, r-cran-nnet, r-cran-vcd Suggests: r-cran-cluster, r-cran-clustmd, r-cran-geometry, r-cran-knitr, r-cran-rmarkdown, r-cran-snow Filename: pool/dists/focal/main/r-cran-moeclust_1.6.0-1.ca2004.1_all.deb Size: 1906712 MD5sum: 89963b8875d61ff65eaccf4cf9e50a54 SHA1: 868fe9a51d44ee0dff4eee6ef98f5395aa82eb62 SHA256: c052d74493df62e62348ac4f7234af2c387d7ea455ee5f325893ef54306b2f07 SHA512: 00aff154395e9d16f3879c481b808c93882748bb8ec6c242614c01297b1d17e0111431c46feddc670b730d0d592fa91dc3d6802243f739e0892ebe8ac30e5127 Homepage: https://cran.r-project.org/package=MoEClust Description: CRAN Package 'MoEClust' (Gaussian Parsimonious Clustering Models with Covariates and aNoise Component) Clustering via parsimonious Gaussian Mixtures of Experts using the MoEClust models introduced by Murphy and Murphy (2020) . This package fits finite Gaussian mixture models with a formula interface for supplying gating and/or expert network covariates using a range of parsimonious covariance parameterisations from the GPCM family via the EM/CEM algorithm. Visualisation of the results of such models using generalised pairs plots and the inclusion of an additional noise component is also facilitated. A greedy forward stepwise search algorithm is provided for identifying the optimal model in terms of the number of components, the GPCM covariance parameterisation, and the subsets of gating/expert network covariates. 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It allows to quickly fetch price candles for a particular security, obtain its profile information and so on. Package: r-cran-mofat Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-slhd Filename: pool/dists/focal/main/r-cran-mofat_1.0-1.ca2004.1_all.deb Size: 21256 MD5sum: f6a115dcf672ff113082fda0ff2742b9 SHA1: 9a1f6ee75206eb12b3c9fc447dabf3e3a18ec7f3 SHA256: 1f18c695bff977ba67d4e0c7aecb5acb4b41116b88b823910323f8703be72385 SHA512: a5f18ce841a964399c35f30fcb6e109ea1117db973ce9a95907b273fa23db5063c8c534d9b7228d8e0bc4dfbcf8cd1e0676ee6dd579155f8108ed09e2821cb62 Homepage: https://cran.r-project.org/package=MOFAT Description: CRAN Package 'MOFAT' (Maximum One-Factor-at-a-Time Designs) Identifying important factors from a large number of potentially important factors of a highly nonlinear and computationally expensive black box model is a difficult problem. Xiao, Joseph, and Ray (2022) proposed Maximum One-Factor-at-a-Time (MOFAT) designs for doing this. A MOFAT design can be viewed as an improvement to the random one-factor-at-a-time (OFAT) design proposed by Morris (1991) . The improvement is achieved by exploiting the connection between Morris screening designs and Monte Carlo-based Sobol' designs, and optimizing the design using a space-filling criterion. This work is supported by a U.S. National Science Foundation (NSF) grant CMMI-1921646 . Package: r-cran-mogavs Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 717 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cvtools Filename: pool/dists/focal/main/r-cran-mogavs_1.1.0-1.ca2004.1_all.deb Size: 690192 MD5sum: 6563e3e39b10d81028bdafdaf151dcbb SHA1: dd979b75a32271be634e00a2a0fcd29ad5b825d3 SHA256: 2803172f9ef813393767cd7890a3e6e9d14e09fe035937dd0bb85c55f3d81144 SHA512: bc2cb05fd3498f81055f1b1edb42c6b4e9f607b991f52410f22a427bfe37d9e1c5f789f1843594c873186d0848b33f33989683c66199012f609701cb5b46867e Homepage: https://cran.r-project.org/package=mogavs Description: CRAN Package 'mogavs' (Multiobjective Genetic Algorithm for Variable Selection inRegression) Functions for exploring the best subsets in regression with a genetic algorithm. The package is much faster than methods relying on complete enumeration, and is suitable for data sets with large number of variables. For more information, see Sinha, Malo & Kuosmanen (2015) . Package: r-cran-mojson Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjsonio, r-cran-magrittr, r-cran-tidyr, r-cran-iterators, r-cran-stringr, r-cran-comparedf Filename: pool/dists/focal/main/r-cran-mojson_0.1-1.ca2004.1_all.deb Size: 37896 MD5sum: dda17b9f161b05df3dc78324e9e1f3b7 SHA1: 65ea2a5c84ec652e42b813e3462a175134ca1329 SHA256: 9f7239095cd77502e095c3d12eb20a077fdf28db07aba780d7bfa527d387dd77 SHA512: da8877c13b6621bbde3b6dc2f1bc21c4f3d52f0d5de1631cbe79177136b96b0a52ce45c3c6a4c9b44557872d5a2b79d026465862f48c59a669c1edaf769922de Homepage: https://cran.r-project.org/package=mojson Description: CRAN Package 'mojson' (A Serialization-Style Flattening and Description for JSON) Support JSON flattening in a long data frame way, where the nesting keys will be stored in the absolute path. 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Package: r-cran-moko Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 354 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dicekriging, r-cran-gensa, r-cran-emoa, r-cran-mco, r-cran-gpareto Suggests: r-cran-knitr, r-cran-lhs Filename: pool/dists/focal/main/r-cran-moko_1.0.3-1.ca2004.1_all.deb Size: 249020 MD5sum: c879a42be9d0ffaabbdf73765fa1258d SHA1: 3a61f284deabda1083b56c813900d38fdd45a127 SHA256: 45de6eaf57feb0a3fbbbd274e8ee95af026c0b609f3f4e6740bd95f8ad8ddd9a SHA512: 404bd0b380f0854386582308d93a19df30e0ebe53462185ea8e3ca3b7358fad503739f34e436947a427c211fdeba68d4a2c0d686993874447f0e7aa4bce920bb Homepage: https://cran.r-project.org/package=moko Description: CRAN Package 'moko' (Multi-Objective Kriging Optimization) Multi-Objective optimization based on the Kriging metamodel. Important functions: mkm() (builder for the multiobjective models), MVPF() (sequential minimizator using variance reduction), MEGO() (generalization of ParEgo) and HEGO() (minimizator using the expected hypervolume improvement). References are Passos and Luersen (2018) . Package: r-cran-molar Architecture: all Version: 5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3909 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-alphahull, r-cran-rgl, r-cran-rvcg, r-cran-pracma Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rglwidget Filename: pool/dists/focal/main/r-cran-molar_5.3-1.ca2004.1_all.deb Size: 1857984 MD5sum: c43c3ca904355943c206acd3a1c0286b SHA1: 5cc9749d9e69383363895df0aac84114c3fcb78b SHA256: 295f5b28b1b8659c355f3c49388fb0ea569d8337aa9f3373ba2e2c202c0185fc SHA512: 6490b6bc1815207f201beb72c6a8a2ed88e9af2bd40b2ec0e7113151e330f76eb8dbea7e7487bfefd6ea1b0db0970caa739b738a515966cea8a9be2d452a026e Homepage: https://cran.r-project.org/package=molaR Description: CRAN Package 'molaR' (Dental Surface Complexity Measurement Tools) Surface topography calculations of Dirichlet's normal energy, relief index, surface slope, and orientation patch count for teeth using scans of enamel caps. 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The focus is on the emergence of argument-marking systems (Dowty (1991) , Van Valin 1999, Dryer 2002, Lestrade 2015a), i.e. noun marking (Aristar (1997) , Lestrade (2010) ), person indexing (Ariel 1999, Dahl (2000) , Bhat 2004), and word order (Dryer 2013), but extensions are foreseen. Agents start out with a protolanguage (a language without grammar; Bickerton (1981) , Jackendoff 2002, Arbib (2015) ) and interact through language games (Steels 1997). Over time, grammatical constructions emerge that may or may not become obligatory (for which the tolerance principle is assumed; Yang 2016). Throughout the simulation, uniformitarianism of principles is assumed (Hopper (1987) , Givon (1995) , Croft (2000), Saffran (2001) , Heine & Kuteva 2007), in which maximal psychological validity is aimed at (Grice (1975) , Levelt 1989, Gaerdenfors 2000) and language representation is usage based (Tomasello 2003, Bybee 2010). In Lestrade (2015b) , Lestrade (2015c) , and Lestrade (2016) ), which reported on the results of preliminary versions, this package was announced as WDWTW (for who does what to whom), but for reasons of pronunciation and generalization the title was changed. Package: r-cran-molgenisarmadillo Architecture: all Version: 2.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 249 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-base64enc, r-cran-httr, r-cran-urltools, r-cran-dplyr, r-cran-purrr, r-cran-stringr, r-cran-tidyr, r-cran-tibble, r-cran-molgenisauth, r-cran-arrow, r-cran-rlist, r-cran-httr2, r-cran-readr, r-cran-cli Suggests: r-cran-stringi, r-cran-withr, r-cran-knitr, r-cran-testthat, r-cran-webmockr, r-cran-mockery, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-molgenisarmadillo_2.9.1-1.ca2004.1_all.deb Size: 130392 MD5sum: 1be40b5e007da0f8872aaf22e3c5eb8f SHA1: f6e39cd911fa3a716561ef3cadf0ccc2cd568cf8 SHA256: afbc1fccbf81f5f2e909d274ded5d92f29fbadd957e0a844fb1f8ce676b6f45b SHA512: 263bbacf92972c14780d5387bf79eaa93e62e30111edc9ef6434af2a8f59afc5035249b4d4ddfe9e16bdf99ed8d06818da0464429bd60e4b87fcd038ba3050a2 Homepage: https://cran.r-project.org/package=MolgenisArmadillo Description: CRAN Package 'MolgenisArmadillo' (Armadillo Client for the Armadillo Service) A set of functions to manage data shared on a 'MOLGENIS Armadillo' server. 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We here present a novel network analysis pipeline that enables integrative analysis of multi-omics data including metabolomics. It allows for comparative conclusions between two different conditions, such as tumor subgroups, healthy vs. disease, or generally control vs. perturbed. Our approach focuses on interactions and their strength instead of on node properties and includes molecules with low abundance and unknown function. We use correlation-induced networks that are reduced and combined to form heterogeneous, multi-omics molecular networks. Prior information such as metabolite-protein interactions are incorporated. A semi-local, path-based integration step denoises the network and ensures integrative conclusions. As case studies, we investigate differential drug response in breast cancer tumor datasets providing proteomics, transcriptomics, phospho-proteomics and metabolomics data and contrasting patients with different estrogen receptor status. Our proposed pipeline leverages multi-omics data for differential predictions, e.g. on drug response, and includes prior information on interactions. The case study presented in the vignette uses data published by Krug (2020) . The package license applies only to the software and explicitly not to the included data. 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It includes most common 2D morphometrics approaches on outlines, open outlines, configurations of landmarks, traditional morphometrics, and facilities for data preparation, manipulation and visualization with a consistent grammar throughout. It allows reproducible, complex morphometrics analyses and other morphometrics approaches should be easy to plug in, or develop from, on top of this canvas. 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It integrates the dimension reduction aspect of topic models in the mixture models framework. Inference is done by means of a greedy Classification Variational Expectation Maximisation (C-VEM) algorithm. An Integrated Classication Likelihood (ICL) model selection is designed for selecting the latent dimension (number of topics) and the number of clusters. For more details, see the article of Jouvin et. al. (2020) . 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The concepts are modelled directly after the Monad typeclass in Haskell, but adapted for idiomatic use in R. Package: r-cran-monan Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2866 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-snowfall Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-monan_1.1.0-1.ca2004.1_all.deb Size: 2373880 MD5sum: 6f68329e7f88eb664710d8df33658842 SHA1: b93f1d47697770461f3d2ec35f4335bec9504bd4 SHA256: 1463f6937afc53145fb24a4d1f6d077e75d76a71210f2120aa65fad30fd16ae8 SHA512: 0279a2fc889d8a72b199cddcaef9fce452eacadbb213f009d2169b571b9fb6a07e8abab2e2a0efcbf366af37b4540b0faa26ba49dbb08fc7b7d202278502a90e Homepage: https://cran.r-project.org/package=MoNAn Description: CRAN Package 'MoNAn' (Mobility Network Analysis) Implements the method to analyse weighted mobility networks or distribution networks as outlined in: Block, P., Stadtfeld, C., & Robins, G. 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Functions that use isotonic regression in the first stage of binning process have an additional feature for correction of minimum percentage of observations and minimum target rate per bin. Additionally, monotonic trend can be identified based on raw data or, if known in advance, forced by functions' argument. Missing values and other possible special values are treated separately from so-called complete cases. 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It provides shiny-based user interface (UI) that is especially handy for less experienced 'R' users as well as for those who intend to perform quick scanning of numeric risk factors when building credit rating models. The additional functions implemented in 'monobinShiny' that do no exist in 'monobin' package are: descriptive statistics, special case and outliers imputation. The function descriptive statistics is exported and can be used in 'R' sessions independently from the user interface, while special case and outlier imputation functions are written to be used with shiny UI. 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Package: r-cran-monographar Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 999 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-circular, r-cran-png, r-cran-raster, r-cran-rmarkdown, r-cran-rnaturalearth, r-cran-rpart, r-cran-sf, r-cran-shiny, r-cran-shinydashboard, r-cran-shinythemes, r-cran-shinywidgets, r-cran-sp, r-cran-terra Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-monographar_1.3.1-1.ca2004.1_all.deb Size: 677312 MD5sum: ded07b3e6174312fc79835dd88e76012 SHA1: 094e95707bb4c64bc17799778b4d5d84ff29ca12 SHA256: dff5ff217a16dd8106e47539acfeaf43447cf20232402d58fa1f4b14f1aee225 SHA512: fac9dc670e368b20fedbb5dd03a8dba21bb1a551fb4a2c3f16abda3c22d28e0131718f040643e85ca8b256fea94d1fae93bef8cb8d73e38803e066428881a468 Homepage: https://cran.r-project.org/package=monographaR Description: CRAN Package 'monographaR' (Taxonomic Monographs Tools) Contains functions intended to facilitate the production of plant taxonomic monographs. The package includes functions to convert tables into taxonomic descriptions, lists of collectors, examined specimens, identification keys (dichotomous and interactive), and can generate a monograph skeleton. Additionally, wrapper functions to batch the production of phenology histograms and distributional and diversity maps are also available. Package: r-cran-monoinc Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 227 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-compare, r-cran-doparallel, r-cran-foreach, r-cran-iterators, r-cran-sitar Filename: pool/dists/focal/main/r-cran-monoinc_1.1-1.ca2004.1_all.deb Size: 170616 MD5sum: 80465cb507bf488aa67711aa711e7cbd SHA1: 1f7a0d062d196cb2c0219aa5e3e83700ddac957e SHA256: 7c40151b4e5046594e05ad2f3fb4936ea86f14964919d272620ce07260373c36 SHA512: 425ba59096204566fd709ba45182ba435fe37115d676015765b66dab6140f5cc3d52b0dc516a1b66b7f54c19cbfe73606534259f3fe79b1bc7fe01de3749cbb4 Homepage: https://cran.r-project.org/package=MonoInc Description: CRAN Package 'MonoInc' (Monotonic Increasing) Various imputation methods are utilized in this package, where one can flag and impute non-monotonic data that is outside of a prespecified range. Package: r-cran-monophy Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 467 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-phytools, r-cran-phangorn, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-testthat, r-cran-paleotree, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-monophy_1.3.2-1.ca2004.1_all.deb Size: 326844 MD5sum: 574e41e65a5269d651dfeb4f5ff8c8ee SHA1: 077ce596a487b560572804b925751805cd791fd4 SHA256: 344dc7b4a6d0fd03d9def4a27cdb57e36029233bfdacd1ac82ea4d8bf8e8ecee SHA512: 952ab5560e88a3b668078d7fe9f00ac41a6621920fc880b03cbe24b465335fba578dd5c79abdb7494bb63e6e45db21082c9fe1cfad221ec9cab6a514bfb2f721 Homepage: https://cran.r-project.org/package=MonoPhy Description: CRAN Package 'MonoPhy' (Explore Monophyly of Taxonomic Groups in a Phylogeny) Requires rooted phylogeny as input and creates a table of genera, their monophyly-status, which taxa cause problems in monophyly etc. Different information can be extracted from the output and a plot function allows visualization of the results in a number of ways. "MonoPhy: a simple R package to find and visualize monophyly issues." Schwery, O. & O'Meara, B.C. (2016) . Package: r-cran-monotonehazardratio Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fdrtool, r-cran-kernsmooth, r-cran-survival Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-monotonehazardratio_0.2.0-1.ca2004.1_all.deb Size: 36348 MD5sum: aeb7aa34e51db6bf13098448fa35783f SHA1: 07a184852575811f07e9f907b04d2b14df3f672a SHA256: d8187b01471f215c27afb438eb18bf44943eb7a983e9f61732c4a99ddb871a59 SHA512: dca45f5f259a73df97aac4a1feb9edba6ca7cf79b8701cd1d40820f9023ab27e18097331ac0920b2fc4eca0cd671f7222f059db3c0dedabe1931f938332e4c25 Homepage: https://cran.r-project.org/package=MonotoneHazardRatio Description: CRAN Package 'MonotoneHazardRatio' (Nonparametric Estimation and Inference of a Monotone HazardRatio Function) Nonparametric estimation and inference of a non-decreasing monotone hazard ratio from a right censored survival dataset. The estimator is based on a generalized Grenander typed estimator, and the inference procedure relies on direct plugin estimation of a first order derivative. More details please refer to the paper "Nonparametric inference under a monotone hazard ratio order" by Y. Wu and T. Westling (2023) . Package: r-cran-monotonicity Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lmtest, r-cran-mass, r-cran-sandwich Suggests: r-cran-testthat, r-cran-xts Filename: pool/dists/focal/main/r-cran-monotonicity_1.3.1-1.ca2004.1_all.deb Size: 105776 MD5sum: 4cd71e6d2bf558cc24f979983d21bfa2 SHA1: 2d0fe326f49d306ee32152174fa19a3d28647469 SHA256: c8b45e8a9ee730e4e0c7cab375de96d812401a844cad94b5256b31434dc310e6 SHA512: 34eefe0cd81cf22277f4e57a83962a9725edc7a4f77415512df597daa202793161801e57429e877e5c71a7ff0aa5dc264990f77de2ff358ed3a81d585992600a Homepage: https://cran.r-project.org/package=monotonicity Description: CRAN Package 'monotonicity' (Test for Monotonicity in Expected Asset Returns, Sorted byPortfolios) Test for monotonicity in financial variables sorted by portfolios. It is conventional practice in empirical research to form portfolios of assets ranked by a certain sort variable. A t-test is then used to consider the mean return spread between the portfolios with the highest and lowest values of the sort variable. Yet comparing only the average returns on the top and bottom portfolios does not provide a sufficient way to test for a monotonic relation between expected returns and the sort variable. This package provides nonparametric tests for the full set of monotonic patterns by Patton, A. and Timmermann, A. (2010) and compares the proposed results with extant alternatives such as t-tests, Bonferroni bounds, and multivariate inequality tests through empirical applications and simulations. Package: r-cran-monte.carlo.se Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 445 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-monte.carlo.se_0.1.1-1.ca2004.1_all.deb Size: 170224 MD5sum: c749b3f136efa3fcdc4210343b9b32c0 SHA1: 399442c955f17607d6177cb4d148480741c69148 SHA256: 294a21ce1ee67a1812d92c12715ef13f17c1d87c4c80de7a17cc9da0c090660c SHA512: 4d3b9841ef6849d71072312905b832c29bcecc87981ef9160b1af7b0fa4e817f2df0ba9dc4de44bc6a4e2b6da65204c8fd5c7aa2011a4cdc32eec2980d301abc Homepage: https://cran.r-project.org/package=Monte.Carlo.se Description: CRAN Package 'Monte.Carlo.se' (Monte Carlo Standard Errors) Computes Monte Carlo standard errors for summaries of Monte Carlo output. Summaries and their standard errors are based on columns of Monte Carlo simulation output. Dennis D. Boos and Jason A. Osborne (2015) . Package: r-cran-montecarlo Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 215 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-dplyr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-montecarlo_1.0.6-1.ca2004.1_all.deb Size: 98216 MD5sum: 91c7bb4df434aee483abf3fa9e6944d2 SHA1: 0cfb75a042985231494548afbe45e219e9531fce SHA256: 7f1d0621bcc0f425280b23436c03f6f5f68988437a4d0d7017d944430e75c11b SHA512: fb7eb765f6e7f8ab8f05a7368f0db0c50deb695451d09c4557deab10697d75750b849bff9a31b96b4b79d048aa544c018b65c73abebcaaca1258b4bd5965dc3e Homepage: https://cran.r-project.org/package=MonteCarlo Description: CRAN Package 'MonteCarlo' (Automatic Parallelized Monte Carlo Simulations) Simplifies Monte Carlo simulation studies by automatically setting up loops to run over parameter grids and parallelising the Monte Carlo repetitions. It also generates LaTeX tables. Package: r-cran-montecarlosem Architecture: all Version: 0.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix, r-cran-lavaan Filename: pool/dists/focal/main/r-cran-montecarlosem_0.0.8-1.ca2004.1_all.deb Size: 67064 MD5sum: 03b7d0d65eb3a318e770fb363ce04824 SHA1: e9e286a9cbf5a009597d3bebc37cbc26c94abc75 SHA256: 520074e9950c405ca9529bdca16f6e17a431f9d2152e2c75215afc688c0b0cb6 SHA512: 37432ae8f09cc8a3c8545224557671039a08d09ccb7da9a1d6f7052ce06915a8fb83c33d40c4e42b4a39fc3e52e86e057429b6363ce1bb80780e0276e03f7de5 Homepage: https://cran.r-project.org/package=MonteCarloSEM Description: CRAN Package 'MonteCarloSEM' (Monte Carlo Data Simulation Package) Monte Carlo simulation allows testing different conditions given to the correct structural equation models. This package runs Monte Carlo simulations under different conditions (such as sample size or normality of data). Within the package data sets can be simulated and run based on the given model. First, continuous and normal data sets are generated based on the given model. Later Fleishman's power method (1978) is used to add non-normality if exists. When data generation is completed (or when generated data sets are given) model test can also be run. Please cite as "Orçan, F. (2021). MonteCarloSEM: An R Package to Simulate Data for SEM. International Journal of Assessment Tools in Education, 8 (3), 704-713." Package: r-cran-moode Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 173 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-far, r-cran-progressr, r-cran-rdpack, r-cran-rlang Suggests: r-cran-dofuture, r-cran-foreach Filename: pool/dists/focal/main/r-cran-moode_1.0.1-1.ca2004.1_all.deb Size: 138500 MD5sum: 6931c86624f18090e2f0e420d12b0d3c SHA1: aa9fb152da0707ff63e486fee908b58e3f153e8b SHA256: e6be92dd38672b0b24ec7622cb22c2e07bec36756a4db0bef1050c35379cdcf1 SHA512: fc4b15897a95e2f483759af6d7751b252b8023d1cfd39c7adc12d3a5d9fc47ba10ed9debdb22af7315cc5aa57c1817f13580cc127054b5d8efd268af499a28b6 Homepage: https://cran.r-project.org/package=MOODE Description: CRAN Package 'MOODE' (Multi-Objective Optimal Design of Experiments) Provides functionality to generate compound optimal designs for targeting the multiple experimental objectives directly, ensuring that the full set of research questions is answered as economically as possible. Designs can be found using point or coordinate exchange algorithms combining estimation, inference and lack-of-fit criteria that account for model inadequacy. Details and examples are given by Koutra et al. (2024) . Package: r-cran-moodef Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 586 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-blastula, r-cran-dplyr, r-cran-glue, r-cran-magick, r-cran-readr, r-cran-readxl, r-cran-snakecase, r-cran-tibble, r-cran-tidyr, r-cran-xlsx, r-cran-xml2 Suggests: r-cran-knitr, r-cran-pander, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-moodef_1.2.0-1.ca2004.1_all.deb Size: 421812 MD5sum: db4361ba0a99da2459a5005f8d85e1dd SHA1: fe7b9cf54db1c9afa82177a64d7e6a15a77cf275 SHA256: 26af41ecb7cf01eaf2c20c3dc5abbb3258c2f167a9f3b4240ebb5fd8b3567fc1 SHA512: 86f6225d6358fbe8899ba1e18572982bdd67f6f15dfe3b59b587d03cf08ab7189b88639b88ef073a68ca4b4b62395f51c234a37d73a45fd111f212160544c1b2 Homepage: https://cran.r-project.org/package=moodef Description: CRAN Package 'moodef' (Defining 'Moodle' Elements from R) The main objective of this package is to support the definition of 'Moodle' elements taking advantage of the power that R offers. In this first version, it allows the definition of quizzes to be included in the question bank. Package: r-cran-moodlequizr Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 509 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-base64, r-cran-mvtnorm, r-cran-shiny, r-cran-nmcalc Suggests: r-cran-markdown, r-cran-rmarkdown, r-cran-knitr, r-cran-shinywidgets, r-cran-shinymatrix Filename: pool/dists/focal/main/r-cran-moodlequizr_2.1.1-1.ca2004.1_all.deb Size: 279860 MD5sum: f55227cbb83398fd5c299462e9bce0e1 SHA1: efa80a9d933709b3c65e8708b07204444418727f SHA256: 7e79db3275ad16f21cfe3d78a58da1eab3748da3a6474824cb0bf0e0a5cb2325 SHA512: 81ef6a577c118a82be898f07ade1639291e4ad8468f2d2cf47b2393c514fec4d4f0c0868f447258edf2ef02fd07d21a4ec7dddbd129e36878bb8d89ed322c0d6 Homepage: https://cran.r-project.org/package=moodlequizR Description: CRAN Package 'moodlequizR' (Easily Create Fully Randomized 'Moodle' Test Questions) Routines to generate fully randomized 'moodle' quizzes. It also contains 15 examples and a 'shiny' app. Package: r-cran-moodler Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 169 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dbi, r-cran-dplyr, r-cran-ggplot2, r-cran-tidytext, r-cran-ggwordcloud, r-cran-stringr, r-cran-rlang, r-cran-scales, r-cran-rmariadb, r-cran-glue, r-cran-config, r-cran-anytime, r-cran-cli, r-cran-lifecycle, r-cran-rsqlite, r-cran-usethis, r-cran-rpostgres Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-prettyunits, r-cran-lubridate, r-cran-testthat Filename: pool/dists/focal/main/r-cran-moodler_1.0.1-1.ca2004.1_all.deb Size: 98588 MD5sum: be5ff3e280b3c011fa591106af811de9 SHA1: 782d255d65b08842ec0add4169aaf1598bb7a67d SHA256: 8085d559d346f5ddc3f8faec7ee2f619cbe8360f3de36d75316f6eecf4f90066 SHA512: f2810874c19a42b55fef0361d5691fe548742504035bcb35f8ea919aa7d2806224694c4c6ecc4fd26b54f5451551712403f7c25e3abc69cb34016086ea819e43 Homepage: https://cran.r-project.org/package=moodleR Description: CRAN Package 'moodleR' (Helper Functions to Work with 'Moodle' Data) A collection of functions to connect to a 'Moodle' database, cache relevant tables locally and generate learning analytics. 'Moodle' is an open source Learning Management System (LMS) developed by MoodleHQ. For more information about Moodle, visit . Package: r-cran-moonbook Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1823 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nortest, r-cran-survival, r-cran-sjmisc, r-cran-stringr, r-cran-magrittr, r-cran-crayon Suggests: r-cran-testthat, r-cran-knitr, r-cran-ggplot2, r-cran-sjlabelled, r-cran-ztable, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-moonbook_0.3.1-1.ca2004.1_all.deb Size: 1242456 MD5sum: 3c3330af03abdaa3b112e449ed113950 SHA1: fafaae757784df22540124a274340bc799ee0da1 SHA256: 38bd83f84f57725af591dcd847845c57136fcad678f47f5a81079b24ec497ebb SHA512: e5629a0e27e5c6fcca7e4a14b846feaaaf81a9a01c77b72ba3f32d7508d1140a8631f1b98488e13247544bedca1c2df00df8b4e20d11e26692c30243b1aa96df Homepage: https://cran.r-project.org/package=moonBook Description: CRAN Package 'moonBook' (Functions and Datasets for the Book by Keon-Woong Moon) Several analysis-related functions for the book entitled "R statistics and graph for medical articles" (written in Korean), version 1, by Keon-Woong Moon with Korean demographic data with several plot functions. Package: r-cran-moonboot Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-moonboot_1.0.1-1.ca2004.1_all.deb Size: 63704 MD5sum: afc79c206315276c594cb4f01dcaf347 SHA1: 4551124680dfe94aebc5ea9f5d8479375b1552e1 SHA256: 1b1ee7865955f7ed1e3e9a7e885e8c5e5956a64cd6b491f31d56fe5108a8b090 SHA512: 33a84ff7ac03ef4255efcb9eee9a3bd0b3da821ac18befb2dd9fa7edc7f8aff5909018c4b416b46c9731a16ee2f98aab2cc43a84f4ef3cc5a1a426e403b6a101 Homepage: https://cran.r-project.org/package=moonboot Description: CRAN Package 'moonboot' (m-Out-of-n Bootstrap Functions) Functions and examples based on the m-out-of-n bootstrap suggested by Politis, D.N. and Romano, J.P. (1994) . Additionally there are functions to estimate the scaling factor tau and the subsampling size m. For a detailed description and a full list of references, see Dalitz, C. and Lögler, F. (2024) . Package: r-cran-mooplot Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rdpack, r-cran-collapse, r-cran-matrixstats, r-cran-moocore Suggests: r-cran-extrafont, r-cran-viridislite, r-cran-spelling, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-mooplot_0.1.1-1.ca2004.1_all.deb Size: 164416 MD5sum: 688fdb2957aab115292128fd43ab8409 SHA1: f4ec5672f3dc82f4a4eb63a48133fa00f8445a38 SHA256: 9d35b4acf7cc174a4bddaf1ba47ddb24b3210385984bcb03510f3a512ebc2c82 SHA512: 0b300f8e61dd1debe993afa99dce188442ecf7bb9947664e415ca0abd9c961a6009282196f9eb329bb69608813395143ed9206de51c3b9eb62531e9f45f82981 Homepage: https://cran.r-project.org/package=mooplot Description: CRAN Package 'mooplot' (Graphical Visualizations for Multi-Objective Optimization) Visualization of multi-dimensional data arising in multi-objective optimization, including plots of the empirical attainment function (EAF), M. López-Ibáñez, L. Paquete, and T. Stützle (2010) , and symmetric Vorob'ev expectation and deviation, M. Binois, D. Ginsbourger, O. Roustant (2015) , among others. Package: r-cran-moose Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-moose_0.0.1-1.ca2004.1_all.deb Size: 14540 MD5sum: 75cef83bb7e1b06a82edd16769c5e1a5 SHA1: d95f5508857da3610ce3a323713163bdb8715997 SHA256: 09b00b366e8c791594771437ae1a1151d59ac1466646a26c1bfe92b27b636152 SHA512: 3a3e79393fbabbad8b8bb36cb00294c9e6a37343636d895afb7a835fdf631bb4e581dd398c4ffaf1d1ef2ee17619449a21cfe5d2f412565a0f7c3a3f4f22419f Homepage: https://cran.r-project.org/package=moose Description: CRAN Package 'moose' (Mean Squared Out-of-Sample Error Projection) Projects mean squared out-of-sample error for a linear regression based upon the methodology developed in Rohlfs (2022) . It consumes as inputs the lm object from an estimated OLS regression (based on the "training sample") and a data.frame of out-of-sample cases (the "test sample") that have non-missing values for the same predictors. The test sample may or may not include data on the outcome variable; if it does, that variable is not used. The aim of the exercise is to project what what mean squared out-of-sample error can be expected given the predictor values supplied in the test sample. Output consists of a list of three elements: the projected mean squared out-of-sample error, the projected out-of-sample R-squared, and a vector of out-of-sample "hat" or "leverage" values, as defined in the paper. Package: r-cran-mopac Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1933 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-lubridate, r-cran-tibble, r-cran-readr, r-cran-hms Filename: pool/dists/focal/main/r-cran-mopac_0.1.0-1.ca2004.1_all.deb Size: 1264924 MD5sum: e92b51233d46e341fbdd821d0cb4f485 SHA1: 3255764efa6b703567eeab1d1e5a750576701807 SHA256: 3df54c454088fc73f842534b2bf761a1578ddcfea4f25638054babd6a739813e SHA512: bddf1fa36ef44fb570341c9032bb8dfece321f23fbc3a4165a1d6502bdac34c3e77d472488566aa011c3b7c34a07813ef5ac8d620f74fdf8ee37eee07e2bf609 Homepage: https://cran.r-project.org/package=mopac Description: CRAN Package 'mopac' (Collection of Datasets Pertaining to Loop 1 "Mopac") Provides real & simulated datasets containing time-series traffic observations and additional information pertaining to Loop 1 "Mopac" located in Austin, Texas. 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Package: r-cran-moqa Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-psych, r-cran-gplots, r-cran-readr Filename: pool/dists/focal/main/r-cran-moqa_2.0.0-1.ca2004.1_all.deb Size: 81852 MD5sum: 6187dff599ec4ede63c90ec463ce47b5 SHA1: d57e64c43370e90b43336122472a4068789a6949 SHA256: 3b8b004b41039d3000afc5812ef6799b2c927909cc54a6a9e633eb398285d01e SHA512: 5f3918c95fd7a5e654cc54120916af49c4552f438fa024841c6e10c0cbb5e9f98c8ab4f89b150fcdd8fbd2ad970c403c975071897300a7e94df29ab7cf2677df Homepage: https://cran.r-project.org/package=MOQA Description: CRAN Package 'MOQA' (Basic Quality Data Assurance for Epidemiological Research) With the provision of several tools and templates the MOSAIC project (DFG-Grant Number HO 1937/2-1) supports the implementation of a central data management in epidemiological research projects. The 'MOQA' package enables epidemiologists with none or low experience in R to generate basic data quality reports for a wide range of application scenarios. See for more information. Please read and cite the corresponding open access publication (using the former package-name) in METHODS OF INFORMATION IN MEDICINE by M. Bialke, H. Rau, T. Schwaneberg, R. Walk, T. Bahls and W. Hoffmann (2017) . . Package: r-cran-moranajp Architecture: all Version: 0.9.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1477 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggraph, r-cran-igraph, r-cran-purrr, r-cran-rlang, r-cran-rvest, r-cran-stringr, r-cran-stringi, r-cran-tibble, r-cran-tidyr Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-moranajp_0.9.7-1.ca2004.1_all.deb Size: 1416144 MD5sum: 6d81727e1591d5d4f813dab17e3d1aaf SHA1: 2ab3ae03edb90d9e7b2f66e961ad67f7bfcc59aa SHA256: bb389a3426242c004f311a9c950f8daf54caaeaaa04d35451a2510d0ea20b457 SHA512: 604015e374861c2f8b30f0f8feb9e37613bcc5018307b3ce064b049989f603cbe893b414ba46775bd3a192fa19cfa5a97b0ea4ff8312118c5c9be9f096440f39 Homepage: https://cran.r-project.org/package=moranajp Description: CRAN Package 'moranajp' (Morphological Analysis for Japanese) Supports morphological analysis for Japanese by using 'MeCab' , 'Sudachi' , 'Chamame' , or 'Ginza' . Can input a data.frame and obtain all results of 'MeCab' and the row number of the original data.frame as a text id. Package: r-cran-morder Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-morder_0.1-1.ca2004.1_all.deb Size: 33624 MD5sum: c6ed35348d39298d3ab5879d571137c9 SHA1: 1cf4f7857e03a414478704104144eb4b51d71cc5 SHA256: c1533114af63fcbb9edf010d45e56f00cca039b873de480ed7ca73a8e5e68edc SHA512: 341a775d80830b40b7bfd13d3eba46cbdf16fcf3e60eb0f29970a9d24f3d364f46c0bce7dc04299d63a05354c3e46d1666c66d9a8f57045a87a830e4e096fb60 Homepage: https://cran.r-project.org/package=MOrder Description: CRAN Package 'MOrder' (Check Time Homogeneity and Markov Chain Order) MOrder provide functions to check time homogeneity and order of markov chain by using chi-squared test, AIC value and BIC value. 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Also modules and a shiny app for conditional inference trees. Package: r-cran-morepls Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 217 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-pls, r-cran-ggplot2, r-cran-ggrepel, r-cran-rlang, r-cran-descriptio Suggests: r-cran-plsvarsel, r-cran-ggforce Filename: pool/dists/focal/main/r-cran-morepls_0.2.1-1.ca2004.1_all.deb Size: 178464 MD5sum: 386d6fb52d992b970d015e82d9404794 SHA1: a4fd142e1166dfcf8da658738baf972389b5a168 SHA256: f280dbdb8257686d838347b72d5fcceab48f9adaa3726314e599779644415572 SHA512: d8078bf8ed72a19dcb301d0b816cddb3eef3d65dc5dc43e9b1943e791819e917d58d11f7f65bf2e343fc41848f20a26bb4b55609e28f4f8acb12412792580aa1 Homepage: https://cran.r-project.org/package=morepls Description: CRAN Package 'morepls' (Interpretation Tools for Partial Least Squares Regression) Various kinds of plots (observations, variables, correlations, weights, regression coefficients and Variable Importance in the Projection) and aids to interpretation (coefficients, Q2, correlations, redundancies) for partial least squares regressions computed with the 'pls' package, following Tenenhaus (1998, ISBN:2-7108-0735-1). Package: r-cran-morestopwords Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4562 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-cld2 Filename: pool/dists/focal/main/r-cran-morestopwords_0.2.0-1.ca2004.1_all.deb Size: 710480 MD5sum: 22aafc7d5633f6ff5101b82013ddfab3 SHA1: 6a35aec62aebc0060f2dd5e797cdc637714e7f4d SHA256: 66e8a765ee7252050f13eb7dc40e17c61347bafea7bee435865a196ceb8e0b9d SHA512: 6f289668f49d8c5918e78a1ac5d5ce7c4702c116f1fe3187ff3846a071758ebf538dd88faf21ff232cfd3d0ae383b284d0ff1ef1549cc381d410a859f555ea8d Homepage: https://cran.r-project.org/package=morestopwords Description: CRAN Package 'morestopwords' (All Stop Words in One Place) A standalone package combining several stop-word lists for 65 languages with a median of 329 stop words for language and over 1,000 entries for English, Breton, Latin, Slovenian, and Ancient Greek! The user automatically gets access to all the unique stop words contained in: the 'StopwordISO' repository; the 'Natural Language Toolkit' for 'python'; the 'Snowball' stop-word list; the R package 'quanteda'; the 'marimo' repository; the 'Perseus' project; and A. Berra's list of stop words for Ancient Greek and Latin. Package: r-cran-morgenstemning Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-morgenstemning_1.0-1.ca2004.1_all.deb Size: 29384 MD5sum: 9d6a50ae34d85988cdf098ac8a70c288 SHA1: 5d5ba7fe117493cb4537cee838d19b0e1e600ad2 SHA256: f8769a4692afa8851a8712b2076741c6ce2c5918693697b498cef8a99132e437 SHA512: 0c62b219fce56593ff081a91b59803a3cb04895d591ce9594c164329a4608a2d1ea9ea8fb2eb1dfc6acc290cb6174f5fc2d232578c406fa641f86d94e61f37b2 Homepage: https://cran.r-project.org/package=morgenstemning Description: CRAN Package 'morgenstemning' (Color schemes compatible with red-green color perceptiondifficulties) This package is a port of the MATLAB colourmap functions accompanying the paper M. Geissbuehler and T. Lasser, "How to display data by color schemes compatible with red-green color perception deficiencies," Opt. Express 21, 9862-9874 (2013) to R. Package: r-cran-morph Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rgl, r-cran-reshape2, r-cran-igraph, r-cran-stringr Filename: pool/dists/focal/main/r-cran-morph_1.1.0-1.ca2004.1_all.deb Size: 76756 MD5sum: e7d37431245031ef9f21f0c68534c539 SHA1: e029f4f2a5d396bf464d8f434b32229f7c91adf8 SHA256: 4fae37bbe53cb8bb5a8b2a3cada96c6ebf57daee4987243d3ccac2a0ad740287 SHA512: df0d9f0f92d95ac0f31341560d6c8113f58e3be906736d04679372c9b5c592b3b528d3175db7979b42414d764e6d8e431de90c037bc12767205c5160c08e7f40 Homepage: https://cran.r-project.org/package=morph Description: CRAN Package 'morph' (3D Segmentation of Voxels into Morphologic Classes) Automatically segments a 3D array of voxels into mutually exclusive morphological elements. This package extends existing work for segmenting 2D binary raster data. A paper documenting this approach has been accepted for publication in the journal Landscape Ecology. Detailed references will be updated here once those are known. Package: r-cran-morphemepiece.data Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3540 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-morphemepiece.data_1.2.0-1.ca2004.1_all.deb Size: 3590256 MD5sum: 27b39a8d0ab9bb34a4e267d66420b2e7 SHA1: ce235d6ef404e07da57f2b070a807f002da67adc SHA256: f7fbb61650aa16c643b854f3cac15a473a5a206b5e5bc6e344223002ac13eda8 SHA512: ca7c5d971eb667e5c1d9fbc0bfe4979e8c3e95856adc24c5a7064d0af014c3e677675bd81b4b4c33f9d735bdfa52f7966ddb4ed66e253ac0b435a3e93a80e57e Homepage: https://cran.r-project.org/package=morphemepiece.data Description: CRAN Package 'morphemepiece.data' (Data for Morpheme Tokenization) Provides data about morphemes, the smallest units of meaning in a language. 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The morphemepiece algorithm uses a lookup table to determine the morpheme breakdown of words, and falls back on a modified wordpiece tokenization algorithm for words not found in the lookup table. Package: r-cran-morphomap Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4965 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-arothron, r-cran-lattice, r-cran-mgcv, r-cran-rvcg, r-cran-morpho, r-cran-oce, r-cran-sp, r-cran-geometry, r-cran-rgl, r-cran-colorramps, r-cran-desctools Filename: pool/dists/focal/main/r-cran-morphomap_1.5-1.ca2004.1_all.deb Size: 5047580 MD5sum: 0dce5bfea55bdd864f9f18504290d194 SHA1: 2a37f361a1b9087fd4754efe033da4865991b3ab SHA256: 98cc6847b5bc25c5e210aa3d6f39f2fe7438f52f0ab9f37a26ab0a7154bfab98 SHA512: f47ab8567e325508329a7bced5331c0503a32137a258d2692ace00c49caa4c2b5fc45c1fcfb6bb934f768c4f45464a3f25b585b7894e6ca005a4d51c1262da7b Homepage: https://cran.r-project.org/package=morphomap Description: CRAN Package 'morphomap' (Morphometric Maps, Bone Landmarking and Cross Sectional Geometry) Extract cross sections from long bone meshes at specified intervals along the diaphysis. Calculate two and three-dimensional morphometric maps, cross-sectional geometric parameters, and semilandmarks on the periosteal and endosteal contours of each cross section. 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We provide tools to extend geometric morphometric principles to the study of non-physical structures, hormone profiles, as outlined in Ehrlich et al (2021) . Easily transform daily measures into multivariate landmark-based data. Includes custom functions to apply multivariate methods for data exploration as well as hypothesis testing. Also includes 'shiny' web app to streamline data exploration. Developed to study menstrual cycle hormones but functions have been generalized and should be applicable to any biomarker over any time period. Package: r-cran-morphoregions Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1915 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcolorbrewer, r-cran-cluster, r-cran-scales, r-cran-ggplot2, r-cran-chk, r-cran-pbapply Suggests: r-cran-viridislite, r-cran-patchwork, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-morphoregions_0.1.0-1.ca2004.1_all.deb Size: 1295704 MD5sum: 4f447ddabbc31d3604df0738c662b42a SHA1: 094446c6714ba4e61911088f4d599a5d693bda18 SHA256: 9697be6efc1a40541d3bec0e65a2bf28902f7affa08525162a8e6eebbc4a602a SHA512: 06db11459776f871e19aeb4f8fe0edab3d59f3298d91ac6e3f6b7f0e5420669acf4d08d177ce69611eb91a655c3482a89a421c20fe630cb6c2e205c0be379703 Homepage: https://cran.r-project.org/package=MorphoRegions Description: CRAN Package 'MorphoRegions' (Analysis of Regionalization Patterns in Serially HomologousStructures) Computes the optimal number of regions (or subdivisions) and their position in serial structures without a priori assumptions and to visualize the results. After reducing data dimensionality with the built-in function for data ordination, regions are fitted as segmented linear regressions along the serial structure. Every region boundary position and increasing number of regions are iteratively fitted and the best model (number of regions and boundary positions) is selected with an information criterion. This package expands on the previous 'regions' package (Jones et al., Science 2018) with improved computation and more fitting and plotting options. Package: r-cran-morphoscape Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1438 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-concaveman, r-cran-ggplot2, r-cran-spatial, r-cran-sp, r-cran-automap, r-cran-scales, r-cran-viridislite, r-cran-alphahull Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-morphoscape_1.0.2-1.ca2004.1_all.deb Size: 973916 MD5sum: f507df0deb36e818c4a8ca8bbb3af821 SHA1: 537c345de936c26b524eebc00825008cf161beee SHA256: 958b036802e066c07029b3eea8162bc312c58400bb1b2751378f780bc198802f SHA512: 125ebc52702369dcc6310de56a73eeeeeb4786eae4fb4a3b034d40d4090b26a51f6778e81952565ff5e6ca0e75bff894dedd02db3f64c7456cd242d2e3926f5a Homepage: https://cran.r-project.org/package=Morphoscape Description: CRAN Package 'Morphoscape' (Computation and Visualization of Adaptive Landscapes) Implements adaptive landscape methods first described by Polly et al. (2016) for the integration, analysis and visualization of biological trait data on a phenotypic morphospace - typically defined by shape metrics. 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Statistical and graphical tools provide a comprehensive framework for checking and manipulating input data, statistical analyses, and visualization of results. Several methods are provided for the analysis of raw data, to make the dataset ready for downstream analyses. Integrated statistical methods include hierarchical classification, principal component analysis, principal coordinates analysis, non-metric multidimensional scaling, and multiple discriminant analyses: canonical, stepwise, and classificatory (linear, quadratic, and the non-parametric k nearest neighbours). The philosophy of the package is described in Šlenker et al. 2022. 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Additionally, it offers functions to compute moments (mean, variance, skewness, kurtosis) of order statistics for several continuous distributions. These tools assist researchers and statisticians in understanding and analyzing the properties of order statistics and related data. The methods and algorithms implemented in this package are based on several published works, including Ahsanullah et al (2013, ISBN:9789491216831), Arnold and Balakrishnan (2012, ISBN:1461236444), Harter and Balakrishnan (1996, ISBN:9780849394522), Balakrishnan and Sandhu (1995) , Genç (2012) , Makouei et al (2021) and Nagaraja (2013) . 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Package: r-cran-mosclust Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 404 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cluster, r-cran-clusterv Filename: pool/dists/focal/main/r-cran-mosclust_1.0.2-1.ca2004.1_all.deb Size: 367020 MD5sum: a85b9567abc31ce4b1782ddc8eebe6b7 SHA1: 2e871899383d37a9fb014de3a56204ff4004ee81 SHA256: c83c6b94c2d4257c4dc691e94a300f5624a0d92e77209f27dfd24c45b3bea431 SHA512: dc4c8157d668eda4958caedd425f9b31209a0a520f1c96126eeb731b411574cdf57d7213ee3f404382ee248eb776e73ecc36d6447c0bc0fee015702ed9e6a426 Homepage: https://cran.r-project.org/package=mosclust Description: CRAN Package 'mosclust' (Model Order Selection for Clustering) Stability based methods for model order selection in clustering problems (Valentini, G (2007), ). Using multiple perturbations of the data the stability of clustering solutions is assessed. Different perturbations may be used: resampling techniques, random projections and noise injection. Stability measures for the estimate of clustering solutions and statistical tests to assess their significance are provided. Package: r-cran-mosemiind Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-copula, r-cran-pracma, r-cran-shiny Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mosemiind_0.1.0-1.ca2004.1_all.deb Size: 14724 MD5sum: 400e0a7106cce69df01287f139c0dd8d SHA1: f9c7302a67522bbe7c9903eb546b27ca2cb99a55 SHA256: 1c3d241bae7f7269fe58b24d32452ee6a459478127c799977b1c8a7e265ad490 SHA512: 007006058649fab919aa7606c2e69f0388e69de7dc63d5ac1f4d17a5244ce3f253c04ba4ddac08547569312c0542f279c67c1c0b3ca7961e0fb272f2c8f797b6 Homepage: https://cran.r-project.org/package=MOsemiind Description: CRAN Package 'MOsemiind' (Marshall-Olkin Shock Models with Semi-Independent Time) Provides tools for analyzing Marshall-Olkin shock models semi-independent time. It includes interactive 'shiny' applications for exploring copula-based dependence structures, along with functions for modeling and visualization. The methods are based on Mijanovic and Popovic (2024, submitted) "An R package for Marshall-Olkin shock models with semi-independent times." Package: r-cran-mosmafs Architecture: all Version: 0.1.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 912 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ecr, r-cran-bbmisc, r-cran-checkmate, r-cran-paramhelpers, r-cran-mass, r-cran-smoof, r-cran-mlrcpo, r-cran-mlr, r-cran-parallelmap Suggests: r-cran-knitr, r-cran-ggplot2, r-cran-magrittr, r-cran-testthat, r-cran-rpart, r-cran-praznik, r-cran-mlrmbo, r-cran-emoa, r-cran-dicekriging, r-cran-rgenoud, r-cran-randomforest, r-cran-digest Filename: pool/dists/focal/main/r-cran-mosmafs_0.1.2-1-1.ca2004.1_all.deb Size: 611000 MD5sum: bbfb581cae00532c11fda0ae18e3e64f SHA1: d7fce43d38164eb744adf1a29c9432e0cd16e618 SHA256: 59d42f6e238b119a3cd6813573006418e4ed7e4c13fc3d8220b695c1f894869f SHA512: 5d9cca86a5e550996e7a02ff5a089e8a93c289d6c5e6713f67fc49906f5d521d28db0a44210d2776224f095fca49cafc08d0af188ae35dfcd4f61848dfa4c9a3 Homepage: https://cran.r-project.org/package=mosmafs Description: CRAN Package 'mosmafs' (Multi-Objective Simultaneous Model and Feature Selection) Performs simultaneous hyperparameter tuning and feature selection through both single-objective and multi-objective optimization as described in Binder, Moosbauer et al. (2019) . Uses the 'ecr'-package as basis but adds mixed integer evolutionary strategies and multi-fidelity functionality as well as operators specific for the problem of feature selection. Package: r-cran-mosqcontrol Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 473 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-assertthat, r-cran-pracma, r-cran-nlcoptim, r-cran-nloptr, r-cran-sfsmisc Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mosqcontrol_0.1.0-1.ca2004.1_all.deb Size: 318012 MD5sum: 171389bc094ef411b8a4407e09c8a4c6 SHA1: 9e5ba47a335210e3705fcfaeecea5c2c351780db SHA256: 98700e6fb241e3fd31726327da405043596d85d81157993488e9edbe7bf44e40 SHA512: c5e034067e8f7584eed77c330aeaf00ef35cc4c7883e7ad11b991fea7b272a9128c551b36c64de8fe12248dacd5cff7a0af1c9ac9eeb57802dfe353b5ca7fde5 Homepage: https://cran.r-project.org/package=mosqcontrol Description: CRAN Package 'mosqcontrol' (Mosquito Control Resource Optimization) This project aims to make an accessible model for mosquito control resource optimization. The model uses data provided by users to estimate the mosquito populations in the sampling area for the sampling time period, and the optimal time to apply a treatment or multiple treatments. Package: r-cran-moss Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4128 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-dbscan, r-cran-rtsne Suggests: r-bioc-annotate, r-cran-bigparallelr, r-cran-bigstatsr, r-cran-future.apply, r-cran-scatterpie, r-cran-clvalid, r-bioc-complexheatmap, r-cran-fpc, r-cran-ggplot2, r-cran-ggpmisc, r-cran-ggthemes, r-cran-gridextra, r-cran-irlba, r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-testthat, r-cran-viridis, r-cran-spelling, r-cran-venndiagram Filename: pool/dists/focal/main/r-cran-moss_0.2.2-1.ca2004.1_all.deb Size: 3336088 MD5sum: 9bd5b6835c35251f83929ce1675353fe SHA1: 51ee9aa808e20b18f664548c833fb3ff27f5d6f4 SHA256: 8e3a85e5309756b769b44ab81c6f30707d10ae43a31634946070417227832eb9 SHA512: 72a7cefa033dc5cb314d3613ea934cb104ba29b1a2e4a16b0aa8224574815ac079b1167c5d7135d9bb6c10dfa2e31656d7a2cc72ea576ba607fbd7a0521cec04 Homepage: https://cran.r-project.org/package=MOSS Description: CRAN Package 'MOSS' (Multi-Omic Integration via Sparse Singular Value Decomposition) High dimensionality, noise and heterogeneity among samples and features challenge the omic integration task. Here we present an omic integration method based on sparse singular value decomposition (SVD) to deal with these limitations, by: a. obtaining the main axes of variation of the combined omics, b. imposing sparsity constraints at both subjects (rows) and features (columns) levels using Elastic Net type of shrinkage, and c. allowing both linear and non-linear projections (via t-Stochastic Neighbor Embedding) of the omic data to detect clusters in very convoluted data (Gonzalez-Reymundez et. al, 2022) . Package: r-cran-most Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-most_0.1.2-1.ca2004.1_all.deb Size: 61172 MD5sum: bd24d0a3f0f095b60bfd9596b875306f SHA1: 11b39d23896a23b10f2107d7458954052b3c12e2 SHA256: 87869e6c9e6066178a0809713c7132424855e82578b5d5fd318bc25b972f603c SHA512: 9d8bc51928479472ea214e39de38b656a8abf955af3d2a4c9ab29352ebbae7f2af563aed555b68ad97022f0362d80d8b09bbfb6662244085e9e89a8ad02a7b11 Homepage: https://cran.r-project.org/package=MOST Description: CRAN Package 'MOST' (Multiphase Optimization Strategy) Provides functions similar to the 'SAS' macros previously provided to accompany Collins, Dziak, and Li (2009) and Dziak, Nahum-Shani, and Collins (2012) , papers which outline practical benefits and challenges of factorial and fractional factorial experiments for scientists interested in developing biological and/or behavioral interventions, especially in the context of the multiphase optimization strategy (see Collins, Kugler & Gwadz 2016) . The package currently contains three functions. First, RelativeCosts1() draws a graph of the relative cost of complete and reduced factorial designs versus other alternatives. Second, RandomAssignmentGenerator() returns a dataframe which contains a list of random numbers that can be used to conveniently assign participants to conditions in an experiment with many conditions. Third, FactorialPowerPlan() estimates the power, detectable effect size, or required sample size of a factorial or fractional factorial experiment, for main effects or interactions, given several possible choices of effect size metric, and allowing pretests and clustering. Package: r-cran-mote Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 247 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mbess, r-cran-ez, r-cran-reshape Filename: pool/dists/focal/main/r-cran-mote_1.0.2-1.ca2004.1_all.deb Size: 211392 MD5sum: aa3c619af1f5bd000fdae4b67a5ba5e9 SHA1: c6b35f26166de7aaa4db56044006f52139a0b8be SHA256: ed6baf6c8b9c42706ccc0ae42de11a14f5599157deef96cf732bb68f7f345c11 SHA512: 55ca2b684f8bfd6a12534a7cc70286ab32ee373e370947cf8226d1033bfffdc52eebda17e9845301a02c72777ff1205bd3647521a19c1f4152fd5f1f1424fdcb Homepage: https://cran.r-project.org/package=MOTE Description: CRAN Package 'MOTE' (Effect Size and Confidence Interval Calculator) Measure of the Effect ('MOTE') is an effect size calculator, including a wide variety of effect sizes in the mean differences family (all versions of d) and the variance overlap family (eta, omega, epsilon, r). 'MOTE' provides non-central confidence intervals for each effect size, relevant test statistics, and output for reporting in APA Style (American Psychological Association, 2010, ) with 'LaTeX'. In research, an over-reliance on p-values may conceal the fact that a study is under-powered (Halsey, Curran-Everett, Vowler, & Drummond, 2015 ). A test may be statistically significant, yet practically inconsequential (Fritz, Scherndl, & Kühberger, 2012 ). Although the American Psychological Association has long advocated for the inclusion of effect sizes (Wilkinson & American Psychological Association Task Force on Statistical Inference, 1999 ), the vast majority of peer-reviewed, published academic studies stop short of reporting effect sizes and confidence intervals (Cumming, 2013, ). 'MOTE' simplifies the use and interpretation of effect sizes and confidence intervals. For more information, visit . Package: r-cran-motifcluster Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 502 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-igraph, r-cran-matrix, r-cran-rspectra Suggests: r-cran-covr, r-cran-knitr, r-cran-mclust, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-motifcluster_0.2.3-1.ca2004.1_all.deb Size: 447660 MD5sum: 9907b35733e06fb47f8761a3d71feedd SHA1: b967f32f827a66ec4c869141ba570b2ddfd2c5f6 SHA256: 19daf448d609ba9703b67666612c604f9bd42cc912ba7c36a7d464e048c161dd SHA512: 1d7f83b125e2352ee32a987efc9fb970826556cb0bad1a01aa67d56f7baf7403e5959c44b2674299779a4fd5f54065af49029d1f6e883fcf2cc3452ee425ff9c Homepage: https://cran.r-project.org/package=motifcluster Description: CRAN Package 'motifcluster' (Motif-Based Spectral Clustering of Weighted Directed Networks) Tools for spectral clustering of weighted directed networks using motif adjacency matrices. Methods perform well on large and sparse networks, and random sampling methods for generating weighted directed networks are also provided. Based on methodology detailed in Underwood, Elliott and Cucuringu (2020) . 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Multi-level networks combine multiple networks in one, e.g. social-ecological networks. Motifs are small configurations of nodes and edges (subgraphs) occurring in networks. 'motifr' can visualize multi-level networks, count multi-level network motifs and compare motif occurrences to baseline models. It also identifies contributions of existing or potential edges to motifs to find critical or missing edges. The package is in many parts an R wrapper for the excellent 'SESMotifAnalyser' 'Python' package written by Tim Seppelt. Package: r-cran-motorneuron Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2735 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dygraphs Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-motorneuron_1.0.0-1.ca2004.1_all.deb Size: 219392 MD5sum: 4bbaf023eb6c4eba630c7672836e00be SHA1: 632c7e694dc245e26972c7c7f80d4aa440ea85dd SHA256: a691975c976f70329a436c1aaef5e708fc1adc62ac6029f626446e3e5e2b8370 SHA512: a267b5f2196150a5f6f1506c0eddca61b6cd731479e9c305d9b6d57202c40ddf26050add04135144a07b7b3bf4222e053f9a357b3b907e6d3f7ea8d3c1c136fc Homepage: https://cran.r-project.org/package=motoRneuron Description: CRAN Package 'motoRneuron' (Analyzing Paired Neuron Discharge Times for Time-DomainSynchronization) The temporal relationship between motor neurons can offer explanations for neural strategies. We combined functions to reduce neuron action potential discharge data and analyze it for short-term, time-domain synchronization. Even more so, motoRneuron combines most available methods for the determining cross correlation histogram peaks and most available indices for calculating synchronization into simple functions. See Nordstrom, Fuglevand, and Enoka (1992) for a more thorough introduction. Package: r-cran-moult Architecture: all Version: 2.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 769 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-formula, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-moult_2.3.1-1.ca2004.1_all.deb Size: 683248 MD5sum: c4ca0f8d63b349c5b9336036d47fac53 SHA1: 59cfdcbab2974db2dbd5b63241c71d4cb693ca78 SHA256: 604d46b1943790562ef6a83a91d495aa62d427b6b49a6bf3af0a9c9cc499f4e3 SHA512: ca95391cf0567314d3711e9270b0aaf013ff852a6a15ef6070af0bcd01794fec1a41537f564abbfdef88be93b06965a3f06c1ac0c0859cea83756c07ddd2cb10 Homepage: https://cran.r-project.org/package=moult Description: CRAN Package 'moult' (Models for Analysing Moult in Birds) Functions to estimate start and duration of moult from moult data, based on models developed in Underhill and Zucchini (1988, 1990). 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A mountain plot is similar to an empirical CDF plot, except that the curve increases from 0 to 0.5, then decreases from 0.5 to 1 using an inverted scale at the right side. See Monti (1995) . Package: r-cran-mousetrack Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-mousetrack_1.0.0-1.ca2004.1_all.deb Size: 52152 MD5sum: bd9e8ab889991a7905e7d7fd48fa0ee1 SHA1: ca8f21236f30e42d20b33e2554b2f14d070f3990 SHA256: dbc553a094978ddaee2a5813f4f17efcc693c1eb18ac12f8484f296dacccaf90 SHA512: 8d2717c74021aa7f3d351841ad089584826ae62f8e2020b458316eba81c542df53f78d2a7b94ad69ac70aba540683d698564c0f162fbdf32a7c2b27c6cc81784 Homepage: https://cran.r-project.org/package=mousetrack Description: CRAN Package 'mousetrack' (Mouse-Tracking Measures from Trajectory Data) Extract from two-dimensional x-y coordinates of an arm-reaching trajectory, several dependent measures such as area under the curve, latency to start the movement, x-flips, etc.; which characterize the action-dynamics of the response. Mainly developed to analyze data coming from mouse-tracking experiments. Package: r-cran-mousetrajectory Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lifecycle, r-cran-signal Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-v8 Filename: pool/dists/focal/main/r-cran-mousetrajectory_0.2.1-1.ca2004.1_all.deb Size: 86212 MD5sum: bc2d7ed137bc9fa415789c9c5946bb14 SHA1: 6ffad2f3754a7d7127d55f2b93d1241169e88536 SHA256: f01d23cc6d6b3d867b694bc6b04e4609dcb04b18dc6fbf49d9774dfa97bd8abd SHA512: 137ebc8e503ea564e70041e1090d97cabc1c444c8ca689854a14cd5661167b8860ff3bd9fc5c645fea48d80ba45074c5750f2af5a5ec0235ead370b6f9bd0ecc Homepage: https://cran.r-project.org/package=mousetRajectory Description: CRAN Package 'mousetRajectory' (Mouse Trajectory Analyses for Behavioural Scientists) Helping psychologists and other behavioural scientists to analyze mouse movement (and other 2-D trajectory) data. Bundles together several functions that compute spatial measures (e.g., maximum absolute deviation, area under the curve, sample entropy) or provide a shorthand for procedures that are frequently used (e.g., time normalization, linear interpolation, extracting initiation and movement times). For more information on these dependent measures, see Wirth et al. (2020) . Package: r-cran-move2 Architecture: all Version: 0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4683 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-sf, r-cran-rlang, r-cran-units, r-cran-tidyselect, r-cran-dplyr, r-cran-tibble, r-cran-vroom, r-cran-cli, r-cran-vctrs, r-cran-bit64 Suggests: r-cran-knitr, r-cran-askpass, r-cran-digest, r-cran-keyring, r-cran-xml2, r-cran-curl, r-cran-magrittr, r-cran-purrr, r-cran-ggplot2, r-cran-testthat, r-cran-rmarkdown, r-cran-lwgeom, r-cran-s2, r-cran-move, r-cran-raster, r-cran-withr, r-cran-lubridate, r-cran-rnaturalearth, r-cran-rnaturalearthdata, r-cran-circular, r-cran-tidyr, r-cran-gganimate, r-cran-prettymapr, r-cran-gifski, r-cran-ggspatial Filename: pool/dists/focal/main/r-cran-move2_0.4.4-1.ca2004.1_all.deb Size: 3427848 MD5sum: f17583f1432a52013181b1b95a6d54d7 SHA1: f0cfa82475e363c650c3d92532b51c2555e2549c SHA256: ac380ff18c2ba3b44be78d6a7691b954fe7d11326d230e837907aed79c82f52f SHA512: e147ba4117392ff4e2f5326a843d46d54da38f4e0102e9bb8cf453b7950232aab841ee908a33d77ddccf8b012f093e3876e87d6a99bb9674a4774c9b6b279051 Homepage: https://cran.r-project.org/package=move2 Description: CRAN Package 'move2' (Processing and Analysing Animal Trajectories) Tools to handle, manipulate and explore trajectory data, with an emphasis on data from tracked animals. The package is designed to support large studies with several million location records and keep track of units where possible. Data import directly from 'movebank' and files is facilitated. Package: r-cran-movecost Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1015 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-chron, r-cran-gdistance, r-cran-elevatr, r-cran-matrix, r-cran-raster, r-cran-sf, r-cran-sp, r-cran-terra Filename: pool/dists/focal/main/r-cran-movecost_2.1-1.ca2004.1_all.deb Size: 999796 MD5sum: fdc32091f8fe124394b8bdc1de73dd3b SHA1: c4d19d60b4a9ec7cfadfdf1fb75cbeb4422524f6 SHA256: 7970eb84c2e1ba68a83320603f73cf9281d6da815daab5b6738d340d262a5c6e SHA512: 3d114fbd77878cafab1e14f115e74fb897cc4ca9df9aa51d1a0fffbd8f067132477c6ffc5ce11532993b1b9e3c95911a975e049977ef74506b39b36cb4d7ea9e Homepage: https://cran.r-project.org/package=movecost Description: CRAN Package 'movecost' (Calculation of Slope-Dependant Accumulated Cost Surface,Least-Cost Paths, Least-Cost Corridors, Least-Cost NetworksRelated to Human Movement Across the Landscape) Provides the facility to calculate non-isotropic accumulated cost surface, least-cost paths, least-cost corridors, least-cost networks using a number of human-movement-related cost functions that can be selected by the user. It just requires a Digital Terrain Model, a start location and (optionally) destination locations. See Alberti (2019) . Package: r-cran-movedesign Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4232 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bayestestr, r-cran-bsplus, r-cran-combinat, r-cran-config, r-cran-crayon, r-cran-ctmm, r-cran-data.table, r-cran-dplyr, r-cran-fontawesome, r-cran-gdtools, r-cran-ggiraph, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggtext, r-cran-golem, r-cran-gsl, r-cran-lubridate, r-cran-parsedate, r-cran-quarto, r-cran-reactable, r-cran-rintrojs, r-cran-rlang, r-cran-scales, r-cran-shiny, r-cran-shinyalert, r-cran-shinybusy, r-cran-shinydashboard, r-cran-shinydashboardplus, r-cran-shinyfeedback, r-cran-shinyjs, r-cran-shinywidgets, r-cran-stringr, r-cran-terra, r-cran-tidyr, r-cran-viridis Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-shinytest2 Filename: pool/dists/focal/main/r-cran-movedesign_0.3.1-1.ca2004.1_all.deb Size: 3546808 MD5sum: c427d358ad3e8cf2f3161965187c5095 SHA1: 28d669a1ddd7370f48923505d122dc282a290e1f SHA256: 228a1b2d30b08c9dd46e153b214966ebdb6ac2f4bb45c97aba36cfefa4fa8ae9 SHA512: c26509f6eeb0ad29012b900c085b60aa9382ea82864acd29cb207698fa5e1bc35f74a9aa04205e2bf3cdee16b341544c8c9b6eebd895ab969d58ee1a6d1cdbd4 Homepage: https://cran.r-project.org/package=movedesign Description: CRAN Package 'movedesign' (Study Design Toolbox for Movement Ecology Studies) Toolbox and 'shiny' application to help researchers design movement ecology studies, focusing on two key objectives: estimating home range areas, and estimating fine-scale movement behavior, specifically speed and distance traveled. It provides interactive simulations and methodological guidance to support study planning and decision-making. The application is described in Silva et al. (2023) . Package: r-cran-movegroup Architecture: all Version: 2024.03.05-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2761 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-beepr, r-cran-dplyr, r-cran-ggmap, r-cran-knitr, r-cran-lubridate, r-cran-magick, r-cran-move, r-cran-purrr, r-cran-raster, r-cran-rlang, r-cran-sf, r-cran-sp, r-cran-stars, r-cran-starsextra, r-cran-stringr, r-cran-terra, r-cran-tidyr, r-cran-tidyselect, r-cran-viridis Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-movegroup_2024.03.05-1.ca2004.1_all.deb Size: 2125576 MD5sum: 1f21b48493875203a09c95c776de7990 SHA1: a71b6e5da59ff04093dc8567d2d24290c8fafc95 SHA256: ddc9bfeb2b80ba7b56c4797a85fcde09bc7fe8f8c0e4ab934d9f87453c956ebc SHA512: 32b2137098166e575413ea8425d78e7555d62869957a2a4f9b5b2da444b0a457d9c9fbbe8385cc2b06f77f38932bcb4d31b4c8c820e73bb3120860c1c70898d8 Homepage: https://cran.r-project.org/package=movegroup Description: CRAN Package 'movegroup' (Visualizing and Quantifying Space Use Data for Groups of Animals) Offers an easy and automated way to scale up individual-level space use analysis to that of groups. Contains a function from the 'move' package to calculate a dynamic Brownian bridge movement model from movement data for individual animals, as well as functions to visualize and quantify space use for individuals aggregated in groups. Originally written with passive acoustic telemetry in mind, this package also provides functionality to account for unbalanced acoustic receiver array designs, and satellite tag data. Package: r-cran-movementsync Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2144 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-circular, r-cran-dplyr, r-cran-ggplot2, r-cran-gridextra, r-cran-hms, r-cran-igraph, r-cran-lmtest, r-cran-osfr, r-cran-rlang, r-cran-scales, r-cran-signal, r-cran-tidyr, r-cran-waveletcomp, r-cran-zoo Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-movementsync_0.1.4-1.ca2004.1_all.deb Size: 1957852 MD5sum: ce369db5ed950999f3ef454b3d146dff SHA1: 9cebcc05e8705b24bc47f8bc2a90357f531461dd SHA256: 2b3a09606f65a4055507b807f3d1df73f495277027390c0ffc19c9bc0f022787 SHA512: 8e7daab1e90a1d69a5324b5f526456605c2ee71d6312dd3f877aed75494b59177b3ed65b705411b02c1458ed30aad4e8887c500f3b8a8a0c3bc009ce80427e47 Homepage: https://cran.r-project.org/package=movementsync Description: CRAN Package 'movementsync' (Analysis and Visualisation of Musical Audio and Video MovementSynchrony Data) Analysis and visualisation of synchrony, interaction, and joint movements from audio and video movement data of a group of music performers. The demo is data described in Clayton, Leante, and Tarsitani (2021) , while example analyses can be found in Clayton, Jakubowski, and Eerola (2019) . Additionally, wavelet analysis techniques have been applied to examine movement-related musical interactions, as shown in Eerola et al. (2018) . Package: r-cran-movevis Architecture: all Version: 0.10.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4211 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-move, r-cran-raster, r-cran-sf, r-cran-lwgeom, r-cran-slippymath, r-cran-lubridate, r-cran-curl, r-cran-ggplot2, r-cran-cowplot, r-cran-magick, r-cran-gifski, r-cran-av, r-cran-pbapply, r-cran-magrittr Suggests: r-cran-mapview, r-cran-leaflet, r-cran-testthat Filename: pool/dists/focal/main/r-cran-movevis_0.10.5-1.ca2004.1_all.deb Size: 4260880 MD5sum: 53dae75c11d8a3687c5bda32aaacde54 SHA1: 880891d0ccd9bdfca34e569638d2ed105e184405 SHA256: d4d87d6919518a2ba4649e690a3385636034181fc659baf5195f0579baec0096 SHA512: 6b6da920f92cffac6aad10cf106650b080cab5dfe0df86f7ff0eec3878c679bb966a09cd308bc892ab4a536bf62d2b2e14968a062537ab193a07812fdf9fb90a Homepage: https://cran.r-project.org/package=moveVis Description: CRAN Package 'moveVis' (Movement Data Visualization) Tools to visualize movement data (e.g. from GPS tracking) and temporal changes of environmental data (e.g. from remote sensing) by creating video animations. Package: r-cran-movieroc Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2182 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rms, r-cran-animation, r-cran-intrval, r-cran-gtools, r-cran-e1071, r-cran-robustbase, r-cran-rsolnp, r-cran-ks, r-cran-zoo Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-movieroc_0.1.2-1.ca2004.1_all.deb Size: 2057108 MD5sum: e4299c958dc1f1c0daf2d2d2633ba324 SHA1: ff2992e65f77f857fd4a993201ab1a91914f3089 SHA256: ccd8f3caee84cc2ef03bb3e5068767ed58a06ecaa5d25e6f1e679be2dcf78c8c SHA512: e52a39dc052c1a1531ca5bcc3c8b898dce894ad1a6cf8fd19efabfb33107323c710677bd8df2230cfe106f63d3f19399158972b8fdb9211eb845fb00f8aa91de Homepage: https://cran.r-project.org/package=movieROC Description: CRAN Package 'movieROC' (Visualizing the Decision Rules Underlying Binary Classification) Visualization of decision rules for binary classification and Receiver Operating Characteristic (ROC) curve estimation under different generalizations proposed in the literature: - making the classification subsets flexible to cover those scenarios where both extremes of the marker are associated with a higher risk of being positive, considering two thresholds (gROC() function); - transforming the marker by a proper function trying to improve the classification performance (hROC() function); - when dealing with multivariate markers, considering a proper transformation to univariate space trying to maximize the resulting AUC of the TPR for each FPR (multiROC() function). The classification regions behind each point of the ROC curve are displayed in both static graphics (plot_buildROC(), plot_regions() or plot_funregions() function) or videos (movieROC() function). Package: r-cran-mpactr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 868 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-cli, r-cran-ggplot2, r-cran-r6, r-cran-readr, r-cran-treemapify, r-cran-viridis Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mpactr_0.1.0-1.ca2004.1_all.deb Size: 528328 MD5sum: 08e7c28e6d370e2f2bed0dc6fec46c8b SHA1: 2f302fa1eab0921f95fcb964111a20a1789fffea SHA256: c4345e5df4467d7705a2a1206c0b2b65d779ab9977cc1b8c9a86f083587221eb SHA512: 8b408f5f682450e6387a3715f692b78cfafe687ca0290ad2e7e6da56a9a36ffdef4fe208c9dd28df864587ce0c344b96d724d2a018ef2a6a589f94d535e0b13c Homepage: https://cran.r-project.org/package=mpactr Description: CRAN Package 'mpactr' (Correction of Preprocessed MS Data) An 'R' implementation of the 'python' program Metabolomics Peak Analysis Computational Tool ('MPACT') (Robert M. Samples, Sara P. Puckett, and Marcy J. Balunas (2023) ). Filters in the package serve to address common errors in tandem mass spectrometry preprocessing, including: (1) isotopic patterns that are incorrectly split during preprocessing, (2) features present in solvent blanks due to carryover between samples, (3) features whose abundance is greater than user-defined abundance threshold in a specific group of samples, for example media blanks, (4) ions that are inconsistent between technical replicates, and (5) in-source fragment ions created during ionization before fragmentation in the tandem mass spectrometry workflow. Package: r-cran-mpae Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 173 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-caret, r-cran-rcmdrmisc Suggests: r-cran-car, r-cran-gbm, r-cran-leaps, r-cran-lmtest, r-cran-glmnet, r-cran-mgcv, r-cran-np, r-cran-neuralnettools, r-cran-pdp, r-cran-vivid, r-cran-plot3d, r-cran-appliedpredictivemodeling, r-cran-islr Filename: pool/dists/focal/main/r-cran-mpae_0.1.2-1.ca2004.1_all.deb Size: 137216 MD5sum: f60d5365eed55c61fdf9bd4dd4065e6f SHA1: 126dfa9140fdb2296064b75146d6a29a652153ac SHA256: 36284b44dc10cac414806e72423b5a77d9926be65d19a570a25c4b4b1393ff33 SHA512: a2f1d14c42f6fa77055512e43dc4200994c6f05a3b8693c605a311581babf6fdb24b50b0da9bb3c804d2ae8e0ca3ca78737be02b22109e49d996032fb8e047ee Homepage: https://cran.r-project.org/package=mpae Description: CRAN Package 'mpae' (Metodos Predictivos de Aprendizaje Estadistico (StatisticalLearning Predictive Methods)) Functions and datasets used in the book: Fernandez-Casal, R., Costa, J. and Oviedo-de la Fuente, M. (2024) "Metodos predictivos de aprendizaje estadistico" . Package: r-cran-mpagenomics Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1066 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r.utils, r-cran-changepoint, r-cran-glmnet, r-cran-hdpenreg, r-cran-spikeslab Suggests: r-bioc-cghcall, r-cran-aroma.affymetrix, r-cran-aroma.cn, r-cran-aroma.core, r-bioc-aroma.light, r-cran-snowfall, r-cran-r.devices, r-cran-r.filesets, r-cran-r.methodss3, r-cran-r.oo, r-cran-matrixstats Filename: pool/dists/focal/main/r-cran-mpagenomics_1.2.3-1.ca2004.1_all.deb Size: 930152 MD5sum: 7d686c387be43c7a8dd99707bd3478e4 SHA1: c35d14cc143404ccbff3db1b54d1ea7a22b1271a SHA256: 5e5f26f02218b679e8535f518c22b2d6ed19c1e6d0d20ae5ecfa455575f73734 SHA512: 16e5e5db5adf5a442119652703b9450676ee0f3f7fd1a49d9a5796699e15b0e9b108e6acf16afe2f1c9a31f834981192b128c123da509e76a1f7e00a2e4f3e7c Homepage: https://cran.r-project.org/package=MPAgenomics Description: CRAN Package 'MPAgenomics' (Multi-Patient Analysis of Genomic Markers) Preprocessing and analysis of genomic data. 'MPAgenomics' provides wrappers from commonly used packages to streamline their repeated manipulation, offering an easy-to-use pipeline. The segmentation of successive multiple profiles is performed with an automatic choice of parameters involved in the wrapped packages. Considering multiple profiles in the same time, 'MPAgenomics' wraps efficient penalized regression methods to select relevant markers associated with a given outcome. Grimonprez et al. (2014) . Package: r-cran-mpathr Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 952 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-jsonlite, r-cran-lifecycle, r-cran-lubridate, r-cran-readr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mpathr_1.0.3-1.ca2004.1_all.deb Size: 291808 MD5sum: a21045f9713671497c0ddde15480a414 SHA1: 76d8ac5506a9bdb5b2a1042af8984c92f47d012b SHA256: 79e7970d40e7799d27657ac0bdfbc27431658d7f5c08cc825b59044d4c9c3cee SHA512: fb966d4f47379c6491c0d2f0f1cb22134ff07238a05ed2b21fd571c623e156a951285f769f29b0c025f2344bbd6921b589b88f5ee40abb45ee96aef790022c57 Homepage: https://cran.r-project.org/package=mpathr Description: CRAN Package 'mpathr' (Easily Handling Data from the ‘m-Path’ Platform) Provides tools for importing and cleaning Experience Sampling Method (ESM) data collected via the 'm-Path' platform. The goal is to provide with a few utility functions to be able to read and perform some common operations in ESM data collected through the 'm-Path' platform (). Functions include raw data handling, format standardization, and basic data checks, as well as to calculate the response rate in data from ESM studies. Package: r-cran-mpathsenser Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4867 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dbi, r-cran-dbplyr, r-cran-dplyr, r-cran-furrr, r-cran-jsonlite, r-cran-lifecycle, r-cran-lubridate, r-cran-purrr, r-cran-rlang, r-cran-rsqlite, r-cran-tibble, r-cran-tidyr Suggests: r-cran-cli, r-cran-curl, r-cran-ggplot2, r-cran-httr, r-cran-kableextra, r-cran-knitr, r-cran-lintr, r-cran-progressr, r-cran-rmarkdown, r-cran-rvest, r-cran-sodium, r-cran-spelling, r-cran-testthat, r-cran-vroom Filename: pool/dists/focal/main/r-cran-mpathsenser_1.2.3-1.ca2004.1_all.deb Size: 3975816 MD5sum: f72b9ebae457105109d3e9f98f659763 SHA1: 76d3a587b6eb69d2cbf7cc7a62660d1d346c4305 SHA256: e26747a5bd56893ea820f01274857868dcce7c270f19dc9ea3f1418c51876cd5 SHA512: bf0747c0743bb29eae6dfef9488fcb6cb757ed3f42a523048870f648626d7f49eafb5de13f8c072d9f179b2be6be4615183b9baea9d4019c9e9186c095143f8b Homepage: https://cran.r-project.org/package=mpathsenser Description: CRAN Package 'mpathsenser' (Process and Analyse Data from m-Path Sense) Overcomes one of the major challenges in mobile (passive) sensing, namely being able to pre-process the raw data that comes from a mobile sensing app, specifically 'm-Path Sense' . The main task of 'mpathsenser' is therefore to read 'm-Path Sense' JSON files into a database and provide several convenience functions to aid in data processing. Package: r-cran-mpci Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mpci_1.0.7-1.ca2004.1_all.deb Size: 43632 MD5sum: 04b5868ea35c1fe3ab6a4ef0d589b9ad SHA1: 5d7a83ea130ccd284fee7c07fd38e3bd7da70370 SHA256: 138e0ce56f1ada4e86868a55d529f1b2be8aa4fa819d02b4dae491763e20569a SHA512: f9fbed9061fcfeafb7aaf416172817af8f92f61d5b563ee9d65eaf715fbcbdf3252b40749a4e59b49d98f4687390931e9f3678e892a4d738f54a5c242b5b2441 Homepage: https://cran.r-project.org/package=MPCI Description: CRAN Package 'MPCI' (Multivariate Process Capability Indices (MPCI)) It performs the followings Multivariate Process Capability Indices: Shahriari et al. (1995) Multivariate Capability Vector, Taam et al. (1993) Multivariate Capability Index (MCpm), Pan and Lee (2010) proposal (NMCpm) and the followings based on Principal Component Analysis (PCA):Wang and Chen (1998), Xekalaki and Perakis (2002) and Wang (2005). Two datasets are included. Package: r-cran-mpcv Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve Filename: pool/dists/focal/main/r-cran-mpcv_1.1-1.ca2004.1_all.deb Size: 42432 MD5sum: 7dfd8d87c4d5773611b5a66ad6ce0bb8 SHA1: 90520ae62ecce2aa61c15f4b37080ee2b21f8a8a SHA256: c532770ee0accbae416a825baa670d2fc6bb340f14b11b6879a4f5a23a27a6bf SHA512: 6ecc731d6d54c5d469c9748974a2ae905fd7494261fbbe213f594f7ca964a5c8c4be2c4c9d5e8846f0cac0b74b5c7631220b5173cfe7f1518545a1aa3a205640 Homepage: https://cran.r-project.org/package=mpcv Description: CRAN Package 'mpcv' (Multivariate Process Capability Vector) Multivariate process capability analysis using the multivariate process capability vector. Allows to analyze a multivariate process with both normally and non-normally distributed and also with dependent and independent quality characteristics. Package: r-cran-mpdir Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 598 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-mpdir_0.2-1.ca2004.1_all.deb Size: 382568 MD5sum: af7f3c83ac3206cfae6b18ba57142f40 SHA1: 08e124641a5559172f136c5abdcabd63380dd79e SHA256: 24fe07c0febfec06df1ca92fc19d3464b474f68c5f95e06df63bad2fe8374178 SHA512: 6a513f9790ee7f1bc2fa00e8655da70c2cdcab2d472313e3314ed9cffa912eb5abc8391c1845c2f5f2652f98003b7cd2ca54ee1b4b4de35e5f4a24cab2fbc0f4 Homepage: https://cran.r-project.org/package=MPDiR Description: CRAN Package 'MPDiR' (Data Sets and Scripts for Modeling Psychophysical Data in R) Data sets and scripts for Modeling Psychophysical Data in R (Springer). Package: r-cran-mpe Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 183 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mpe_1.0-1.ca2004.1_all.deb Size: 71276 MD5sum: d7cee3606df6927d9b5674ed6138706f SHA1: c5453e6b4acf647aef2810fa4dc17e4de987a1a6 SHA256: 4da9ee680883a8a4ba1946a6d793f28587cc19c8153b0ccf9c450172e7765ec3 SHA512: 2ab4ccb817e41eccef40636c921cd5f14e76fb2c01d7ed8cc5630114fd7110f8cf04650203e0734a4a85f4bd78ec8a4a549ce3b41dd81e653fd91894f1e3cf1d Homepage: https://cran.r-project.org/package=mpe Description: CRAN Package 'mpe' (Multiple Primary Endpoints) Functions for calculating sample size and power for clinical trials with multiple (co-)primary endpoints. Package: r-cran-mpge Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 149 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mpge_1.0.0-1.ca2004.1_all.deb Size: 75412 MD5sum: d6660510e679f21d108c7f0f3b221a7c SHA1: 7b30ab630fa578949342ef444fdd4c701324ebcb SHA256: 4aae3f5e4b7c14f9b54e4886e9df32c73a6e212d5517898ffbecad51de1a042e SHA512: 16f3412310a8598bca786231a185024b623842338ad581fcb245f4b5b789f630d5ca832f92516173a093f81f87f8a0a452b847f604fd17803871675373a35efa Homepage: https://cran.r-project.org/package=MPGE Description: CRAN Package 'MPGE' (A Two-Step Approach to Testing Overall Effect ofGene-Environment Interaction for Multiple Phenotypes) Interaction between a genetic variant (e.g., a single nucleotide polymorphism) and an environmental variable (e.g., physical activity) can have a shared effect on multiple phenotypes (e.g., blood lipids). 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Package: r-cran-mpi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-doparallel, r-cran-foreach, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-mpi_0.1.0-1.ca2004.1_all.deb Size: 35768 MD5sum: 5b76038c41e9300b94d0668ee9a5194e SHA1: 95197f886175ea9b34a2bbb880caa68888ff300d SHA256: 803358ab252dd8a80b297ae1861d02f6cfe2152d6d54db5a72862cd6a112a1ee SHA512: a67f591bb26f739cda5892190e954681b2cbd451ab87043e700ca3e397b8eabe5d063160a138ad9e7c699d3cf944351138db52d88343702282c90466ca43dc80 Homepage: https://cran.r-project.org/package=MPI Description: CRAN Package 'MPI' (Computation of Multidimensional Poverty Index (MPI)) Computing package for Multidimensional Poverty Index (MPI) using Alkire-Foster method. Given N individuals, each person has D indicators of deprivation, the package compute MPI value to represent the degree of poverty in a population. The inputs are 1) an N by D matrix, which has the element (i,j) represents whether an individual i is deprived in an indicator j (1 is deprived and 0 is not deprived), and 2) the deprivation threshold. The main output is the MPI value, which has the range between zero and one. MPI value is approaching one if almost all people are deprived in all indicators, and it is approaching zero if almost no people are deprived in any indicator. Please see Alkire S., Chatterjee, M., Conconi, A., Seth, S. and Ana Vaz (2014) for The Alkire-Foster methodology. 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(3)MPINet can support pathways from multiple databases. Package: r-cran-mpitbr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1695 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-purrr, r-cran-survey Suggests: r-cran-gridextra, r-cran-knitr, r-cran-rmarkdown, r-cran-scales, r-cran-stringi, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-mpitbr_1.0.1-1.ca2004.1_all.deb Size: 1541996 MD5sum: ee8dd41ddbf2ca5f34e5b8f37c14b176 SHA1: 3d25f01d32083e586ac02259e6657f4016302f91 SHA256: 50167b426da5f212a093052d70d96bfcc8c9b7808828eedf028f51df7033d4be SHA512: e599d7a11d93683517cb93973a7752bf4c6bce9998f2eb5d6425a23f3acfd09a329f1022a0fa3c3d8db492617db6f9e5645f678556a6695669cf3f9550a950d1 Homepage: https://cran.r-project.org/package=mpitbR Description: CRAN Package 'mpitbR' (Calculate Alkire-Foster Multidimensional Poverty Measures) Estimate Multidimensional Poverty Indices disaggregated by population subgroups based on the Alkire and Foster method (2011) . This includes the calculation of standard errors and confidence intervals. Other partial indices such as incidence, intensity and indicator-specific measures as well as intertemporal changes analysis can also be estimated. The standard errors and confidence intervals are calculated considering the complex survey design. Package: r-cran-mpkn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 303 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-matrixcalc, r-cran-markovchain, r-cran-matlib Filename: pool/dists/focal/main/r-cran-mpkn_0.1.0-1.ca2004.1_all.deb Size: 258620 MD5sum: 27d60c8526fd59fe8b14996a02f67fe6 SHA1: 1d749685e99a3977f49143c528b0622964b18d6b SHA256: 1767ff39ef45afaefdb402f72739ed27e53d2f6748ba61dfabec48fcb15aa810 SHA512: 5b3e2aaa20e83180b8ec9f577717c7eff11f7209b2b936dc3655f9415f415929d8b1f294ad421ebbd846a8d6be9983318f8faba27b7b9ee253fca10041f4e1f8 Homepage: https://cran.r-project.org/package=MPkn Description: CRAN Package 'MPkn' (Calculations of One Discrete Model in Several Time Steps) A matrix discrete model having the form 'M[i+1] = (I + Q)*M[i]'. The calculation of the values of 'M[i]' only for pre-selected values of 'i'. The method of calculation is presented in the vignette 'Fundament' ('Base'). Maybe it`s own idea of the author of the package. A weakness is that the method gives information only in selected steps of the process. It mainly refers to cases with matrices that are not Markov chain. If 'Q' is Markov transition matrix, then MUPkL() may be used to calculate the steady-state distribution 'p' for 'p = Q*p'. Matrix power of non integer (matrix.powerni()) gives the same results as a mpower() from package 'matlib'. References: "Markov chains", (). Donald R. Burleson, Ph.D. (2005), "ON NON-INTEGER POWERS OF A SQUARE MATRIX", (). 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Package: r-cran-mplusautomation Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3259 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-plyr, r-cran-gsubfn, r-cran-coda, r-cran-xtable, r-cran-lattice, r-cran-texreg, r-cran-pander, r-cran-digest, r-cran-ggplot2, r-cran-data.table, r-cran-fastdummies, r-cran-checkmate Suggests: r-bioc-rhdf5, r-cran-relimp, r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mplusautomation_1.1.1-1.ca2004.1_all.deb Size: 2385244 MD5sum: 9def2ebd4f5669e093fc9fc06e1d2f61 SHA1: 4049ceb8fc4ad6a1fc1bc063c15f0de1aafc6a3f SHA256: db2dfc0d82b68c4990ac905bb5883121a3dc931867c63afcce66b974bde7481f SHA512: 12cae54561f80d862fb7392f5a8ef3f0179b8b3e2aab72d3b98898a02947b6e1d3075214439c2954328109f6753210e85fbd20722808ac7be6dbd6c1134ef155 Homepage: https://cran.r-project.org/package=MplusAutomation Description: CRAN Package 'MplusAutomation' (An R Package for Facilitating Large-Scale Latent VariableAnalyses in Mplus) Leverages the R language to automate latent variable model estimation and interpretation using 'Mplus', a powerful latent variable modeling program developed by Muthen and Muthen (). 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The package builds upon the capabilities of the 'MplusAutomation' package (Hallquist & Wiley, 2018) to streamline large-scale latent variable analyses. “MplusAutomation: An R Package for Facilitating Large-Scale Latent Variable Analyses in Mplus.” Structural Equation Modeling, 25(4), 621–638. The workflow implemented in this package follows the recommendations outlined in Van Der Nest et al. (2020). “An Overview of Mixture Modeling for Latent Evolutions in Longitudinal Data: Modeling Approaches, Fit Statistics, and Software.” Advances in Life Course Research, 43, Article 100323. . 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Multiple comparisons and simultaneous confidence interval estimations can be performed for ratios of treatment means in the normal one-way layout with homogeneous and heterogeneous treatment variances, according to Dilba et al. (2007) and Hasler and Hothorn (2008) . Confidence interval estimations for ratios of linear combinations of linear model parameters like in (multiple) slope ratio and parallel line assays can be carried out. Moreover, it is possible to calculate the sample sizes required in comparisons with a control based on relative margins. For the simple two-sample problem, functions for a t-test for ratio-formatted hypotheses and the corresponding confidence interval are provided assuming homogeneous or heterogeneous group variances. 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Feature extraction is done with a redundant Haar wavelet transform with filter h = (0.5, 0.5). The advantage of the approach compared to typical Fourier based methods is an dynamic adaptation to varying seasonalities. Currently implemented prediction methods based on the selected wavelets levels and scales are a regression and a multi-layer perceptron. Forecasts can be computed for horizon 1 or higher. Model selection is performed with an evolutionary optimization. Selection criteria are currently the AIC criterion, the Mean Absolute Error or the Mean Root Error. The data is split into three parts for model selection: Training, test, and evaluation dataset. The training data is for computing the weights of a parameter set. The test data is for choosing the best parameter set. The evaluation data is for assessing the forecast performance of the best parameter set on new data unknown to the model. This work is published in Stier, Q.; Gehlert, T.; Thrun, M.C. Multiresolution Forecasting for Industrial Applications. Processes 2021, 9, 1697. . 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We assume that a partition in a higher layer subsumes lower-layer partitions (e.g. a nation is at the 1st layer subsumes all provinces at the 2nd layer). Given N individuals that have a pair of real values (x,y) that generated from independent variable X and dependent variable Y. Each individual i belongs to one partition per layer. Our goal is to find which partitions at which highest level that all individuals in the these partitions share the same linear model Y=f(X) where f is a linear function. The framework deploys the Minimum Description Length principle (MDL) to infer solutions. The publication of this package is at Chainarong Amornbunchornvej, Navaporn Surasvadi, Anon Plangprasopchok, and Suttipong Thajchayapong (2021) . Package: r-cran-mrregression Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 320 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcpp, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-mrregression_1.0.0-1.ca2004.1_all.deb Size: 239596 MD5sum: e7f20abc7d4ccbe3a821ca0eb283d8fd SHA1: 47bf47b4431f4c2925d096bea377e76a48fa5cd4 SHA256: e3df3752db1f71e8af60d0c319848a172c8c71d369d0a67b6f1f3e34c3c3eca0 SHA512: 6f95d6e44614afb494fa62f40f131266d1248e7328b9fbedc6a7c25de84502b44352f1959e347e7c4ec972747c204e3d7329c8a82e8bd01d5483e3c3a534f43a Homepage: https://cran.r-project.org/package=mrregression Description: CRAN Package 'mrregression' (Regression Analysis for Very Large Data Sets via Merge andReduce) Frequentist and Bayesian linear regression for large data sets. Useful when the data does not fit into memory (for both frequentist and Bayesian regression), to make running time manageable (mainly for Bayesian regression), and to reduce the total running time because of reduced or less severe memory-spillover into the virtual memory. This is an implementation of Merge & Reduce for linear regression as described in Geppert, L.N., Ickstadt, K., Munteanu, A., & Sohler, C. (2020). 'Streaming statistical models via Merge & Reduce'. International Journal of Data Science and Analytics, 1-17, . 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Applicable to MRT with binary treatment options and continuous or binary outcomes. The method for MRT with continuous outcomes is the weighted centered least squares (WCLS) by Boruvka et al. (2018) . The method for MRT with binary outcomes is the estimator for marginal excursion effect (EMEE) by Qian et al. (2021) . Package: r-cran-mrtsamplesize Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mrtsamplesize_0.3.0-1.ca2004.1_all.deb Size: 45872 MD5sum: 8d14655cd2df3694d80610367e8bb41e SHA1: 6c309b6d04a883eac6e4ea033c1633488cb22564 SHA256: 969478d3f584f7eaecfb8a8622579e55edc1efc323f1449b78f7e40a57e2ffdc SHA512: 5ba69fb4b063f831dcf65d9fd74960b1cb8f7d25c9c8ed01867670c9fca0cd32e6b270e2861ff8f4a5a7ea84101d042aecee95cd67452390ed6d7ba818d89aff Homepage: https://cran.r-project.org/package=MRTSampleSize Description: CRAN Package 'MRTSampleSize' (A Sample Size Calculator for Micro-Randomized Trials) Provide a sample size calculator for micro-randomized trials (MRTs) based on methodology developed in Sample Size Calculations for Micro-randomized Trials in mHealth by Liao et al. (2016) . 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Also provides a power calculator when the sample size is input by the user. Package: r-cran-mrzero Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1109 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-knitr, r-cran-rmarkdown, r-cran-plotly, r-cran-ggplot2, r-cran-robustbase, r-cran-quantreg, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-mrzero_0.2.0-1.ca2004.1_all.deb Size: 681304 MD5sum: af512e0890c168feaa538f402d2d7ccc SHA1: adbb0e4e5ec39cf18098b000bbdd60b9dcc5ffd6 SHA256: c246a65eb0c90df5df1fc1563d585a566d154359d97432a3c2dff04a17a71e70 SHA512: 1360d1cd8dcd900bb4226c873df8420b0956bd34cbfc05e1f0dbee156531b83bca31e0b46fa82ec34fcb993d04b5273f3e854950870564a7ee2789a4eed9a7cf Homepage: https://cran.r-project.org/package=MRZero Description: CRAN Package 'MRZero' (Diet Mendelian Randomization) Encodes several methods for performing Mendelian randomization analyses with summarized data. Similar to the 'MendelianRandomization' package, but with fewer bells and whistles, and less frequent updates. As described in Yavorska (2017) and Broadbent (2020) . Package: r-cran-ms.sev Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ms.sev_1.0.4-1.ca2004.1_all.deb Size: 44972 MD5sum: 27b99db3f314485e759e0a5921c58b05 SHA1: 178d9f4357ea6d2722b0a4e987834c8265f7791f SHA256: 33cbbcc51e29ff1b6a8575bfc38aad95e6947e305c7c73131f08dcc0ccc831f7 SHA512: 278f4eb55eac55289d619da9380f8731db91eb1f62246f3ab7baee63ef6613e04f8cdc26abfae42bd6a9162911f9891e4ef035879412dff589064d70da3edb91 Homepage: https://cran.r-project.org/package=ms.sev Description: CRAN Package 'ms.sev' (Package for Calculation of ARMSS, Local MSSS and Global MSSS) Calculates ARMSS (age related multiple sclerosis severity), and both local and global MSSS (multiple sclerosis severity score). Package: r-cran-msae Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magic Filename: pool/dists/focal/main/r-cran-msae_0.1.5-1.ca2004.1_all.deb Size: 102636 MD5sum: d0db08753f97b1f13e775503f2cc3c99 SHA1: 7de3e9a6a5eb32e907e0eda9db69feba7de4db55 SHA256: 18f009fd7572f819417f2b0720a9114250264101c07a3fb6753ba9148eb8c4b1 SHA512: 20ff49e55265f19944ac3a184a30bd8bb649ba8c4251289cb9a327df941c89bddead026dae6409619830b361282f54b715e250bdd9ed1c098241ac30a93ca3d0 Homepage: https://cran.r-project.org/package=msae Description: CRAN Package 'msae' (Multivariate Fay Herriot Models for Small Area Estimation) Implements multivariate Fay-Herriot models for small area estimation. It uses empirical best linear unbiased prediction (EBLUP) estimator. Multivariate models consider the correlation of several target variables and borrow strength from auxiliary variables to improve the effectiveness of a domain sample size. Models which accommodated by this package are univariate model with several target variables (model 0), multivariate model (model 1), autoregressive multivariate model (model 2), and heteroscedastic autoregressive multivariate model (model 3). Functions provide EBLUP estimators and mean squared error (MSE) estimator for each model. These models were developed by Roberto Benavent and Domingo Morales (2015) . Package: r-cran-msaedb Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-magic Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-msaedb_0.2.1-1.ca2004.1_all.deb Size: 229480 MD5sum: c45ea58ef10ad4980f8c877bfe5c80cc SHA1: 6962c5afc6085308d715d300f6aed6da05ab7ee0 SHA256: 6c06d0b82b1a3b8c9f2f01d2b31eba08027d1e8fe6a1f2308ac9068f4944900a SHA512: e0710d09261f227ca7386971b72bac9278a077da08ff1a7f11b905822b9b8bebc5993956637eae7030e2e43794c12d0fe739f74203885ba675751c03b0e5d589 Homepage: https://cran.r-project.org/package=msaeDB Description: CRAN Package 'msaeDB' (Difference Benchmarking for Multivariate Small Area Estimation) Implements Benchmarking Method for Multivariate Small Area Estimation under Fay Herriot Model. Multivariate Small Area Estimation (MSAE) is a development of Univariate Small Area Estimation that considering the correlation among response variables and borrowing the strength from related areas and auxiliary variables to increase the effectiveness of sample size, the multivariate model in this package is based on multivariate model 1 proposed by Roberto Benavent and Domingo Morales (2016) . Benchmarking in Small Area Estimation is a modification of Small Area Estimation model to guarantee that the aggregate weighted mean of the county predictors equals the corresponding weighted mean of survey estimates. Difference Benchmarking is the simplest benchmarking method but widely used by multiplying empirical best linear unbiased prediction (EBLUP) estimator by the common adjustment factors (J.N.K Rao and Isabel Molina, 2015). Package: r-cran-msaehb Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjags, r-cran-coda Filename: pool/dists/focal/main/r-cran-msaehb_0.1.0-1.ca2004.1_all.deb Size: 45580 MD5sum: 399dc6b5b4c6e1e4cf8c2ac9686503d5 SHA1: 989151ed759d7c6da445580697feb8f471205e2f SHA256: fc199a5703d058257f28c8dc9ed70120628077d57df31ae194fb9b4e89cae95b SHA512: f03a1858df52a68886f851a2fcb5d7da2649da25c6d3c43388905313fc4c7d33e3c39b402f93a2c90a36476f9e43e453e8df2bcfa96a9e4a8c92ad2193d038e2 Homepage: https://cran.r-project.org/package=msaeHB Description: CRAN Package 'msaeHB' (Multivariate Small Area Estimation using Hierarchical BayesianMethod) Implements area level of multivariate small area estimation using Hierarchical Bayesian method under Normal and T distribution. The 'rjags' package is employed to obtain parameter estimates. For the reference, see Rao and Molina (2015) . Package: r-cran-msaenet Architecture: all Version: 3.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1404 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-foreach, r-cran-glmnet, r-cran-mvtnorm, r-cran-ncvreg, r-cran-survival Suggests: r-cran-doparallel, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-msaenet_3.1.2-1.ca2004.1_all.deb Size: 773384 MD5sum: 5cb91080e980d38690cdd01237b8563e SHA1: c721d9c040b31a795e7237e111accc1ffce52f0b SHA256: 8243fe276e79bf3265a797e170d55f280e4e82ba167dbe7bbf37ca30b08eb4af SHA512: b33a6bdf983c3fe210262d41daf6d7002ad45d416e5c27d03e5c833d2bba9302fe340852553b1eb7b8e83e3e1236ef6d8641794799c555f62ed165a3db834834 Homepage: https://cran.r-project.org/package=msaenet Description: CRAN Package 'msaenet' (Multi-Step Adaptive Estimation Methods for Sparse Regressions) Multi-step adaptive elastic-net (MSAENet) algorithm for feature selection in high-dimensional regressions proposed in Xiao and Xu (2015) , with support for multi-step adaptive MCP-net (MSAMNet) and multi-step adaptive SCAD-net (MSASNet) methods. Package: r-cran-msaeob Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 272 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magic, r-cran-abind, r-cran-matrix, r-cran-mass Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-msaeob_0.1.0-1.ca2004.1_all.deb Size: 227364 MD5sum: d21a4e6e069168ecf0176348273570f9 SHA1: 79392a3c85ef068a539d0274eeaa561deb5e154e SHA256: 7f93ec31a8b5b1e042597af8a8a0ca02cd5fb4d33bfdfb7023593266ec36ed23 SHA512: 4c5d8f2bb67d1d2704b8c4f8c843f993ba0ad9e37f5342af69fdb3f9a89acd6bf2b9a596b59ac63d8f014c923009b0a097de96ecf82a930bca49491941c337bd Homepage: https://cran.r-project.org/package=msaeOB Description: CRAN Package 'msaeOB' (Optimum Benchmarking for Multivariate Small Area Estimation) Implements multivariate optimum benchmarking small area estimation. This package provides optimum benchmarking estimation for univariate and multivariate small area estimation and its MSE. In fact, MSE estimators for optimum benchmark are not readily available, so resampling method that called parametric bootstrap is applied. The optimum benchmark model and parametric bootstrap in this package are based on the model proposed in small area estimation. J.N.K Rao and Isabel Molina (2015, ISBN: 978-1-118-73578-7). Package: r-cran-msaerb Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 258 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magic, r-cran-abind, r-cran-matrix, r-cran-mass Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-msaerb_0.2.1-1.ca2004.1_all.deb Size: 210800 MD5sum: a519e80d1bdb45690f34701de9a40baa SHA1: dd631d258e4cefec086179f27c5892425971f707 SHA256: cebc593e3c213b2f2a0bab112f25ba5c7539ccf7924f30ef930f1b7afd0aa998 SHA512: 77dc667ff3b23ecdbb915764abd8580413975ad099978486375803ce9200f18322b5c2a01f6e9ba58bd25f5e7f0e7a0e79afa6add6524b8ba4c796ebf126360e Homepage: https://cran.r-project.org/package=msaeRB Description: CRAN Package 'msaeRB' (Ratio Benchmarking for Multivariate Small Area Estimation) Implements multivariate ratio benchmarking small area estimation. This package provides ratio benchmarking estimation for univariate and multivariate small area estimation and its MSE. In fact, MSE estimators for ratio benchmark are not readily available, so resampling method that called parametric bootstrap is applied. The ratio benchmark model and parametric bootstrap in this package are based on the model proposed in small area estimation. J.N.K Rao and Isabel Molina (2015, ISBN: 978-1-118-73578-7). 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In general, the functionality is applicable to derive the influence of a third variable (forcing experiment-support variable) on the relation between a dependent and an independent variable. 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Various patterns of microbial contamination are accounted for: homogeneous (Poisson), heterogeneous (Poisson-Gamma) or localized(Zero-inflated Poisson). Ida Jongenburger et al. (2010) "Impact of microbial distributions on food safety". Leroy Simon (1963) "Casualty Actuarial Society - The Negative Binomial and Poisson Distributions Compared". 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See the URL for the papers associated with this package, as for instance, Morales-Oñate and Morales-Oñate (2015) . 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Package: r-cran-mtk Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2589 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-xml, r-cran-sensitivity, r-cran-lhs, r-cran-rgl Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-mtk_1.0-1.ca2004.1_all.deb Size: 1419008 MD5sum: c7491553a6b6dc8e8818768fa544641e SHA1: f659dffb92573c5072149bce98d8950fd75cd8f1 SHA256: 69c132103fa14adc2875793aa18d62115dde286340fdfe94312a0d4386b67128 SHA512: 2ee3a148001c4bc30b2435159bc7ec256c55b27a06ca626e956017d3fba55395b67c06f8da9e3b991da79703abf999230d214bd61f18a86aedeb933f2c3bf0dc Homepage: https://cran.r-project.org/package=mtk Description: CRAN Package 'mtk' (Mexico ToolKit library (MTK)) MTK (Mexico ToolKit) is a generic platform for the sensitivity and uncertainty analysis of complex models. It provides functions and facilities for experimental design, model simulation, sensitivity and uncertainty analysis, methods integration and data reporting, etc. Package: r-cran-mtlgmm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-caret, r-cran-mclust Filename: pool/dists/focal/main/r-cran-mtlgmm_0.1.0-1.ca2004.1_all.deb Size: 109292 MD5sum: b78473b28c16e00704c72da75134a576 SHA1: ffcd59c7f11a32e36a09f274be76cf1eb5ced44d SHA256: 57d13f5f05d093b5dd6a30bac3c255f9b14727c615423824da92a58fe94afd83 SHA512: 356bf519bafa1e90103c7b17c26e2f474788cc12da96efd3328d2072eda5053ef73ee0c1ace8a2862e88b7918375eeede56dd2a726cf11ec88d6c346c6b20e98 Homepage: https://cran.r-project.org/package=mtlgmm Description: CRAN Package 'mtlgmm' (Unsupervised Multi-Task and Transfer Learning on GaussianMixture Models) Unsupervised learning has been widely used in many real-world applications. One of the simplest and most important unsupervised learning models is the Gaussian mixture model (GMM). In this work, we study the multi-task learning problem on GMMs, which aims to leverage potentially similar GMM parameter structures among tasks to obtain improved learning performance compared to single-task learning. We propose a multi-task GMM learning procedure based on the Expectation-Maximization (EM) algorithm that not only can effectively utilize unknown similarity between related tasks but is also robust against a fraction of outlier tasks from arbitrary sources. The proposed procedure is shown to achieve minimax optimal rate of convergence for both parameter estimation error and the excess mis-clustering error, in a wide range of regimes. Moreover, we generalize our approach to tackle the problem of transfer learning for GMMs, where similar theoretical results are derived. Finally, we demonstrate the effectiveness of our methods through simulations and a real data analysis. To the best of our knowledge, this is the first work studying multi-task and transfer learning on GMMs with theoretical guarantees. This package implements the algorithms proposed in Tian, Y., Weng, H., & Feng, Y. (2022) . Package: r-cran-mtps Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 389 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-glmnet, r-cran-rpart, r-cran-mass, r-cran-e1071, r-cran-class Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-mtps_1.0.2-1.ca2004.1_all.deb Size: 246300 MD5sum: 4d7d7e6a89c49692aa20acf7bac2feaf SHA1: 66a576b2467071fce63fbd2c7eb7b49bd935a046 SHA256: 2c4189d28f177e0f2001d819d58527c6420dcf4f6c5e0ba942f280201746278b SHA512: b454df0cfbf49a711fc30433f494a60b39ca029a40d2345552a158ad4637115969991aef7f488a0efe33617c647896a66a3e6b0f89b1dbcc44e87c551b2e4c23 Homepage: https://cran.r-project.org/package=MTPS Description: CRAN Package 'MTPS' (Multi-Task Prediction using Stacking Algorithms) Simultaneous multiple outcomes prediction based on revised stacking algorithms, which enables the integration of information from predictions of individual models. An implementation of methodologies proposed in our paper: Li Xing, Mary L Lesperance, Xuekui Zhang. (2019) Bioinformatics, "Simultaneous prediction of multiple outcomes using revised stacking algorithms" . 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(2024) . The TCC are defined using a rule based on the smallest worthwhile difference (SWD). Using the defined TCC, the NMA estimates (i.e., treatment effects and standard errors) are first transformed into treatment preferences, indicating either a treatment preference (e.g., treatment A > treatment B) or a tie (treatment A = treatment B). These treatment preferences are then synthesized using a probabilistic ranking model, which estimates the latent ability parameter of each treatment and produces the final treatment hierarchy. This parameter represents each treatments ability to outperform all the other competing treatments in the network. Here the terms ability to outperform indicates the propensity of each treatment to yield clinically important and beneficial effects when compared to all the other treatments in the network. Consequently, larger ability estimates indicate higher positions in the ranking list. 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Temporal patterns can be modeled using an ARIMA(p,d,q), optionally with seasonal components, a non-parametric cubic spline or generalized additive models with exogenous covariates. This algorithm is specially tailored for climate data with missing measurements from several monitors along a given region. 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This package allows users to search for globally threatened tree species within the andean montane forests, including cloud forests and seasonal (wet) forests above 1500 m a.s.l. 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This package offers functions and data structures designed to easily organize and visualize these data for applications in geology, paleolimnology, dendrochronology, and paleoclimate. See Dunnington and Spooner (2018) . 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Structure in Political Beliefs: A New Model for Stochastic Unfolding with Application to European Party Activists, and W.J.Post (1992). Nonparametric Unfolding Models: A Latent Structure Approach). The package implements MUDFOLD (Multiple UniDimensional unFOLDing), an iterative item selection algorithm that constructs unfolding scales from dichotomous preferential-choice data without explicitly assuming a parametric form of the item response functions. Scale diagnostics from Post(1992) and estimates for the person locations proposed by Johnson(2006) and Van Schuur(1984) are also available. This model can be seen as the unfolding variant of Mokken(1971) scaling method. 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The details of the method are available in Carter et al (2010) . Package: r-cran-muficokriging Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dicekriging Suggests: r-cran-rgenoud Filename: pool/dists/focal/main/r-cran-muficokriging_1.2-1.ca2004.1_all.deb Size: 116652 MD5sum: 5c8e79c343c8d07cf75c0a96a892ce7d SHA1: 07fad1456be6dd5bae569d8a52d25b775d6847f7 SHA256: 909de20317c185674c6010c358a17ed7d8441c11728ca8c1e2cf6ea3dcb1ffb9 SHA512: 59106597d2fbff50b92aac63d4fbcd5709709cd67f33296b06f4b061ffb86dc5520ba7acea4f8980b6ac58ed2df9521c4bcc1125eb156c293e2be0cf9b71bce1 Homepage: https://cran.r-project.org/package=MuFiCokriging Description: CRAN Package 'MuFiCokriging' (Multi-Fidelity Cokriging models) This package builds multi-fidelity cokriging models from responses with different levels of fidelity. Important functions : MuFicokm, predict.MuFicokm, summary.MuFicokm. 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See Li et al. (2024) for details. 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Credits to Mu Sigma for their continuous support throughout the development of the package. Package: r-cran-muir Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-diagrammer, r-cran-dplyr, r-cran-stringr Suggests: r-cran-htmlwidgets Filename: pool/dists/focal/main/r-cran-muir_0.1.0-1.ca2004.1_all.deb Size: 43776 MD5sum: e19da5a7538767a35f2230537e9161a4 SHA1: 508b8e2243981d054e7714930d9a6a6c7aa50840 SHA256: 0b390ee45d8b9c2dfdda8a1a57c49bf17bfcae8cff1e341e634a30465e53ef13 SHA512: d8ea24ece4c3dade434f7a577a9de5262fa275042eebd6a531db56b52b457d5b5683ec283caf6957bbb60833d153d57b0d8b145b416e96b51840e63f83edbe43 Homepage: https://cran.r-project.org/package=muir Description: CRAN Package 'muir' (Exploring Data with Tree Data Structures) A simple tool allowing users to easily and dynamically explore or document a data set using a tree structure. 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Muller plots are plots which combine information about succession of different OTUs (genotypes, phenotypes, species, ...) and information about dynamics of their abundances (populations or frequencies) over time. They are powerful and fascinating tools to visualize evolutionary dynamics. They may be employed also in study of diversity and its dynamics, i.e. how diversity emerges and how changes over time. They are called Muller plots in honor of Hermann Joseph Muller which used them to explain his idea of Muller's ratchet (Muller, 1932, American Naturalist). A big difference between Muller plots and normal box plots of abundances is that a Muller plot depicts not only the relative abundances but also succession of OTUs based on their genealogy/phylogeny/parental relation. In a Muller plot, horizontal axis is time/generations and vertical axis represents relative abundances of OTUs at the corresponding times/generations. Different OTUs are usually shown with polygons with different colors and each OTU originates somewhere in the middle of its parent area in order to illustrate their succession in evolutionary process. To generate a Muller plot one needs the genealogy/phylogeny/parental relation of OTUs and their abundances over time. MullerPlot package has the tools to generate Muller plots which clearly depict the origin of successors of OTUs. 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It consists of four sections. The first section uses a dynamic scheme to indicate which possible alternatives to follow depending on the fulfillment of the assumptions of the model. It also presents an analysis on the fulfillment of the assumptions of linearity, homoscedasticity, normality, and independence in the residuals of the model, as well as dynamic statistical graphs on the residuals of the model. The second section presents an analysis with a non-parametric approach of Kruskal Wallis. After Kruskal Wallis, a Post-Hoc analysis of multiple comparisons on the medians of the treatments is carried out. The third section presents a classical parametric ANOVA. Following classical ANOVA, a post-hoc analysis of multiple comparisons on the medians of the treatments, factor levels by Dunn's test, and statistical graphs for the treatments and factor levels are shown. Additionally, a post-hoc analysis of multiple comparisons on the means of the treatments is done. 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Package: r-cran-multicastr Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-multicastr_2.0.0-1.ca2004.1_all.deb Size: 40376 MD5sum: f13cc2301de708cf316b0f21dd2d2e43 SHA1: 36084314494da9224d442b90d628d9bcd684ba81 SHA256: 01a0e6a5ccfa89ff76449af2b25abdc5948d40a0cb950a4f8e17edc8ba9bb0df SHA512: a12fef35ad241f7caeb3d0b34ca15aa05559a0807e943af0b2dbc50332221ec537f12a4cd2ac41cd0e66345d642868cebe82b2d4caa85120e400f104082cb6b3 Homepage: https://cran.r-project.org/package=multicastR Description: CRAN Package 'multicastR' (A Companion to the Multi-CAST Collection) Provides a basic interface for accessing annotation data from the Multi-CAST collection, a database of spoken natural language texts edited by Geoffrey Haig and Stefan Schnell. The collection draws from a diverse set of languages and has been annotated across multiple levels. 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The relationships are represented as feature1 < feature2 (e.g. gene1 < gene2). We provide two options to go with. First is based on 'switchBox' package which uses Top-score pairs algorithm. Second is a novel implementation based on random forest algorithm. For simple problems we recommend to use one-vs-rest using TSP option due to its simplicity and for being easy to interpret. For complex problems RF performs better. Both lines filter the features first then combine the filtered features to make the list of all the possible rules (i.e. rule1: feature1 < feature2, rule2: feature1 < feature3, etc...). Then the list of rules will be filtered and the most important and informative rules will be kept. The informative rules will be assembled in an one-vs-rest model or in an RF model. We provide a detailed description with each function in this package to explain the filtration and training methodology in each line. Reference: Marzouka & Eriksson (2021) . 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The minimum number of data points required to fit a grey model is four observations. This package fits Grey model of First order and One Variable, i.e., GM (1,1) for multivariate time series data and returns the parameters of the model, model evaluation criteria and h-step ahead forecast values for each of the time series variables. For method details see, Akay, D. and Atak, M. (2007) , Hsu, L. and Wang, C. (2007).. 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The first technique called multigroup PCA (mgPCA) this multivariate exploration approach that has the idea of considering the structure of groups and / or different types of variables. On the other hand, the second multivariate technique called Multigroup Dimensionality Reduction (MDR) it is another multivariate exploration method that is based on projections. In addition, a method called Single Dimension Exploration (SDE) was incorporated for to analyze the exploration of the data. It could help us in a better way to observe the behavior of the multigroup data with certain variables of interest. 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The inflation of type-1 error rate comes from two sources (S1) repeated testing individual hypothesis and (S2) simultaneous testing multiple hypotheses. The 'MultiGroupSequential' package is intended to help researchers to tackle this challenge. The procedures provided include the sequential procedures described in Luo and Quan (2023) and the graphical procedure proposed by Maurer and Bretz (2013) . Luo and Quan (2013) describes three procedures, and the functions to implement these procedures are (1) seqgspgx() implements a sequential graphical procedure based on the group-sequential p-values; (2) seqgsphh() implements a sequential Hochberg/Hommel procedure based on the group-sequential p-values; and (3) seqqvalhh() implements a sequential Hochberg/Hommel procedure based on the q-values. In addition, seqmbgx() implements the sequential graphical procedure described in Maurer and Bretz (2013). 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A bootstrap restarting iterative segmented quantile algorithm is proposed to estimate the multiple kink quantile regression model conditional on a given number of change points. The number of kinks is also allowed to be unknown. In such case, the backward elimination algorithm and the bootstrap restarting iterative segmented quantile algorithm are combined to select the number of change points based on a quantile BIC. For longitudinal data, we also develop the GEE estimator to incorporate the within-subject correlations. A score-type based test statistic is also developed for testing the existence of kink effect. The package is based on the paper, ``Wei Zhong, Chuang Wan and Wenyang Zhang (2022). Estimation and inference for multikink quantile regression, JBES'' and ``Chuang Wan, Wei Zhong, Wenyang Zhang and Changliang Zou (2022). Multi-kink quantile regression for longitudinal data with application to progesterone data analysis, Biometrics". 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Package: r-cran-multilevelcoda Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8101 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-compositions, r-cran-brms, r-cran-bayestestr, r-cran-extraoperators, r-cran-ggplot2, r-cran-foreach, r-cran-future, r-cran-dofuture, r-cran-abind, r-cran-shiny, r-cran-shinystan, r-cran-loo, r-cran-bayesplot, r-cran-emmeans, r-cran-posterior, r-cran-plotly, r-cran-hrbrthemes, r-cran-htmltools, r-cran-bslib, r-cran-dt, r-cran-fs Suggests: r-cran-testthat, r-cran-covr, r-cran-withr, r-cran-knitr, r-cran-rmarkdown, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-multilevelcoda_1.3.2-1.ca2004.1_all.deb Size: 2764256 MD5sum: 59dbf08b1cb9837f6cb437a847633408 SHA1: 4f18a604a846fd97eff9d4c40582e545b0936cb8 SHA256: b033c88a0459f11f26c571216dbb6645f2a5245c56de7a3de4609a573cab1190 SHA512: 5d752a718901181cb6a325181110a0fc1dcd28a7384a655afbfe86b5160ba70d3fef01a19962c66833b7d97ea322ef7442f2f9dea07132ba72f381f045e6c808 Homepage: https://cran.r-project.org/package=multilevelcoda Description: CRAN Package 'multilevelcoda' (Estimate Bayesian Multilevel Models for Compositional Data) Implement Bayesian multilevel modelling for compositional data. Compute multilevel compositional data and perform log-ratio transforms at between and within-person levels, fit Bayesian multilevel models for compositional predictors and outcomes, and run post-hoc analyses such as isotemporal substitution models. References: Le, Stanford, Dumuid, and Wiley (2025) , Le, Dumuid, Stanford, and Wiley (2024) . Package: r-cran-multilevelmediation Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-furrr, r-cran-future, r-cran-matrixcalc, r-cran-mcmcpack, r-cran-nlme, r-cran-parallelly, r-cran-tidyr, r-cran-brms, r-cran-posterior, r-cran-glmmtmb Suggests: r-cran-testthat, r-cran-boot, r-cran-bh Filename: pool/dists/focal/main/r-cran-multilevelmediation_0.4.1-1.ca2004.1_all.deb Size: 157700 MD5sum: d60ba501e62b262b72123f0150624740 SHA1: bc50b14e4d68183bc4063ca480df07b4c339d616 SHA256: b50f19bf77f0a4811f40fb06cfe4eef333c3b3087688ae05b05b64fed227c57e SHA512: 75ba3254a706863d5aaec98b56a348022eec591b16bf4774231e718961975b2b594c5b1e1ea1224ec162b8e692f3312f2c2f1a9bdd6f20bf2d62fc496b9b85b9 Homepage: https://cran.r-project.org/package=multilevelmediation Description: CRAN Package 'multilevelmediation' (Utility Functions for Multilevel Mediation Analysis) The ultimate goal is to support 2-2-1, 2-1-1, and 1-1-1 models for multilevel mediation, the option of a moderating variable for either the a, b, or both paths, and covariates. Currently the 1-1-1 model is supported and several options of random effects; the initial code for bootstrapping was evaluated in simulations by Falk, Vogel, Hammami, and Miočević (2024) . Support for Bayesian estimation using 'brms' comprises ongoing work. Currently only continuous mediators and outcomes are supported. Factors for any predictors must be numerically represented. Package: r-cran-multilevelmod Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 285 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-parsnip, r-cran-dplyr, r-cran-lme4, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-withr Suggests: r-cran-covr, r-cran-gee, r-cran-ggplot2, r-cran-knitr, r-cran-nlme, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tidymodels Filename: pool/dists/focal/main/r-cran-multilevelmod_1.0.0-1.ca2004.1_all.deb Size: 198192 MD5sum: 26fc1f1eae802880855348facc4351de SHA1: b082995a7f115ccaec0c4ad8f3b1e8ddf69c14fb SHA256: 6ae59b453bda3adb1914cf22e2f56dee2bce20210b6749eef3c418fb410be05c SHA512: 45105998af1aeda54ad72e5d0643f2fec7ba6928f313379d94b53029fbe78f7f4c19040344212de33ed76c2d43e105cc9b6f9a748f46793b3d14031247e5a644 Homepage: https://cran.r-project.org/package=multilevelmod Description: CRAN Package 'multilevelmod' (Model Wrappers for Multi-Level Models) Bindings for hierarchical regression models for use with the 'parsnip' package. Models include longitudinal generalized linear models (Liang and Zeger, 1986) , and mixed-effect models (Pinheiro and Bates) . Package: r-cran-multileveloptimalbayes Architecture: all Version: 0.0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-pracma Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-multileveloptimalbayes_0.0.1.6-1.ca2004.1_all.deb Size: 83812 MD5sum: f76153e23e784806a5aa34a086940107 SHA1: 1f46dacc3194e7a94d52cbcd0d8b934d5576a01a SHA256: d696cc49e327739a5956310cdab2bedf858ca7911c129e680dc7e4411e4ed0bf SHA512: 29af57f3cb6899b34b9ba8694b831411b8883063e1d62a4e125b6ca5edc1101175bdcd83aad57e31a0edc25ac0fdbdfabddb3310bc12bae26bee73d594f451fe Homepage: https://cran.r-project.org/package=MultiLevelOptimalBayes Description: CRAN Package 'MultiLevelOptimalBayes' (Regularized Bayesian Estimator for Two-Level Latent VariableModels) Implements a regularized Bayesian estimator that optimizes the estimation of between-group coefficients for multilevel latent variable models by minimizing mean squared error (MSE) and balancing variance and bias. The package provides more reliable estimates in scenarios with limited data, offering a robust solution for accurate parameter estimation in two-level latent variable models. It is designed for researchers in psychology, education, and related fields who face challenges in estimating between-group effects under small sample sizes and low intraclass correlation coefficients. Dashuk et al. (2024) derived the optimal regularized Bayesian estimator; Dashuk et al. (2024) extended it to the multivariate case; and Luedtke et al. (2008) formalized the two-level latent variable framework. Package: r-cran-multilevelpsa Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3095 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-xtable, r-cran-mass, r-cran-party, r-cran-plyr, r-cran-psagraphics, r-cran-psych, r-cran-reshape Suggests: r-cran-knitr, r-cran-matchit, r-cran-mice, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-multilevelpsa_1.3.0-1.ca2004.1_all.deb Size: 2846036 MD5sum: 2cfbb5cb851bdca2dc265b9b743fd0ba SHA1: 0f422a88bbdbe1bbbee915411b897be7a2d53e32 SHA256: 45fe800281b7a28f4cc3f8f10f0bb6be0e3f5b2d8e725778d44f9edbf140086d SHA512: 4999f34018409ffee50542340cc7b5656c1a716d38ed7109bb94d8a830d1d9d65c63fbeb11d8d7d97249a80488b025e6d3ed43edcc532dbae0a95a77c71a180f Homepage: https://cran.r-project.org/package=multilevelPSA Description: CRAN Package 'multilevelPSA' (Multilevel Propensity Score Analysis) Conducts and visualizes propensity score analysis for multilevel, or clustered data. Bryer & Pruzek (2011) . 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Includes marginal and conditional 'R2' estimates for linear mixed effects models based on Johnson (2014) . Package: r-cran-multilinguer Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 674 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-sys, r-cran-rappdirs, r-cran-usethis, r-cran-askpass Filename: pool/dists/focal/main/r-cran-multilinguer_0.2.4-1.ca2004.1_all.deb Size: 616992 MD5sum: 55b7836b966c8b5d0ddb2a33fbcf64bc SHA1: 57e9c1a886537d6fe999c65c6857ee408e13cc92 SHA256: a17ee9e2bafc75b31c2442de190ffa5882fa2320b9487bc234f929621d1db4b3 SHA512: 90da049a963953f2f8d9b0c4753157186f21dc782fafaa733754a54eb1c7b55ce7f3c9bba2146b440cad1b896dc9625cd732ae3284d1c7b54ec227f9c00a97b4 Homepage: https://cran.r-project.org/package=multilinguer Description: CRAN Package 'multilinguer' (Gentle Language Installer for R User) Provides install functions of other languages such as 'java', 'python'. Package: r-cran-multimarker Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-truncnorm, r-cran-ordinalnet Filename: pool/dists/focal/main/r-cran-multimarker_1.0.1-1.ca2004.1_all.deb Size: 73332 MD5sum: c9947c6e956f61382812bb4b866df771 SHA1: 0f036059d1c855132863c05c9f2a474673929236 SHA256: a6b53d110b022e24c79851a647fbb1e5895c6f5a4c42831aecc3c52b9f6d56f6 SHA512: 9e175f44b5106e85a934f7eb965c50897816d519e9b096ebb08c4a0025bb9007718b11f2572ef328b70c89f4d11d7bd33f75c39a0b3fd607e463690bf6084b4e Homepage: https://cran.r-project.org/package=multiMarker Description: CRAN Package 'multiMarker' (Latent Variable Model to Infer Food Intake from MultipleBiomarkers) A latent variable model based on factor analytic and mixture of experts models, designed to infer food intake from multiple biomarkers data. The model is framed within a Bayesian hierarchical framework, which provides flexibility to adapt to different biomarker distributions and facilitates inference on food intake from biomarker data alone, along with the associated uncertainty. Details are in D'Angelo, et al. (2020) . Package: r-cran-multimedia Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1643 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-brms, r-cran-glmnetutils, r-cran-ranger, r-cran-tidyselect, r-cran-mass, r-bioc-s4vectors, r-bioc-summarizedexperiment, r-cran-cli, r-cran-dplyr, r-cran-fansi, r-cran-formula.tools, r-cran-ggplot2, r-cran-glue, r-cran-minilnm, r-cran-patchwork, r-bioc-phyloseq, r-cran-progress, r-cran-purrr, r-cran-rlang, r-cran-tidygraph, r-cran-tidyr Suggests: r-cran-compositions, r-cran-ggdist, r-cran-ggraph, r-cran-ggrepel, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyverse, r-cran-vroom Filename: pool/dists/focal/main/r-cran-multimedia_0.2.0-1.ca2004.1_all.deb Size: 1204912 MD5sum: 780bb66df03a9081b5fbc50c9d2eee97 SHA1: a74bd3a80153a6ca4fbeb1443d2adedbfb091782 SHA256: 815066a73621b4f0e8e85b8623afd5ac7d2bd6773a8bdf433c06602a6be57e96 SHA512: d27c99c29e7a111d756d2b8b79b7fb97848aab6e690e37aa41fc024e72ba32af8dd5d745b94438d65e4a9a4d12a384deacdad343b21e00edd053b07d840dfb4a Homepage: https://cran.r-project.org/package=multimedia Description: CRAN Package 'multimedia' (Multimodal Mediation Analysis) Multimodal mediation analysis is an emerging problem in microbiome data analysis. Multimedia make advanced mediation analysis techniques easy to use, ensuring that all statistical components are transparent and adaptable to specific problem contexts. The package provides a uniform interface to direct and indirect effect estimation, synthetic null hypothesis testing, bootstrap confidence interval construction, and sensitivity analysis. More details are available in Jiang et al. (2024) "multimedia: Multimodal Mediation Analysis of Microbiome Data" . Package: r-cran-multimix Architecture: all Version: 1.0-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 258 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-multimix_1.0-10-1.ca2004.1_all.deb Size: 134920 MD5sum: b2b08c98be833a720a77a9bf1bff68c5 SHA1: 99a2171ca4e2240aaf69a35a53b6a13d93d7bbc4 SHA256: 0695d0a0274f1c74343c0f60bc10c05d5febaf2bc782b839198c21e9770e3fc8 SHA512: 0f70ef08b750c86097221fe3226365498d16dfc4c405e24ed98b3bf96201a2f5503e6c34abd52d03d7203f4c2a4280cf74afe26d3e3a346d28510111f479b54c Homepage: https://cran.r-project.org/package=multimix Description: CRAN Package 'multimix' (Fit Mixture Models Using the Expectation Maximisation (EM)Algorithm) A set of functions which use the Expectation Maximisation (EM) algorithm (Dempster, A. P., Laird, N. M., and Rubin, D. B. (1977) Maximum likelihood from incomplete data via the EM algorithm, Journal of the Royal Statistical Society, 39(1), 1--22) to take a finite mixture model approach to clustering. The package is designed to cluster multivariate data that have categorical and continuous variables and that possibly contain missing values. The method is described in Hunt, L. and Jorgensen, M. (1999) Australian & New Zealand Journal of Statistics 41(2), 153--171 and Hunt, L. and Jorgensen, M. (2003) Mixture model clustering for mixed data with missing information, Computational Statistics & Data Analysis, 41(3-4), 429--440. Package: r-cran-multimolang Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 639 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arrow Suggests: r-cran-roxygen2, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-multimolang_0.1.1-1.ca2004.1_all.deb Size: 194020 MD5sum: bb869fe5ca8773e736e9bf36cbfea0a0 SHA1: d93abddcc9f3b73c7d3977ce42b9cdbef6f5e579 SHA256: b34cfd4c4d487ab3671351bf73d450b6485a13f452f41f511813b604e796d37c SHA512: 9b2cb3d2268ee56a0694f8c154383210a542702d7f7b054619a590a06d166e7bd75fe210f3e1b2c39a0edf304e16ab8599ff1343f05ead836ae99c0ec5cf540d Homepage: https://cran.r-project.org/package=multimolang Description: CRAN Package 'multimolang' ('multimolang': Multimodal Language Analysis) Process 'OpenPose' human body keypoints for computer vision, including data structuring and user-defined linear transformations for standardization. It optionally, includes metadata extraction from filenames in the UCLA 'NewsScape' archive. Package: r-cran-multimorbidity Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 410 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-lubridate, r-cran-magrittr, r-cran-stringr, r-cran-rlang, r-cran-tidyselect, r-cran-tidyr, r-cran-sqldf Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-multimorbidity_0.5.1-1.ca2004.1_all.deb Size: 309624 MD5sum: 62f9e85432b6b24381be4183768d3595 SHA1: 36c6fe0af45854efbd3d2f66f74c89ad1b105dcf SHA256: f6494c3ed56a86b9c2a213cfe69c799e02662c0fdcc868bd9332a09a5542dd63 SHA512: ff14997478ec064d9b8795fc1ddd03ea03906a204956c1fe03dc0fbd66e5b03fca6babe08271a1873d83fef1e48f28a06355e4d2025e975db46695cd364ab40b Homepage: https://cran.r-project.org/package=multimorbidity Description: CRAN Package 'multimorbidity' (Harmonizing Various Comorbidity, Multimorbidity, and FrailtyMeasures) Identifying comorbidities, frailty, and multimorbidity in claims and administrative data is often a duplicative process. The functions contained in this package are meant to first prepare the data to a format acceptable by all other packages, then provide a uniform and simple approach to generate comorbidity and multimorbidity metrics based on these claims data. The package is ever evolving to include new metrics, and is always looking for new measures to include. The citations used in this package include the following publications: Anne Elixhauser, Claudia Steiner, D. Robert Harris, Rosanna M. Coffey (1998) , Brian J Moore, Susan White, Raynard Washington, et al. (2017) , Mary E. Charlson, Peter Pompei, Kathy L. Ales, C. Ronald MacKenzie (1987) , Richard A. Deyo, Daniel C. Cherkin, Marcia A. Ciol (1992) , Hude Quan, Vijaya Sundararajan, Patricia Halfon, et al. (2005) , Dae Hyun Kim, Sebastian Schneeweiss, Robert J Glynn, et al. (2018) , Melissa Y Wei, David Ratz, Kenneth J Mukamal (2020) , Kathryn Nicholson, Amanda L. Terry, Martin Fortin, et al. (2015) , Martin Fortin, José Almirall, and Kathryn Nicholson (2017). Package: r-cran-multiness Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 410 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-glmnet, r-cran-matrix, r-cran-rspectra Filename: pool/dists/focal/main/r-cran-multiness_1.0.2-1.ca2004.1_all.deb Size: 374084 MD5sum: 633e6116cd2763cf7130b1db09804cc4 SHA1: dca77077003cc1bc6439df7e55168478cbb41141 SHA256: 1611c39363ffd2c9974464e1bc25b4cae35363dc5eece292c6f92e5c5f0002c6 SHA512: 9930695cf014116abbf4e9993340853f0848085f37934a5c9c71fb1c1b436edee876c0585b19a6abf16208d9a58e7fe12af4459f0d8c967989a1d5a46882d6be Homepage: https://cran.r-project.org/package=multiness Description: CRAN Package 'multiness' (MULTIplex NEtworks with Shared Structure) Model fitting and simulation for Gaussian and logistic inner product MultiNeSS models for multiplex networks. The package implements a convex fitting algorithm with fully adaptive parameter tuning, including options for edge cross-validation. For more details see MacDonald et al. (2020). Package: r-cran-multinmix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nimble, r-cran-clustergeneration, r-cran-mvtnorm, r-cran-extradistr, r-cran-rstan, r-cran-abind, r-cran-coda Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-multinmix_0.1.0-1.ca2004.1_all.deb Size: 175960 MD5sum: 4d39c7224e2df027a6b2a00793885712 SHA1: 6c77423dff9118aca043aed1969ab3ab01216bdb SHA256: a7ca72e1add71c7875596180407cd16068786433535172bb988369c7190366a0 SHA512: f3a093f82729cad5325680d6cbb80808d485cac8ff9e3fe84b4ded629e49649a58e4214ab26a0037c8d29319528b7b0f142a434ffe16c9d6f155d59c7e024360 Homepage: https://cran.r-project.org/package=MultiNMix Description: CRAN Package 'MultiNMix' (Multi-Species N-Mixture (MNM) Models with 'nimble') Simulating data and fitting multi-species N-mixture models using 'nimble'. Includes features for handling zero-inflation and temporal correlation, Bayesian inference, model diagnostics, parameter estimation, and predictive checks. Designed for ecological studies with zero-altered or time-series data. Mimnagh, N., Parnell, A., Prado, E., & Moral, R. A. (2022) . Royle, J. A. (2004) . Package: r-cran-multinomialci Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-multinomialci_1.2-1.ca2004.1_all.deb Size: 20040 MD5sum: 0b45d64407abcb8e0d795e2e2cfd3226 SHA1: 72e92986f93bc2e9a407970f942c235151c17f61 SHA256: b2581719a459c400daab63ffa7a7e3ba24ac0756c622da37f89848fd754f110c SHA512: 6ce9a7e3aacdffd5f7d0107d2eb9b6eecf04f700a83b36dca3c817bbaa99f5b679dbc02d7021d4cac1a32f7ae0a1ace300fa3804c9bb17e72903470039a7835f Homepage: https://cran.r-project.org/package=MultinomialCI Description: CRAN Package 'MultinomialCI' (Simultaneous Confidence Intervals for Multinomial ProportionsAccording to the Method by Sison and Glaz) An implementation of a method for building simultaneous confidence intervals for the probabilities of a multinomial distribution given a set of observations, proposed by Sison and Glaz in their paper: Sison, C.P and J. Glaz. Simultaneous confidence intervals and sample size determination for multinomial proportions. Journal of the American Statistical Association, 90:366-369 (1995). The method is an R translation of the SAS code implemented by May and Johnson in their paper: May, W.L. and W.D. Johnson. Constructing two-sided simultaneous confidence intervals for multinomial proportions for small counts in a large number of cells. Journal of Statistical Software 5(6) (2000). Paper and code available at . 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This simple R package estimates the accuracy of a multisite machine-learning model unbiasedly, as described in (Solanes et al., Psychiatry Research: Neuroimaging 2021, 314:111313). It currently supports the estimation of sensitivity, specificity, balanced accuracy (for binary or multinomial variables), the area under the curve, correlation, mean squarer error, and hazard ratio for binomial, multinomial, gaussian, and survival (time-to-event) outcomes. Package: r-cran-multisitemediation Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 285 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4, r-cran-statmod, r-cran-psych, r-cran-mass, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-multisitemediation_0.0.4-1.ca2004.1_all.deb Size: 257480 MD5sum: 9cd9a6356863db3415dc569e62c0471b SHA1: f63e1bb839a35a5621ff5d7ab5eeb09890837804 SHA256: d2175085a24015ae9b1637a56b8924d06c8daa8932b2962a453e4b25a06a03e1 SHA512: 90760f24b465ea2d6067e762268587dd524e8abee73b377fb18d26a17d28432458e1e8ed21399b48f982a292b26f0cccb49c0394f7852acc32a02c08687e0fc8 Homepage: https://cran.r-project.org/package=MultisiteMediation Description: CRAN Package 'MultisiteMediation' (Causal Mediation Analysis in Multisite Trials) Multisite causal mediation analysis using the methods proposed by Qin and Hong (2017) , Qin, Hong, Deutsch, and Bein (2019) , and Qin, Deutsch, and Hong (2021) . It enables causal mediation analysis in multisite trials, in which individuals are assigned to a treatment or a control group at each site. It allows for estimation and hypothesis testing for not only the population average but also the between-site variance of direct and indirect effects transmitted through one single mediator or two concurrent (conditionally independent) mediators. This strategy conveniently relaxes the assumption of no treatment-by-mediator interaction while greatly simplifying the outcome model specification without invoking strong distributional assumptions. This package also provides a function that can further incorporate a sample weight and a nonresponse weight for multisite causal mediation analysis in the presence of complex sample and survey designs and non-random nonresponse, to enhance both the internal validity and external validity. The package also provides a weighting-based balance checking function for assessing the remaining overt bias. 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Applications to estimation and derivation of multivariate measures of skewness and kurtosis; estimation and derivation of asymptotic covariances for d-variate Hermite polynomials, multivariate moments and cumulants and measures of skewness and kurtosis. The formulae implemented are discussed in Terdik (2021, ISBN:9783030813925), "Multivariate Statistical Methods". 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Provides functions for data analysis, visualization, and network metrics calculation. Methods are based on Grime (1974) , Pierce et al. (2017) , Westoby (1998) , Yang et al. (2022) , Winemiller et al. (2015) , He et al. (2020) . Package: r-cran-multius Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gplots, r-cran-mass Suggests: r-cran-cca, r-cran-psych Filename: pool/dists/focal/main/r-cran-multius_1.2.3-1.ca2004.1_all.deb Size: 138600 MD5sum: 6210671add4dcc0e38787cc199fc6409 SHA1: 2e355a64ec00e5e25760618ab67914990aa6999d SHA256: cb79bcfc4a7f3c0e0692a8d006d1308ea496f4f32e30458b146a3d568e63f6b1 SHA512: 04c0f23affa7d627a9b1c9ab3daddbecdfea36bf10ca9f35f73570adc84abd92782ffa4c94dfb1e4a49bf3f8ab9aeaeea615d4e2ea21f6b90dbbb3fd5cf136f5 Homepage: https://cran.r-project.org/package=multiUS Description: CRAN Package 'multiUS' (Functions for the Courses Multivariate Analysis and ComputerIntensive Methods) Provides utility functions for multivariate analysis (factor analysis, discriminant analysis, and others). 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Package: r-cran-multivarmi Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-binordnonnor, r-cran-corrtoolbox, r-cran-corpcor, r-cran-matrix, r-cran-moments, r-cran-norm, r-cran-poisnonnor Suggests: r-cran-poisbinordnonnor Filename: pool/dists/focal/main/r-cran-multivarmi_1.0-1.ca2004.1_all.deb Size: 59672 MD5sum: 37137275dfb87d0e738924d08e6d7de7 SHA1: 98c8eb0102f087bf4b9c395e1f28b2a1b829025c SHA256: f016a1e86665133b40aa2071144bc3c5c25d6e247d7dd7825ad9b38778be5c37 SHA512: 61f068162cd810d8da55b8b2d0ba31317c2bf4420cc93938ba1b99c1371807ef14d7e9ccb7a897c5048eb4a8eaf05bd2c8acad05bd7fe122451306fd09b3fac2 Homepage: https://cran.r-project.org/package=MultiVarMI Description: CRAN Package 'MultiVarMI' (Multiple Imputation for Multivariate Data) Fully parametric Bayesian multiple imputation framework for massive multivariate data of different variable types as seen in Demirtas, H. (2017) . 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The method is described in the paper Perrot-Dockès et al. (2017) . Package: r-cran-multivator Architecture: all Version: 1.1-11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3661 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-emulator, r-cran-mvtnorm, r-cran-mathjaxr Suggests: r-cran-abind Filename: pool/dists/focal/main/r-cran-multivator_1.1-11-1.ca2004.1_all.deb Size: 3523996 MD5sum: 6bf4708dc9fb6372bee896400de5c8fb SHA1: d64fa1d82adaa3bd3f6ba7896ab0e69651d665de SHA256: a30a4e6ab1602ffdfd583ed0189d086c910edc8ba8f9262f3ccc897d3e8e05aa SHA512: f1d0da5b62fe5583b093574da44647255996ee5f34e12b9322a774b641f0e4610597b01020ecd3cd9c3ace02c31885729e89f5225403e21605c68236fa79433d Homepage: https://cran.r-project.org/package=multivator Description: CRAN Package 'multivator' (A Multivariate Emulator) A multivariate generalization of the emulator package. Package: r-cran-multiverse Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4343 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-r6, r-cran-tidyr, r-cran-tibble, r-cran-magrittr, r-cran-tidyselect, r-cran-formatr, r-cran-collections, r-cran-evaluate, r-cran-rstudioapi, r-cran-berryfunctions, r-cran-furrr, r-cran-styler, r-cran-distributional, r-cran-jsonlite, r-cran-readr Suggests: r-cran-ggplot2, r-cran-testthat, r-cran-highr, r-cran-rmarkdown, r-cran-covr, r-cran-broom, r-cran-boot, r-cran-gganimate, r-cran-gifski, r-cran-forcats, r-cran-stringr, r-cran-cowplot, r-cran-tidybayes, r-cran-png, r-cran-stringi, r-cran-modelr, r-cran-future Filename: pool/dists/focal/main/r-cran-multiverse_0.6.2-1.ca2004.1_all.deb Size: 2605880 MD5sum: 970097d475ec4f601168e4b3ffd37ba1 SHA1: a9531411e2a4187ed4c417437d19b7e3a0a165c5 SHA256: ac66e1790472de759208803b5f62dbcaefdae8505be5677860302ef88c6eea3f SHA512: 9abdfece78edaa7799475cbb0aaee370e17c88ac616fa681b04ad548229848b0d277300e079c617aff86292946da867267c12a74e7d40edb23b13c8f6f9a1e8d Homepage: https://cran.r-project.org/package=multiverse Description: CRAN Package 'multiverse' (Create 'multiverse analysis' in R) Implement 'multiverse' style analyses (Steegen S., Tuerlinckx F, Gelman A., Vanpaemal, W., 2016) to show the robustness of statistical inference. 'Multiverse analysis' is a philosophy of statistical reporting where paper authors report the outcomes of many different statistical analyses in order to show how fragile or robust their findings are. The 'multiverse' package (Sarma A., Kale A., Moon M., Taback N., Chevalier F., Hullman J., Kay M., 2021) allows users to concisely and flexibly implement 'multiverse-style' analysis, which involve declaring alternate ways of performing an analysis step, in R and R Notebooks. 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Also includes functions to sample from the Bayesian posterior of a tensor-on-tensor model. 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Package: r-cran-music Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-audio, r-cran-crayon Filename: pool/dists/focal/main/r-cran-music_0.1.2-1.ca2004.1_all.deb Size: 67300 MD5sum: d9c8a236c0fdf212b0072d676902e618 SHA1: 2a9cd468bee2c260f01889931a516dfd1344cd5a SHA256: 79929af103d9c372bc6b52f9fd3d565cbac85a4d21ac589e08ce80ac17aca5f5 SHA512: 8798fcf487e92baada65c86e38378faae1662523f2f08d10da67ba9017446364a9d5579f30b2726879e7b76b7b5e94426c85023e368004be288cbb7734eb61f9 Homepage: https://cran.r-project.org/package=music Description: CRAN Package 'music' (Learn and Experiment with Music Theory) An aid for learning and using music theory. You can build chords, scales, and chord progressions using 12-note equal temperament tuning (12-ET) or user-defined tuning. 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Package: r-cran-musicmct Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1975 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-withr Filename: pool/dists/focal/main/r-cran-musicmct_0.1.2-1.ca2004.1_all.deb Size: 1196700 MD5sum: 1951018648653ab14f1ec1450f8c7cae SHA1: e534da3fb7943d3eb9f1c14d2c37a57059d2d754 SHA256: f290bdcbda03a1305503029e09dfa7a0429e312c204e3aba28078ca5f675fdad SHA512: df2d4708e2471edb01feb1529cc77333e34abded6dd351761f40f0bd35bc053c445937945ae93b51348fd3ddcc4519a8d0331e35eeeeee48c8edece6785376b3 Homepage: https://cran.r-project.org/package=musicMCT Description: CRAN Package 'musicMCT' (Analyze the Structure of Musical Scales) Analysis of musical scales (& modes, grooves, etc.) in the vein of Sherrill 2025 . The initials MCT in the package title refer to the article's title: "Modal Color Theory." Offers support for conventional musical pitch class set theory as developed by Forte (1973, ISBN: 9780300016109) and David Lewin (1987, ISBN: 9780300034936), as well as for the continuous geometries of Callender, Quinn, & Tymoczko (2008) . Identifies structural properties of scales and calculates derived values (sign vector, color number, brightness ratio, etc.). Creates plots such as "brightness graphs" which visualize these properties. Package: r-cran-musicnmr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2518 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-seewave Filename: pool/dists/focal/main/r-cran-musicnmr_1.0-1.ca2004.1_all.deb Size: 2537416 MD5sum: 34002a59ca383f6a576b2dafdb04179e SHA1: 191e0f7b873d8456216122d4fbde04d069420982 SHA256: 1fc8c5869d5acecafba493ae83252a7e15de9030ddfdabdc9da79693b900b3ed SHA512: 0c6df086de5ca6c0ce89e87510507a494488d5097a672b978c021900b2e805aee162659621cbeba205ec09b85736219440b7c1a99060dfa9f0e9ee8e2c0f6700 Homepage: https://cran.r-project.org/package=musicNMR Description: CRAN Package 'musicNMR' (Conversion of Nuclear Magnetic Resonance Spectra in Audio Files) A collection of functions for converting and visualization the free induction decay of mono dimensional nuclear magnetic resonance (NMR) spectra into an audio file. It facilitates the conversion of Bruker datasets in files WAV. The sound of NMR signals could provide an alternative to the current representation of the individual metabolic fingerprint and supply equally significant information. The package includes also NMR spectra of the urine samples provided by four healthy donors. Based on Cacciatore S, Saccenti E, Piccioli M. Hypothesis: the sound of the individual metabolic phenotype? Acoustic detection of NMR experiments. OMICS. 2015;19(3):147-56. . Package: r-cran-musicxml Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 949 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr, r-cran-gganimate, r-cran-av Filename: pool/dists/focal/main/r-cran-musicxml_1.0.1-1.ca2004.1_all.deb Size: 416216 MD5sum: 66e9563355290bc36901d1b2ea0ff271 SHA1: a8f50986f519abacf9ad9e9fb991c27ba7d00f11 SHA256: d5f8d50f7908df8275888e13ad50c478741029a73eb04e9a44cbaa2f1900fa1f SHA512: 4e93f4eea764fbb665e186258ca2ec7d97b243e9472e87b4e76c2b17dc37b862d9ef3c788aafee453300164cb8d9df996ff4491878d7cee4a7cc5e7c57298ef5 Homepage: https://cran.r-project.org/package=musicXML Description: CRAN Package 'musicXML' (Data Sonification using 'musicXML') A set of tools to facilitate data sonification and handle the 'musicXML' format . Several classes are defined for basic musical objects such as note pitch, note duration, note, measure and score. Moreover, sonification utilities functions are provided, e.g. to map data into musical attributes such as pitch, loudness or duration. A typical sonification workflow hence looks like: get data; map them to musical attributes; create and write the 'musicXML' score, which can then be further processed using specialized music software (e.g. 'MuseScore', 'GuitarPro', etc.). Examples can be found in the blog , the presentation by Renard and Le Bescond (2022, ) or the poster by Renard et al. (2023, ). 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Package: r-cran-mutsignatures Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2371 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach, r-cran-cluster, r-cran-doparallel, r-cran-ggplot2, r-cran-pracma, r-cran-proxy Suggests: r-cran-dplyr, r-cran-reshape2, r-cran-kableextra, r-cran-gridextra, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-mutsignatures_2.1.1-1.ca2004.1_all.deb Size: 1683808 MD5sum: 249c88ab9d2b4152e3c259029e6c7e38 SHA1: c535000ae7051f99ca7ee2f913d75ff5a745ed80 SHA256: e7b52dc01177c17a25bed24eb9b4a6e43d221071af6160b3eca1b8531a26ae13 SHA512: 4724af7b1ccb15a0091caa5b034c8b47170cc301ef1270a7bd53e736a9366b58d843dec6a6035397d6d92ea2e53197b15fa114ec3d6fa79aeb51eb69dcabe7fe Homepage: https://cran.r-project.org/package=mutSignatures Description: CRAN Package 'mutSignatures' (Decipher Mutational Signatures from Somatic Mutational Catalogs) Cancer cells accumulate DNA mutations as result of DNA damage and DNA repair processes. This computational framework is aimed at deciphering DNA mutational signatures operating in cancer. The framework includes modules that support raw data import and processing, mutational signature extraction, and results interpretation and visualization. The framework accepts widely used file formats storing information about DNA variants, such as Variant Call Format files. The framework performs Non-Negative Matrix Factorization to extract mutational signatures explaining the observed set of DNA mutations. Bootstrapping is performed as part of the analysis. The framework supports parallelization and is optimized for use on multi-core systems. The software was described by Fantini D et al (2020) and is based on a custom R-based implementation of the original MATLAB WTSI framework by Alexandrov LB et al (2013) . 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References include Mardia K.V., Kent J.T. and Bibby J.M. (1979). "Multivariate Analysis". ISBN: 978-0124712522. London: Academic Press. 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The missingness of outcome values may depend on the values themselves (missing not at random and non-ignorable), or may depend on only the covariates (missing at random and ignorable), or both. This package provides functions for two models: 1) mvMISE_b() allows correlated outcome-specific random intercepts with a factor-analytic structure, and 2) mvMISE_e() allows the correlated outcome-specific error terms with a graphical lasso penalty on the error precision matrix. Both functions are motivated by the multivariate data analysis on data with clustered structures from labelling-based quantitative proteomic studies. These models and functions can also be applied to univariate and multivariate analyses of clustered data with balanced or unbalanced design and no missingness. 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Package: r-cran-mvnggrad Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 528 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mvnggrad_0.1.6-1.ca2004.1_all.deb Size: 411768 MD5sum: 6129cf1a5419e8eaab990010f3df5ad7 SHA1: 609d87a7d037e2d0d79b38eb88037fa0385e742c SHA256: 01a4a43613a32e955d1146650775742ac94bda759a6f93da24b7756278f3d758 SHA512: 62edb5cd92312b7126c51e1bdba0c2a6da4e16d2cbda4d3bf0d16e415ffa553d5f02fb71bd18cd5cba89a808fa25856418ece7e9e24ec298ed3bc9716fe6493c Homepage: https://cran.r-project.org/package=mvngGrAd Description: CRAN Package 'mvngGrAd' (Moving Grid Adjustment in Plant Breeding Field Trials) Package for moving grid adjustment in plant breeding field trials. Package: r-cran-mvnormaltest Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-nortest, r-cran-moments, r-cran-copula Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-mvnormaltest_1.0.1-1.ca2004.1_all.deb Size: 123108 MD5sum: b1c06d34a5c24e2d6942a632b29d33c5 SHA1: 6b0f6b263acc9190d6414880bd78f98168774379 SHA256: 85a4ecd0fe14799c2bebef1235e896305dee7fe423ee07bd1c4ff23fbf6ae67f SHA512: cea26fc48f72e8cd142c6dc62c6a4272ca3977827a717d7ca3250d9f0f66673727212d8676f979ddce56dcfd02d0affde841eb92505bd909b13f88e5e8c7be4b Homepage: https://cran.r-project.org/package=mvnormalTest Description: CRAN Package 'mvnormalTest' (Powerful Tests for Multivariate Normality) A simple informative powerful test (mvnTest()) for multivariate normality proposed by Zhou and Shao (2014) , which combines kurtosis with Shapiro-Wilk test that is easy for biomedical researchers to understand and easy to implement in all dimensions. This package also contains some other multivariate normality tests including Fattorini's FA test (faTest()), Mardia's skewness and kurtosis test (mardia()), Henze-Zirkler's test (mhz()), Bowman and Shenton's test (msk()), Royston’s H test (msw()), and Villasenor-Alva and Gonzalez-Estrada's test (msw()). Empirical power calculation functions for these tests are also provided. In addition, this package includes some functions to generate several types of multivariate distributions mentioned in Zhou and Shao (2014). 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Package: r-cran-mvntestchar Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 610 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc, r-cran-knitr, r-cran-ggplot2 Suggests: r-cran-markdown Filename: pool/dists/focal/main/r-cran-mvntestchar_1.1.3-1.ca2004.1_all.deb Size: 534984 MD5sum: 6133f5f8e179601ce5b474694ade5ecc SHA1: 781470bea7a49ed17562d3151bf5e8638789bacc SHA256: 570f2e4d4921187b432c0d2980ea44f0bef470d2a0a1ff38d7e17d8425690ab3 SHA512: 48d1ccf5d8dc760f42ef39eee43b154c74807c8b3d072c9782685f5ebc53c6d5fa838452c0f2717dd8e44c621fef13347dc58cf1f840bf446f59f23eceeddf3e Homepage: https://cran.r-project.org/package=MVNtestchar Description: CRAN Package 'MVNtestchar' (Test for Multivariate Normal Distribution Based on aCharacterization) Provides a test of multivariate normality of an unknown sample that does not require estimation of the nuisance parameters, the mean and covariance matrix. Rather, a sequence of transformations removes these nuisance parameters and results in a set of sample matrices that are positive definite. These matrices are uniformly distributed on the space of positive definite matrices in the unit hyper-rectangle if and only if the original data is multivariate normal (Fairweather, 1973, Doctoral dissertation, University of Washington). The package performs a goodness of fit test of this hypothesis. In addition to the test, functions in the package give visualizations of the support region of positive definite matrices for bivariate samples. 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The M-Wright distributions naturally generalize the widely used one-sided (Airy and half-normal or half-Gaussian) and symmetric (Airy and Gaussian or normal) models. These are widely studied in time-fractional differential equations. References: Cahoy and Minkabo (2017) ; Cahoy (2012) ; Cahoy (2012) ; Cahoy (2011); Mainardi, Mura, and Pagnini (2010) . 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Package: r-cran-mxkssd Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-mxkssd_1.2-1.ca2004.1_all.deb Size: 23820 MD5sum: 8cc135468e30b5b78686faecb541e2db SHA1: 49e14c84a687102f0ddc7a93ed22fdd4b9bfc907 SHA256: 85c70fc31d8e3405e37233aeae8f49027690ff02c0793015d55d6baff0fbda9c SHA512: 32735d933b0d884263bea9df2c376989e30287229aec62a105e50178f40208f8033b0338c33db43c2a4d2fbb9c4e835d076601f6ac8520425149015f64493721 Homepage: https://cran.r-project.org/package=mxkssd Description: CRAN Package 'mxkssd' (Efficient Mixed-Level k-Circulant Supersaturated Designs) Generates efficient balanced mixed-level k-circulant supersaturated designs by interchanging the elements of the generator vector. Attempts to generate a supersaturated design that has EfNOD efficiency more than user specified efficiency level (mef). Displays the progress of generation of an efficient mixed-level k-circulant design through a progress bar. The progress of 100 per cent means that one full round of interchange is completed. More than one full round (typically 4-5 rounds) of interchange may be required for larger designs. For more details, please see Mandal, B.N., Gupta V. K. and Parsad, R. (2011). Construction of Efficient Mixed-Level k-Circulant Supersaturated Designs, Journal of Statistical Theory and Practice, 5:4, 627-648, . Package: r-cran-mxm Architecture: all Version: 1.5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4129 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival, r-cran-mass, r-cran-ordinal, r-cran-nnet, r-cran-quantreg, r-cran-lme4, r-cran-foreach, r-cran-doparallel, r-cran-relations, r-cran-rfast, r-cran-visnetwork, r-cran-energy, r-cran-geepack, r-cran-knitr, r-cran-dplyr, r-cran-bigmemory, r-cran-coxme, r-cran-rfast2, r-cran-hmisc Suggests: r-cran-markdown, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-mxm_1.5.5-1.ca2004.1_all.deb Size: 3747236 MD5sum: 962804e829b8f12b8c87493e51f5526a SHA1: c27dcb81a7eac8ba85da924e913464fc4ab5ab79 SHA256: 2bf535de317b6d8e806a7b4486de51c11d476b2da66b9aeb29ca9aaefb996810 SHA512: 2d910555834ca3acdf95a19bd999c5453d2537747d834fd790e37ae2473d583a935e15685c4092a1b2fcd2d732f51c694ea7e71612cdc5002be8af50596ff8f0 Homepage: https://cran.r-project.org/package=MXM Description: CRAN Package 'MXM' (Feature Selection (Including Multiple Solutions) and BayesianNetworks) Many feature selection methods for a wide range of response variables, including minimal, statistically-equivalent and equally-predictive feature subsets. Bayesian network algorithms and related functions are also included. The package name 'MXM' stands for "Mens eX Machina", meaning "Mind from the Machine" in Latin. References: a) Lagani, V. and Athineou, G. and Farcomeni, A. and Tsagris, M. and Tsamardinos, I. (2017). Feature Selection with the R Package MXM: Discovering Statistically Equivalent Feature Subsets. Journal of Statistical Software, 80(7). . b) Tsagris, M., Lagani, V. and Tsamardinos, I. (2018). Feature selection for high-dimensional temporal data. BMC Bioinformatics, 19:17. . c) Tsagris, M., Borboudakis, G., Lagani, V. and Tsamardinos, I. (2018). Constraint-based causal discovery with mixed data. International Journal of Data Science and Analytics, 6(1): 19-30. . d) Tsagris, M., Papadovasilakis, Z., Lakiotaki, K. and Tsamardinos, I. (2018). Efficient feature selection on gene expression data: Which algorithm to use? BioRxiv. . e) Tsagris, M. (2019). Bayesian Network Learning with the PC Algorithm: An Improved and Correct Variation. Applied Artificial Intelligence, 33(2):101-123. . f) Tsagris, M. and Tsamardinos, I. (2019). Feature selection with the R package MXM. F1000Research 7: 1505. . g) Borboudakis, G. and Tsamardinos, I. (2019). Forward-Backward Selection with Early Dropping. Journal of Machine Learning Research 20: 1-39. h) The gamma-OMP algorithm for feature selection with application to gene expression data. IEEE/ACM Transactions on Computational Biology and Bioinformatics 19(2): 1214-1224. . 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Reference for methods listed here: Harris, C., Wrobel, J., & Vandekar, S. (2022). mxnorm: An R Package to Normalize Multiplexed Imaging Data. Journal of Open Source Software, 7(71), 4180, . 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All the relevant covariates are put on the 'variable list' to be selected. The significance levels for entry (SLE) and for stay (SLS) are usually set to 0.15 (or larger) for being conservative. Then, with the aid of substantive knowledge, the best candidate final regression model is identified manually by dropping the covariates with p value > 0.05 one at a time until all regression coefficients are significantly different from 0 at the chosen alpha level of 0.05. Package: r-cran-mycaas Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-igraph, r-cran-rlang, r-cran-rpref, r-cran-shiny Suggests: r-cran-pks, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-mycaas_0.0.1-1.ca2004.1_all.deb Size: 67120 MD5sum: 411401a3678cea6b89b8d580c402c6d6 SHA1: ad7248da4909b6602ddf5eb41cb51d7287cf72e5 SHA256: d477b9d1066148b335d3a78d375f6329de48d8226966958e9025e60bbfeeb1b6 SHA512: 02b70ab871886a1fc64d0307da7f721e8a9d99f3aaaf5b2ed6592856197163361d4835ccdc126dc86206daae1b737e79e0a62bf36e8ef0ed21fa982f5a4126e2 Homepage: https://cran.r-project.org/package=mycaas Description: CRAN Package 'mycaas' (My Computerized Adaptive Assessment) Implementation of adaptive assessment procedures based on Knowledge Space Theory (KST, Doignon & Falmagne, 1999 ) and Formal Psychological Assessment (FPA, Spoto, Stefanutti & Vidotto, 2010 ) frameworks. 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Please refer the URL below to download data files (data_mycobacrvR.zip) used in functions of this package. 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Package: r-cran-nasdaqdatalink Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-xts, r-cran-httr, r-cran-zoo, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-timeseries Filename: pool/dists/focal/main/r-cran-nasdaqdatalink_1.0.0-1.ca2004.1_all.deb Size: 71600 MD5sum: b542427b15b97c98f77c2b102691feb1 SHA1: 25c89b8112c950009d261eaf715fec83a54645ba SHA256: bf6aa95f1dd66d3769538309c3dc041316ad9ab4add33b36285a628edd174f21 SHA512: 5b7edb39c3deb0851a73a78b9fde5eb3e5cd61e818708fb79a3dde95b502fe4aa443c2fa67abfb37ad201a1121d3d0c7cec38dc0ef1247b58cd981ec36691980 Homepage: https://cran.r-project.org/package=NasdaqDataLink Description: CRAN Package 'NasdaqDataLink' (API Wrapper for Nasdaq Data Link) Functions for interacting directly with the Nasdaq Data Link API to offer data in a number of formats usable in R, downloading a zip with all data from a Nasdaq Data Link database, and the ability to search. 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Package: r-cran-naspaclust Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 288 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rdpack, r-cran-rdist, r-cran-stabledist, r-cran-beepr Suggests: r-cran-ppclust, r-cran-cluster, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-naspaclust_0.2.2-1.ca2004.1_all.deb Size: 231692 MD5sum: 57807f5ab17b339b5fbd3b6a26edc54e SHA1: d76359e2ed66b552f202fe0c772b881161ce02e3 SHA256: bc0f9ae81ce653b36c9a9b6d9ec09eb9b9197261b0f746208937642e6e7c758e SHA512: f02842f45b3694d0bfd7edd02feb9347bf2243d07020b6f681fae32d416213fbada4529690188b5384fbde3848c0aaa1dbbbf0dadf7e003e5021a81353c23de6 Homepage: https://cran.r-project.org/package=naspaclust Description: CRAN Package 'naspaclust' (Nature-Inspired Spatial Clustering) Implement and enhance the performance of spatial fuzzy clustering using Fuzzy Geographically Weighted Clustering with various optimization algorithms, mainly from Xin She Yang (2014) with book entitled Nature-Inspired Optimization Algorithms. 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Package: r-cran-nbapalettes Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-nbapalettes_0.1.0-1.ca2004.1_all.deb Size: 119684 MD5sum: 18be5752c746161cdf84c6bbc21144f6 SHA1: 557107c5110239a3b2f184b2d7bc277093a88f32 SHA256: f3c12d4caef326cee3204214063259a527bac0c8c955e9e0fd8f9b1729b39cfc SHA512: c7aa7efcf4fbc1a50e33b18320c00e1243cb0db41d211848f79b226a9b5b2a43afca0c8d8ff596ab1dbad8993766581f65d2f46a566272695f3b85ff5ca41eb8 Homepage: https://cran.r-project.org/package=nbapalettes Description: CRAN Package 'nbapalettes' (An NBA Jersey Palette Generator) Palettes generated from NBA jersey colorways. Package: r-cran-nbbdesigns Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nbbdesigns_1.1.0-1.ca2004.1_all.deb Size: 65700 MD5sum: 03212e1ba2819121a3c2721ca167468a SHA1: 2ae29432fa2eff45f55f557534624f329b1f0d65 SHA256: 80f0924aa478b5722c27875c10d5ccf85cf0261ee5159e40186cc430b8893b0c SHA512: 9474667447ee0e46d0496f75746de493e8bc8a3036f8bac069f77b61b30b4895cb23d0eb3331cb19f831224505513341928f6f0aa654366190544909c7b61e8f Homepage: https://cran.r-project.org/package=NBBDesigns Description: CRAN Package 'NBBDesigns' (Neighbour Balanced Block Designs (NBBDesigns)) Neighbour-balanced designs ensure that no treatment is disadvantaged unfairly by its surroundings. The treatment allocation in these designs is such that every treatment appears equally often as a neighbour with every other treatment. Neighbour Balanced Designs are employed when there is a possibility of neighbour effects from treatments used in adjacent experimental units. In the literature, a vast number of such designs have been developed. This package generates some efficient neighbour balanced block designs which are balanced and partially variance balanced for estimating the contrast pertaining to direct and neighbour effects, as well as provides a function for analysing the data obtained from such trials (Azais, J.M., Bailey, R.A. and Monod, H. (1993). "A catalogue of efficient neighbour designs with border plots". Biometrics, 49, 1252-1261 ; Tomar, J. S., Jaggi, Seema and Varghese, Cini (2005). "On totally balanced block designs for competition effects"). This package contains functions named nbbd1(),nbbd2(),nbbd3(),pnbbd1() and pnbbd2() which generates neighbour balanced block designs within a specified range of number of treatment (v). It contains another function named anlys()for performing the analysis of data generated from such trials. 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Package 'NBBttest' can perform data quality check, data normalization, differential analysis, annotation and graphic analysis. In differential analysis, 'NBBttest' can identify differentially expressed genes and differential RNA isoforms in alternative splicing sites and alternative polyadenylation sites, differential sgRNA, and differential CRISPR (clustered regularly interspaced short palindromic repeats) screening genes. In graphic analysis, 'NBBttest' provides two types of heatmaps to visualize differential expression at gene or isoform level using z-score and n-score and creates pathway heatmap. 'NBBttest' can plot differentially expressed exons within a specified gene. In addition, 'NBBttest' provides a tool for annotation of genes and exons. The methods used in 'NBBttest' were new statistical methods developed from Tan and others (2015) . 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Runtime examples are provided in the package function as well as at . 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Included are various functions to use these probabilities to estimate transmission parameters such as the generation/serial interval and reproductive number as well as finding the contribution of covariates to the probabilities and visualizing results. The ideal use is for an infectious disease dataset with metadata on the majority of cases but more informative data such as contact tracing or pathogen whole genome sequencing on only a subset of cases. For a detailed description of the methods see Leavitt et al. (2020) . 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''Logic and Methodology of 'Necessary but not Sufficient' causality." Organizational Research Methods 19(1), 10-52) . NCA identifies necessary (but not sufficient) conditions in datasets, where x causes (e.g. precedes) y. Instead of drawing a regression line ''through the middle of the data'' in an xy-plot, NCA draws the ceiling line. The ceiling line y = f(x) separates the area with observations from the area without observations. (Nearly) all observations are below the ceiling line: y <= f(x). The empty zone is in the upper left hand corner of the xy-plot (with the convention that the x-axis is ''horizontal'' and the y-axis is ''vertical'' and that values increase ''upwards'' and ''to the right''). The ceiling line is a (piecewise) linear non-decreasing line: a linear step function or a straight line. It indicates which level of x (e.g. an effort or input) is necessary but not sufficient for a (desired) level of y (e.g. good performance or output). A quick start guide for using this package can be found here: or . 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For the first time, calculating effective sizes with data obtained within less than a generation but considering demographic parameters is possible. This individual based model uses demographic parameters of a population to calculate annual effective sizes and effective population sizes (per generation). A defined number of alleles and loci will be used to simulate the genotypes of the individuals. Stepwise mutation rates can be included. Variations in life history parameters (sex ratio, sex-specific survival, recruitment rate, reproductive skew) are possible. These results will help managers to define existing populations as viable or not. 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The 'negligible' package provides functions that are useful for conducting negligible effect testing (also called equivalence testing). For example, there are functions for evaluating the equivalence of means or the presence of a negligible association (correlation or regression). Beribisky, N., Mara, C., & Cribbie, R. A. (2020) . Beribisky, N., Davidson, H., Cribbie, R. A. (2019) . Shiskina, T., Farmus, L., & Cribbie, R. A. (2018) . Mara, C. & Cribbie, R. A. (2017) . Counsell, A. & Cribbie, R. A. (2015) . van Wieringen, K. & Cribbie, R. A. (2014) . Goertzen, J. R. & Cribbie, R. A. (2010) . Cribbie, R. A., Gruman, J. & Arpin-Cribbie, C. (2004) . 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These functions take a solution and return a slightly-modified copy of it, i.e. a neighbour. The package provides a function neighbourfun() that constructs such neighbourhood functions, based on parameters such as admissible ranges for elements in a solution. Supported are numeric and logical solutions. The algorithms were originally created for portfolio-optimisation applications, but can be used for other models as well. Several recipes for neighbour computations are taken from "Numerical Methods and Optimization in Finance" by M. Gilli, D. Maringer and E. Schumann (2019, ISBN:978-0128150658). 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The provided algorithms are direct search algorithms, i.e. algorithms which do not use the derivative of the cost function. They are based on the update of a simplex. The following algorithms are available: the fixed shape simplex method of Spendley, Hext and Himsworth (unconstrained optimization with a fixed shape simplex, 1962) , the variable shape simplex method of Nelder and Mead (unconstrained optimization with a variable shape simplex made, 1965) , and Box's complex method (constrained optimization with a variable shape simplex, 1965) . 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The development of this package is financially supported the Slovenian Research Agency (www.arrs.gov.si) within the research program P5<96>0168 and the research project J5-2557 (Comparison and evaluation of different approaches to blockmodeling dynamic networks by simulations with application to Slovenian co-authorship networks). 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It's modern in the sense it provides a driver that can be easily integrated in a data analysis workflow, especially by providing an API working smoothly with other data analysis and graph packages. It's flexible in the way it returns the results, by trying to stay as close as possible to the way 'Neo4J' returns data. That way, you have the control over the way you will compute the results. At the same time, the result is not too complex, so that the "heavy lifting" of data wrangling is not left to the user. 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It also interfaces with the 'brms' package, allowing the use of the neo-normal distribution as a custom family. This integration enables the application of various 'brms' formulas for neo-normal regression. The package implements the following distributions: Modified to be Stable as Normal from Burr (MSNBurr), Modified to be Stable as Normal from Burr-IIa (MSNBurr-IIa), Generalized of MSNBurr (GMSNBurr), and Jones-Faddy Skew-t. References: Choir, A. S. (2020).Unpublished Dissertation. Iriawan, N. (2000).Unpublished Dissertation. Jones, M. C. and Faddy,M. J. (2003).. Rigby, R. A., Stasinopoulos, M. D., Heller, G. Z., & Bastiani, F. D. (2019) . 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Package: r-cran-neonos Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 307 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-httr, r-cran-curl, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-neonutilities Filename: pool/dists/focal/main/r-cran-neonos_1.1.0-1.ca2004.1_all.deb Size: 132400 MD5sum: 402d0e4dcf888405ca45e3cd9cec7260 SHA1: 472192af69ce2b5494c869619e6a484d4cfa8a43 SHA256: c2e653de4b204cc9ded5d98537583a1a835768bb8a7fcb864b2f17c9778bd82f SHA512: fe745d01509c7b724007c11163449e3c6199464aad2bec8a2806a4d984033881bc1d9771e2945fd728f5cb28f137442377efdab1638836fca723bd3e18031556 Homepage: https://cran.r-project.org/package=neonOS Description: CRAN Package 'neonOS' (Basic Data Wrangling for NEON Observational Data) NEON observational data are provided via the NEON Data Portal and NEON API, and can be downloaded and reformatted by the 'neonUtilities' package. NEON observational data (human-observed measurements, and analyses derived from human-collected samples, such as tree diameters and algal chemistry) are published in a format consisting of one or more tabular data files. This package provides tools for performing common operations on NEON observational data, including checking for duplicates and joining tables. Package: r-cran-neonplantecology Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4606 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-neonutilities, r-cran-vegan, r-cran-ggplot2, r-cran-data.table, r-cran-dtplyr, r-cran-dplyr, r-cran-lubridate, r-cran-sf, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-ggpubr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-neonplantecology_1.6.1-1.ca2004.1_all.deb Size: 4528776 MD5sum: 49923a2508259c4e817b4dac38fabaac SHA1: eba24182b0d875fb8282e92846a9d540c43a06a3 SHA256: 23513629938a6b752e21c091fc98b32e93f4a2b794e43f47f4a8345945d730b0 SHA512: 88514e751ad7f819969b264e25802650114755377894d26d8c258c2daec7fad713afa9bc632cf3a506daf9c1c600a3e6aa9b7e8f49fba3b8dbcbe9b8dc06c52d Homepage: https://cran.r-project.org/package=neonPlantEcology Description: CRAN Package 'neonPlantEcology' (Process NEON Plant Data for Ecological Analysis) Downloading and organizing plant presence and percent cover data from the National Ecological Observatory Network . Package: r-cran-neonsoilflux Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1980 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-lubridate, r-cran-neonutilities, r-cran-purrr, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-neonsoilflux_1.0.0-1.ca2004.1_all.deb Size: 1581348 MD5sum: c2ad3fdb97ffbee6c1be1c4922972d60 SHA1: ccf19161c7f897ce70731e635a925bb09114e417 SHA256: b405e147547698e721b4d4eaf1994bed7160c6fd37ae1c980d085dce0676a3f9 SHA512: 57f00778e887f2a20a429d6226edc51349342c2095235e1cb4f88882c64574459fec836547549c0b363359e28a88bb90690938d9d3375bc97eaa0939ec8fb643 Homepage: https://cran.r-project.org/package=neonSoilFlux Description: CRAN Package 'neonSoilFlux' (Compute Soil Carbon Fluxes for the National EcologicalObservatory Network Sites) Acquires and synthesizes soil carbon fluxes at sites located in the National Ecological Observatory Network (NEON). 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Package: r-cran-neonstore Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 247 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dbi, r-cran-duckdb, r-cran-httr, r-cran-progress, r-cran-r.utils, r-cran-thor, r-cran-vroom, r-cran-zip, r-cran-duckdbfs, r-cran-memoise, r-cran-cachem, r-cran-glue Suggests: r-cran-tibble, r-cran-jsonlite, r-cran-testthat, r-cran-covr, r-cran-xml2, r-cran-spelling, r-cran-rstudioapi, r-cran-neonutilities, r-bioc-rhdf5, r-cran-curl, r-cran-openssl, r-cran-digest, r-cran-arrow, r-cran-dplyr, r-cran-r.methodss3, r-cran-r.oo, r-cran-storr Filename: pool/dists/focal/main/r-cran-neonstore_0.5.1-1.ca2004.1_all.deb Size: 196352 MD5sum: cd788471f0ebc5fa6bcc3145dbb656c5 SHA1: edf3875088a07d8b84a424b72467e074f0682fdb SHA256: 0959730a4addf8c97b22dea9e63c29d917040af9808f998e5135d860a1ce4d5f SHA512: 1073fa67ab2ae3aed1c89b9506b080f08328f284ea01ab38995d0039d64a4e04c765187355d0d430326aa4d2cf1ee41861eeb8b7ba66a9f5bf0c2c54eba378fb Homepage: https://cran.r-project.org/package=neonstore Description: CRAN Package 'neonstore' (NEON Data Store) The National Ecological Observatory Network (NEON) provides access to its numerous data products through its REST API, . This package provides a high-level user interface for downloading and storing NEON data products. Unlike 'neonUtilities', this package will avoid repeated downloading, provides persistent storage, and improves performance. 'neonstore' can also construct a local 'duckdb' database of stacked tables, making it possible to work with tables that are far to big to fit into memory. Package: r-cran-neonutilities Architecture: all Version: 2.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 569 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-downloader, r-cran-data.table, r-cran-r.utils, r-cran-tidyr, r-cran-stringr, r-cran-pbapply, r-cran-curl Suggests: r-bioc-rhdf5, r-cran-terra, r-cran-testthat, r-cran-fasttime Filename: pool/dists/focal/main/r-cran-neonutilities_2.4.3-1.ca2004.1_all.deb Size: 447156 MD5sum: 266460a4dff3d8d24f1194029a91e103 SHA1: 8e6d53bfe58f1dba4f4b8d96b8acf681436dd829 SHA256: 51ac98f9b3a943310d4759b02cd2a0c11fab188b4795749d4ccbf1b480fe4f0a SHA512: bed26231fdc7e7a6559346a6ea1af4ff374127617d82d2b4440fa2d564c65eb0a240033d30944c1eff0c1e1ca11958737447e4afbedba8b7a870b3b1dad7abfd Homepage: https://cran.r-project.org/package=neonUtilities Description: CRAN Package 'neonUtilities' (Utilities for Working with NEON Data) NEON data packages can be accessed through the NEON Data Portal or through the NEON Data API (see for documentation). 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Package: r-cran-neptune Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reticulate, r-cran-this.path, r-cran-rstudioapi, r-cran-ggplot2, r-cran-plotly, r-cran-htmlwidgets Filename: pool/dists/focal/main/r-cran-neptune_0.2.3-1.ca2004.1_all.deb Size: 110100 MD5sum: 5fdc47263b231c6ca1a1bb7d95a60af6 SHA1: 04d97341aa019c47dcdc29dd62b5eab5a874c37b SHA256: a144e954d1eb7bf978799d3a109479a4b042cd6e0f508982ff03b60dc74938cc SHA512: d464868264b86c98d3ae270869f8b715593f570df99c77d072c6209ca0d0e13b86393689ad3cedd28f2a9b269351d6f5f4ef3f32ce1d250ce3288525d0f793a0 Homepage: https://cran.r-project.org/package=neptune Description: CRAN Package 'neptune' (MLOps Metadata Store - Experiment Tracking and Model Registryfor Production Teams) An interface to Neptune. A metadata store for MLOps, built for teams that run a lot of experiments. 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Package: r-cran-nestcolor Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1191 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-ggplot2, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-nestcolor_0.1.3-1.ca2004.1_all.deb Size: 385696 MD5sum: 4be93e6034578f90a47a5753e7ce139b SHA1: 4393a3e16f2f192af2a457653cda707fc88f6518 SHA256: 2881522c8c00f582fb9fecff7626f51145db1013b78229c9d510d492e2789a5e SHA512: 02447f75c80f6703dd4518b9c675f575c374b89d93738f30c976313239a242c092de58090f2692a67c999c8052f9af74c0615b6779fe9668d5a85218fbf55ba9 Homepage: https://cran.r-project.org/package=nestcolor Description: CRAN Package 'nestcolor' (Colors for NEST Graphs) Clinical reporting figures require to use consistent colors and configurations. 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Package: r-cran-nestedcv Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4764 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-data.table, r-cran-doparallel, r-cran-foreach, r-cran-future.apply, r-cran-ggplot2, r-cran-glmnet, r-cran-matrixstats, r-cran-matrixtests, r-cran-proc, r-cran-rfast, r-cran-rhpcblasctl, r-cran-rlang, r-cran-rocr Suggests: r-cran-boruta, r-cran-corelearn, r-cran-fastshap, r-cran-gbm, r-cran-ggbeeswarm, r-cran-ggpubr, r-cran-hsstan, r-cran-mda, r-cran-mlbench, r-cran-pbapply, r-cran-pls, r-cran-randomforest, r-cran-ranger, r-cran-rcppeigen, r-cran-rmarkdown, r-cran-knitr, r-cran-superlearner Filename: pool/dists/focal/main/r-cran-nestedcv_0.8.0-1.ca2004.1_all.deb Size: 2080228 MD5sum: 784a4560242421c8401285192cf97337 SHA1: 341f5fbfc049b8cf939eac58c60c883b566660f8 SHA256: 0690fcca8c0fcc84f62c42c060bd9d890af864082269d7bed404b37d4df3bc63 SHA512: 9da4c8885c2e9330e78f91e9cd0426ad8a20599746efa3201613617eb445b17a31224a66c348400520e4e63f32b08eaa4473807d2f0c40e997390268a59e8438 Homepage: https://cran.r-project.org/package=nestedcv Description: CRAN Package 'nestedcv' (Nested Cross-Validation with 'glmnet' and 'caret') Implements nested k*l-fold cross-validation for lasso and elastic-net regularised linear models via the 'glmnet' package and other machine learning models via the 'caret' package . Cross-validation of 'glmnet' alpha mixing parameter and embedded fast filter functions for feature selection are provided. Described as double cross-validation by Stone (1977) . Also implemented is a method using outer CV to measure unbiased model performance metrics when fitting Bayesian linear and logistic regression shrinkage models using the horseshoe prior over parameters to encourage a sparse model as described by Piironen & Vehtari (2017) . 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Nested dichotomies are statistically independent, and hence provide an additive decomposition of tests for the overall 'polytomous' response. When the dichotomies make sense substantively, this method can be a simpler alternative to the standard 'multinomial' logistic model which compares response categories to a reference level. See: J. Fox (2016), "Applied Regression Analysis and Generalized Linear Models", 3rd Ed., ISBN 1452205663. 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Secondly, the 'net4pg' package allows to exploit the increasing availability of matched transcriptomic and proteomic datasets to reduce ambiguity of protein identifications. More precisely, it implement a transcriptome-based filtering strategy fundamentally consisting in the removal of those proteins whose corresponding transcript is not expressed in the sample-matched transcriptome. The underlying assumption is that, according to the central dogma of biology, there can be no proteins without the corresponding transcript. Most importantly, the package allows to visually inspect the effect of the filtering on protein identifications and quantify ambiguity before and after filtering by means of graph connected components. As such, it constitutes a reproducible and transparent method to exploit transcriptome information to enhance protein identifications. All methods implemented in the 'net4pg' package are fully described in Fancello and Burger (2022) . 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Package: r-cran-netgreg Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-huge, r-cran-glmnet, r-cran-dplyr, r-cran-plsgenomics Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-netgreg_0.0.2-1.ca2004.1_all.deb Size: 18796 MD5sum: ab77c618a05f22d15525898d8b0a727e SHA1: 54ca59de6a40c87476bd8ccc6000e8ea097b8d44 SHA256: 2025f166f1fa9a7c0911814230574771d74c5825d89fcad1d74b8813f9eb2ab6 SHA512: 2695c3b888f2caffafeb915fc919e36bb07f1829216ce3047e25c218f7d372d30dc875716a9b0f5607a6f1251ab0abfd75b9c61fdbafe899479f66fdb08a7d43 Homepage: https://cran.r-project.org/package=NetGreg Description: CRAN Package 'NetGreg' (Network-Guided Penalized Regression (NetGreg)) A network-guided penalized regression framework that integrates network characteristics from Gaussian graphical models with partial penalization, accounting for both network structure (hubs and non-hubs) and clinical covariates in high-dimensional omics data, including transcriptomics and proteomics. The full methodological details can be found in our recent preprint by Ahn S and Oh EJ (2025) . Package: r-cran-netgwas Architecture: all Version: 1.14.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 409 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix, r-cran-igraph, r-cran-qtl, r-cran-glasso, r-cran-mass, r-cran-huge, r-cran-tmvtnorm Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-netgwas_1.14.3-1.ca2004.1_all.deb Size: 377692 MD5sum: a038af7bc08252d94486da8bed0ce114 SHA1: d6425c2c312dc49ff8b31fc88cd5b87e235d2011 SHA256: 4ce2c0042ef8526f46244eeb6579513081db59eb00b1f2bf230ac93fdaca3923 SHA512: d52f9c72ced4ef5748bf35f38c3de853db7ab6be04fa85dfc33f71235a2b6c464ba3c8863a68e8bd446e8a781c4ea1bc60bba36166bd78249cefb75ac7f4f1ee Homepage: https://cran.r-project.org/package=netgwas Description: CRAN Package 'netgwas' (Network-Based Genome Wide Association Studies) A multi-core R package that contains a set of tools based on copula graphical models for accomplishing the three interrelated goals in genetics and genomics in an unified way: (1) linkage map construction, (2) constructing linkage disequilibrium networks, and (3) exploring high-dimensional genotype-phenotype network and genotype- phenotype-environment interactions networks. The 'netgwas' package can deal with biparental inbreeding and outbreeding species with any ploidy level, namely diploid (2 sets of chromosomes), triploid (3 sets of chromosomes), tetraploid (4 sets of chromosomes) and so on. We target on high-dimensional data where number of variables p is considerably larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output. The 'netgwas' implements the methodological developments in Behrouzi and Wit (2017) and Behrouzi and Wit (2017) . Package: r-cran-netie Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-netie_1.0-1.ca2004.1_all.deb Size: 43440 MD5sum: 69958c7b491490de52725991e876bff0 SHA1: 6f0b942a35288e0960240cdcc1970d0d2ec0057b SHA256: 25209afaea607e0a6a494620fdb75d21fae8ea538ccac7ecea2b7f88340a8792 SHA512: 26b8ac9aaccb7eb5d11bb965aac84d511d3f670b126c06169fc7e7a94f087e6db04f7732fade916617e3ad554e81712cd388a3af0e9a515ab153a0ef923dca12 Homepage: https://cran.r-project.org/package=netie Description: CRAN Package 'netie' (Antigen T Cell Interaction Estimation) The Bayesian hierarchical model named antigen-T cell interaction estimation is to estimate the history of the immune pressure on the evolution of the tumor clones.The model is based on the estimation result from Andrew Roth (2014) . Package: r-cran-netindices Architecture: all Version: 1.4.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass Suggests: r-cran-lim Filename: pool/dists/focal/main/r-cran-netindices_1.4.4.1-1.ca2004.1_all.deb Size: 135452 MD5sum: cb663024d25e8ac5233c47832df0e0f8 SHA1: 3c8269fef7e0d7a5126bdba50ea3126c150e72f7 SHA256: 615a4f8f789395512e1c4d00efbbce32f1b71c6f6396a6cfd3e3bd04e7345e77 SHA512: 8f4e2e8daac102883cd21b449ee840f71bbbeedae9c36a48cac1ad9ef52d7298a969a23de05282f1c4315050423fedaa8dddf8e6f0e6814154d792b3dc5fead9 Homepage: https://cran.r-project.org/package=NetIndices Description: CRAN Package 'NetIndices' (Estimating Network Indices, Including Trophic Structure ofFoodwebs in R) Given a network (e.g. a food web), estimates several network indices. These include: Ascendency network indices, Direct and indirect dependencies, Effective measures, Environ network indices, General network indices, Pathway analysis, Network uncertainty indices and constraint efficiencies and the trophic level and omnivory indices of food webs. Package: r-cran-netint Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 233 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-netint_1.0.1-1.ca2004.1_all.deb Size: 201512 MD5sum: 7394e7208d87b2c606d9ed16928749e5 SHA1: af4c1194901076faa61b72133a9519387c5a5c04 SHA256: e82315a25b5805ff6fe8943f6b92d8fc20c8aee0cb4dae82a1ec2682fda8d4f1 SHA512: efdb54094e617edd3069ad9a19dc6ac9a675b5a2de249634d653872a82f8843b3100c9d299dfa28bb3a6213c8152e25d379b8932354d52e3d498220753944e8b Homepage: https://cran.r-project.org/package=NetInt Description: CRAN Package 'NetInt' (Methods for Unweighted and Weighted Network Integration) Implementation of network integration approaches comprising unweighted and weighted integration methods. Unweighted integration is performed considering the average, per-edge average, maximum and minimum of networks edges. Weighted integration takes into account a weight for each network during the fusion process, where the weights express the ''predictiveness strength'' of each network considering a specific predictive task. Weights can be learned using a machine learning algorithm able to associate the weights to the assessment of the accuracy of the learning algorithm trained on the network itself. The implemented methods can be applied to effectively integrate different biological networks modelling a wide range of problems in bioinformatics (e.g. disease gene prioritization, protein function prediction, drug repurposing, clinical outcome prediction). Package: r-cran-netjack Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 368 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-igraph, r-cran-braingraph, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-netjack_1.2.0-1.ca2004.1_all.deb Size: 241964 MD5sum: 184d45b426c2a28ea5d9f97c3be1e752 SHA1: 244f1d6213f95f780c1482c52a02d1e06fdb23e8 SHA256: cf975f5980133dec5085a37e65ab766fa50e43d5dad7f883e31c192463bf327a SHA512: 187b401fe2e60d13d9d57780f5b06afb4942f7da8bf67030694a91352b6165a1d08e3e4a415dd08d7f4a6db1a8989878a139febc8b8b11cf25afbb99ac4dc344 Homepage: https://cran.r-project.org/package=netjack Description: CRAN Package 'netjack' (Tools for Working with Samples of Networks) Tools for managing large sets of network data and performing whole network analysis. This package is focused on the network based statistic jackknife method, and implements a framework that can be extended to other network manipulations and analyses. Package: r-cran-netknitr Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2724 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openxlsx, r-cran-shiny, r-cran-shinydashboard, r-cran-dplyr, r-cran-visnetwork Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-netknitr_0.2.1-1.ca2004.1_all.deb Size: 665764 MD5sum: 49540bbffa0199d1474b1d120a2eb5bc SHA1: f4dde471348d96c0643b3ac392452aba14c8afa0 SHA256: 424f0aa92032e988e11a57ba9a4f591e88f0ba13799c948b36238d87d2d591ba SHA512: 97b67df7466b5aa938fdb9a1c703cb1997c4231750b38d3324f7195d06baa24ce893cd480c808f4a3acb19bc1d310fb801fe15f2b88b5883d9fa316b47701ac3 Homepage: https://cran.r-project.org/package=netknitr Description: CRAN Package 'netknitr' (Knit Network Map for any Dataset) Designed to create interactive and visually compelling network maps using R Shiny. It allows users to quickly analyze CSV files and visualize complex relationships, structures, and connections within data by leveraging powerful network analysis libraries and dynamic web interfaces. 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'NetLogoR' follows the same framework as the 'NetLogo' software (Wilensky (1999) ) and is a translation in R of the structure and functions of 'NetLogo'. 'NetLogoR' provides new R classes to define model agents and functions to implement spatially explicit agent-based models in the R environment. This package allows benefiting of the fast and easy coding phase from the highly developed 'NetLogo' framework, coupled with the versatility, power and massive resources of the R software. Examples of two models from the NetLogo software repository (Ants ) and Wolf-Sheep-Predation (), and a third, Butterfly, from Railsback and Grimm (2012) , all written using 'NetLogoR' are available. The 'NetLogo' code of the original version of these models is provided alongside. A programming guide inspired from the 'NetLogo' Programming Guide () and a dictionary of 'NetLogo' primitives () equivalences are also available. NOTE: To increment 'time', these functions can use a for loop or can be integrated with a discrete event simulator, such as 'SpaDES' (). The suggested package 'fastshp' can be installed with 'install.packages("fastshp", repos = (""), type = "source")'. Package: r-cran-netmap Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 437 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggnetwork, r-cran-igraph, r-cran-network, r-cran-rlang, r-cran-sf, r-cran-sna Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-netmap_0.1.4-1.ca2004.1_all.deb Size: 347320 MD5sum: 625f265c4a04fe16895d3b5dc3c984d2 SHA1: 7cdf0f349e14ed0a77a54e8d4478fe673a4150bc SHA256: 013b712622f33ea9f69bb7a78cd3dd16fdcf010e6b441bad0fea5b325c3855fd SHA512: 83b9f210ee2a091b2a0aa3e83f6d04de34e969d64c0ff0bd1da7b8f0a793827ecd90c0608f2464a7402ef7f5a3a7e65cd08063d2fc2201353e453f3c9dd4947f Homepage: https://cran.r-project.org/package=netmap Description: CRAN Package 'netmap' (Represent Network Objects on a Map) Represent 'network' or 'igraph' objects whose vertices can be represented by features in an 'sf' object as a network graph surmising a 'sf' plot. Fits into 'ggplot2' grammar. 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URL: . BugReports: . Robins, Garry, Phillipa Pattison, and Jodie Woolcock (2005) . Snijders, Tom A. B., and Christian E. G. Steglich (2015) . Imai, Kosuke, Luke Keele, and Dustin Tingley (2010) . Duxbury, Scott (2023) . Duxbury, Scott (2024) . Package: r-cran-netmeta Architecture: all Version: 3.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2053 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-meta, r-cran-matrix, r-cran-metafor, r-cran-mass, r-cran-mvtnorm, r-cran-magic, r-cran-igraph, r-cran-ggplot2, r-cran-colorspace, r-cran-dplyr, r-cran-magrittr Suggests: r-bioc-rgraphviz, r-bioc-graph, r-cran-rgl, r-cran-gridextra, r-cran-tictoc, r-cran-writexl, r-cran-r.rsp, r-cran-cccp, r-cran-brglm2, r-cran-crossnma Filename: pool/dists/focal/main/r-cran-netmeta_3.2-0-1.ca2004.1_all.deb Size: 1935864 MD5sum: 7f6e235af45755a6fab0489e3c5c5ee9 SHA1: af1d3414596d2935b9d4aa9da1b2f38953484d38 SHA256: 2ad8644a555192821717f412f37ebed48a6266d35cccf01c11f837ab0074b481 SHA512: 46ca54f8c7c1a6d2a1327b8f658f9eb37d4b956f2f30f1f71de018adb8aa72b7c3974a920b54fe75014364728be654c416adc1ae6f7947a6c8cd44404d1789a0 Homepage: https://cran.r-project.org/package=netmeta Description: CRAN Package 'netmeta' (Network Meta-Analysis using Frequentist Methods) A comprehensive set of functions providing frequentist methods for network meta-analysis (Balduzzi et al., 2023) and supporting Schwarzer et al. (2015) , Chapter 8 "Network Meta-Analysis": - frequentist network meta-analysis following Rücker (2012) ; - additive network meta-analysis for combinations of treatments (Rücker et al., 2020) ; - network meta-analysis of binary data using the Mantel-Haenszel or non-central hypergeometric distribution method (Efthimiou et al., 2019) , or penalised logistic regression (Evrenoglou et al., 2022) ; - rankograms and ranking of treatments by the Surface under the cumulative ranking curve (SUCRA) (Salanti et al., 2013) ; - ranking of treatments using P-scores (frequentist analogue of SUCRAs without resampling) according to Rücker & Schwarzer (2015) ; - split direct and indirect evidence to check consistency (Dias et al., 2010) , (Efthimiou et al., 2019) ; - league table with network meta-analysis results; - 'comparison-adjusted' funnel plot (Chaimani & Salanti, 2012) ; - net heat plot and design-based decomposition of Cochran's Q according to Krahn et al. (2013) ; - measures characterizing the flow of evidence between two treatments by König et al. (2013) ; - automated drawing of network graphs described in Rücker & Schwarzer (2016) ; - partial order of treatment rankings ('poset') and Hasse diagram for 'poset' (Carlsen & Bruggemann, 2014) ; (Rücker & Schwarzer, 2017) ; - contribution matrix as described in Papakonstantinou et al. (2018) and Davies et al. (2022) ; - network meta-regression with a single continuous or binary covariate; - subgroup network meta-analysis. 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'NetMHCIIpan' is a such a tool: it predicts the binding strength of a short peptide to a Major Histocompatibility Complex class II (MHC-II) molecule. 'NetMHCIIpan' can be used from a web server at or from the command-line, using a local installation. This package allows to call 'NetMHCIIpan' from R. 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Different approaches are available: effective distance median, recursive backtracking, and centrality-based source estimation. Additionally, we provide public transportation network data as well as methods for data preparation, source estimation performance analysis and visualization. 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The package is built on top of 'The Grid Graphics Package' and seamlessly work with 'igraph' and 'network' objects. 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In addition, compute principled variance estimates of the coefficients assuming that the errors are jointly exchangeable. Missing data is accommodated. Additionally implements building and inversion of covariance matrices under joint exchangeability, and generates random covariance matrices from this class. For more detail on methods, see Marrs, Fosdick, and McCormick (2017) . Package: r-cran-netropy Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 630 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggraph, r-cran-ggplot2, r-cran-igraph Suggests: r-cran-testthat, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-netropy_0.2.0-1.ca2004.1_all.deb Size: 413272 MD5sum: 2cd3ddb474ec8f936342522aca11de04 SHA1: 0f84884a6c6441f84f994490044c5c3870d01580 SHA256: 3109811483a7a3a6618d099661d4f85f2a4ae7431f8a21467be320d5a646bf5a SHA512: ea452177b806d2e2485d39671b6c92b9e073916ca1e19a5bfcec8fe91824506a841697fc75b1bf241d35e2b37b494ea894ce3b33f5bcfa0eecdb9ac4a46455d1 Homepage: https://cran.r-project.org/package=netropy Description: CRAN Package 'netropy' (Statistical Entropy Analysis of Network Data) Statistical entropy analysis of network data as introduced by Frank and Shafie (2016) , and a in textbook which is in progress. Package: r-cran-netsci Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph, r-cran-magrittr, r-cran-wto, r-cran-dplyr, r-cran-rfast, r-cran-binr, r-cran-cubature Suggests: r-cran-codina Filename: pool/dists/focal/main/r-cran-netsci_1.0.1-1.ca2004.1_all.deb Size: 74304 MD5sum: 380005b58f88a21712d26136e4567a0a SHA1: 8c7b5230076a68c57b8f1c8af6562f3192248871 SHA256: aa156e9f75abe35682d16a31960301ec4743755ccbcb3141c11dc84eafa6aeb1 SHA512: ffebe4887ca0d581cdf400adb72f2c31e41f066818d595d261439fda0e339b32a94018509a0014ef64f49d8908f5f60e9496f2a252c9c24133e51bb672d1a487 Homepage: https://cran.r-project.org/package=NetSci Description: CRAN Package 'NetSci' (Calculates Basic Network Measures Commonly Used in NetworkMedicine) Calculates network measures commonly used in Network Medicine. Measures such as the Largest Connected Component, the Relative Largest Connected Component, Proximity and Separation are calculated along with their statistical significance. Significance can be computed both using a degree-preserving randomization and non-degree preserving. Package: r-cran-netseer Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 391 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-fable, r-cran-fabletools, r-cran-forecast, r-cran-future, r-cran-igraph, r-cran-lpsolve, r-cran-matrix, r-cran-rlang, r-cran-tibble, r-cran-tsibble Suggests: r-cran-feasts, r-cran-nnet, r-cran-urca Filename: pool/dists/focal/main/r-cran-netseer_0.1.1-1.ca2004.1_all.deb Size: 328040 MD5sum: e53c01a123cc64c75fd5594179fa4886 SHA1: d0a51edc8cf9f66ef68baab75912fa54f078bceb SHA256: d5bde9dacd8b26c2e5e9f8e0f679e37760cb95110dbfaa4283eabb5240cc2503 SHA512: d75f72534a48a01fdbc3f751700a32152321f123683e28a772ef47c907c0e790ec7692da579808bde052e16552c3cdb515a852e27d9bbc53b2d7e34f3b6b89f7 Homepage: https://cran.r-project.org/package=netseer Description: CRAN Package 'netseer' (Graph Prediction from a Graph Time Series) Predicting the structure of a graph including new nodes and edges using a time series of graphs. Flux balance analysis, a linear and integer programming technique used in biochemistry is used with time series prediction methods to predict the graph structure at a future time point Kandanaarachchi (2024) . Package: r-cran-netseg Architecture: all Version: 1.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 494 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-scales Filename: pool/dists/focal/main/r-cran-netseg_1.0-3-1.ca2004.1_all.deb Size: 296072 MD5sum: 2329c8650abf438c069afa8b9e1eb267 SHA1: 14c8f5d10373b3169ad88e02dbc4bfedc38a82dd SHA256: 284b76055e7e7bcd85b8cf4c2ae3b2b64bcf698d2e7c485dc05033978e7312f3 SHA512: 0e43c82faeb384e2d3dabc2edb73b3cddff4c73fa12b62665821af79dd41eafd03659d528e9fb0cda05da9326f9928122c676b78d0d026c9ac8a3a18d39eea50 Homepage: https://cran.r-project.org/package=netseg Description: CRAN Package 'netseg' (Measures of Network Segregation and Homophily) Segregation is a network-level property such that edges between predefined groups of vertices are relatively less likely. Network homophily is a individual-level tendency to form relations with people who are similar on some attribute (e.g. gender, music taste, social status, etc.). In general homophily leads to segregation, but segregation might arise without homophily. This package implements descriptive indices measuring homophily/segregation. It is a computational companion to Bojanowski & Corten (2014) . Package: r-cran-netsem Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1944 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-htmlwidgets, r-cran-knitr, r-cran-magrittr, r-cran-mass, r-cran-rsvg, r-cran-svglite, r-cran-png, r-cran-segmented, r-cran-gtools Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-netsem_0.6.2-1.ca2004.1_all.deb Size: 1234788 MD5sum: 1cfa86dbfbe5fedb6e53b102331e91d6 SHA1: fe3167521736a9802c08c20d9e978d463a19709f SHA256: 7f2514780e4bc5ce549a9b31dda5266f33fd9660c00701302841639faf9f6feb SHA512: d28873fc40ef81753ffc9b0c6a6b2839087f38469c5a5141da52a8dcedac0c8d68a2322ceeb823d384f086672abcdbd5fa3d86fc7087b04d4b9a2f72b20dded0 Homepage: https://cran.r-project.org/package=netSEM Description: CRAN Package 'netSEM' (Network Structural Equation Modeling) The network structural equation modeling conducts a network statistical analysis on a data frame of coincident observations of multiple continuous variables [1]. It builds a pathway model by exploring a pool of domain knowledge guided candidate statistical relationships between each of the variable pairs, selecting the 'best fit' on the basis of a specific criteria such as adjusted r-squared value. This material is based upon work supported by the U.S. National Science Foundation Award EEC-2052776 and EEC-2052662 for the MDS-Rely IUCRC Center, under the NSF Solicitation: NSF 20-570 Industry-University Cooperative Research Centers Program [1] Bruckman, Laura S., Nicholas R. Wheeler, Junheng Ma, Ethan Wang, Carl K. Wang, Ivan Chou, Jiayang Sun, and Roger H. French. (2013) . Package: r-cran-netshiny Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-shinybs, r-cran-shiny, r-cran-shinydashboard, r-cran-colourpicker, r-cran-dt, r-cran-future, r-cran-future.callr, r-cran-ggplot2, r-cran-ggvenndiagram, r-cran-igraph, r-cran-ipc, r-cran-magrittr, r-cran-matrix, r-cran-netgwas, r-cran-plotly, r-cran-promises, r-cran-readxl, r-cran-shinycssloaders, r-cran-shinyjs, r-cran-shinyscreenshot, r-cran-shinywidgets, r-cran-visnetwork Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-netshiny_1.0-1.ca2004.1_all.deb Size: 202844 MD5sum: bf51dc9eef889ab722fe477068a8e6df SHA1: 6f4ca04cb3af78175d2525e302bafe571a62a276 SHA256: 5de04c73f981471189e5a4e140a16439b7778c99244dad68e3636a73510d8950 SHA512: caa8e1245b424ce14ea0e59a6e4f29a6bd01763588870b181a0ac617ed1d9b5befdc1a770f339222b4cd9d490a010955c127f12b12c05631f0c4cc37c9dd2bd2 Homepage: https://cran.r-project.org/package=netShiny Description: CRAN Package 'netShiny' (Tool for Comparison and Visualization of Multiple Networks) We developed a comprehensive tool that helps with visualization and analysis of networks with the same variables across multiple factor levels. The 'netShiny' contains most of the popular network features such as centrality measures, modularity, and other summary statistics (e.g. clustering coefficient). It also contains known tools to look at the (dis)similarities between two networks, such as pairwise distance measures between networks, set operations on the nodes of the networks, distribution of the weights of the edges and a network representing the difference between two correlation matrices. The package 'netShiny' also contains tools to perform bootstrapping and find clusters in networks. See the 'netShiny' manual for more information, documentation and examples. Package: r-cran-netsimr Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 822 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rmarkdown, r-cran-shiny, r-cran-shinybusy, r-cran-future.apply, r-cran-scales, r-cran-future, r-cran-dbi, r-cran-rmysql, r-cran-rodbc, r-cran-rpostgresql, r-cran-rsqlite, r-cran-plotly, r-cran-shinyjs, r-cran-mass, r-cran-fitdistrplus, r-cran-shinywidgets, r-cran-pareto Suggests: r-cran-knitr, r-cran-crch, r-cran-testthat Filename: pool/dists/focal/main/r-cran-netsimr_0.1.5-1.ca2004.1_all.deb Size: 388848 MD5sum: 83ebb478ff5f195e003879568f26866d SHA1: eb7e52c4528ab239cc2e2e8d63fed23fc141cc12 SHA256: 14eed5826047940bbc9a8bd6f4d48f5ae84d4b7693cb59bed18d94bb8eed7915 SHA512: d591b988bd6b2c8f037913cb2acdea02db7b0d3b02a9cfd0156a4f3998459064dc679ad8d5be57602809bc6a579a37fb4006372206cae03a92220fcfde655eb3 Homepage: https://cran.r-project.org/package=NetSimR Description: CRAN Package 'NetSimR' (Actuarial Functions for Non-Life Insurance Modelling) Assists actuaries and other insurance modellers in pricing, reserving and capital modelling for non-life insurance and reinsurance modelling. Provides functions that help model excess levels, capping and pure Incurred but not reported claims (pure IBNR). Includes capped mean, exposure curves and increased limit factor curves (ILFs) for LogNormal, Gamma, Pareto, Sliced LogNormal-Pareto and Sliced Gamma-Pareto distributions. Includes mean, probability density function (pdf), cumulative probability function (cdf) and inverse cumulative probability function for Sliced LogNormal-Pareto and Sliced Gamma-Pareto distributions. Includes calculating pure IBNR exposure with LogNormal and Gamma distribution for reporting delay. Includes three shiny tools, one to simulate insurance claims applying reinsurance structures, fit generalised linear models and fit claims frequency or severity distributions. Methods used in the package refer to Free for All by Yiannis Parizas (2023) ; Escaping the triangle by Yiannis Parizas (2019) ; Take to excess by Yiannis Parizas (2019) . Package: r-cran-netstat Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1664 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-netstat_0.1.2-1.ca2004.1_all.deb Size: 1651600 MD5sum: a30649366bd1445bb4b4489805d1437d SHA1: 8ab83d20093624b1060890af32353bdfc9479c80 SHA256: be04a8d8aee7e0b2494743f485915ccfe0912ba948cc7cbe9c7602199c0cb5e0 SHA512: be59d3afc20ba91d6fd04ccfebd9489ff7f4d0b9bb52df90eb94d0023c49c5a3df2925537fd3f806e819fb49054164254519f55657d04d7f55c15b2050fab8cb Homepage: https://cran.r-project.org/package=netstat Description: CRAN Package 'netstat' (Retrieve Network Statistics Including Available TCP Ports) R interface for the 'netstat' command line utility used to retrieve and parse commonly used network statistics, including available and in-use transmission control protocol (TCP) ports. Primers offering technical background information on the 'netstat' command line utility are available in the "Linux System Administrator's Manual" by Michael Kerrisk (2014) , and on the Microsoft website (2017) . 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The package implements a hidden Markov network change point model (Park and Sohn (2020)). Functions for break number detection using the approximate marginal likelihood and WAIC are also provided. 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Network structures are estimated with l1-regularization. The Network Comparison Test is suited for comparison of independent (e.g., two different groups) and dependent samples (e.g., one group that is measured twice). See van Borkulo et al. (2021), available from . 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(2022), : network structure invariance, global strength invariance, edge invariance, and various centrality measures. Edgelists from dependent or independent samples are used as input. These edgelists are generated from concept maps and summed into two comparable group networks. The networks can be directed or undirected. 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This package implements the following distributions: The Power Muth Distribution, a Bimodal Weibull Distribution, the Discrete Lindley Distribution, The Gamma-Lomax Distribution, Weighted Geometric Distribution, a Power Log-Dagum Distribution, Kumaraswamy Distribution, Lindley Distribution, the Unit-Inverse Gaussian Distribution, EP Distribution, Akash Distribution, Ishita Distribution, Maxwell Distribution, the Standard Omega Distribution, Slashed Generalized Rayleigh Distribution, Two-Parameter Rayleigh Distribution, Muth Distribution, Uniform-Geometric Distribution, Discrete Weibull Distribution. 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Package: r-cran-nfca Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nfca_0.3-1.ca2004.1_all.deb Size: 93524 MD5sum: 5f181f4c8f7bb876574c9b6d725414eb SHA1: a306eeb55461eb42a4fa83278ac8b40521ac13ae SHA256: ae1d5d8861495ad7a7d502016d586870caeec94bc60dbeffcd0245dbfde66163 SHA512: 27953016c3600de20f1b8e91a73c4dc96e497dac02850dca8b6afdc20c3f1aed6a226bc9e3aa70f2e96b590e7b89f10503d3a728e1458a1053bf3a8e2e48deb9 Homepage: https://cran.r-project.org/package=nFCA Description: CRAN Package 'nFCA' (Numerical Formal Concept Analysis for Systematic Clustering) Numerical Formal Concept Analysis (nFCA) is a modern unsupervised learning tool for analyzing general numerical data. 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Commodity pricing models that capture market dynamics are of great importance to commodity market participants in order to exercise sound investment and risk-management strategies. Parameters of commodity pricing models are estimated through maximum likelihood estimation, using available term structure futures data of a commodity. 'NFCP' (n-factor commodity pricing) provides a framework for the modeling, parameter estimation, probabilistic forecasting, option valuation and simulation of commodity prices through state space and Monte Carlo methods, risk-neutral valuation and Kalman filtering. 'NFCP' allows the commodity pricing model to consist of n correlated factors, with both random walk and mean-reverting elements. The n-factor commodity pricing model framework was first presented in the work of Cortazar and Naranjo (2006) . Examples presented in 'NFCP' replicate the two-factor crude oil commodity pricing model presented in the prolific work of Schwartz and Smith (2000) with the approximate term structure futures data applied within this study provided in the 'NFCP' package. 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Package: r-cran-nhlapi Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 661 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-nhlapi_0.1.4-1.ca2004.1_all.deb Size: 552220 MD5sum: cfd40a19a1c9623af353539095e423b5 SHA1: 3fea5df24fc3f4841357208d5e74856ba90d4164 SHA256: d744391a950945fdc3255f50222d7ee600e5090d8aad9cccad7c8f45d1dba5b9 SHA512: 0d56de94df73918f7df2badfaad6b02519f0f9e98469fe95bf2a1d050b5b61ca295e87bf9f7e83f4546a0e5a8786a9ed10812207ea5455c0e1bfd8a5331efe85 Homepage: https://cran.r-project.org/package=nhlapi Description: CRAN Package 'nhlapi' (A Minimum-Dependency 'R' Interface to the 'NHL' API) Retrieves and processes the data exposed by the open 'NHL' API. This includes information on players, teams, games, tournaments, drafts, standings, schedules and other endpoints. 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Package: r-cran-nhlscrape Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 353 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-rsqlite, r-cran-rvest, r-cran-dbi, r-cran-xml2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-nhlscrape_0.1.3-1.ca2004.1_all.deb Size: 82532 MD5sum: 77a022b4bd574452b8f3276205fd345f SHA1: 721acd7990ece31fcfd89896f722806e40d4f8aa SHA256: 3d8577e016a57f3d83b547bd8ea7ede247ec6448b7e75bddcd521354eec0efa7 SHA512: dd2031db55399668821aab8c11c7e7cc86154c7217ec69f064e582c22214584982809cb6ec22e2805da081e6678e39705863d377b5a50c29e1166812a503844e Homepage: https://cran.r-project.org/package=nhlscrape Description: CRAN Package 'nhlscrape' (Scrapes the 'NHL' API for Statistical Analysis) Add game events to a database file to use for statistical analysis of hockey games. This means we only call the 'NHL' API once for each game we want to add. 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Package: r-cran-nhpoisson Architecture: all Version: 3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 481 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car Filename: pool/dists/focal/main/r-cran-nhpoisson_3.3-1.ca2004.1_all.deb Size: 442504 MD5sum: 753d5b033e701c0cca9e001107670101 SHA1: 4aa65e12a325ca3d2da41291d7b135406d1f580a SHA256: 3c321259c6e1485e22ad2e70598cbe87da87408a300c1dbc4db132ef09bb51c6 SHA512: cc4dd99b500c0aefe3adb49765b54d06f6e323133c5bb28d463cef08af5060df9de728da28cfb6dad776418dd5f03f4968d32ee7cf3d502781792254c4befa0e Homepage: https://cran.r-project.org/package=NHPoisson Description: CRAN Package 'NHPoisson' (Modelling and Validation of Non Homogeneous Poisson Processes) Tools for modelling, ML estimation, validation analysis and simulation of non homogeneous Poisson processes in time. Package: r-cran-nhs.predict Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nhs.predict_1.4.0-1.ca2004.1_all.deb Size: 54592 MD5sum: de50294bc21282fd05900e451e774b47 SHA1: 9b37d83b7f85c074326f6af3bf2d182728f3451a SHA256: 1384703f1e4d62d6e902b7a4e98f4cdca24bc16d846e63d78e77fdfa635f0172 SHA512: a552986f7c50098a741164babf9f550451f383956bcb89795dc75769413c9ff5b74f76d60649358c6220214a21155e1d1b12a12e5aa13423a5967d054e28d1b9 Homepage: https://cran.r-project.org/package=nhs.predict Description: CRAN Package 'nhs.predict' (Breast Cancer Survival and Therapy Benefits) Calculate Overall Survival or Recurrence-Free Survival for breast cancer patients, using 'NHS Predict'. The time interval for the estimation can be set up to 15 years, with default at 10. Incremental therapy benefits are estimated for hormone therapy, chemotherapy, trastuzumab, and bisphosphonates. An additional function, suited for SCAN audits, features a more user-friendly version of the code, with fewer inputs, but necessitates the correct standardised inputs. This work is not affiliated with the development of 'NHS Predict' and its underlying statistical model. Details on 'NHS Predict' can be found at: . The web version of 'NHS Predict': . A small dataset of 50 fictional patient observations is provided for the purpose of running examples with the main two functions, and an additional dataset is provided for running example with the dedicated SCAN function. 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The intended usage is to access the data elements section of the NHS Data Dictionary to access key lookups. The benefits of having it in this package are that the lookups are the live lookups on the website and will not need to be maintained. This package was commissioned by the NHS-R community to provide this consistency of lookups. The OpenSafely lookups have now been added . 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The UK's National Health Service issues NHS numbers to all users of its services and this package implements functions for verifying that the numbers are valid according to the checksum scheme the NHS use. Numbers can be validated and checksums created. 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This package contains synthetic data based on real healthcare datasets, or cuts of open-licenced official data. This package exists to support skills development in the NHS-R community: . Package: r-cran-nhsrplotthedots Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 595 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-dplyr, r-cran-rlang, r-cran-crayon, r-cran-nhsrdatasets, r-cran-assertthat Suggests: r-cran-covr, r-cran-lintr, r-cran-testthat, r-cran-rmarkdown, r-cran-knitr, r-cran-mockery, r-cran-withr, r-cran-spelling Filename: pool/dists/focal/main/r-cran-nhsrplotthedots_0.1.0-1.ca2004.1_all.deb Size: 396408 MD5sum: b0642ecc7535f40e38838fbe4c60b609 SHA1: c8a1b80baaa1e8623da5786b001bacbc898216c5 SHA256: a6039552392967840f86cf0042a1d163f6cac7906d1b97d76d401222cf440483 SHA512: c6aeb709ed0af2f8f36e9f4b0e54fb88c2a8650f4155a7999f0191cd4e0243b67523f4c79fc1a446b4c0a6ad5dc1b7ac2b8f107cf4c2e351b1d92e50380836e3 Homepage: https://cran.r-project.org/package=NHSRplotthedots Description: CRAN Package 'NHSRplotthedots' (Draw XmR Charts for NHSE/I 'Making Data Count' Programme) Provides tools for drawing Statistical Process Control (SPC) charts. This package supports the NHSE/I programme 'Making Data Count', and allows users to draw XmR charts, use change points and apply rules with summary indicators for when rules are breached. Package: r-cran-nhsrwaitinglist Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 628 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-rlang, r-cran-randomnames Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-nhsrwaitinglist_0.1.1-1.ca2004.1_all.deb Size: 367020 MD5sum: 1bfeb590f306d047afaa7e21d93395e6 SHA1: d0a0506a50a31d66825998cdf5c4dbc5302c150e SHA256: 10e014468dddb4087340f6d701d5404dfe266829f7a92618c4249b66c182b827 SHA512: a4d98f83594ca9b95b07d52857a6e953aec6c5776ed364691585e00b0068412fc9809aa370814c2289f6e1a365e22fc3dd95d31cbc2cddc4b9d3d33f1f0e2975 Homepage: https://cran.r-project.org/package=NHSRwaitinglist Description: CRAN Package 'NHSRwaitinglist' (Waiting List Metrics Using Queuing Theory) Waiting list management using queuing theory to analyse, predict and manage queues, based on the approach described in Fong et al. (2022) . Aimed at UK National Health Service (NHS) applications, waiting list summary statistics, target-value calculations, waiting list simulation, and scheduling functions are included. 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More specifically, this package provides functions to plot Chi-Squared, F, t (one- and two-tailed) and z (one- and two-tailed) tests, by plotting the probability density under the null hypothesis as a function of the different test statistic values. Although highly flexible (color theme, fonts, etc.), only the minimal number of arguments (observed test statistic, degrees of freedom) are necessary for a clear and useful graph to be plotted, with the observed test statistic and the p value, as well as their corresponding value labels. The axes are automatically scaled to present the relevant part and the overall shape of the probability density function. This package is especially intended for education purposes, as it provides a helpful support to help explain the Null Hypothesis Significance Testing process, its use and/or shortcomings. Package: r-cran-niarules Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 293 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-niarules_0.2.0-1.ca2004.1_all.deb Size: 111668 MD5sum: 11a6eac92a5a9eeda1010af655f6cb0e SHA1: 1c8845a9ea4f5d1493c00fe62284e4cc5f9d28a8 SHA256: 36168b2980ad34334d38b561cbe22acb03cf2267b6a63915019cdb48aa754b88 SHA512: 53bdc3debd220903fe1f5f74c76f9b9b9b86060633b9594be4990cb51ede677c5aa94f45474e9c07c8780faaa85e97555ca7979fde3dda8b04d06bbee7e280d2 Homepage: https://cran.r-project.org/package=niarules Description: CRAN Package 'niarules' (Numerical Association Rule Mining using Population-BasedNature-Inspired Algorithms) Framework is devoted to mining numerical association rules through the utilization of nature-inspired algorithms for optimization. Drawing inspiration from the 'NiaARM' 'Python' and the 'NiaARM' 'Julia' packages, this repository introduces the capability to perform numerical association rule mining in the R programming language. Fister Jr., Iglesias, Galvez, Del Ser, Osaba and Fister (2018) . Package: r-cran-nic Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1712 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-palmerpenguins, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-nic_0.0.2-1.ca2004.1_all.deb Size: 1604468 MD5sum: df97f1d9954e8e50338f9bbb7e580a91 SHA1: 0881c049a7e73df508d8cd180fa441f12dee5881 SHA256: 8e58a2a512c339344e14e957fbf5e6155cfc0068c44f0406cfebc683c8e6c978 SHA512: 887db9376caa8e58c101be390cf5be35a6c07ba809ed36ac5eefbde832db201bfa844e2ccacfde7d58bf814f9b3af9ae31e13b1ffcd6e7e8f3d0f2c410ff7a03 Homepage: https://cran.r-project.org/package=nic Description: CRAN Package 'nic' (Nature Inspired Colours) Color palettes based on nature inspired colours in "Sri Lanka". Package: r-cran-nichebarcoding Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-dismo, r-cran-e1071, r-cran-maps, r-cran-proc, r-cran-randomforest, r-cran-raster, r-cran-rjava, r-cran-spider, r-cran-vegan Suggests: r-cran-rmarkdown, r-cran-covr, r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-nichebarcoding_1.0-1.ca2004.1_all.deb Size: 1063440 MD5sum: 6f6f987858c2fa865d5bcbbbd087b169 SHA1: 77f83c3956eb49a9ea8e76de246ffc11b4b21687 SHA256: 3d125ddfe10900d69f0ce98f2547f69ee1e2e840d83e74f3ab514e70bae79c2f SHA512: ccb829315496ea6bc7f4a7fb0e7bfb8f8542db4568e7aef295d865d27ae8e78a4cef5ddd0e4f324e8d0f4e057e51a8b68328c303d26d358c93735cf15870b558 Homepage: https://cran.r-project.org/package=NicheBarcoding Description: CRAN Package 'NicheBarcoding' (Niche-model-Based Species Identification) Species Identification using DNA Barcodes Integrated with Environmental Niche Models. Package: r-cran-nicherover Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 793 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-nicherover_1.1.2-1.ca2004.1_all.deb Size: 568964 MD5sum: fd2972a7aec5beac5267c8f14fd69e42 SHA1: 8d7ea1f839e0ec8b8e2bb459fc513c28a0a8480a SHA256: 24fae6d886db6abed5b9dbd8ab4f9fe007d00b94110fb9bd3c0c0d5316904c96 SHA512: ac1a058729f57c60f31acc661264bc4a9f2841a71ee6542aa7558a1d0372d1b60a43962d2145bac06798580add6a6ffd17340eb343bd23bce4b633a93d561e49 Homepage: https://cran.r-project.org/package=nicheROVER Description: CRAN Package 'nicheROVER' (Niche Region and Niche Overlap Metrics for MultidimensionalEcological Niches) Implementation of a probabilistic method to calculate 'nicheROVER' (_niche_ _r_egion and niche _over_lap) metrics using multidimensional niche indicator data (e.g., stable isotopes, environmental variables, etc.). The niche region is defined as the joint probability density function of the multidimensional niche indicators at a user-defined probability alpha (e.g., 95%). Uncertainty is accounted for in a Bayesian framework, and the method can be extended to three or more indicator dimensions. It provides directional estimates of niche overlap, accounts for species-specific distributions in multivariate niche space, and produces unique and consistent bivariate projections of the multivariate niche region. The article by Swanson et al. (2015) provides a detailed description of the methodology. See the package vignette for a worked example using fish stable isotope data. Package: r-cran-nichetools Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2005 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-ellipse, r-cran-lifecycle, r-cran-nicherover, r-cran-purrr, r-cran-rlang, r-cran-siber, r-cran-tibble, r-cran-tidyr Suggests: r-cran-bayestestr, r-cran-ggplot2, r-cran-ggdist, r-cran-ggtext, r-cran-ggh4x, r-cran-janitor, r-cran-knitr, r-cran-patchwork, r-cran-rjags, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat, r-cran-viridis Filename: pool/dists/focal/main/r-cran-nichetools_0.3.2-1.ca2004.1_all.deb Size: 1687576 MD5sum: 06079b196bb89d94fa9447fc37e5200f SHA1: 92b7f948f5cc1e92cea9f1e26e863dad2146870f SHA256: dcf18a2bbbabaf718ad448122815aa506ddb45cfc2545547f708944bb33a19a3 SHA512: bd04a022c4e1159807fc1fb924c972aea67de6a156a0d315c24f59ac386c27207bbbb2fba8f46bce754c1c7d850810a66d43cfa940ef8dd5c06ba70ee15e6111 Homepage: https://cran.r-project.org/package=nichetools Description: CRAN Package 'nichetools' (Complementary Package to 'nicheROVER' and 'SIBER') Provides functions complementary to packages 'nicheROVER' and 'SIBER' allowing the user to extract Bayesian estimates from data objects created by the packages 'nicheROVER' and 'SIBER'. Please see the following publications for detailed methods on 'nicheROVER' and 'SIBER' Hansen et al. (2015) , Jackson et al. (2011) , and Layman et al. (2007) , respectfully. Package: r-cran-nichevol Architecture: all Version: 0.1.20-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1035 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ape, r-cran-castor, r-cran-geiger, r-cran-stringr, r-cran-terra Suggests: r-cran-knitr, r-cran-phytools Filename: pool/dists/focal/main/r-cran-nichevol_0.1.20-1.ca2004.1_all.deb Size: 422076 MD5sum: df63b76a8b944cd1a50169aa0d5dd26d SHA1: 7f7cddd5030bfa0d2c56461d01bec8e8f3d27269 SHA256: 552e2de834de1484aade66e69dd1dc81de899db370c83b0b582af895343a3dd8 SHA512: fa1fa15353fd0af68f3e88b3e53376acbaf875e9fba8df6a98c3de44606a8855f79db0a94f6ceaea68eec7cdbb4773b8c8c10941a962a69fa34968f170aafc7b Homepage: https://cran.r-project.org/package=nichevol Description: CRAN Package 'nichevol' (Tools for Ecological Niche Evolution Assessment ConsideringUncertainty) A collection of tools that allow users to perform critical steps in the process of assessing ecological niche evolution over phylogenies, with uncertainty incorporated explicitly in reconstructions. The method proposed here for ancestral reconstruction of ecological niches characterizes species' niches using a bin-based approach that incorporates uncertainty in estimations. Compared to other existing methods, the approaches presented here reduce risk of overestimation of amounts and rates of ecological niche evolution. The main analyses include: initial exploration of environmental data in occurrence records and accessible areas, preparation of data for phylogenetic analyses, executing comparative phylogenetic analyses of ecological niches, and plotting for interpretations. Details on the theoretical background and methods used can be found in: Owens et al. (2020) , Peterson et al. (1999) , Soberón and Peterson (2005) , Peterson (2011) , Barve et al. (2011) , Machado-Stredel et al. (2021) , Owens et al. (2013) , Saupe et al. (2018) , and Cobos et al. (2021) . Package: r-cran-nifti.io Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 478 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nifti.io_1.0.0-1.ca2004.1_all.deb Size: 389744 MD5sum: 788c0281f54cab8b930e67151be44369 SHA1: 06da0f63f548b13477b4366df33b7b6c3c832c12 SHA256: 51676abcfdbbc77c02211636b98737a913a0bb262ebad596f98615898744671a SHA512: 4c6b31a172cf5e2dad759d7f4ac18beda83df99d1a31f96c7f69c47219f80aa27ec3bef4eb01a28bd033e8719b33ba19f22d5d8f103a79fe13c5f620881f178c Homepage: https://cran.r-project.org/package=nifti.io Description: CRAN Package 'nifti.io' (Read and Write NIfTI Files) Tools for reading and writing NIfTI-1.1 (NII) files, including optimized voxelwise read/write operations and a simplified method to write dataframes to NII. Specification of the NIfTI-1.1 format can be found here . Scientific publication first using these tools Koscik TR, Man V, Jahn A, Lee CH, Cunningham WA (2020) "Decomposing the neural pathways in a simple, value-based choice." Neuroimage, 214, 116764. 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This approach overcomes the problems of both voxel-based correlations (neighbor voxels may be spatially dependent) and atlas-based correlations (the correlation may depend on the atlas used). Package: r-cran-nightday Architecture: all Version: 1.0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maps Filename: pool/dists/focal/main/r-cran-nightday_1.0.1.1-1.ca2004.1_all.deb Size: 21936 MD5sum: 59529c589efd398b1227c5f96aeac337 SHA1: 2071ffc6580cfd5b139481430616e102cd046607 SHA256: fbda78f79edbbcba147ee5e50ae4fed03aec403042c7a764d00e7b8fca91054d SHA512: 455d19ce194ded6c82ef400160a73128057aa1b8bd9d26e81b656715acd2733209d582aeba71931f5944f3b513d33e8fb72d69d4f82b65288dc05b6efe69bde3 Homepage: https://cran.r-project.org/package=NightDay Description: CRAN Package 'NightDay' (Night and Day Boundary Plot Function) Computes and plots the boundary between night and day. Package: r-cran-nightmares Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7072 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-sp, r-cran-rgdal Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-nightmares_0.0.2-1.ca2004.1_all.deb Size: 1812920 MD5sum: 56877c37db2aa5c655833a45b8cdf106 SHA1: a7acdeaf111873f6662033cce39f5b163ecb65d9 SHA256: 66a61dcb078925aa11ff5cff5407bba5dd8e6debcb6edd78221dede2e4bb0fa5 SHA512: cd456fc504f8045262103c05801351ffa3df5492df2bcf09ebbd144ae8331b26a72eeefb4cc1f0d7df8bb10802063ba23baa8739b087d18e86e3583f2702de83 Homepage: https://cran.r-project.org/package=nightmares Description: CRAN Package 'nightmares' (Common Analysis with Remote Sensing Data) A collection of functions used in remote sensing analysis (e.g., conversion from digital numbers to radiance, reflectance, and temperature). It includes several algorithms to calculate the albedo: Liang (2000) , Silva et al. (2016) , Tasumi et al. (2008) , among others; and include functions to derive several spectral indices. Although the current version implements basic functions, it will be expandable to a more robust tool for water cycle modeling (e.g., to include surface runoff and evapotranspiration calculations) in the near future. This package is under development at the Institute about Natural Resources Research (INIRENA) from the Universidad Michoacana de San Nicolas de Hidalgo. 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A full User Manual is available at . 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"Short-term real-time prediction of total number of reported COVID-19 cases and deaths in South Africa: a data driven approach". BMC medical research methodology, 21(1), 1-11. . 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Package: r-cran-nlpembeds Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-magrittr, r-cran-matrix, r-cran-rcppalgos, r-cran-reshape2, r-cran-rsqlite, r-cran-rsvd Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-nlpembeds_1.0.0-1.ca2004.1_all.deb Size: 113020 MD5sum: 0a04e24a8b239d861e3f78c88f040743 SHA1: 26acbd3b7f8c060916e937f247ef13c51be62b64 SHA256: 42276d5e651e78ae237892af7f3e22fd324e8f3b01d3fe5cd7394e077e789e7e SHA512: 96ae3cd3db3b3ef5fec4d1b8f153655262fbe3836da6f99e6b20f3af69a0d231066d47beec9f38149a977bd654dbbf93e522a83b2d23472218ee9c3565c980c5 Homepage: https://cran.r-project.org/package=nlpembeds Description: CRAN Package 'nlpembeds' (Natural Language Processing Embeddings) Provides efficient methods to compute co-occurrence matrices, pointwise mutual information (PMI) and singular value decomposition (SVD). In the biomedical and clinical settings, one challenge is the huge size of databases, e.g. when analyzing data of millions of patients over tens of years. To address this, this package provides functions to efficiently compute monthly co-occurrence matrices, which is the computational bottleneck of the analysis, by using the 'RcppAlgos' package and sparse matrices. Furthermore, the functions can be called on 'SQL' databases, enabling the computation of co-occurrence matrices of tens of gigabytes of data, representing millions of patients over tens of years. Partly based on Hong C. (2021) . Package: r-cran-nlpred Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1508 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-superlearner, r-cran-cvauc, r-cran-rocr, r-cran-rdpack, r-cran-bde, r-cran-np, r-cran-assertthat Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-prettydoc, r-cran-randomforest, r-cran-ranger, r-cran-xgboost, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-nlpred_1.0.1-1.ca2004.1_all.deb Size: 1168252 MD5sum: 5836f377f07a7dca94bb8855bea80d77 SHA1: 6f60dc79089eee60243fec81b35d7b4266770d0a SHA256: 9cdb0c9d0297c4d70c9bc2c7a5517f0426ff4766c89171da250dc4204bbb092d SHA512: e33c047d0f500c4765971f2b029da400bb16e65d43e0a1fffc8145f3111a2f7929e12c6cc377599b45add19f8842b96947996479c8f26d2005b77f4f0d60f1c9 Homepage: https://cran.r-project.org/package=nlpred Description: CRAN Package 'nlpred' (Estimators of Non-Linear Cross-Validated Risks Optimized forSmall Samples) Methods for obtaining improved estimates of non-linear cross-validated risks are obtained using targeted minimum loss-based estimation, estimating equations, and one-step estimation (Benkeser, Petersen, van der Laan (2019), ). Cross-validated area under the receiver operating characteristics curve (LeDell, Petersen, van der Laan (2015), ) and other metrics are included. Package: r-cran-nlpsem Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6200 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-openmx, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-stringr, r-cran-matrix, r-cran-nnet, r-cran-readr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-nlpsem_0.3-1.ca2004.1_all.deb Size: 5418552 MD5sum: 4b14e2bc7bf6d20c5f93fb1d11ce46a4 SHA1: d5fefcaa905f74e8aeb95dc47daddcafe885ff59 SHA256: 39d0a1246d3a766c61645f6a096c1ff31de628608a9c78477aceb49a19e4f1b9 SHA512: c8534f76b30ad0251aa33e7392f0b37baa92b2adc6b21f9e510276829f0bc6f935c869d655a1c30caffb54bf294c6a38e0decde59ad44ef46fa417eb0efe78df Homepage: https://cran.r-project.org/package=nlpsem Description: CRAN Package 'nlpsem' (Linear and Nonlinear Longitudinal Process in Structural EquationModeling Framework) Provides computational tools for nonlinear longitudinal models, in particular the intrinsically nonlinear models, in four scenarios: (1) univariate longitudinal processes with growth factors, with or without covariates including time-invariant covariates (TICs) and time-varying covariates (TVCs); (2) multivariate longitudinal processes that facilitate the assessment of correlation or causation between multiple longitudinal variables; (3) multiple-group models for scenarios (1) and (2) to evaluate differences among manifested groups, and (4) longitudinal mixture models for scenarios (1) and (2), with an assumption that trajectories are from multiple latent classes. The methods implemented are introduced in Jin Liu (2023) . Package: r-cran-nlputils Architecture: all Version: 0.0-5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-nlp, r-cran-snowballc, r-cran-qdap Filename: pool/dists/focal/main/r-cran-nlputils_0.0-5.1-1.ca2004.1_all.deb Size: 18560 MD5sum: 264c113f7b4eb3e3ba2d77d6c527599f SHA1: 582c860bfdcdad91d69551d6491ea07720e0e802 SHA256: 3960aa0edca6b6da0b2022e8c9f8feea836580485edfe6932f09abbff5ccf5c0 SHA512: e2cd6ab4b9abf6e0dc6eec2625f41b016ab83b4fed37a81d78846544a3c5ece1f622549855a92bbded0d0668e62015f75f4552a8bd09ba6337a3be3f73685c7b Homepage: https://cran.r-project.org/package=NLPutils Description: CRAN Package 'NLPutils' (Natural Language Processing Utilities) Utilities for Natural Language Processing. Package: r-cran-nlraa Architecture: all Version: 1.9.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4649 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-knitr, r-cran-mass, r-cran-matrix, r-cran-mgcv, r-cran-nlme Suggests: r-cran-bbmle, r-cran-car, r-cran-emmeans, r-cran-ggplot2, r-cran-lattice, r-cran-minpack.lm, r-cran-nistnls, r-cran-nlstools, r-cran-nls2, r-cran-rmarkdown, r-cran-segmented Filename: pool/dists/focal/main/r-cran-nlraa_1.9.7-1.ca2004.1_all.deb Size: 3425780 MD5sum: 81ea6804ccabcaab3ab4d9bf867dad6f SHA1: 681cf61139b8dadb968040b63da98966f70b5be6 SHA256: 59b86cd2223a08a3815af1d85e0b3a338cce05efa5bcf6a40bed42554c75b3fa SHA512: a3575b121a5896651058049e622dacc9d1b8a7187acad0393498804fbb2999b4f8813e122a281d04b19c6cfbf5abae6303fc5e9ffdf6a25e7f9192894e3ec73e Homepage: https://cran.r-project.org/package=nlraa Description: CRAN Package 'nlraa' (Nonlinear Regression for Agricultural Applications) Additional nonlinear regression functions using self-start (SS) algorithms. One of the functions is the Beta growth function proposed by Yin et al. (2003) . There are several other functions with breakpoints (e.g. linear-plateau, plateau-linear, exponential-plateau, plateau-exponential, quadratic-plateau, plateau-quadratic and bilinear), a non-rectangular hyperbola and a bell-shaped curve. Twenty eight (28) new self-start (SS) functions in total. This package also supports the publication 'Nonlinear regression Models and applications in agricultural research' by Archontoulis and Miguez (2015) , a book chapter with similar material and a publication by Oddi et. al. (2019) in Ecology and Evolution . The function 'nlsLMList' uses 'nlsLM' for fitting, but it is otherwise almost identical to 'nlme::nlsList'.In addition, this release of the package provides functions for conducting simulations for 'nlme' and 'gnls' objects as well as bootstrapping. These functions are intended to work with the modeling framework of the 'nlme' package. It also provides four vignettes with extended examples. Package: r-cran-nlreg Architecture: all Version: 1.2-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 742 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-statmod, r-cran-survival Suggests: r-cran-boot, r-cran-cond, r-cran-csampling, r-cran-marg Filename: pool/dists/focal/main/r-cran-nlreg_1.2-4-1.ca2004.1_all.deb Size: 578340 MD5sum: a00c906adcdf403aa33404b409eafc12 SHA1: 27b55ce2ef6cb2241a0800e3da5c6c7469d22455 SHA256: 4868009eb6c8576f3e92a72ce9a17aa802bbbe1f65917a96e3248afa79ffb0e4 SHA512: 17081ea2ed13e171c44eca6d5ae6d6ccb134d20db0ca53fa93964249aa45cffc6bc92e2b4060711c0d4cafc39e03b91a6bbcc6f0f85a5c354cafaf153d7b4b34 Homepage: https://cran.r-project.org/package=nlreg Description: CRAN Package 'nlreg' (Higher Order Inference for Nonlinear Heteroscedastic Models) Implements likelihood inference based on higher order approximations for nonlinear models with possibly non constant variance. 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'nlrx' experiments use a similar structure as 'NetLogos' Behavior Space experiments. However, 'nlrx' offers more flexibility and additional tools for running and analyzing complex simulation designs and sensitivity analyses. The user defines all information that is needed in an intuitive framework, using class objects. Experiments are submitted from 'R' to 'NetLogo' via 'XML' files that are dynamically written, based on specifications defined by the user. By nesting model calls in future environments, large simulation design with many runs can be executed in parallel. This also enables simulating 'NetLogo' experiments on remote high performance computing machines. In order to use this package, 'Java' and 'NetLogo' (>= 5.3.1) need to be available on the executing system. Package: r-cran-nls.multstart Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 338 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-minpack.lm, r-cran-purrr, r-cran-dplyr, r-cran-tidyr, r-cran-tibble, r-cran-lhs, r-cran-cli, r-cran-rlang Suggests: r-cran-ggplot2, r-cran-broom, r-cran-nlstools, r-cran-testthat Filename: pool/dists/focal/main/r-cran-nls.multstart_2.0.0-1.ca2004.1_all.deb Size: 295224 MD5sum: 8996eabfd7a8e26bd83a24e7f9b65f29 SHA1: 893d150e6787d0a10fd89bb0a8b6ed3da85eab8c SHA256: 8b802e547bd860dd2f7789dc5d3647e2f1510532d61ec0ee406140241e9e46f0 SHA512: ad54aeeb90f8fdbc94a38779d8fdb167d6c35d018f3297adb6e5017cd738bebc78a20e9b33cd37775b6ee233195a04beeb1e93dc4b3214f16cb35fb7ba0ceed1 Homepage: https://cran.r-project.org/package=nls.multstart Description: CRAN Package 'nls.multstart' (Robust Non-Linear Regression using AIC Scores) Non-linear least squares regression with the Levenberg-Marquardt algorithm using multiple starting values for increasing the chance that the minimum found is the global minimum. 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Linear problems are solved by dense QR decomposition from 'LAPACK' which can limit the size of treated problems. On the other side, we avoid condition number degradation which happens in classical quadratic programming approach. Inequality constraints treatment on each non linear iteration is based on 'NNLS' method (by Lawson and Hanson). We provide an original function 'lsi_ln' for solving linear least squares problem with inequality constraints in least norm sens. Thus if Jacobian of the problem is rank deficient a solution still can be provided. However, truncation errors are probable in this case. Equality constraints are treated by using a basis of Null-space. User defined function calculating residuals must return a list having residual vector (not their squared sum) and Jacobian. If Jacobian is not in the returned list, package 'numDeriv' is used to calculated finite difference version of Jacobian. The 'NLSIC' method was fist published in Sokol et al. (2012) . 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Quickly get started with new models by importing 'NONMEM' templates from the built-in code library. Manipulate 'NONMEM' code from within R either via the tracked 'manual edit' interface or 'programmatically' via convenience functions. Script 'workflows' by piping sequences of model building steps from control file creation, to execution, to post-processing and evaluation. Run caching makes 'workflows' R markdown friendly for easy documentation of thoughts and modelling decisions alongside executable code. Share, reuse and recycle 'workflows' for new problems. 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The 'NMVANOVA' (Novice Model Variation ANOVA) a streamlined variation of experimental design functions that allows novice 'Rstudio' users to perform different model variations one-way analysis of variance without downloading multiple libraries or packages. Users can easily manipulate the data block, and needed inputs so that users only have to plugin the four designed variables/values. Package: r-cran-nmw Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 439 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-nmw_0.1.5-1.ca2004.1_all.deb Size: 226840 MD5sum: 6ff50410f13cf6d8215e0f6ce7a8c03f SHA1: 5ec77ee9fecac998fd5afaa5d510414950d5d93e SHA256: 5c9a62735ac7b0b29535fde25434109866ba5e6a2a9a0d755f53459de15ba5eb SHA512: 45e19473facc69df616d76823951ca674e8ea86fc008475e450d458acdb3722e96f4859386f493e04f1a463fcdc062e5c02e75bbbc102a3dac819aa4d6377d98 Homepage: https://cran.r-project.org/package=nmw Description: CRAN Package 'nmw' (Understanding Nonlinear Mixed Effects Modeling for PopulationPharmacokinetics) This shows how NONMEM(R) software works. NONMEM's classical estimation methods like 'First Order(FO) approximation', 'First Order Conditional Estimation(FOCE)', and 'Laplacian approximation' are explained. Package: r-cran-nna Architecture: all Version: 0.0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 42 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nna_0.0.2.1-1.ca2004.1_all.deb Size: 11672 MD5sum: 879a5fdfe747e82749c04fc304452d78 SHA1: 0a547a9a076097855d632106fcb7adfc5764ac74 SHA256: 55944b03ad4af403addc4fdd9a6ef6c04521a52ecdffbd05ee9ed48653e55900 SHA512: 1b9ae47ca05e3043fdb4db20b3af281dce0a03403d8420ae9c19fab1b2534630f0f726d9d95c97eb83e52c0bc028fadec63ce055167e36ba6533e35453905f6f Homepage: https://cran.r-project.org/package=nna Description: CRAN Package 'nna' (Nearest-Neighbor Analysis) Calculates spatial pattern analysis using a T-square sample procedure. This method is based on two measures "x" and "y". "x" - Distance from the random point to the nearest individual. "y" - Distance from individual to its nearest neighbor. This is a methodology commonly used in phytosociology or marine benthos ecology to analyze the species' distribution (random, uniform or clumped patterns). Ludwig & Reynolds (1988, ISBN:0471832359). Package: r-cran-nnbenchmark Architecture: all Version: 3.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1477 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-pkgload Suggests: r-cran-brnn, r-cran-validann Filename: pool/dists/focal/main/r-cran-nnbenchmark_3.2.0-1.ca2004.1_all.deb Size: 1417408 MD5sum: e4ee4af342c6bc6e0d232d4758c693e6 SHA1: b112b71af42a1b21205553f50e8438b37a3a1bd8 SHA256: 78a6c62b90129e6058d3b2c929846712b41e0b60acc66d058405bc1e33a2d52d SHA512: 68dc38b505e645379be8291834e70304c854453d90888ff3922495231b5fc9fa1abb2aa7ac8b016b7b8824e2253256344b33f9fe4eda53fe4ab558d59109dae4 Homepage: https://cran.r-project.org/package=NNbenchmark Description: CRAN Package 'NNbenchmark' (Datasets and Functions to Benchmark Neural Network Packages) Datasets and functions to benchmark (convergence, speed, ease of use) R packages dedicated to regression with neural networks (no classification in this version). The templates for the tested packages are available in the R, R Markdown and HTML formats at and . The submitted article to the R-Journal can be read at . 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Cui, Z., Marder, E. P., Click, E. S., Hoekstra, R. M., & Bruce, B. B. (2022) . Package: r-cran-nndiagram Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2965 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-nndiagram_1.0.0-1.ca2004.1_all.deb Size: 2784060 MD5sum: e84515c7fda0db2ed380945d6313bbbd SHA1: e12659dd3e31c3942bcb8207222e1ff9a927c856 SHA256: e590e098a2fb32d914e0851f316a5274838dd56c5d0e7907e733c3fc8d3c995b SHA512: 798f783dfd5046e22a64b31d6643bea65ec70eb88e867efaec859bc0ad7719c0beb9c4c0523db7581cc74d285bf30071dc19318c27fde314588d3f4b32eebf09 Homepage: https://cran.r-project.org/package=nndiagram Description: CRAN Package 'nndiagram' (Generator of 'LaTeX' Code for Drawing Neural Network Diagramswith 'TikZ') Generates 'LaTeX' code for drawing well-formatted neural network diagrams with 'TikZ'. Users have to define number of neurons on each layer, and optionally define neuron connections they would like to keep or omit, layers they consider to be oversized and neurons they would like to draw with lighter color. They can also specify the title of diagram, color, opacity of figure, labels of layers, input and output neurons. In addition, this package helps to produce 'LaTeX' code for drawing activation functions which are crucial in neural network analysis. To make the code work in a 'LaTeX' editor, users need to install and import some 'TeX' packages including 'TikZ' in the setting of 'TeX' file. Package: r-cran-nnfor Architecture: all Version: 0.9.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-generics, r-cran-forecast, r-cran-glmnet, r-cran-neuralnet, r-cran-plotrix, r-cran-mass, r-cran-tsutils, r-cran-uroot Suggests: r-cran-thief Filename: pool/dists/focal/main/r-cran-nnfor_0.9.9-1.ca2004.1_all.deb Size: 156452 MD5sum: 81dd047493b6199000322656cf69b086 SHA1: 0eed93acb5c3249caa021d74cd40e0c52e58d264 SHA256: f671e99dce0df4c52f92a67af97101faf709be62834aeb7bba16039843b104a4 SHA512: 75c03bf98ea411f57a86df7a974dbf5e9a0e60db20b786370d92a837f88eba145f10fbe508fc2429bb988bd3302119347b2bbed163331aaf55a0b8d08f1502b3 Homepage: https://cran.r-project.org/package=nnfor Description: CRAN Package 'nnfor' (Time Series Forecasting with Neural Networks) Automatic time series modelling with neural networks. Allows fully automatic, semi-manual or fully manual specification of networks. For details of the specification methodology see: (i) Crone and Kourentzes (2010) ; and (ii) Kourentzes et al. (2014) . 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Package: r-cran-nnlasso Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 147 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nnlasso_0.3-1.ca2004.1_all.deb Size: 118152 MD5sum: c787e9eca50bf65bb58d24fd95ef978e SHA1: bfeb69815af81b41b425351ef021ddc2d49d7fc2 SHA256: 2a012d931d80b1ba54a92769f82289e9faec9b4b38be9283ba17fa19dd24e33f SHA512: 813e6036c2284d1b5baa3f326f258ec55cf09d488d48eaea2919e2968c811d26a40457684be6440c573c393d2c8d5e59fedd6ac68d78b447aba78fa3014f79f3 Homepage: https://cran.r-project.org/package=nnlasso Description: CRAN Package 'nnlasso' (Non-Negative Lasso and Elastic Net Penalized Generalized LinearModels) Estimates of coefficients of lasso penalized linear regression and generalized linear models subject to non-negativity constraints on the parameters using multiplicative iterative algorithm. Entire regularization path for a sequence of lambda values can be obtained. Functions are available for creating plots of regularization path, cross validation and estimating coefficients at a given lambda value. There is also provision for obtaining standard error of coefficient estimates. Package: r-cran-nnmis Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-nnmis_1.0.1-1.ca2004.1_all.deb Size: 50380 MD5sum: 253ab3827db93f1921fc843bd3cbad9d SHA1: fbef79997ed11a8b078ae8f034eb7220c87658e1 SHA256: 61e1c539c8fab97f84457af523360ee9c82a8583d1d305643eea873579857577 SHA512: 12aa5850d4b77baa344fc3410f16882f19caad1a8b939f81dbcc172570e125e1b250472b4b1433b6eb696086bfada034fc109096534d3903a5d86c5bf1f9ea2e Homepage: https://cran.r-project.org/package=NNMIS Description: CRAN Package 'NNMIS' (Nearest Neighbor Based Multiple Imputation for Survival Datawith Missing Covariates) Imputation for both missing covariates and censored observations (optional) for survival data with missing covariates by the nearest neighbor based multiple imputation algorithm as described in Hsu et al. (2006) , and Hsu and Yu (2018) . Note that the current version can only impute for a situation with one missing covariate. Package: r-cran-nnr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-nnr_0.1.0-1.ca2004.1_all.deb Size: 147324 MD5sum: af3d44373ea4c04e7b7875ba594c67c9 SHA1: 7a343ea21d4a8d7e8e2558848c2aa966f2baf2d6 SHA256: e0cd8bf4d092e8abac3dba49b675e52a65baffd11aaadb992776f0d33250e366 SHA512: a384b59726e20ec07567c6d4447b06f26381f09a54aea3113479e5e73b0b65d455673f9825ec7314216152292ed53caef824bba59606373e7d8fa65e2b38ae64 Homepage: https://cran.r-project.org/package=nnR Description: CRAN Package 'nnR' (Neural Networks Made Algebraic) Do algebraic operations on neural networks. We seek here to implement in R, operations on neural networks and their resulting approximations. Our operations derive their descriptions mainly from Rafi S., Padgett, J.L., and Nakarmi, U. (2024), "Towards an Algebraic Framework For Approximating Functions Using Neural Network Polynomials", , Grohs P., Hornung, F., Jentzen, A. et al. (2023), "Space-time error estimates for deep neural network approximations for differential equations", , Jentzen A., Kuckuck B., von Wurstemberger, P. (2023), "Mathematical Introduction to Deep Learning Methods, Implementations, and Theory" . Our implementation is meant mainly as a pedagogical tool, and proof of concept. Faster implementations with deeper vectorizations may be made in future versions. Package: r-cran-nnspat Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1299 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-pcds, r-cran-rdpack Filename: pool/dists/focal/main/r-cran-nnspat_0.1.2-1.ca2004.1_all.deb Size: 1198960 MD5sum: bfac8fe979130a487fbf64257822cd89 SHA1: 2384470fd1c96b314d286dd5135c337c89be3ed9 SHA256: 8bb51bea356b1cae9b0bc498a7ab97519fd9fea9c50f3e1fc1d5caa7d9130bca SHA512: 2ae43b6877bc198c4c5cea1965826fefebc33c1b13c6ae2e797f51f86cc154821e11715bab45c7312de726bfd7a0a35aadedaf11089c5a9a40f123782765d153 Homepage: https://cran.r-project.org/package=nnspat Description: CRAN Package 'nnspat' (Nearest Neighbor Methods for Spatial Patterns) Contains the functions for testing the spatial patterns (of segregation, spatial symmetry, association, disease clustering, species correspondence, and reflexivity) based on nearest neighbor relations, especially using contingency tables such as nearest neighbor contingency tables (Ceyhan (2010) and Ceyhan (2017) and references therein), nearest neighbor symmetry contingency tables (Ceyhan (2014) ), species correspondence contingency tables and reflexivity contingency tables (Ceyhan (2018) for two (or higher) dimensional data. The package also contains functions for generating patterns of segregation, association, uniformity in a multi-class setting (Ceyhan (2014) ), and various non-random labeling patterns for disease clustering in two dimensional cases (Ceyhan (2014) ), and for visualization of all these patterns for the two dimensional data. The tests are usually (asymptotic) normal z-tests or chi-square tests. Package: r-cran-nnt Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-survrm2 Filename: pool/dists/focal/main/r-cran-nnt_0.1.4-1.ca2004.1_all.deb Size: 27624 MD5sum: 651c36e2e96911dc7ee66b0975c84b74 SHA1: 16c3c4b021bbf94ce9ab0dd887f634aa3d7dec44 SHA256: 2293053ee4d721537ce8933ca201c9a97be7d0185433c5cef107ebeffefac32e SHA512: dd58979f5d7ef95683e49df2a62c5c39e7751d8c56837b184f233290e84a6a1273b7d92892b34b60140fec45321fa3a93f5b101556bbc19687e9cae20fa7774d Homepage: https://cran.r-project.org/package=nnt Description: CRAN Package 'nnt' (The Number Needed to Treat (NNT) for Survival Endpoint) Estimate the NNT using the proposed method in Yang and Yin's paper (2019) , in which the NNT-RMST (number needed to treat based on the restricted mean survival time) is defined as the RMST (restricted mean survival time) in the control group divided by the difference in RMSTs between the treatment and control groups up to a chosen time t. Package: r-cran-nntbiomarker Architecture: all Version: 0.29.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1253 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-xtable, r-cran-stringr, r-cran-magrittr, r-cran-mvbutils Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-plyr Filename: pool/dists/focal/main/r-cran-nntbiomarker_0.29.11-1.ca2004.1_all.deb Size: 369336 MD5sum: 958c23792e020330307967de753d9be0 SHA1: 3d15d462b795ea0e95893328864f6df1aa63d5f9 SHA256: 3e1b60b4c7f20d06976544c441d945556d8ee0444efea1257ea04fa3c6aac5a9 SHA512: 3d58a68fc03c2e5c5d70307244c43a9cdd3b9e818b935d1b0c3cf8755fc292bcb8d050752a7e94f71cf3f39a3965a543aa260b81ebafa96cc36d9852e2e1ba59 Homepage: https://cran.r-project.org/package=NNTbiomarker Description: CRAN Package 'NNTbiomarker' (Calculate Design Parameters for Biomarker Validation Studies) Helps a clinical trial team discuss the clinical goals of a well-defined biomarker with a diagnostic, staging, prognostic, or predictive purpose. From this discussion will come a statistical plan for a (non-randomized) validation trial. Both prospective and retrospective trials are supported. In a specific focused discussion, investigators should determine the range of "discomfort" for the NNT, number needed to treat. The meaning of the discomfort range, [NNTlower, NNTupper], is that within this range most physicians would feel discomfort either in treating or withholding treatment. A pair of NNT values bracketing that range, NNTpos and NNTneg, become the targets of the study's design. If the trial can demonstrate that a positive biomarker test yields an NNT less than NNTlower, and that a negative biomarker test yields an NNT less than NNTlower, then the biomarker may be useful for patients. A highlight of the package is visualization of a "contra-Bayes" theorem, which produces criteria for retrospective case-controls studies. Package: r-cran-nntensor Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1305 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-fields, r-cran-rtensor, r-cran-plot3d, r-cran-tagcloud, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-nntensor_1.3.0-1.ca2004.1_all.deb Size: 861384 MD5sum: 19e520ee0fcab09b4155e17a1d4d4343 SHA1: 18cf368eb6d668c2ff9e554fe90fcbf34a9af01b SHA256: 4b14ac1fa6badb94e0742fabde77af0d664471bed893d8eeee6140d5f79388c7 SHA512: 639025c373c3c39ffc18cba83ec69a997fa0f1974eaf9db526f24dc0ce72a70214bf8286fb5db74c0706e42c084ccbb46b66e1af66cbaba952b9633601aea93e Homepage: https://cran.r-project.org/package=nnTensor Description: CRAN Package 'nnTensor' (Non-Negative Tensor Decomposition) Some functions for performing non-negative matrix factorization, non-negative CANDECOMP/PARAFAC (CP) decomposition, non-negative Tucker decomposition, and generating toy model data. See Andrzej Cichock et al (2009) and the reference section of GitHub README.md , for details of the methods. Package: r-cran-nntrf Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2598 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnet, r-cran-neuralnettools, r-cran-fnn, r-cran-pracma Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-ggridges, r-cran-tidyr, r-cran-forcats, r-cran-mlr, r-cran-mlrcpo Filename: pool/dists/focal/main/r-cran-nntrf_0.1.4-1.ca2004.1_all.deb Size: 2463752 MD5sum: 12a93d830781ce19c32e30bcf3dbf4a5 SHA1: 9aedd5daab93c8b8a53b283747a143a38bbf64c0 SHA256: 3aa8703685346b2adfab1bbc57e4634808ece0e070edd80b8209714751ef4c6d SHA512: 8afd4057e94f5a361e2ebfa133bc5118a75df721e879596f02df0acd13c57a56e5b77352772b99fb072467f2665c6228cb6747e8bbff54e04ad9ab789c74dedc Homepage: https://cran.r-project.org/package=nntrf Description: CRAN Package 'nntrf' (Supervised Data Transformation by Means of Neural Network HiddenLayer) A supervised transformation of datasets is performed. The aim is similar to that of Principal Component Analysis (PCA), that is, to carry out data transformation and dimensionality reduction, but in a supervised way. This is achieved by first training a 3-layer Multi-Layer Perceptron and then using the activations of the hidden layer as a transformation of the input features. In fact, it takes advantage of the change of representation provided by the hidden layer of a neural network. This can be useful as data pre-processing for Machine Learning methods in general, specially for those that do not work well with many irrelevant or redundant features. It uses the nnet package under the hood. Valls, J.M., Aler, R., Galvan, I.M., and Camacho, D. (2021). "Supervised data transformation and dimensionality reduction with a 3-layer multi-layer perceptron for classification problems". Rumelhart, D.E., Hinton, G.E. and Williams, R.J. (1986) "Learning representations by back-propagating errors" . Package: r-cran-no.ping.pong Architecture: all Version: 0.1.8.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1099 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-metafor, r-cran-mcmcglmm, r-cran-mass Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-no.ping.pong_0.1.8.7-1.ca2004.1_all.deb Size: 1091656 MD5sum: 97a24a788159d85677b5ad9c3965be3c SHA1: cd1aea300246513de48dc495a3249713bb05f78b SHA256: 4fd77bec41e8bdd0d2feaa5cc7dde4bc8b99a9b3ab0091be23770670599da09b SHA512: bb61ceee18de1219744581141fd87910caea97814915c49cb89ad4e49daa8e889d11bab1d6bc8827ee7345a2ee184fa82bd2e0c3dd4dad6b1551ee9845c59e46 Homepage: https://cran.r-project.org/package=NO.PING.PONG Description: CRAN Package 'NO.PING.PONG' (Incorporating Previous Findings When Evaluating New Data) Functions for revealing what happens when effect size estimates from previous studies are taken into account when evaluating each new dataset in a study sequence. The analyses can be conducted for cumulative meta-analyses and for Bayesian data analyses. The package contains sample data for a wide selection of research topics. Jointly considering previous findings along with new data is more likely to result in correct conclusions than does the traditional practice of not incorporating previous findings, which often results in a back and forth ping-pong of conclusions when evaluating a sequence of studies. O'Connor & Ermacora (2021, ). 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Functionality includes matching storm event listings by time and location to hurricane best tracks data. This work was supported by grants from the Colorado Water Center, the National Institute of Environmental Health Sciences (R00ES022631) and the National Science Foundation (1331399). Package: r-cran-noah Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 196 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-hash, r-cran-digest, r-cran-assertthat, r-cran-purrr, r-cran-dplyr, r-cran-magrittr, r-cran-crayon, r-cran-rlang, r-cran-stringr Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-noah_0.1.0-1.ca2004.1_all.deb Size: 165224 MD5sum: ca510c9535a1ed512f8208aec5cfa67c SHA1: da08b079b2a34329806693c8e3c294f4f3805941 SHA256: 0159bdbf327c50ddfa69b01f565e97ffe1ddee2a405a994c8300c67a6b47835a SHA512: 087619c63493bfa5605b3c57af93f067b7a3d8643ac6e054faa03ba216c11d6e41f0d1390505eaec0732bced8c018e453c3f2224d2cf5468c86db69dffe6e9e7 Homepage: https://cran.r-project.org/package=noah Description: CRAN Package 'noah' (Create Unique Pseudonymous Animal Names) Generate pseudonymous animal names that are delightful and easy to remember like the Likable Leech and the Proud Chickadee. 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Node-based analysis of species distributions. Methods in Ecology and Evolution 5(11): 1225-1235. . Package for phylogenetic analysis of species distributions. The main function goes through each node in the phylogeny, compares the distributions of the two descendant nodes, and compares the result to a null model. This highlights nodes where major distributional divergence have occurred. The distributional divergence for these nodes is mapped. 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Package: r-cran-noia Architecture: all Version: 0.97.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 201 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-numderiv Filename: pool/dists/focal/main/r-cran-noia_0.97.3-1.ca2004.1_all.deb Size: 170024 MD5sum: ed59dacf9ba69b8178293f1537e2f39a SHA1: ff15bee5297867bbc2f9ea4105f790a104bced78 SHA256: 84df351c1f6a941f7fb8b448f6b1a7aab739a0c2d5044488dc2d2f3774bb1cf5 SHA512: 5f091d7b4c633b3644f30ffdb300fe0d67318efd6b903c9adf5fa107f4fb3b6ad08a6886dfcf0e0bc215b7765e842f5296f49f8b6df3412f4a9a93fb30bf98de Homepage: https://cran.r-project.org/package=noia Description: CRAN Package 'noia' (Implementation of the Natural and Orthogonal InterAction (NOIA)Model) The NOIA model, as described extensively in Alvarez-Castro & Carlborg (2007), is a framework facilitating the estimation of genetic effects and genotype-to-phenotype maps. This package provides the basic tools to perform linear and multilinear regressions from real populations (provided the phenotype and the genotype of every individuals), estimating the genetic effects from different reference points, the genotypic values, and the decomposition of genetic variances in a multi-locus, 2 alleles system. This package is presented in Le Rouzic & Alvarez-Castro (2008). Package: r-cran-noise Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 832 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-preprocesscore Filename: pool/dists/focal/main/r-cran-noise_1.0.2-1.ca2004.1_all.deb Size: 816056 MD5sum: 98453b81f5e55b2f1708c27212ccd8d4 SHA1: 0dab0b5ed3e1d1f14e43bca665e6332f356733f9 SHA256: c89d57bc9df03762c8a20b9dd189a9d7f2cda6c314846a8a307264d9add91082 SHA512: 51a1c0cce88ee0041e02bcd89d1e89c3593de632190ba25b59de5b832f05b3e422c7c7bc2b592a976a8f4f11fde54698e009470e10cc2fd56835924122654bf1 Homepage: https://cran.r-project.org/package=noise Description: CRAN Package 'noise' (Estimation of Intrinsic and Extrinsic Noise from Single-CellData) Functions to calculate estimates of intrinsic and extrinsic noise from the two-reporter single-cell experiment, as in Elowitz, M. B., A. J. Levine, E. D. Siggia, and P. S. Swain (2002) Stochastic gene expression in a single cell. Science, 297, 1183-1186. Functions implement multiple estimators developed for unbiasedness or min Mean Squared Error (MSE) in Fu, A. Q. and Pachter, L. (2016). Estimating intrinsic and extrinsic noise from single-cell gene expression measurements. Statistical Applications in Genetics and Molecular Biology, 15(6), 447-471. Package: r-cran-noisemodel Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 867 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-caret, r-cran-nnet, r-cran-e1071, r-cran-fnn, r-cran-classint, r-cran-ggplot2, r-cran-extdist, r-cran-lsr, r-cran-stringr, r-cran-rcolorbrewer, r-cran-rsnns, r-cran-c50 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-noisemodel_1.0.2-1.ca2004.1_all.deb Size: 695392 MD5sum: 521b1f5e94192fcee574a182e4dddae7 SHA1: 852fcaa585f83481563b3ca78b71ba3922128ec4 SHA256: d1d606e6e4838a87ad0e6615381df419d277b12e8a03f66069242678a54c616e SHA512: 9020f727f85d29a0a405cdb073d090e1669ebb8c7dde3495ef471320db135dc485faea38b51d956df5f8c7cfc4507e49f58cb5fdc1c91fabb1abe647bfedebeb Homepage: https://cran.r-project.org/package=noisemodel Description: CRAN Package 'noisemodel' (Noise Models for Classification Datasets) Implementation of models for the controlled introduction of errors in classification datasets. This package contains the noise models described in Saez (2022) that allow corrupting class labels, attributes and both simultaneously. Package: r-cran-noisyce2 Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr Suggests: r-cran-coda, r-cran-testthat Filename: pool/dists/focal/main/r-cran-noisyce2_1.1.0-1.ca2004.1_all.deb Size: 55816 MD5sum: 7dae4eb7f7ea38c22ed484d0c4b710c2 SHA1: efce2242676018ef5e93a87637ff368e8209179b SHA256: 42c7a9851dfc42e80420a746cb8cdad777885a7bdbd43c1ef219fa273b216bd4 SHA512: 7373e365ba0ebcd139710e4c839e18994258e057dc0733c796a7a1a6d0d25487633fc40465effea70b1eebbc2bb802f0dab33272a59bdb1243ba47520de5303d Homepage: https://cran.r-project.org/package=noisyCE2 Description: CRAN Package 'noisyCE2' (Cross-Entropy Optimisation of Noisy Functions) Cross-Entropy optimisation of unconstrained deterministic and noisy functions illustrated in Rubinstein and Kroese (2004, ISBN: 978-1-4419-1940-3) through a highly flexible and customisable function which allows user to define custom variable domains, sampling distributions, updating and smoothing rules, and stopping criteria. Several built-in methods and settings make the package very easy-to-use under standard optimisation problems. 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Two approaches are used, one based on the count matrix, and one using the alignment BAM files directly. Contains several options for every step of the process, as well as tools to quality check and assess the stability of output. Package: r-cran-noisysbm Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1635 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools, r-cran-ggplot2, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-noisysbm_0.1.4-1.ca2004.1_all.deb Size: 1445220 MD5sum: a635d3df26e28a493dd0dbd88a3109b4 SHA1: 3f3886431c03b65b04bd935fcafb4efeb44db9c2 SHA256: 3172c2a4ce3ce56e7e183e8910d9442e74d0a23fae8ab649d3fa83bbfe4e9750 SHA512: 503096fa24f3864ccf6fb3442bbb418dbfaeeb00c547bd7e484e7afb134bdc622542eb432d152e6c3e8b3ac2f0bed3db003289603fb0469203bd3b48f482c9b7 Homepage: https://cran.r-project.org/package=noisySBM Description: CRAN Package 'noisySBM' (Noisy Stochastic Block Mode: Graph Inference by Multiple Testing) Variational Expectation-Maximization algorithm to fit the noisy stochastic block model to an observed dense graph and to perform a node clustering. Moreover, a graph inference procedure to recover the underlying binary graph. This procedure comes with a control of the false discovery rate. The method is described in the article "Powerful graph inference with false discovery rate control" by T. Rebafka, E. Roquain, F. Villers (2020) . 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This facilitates reading from databases in scenarios where non-blocking reads are preferable, such as in high-transaction environments. Package: r-cran-nombre Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 536 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-fracture Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-nombre_0.4.1-1.ca2004.1_all.deb Size: 401608 MD5sum: e4e733d4f2455d0d80fcf4c7db68b579 SHA1: 1461c8ffb932b4ffd03aac4667c6fce19cdecdaf SHA256: 34faa7cef07458bcdfe1bc1b820ee95436365300c504109452bbf80ed9f4ffec SHA512: b515b4890183ca7555b68579b6af007806e51f188da26f6a0650fde26ee3f7bc8df3197d1f28ebb2cdf11baee51f14a2fa13eec4a2e4020af6b8abde0211ed1d Homepage: https://cran.r-project.org/package=nombre Description: CRAN Package 'nombre' (Number Names) Converts numeric vectors to character vectors of English number names. Provides conversion to cardinals, ordinals, numerators, and denominators. Supports negative and non-integer numbers. Package: r-cran-nominallogisticbiplot Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 232 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mirt, r-cran-gmodels, r-cran-mass Filename: pool/dists/focal/main/r-cran-nominallogisticbiplot_0.2-1.ca2004.1_all.deb Size: 199552 MD5sum: 584e0550d931ba3f5df38da6f7bcfff0 SHA1: 4fb514487c8bd89b80739135e7aed1819ffb0fb4 SHA256: 09ac188694ae3de24ad96b1e4d8fa562bf3708388c8b049827b269394fcdce60 SHA512: dc9cad2ae964c94d8a90f5ecaecba805d6a52253ac89223d5363a4f4e6ab2e703c0e639fde7aeee48acc160c2e43110a625c15a42098ac939ad729cccf448e46 Homepage: https://cran.r-project.org/package=NominalLogisticBiplot Description: CRAN Package 'NominalLogisticBiplot' (Biplot representations of categorical data) Analysis of a matrix of polytomous items using Nominal Logistic Biplots (NLB) according to Hernandez-Sanchez and Vicente-Villardon (2013). The NLB procedure extends the binary logistic biplot to nominal (polytomous) data. The individuals are represented as points on a plane and the variables are represented as convex prediction regions rather than vectors as in a classical or binary biplot. Using the methods from Computational Geometry, the set of prediction regions is converted to a set of points in such a way that the prediction for each individual is established by its closest "category point". Then interpretation is based on distances rather than on projections. In this package we implement the geometry of such a representation and construct computational algorithms for the estimation of parameters and the calculation of prediction regions. 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Extract coordinates from addresses, find places near a set of coordinates and return spatial objects on 'sf' format. 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Supports styling, R Markdown and exporting diagrams in the PNG format. Note: you need a chromium based browser installed on your system. Package: r-cran-nomogramex Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-rms Filename: pool/dists/focal/main/r-cran-nomogramex_3.0-1.ca2004.1_all.deb Size: 14196 MD5sum: 5d272aff6633aa076e5178bc1ad98412 SHA1: 91538e9ac9048fa5375c03554bcad20f91e2ff12 SHA256: b603e46e37ccf3f0172c13ace296339bb4cbcc14cb99e6040d89924d16768e81 SHA512: d3d576fa267af7e06ddc638f8c556a3590592a2afb541c50f983000f095be7261b81ee84fd75fa0a9b7d478e99452eae7a7bbe8a873788c735ae5e16894ac6da Homepage: https://cran.r-project.org/package=nomogramEx Description: CRAN Package 'nomogramEx' (Extract Equations from a Nomogram) A nomogram can not be easily applied, because it is difficult to calculate the points or even the survival probability. The package, including a function of nomogramEx(), is to extract the polynomial equations to calculate the points of each variable, and the survival probability corresponding to the total points. 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However, it is not very easy to draw straight lines, read points and probabilities accurately. Even, it is hard for users to calculate total points and probabilities for all subjects. This package provides formula_rd() and formula_lp() functions to fit the formula of total points with raw data and linear predictors respectively by polynomial regression. Function points_cal() will help you calculate the total points. prob_cal() can be used to calculate the probabilities after lrm(), cph() or psm() regression. For more complex condition, interaction or restricted cubic spine, TotalPoints.rms() can be used. 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Package: r-cran-nonlineardotplot Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nonlineardotplot_0.5.0-1.ca2004.1_all.deb Size: 50860 MD5sum: 2915f5c55159eb7209892edd3e29750c SHA1: d069a738d0d28b37029ea6ad7820b849b7483817 SHA256: 1d699a87322b572b7ae82038fa688e375e90f21e569c1927b210353467bef481 SHA512: 27083caf82f9d149956438a07c66a37cdbb6f00e02841e9966445d316d429df596f929e1506bcd9319d3115ffd4f9b0d8354b7937a9f37026281be0b71d62f1b Homepage: https://cran.r-project.org/package=nonLinearDotPlot Description: CRAN Package 'nonLinearDotPlot' (Non Linear Dot Plots) Non linear dot plots are diagrams that allow dots of varying size to be constructed, so that columns with a large number of samples are reduced in height. Implementation of algorithm described in: Nils Rodrigues and Daniel Weiskopf, "Nonlinear Dot Plots", IEEE Transactions on Visualization and Computer Graphics, vol. 24, no. 1, pp. 616-625, 2018. . Package: r-cran-nonlinearicp Architecture: all Version: 0.1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-condindtests, r-cran-data.tree, r-cran-catools, r-cran-randomforest Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-nonlinearicp_0.1.2.1-1.ca2004.1_all.deb Size: 58592 MD5sum: 6ce0bc86043f5925d5aa8f00426f95ad SHA1: ad7880ffd579a6781b3a37777ac46ec32a2f2b20 SHA256: 686aa42d7737b4a5e66f560127538ceb89bbb6f8d6bca931f2f2cf41182a69e9 SHA512: 99dba44649b582244994169c864fdfbc73c8a39e2b3da7ea4843ec35604d9c43b082d06f725fbf436e3e9f2765edf5e59ed12f0032319370363b6d65341b6d2e Homepage: https://cran.r-project.org/package=nonlinearICP Description: CRAN Package 'nonlinearICP' (Invariant Causal Prediction for Nonlinear Models) Performs 'nonlinear Invariant Causal Prediction' to estimate the causal parents of a given target variable from data collected in different experimental or environmental conditions, extending 'Invariant Causal Prediction' from Peters, Buehlmann and Meinshausen (2016), , to nonlinear settings. For more details, see C. Heinze-Deml, J. Peters and N. Meinshausen: 'Invariant Causal Prediction for Nonlinear Models', . Package: r-cran-nonlinearrdd Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-quantreg, r-cran-rfast, r-cran-rdrobust, r-cran-rddensity, r-cran-lpdensity, r-cran-lpcde, r-cran-copula Filename: pool/dists/focal/main/r-cran-nonlinearrdd_0.0.4-1.ca2004.1_all.deb Size: 34568 MD5sum: 7cd65ce43d27d25ce08ed375590caf92 SHA1: 8d55249af5565ab5ec5fbaf4eb3f1620359b2ab8 SHA256: 0f2b635ad1004ace8ea946f6a8f863d38faa37202c2ae4e4689a3ee5e4bfa511 SHA512: 588c7c7eeb4bde200b2d26292d87bc843c537a139a109370c4e70fd151b44d81ea8524e3d456659342a5174bde0dc9fe1f9aaf716baafb67f0f5771cc8412f23 Homepage: https://cran.r-project.org/package=NonlinearRDD Description: CRAN Package 'NonlinearRDD' (Nonlinear Regression Discontinuity Design) Estimation of the possibly nonlinear and non separable structural function in regression discontinuity designs with a continuous treatment variable. The method is based on Xie (2022) . Package: r-cran-nonlineartsa Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car, r-cran-tsdyn, r-cran-minpack.lm Filename: pool/dists/focal/main/r-cran-nonlineartsa_0.5.0-1.ca2004.1_all.deb Size: 145824 MD5sum: a0540df596dc5a73b7767f1f0192133c SHA1: 75eb5003569a5ee28f5a8138fc2e3050cef8d301 SHA256: 43d4a0991d27787b199e4593df5bfd69171c31bafa44662afebefcf7a7965a0b SHA512: f2203995472bd229414641f484c856be5c2d7e13153c5cb53ad9779ffcecdf7b9421572864d73a93ce292e47ee344223bcc6b42b9c6ca01190cb56ee4fffe412 Homepage: https://cran.r-project.org/package=NonlinearTSA Description: CRAN Package 'NonlinearTSA' (Nonlinear Time Series Analysis) Function and data sets in the book entitled "Nonlinear Time Series Analysis with R Applications" B.Guris (2020). The book will be published in Turkish and the original name of this book will be "R Uygulamali Dogrusal Olmayan Zaman Serileri Analizi". It is possible to perform nonlinearity tests, nonlinear unit root tests, nonlinear cointegration tests and estimate nonlinear error correction models by using the functions written in this package. The Momentum Threshold Autoregressive (MTAR), the Smooth Threshold Autoregressive (STAR) and the Self Exciting Threshold Autoregressive (SETAR) type unit root tests can be performed using the functions written. In addition, cointegration tests using the Momentum Threshold Autoregressive (MTAR), the Smooth Threshold Autoregressive (STAR) and the Self Exciting Threshold Autoregressive (SETAR) models can be applied. It is possible to estimate nonlinear error correction models. The Granger causality test performed using nonlinear models can also be applied. Package: r-cran-nonmem2r Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3613 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-mvtnorm, r-cran-lattice, r-cran-latticeextra, r-cran-mass, r-cran-splines2, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-nonmem2r_0.2.5-1.ca2004.1_all.deb Size: 2327420 MD5sum: cee7432246ecb067e3c2c89ee01977c8 SHA1: dfb10d9434104a6854dcc00841edd97cb0bce83d SHA256: f79e2d15c470498ef0a3e686ba70e62485c6711b1a9529cba7e43dfa8b3bcb15 SHA512: e64050ee85c804832e1dfd9d984c59147fe706cbabe75db392c6a0bedfce44bf68ae31cf9fa4526298127e8ecd20106c4c74331b217db8626daecfbf4eb82415 Homepage: https://cran.r-project.org/package=nonmem2R Description: CRAN Package 'nonmem2R' (Loading NONMEM Output Files with Functions for Visual PredictiveChecks (VPC) and Goodness of Fit (GOF) Plots) Loading NONMEM (NONlinear Mixed-Effect Modeling, ) and PSN (Perl-speaks-NONMEM, ) output files to extract parameter estimates, provide visual predictive check (VPC) and goodness of fit (GOF) plots, and simulate with parameter uncertainty. 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Harvests NONMEM output, builds run logs, creates derivative data, generates diagnostics. NONMEM (ICON Development Solutions ) is software for nonlinear mixed effects modeling. See 'package?nonmemica'. 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Includes tests of model distinguishability and of model fit that can be applied to both nested and non-nested models. Also includes functionality to obtain confidence intervals associated with AIC and BIC. This material is partially based on work supported by the National Science Foundation under Grant Number SES-1061334. 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See Tapan Nayak (1987) . Package: r-cran-nonpar Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nonpar_1.0.2-1.ca2004.1_all.deb Size: 41028 MD5sum: dd8994ac93ac62d15543b20330bed3ff SHA1: 54541ccec2b44bc304a7d6c73d9f16ef799cb07e SHA256: edc30de3dda047008434ea6344c181c30c4e2931c57f991a6ce60a16e7e5b691 SHA512: 747b365719efcf364775830b02a86f95c4160ea5456781e7e4345d156928b8af9bba539ebab4f878a958eb6a732ef49accc26674ee5e5441c1d9eb6dd4480fdb Homepage: https://cran.r-project.org/package=nonpar Description: CRAN Package 'nonpar' (A Collection of Nonparametric Hypothesis Tests) Contains the following 5 nonparametric hypothesis tests: The Sign Test, The 2 Sample Median Test, Miller's Jackknife Procedure, Cochran's Q Test, & The Stuart-Maxwell Test. 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This package contains functions for measuring efficiency and productivity of decision making units (DMUs) under the framework of Data Envelopment Analysis (DEA) and its variations. Package: r-cran-nonparametric.bayes Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-progress Filename: pool/dists/focal/main/r-cran-nonparametric.bayes_0.0.1-1.ca2004.1_all.deb Size: 48748 MD5sum: 09b52104a638b5022053dafa63d80cdc SHA1: ffdc8b2a93dc471a96606f38b9f0631de5872bd0 SHA256: dc86e66caec5304707a3735c3fc16a525ed73259e5fb7a2beb737dbcee91dd99 SHA512: 63a6c40ec9e1debf2bb349683e2f9543e16b7b30e56ce5d31331ebaa25382758417224a10b1108b129633ab0e65986b02b5fb5c7a808b758b38f83ff7bb4bf4a Homepage: https://cran.r-project.org/package=nonparametric.bayes Description: CRAN Package 'nonparametric.bayes' (Project Code - Nonparametric Bayes) Basic implementation of a Gibbs sampler for a Chinese Restaurant Process along with some visual aids to help understand how the sampling works. This is developed as part of a postgraduate school project for an Advanced Bayesian Nonparametric course. It is inspired by Tamara Broderick's presentation on Nonparametric Bayesian statistics given at the Simons institute. Package: r-cran-nonpareil Architecture: all Version: 3.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 233 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nonpareil_3.5.3-1.ca2004.1_all.deb Size: 187636 MD5sum: f08ce4c5835e13f7c74db99a19c1b52b SHA1: ace78046d9bece0ad7009100b8c45be71a289ecb SHA256: d59d4dc5c3fa2d295653dd4b8360f00371517928752fa9f5a4a438d48ddd67f8 SHA512: d95e75cb17013a7a66b3fcb098ba24ec48b2321a2965e93b8caec07906bcd73c4afd02fc2e616f9da2e4d292f3c748153ce3f199299cc4bea19d9ea57b3b0863 Homepage: https://cran.r-project.org/package=Nonpareil Description: CRAN Package 'Nonpareil' (Metagenome Coverage Estimation and Projections for 'Nonpareil') Plot, process, and analyze NPO files produced by 'Nonpareil' . Package: r-cran-nonparrolcor Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gtools, r-cran-pracma, r-cran-colorspace, r-cran-doparallel, r-cran-foreach, r-cran-scales Filename: pool/dists/focal/main/r-cran-nonparrolcor_0.8.0-1.ca2004.1_all.deb Size: 91036 MD5sum: 6d192db90123ffa0ec3a1d0369e96777 SHA1: d86a2100b2d9de13cde7b6e46367a0f926f54b79 SHA256: cfd021d9b4a80886fb1b0bd3acd55b99ec7b0171a3d6c1b8d830810315e9ff0b SHA512: 989653e20d2916ec52822cea01faa23570336b1196f0a911af40eab53542a2312b0188db9422c30f5ec7cb89819c5f02a8f147abbdf87728dac847c90c3bb9f8 Homepage: https://cran.r-project.org/package=NonParRolCor Description: CRAN Package 'NonParRolCor' (a Non-Parametric Statistical Significance Test for RollingWindow Correlation) Estimates and plots (as a single plot and as a heat map) the rolling window correlation coefficients between two time series and computes their statistical significance, which is carried out through a non-parametric computing-intensive method. This method addresses the effects due to the multiple testing (inflation of the Type I error) when the statistical significance is estimated for the rolling window correlation coefficients. The method is based on Monte Carlo simulations by permuting one of the variables (e.g., the dependent) under analysis and keeping fixed the other variable (e.g., the independent). We improve the computational efficiency of this method to reduce the computation time through parallel computing. The 'NonParRolCor' package also provides examples with synthetic and real-life environmental time series to exemplify its use. Methods derived from R. Telford (2013) and J.M. Polanco-Martinez and J.L. Lopez-Martinez (2021) . Package: r-cran-nonprobest Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-sampling, r-cran-e1071, r-cran-glmnet, r-cran-matrix Filename: pool/dists/focal/main/r-cran-nonprobest_0.2.4-1.ca2004.1_all.deb Size: 194048 MD5sum: b23568ab8aa9b04fb6c0374e6a9e3be1 SHA1: eae05f58eec4be47f93b422b824d62fa2cc640a6 SHA256: a567b9f9ab75a1c3e6483e29bc90e2d0b56041ac1b25b3235f8e739e41d752a1 SHA512: 5d1bf67a86072e43948c72b690785872c398a4d034a6cd576d1bb61868c123553a2e2835b04840a66603ac39a14e51aeb92889821d9ab1ecb9a844a5019d1d05 Homepage: https://cran.r-project.org/package=NonProbEst Description: CRAN Package 'NonProbEst' (Estimation in Nonprobability Sampling) Different inference procedures are proposed in the literature to correct for selection bias that might be introduced with non-random selection mechanisms. A class of methods to correct for selection bias is to apply a statistical model to predict the units not in the sample (super-population modeling). Other studies use calibration or Statistical Matching (statistically match nonprobability and probability samples). To date, the more relevant methods are weighting by Propensity Score Adjustment (PSA). The Propensity Score Adjustment method was originally developed to construct weights by estimating response probabilities and using them in Horvitz–Thompson type estimators. This method is usually used by combining a non-probability sample with a reference sample to construct propensity models for the non-probability sample. Calibration can be used in a posterior way to adding information of auxiliary variables. Propensity scores in PSA are usually estimated using logistic regression models. Machine learning classification algorithms can be used as alternatives for logistic regression as a technique to estimate propensities. The package 'NonProbEst' implements some of these methods and thus provides a wide options to work with data coming from a non-probabilistic sample. Package: r-cran-nonsmooth Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3098 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-np, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-nonsmooth_1.0.0-1.ca2004.1_all.deb Size: 3137624 MD5sum: 9648d0cc620d7f26b62016de28eeec58 SHA1: 548a775c71b4889c7536682c584f02bc511ceeda SHA256: bd05df2c11464552ff9c25b7b7ec430ace838c403593e761b6603fbda8fa2fd8 SHA512: 61b764c7bdcc693a89cd5bc470e39ffdaa23921c871f02b92731f8e33332824024c358398d4fcd466d5b048d8df0468b19c4431c78babe04b739c840a82924f5 Homepage: https://cran.r-project.org/package=nonsmooth Description: CRAN Package 'nonsmooth' (Nonparametric Methods for Smoothing Nonsmooth Data) Nonparametric methods for smoothing regression function data with change-points, utilizing range kernels for iterative and anisotropic smoothing methods. For further details, see the paper by John R.J. Thompson (2024) . Package: r-cran-nonstat Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nonstat_0.0.6-1.ca2004.1_all.deb Size: 17056 MD5sum: c2cf9da698bc9376459f542d33d3106b SHA1: 2edda964e23133669d6d97b7b2e448b7bf4ba611 SHA256: 73d0f0963e8abe8104dcd2f88dcd07febac506111ec51cf4e2cbaa69f291bad7 SHA512: a4e1d0cd46008fdd4164077cd20e77b605e9555dff2c0293fdd087658d815ee12c3366730aeb1ffd0785f5bcc4471671442b549b81440caa4ff787dab402e5cb Homepage: https://cran.r-project.org/package=nonstat Description: CRAN Package 'nonstat' (Detecting Nonstationarity in Time Series) Provides a nonvisual procedure for screening time series for nonstationarity in the context of intensive longitudinal designs, such as ecological momentary assessments. The method combines two diagnostics: one for detecting trends (based on the split R-hat statistic from Bayesian convergence diagnostics) and one for detecting changes in variance (a novel extension inspired by Levene's test). This approach allows researchers to efficiently and reproducibly detect violations of the stationarity assumption, especially when visual inspection of many individual time series is impractical. The procedure is suitable for use in all areas of research where time series analysis is central. For a detailed description of the method and its validation through simulations and empirical application, see Zitzmann, S., Lindner, C., Lohmann, J. F., & Hecht, M. (2024) "A Novel Nonvisual Procedure for Screening for Nonstationarity in Time Series as Obtained from Intensive Longitudinal Designs" . Package: r-cran-nopp Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 295 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mlogit, r-cran-mass Filename: pool/dists/focal/main/r-cran-nopp_1.1.2-1.ca2004.1_all.deb Size: 255216 MD5sum: 14fd4cc535dfc4df416f691fd191fe7a SHA1: 7875c34c54127fbf4ee1e85267b73d41ce2e940e SHA256: 090bcea116f3766480b07d353dd48ac5ad48b536e05fd5d72c960be8c134b91f SHA512: 05e9989ee90a123fe2cec2afff86f665d883f4f687b3095afb4181ce130857521d8e65f6eeab88f65039ddced84046635e314e84ad06a3a9312a7513a7b5456f Homepage: https://cran.r-project.org/package=nopp Description: CRAN Package 'nopp' (Nash Optimal Party Positions) Estimation of party/candidate ideological positions that correspond to a Nash equilibrium along a one-dimensional space. 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In Journal of Statistical Software, Vol. 12, Issue 4). 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It includes functions that enable the fitting of regression models for the mean and residual (or variance) structures, test the model assumptions, derive the normative data in the form of normative tables or automatic scoring sheets, and estimate confidence intervals for the norms. This package accompanies the book Van der Elst, W. (2024). Regression-based normative data for psychological assessment. A hands-on approach using R. Springer Nature. 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Zhenfeng Wu, Weixiang Liu, Xiufeng Jin, Deshui Yu, Hua Wang, Gustavo Glusman, Max Robinson, Lin Liu, Jishou Ruan and Shan Gao (2018) . 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Users should verify extended usage of the package on files from other assay types. 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Fitting models to data using 'MLE' (maximum likelihood estimation) for multivariate normal mixtures via smart parametrization using the 'LDL' (Cholesky) decomposition, see McLachlan and Peel (2000, ISBN:9780471006268), Celeux and Govaert (1995) . 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Developed and maintained for use at the Department of Forensic Sciences, Oslo, Norway. Package: r-cran-nortest Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nortest_1.0-4-1.ca2004.1_all.deb Size: 37500 MD5sum: 13a3042996ff6cee0e118041c9867b6b SHA1: 62993b668e2d32be56a0a510e9d83757277a1198 SHA256: 14fbb638eb080d2d1bec6038662df502ec6177de80c33635a25a2fffcab3bf0d SHA512: 85eec0305c760a5f38b26757e7a8da09a666255219eb23d71a9ed7c36751d6c6b70e845fd97db98549412dd16efc17968ab89779539a33ac81e3a06d3d3b5497 Homepage: https://cran.r-project.org/package=nortest Description: CRAN Package 'nortest' (Tests for Normality) Five omnibus tests for testing the composite hypothesis of normality. Package: r-cran-nortstest Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 490 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-forecast, r-cran-nortest, r-cran-ggplot2, r-cran-gridextra, r-cran-cowplot, r-cran-tseries, r-cran-uroot, r-cran-mass, r-cran-zoo Suggests: r-cran-ggfortify, r-cran-testthat Filename: pool/dists/focal/main/r-cran-nortstest_1.1.2-1.ca2004.1_all.deb Size: 390448 MD5sum: 35577441ed81f3946b0cd5f032d3ae53 SHA1: e4da6b71b5dbbe3976fbae1435c8404023060ef2 SHA256: 57a2081f125844faa80eadc146e11b0e05a4f27e4a77ed3a13e46fa7d24ea7ec SHA512: 4d229db5458d8865c4d2d513caab120643b6f7869aeb7fd0b4f1e6608defbe3a7ca419fd4de6fbe7673756f369354558caf05cd9346b3600b7578e5c152b4ee6 Homepage: https://cran.r-project.org/package=nortsTest Description: CRAN Package 'nortsTest' (Assessing Normality of Stationary Process) Despite that several tests for normality in stationary processes have been proposed in the literature, consistent implementations of these tests in programming languages are limited. Seven normality test are implemented. The asymptotic Lobato & Velasco's, asymptotic Epps, Psaradakis and Vávra, Lobato & Velasco's and Epps sieve bootstrap approximations, El bouch et al., and the random projections tests for univariate stationary process. Some other diagnostics such as, unit root test for stationarity, seasonal tests for seasonality, and arch effect test for volatility; are also performed. Additionally, the El bouch test performs normality tests for bivariate time series. The package also offers residual diagnostic for linear time series models developed in several packages. Package: r-cran-nos Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-gmp, r-cran-bipartite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-nos_2.0.0-1.ca2004.1_all.deb Size: 67804 MD5sum: 82398957953cde9b910b11ff213c9221 SHA1: aa5ae84d1b878e300ee3336a04a537f5daf70a04 SHA256: 95cde5fb77c7e46941be030220964d176a37649653efa11fe3fa35fa5bd86593 SHA512: e9af7aea8227de82e779f4f4c70bc8782a51d2fd8ed811e90560301f59d46630f018212a4f332345f2de0429a8757e90a1056ac6a6151e6f79f4be5ed26397e4 Homepage: https://cran.r-project.org/package=nos Description: CRAN Package 'nos' (Compute Node Overlap and Segregation in Ecological Networks) Calculate NOS (node overlap and segregation) and the associated metrics described in Strona and Veech (2015) and Strona et al. (2018) . The functions provided in the package enable assessment of structural patterns ranging from complete node segregation to perfect nestedness in a variety of network types. In addition, they provide a measure of network modularity. Package: r-cran-nose Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nose_1.0-1.ca2004.1_all.deb Size: 27164 MD5sum: ae530765832087365a1ebcd1094ae9bb SHA1: 3a0d0271e8433fb1934c4336643b1ec6edad7fc1 SHA256: 0c4e50f9791a8e733fb6442eb7198fdb61db653e3df35a595f4e558b3d8503ce SHA512: 0b04111ce5524f917a9eafd75f63d5b1b4a550a8be26026156ce7f1c3f68c3774aaeb2613a14288fc8580d01e28d6ab50f4493d05dc45dd4dec1e702447fecee Homepage: https://cran.r-project.org/package=nose Description: CRAN Package 'nose' (nose Package for R) The nose package consists of a collection of three functions for classifying sparseness in typical 2 x 2 data sets with at least one cell should have zero count. These functions are based on the three widely applied summary measures for 2 x 2 categorical data viz, Risk Difference (RD), Relative Risk (RR), Odds Ratio (OR). 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Applied Vegetation Science, 24, e12548. 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The simultaneous confidence intervals can be computed using multivariate normal distribution, multivariate t-distribution with a Satterthwaite Approximation of the degree of freedom or using multivariate range preserving transformations with Logit or Probit as transformation function. 2 sample comparisons can be performed with the same methods described above. There is no assumption on the underlying distribution function, only that the data have to be at least ordinal numbers. See Konietschke et al. (2015) for details. 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Package: r-cran-nparmd Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrixstats, r-cran-matrixcalc, r-cran-mass, r-cran-gtools, r-cran-formula Filename: pool/dists/focal/main/r-cran-nparmd_0.2.1-1.ca2004.1_all.deb Size: 49612 MD5sum: 0d8879593bbd898f98900a02e6a1dbb5 SHA1: b022d6d648d55367f6d5cf5b893cc720a1574671 SHA256: d9e1b951688a54b0c32586f1dbc4d31ab56ec39d061c34af4581756441040b96 SHA512: 5d6351183a03c06abe6c36da84d5464d149399f05dc72837ceeb4b67f5d1cbe97e74b89d6999255a0035b8fc1a216b36615086069a85f3d2d93c3648ca725fd0 Homepage: https://cran.r-project.org/package=nparMD Description: CRAN Package 'nparMD' (Nonparametric Analysis of Multivariate Data in Factorial Designs) Analysis of multivariate data with two-way completely randomized factorial design. The analysis is based on fully nonparametric, rank-based methods and uses test statistics based on the Dempster's ANOVA, Wilk's Lambda, Lawley-Hotelling and Bartlett-Nanda-Pillai criteria. The multivariate response is allowed to be ordinal, quantitative, binary or a mixture of the different variable types. The package offers two functions performing the analysis, one for small and the other for large sample sizes. The underlying methodology is largely described in Bathke and Harrar (2016) and in Munzel and Brunner (2000) . Package: r-cran-nparsurv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-th.data Filename: pool/dists/focal/main/r-cran-nparsurv_0.1.0-1.ca2004.1_all.deb Size: 27892 MD5sum: 7b7a3a22760dc15b555705e57cfe6824 SHA1: 545f453606a6eb113652f9addade5db28e39e9bc SHA256: 8f8d1ceb22f0d56be6bb3b3c7b2b6d2889ab7654119bb3955830062dce9bfac9 SHA512: 5774f86c1fc90c4947801ce5507d6b8e708c6ba5601db785f2931a9a54989a13886cc623aaa0b03cb7a930cead076027ee3b02b231439e6ff48cd84cf6d4a07c Homepage: https://cran.r-project.org/package=nparsurv Description: CRAN Package 'nparsurv' (Nonparametric Tests for Main Effects, Simple Effects andInteraction Effect in a Factorial Design with Censored Data) Nonparametric Tests for Main Effects, Simple Effects and Interaction Effect with Censored Data and Two Factorial Influencing Variables. Package: r-cran-npbbbdaefficiency Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-npbbbdaefficiency_0.1.0-1.ca2004.1_all.deb Size: 16008 MD5sum: 6e794e095c98a6f41cc65f043986b945 SHA1: 2759939ea7a4f05bbc7c78be47fd11ef8acfb591 SHA256: 1dc0c3340ab758ccd28269e8ed5f2a480400569dc0b08f41ae99e94da421e8e9 SHA512: 684fa0b82ddbdb55fb394e9d01790030d0d561f8232364d95f7a3cc90079c2cfd2e85bcb6632347b32ccecde5f38ea9aa1f0b43d373631b1ddd1530009d506f7 Homepage: https://cran.r-project.org/package=NPBBBDAefficiency Description: CRAN Package 'NPBBBDAefficiency' (A-Efficiency for Nested Partially Balanced Bipartite Block(NPBBB) Designs) Nested Partially Balanced Bipartite Block (NPBBB) designs involve two levels of blocking: (i) The block design (ignoring sub-block classification) serves as a partially balanced bipartite block (PBBB) design, and (ii) The sub-block design (ignoring block classification) also serves as a PBBB design. More details on constructions of the PBBB designs and their characterization properties are available in Vinayaka et al.(2023) . This package calculates A-efficiency values for both block and sub-block structures, along with all parameters of a given NPBBB design. Package: r-cran-npboottprm Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 343 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dt, r-cran-fgarch, r-cran-ggplot2, r-cran-lmperm, r-cran-mass, r-cran-mkinfer, r-cran-mmints, r-cran-shiny, r-cran-shinythemes, r-cran-sn Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-npboottprm_0.3.2-1.ca2004.1_all.deb Size: 270276 MD5sum: 728c126b907dcae2d4649f263ff1a91f SHA1: e3eafa61519599a7ed03840c7d339d64853a4074 SHA256: 2b08296ce24c41ce873f631793fd6c4372796c42afa3b879117c415eb41cb17a SHA512: 52bd828042b8875bfb4dda9520d5cdf44cb45886221a1ba5e41c601e311e177cdc29e1c3f1ecbf729725f8b60b1d93207da94185afe8d0563829a30b0c648b4b Homepage: https://cran.r-project.org/package=npboottprm Description: CRAN Package 'npboottprm' (Nonparametric Bootstrap Test with Pooled Resampling) Addressing crucial research questions often necessitates a small sample size due to factors such as distinctive target populations, rarity of the event under study, time and cost constraints, ethical concerns, or group-level unit of analysis. Many readily available analytic methods, however, do not accommodate small sample sizes, and the choice of the best method can be unclear. The 'npboottprm' package enables the execution of nonparametric bootstrap tests with pooled resampling to help fill this gap. Grounded in the statistical methods for small sample size studies detailed in Dwivedi, Mallawaarachchi, and Alvarado (2017) , the package facilitates a range of statistical tests, encompassing independent t-tests, paired t-tests, and one-way Analysis of Variance (ANOVA) F-tests. The nonparboot() function undertakes essential computations, yielding detailed outputs which include test statistics, effect sizes, confidence intervals, and bootstrap distributions. Further, 'npboottprm' incorporates an interactive 'shiny' web application, nonparboot_app(), offering intuitive, user-friendly data exploration. 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Two statistical methods with promising performance in small samples are the nonparametric bootstrap test with pooled resampling method, which is the focus of Dwivedi, Mallawaarachchi, and Alvarado (2017) , and informative hypothesis testing, which is implemented in the 'restriktor' package. The 'npboottprmFBar' package uses the nonparametric bootstrap test with pooled resampling method to implement informative hypothesis testing. The bootFbar() function can be used to analyze data with this method and the persimon() function can be used to conduct performance simulations on type-one error and statistical power. Package: r-cran-npc Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-permute, r-cran-dplyr, r-cran-coin, r-cran-matlab Suggests: r-cran-car, r-cran-mvtnorm, r-cran-plyr, r-cran-xtable Filename: pool/dists/focal/main/r-cran-npc_1.1.0-1.ca2004.1_all.deb Size: 72784 MD5sum: b8cba9910fae83fd363f6cdf3b9f96db SHA1: 26d123208c0e5579862a906f30c5c7608ee61c9f SHA256: fe4e393019fb48a5fbc16a0b6e6cbc15301dc2e8d0d7da36b6460e925738b478 SHA512: 2cc0dbf577148acb5ad907ee061c112cadbd75285081da8b836be9f6ac322d5cfaf38d7d21c8df6396488ff1ea4f593b8737cae9853381982970012db26c0e6b Homepage: https://cran.r-project.org/package=NPC Description: CRAN Package 'NPC' (Nonparametric Combination of Hypothesis Tests) An implementation of nonparametric combination of hypothesis tests. This package performs nonparametric combination (Pesarin and Salmaso 2010), a permutation-based procedure for jointly testing multiple hypotheses. The tests are conducted under the global "sharp" null hypothesis of no effects, and the component tests are combined on the metric of their p-values. A key feature of nonparametric combination is that it accounts for the dependence among tests under the null hypothesis. In addition to the "NPC" function, which performs nonparametric combination itself, the package also contains a number of helper functions, many of which calculate a test statistic given an input of data. Package: r-cran-npcd Architecture: all Version: 1.0-11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bb, r-cran-r.methodss3 Filename: pool/dists/focal/main/r-cran-npcd_1.0-11-1.ca2004.1_all.deb Size: 136184 MD5sum: f23beb3f93e2505b65b803d3d9ebd955 SHA1: 82060e2a5feb8b678f677208197c8a67d2ea0be8 SHA256: df583c0c5c80567bbd701cce0b2b0de83083bbb8cfeab8de88bc2b2100343df3 SHA512: b50cdb9612fd70fb4e97c49deee40a77be5ac58cc26c0f49b464aef552c5f54ac587e1b66867ad2e8712277206b64ee868e9370c8c2c22da6683370d52c83d73 Homepage: https://cran.r-project.org/package=NPCD Description: CRAN Package 'NPCD' (Nonparametric Methods for Cognitive Diagnosis) An array of nonparametric and parametric estimation methods for cognitive diagnostic models, including nonparametric classification of examinee attribute profiles, joint maximum likelihood estimation (JMLE) of examinee attribute profiles and item parameters, and nonparametric refinement of the Q-matrix, as well as conditional maximum likelihood estimation (CMLE) of examinee attribute profiles given item parameters and CMLE of item parameters given examinee attribute profiles. Currently the nonparametric methods in the package support both conjunctive and disjunctive models, and the parametric methods in the package support the DINA model, the DINO model, the NIDA model, the G-NIDA model, and the R-RUM model. Package: r-cran-npcdtools Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gdina, r-cran-npcd, r-cran-psych, r-cran-simdesign, r-cran-gtools Filename: pool/dists/focal/main/r-cran-npcdtools_1.0-1.ca2004.1_all.deb Size: 77936 MD5sum: 9b3b28f0dadadf45c01ced53cc348ba4 SHA1: 5a60f9d0700c18b1a54f8252422a3ce6afdb9298 SHA256: 2b8c9567106c9e69b825af613d7b9e7356397f4dbe2da6cf7f93e744aee691ec SHA512: 592793e4d227e1cde373f9a229cfc5ab69076beb61849dc0b2c0e272fab92bdd32c955a5e26fa3f46846a12a9d894c30661d22eeaea410ca3f7b4c68847beaa8 Homepage: https://cran.r-project.org/package=NPCDTools Description: CRAN Package 'NPCDTools' (The Nonparametric Classification Methods for Cognitive Diagnosis) Statistical tools for analyzing cognitive diagnosis (CD) data collected from small settings using the nonparametric classification (NPCD) framework. The core methods of the NPCD framework includes the nonparametric classification (NPC) method developed by Chiu and Douglas (2013) and the general NPC (GNPC) method developed by Chiu, Sun, and Bian (2018) and Chiu and Köhn (2019) . An extension of the NPCD framework included in the package is the nonparametric method for multiple-choice items (MC-NPC) developed by Wang, Chiu, and Koehn (2023) . Functions associated with various extensions concerning the evaluation, validation, and feasibility of the CD analysis are also provided. These topics include the completeness of Q-matrix, Q-matrix refinement method, as well as Q-matrix estimation. 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Other than the main test results mentioned in the reference paper, this package also provides a function to calculate the sample size allocations for the input long format data set, and also a function for adjusted/unadjusted confidence intervals calculations. There are also functions to visualize the distribution of data across different intervention groups over time, and also the adjusted/unadjusted confidence intervals. 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Details of methodologies used in the package can be found in Sharma, A., Mehrotra, R. (2014). , Sharma, A., Mehrotra, R., Li, J., & Jha, S. (2016). , and Mehrotra, R., & Sharma, A. (2006). . Package: r-cran-npreg Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 756 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-statmod Filename: pool/dists/focal/main/r-cran-npreg_1.1.0-1.ca2004.1_all.deb Size: 717924 MD5sum: 457b28c16138f51268e01f2d675b11d8 SHA1: e0c385c12c688d669a3eebe21d445eaf35545453 SHA256: 5771bf7dfc71b2b7a223c5f3669086fc9940a759ef25d6da0ae0d56a95a06ae3 SHA512: 36edf71d54dd23bf31cddd4fc2cb5b4cfc80dca61590b0428bb37f4c6f62846999e84e6b67e705db243177288559a19020ca7a9c8c3c823e986518e3b6998cda Homepage: https://cran.r-project.org/package=npreg Description: CRAN Package 'npreg' (Nonparametric Regression via Smoothing Splines) Multiple and generalized nonparametric regression using smoothing spline ANOVA models and generalized additive models, as described in Helwig (2020) . Includes support for Gaussian and non-Gaussian responses, smoothers for multiple types of predictors (including random intercepts), interactions between smoothers of mixed types, eight different methods for smoothing parameter selection, and flexible tools for diagnostics, inference, and prediction. Package: r-cran-npregderiv Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 331 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-npregderiv_1.0-1.ca2004.1_all.deb Size: 279040 MD5sum: e9fcc2b50dc1f60b5f65dab64c9abb16 SHA1: c2229432b1fdfa382554dbf5d19e3202675e813a SHA256: a615b06a9755a935379494f092c7f7971e60cba1395a7672e62e3c10ed50568e SHA512: a8da18126baa5b953beb5805b3e96c0c8b02b779c6876b9b295ebad851a5f206208408ac6517f8211d16307d144f29de710b869c3d3e7575a2b37a12cb463c14 Homepage: https://cran.r-project.org/package=npregderiv Description: CRAN Package 'npregderiv' (Nonparametric Estimation of the Derivatives of a RegressionFunction) Estimating the first and second derivatives of a regression function by the method of Wang and Lin (2015) . Package: r-cran-nproc Architecture: all Version: 2.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 471 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-e1071, r-cran-randomforest, r-cran-naivebayes, r-cran-mass, r-cran-ada, r-cran-rocr, r-cran-tree Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-nproc_2.1.5-1.ca2004.1_all.deb Size: 401940 MD5sum: eeda1771cf2a64a42fba807204d93903 SHA1: 616d445f847c8795f1770940ed091778a965481f SHA256: aabe409748fa739ba7ac65593189d21d9ef80eae8287686f9ea49fc8162a7535 SHA512: b421f94dfb338eb344cf6435c7890af83bef632f32d0c99afaed2c2a99155232c39cb34ca9e16eb0383344e0eae79ae1f709fe1f988837039256b473045a1705 Homepage: https://cran.r-project.org/package=nproc Description: CRAN Package 'nproc' (Neyman-Pearson (NP) Classification Algorithms and NP ReceiverOperating Characteristic (NP-ROC) Curves) In many binary classification applications, such as disease diagnosis and spam detection, practitioners commonly face the need to limit type I error (i.e., the conditional probability of misclassifying a class 0 observation as class 1) so that it remains below a desired threshold. To address this need, the Neyman-Pearson (NP) classification paradigm is a natural choice; it minimizes type II error (i.e., the conditional probability of misclassifying a class 1 observation as class 0) while enforcing an upper bound, alpha, on the type I error. Although the NP paradigm has a century-long history in hypothesis testing, it has not been well recognized and implemented in classification schemes. Common practices that directly limit the empirical type I error to no more than alpha do not satisfy the type I error control objective because the resulting classifiers are still likely to have type I errors much larger than alpha. As a result, the NP paradigm has not been properly implemented for many classification scenarios in practice. In this work, we develop the first umbrella algorithm that implements the NP paradigm for all scoring-type classification methods, including popular methods such as logistic regression, support vector machines and random forests. Powered by this umbrella algorithm, we propose a novel graphical tool for NP classification methods: NP receiver operating characteristic (NP-ROC) bands, motivated by the popular receiver operating characteristic (ROC) curves. NP-ROC bands will help choose in a data adaptive way and compare different NP classifiers. Package: r-cran-nprotreg Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 573 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-foreach Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-nprotreg_1.1.1-1.ca2004.1_all.deb Size: 505848 MD5sum: e1ceaddd2d4239c0be84079e63acf9bc SHA1: c5376b019e372942d3c3750bae84d48c92957dbb SHA256: 7ffbf2872496fd9b69c974882f69f13c76e8842af4003ed7f8dccf7cfbe1ec38 SHA512: 0f64f60d54429f1b103745bc8e4ad2c72e5519e83ec9a63933a8e70b1f95ecd508925b4cb4ee869ac9dac4566dea0640c92a85cb3bff0cf8016dedff458ff790 Homepage: https://cran.r-project.org/package=nprotreg Description: CRAN Package 'nprotreg' (Nonparametric Rotations for Sphere-Sphere Regression) Fits sphere-sphere regression models by estimating locally weighted rotations. Simulation of sphere-sphere data according to non-rigid rotation models. Provides methods for bias reduction applying iterative procedures within a Newton-Raphson learning scheme. Cross-validation is exploited to select smoothing parameters. See Marco Di Marzio, Agnese Panzera & Charles C. Taylor (2018) . Package: r-cran-nps Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nps_1.1-1.ca2004.1_all.deb Size: 48104 MD5sum: 7045f7c4b4392b073263fcbec139773e SHA1: a21236eb01784610e52ff8db521cd0ca98960246 SHA256: 08f8586cbc69eb9aceff1ec96a05b020644bfd10007c9936acf6c66deafbddbd SHA512: c390a0473f7b15c0a9662508aa5bde5d300bab6d9f4a5778ab5dfc759a883351b57f3437c436fd7bc364e34dcae72c8d83b937daf0ff1c57730f960f69fc4048 Homepage: https://cran.r-project.org/package=NPS Description: CRAN Package 'NPS' (Convenience Functions and Tests for Working With the NetPromoter Score (NPS)) Small functions to make working with survey data in the context of a Net Promoter programme easier. Specifically, data transformation methods, some methods for examining the statistical properties of the NPS, such as its variance and standard errors, and some simple inferential testing procedures. Net Promoter and NPS are registered trademarks of Bain & Company, Satmetrix Systems and Fred Reichheld. Package: r-cran-npsm Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 304 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rfit, r-cran-class, r-cran-plyr Suggests: r-cran-boot, r-cran-survival, r-cran-sm, r-cran-hsaur2, r-cran-remotes, r-cran-profiler, r-cran-car, r-cran-dplyr, r-cran-tree Filename: pool/dists/focal/main/r-cran-npsm_2.0.0-1.ca2004.1_all.deb Size: 259764 MD5sum: b489e8d44982be4f64fa763fb8a221d9 SHA1: e10a49482d54de9a76aa886b8608ad4fd9018618 SHA256: 41722ea6c26d0bc057e2ab52d5cfce0596f1a9263e2468e19ad33675e5e5b7bd SHA512: 6d827b8f3db685b29fef27ca4ddba098e63a33e7533ff1fca71ace2326b0ed80fadbe50f97007eecf0bb52ee7d7c95f9bdbbc4f59ede6171f4141f15df5707b3 Homepage: https://cran.r-project.org/package=npsm Description: CRAN Package 'npsm' (Nonparametric Statistical Methods) Accompanies the book "Nonparametric Statistical Methods Using R, 2nd Edition" by Kloke and McKean (2024, ISBN:9780367651350). Includes methods, datasets, and random number generation useful for the study of robust and/or nonparametric statistics. Emphasizes classical nonparametric methods for a variety of designs --- especially one-sample and two-sample problems. Includes methods for general scores, including estimation and testing for the two-sample location problem as well as Hogg's adaptive method. Package: r-cran-npsr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-infotheo, r-cran-mass, r-cran-gmp Filename: pool/dists/focal/main/r-cran-npsr_0.1.1-1.ca2004.1_all.deb Size: 56848 MD5sum: ea5ef4171af8fb5798056df8c4a0872d SHA1: 293310ba947330bd8d2d089e0752efdf464042b5 SHA256: fbccb7c9cf60fd69d8b78003d098fdfa05da41a8b78e6c8ac025e24552a7ec06 SHA512: eed6e0a4cfb520470d2eda22471d373984142303ebd4465ff43f367b72cae6681e1593c0931a105ad2725e2193b535064018ffe739e30d6d6a62af21f620c22b Homepage: https://cran.r-project.org/package=npsr Description: CRAN Package 'npsr' (Validate Instrumental Variables using NPS) An R implementation of the Necessary and Probably Sufficient (NPS) test for finding valid instrumental variables, as suggested by Amit Sharma (2016, Working Paper) . The NPS test, compares the likelihood that a given set of observational data of the three variables Z, X and Y is generated by a valid instrumental variable model (Z -> X -> Y) to the likelihood that the data is generated by an invalid IV model. Package: r-cran-npsurv Architecture: all Version: 0.5-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lsei Filename: pool/dists/focal/main/r-cran-npsurv_0.5-0-1.ca2004.1_all.deb Size: 173620 MD5sum: 94bdf4ba1e04583317aff84d237bac8f SHA1: ad37e857993637e1da3c94fde38701f68b5dcf21 SHA256: 476bece7a438e22651716f894588632ffa7e3283b5595d88e4e1e5d511a0b4e5 SHA512: 99ee62ee7ccad877f6e144e90df9d689e50aceee8db6ecd04a6b8121134dadd441eec277052244be95932f807778f4e30744e2496251aee581d140f5d23c6817 Homepage: https://cran.r-project.org/package=npsurv Description: CRAN Package 'npsurv' (Nonparametric Survival Analysis) Non-parametric survival analysis of exact and interval-censored observations. The methods implemented are developed by Wang (2007) , Wang (2008) , Wang and Taylor (2013) and Wang and Fani (2018) . 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Despite the multitude of options, the convention in survival studies is to assume proportional hazards and to use the unweighted log-rank test for design and analysis. This package provides sample size and power calculation for all of the above statistical tests with allowance for flexible accrual, censoring, and survival (eg. Weibull, piecewise-exponential, mixture cure). It is the companion R package to the paper by Yung and Liu (2020) . Specific to the weighted log-rank test, users may specify which approximations they wish to use to estimate the large-sample mean and variance. The default option has been shown to provide substantial improvement over the conventional sample size and power equations based on Schoenfeld (1981) . Package: r-cran-nptest Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nptest_1.1-1.ca2004.1_all.deb Size: 185952 MD5sum: 53100417a57d87b1ab4fcf3d9c373c43 SHA1: 58e03923a45c34a5d189f7d956aac213af1d2748 SHA256: c62343e0e0e010637dba63f797bb67b231d827e122e0579076880e50b2e262e7 SHA512: 9682c46f4063a6c141a7ae28b72afa994d429f73a6abe61b8fe477aa0b233518414491050e3c729324977fb59eac51ed77d767d191ace62ad7acfd120026f4ef Homepage: https://cran.r-project.org/package=nptest Description: CRAN Package 'nptest' (Nonparametric Bootstrap and Permutation Tests) Robust nonparametric bootstrap and permutation tests for location, correlation, and regression problems, as described in Helwig (2019a) and Helwig (2019b) . Univariate and multivariate tests are supported. For each problem, exact tests and Monte Carlo approximations are available. Five different nonparametric bootstrap confidence intervals are implemented. Parallel computing is implemented via the 'parallel' package. Package: r-cran-npwbs Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-npwbs_0.2.0-1.ca2004.1_all.deb Size: 158576 MD5sum: 5bf2c7450ff50be7b1ad6e8fbe99259d SHA1: 851ff3a0657ba7d6327aea30f2f1ff37155878ac SHA256: 998ea912d11b40150bd91c2d868b566a403294e06670c97fb3784ca8fa7080bb SHA512: da325b29cf78679f3e972bb481a217af41658f2f818cf9345be02323fba9f10f920b281225e367df9cdc9874a6206243daef0a21f5de87125399a29e7307e93d Homepage: https://cran.r-project.org/package=npwbs Description: CRAN Package 'npwbs' (Nonparametric Multiple Change Point Detection Using WBS) Implements the procedure from G. J. 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Package: r-cran-nrba Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1421 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-broom, r-cran-dplyr, r-cran-magrittr, r-cran-rlang, r-cran-srvyr, r-cran-survey, r-cran-svrep, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-nrba_0.3.1-1.ca2004.1_all.deb Size: 499592 MD5sum: 400e237713e210772937ea92e2d7300e SHA1: f0dc976ef8771ed85e7b73dccb8c5801ff8d8ef6 SHA256: 66f7152900ac35b6bd7ab59c647926e42d68df2476d5c2157864c17a068399ba SHA512: 6a7c4e0d71517b9d919882e106d96b7787caeadd376fea3f3aa855e4450eceb2f2462d1c1fe62800996f0aacc81100ad07a93b81fd34bcc13fb0580e6b78696d Homepage: https://cran.r-project.org/package=nrba Description: CRAN Package 'nrba' (Methods for Conducting Nonresponse Bias Analysis (NRBA)) Facilitates nonresponse bias analysis (NRBA) for survey data. Such data may arise from a complex sampling design with features such as stratification, clustering, or unequal probabilities of selection. Multiple types of analyses may be conducted: comparisons of response rates across subgroups; comparisons of estimates before and after weighting adjustments; comparisons of sample-based estimates to external population totals; tests of systematic differences in covariate means between respondents and full samples; tests of independence between response status and covariates; and modeling of outcomes and response status as a function of covariates. Extensive documentation and references are provided for each type of analysis. Krenzke, Van de Kerckhove, and Mohadjer (2005) and Lohr and Riddles (2016) provide an overview of the methods implemented in this package. Package: r-cran-nregression Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-covr, r-cran-simitation Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-testthat, r-cran-devtools Filename: pool/dists/focal/main/r-cran-nregression_0.5.1-1.ca2004.1_all.deb Size: 30428 MD5sum: 115b927555321b89efab01046c83cd90 SHA1: 741e7ec42231a8200f3089813b2147af962bac3b SHA256: d810502a4ed8cc88e733d15e7cd1eaa342cb0b53fbc1e2bcaee2cee52ac60b30 SHA512: 2fcde6ee5526b85a446a00b91b068b33097a6cbd9258d8cb0f389df963027b133e7c99fc01a6c6f4270ef576a34ed84a266c93b8f8e8dbfea3314c0b863cb490 Homepage: https://cran.r-project.org/package=nRegression Description: CRAN Package 'nRegression' (Simulation-Based Calculations of Sample Size for Linear andLogistic Regression) Provides a function designed to estimate the minimal sample size required to attain a specific statistical power in the context of linear regression and logistic regression models through simulations. Package: r-cran-nrejections Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-matrixcalc, r-cran-stepwisetest, r-cran-foreach, r-cran-mvtnorm Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-nrejections_1.2.0-1.ca2004.1_all.deb Size: 56128 MD5sum: 9af364ec23658047b86186a42b20d99c SHA1: 61dae98ee56772b4c722437ae69ae68063be7bd4 SHA256: 33cb32229730f4d3438ce05bd49806993158c11e954c8a1346d2997a49da296f SHA512: d84f03a1d3c07f3acf941e85a577751be2e58c0160fcb2bd98a200e1487c38a5e8ca7c74693343b5f23416ebac4592ca4f79fc501326cb09dab63f4e0f277d6e Homepage: https://cran.r-project.org/package=NRejections Description: CRAN Package 'NRejections' (Metrics for Multiple Testing with Correlated Outcomes) Implements methods in Mathur and VanderWeele (in preparation) to characterize global evidence strength across W correlated ordinary least squares (OLS) hypothesis tests. Specifically, uses resampling to estimate a null interval for the total number of rejections in, for example, 95% of samples generated with no associations (the global null), the excess hits (the difference between the observed number of rejections and the upper limit of the null interval), and a test of the global null based on the number of rejections. Package: r-cran-nricens Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-nricens_1.6-1.ca2004.1_all.deb Size: 73016 MD5sum: f923b08ff20e3c939d28470ed0c993da SHA1: 0f1a9547874ac768f3aebd1024a390f135f1c846 SHA256: af2ce170641707aed4416ada3d9dede529a9b8320ced66740a8f75807ebd848c SHA512: 81fd4576726b1210bc73806de39e2ffdf952eb19ed6e5a71cfa2fcd621f33a960832a4f1c80b509d5c573da8d079bf021573ee0fc0e67aa1fdd32aff03ab6a90 Homepage: https://cran.r-project.org/package=nricens Description: CRAN Package 'nricens' (NRI for Risk Prediction Models with Time to Event and BinaryResponse Data) Calculating the net reclassification improvement (NRI) for risk prediction models with time to event and binary data. Package: r-cran-nsae Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 231 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rlist, r-cran-cluster, r-cran-mass, r-cran-lattice, r-cran-matrix, r-cran-numderiv, r-cran-nlme, r-cran-spgwr, r-cran-semipar Filename: pool/dists/focal/main/r-cran-nsae_0.4.0-1.ca2004.1_all.deb Size: 200620 MD5sum: 356a382909ee71ee62c16f8b59f4d589 SHA1: 5e44a2f0ebb433b04d6e039b3282548473760eea SHA256: f6582636d9a676cd4cdbee202ad3530623574283b9afc26ba46a63b9fe8cca28 SHA512: e4d361724e601e2f94efe1a3c0258405233354c00dbb69220cb95e023ff8056980db8a98be9fd4661888a4ce3af16ab5ca5c2fef30fa60cf7b3c404bf591157c Homepage: https://cran.r-project.org/package=NSAE Description: CRAN Package 'NSAE' (Nonstationary Small Area Estimation) Executes nonstationary Fay-Herriot model and nonstationary generalized linear mixed model for small area estimation.The empirical best linear unbiased predictor (EBLUP) under stationary and nonstationary Fay-Herriot models and empirical best predictor (EBP) under nonstationary generalized linear mixed model along with the mean squared error estimation are included. EBLUP for prediction of non-sample area is also included under both stationary and nonstationary Fay-Herriot models. This extension to the Fay-Herriot model that accounts for the presence of spatial nonstationarity was developed by Hukum Chandra, Nicola Salvati and Ray Chambers (2015) and nonstationary generalized linear mixed model was developed by Hukum Chandra, Nicola Salvati and Ray Chambers (2017) . This package is dedicated to the memory of Dr. Hukum Chandra who passed away while the package creation was in progress. Package: r-cran-nsapi Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 237 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crul, r-cran-xml2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-nsapi_0.1.1-1.ca2004.1_all.deb Size: 147028 MD5sum: 8a2229cd501e2be28a3745b3a23951f4 SHA1: a486018e9996bb61e629bda13a9946c67ac19161 SHA256: 255ce835a73eed29c3739451c920538759b37bf9f57ab6bff72b51b1a20f8e79 SHA512: 61ba357076f58923ce362dc760d3a2ce9d375520a0da97eba05127e8cda7286b7627f4b58fe7248fe23f8583e6e4f753eb007d9681943dbdf18222b1c5661413 Homepage: https://cran.r-project.org/package=nsapi Description: CRAN Package 'nsapi' (Connect to the NS (Dutch Railways) API) Access the NS api and download current departure times, disruptions and engineering work, the station list, and travel recommendations from station to station. 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Package: r-cran-nsarfima Architecture: all Version: 0.2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nsarfima_0.2.0.0-1.ca2004.1_all.deb Size: 57844 MD5sum: f0922bc526ba83e57ec626a7768d883a SHA1: fa73984b581aac28f97e9f7c4a1159eed7247c0b SHA256: 9940b8635a32b00ff474a748cd95bee1efc9889128cdad0bb71ae4f3264bef18 SHA512: 966a538c688d730e3e0b2f7969b189aaa2eaec13128a164dff6b347822cf343fb07e23453c6abad7d16e47e5539d93bcc4c31dd8386fb1cf03ba09b323c42dd6 Homepage: https://cran.r-project.org/package=nsarfima Description: CRAN Package 'nsarfima' (Methods for Fitting and Simulating Non-Stationary ARFIMA Models) Routines for fitting and simulating data under autoregressive fractionally integrated moving average (ARFIMA) models, without the constraint of covariance stationarity. Two fitting methods are implemented, a pseudo-maximum likelihood method and a minimum distance estimator. Mayoral, L. (2007) . Beran, J. (1995) . Package: r-cran-nscancor Architecture: all Version: 0.7.0-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-cca, r-cran-glmnet, r-cran-mass, r-cran-roxygen2, r-cran-testthat, r-cran-v8 Filename: pool/dists/focal/main/r-cran-nscancor_0.7.0-6-1.ca2004.1_all.deb Size: 59204 MD5sum: af94379f9b84907fc5fa6f915686750f SHA1: ae7f193230049fc56cee2b28db8efd669c2ef69d SHA256: 1dfaaf1b30d238d51150d3d072a0762fca01cbceb34b2b70e5da7fee6b06b0c6 SHA512: fdc6dcea4819d13748e15ba6a5af3f6bd48b2d201d6d936b00c0f85626b547e5c1deffb5f9252b97218fc86d7afc7a681fd139f5695a7ec3a2c6e466cdb727cb Homepage: https://cran.r-project.org/package=nscancor Description: CRAN Package 'nscancor' (Non-Negative and Sparse CCA) Two implementations of canonical correlation analysis (CCA) that are based on iterated regression. By choosing the appropriate regression algorithm for each data domain, it is possible to enforce sparsity, non-negativity or other kinds of constraints on the projection vectors. Multiple canonical variables are computed sequentially using a generalized deflation scheme, where the additional correlation not explained by previous variables is maximized. nscancor() is used to analyze paired data from two domains, and has the same interface as cancor() from the 'stats' package (plus some extra parameters). mcancor() is appropriate for analyzing data from three or more domains. See and Sigg et al. (2007) for more details. 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Principal Component Analysis (PCA), Sliced Inverse Regression (SIR), and Sliced Average Variance Estimation (SAVE) are useful methods to reduce the dimensionality of covariates. However, they produce linear combinations of covariates. Kernel PCA, generalized SIR, and generalized SAVE address this problem by extending the applicability of the dimension reduction problem to nonlinear settings. This package includes a comprehensive algorithm for kernel PCA, generalized SIR, and generalized SAVE, including methods for choosing tuning parameters and some essential functions. 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The package refers to the index-value method and, more precisely, helps the hydrologist to: (1) regionalize the index-value; (2) form homogeneous regions with similar growth curves; (3) fit distribution functions to the empirical regional growth curves. Most of the methods are those described in the Flood Estimation Handbook (Centre for Ecology & Hydrology, 1999, ISBN:9781906698003). Homogeneity tests from Hosking and Wallis (1993) and Viglione et al. (2007) are available. 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See Mrkvička et al. (2021) , Dvořák et al. (2022) , Dvořák and Mrkvička (2024) . 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Specifically, the "effect-size distribution" that best quantifies a potentially causal relationship between a numeric y-Outcome variable and either a binary t-Treatment or continuous e-Exposure variable needs to consist of BLOCKS of relatively well-matched experimental units (e.g. patients) that have the most similar X-confounder characteristics. Since our NU Learning approach will form BLOCKS by "clustering" experimental units in confounder X-space, the implicit statistical model for learning is One-Way ANOVA. Within Block measures of effect-size are then either [a] LOCAL Treatment Differences (LTDs) between Within-Cluster y-Outcome Means ("new" minus "control") when treatment choice is Binary or else [b] LOCAL Rank Correlations (LRCs) when the e-Exposure variable is numeric with (hopefully many) more than two levels. An Instrumental Variable (IV) method is also provided so that Local Average y-Outcomes (LAOs) within BLOCKS may also contribute information for effect-size inferences when X-Covariates are assumed to influence Treatment choice or Exposure level but otherwise have no direct effects on y-Outcomes. Finally, a "Most-Like-Me" function provides histograms of effect-size distributions to aid Doctor-Patient (or Researcher-Society) communications about Heterogeneous Outcomes. Obenchain and Young (2013) ; Obenchain, Young and Krstic (2019) . 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Schmid, Marion Cremer, Thomas Cremer (2017) . 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The executable of the model can downloaded from . Package: r-cran-nueton Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-nueton_0.1.0-1.ca2004.1_all.deb Size: 65268 MD5sum: a3d41394d84890953f528a60022b2bb9 SHA1: 5bde34745ead7a7e114c15726abca2b363cd21d2 SHA256: 6dcac6c8e0655773ad91f819aefe207fdf76517ce540a6e0deaefbc5cae4a85b SHA512: 20539ae93c14df1f8949f959fdeb0a0d64e240a5b2e251dda08e669d547dc0cd3501a44f97a8019613f0e83da398b8f386f61705d2767d11d14609b8f5a0a86d Homepage: https://cran.r-project.org/package=NUETON Description: CRAN Package 'NUETON' (Nitrogen Use Efficiency Toolkit on Numerics) Comprehensive R package designed to facilitate the calculation of Nitrogen Use Efficiency (NUE) indicators using experimentally derived data. The package incorporates 23 parameters categorized into six fertilizer-based, four plant-based, three soil-based, three isotope-based, two ecology-based, and four system-based indicators, providing a versatile platform for NUE assessment. As of the current version, 'NUETON' serves as a starting point for users to compute NUE indicators from their experimental data. Future updates are planned to enhance the package's capabilities, including robust data visualization tools and error margin consideration in calculations. Additionally, statistical methods will be integrated to ensure the accuracy and reliability of the calculated indicators. All formulae used in 'NUETON' are thoroughly referenced within the source code, and the package is released as open source software. Users are encouraged to provide feedback and contribute to the improvement of this package. It is important to note that the current version of 'NUETON' is not intended for rigorous research purposes, and users are responsible for validating their results. The package developers do not assume liability for any inaccuracies in calculations. This package includes content from Congreves KA, Otchere O, Ferland D, Farzadfar S, Williams S and Arcand MM (2021) 'Nitrogen Use Efficiency Definitions of Today and Tomorrow.' Front. Plant Sci. 12:637108. . The article is available under the Creative Commons Attribution License (CC BY) C. 2021 Congreves, Otchere, Ferland, Farzadfar, Williams and Arcand. 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The package automatically returns complete results on all 40 models, 25 charts, multiple tables. The user simply provides the data, and answers a few questions (for example, how many times would you like to resample the data). From there the package randomly splits the data into train, test and validation sets, builds models on the training data, makes predictions on the test and validation sets, measures root mean squared error (RMSE), removes features above a user-set level of Variance Inflation Factor, and has several optional features including scaling all numeric data, four different ways to handle strings in the data. Perhaps the most significant feature is the package's ability to make predictions using the 40 pre trained models on totally new (untrained) data if the user selects that feature. This feature alone represents a very effective solution to the issue of reproducibility of models in data science. The package can also randomly resample the data as many times as the user sets, thus giving more accurate results than a single run. The graphs provide many results that are not typically found. For example, the package automatically calculates the Kolmogorov-Smirnov test for each of the 40 models and plots a bar chart of the results, a bias bar chart of each of the 40 models, as well as several plots for exploratory data analysis (automatic histograms of the numeric data, automatic histograms of the numeric data). The package also automatically creates a summary report that can be both sorted and searched for each of the 40 models, including RMSE, bias, train RMSE, test RMSE, validation RMSE, overfitting and duration. The best results on the holdout data typically beat the best results in data science competitions and published results for the same data set. 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This database reports the quantity of nutrients in foods commonly consumed in Canada. 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Package: r-cran-obaspatial Architecture: all Version: 1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-modeest, r-cran-cubature, r-cran-truncdist, r-cran-invgamma, r-cran-laplacesdemon, r-cran-hdinterval, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-obaspatial_1.9-1.ca2004.1_all.deb Size: 220348 MD5sum: 4a7b2beffdf894491546e8e5a171602b SHA1: 49d968ce0c5d0dec3532e394ed2f604f6e3fc71e SHA256: 15116f682a4230110c552b7764575f667403ac2eb4d6d9e1db7f49d85917cfc1 SHA512: 539c5bb60e2e65cd42af8ed58605b913c0986915f5697a9cc182e890a93df69323edc0a8b959a8931ffc7a92e08d7d6f2b1840b97d7568392086a7130191d66a Homepage: https://cran.r-project.org/package=OBASpatial Description: CRAN Package 'OBASpatial' (Objective Bayesian Analysis for Spatial Regression Models) It makes an objective Bayesian analysis of the spatial regression model using both the normal (NSR) and student-T (TSR) distributions. 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Package: r-cran-oca Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mathjaxr Filename: pool/dists/focal/main/r-cran-oca_0.5-1.ca2004.1_all.deb Size: 52980 MD5sum: 0b99a0ee70f28773bab14212058df016 SHA1: 5920c73b67dcb149b75654ea941bd46edd12defc SHA256: 9d2a8adeea8caa87a3dc71b687d42d0ee68293b2f96c1f46f84f7c02d746d360 SHA512: 7924dc8e36e53224ec741cb85ccab334de84935e2b10d279a4f2b2725656e17546db1bd07f1b1021fddc8b8f2ff7c8a9949c673433091858f9c0a46df9d485f6 Homepage: https://cran.r-project.org/package=OCA Description: CRAN Package 'OCA' (Optimal Capital Allocations) Computes optimal capital allocations based on some standard principles such as Haircut, Overbeck type II and the Covariance Allocation Principle. 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Package: r-cran-occ Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-occ_1.2-1.ca2004.1_all.deb Size: 27480 MD5sum: efb40bdd60c94227484767425e6b0467 SHA1: 01d0a134cc9a167576e73c1ba971f11954bead8c SHA256: 2e89431137d8315b8baca18eb7d9afdfdb436dd9eadf1eed93397d787ce59b4a SHA512: b58c1f655afb8b1c3a739fa85fca8798814a8c55b0a2683f54399f0ee96d529f84ba2129fcabefea04d71520f58609c3eba9d5b3750b0cd092ebf03134a39407 Homepage: https://cran.r-project.org/package=occ Description: CRAN Package 'occ' (Estimation of PET Neuroreceptor Occupancies) Estimate the positron emission tomography (PET) neuroreceptor occupancies from the total volumes of distribution of a set of regions of interest. 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Package: r-cran-occcite Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2621 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bib2df, r-cran-bien, r-cran-curl, r-cran-dplyr, r-cran-lubridate, r-cran-rgbif, r-cran-refmanager, r-cran-stringr, r-cran-leaflet, r-cran-htmltools, r-cran-ggplot2, r-cran-rlang, r-cran-tidyr, r-cran-rpostgresql, r-cran-rcolorbrewer, r-cran-viridis, r-cran-dbi, r-cran-waffle Suggests: r-cran-ape, r-cran-bit64, r-cran-covr, r-cran-knitr, r-cran-httr, r-cran-rmarkdown, r-cran-remotes, r-cran-testthat, r-cran-taxize Filename: pool/dists/focal/main/r-cran-occcite_0.6.0-1.ca2004.1_all.deb Size: 1736120 MD5sum: 6d033ec9b8e83369852661a2be266df3 SHA1: de76ba93abbdafb829e3d7964e9c2d525dc4dfa8 SHA256: 36bfde2f79581b8d4aa16fe6f643c3297178e2e2929161965819b84638381281 SHA512: 5463a0f55576102bfe8ece33f2bd4be742484abae06a3a1faa3cfebce32c86fce13141aae01b016806510a5657b4e5f3010aeac2f6d59bb557533137fd9c203e Homepage: https://cran.r-project.org/package=occCite Description: CRAN Package 'occCite' (Querying and Managing Large Biodiversity Occurrence Datasets) Facilitates the gathering of biodiversity occurrence data from disparate sources. Metadata is managed throughout the process to facilitate reporting and enhanced ability to repeat analyses. 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Model fitting results can be used to evaluate and compare the effectiveness of species detection to find an efficient survey design. Reference: Fukaya et al. (2022) , Fukaya and Hasebe (2025) . 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Users can use the software to: (a) change each coordinate record's uncertainty from meters to decimal degrees, The formula for converting from meters to decimal degrees is in part based on information from the ESRI ArcUser magazine "Measuring in Arc-Seconds" at this site (b) deal with records that don't have uncertainty values in multiple ways, (c) create a new random location for each occurrence using a uniform distribution with a defined interval within the occurrence location uncertainty, and (d) use repetitions to quantify EOO and AOO with attribute uncertainty. Package: r-cran-occupancy Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrixstats Suggests: r-cran-vgam, r-cran-ggplot2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-occupancy_1.2-1.ca2004.1_all.deb Size: 172420 MD5sum: ae5a8b7de1c3ce8eb33da101c02e762c SHA1: 2cffbe37876b91265673f8b6aaf6e0e6c21f2127 SHA256: 9117afba6f689a4059d80059bd16193c93119e3dbf9ff937769bceacb8abff5f SHA512: 40279d30d828e8fc29edf4fdecad9cde758c4d72ffae941c673111a163315676a5f699b3d17748c7d5822c8ad15c83664637d804a5b8d45d5c2a41b14ed97b60 Homepage: https://cran.r-project.org/package=occupancy Description: CRAN Package 'occupancy' (Probability Functions for Occupancy Distributions) The classical and extended occupancy distributions occur in cases where balls are randomly allocated to bins. The PDF, CDF, quantile functions, generation of random variates, and calculating the first four central moments of the distributions are implemented as described in O’Neill (2019) . 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(2021) and Schierholz, M., Gensicke, M., Tschersich, N., Kreuter, F. (2018) . Generate suggestions for occupational categories based on free text input, with pre-trained machine learning models in German and a ready-to-use shiny application provided for quick and easy data collection. Package: r-cran-ocd Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4446 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ocd_1.1-1.ca2004.1_all.deb Size: 4481108 MD5sum: 3f0b2ab2dad0d772a566e5e0e33bafa7 SHA1: 3a8ce57f7ccf544fabda92f118dff877184e41ab SHA256: 68f05006421769672d5ef1bbb0b6952f8a5856d3e67720cb898167bd229da6ab SHA512: 9069f05eb413e93517abd4f8398dac0f20e5e4e6f3f2b19b1ddba6e893bf87f45c1ea053cddcf51aec8a502d48542536d336e80c3b35d32c07da86ef6f23bb54 Homepage: https://cran.r-project.org/package=ocd Description: CRAN Package 'ocd' (High-Dimensional Multiscale Online Changepoint Detection) Implements the algorithm in Chen, Wang and Samworth (2020) for online detection of sudden mean changes in a sequence of high-dimensional observations. It also implements methods by Mei (2010) , Xie and Siegmund (2013) and Chan (2017) . Package: r-cran-oceanexplorer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3217 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stars, r-cran-shiny, r-cran-ggplot2, r-cran-sf, r-cran-waiter, r-cran-bslib, r-cran-thematic, r-cran-shinyfeedback, r-cran-purrr, r-cran-miniui, r-cran-rstudioapi, r-cran-dt, r-cran-fs, r-cran-glue, r-cran-shinyjs, r-cran-rlang, r-cran-maps, r-cran-ncmeta, r-cran-rnetcdf, r-cran-dplyr Suggests: r-cran-globals, r-cran-knitr, r-cran-rmarkdown, r-cran-shinytest, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-oceanexplorer_0.1.0-1.ca2004.1_all.deb Size: 1909136 MD5sum: 3d5a0e1ebfea5a378dba42ea8348cea2 SHA1: 682697d52b3d15ca2d70a6c6dce0e967ddbe7098 SHA256: e8bc5d721a37bfc51fee3d97dad1506c56ff2e96d416dd40c201713f4a7728e0 SHA512: 1c29e06a4c6ddb23f2536ccf912d92809d1f5a116bc38b4a3260ca11ab0f0cdc1971d950bed780986b486d9bf7932ef458a941cc129fdc08ae02ec07bbab0f98 Homepage: https://cran.r-project.org/package=oceanexplorer Description: CRAN Package 'oceanexplorer' (Explore Our Planet's Oceans with NOAA) Provides tools for easy exploration of the world ocean atlas of the US agency National Oceanic and Atmospheric Administration (NOAA). It includes functions to extract NetCDF data from the repository and code to visualize several physical and chemical parameters of the ocean. A Shiny app further allows interactive exploration of the data. The methods for data collecting and quality checks are described in several papers, which can be found here: . Package: r-cran-oceanic Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3845 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-broom, r-cran-ggplot2, r-cran-maps, r-cran-spdata Filename: pool/dists/focal/main/r-cran-oceanic_0.1.8-1.ca2004.1_all.deb Size: 3900336 MD5sum: 1a2de99ba5ae41acb2c7119ce576cb04 SHA1: f011008a8d381f5609418c69ae79af4fd9e2d76f SHA256: a581963c7ba3e373feae15c25e9662c64a9601577600c03ae9e1963acac8aebf SHA512: f81d1a43628c9a85b0e0980c2e5be81536c2dd8b25616bff7fc394f37492badc96ca0261aeee1f78b06442a44cc270c06493a926321ced64a1c568728f21ec2b Homepage: https://cran.r-project.org/package=oceanic Description: CRAN Package 'oceanic' (Location Identify Tool) Determine the sea area where the fishing boat operates. The latitude and longitude of geographic coordinates are used to match oceanic areas and economic sea areas. You can plot the distribution map with dotplot() function. Please refer to Flanders Marine Institute (2020) . 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Some functions use 'shiny' or 'leaflet' technologies for dynamism and interactivity. The great features are : - Create maps in a web environment where the parameters are modifiable on the fly ('shiny' and 'leaflet' technologies). - Create interactive maps through zoom and pop-up ('leaflet' technology). - Create frozen maps with the possibility to add labels. 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The package covers both data from household travel surveys, dictionaries of variables, and the spatial geometries of surveys conducted in different years and across various urban areas in Brazil. For some cities, the package will include enhanced versions of the data sets with variables "harmonized" across different years. 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The package 'oddnet' uses a feature-based method to identify anomalies. First, it computes many features for each network. Then it models the features using time series methods. Using time series residuals it detects anomalies. This way, the temporal dependencies are accounted for when identifying anomalies (Kandanaarachchi, Hyndman 2022) . Package: r-cran-odds.converter Architecture: all Version: 1.4.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-odds.converter_1.4.8-1.ca2004.1_all.deb Size: 72268 MD5sum: 5bd48c929699e3da117bf7b958bc1033 SHA1: c7c21adbaa5885adfa99851b91c0dbb7b57bd63b SHA256: c1c826e94fb49a82d973c83dc4aae0ac478520af627d698fb9a3877c10c5cc20 SHA512: e3bd05e901c5fb52b74eef6104dfd951e89f7557af8d2cb49bfbd354ec79a758ce97a8f28cea9ed508c0fd279174810a659506496f481b829677892a04691ceb Homepage: https://cran.r-project.org/package=odds.converter Description: CRAN Package 'odds.converter' (Betting Odds Conversion) Conversion between the most common odds types for sports betting. Hong Kong odds, US odds, Decimal odds, Indonesian odds, Malaysian odds, and raw Probability are covered in this package. Package: r-cran-odds.n.ends Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-odds.n.ends_0.1.4-1.ca2004.1_all.deb Size: 26852 MD5sum: aaf077d0d40c52fdc792fea4e2be15eb SHA1: ae8eb67bed6b45e36a5550799d2c4f4ecf9195e0 SHA256: ed602eafd51179e6dc0ca9dac4f2da56d5c396b917db4d8abc3ee6fae6e1993c SHA512: a71599cae9fc216582a74917899d75c5517b9fd3740c7fb967791109f5365d5ddcf2de5432763dd988b5a3356e8c8b39d2c50d0b7188f754cda6b45546d3e0d3 Homepage: https://cran.r-project.org/package=odds.n.ends Description: CRAN Package 'odds.n.ends' (Odds Ratios, Contingency Table, and Model Significance from aGeneralized Linear Model Object) Computes odds ratios and 95% confidence intervals from a generalized linear model object. It also computes model significance with the chi-squared statistic and p-value and it computes model fit using a contingency table to determine the percent of observations for which the model correctly predicts the value of the outcome. Calculates model sensitivity and specificity. Package: r-cran-oddsapir Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-data.table, r-cran-dplyr, r-cran-glue, r-cran-httr, r-cran-janitor, r-cran-jsonlite, r-cran-magrittr, r-cran-rlang, r-cran-rvest, r-cran-tidyr Suggests: r-cran-crayon, r-cran-curl, r-cran-dbi, r-cran-ggplot2, r-cran-ggrepel, r-cran-gt, r-cran-knitr, r-cran-progressr, r-cran-qs, r-cran-rcpp, r-cran-rcppparallel, r-cran-rmarkdown, r-cran-rsqlite, r-cran-stringi, r-cran-stringr, r-cran-testthat, r-cran-tibble, r-cran-tidyselect, r-cran-usethis, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-oddsapir_0.0.3-1.ca2004.1_all.deb Size: 64724 MD5sum: 73067632a66fd7061c27d92de13798b2 SHA1: 61c3fffda28469bbb91aaae6ac3e04c7dfb7267f SHA256: d393cd876e2f32cd8cc16ba16b6e0edb0286cfe863a3e6d118d3440f770b7404 SHA512: c281c3d04529c0f239917dbeb516d0e14a13d769c1b75cb23b543c895092bf04c393f7057200d3000b39ee52bff24a0576672c2d5c199fec84d7251c85da5f88 Homepage: https://cran.r-project.org/package=oddsapiR Description: CRAN Package 'oddsapiR' (Access Live Sports Odds from the Odds API) A utility to quickly obtain clean and tidy sports odds from The Odds API . Package: r-cran-oddsplotty Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 187 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-mlbench, r-cran-magrittr, r-cran-ggplot2, r-cran-tibble, r-cran-ggthemes, r-cran-e1071, r-cran-tidymodels, r-cran-rmarkdown Suggests: r-cran-knitr, r-cran-covr, r-cran-testthat, r-cran-markdown Filename: pool/dists/focal/main/r-cran-oddsplotty_1.0.2-1.ca2004.1_all.deb Size: 97456 MD5sum: 352709dbdd406f8f8f1d2d85626cbd6d SHA1: 5aadd753d9fd2f6dfce438243a691e1cbbbaf504 SHA256: 5a6cceb5d96bc5e4065fd627d894ddecabdcc73d511a5c46b2b11f15d70ba83e SHA512: ea8bc62c5e613d1f95467ad0a1cb29dbbc8033c738819c7892e571acb80244df43baccbca640ff32e7f3ba05d5e8300c4b64c859e46aca1dd99289a0f79859b3 Homepage: https://cran.r-project.org/package=OddsPlotty Description: CRAN Package 'OddsPlotty' (Odds Plot to Visualise a Logistic Regression Model) Uses the outputs of a logistic regression model, from caret , to build an odds plot. This allows for the rapid visualisation of odds plot ratios and works best with the outputs of CARET's GLM model class, by returning the final trained model. Package: r-cran-oddsratio Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 371 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-mgcv Suggests: r-cran-gam, r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-oddsratio_2.0.2-1.ca2004.1_all.deb Size: 273132 MD5sum: 5398d4643c4f1e4edeb4ad950afa3588 SHA1: 5695cbd31e49bda937e51d4166fe16d67c098f30 SHA256: 57a2d29d220f89e508fff404a2fe775db4f69a50dd2b04d032f26cd40b2d6e94 SHA512: 981524c739c55b0572b51ba14fc2f4bc8ab41e1cae0f0f00727ae6ff3d125b33176f96009522108ffd1b2e32911ffde22e12c3f7d5d8e2ab9774f9d1da29cbda Homepage: https://cran.r-project.org/package=oddsratio Description: CRAN Package 'oddsratio' (Odds Ratio Calculation for GAM(M)s & GLM(M)s) Simplified odds ratio calculation of GAM(M)s & GLM(M)s. Provides structured output (data frame) of all predictors and their corresponding odds ratios and confident intervals for further analyses. It helps to avoid false references of predictors and increments by specifying these parameters in a list instead of using 'exp(coef(model))' (standard approach of odds ratio calculation for GLMs) which just returns a plain numeric output. For GAM(M)s, odds ratio calculation is highly simplified with this package since it takes care of the multiple 'predict()' calls of the chosen predictor while holding other predictors constant. Also, this package allows odds ratio calculation of percentage steps across the whole predictor distribution range for GAM(M)s. In both cases, confident intervals are returned additionally. Calculated odds ratio of GAM(M)s can be inserted into the smooth function plot. Package: r-cran-oddstream Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3342 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pcapp, r-cran-ggplot2, r-cran-ks, r-cran-mass, r-cran-rcpproll, r-cran-mgcv, r-cran-rcolorbrewer, r-cran-mvtsplot, r-cran-tibble, r-cran-reshape, r-cran-dplyr, r-cran-tidyr, r-cran-kernlab, r-cran-magrittr Suggests: r-cran-testthat, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-oddstream_0.5.0-1.ca2004.1_all.deb Size: 3349344 MD5sum: 0edbf7b5f0491ab536844a2da3310dba SHA1: c6f89e999f7fdf45ea8a345e44d059a3be2927eb SHA256: 0277b3a06c6ce2c93503cc6326ee7120edcf3ba2e49b2474414fa7e33bbf273e SHA512: f7f59bb9adce47c352a9e0385f3c505db6ed1cce8cfac8a80a2d6688bc238e695dd888cf530d6b6c69b95b6ca36f12ad2b51d15c7d815c83622fced1b39900a6 Homepage: https://cran.r-project.org/package=oddstream Description: CRAN Package 'oddstream' (Outlier Detection in Data Streams) We proposes a framework that provides real time support for early detection of anomalous series within a large collection of streaming time series data. By definition, anomalies are rare in comparison to a system's typical behaviour. We define an anomaly as an observation that is very unlikely given the forecast distribution. The algorithm first forecasts a boundary for the system's typical behaviour using a representative sample of the typical behaviour of the system. An approach based on extreme value theory is used for this boundary prediction process. Then a sliding window is used to test for anomalous series within the newly arrived collection of series. Feature based representation of time series is used as the input to the model. To cope with concept drift, the forecast boundary for the system's typical behaviour is updated periodically. More details regarding the algorithm can be found in Talagala, P. D., Hyndman, R. J., Smith-Miles, K., et al. (2019) . Package: r-cran-odenetwork Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 204 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-checkmate, r-cran-desolve Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-odenetwork_1.3.2-1.ca2004.1_all.deb Size: 127748 MD5sum: 827b9874fef1537b68c0f20e977d804b SHA1: 6e4a940cfa6dc9d691920377718a58d257bfa71d SHA256: 7cb9f313f6d42d85682dab66265f780d65381d7539dc83da013269179b951591 SHA512: bc27ea43817dce1f6f3e7b9a724c9fd52acaf087d6c9d9bc3353ca4de3389d5c2d4c0a3953efeb8de65f63d050ac33f773bb8559ae31866ad94b8b1c7ce43b29 Homepage: https://cran.r-project.org/package=ODEnetwork Description: CRAN Package 'ODEnetwork' (Network of Differential Equations) Simulates a network of ordinary differential equations of order two. The package provides an easy interface to construct networks. In addition you are able to define different external triggers to manipulate the trajectory. The method is described by Surmann, Ligges, and Weihs (2014) . Package: r-cran-odesensitivity Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 196 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-checkmate, r-cran-desolve, r-cran-odenetwork, r-cran-sensitivity Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-odesensitivity_1.1.2-1.ca2004.1_all.deb Size: 143204 MD5sum: bc51832ed1c64efd8722d4c9283186ad SHA1: 04c58a6a87a6670302cf5eb52930fc54d01a8ace SHA256: 3c94965004544f5901c27a024893c15996bd83661d4ccdd4e5f420e3a8173b39 SHA512: 8e9aad86d343f38c37bf088b1eee45b2591fcc98adcb3dad7f80960875f7bfe88e86516c1f611e46b9ce303f792de59a1e73305c2bcc54aa784182d7fd8e9c94 Homepage: https://cran.r-project.org/package=ODEsensitivity Description: CRAN Package 'ODEsensitivity' (Sensitivity Analysis of Ordinary Differential Equations) Performs sensitivity analysis in ordinary differential equation (ode) models. The package utilize the ode interface from 'deSolve' and connects it with the sensitivity analysis from 'sensitivity'. Additionally we add a method to run the sensitivity analysis on variables with class 'ODEnetwork'. A detailed plotting function provides outputs on the calculations. The method is described by Weber, Theers, Surmann, Ligges, and Weihs (2018) . Package: r-cran-odetector Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 413 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ppclust Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-prettydoc Filename: pool/dists/focal/main/r-cran-odetector_1.0.1-1.ca2004.1_all.deb Size: 222372 MD5sum: e3e2e8c9e936949808bc51dee4ffa74e SHA1: 00b4cbcb29a00db3461ab7dc3a2ea1d3c1daa34c SHA256: 98fcbd028f935ec460bcfb15e5def2ba25f784e26d065fa9279e615f5ec9c1ca SHA512: f8c274d3df841ec2625cdb18de8c0037a7f6e2d1bbcd8e45330dab7ab957872138984c95b38a76a97224e166bd6cbd7a6047ede1ba833ec6c991ed84c34fdb93 Homepage: https://cran.r-project.org/package=odetector Description: CRAN Package 'odetector' (Outlier Detection Using Partitioning Clustering Algorithms) An object is called "outlier" if it remarkably deviates from the other objects in a data set. Outlier detection is the process to find outliers by using the methods that are based on distance measures, clustering and spatial methods (Ben-Gal, 2005 ). It is one of the intensively studied research topics for identification of novelties, frauds, anomalies, deviations or exceptions in addition to its use for outlier removing in data processing. This package provides the implementations of some novel approaches to detect the outliers based on typicality degrees that are obtained with the soft partitioning clustering algorithms such as Fuzzy C-means and its variants. Package: r-cran-odin Architecture: all Version: 1.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2057 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-cinterpolate, r-cran-desolve, r-cran-digest, r-cran-glue, r-cran-jsonlite, r-cran-ring, r-cran-withr Suggests: r-cran-dde, r-cran-jsonvalidate, r-cran-knitr, r-cran-mockery, r-cran-pkgbuild, r-cran-pkgload, r-cran-rlang, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-odin_1.2.7-1.ca2004.1_all.deb Size: 1481440 MD5sum: 52ac02283f8b2ecccaa4809c447bfe03 SHA1: e52fd2ab689675205d7619f96ecefee2990fd914 SHA256: 331daee871e246b5837d09a1abbb07fd664d1c39077778fa8426c2a35f4ec98b SHA512: 5cb7c6443d6353692c479c2fb28f5ec5619cfa0dc1d20edcad7f36874a669fe74a6e640802a07b93fdb07be53f5888864230f9efc70f86d6c4bf82220ecf72be Homepage: https://cran.r-project.org/package=odin Description: CRAN Package 'odin' (ODE Generation and Integration) Generate systems of ordinary differential equations (ODE) and integrate them, using a domain specific language (DSL). The DSL uses R's syntax, but compiles to C in order to efficiently solve the system. A solver is not provided, but instead interfaces to the packages 'deSolve' and 'dde' are generated. With these, while solving the differential equations, no allocations are done and the calculations remain entirely in compiled code. Alternatively, a model can be transpiled to R for use in contexts where a C compiler is not present. After compilation, models can be inspected to return information about parameters and outputs, or intermediate values after calculations. 'odin' is not targeted at any particular domain and is suitable for any system that can be expressed primarily as mathematical expressions. Additional support is provided for working with delays (delay differential equations, DDE), using interpolated functions during interpolation, and for integrating quantities that represent arrays. Package: r-cran-odk Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gsheet, r-cran-openxlsx Filename: pool/dists/focal/main/r-cran-odk_1.5-1.ca2004.1_all.deb Size: 152864 MD5sum: 2f1516a39c6be4c7d7017c6749c2e111 SHA1: ba2ae3aab8b656b3662d3375aa17d34abb2eb690 SHA256: 61910f9f54b429e1d54058e73893adc0c013955f4db035a990866ce7e9671b84 SHA512: cfcecffe37ab306c6a866a2fdfa6494c7f79c9db075bc6b99b728f5ab4ac20169e0241088db07bcb8786528a83d4b7be5eeab939ce498af20a95ae56dde2de72 Homepage: https://cran.r-project.org/package=odk Description: CRAN Package 'odk' (Convert 'ODK' or 'XLSForm' to 'SPSS' Data Frame) After develop a 'ODK' frame, we can link the frame to 'Google Sheets' and collect data through 'Android' . This data uploaded to a 'Google sheets'. odk2spss() function help to convert the 'odk' frame into 'SPSS' frame. Also able to add downloaded 'Google sheets' data or read data from 'Google sheets' by using 'ODK' frame 'submission_url'. Package: r-cran-odmeans Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3159 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-geosphere, r-cran-ggplot2, r-cran-ggmap, r-cran-ggrepel Filename: pool/dists/focal/main/r-cran-odmeans_0.2.1-1.ca2004.1_all.deb Size: 3202692 MD5sum: 5e26dcfde3e39c463c6f81b643708808 SHA1: 15db00d0cc0d7374b7c3c641378e15e1f4521c91 SHA256: 514134f7cf352e6ca197af5508b1e330b7760e0e14d24b3a1945eaa6efec33c4 SHA512: 631adc5e770ad46d0c0acc9cab58dbddf4dc3e710984356d3461399591d725b15e3dd50c8664d8d2c793feaae4e63e022ade855150be3286d94ed93a68eede8f Homepage: https://cran.r-project.org/package=ODMeans Description: CRAN Package 'ODMeans' (OD-Means: k-Means for Origin-Destination) OD-means is a hierarchical adaptive k-means algorithm based on origin-destination pairs. In the first layer of the hierarchy, the clusters are separated automatically based on the variation of the within-cluster distance of each cluster until convergence. The second layer of the hierarchy corresponds to the sub clustering process of small clusters based on the distance between the origin and destination of each cluster. Package: r-cran-odns Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-glue, r-cran-httr, r-cran-data.table, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-mockery, r-cran-digest Filename: pool/dists/focal/main/r-cran-odns_1.0.2-1.ca2004.1_all.deb Size: 52032 MD5sum: e952719e80edf8b8efff9cae1b30e010 SHA1: 563827291d3ff239acbaf8d589a226a664dae46f SHA256: b057debe356a61329b44056cf6d89a608e70e57ced7798b71f92071cad785dca SHA512: 380c48b93064bdf1b602fc2f9fa19ee1a6e0b97718fc9dc309f8d1584be8eb9305adf7292e70a2d9bc3a5a00fe6bfced5cf016bae7c10753f9d70469f96196f9 Homepage: https://cran.r-project.org/package=odns Description: CRAN Package 'odns' (Access Scottish Health and Social Care Open Data) Allows potential users of Scottish Health and Social Care Open Data () to easily explore and extract the available data. Package: r-cran-odr Architecture: all Version: 1.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 623 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-odr_1.5.0-1.ca2004.1_all.deb Size: 498848 MD5sum: c6d98214fee3eba3c2b721351832f5d1 SHA1: e84e51312fa6f79bf3b65f6b2981430f4ca7125b SHA256: ed524526040f369d8d5f49c95a6ca163ea2f8f79b1e731116358023b2b807e06 SHA512: 3a0d4b128f62869e3b221285ee2b582bda170b10904c1014f6e2f428ac22f5dbb111974678d25bccc6335c3b1c54e9bff239e89472a19a8a9a1766d5dec624d7 Homepage: https://cran.r-project.org/package=odr Description: CRAN Package 'odr' (Optimal Design and Statistical Power for Experimental StudiesInvestigating Main, Mediation, and Moderation Effects) Calculate the optimal sample size allocation that uses the minimum resources to achieve targeted statistical power in experiments. Perform power analyses with and without accommodating costs and budget. The designs cover single-level and multilevel experiments detecting main, mediation, and moderation effects (and some combinations). The references for the proposed methods include: (1) Shen, Z., & Kelcey, B. (2020). Optimal sample allocation under unequal costs in cluster-randomized trials. Journal of Educational and Behavioral Statistics, 45(4): 446-474. . (2) Shen, Z., & Kelcey, B. (2022b). Optimal sample allocation for three-level multisite cluster-randomized trials. Journal of Research on Educational Effectiveness, 15 (1), 130-150. . (3) Shen, Z., & Kelcey, B. (2022a). Optimal sample allocation in multisite randomized trials. The Journal of Experimental Education, 90(3), 693-711. . (4) Shen, Z., Leite, W., Zhang, H., Quan, J., & Kuang, H. (2025). Using ant colony optimization to identify optimal sample allocations in cluster-randomized trials. The Journal of Experimental Education, 93(1), 167-185. . (5) Shen, Z., Li, W., & Leite, W. (in press). Statistical power and optimal design for randomized controlled trials investigating mediation effects. Psychological Methods. . (6) Champely, S. (2020). pwr: Basic functions for power analysis (Version 1.3-0) [Software]. Available from . 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Popular ODS designs include case-control for binary outcome, case-cohort for time-to-event outcome, and continuous outcome ODS design (Zhou et al. 2002) . Because ODS data has biased sampling nature, standard statistical analysis such as linear regression will lead to biases estimates of the population parameters. This package implements four statistical methods related to ODS designs: (1) An empirical likelihood method analyzing the primary continuous outcome with respect to exposure variables in continuous ODS design (Zhou et al., 2002). (2) A partial linear model analyzing the primary outcome in continuous ODS design (Zhou, Qin and Longnecker, 2011) . (3) Analyze a secondary outcome in continuous ODS design (Pan et al. 2018) . (4) An estimated likelihood method analyzing a secondary outcome in case-cohort data (Pan et al. 2017) . 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You can crawl 'OJS' archives, issues, articles, galleys, and search results. You can scrape articles metadata from their head tag in html, or from Open Archives Initiative ('OAI') records. Most of these functions rely on 'OJS' routing conventions (). 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Package: r-cran-okmesonet Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr Filename: pool/dists/focal/main/r-cran-okmesonet_0.1.5-1.ca2004.1_all.deb Size: 71020 MD5sum: 9ad9998baa6d2ab7de1c2199da4dd1dd SHA1: 55bb2d0f3646c6a2a3297b8c9e9bae9bf55f4fa4 SHA256: db1107beabd72e3758e1352fe469cdfd27cb6ba89135d7d3ec9db959e21750b8 SHA512: 29c4873f6d8f1fdfb35e093ba04fb8ad707d7b2010bfb925c957b5f48def2d657c8cf4283f4df738976caf1898a4bfaf14cd7a15f3a9564f74acdcff0de7352e Homepage: https://cran.r-project.org/package=okmesonet Description: CRAN Package 'okmesonet' (Retrieve Oklahoma Mesonet climatological data) okmesonet retrieves and summarizes Oklahoma (USA) Mesonet climatological data provided by the Oklahoma Climatological Survey. Measurements are recorded every five minutes at approximately 120 stations throughout Oklahoma and are available in near real-time. Package: r-cran-oknne Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fnn Filename: pool/dists/focal/main/r-cran-oknne_1.0.1-1.ca2004.1_all.deb Size: 26328 MD5sum: c9fcace2fbe6bb0939982c317e813a93 SHA1: edaded2f10f8fec9b0a75271628c0c81276e5306 SHA256: b96ef5d39ad08ac3a885ecb9e57628921be54ae9fab064fa863c4b860eabf1c5 SHA512: c700aede01523a16ad2bfae0ca81551aeca18078c0ff7da215cd8962a016dd18f64b79e06b3c6079544214a2f4656c0c7cea4f89f8f772ef9d1bb440a37e1857 Homepage: https://cran.r-project.org/package=OkNNE Description: CRAN Package 'OkNNE' (A k-Nearest Neighbours Ensemble via Optimal Model Selection forRegression) Optimal k Nearest Neighbours Ensemble is an ensemble of base k nearest neighbour models each constructed on a bootstrap sample with a random subset of features. k closest observations are identified for a test point "x" (say), in each base k nearest neighbour model to fit a stepwise regression to predict the output value of "x". The final predicted value of "x" is the mean of estimates given by all the models. The implemented model takes training and test datasets and trains the model on training data to predict the test data. Ali, A., Hamraz, M., Kumam, P., Khan, D.M., Khalil, U., Sulaiman, M. and Khan, Z. (2020) . Package: r-cran-okxapi Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-r6, r-cran-data.table, r-cran-httr, r-cran-base64enc, r-cran-jsonlite, r-cran-websocket, r-cran-digest Filename: pool/dists/focal/main/r-cran-okxapi_0.1.1-1.ca2004.1_all.deb Size: 232820 MD5sum: 81ba4b03fc2a5ec225b4875f760d7ae2 SHA1: 61a6cb40b8295b218ed0eec326c917b7a23b3445 SHA256: fc7c4e58487ebc3ea3d021495ad7b33a4e8f3357618dafae4af1f9ec6ed6f763 SHA512: 49ed99f55cdba5dacd9a88eaedb9a6c129175088f67b5701f15ceec0f4f27c37a60c6499d3b488c8ea48719f16e178f2964570aed849e524d930bcb99a8c6bfb Homepage: https://cran.r-project.org/package=okxAPI Description: CRAN Package 'okxAPI' (An Unofficial Wrapper for 'okx exchange v5' API) An unofficial wrapper for 'okx exchange v5' API , including 'REST' API and 'WebSocket' API. 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One is based on stacking the columns of matrix observations, while another is by a more delicate projected approach. A well-known fact is that, in the presence of a change point, a factor model can be rewritten as a model with a larger number of common factors. In turn, this entails that, in the presence of a change point, the number of spiked eigenvalues in the second moment matrix of the data increases. Based on this, we propose two families of procedures - one based on the fluctuations of partial sums, and one based on extreme value theory - to monitor whether the first non-spiked eigenvalue diverges after a point in time in the monitoring horizon, thereby indicating the presence of a change point. This package also provides some simple functions for detecting and removing outliers, imputing missing entries and testing moments. See more details in He et al. (2021). 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Data is returned in an analysis-ready data frame with fields for metadata including (but not limited to) the names of the first person speakers, defendants, victims, their recorded genders, verdicts, punishments, crime locations, and dates. Optional parameters allow users to specify the number of results, whether these results contain key terms, and trial dates. 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It provides various functions that allow the user to design and plan the assessment and analyse the collected data. RAM-OP provides accurate and reliable estimates of the needs of older people. Package: r-cran-olinkanalyze Architecture: all Version: 4.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4463 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-car, r-cran-cli, r-cran-dplyr, r-cran-data.table, r-cran-emmeans, r-cran-forcats, r-cran-generics, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggrepel, r-cran-magrittr, r-cran-readxl, r-cran-rlang, r-cran-rstatix, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-arrow, r-bioc-clusterprofiler, r-cran-extrafont, r-cran-fsa, r-cran-ggplotify, r-cran-kableextra, r-cran-knitr, r-cran-lme4, r-cran-lmertest, r-cran-markdown, r-cran-msigdbr, r-cran-openssl, r-cran-ordinal, r-cran-pheatmap, r-cran-rmarkdown, r-cran-scales, r-cran-systemfonts, r-cran-testthat, r-cran-umap, r-cran-vdiffr, r-cran-withr, r-cran-zip Filename: pool/dists/focal/main/r-cran-olinkanalyze_4.3.0-1.ca2004.1_all.deb Size: 3364836 MD5sum: e43b0c7f756f8d22de1e59f634acf315 SHA1: 6f6d31ccfc9d0bc57c9955e3d7aa170feb113027 SHA256: 7822d83c6718526099a1f1884c76160de7e603a0c23ad45bcc494ae1671671c2 SHA512: db7eb400938c68d3ecbcbffb23066c861a41129bd5b464df66f51cb2eb0cb3f32d742162cbd7fe7e155981a403bc53cd41149f4ca2b37b316bd9d7a62bbe4e81 Homepage: https://cran.r-project.org/package=OlinkAnalyze Description: CRAN Package 'OlinkAnalyze' (Facilitate Analysis of Proteomic Data from Olink) A collection of functions to facilitate analysis of proteomic data from Olink, primarily NPX data that has been exported from Olink Software. The functions also work on QUANT data from Olink by log- transforming the QUANT data. The functions are focused on reading data, facilitating data wrangling and quality control analysis, performing statistical analysis and generating figures to visualize the results of the statistical analysis. The goal of this package is to help users extract biological insights from proteomic data run on the Olink platform. Package: r-cran-ollamar Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 734 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-base64enc, r-cran-crayon, r-cran-glue, r-cran-httr2, r-cran-jsonlite, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ollamar_1.2.2-1.ca2004.1_all.deb Size: 614944 MD5sum: f7f43d8e8b5ea842e2db0aef66e71d30 SHA1: bf7222e1cf7ee5b57b29f6d4ce5a7b0306f5a17d SHA256: eab4f218ff070107261c412c6fa3dc143d1be815bcfc5d4b43b6bdcb88459676 SHA512: 2807920330c4e31dafde6827a2403baa3f400135da9885ecca42c00dec09ee61bff3fd46a5bb482badc7284801e661eb90a685d11d6252fc799c5fe2d556062c Homepage: https://cran.r-project.org/package=ollamar Description: CRAN Package 'ollamar' ('Ollama' Language Models) An interface to easily run local language models with 'Ollama' server and API endpoints (see for details). It lets you run open-source large language models locally on your machine. Package: r-cran-ollg Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ollg_1.0.0-1.ca2004.1_all.deb Size: 101116 MD5sum: 4347e2baee2b6dac3d72a2631822fa27 SHA1: d8d1f540e20dc9dc47ef70cdb947e0a04432b92a SHA256: e1acb839f665ab41e87048ff63177fd2256359ca4e566b24257410d235a00c0a SHA512: 1c5abd863fb079c915b9ac75a7b8a2998ea4d9e28cc9731e416b9b4e1a7373e56cbd25e506713e4d3dd08df24bda3e8d84a4c684e2d975524f2792efe3f1fcfa Homepage: https://cran.r-project.org/package=ollg Description: CRAN Package 'ollg' (Computes some Measures of OLL-G Family of Distributions) Computes the pdf, cdf, quantile function, hazard function and generating random numbers for Odd log-logistic family (OLL-G). This family have been developed by different authors in the recent years. See Alizadeh (2019) for example. Package: r-cran-ollggamma Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-ggamma Filename: pool/dists/focal/main/r-cran-ollggamma_1.0.2-1.ca2004.1_all.deb Size: 17736 MD5sum: fad4c03728c7d6100f29cf17701bb8de SHA1: 3288e2356d22d882690d353fecf499f6d8be4971 SHA256: 248a1a43ca3a056a0eb9f6e951e96cee880aaeefaa0a1543e08ae2b0aac87ff0 SHA512: 00a34f5feaedda58a9e90e773c2c08819c0ab06208c31df79fb0c0a20406bec7c6a8aac49a4f836bc96a4ac37ed7cf9e318b2a1d876bd2bc85ce4f29ff960a58 Homepage: https://cran.r-project.org/package=ollggamma Description: CRAN Package 'ollggamma' (Odd Log-Logistic Generalized Gamma Probability Distribution) Density, distribution function, quantile function and random generation for the Odd Log-Logistic Generalized Gamma proposed in Prataviera, F. et al (2017) . Package: r-cran-olr Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-plyr, r-cran-readxl, r-cran-htmltools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-olr_1.2-1.ca2004.1_all.deb Size: 65456 MD5sum: 01598e6d3f8ffa406164550323a54916 SHA1: ffc0abf3126a38b56e6fecb5f224cb76ea09d55f SHA256: 2afaf17ba35db598347caa4bd761600202987fc951b27b8fc7c6ff1c84cc3516 SHA512: 484e085b023fb976ae06dcc28bb4bcdc5520854fad6e446bf9977d03f012e74a6b25e241d0dabfcc259bcba2318121fc2e7c246d7abd0a281a3fd50f4f485c6a Homepage: https://cran.r-project.org/package=olr Description: CRAN Package 'olr' (Optimal Linear Regression) The olr function systematically evaluates multiple linear regression models by exhaustively fitting all possible combinations of independent variables against the specified dependent variable. It selects the model that yields the highest adjusted R-squared (by default) or R-squared, depending on user preference. In model evaluation, both R-squared and adjusted R-squared are key metrics: R-squared measures the proportion of variance explained but tends to increase with the addition of predictors—regardless of relevance—potentially leading to overfitting. Adjusted R-squared compensates for this by penalizing model complexity, providing a more balanced view of fit quality. The goal of olr is to identify the most suitable model that captures the underlying structure of the data while avoiding unnecessary complexity. By comparing both metrics, it offers a robust evaluation framework that balances predictive power with model parsimony. Example Analogy: Imagine a gardener trying to understand what influences plant growth (the dependent variable). They might consider variables like sunlight, watering frequency, soil type, and nutrients (independent variables). Instead of manually guessing which combination works best, the olr function automatically tests every possible combination of predictors and identifies the most effective model—based on either the highest R-squared or adjusted R-squared value. This saves the user from trial-and-error modeling and highlights only the most meaningful variables for explaining the outcome. A Python version is also available at . Package: r-cran-olscurve Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Suggests: r-cran-testthat, r-cran-knitr, r-cran-lavaan Filename: pool/dists/focal/main/r-cran-olscurve_0.2.0-1.ca2004.1_all.deb Size: 165820 MD5sum: 073f9e49fb16dbea9ccb09f7cc0b4e66 SHA1: 5b787c9e607ae4fc654743dfb4e3105aeb0afc15 SHA256: f6784f05e7622e9d0006bd58fb43ae2d90d2352eb4e1c3b1aff744c6f9be2d44 SHA512: e2cb38263c5121aa2e04da2778a53a2d8932c4ae52c02ffbd32e14b4f7912942a58c258c7908bf873db4e3df52494797d83dd1440c61f291aa61848c075669c6 Homepage: https://cran.r-project.org/package=OLScurve Description: CRAN Package 'OLScurve' (OLS growth curve trajectories) Provides tools for more easily organizing and plotting individual ordinary least square (OLS) growth curve trajectories. 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Includes comprehensive regression output, heteroskedasticity tests, collinearity diagnostics, residual diagnostics, measures of influence, model fit assessment and variable selection procedures. Package: r-cran-olstrajr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 383 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-boot, r-cran-broom, r-cran-ggplot2, r-cran-purrr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-olstrajr_0.1.0-1.ca2004.1_all.deb Size: 206136 MD5sum: 3e8e402be28623e25a0532653bf78fb4 SHA1: 0061290c11fb60b006eaee09ca61f24b12f8976a SHA256: b586604ce79e670c67310ac1a70ec263a21eaaf3744f30e64931100fbb0cd86b SHA512: 5b1d604aa641f782228cd49ac8835f03d8264978479e42dcb53fd617251dfef1a9036584957f456ee686b6db1208abe23ba8ba618bfa25f3305ee49f6882c701 Homepage: https://cran.r-project.org/package=OLStrajr Description: CRAN Package 'OLStrajr' (Ordinary Least Squares Trajectory Analysis) The 'OLStrajr' package provides comprehensive functions for ordinary least squares (OLS) trajectory analysis and case-by-case OLS regression as outlined in Carrig, Wirth, and Curran (2004) and Rogosa and Saner (1995) . It encompasses two primary functions, OLStraj() and cbc_lm(). The OLStraj() function simplifies the estimation of individual growth curves over time via OLS regression, with options for visualizing both group-level and individual-level growth trajectories and support for linear and quadratic models. The cbc_lm() function facilitates case-by-case OLS estimates and provides unbiased mean population intercept and slope estimators by averaging OLS intercepts and slopes across cases. It further offers standard error calculations across bootstrap replicates and computation of 95% confidence intervals based on empirical distributions from the resampling processes. Package: r-cran-olympicrshiny Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5114 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-config, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-golem, r-cran-shiny, r-cran-shinybusy, r-cran-shinythemes, r-cran-summarytools Filename: pool/dists/focal/main/r-cran-olympicrshiny_1.0.2-1.ca2004.1_all.deb Size: 5065872 MD5sum: 7b5894d362a5fc1a6bafd01a51a59ed1 SHA1: 7ef915a5810f8673ec14f2ca99fa607d56119319 SHA256: f2790df0b9f5904fc45ba1d861e8d29c4b52e1af8c60aee1db1f146389a76a6c SHA512: 7f9e6c87e88b0c185b22421d4754ec93d4d1f6a8b8c11bc07d620a4b111b8735a2d7a188c71721459f6595ade162477db17d4ec994ceaacc8460179fd82e447a Homepage: https://cran.r-project.org/package=OlympicRshiny Description: CRAN Package 'OlympicRshiny' ('Shiny' Application for Olympic Data) 'Shiny' Application to visualize Olympic Data. From 1896 to 2016. Even Winter Olympics events are included. Data is from Kaggle at . Package: r-cran-omd Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-omd_1.0-1.ca2004.1_all.deb Size: 12960 MD5sum: 093e86254c548a0a8b210e34398635f6 SHA1: 5ea40670efd9fc8b3b78f9644aa741b8d3ede235 SHA256: 1148f16b17896715d63b612a23c6b7ef0ed2f91766418b10d9594226e516527d SHA512: 4e79424db334078038a44361e48b922842d12aaf37246a4b771f8607551fd8c23c43f0400b871f5021c5e4d3e3b62d0d683e84416bd1618d07faba7008dace7c Homepage: https://cran.r-project.org/package=omd Description: CRAN Package 'omd' (filter the molecular descriptors for QSAR) This package including two useful function, which can be used for filter the molecular descriptors matrix for QSAR. Package: r-cran-omegag Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-omegag_1.0.1-1.ca2004.1_all.deb Size: 38232 MD5sum: 32867853cd141fe8374187d7226df648 SHA1: 8a530a63085bca1bef9f4ea6bd523a6bccedff8c SHA256: defca21d115a246c1f53849627aa8d2e929eb4263116f701989289cbc2ac97f8 SHA512: e73cd3a9f59384860e9e2d1170429696d44aa46d9ef0440a152ceb77f17b47583601c431b2f8380d72f44cab7e63790ced2eda3970fcf8228bb1a31394e345cd Homepage: https://cran.r-project.org/package=OmegaG Description: CRAN Package 'OmegaG' (Omega-Generic: Composite Reliability of MultidimensionalMeasures) It is a computer tool to estimate the item-sum score's reliability (composite reliability, CR) in multidimensional scales with overlapping items. An item that measures more than one domain construct is called an overlapping item. The estimation is based on factor models allowing unlimited cross-factor loadings such as exploratory structural equation modeling (ESEM) and Bayesian structural equation modeling (BSEM). The factor models include correlated-factor models and bi-factor models. Specifically for bi-factor models, a type of hierarchical factor model, the package estimates the CR hierarchical subscale/hierarchy and CR subscale/scale total. The CR estimator 'Omega-generic' was proposed by Mai, Srivastava, and Krull (2021) . The current version can only handle continuous data. Yujiao Mai contributes to the algorithms, R programming, and application example. Deo Kumar Srivastava contributes to the algorithms and the application example. Kevin R. Krull contributes to the application example. The package 'OmegaG' was sponsored by American Lebanese Syrian Associated Charities (ALSAC). However, the contents of 'OmegaG' do not necessarily represent the policy of the ALSAC. Package: r-cran-omicint Architecture: all Version: 1.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1609 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-stringr, r-cran-rcurl, r-cran-ggplot2, r-cran-mclust, r-cran-gtools, r-cran-tidyr, r-cran-dplyr, r-cran-tidyselect, r-cran-pheatmap, r-cran-reshape2, r-cran-plotly, r-cran-knitr, r-cran-rmarkdown, r-cran-lattice, r-cran-rcolorbrewer, r-cran-igraph, r-cran-ggextra, r-cran-dendextend, r-bioc-stringdb Suggests: r-cran-viridis Filename: pool/dists/focal/main/r-cran-omicint_1.1.7-1.ca2004.1_all.deb Size: 1055568 MD5sum: a75b5b2a368a6fa7b7dca2df42ae03f9 SHA1: ebd60222b803ee3c99148e1dda26adef712a942a SHA256: e77da032d82c02fe3111d3e7f82296e8062fb77bbc615272ca6764e413f5aa4a SHA512: c8a62f08d64c44a7da03056668dd045ba38e1fd7fc3b0b2f2846a595d14813b4def68bb3adb99eecd24199e9ac60205079807847da4a49a81cabd80cc995ab72 Homepage: https://cran.r-project.org/package=OmicInt Description: CRAN Package 'OmicInt' (Omics Network Exploration) Omics integration and detailed gene network exploration to identify expression patterns, prepare for pathway building, and find disease candidate genes; the package compliments research "Insights into therapeutic targets and biomarkers using integrated multi-'omics' approaches for dilated and ischemic cardiomyopathies"; Auste Kanapeckaite and Neringa Burokiene; 2021, . Package: r-cran-omickriging Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3113 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-rocr, r-cran-irlba, r-cran-foreach Filename: pool/dists/focal/main/r-cran-omickriging_1.4.0-1.ca2004.1_all.deb Size: 1741004 MD5sum: 27d67d6310c3fd73e957ce593e595ac2 SHA1: 33f075632bde2eb756f57305f6d3c4f93ba8908a SHA256: 1f45abd881e82df7fe4b3021deacc919376143da6a1d3ce8cc480c6f18688200 SHA512: f05c6d2d07245c7da39a913770d3411bfa141db6b977e9aa62a72b9ed14d41fdcd368553ac6e4c7f300b55bad5d08f324d23f8151762d9438229098c19375608 Homepage: https://cran.r-project.org/package=OmicKriging Description: CRAN Package 'OmicKriging' (Poly-Omic Prediction of Complex TRaits) It provides functions to generate a correlation matrix from a genetic dataset and to use this matrix to predict the phenotype of an individual by using the phenotypes of the remaining individuals through kriging. Kriging is a geostatistical method for optimal prediction or best unbiased linear prediction. It consists of predicting the value of a variable at an unobserved location as a weighted sum of the variable at observed locations. Intuitively, it works as a reverse linear regression: instead of computing correlation (univariate regression coefficients are simply scaled correlation) between a dependent variable Y and independent variables X, it uses known correlation between X and Y to predict Y. Package: r-cran-omicnavigator Architecture: all Version: 1.15.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1252 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-jsonlite Suggests: r-cran-faviconplease, r-cran-ggplot2, r-cran-opencpu, r-cran-plotly, r-cran-tinytest, r-cran-ttdo, r-cran-upsetr Filename: pool/dists/focal/main/r-cran-omicnavigator_1.15.0-1.ca2004.1_all.deb Size: 802360 MD5sum: c93d19ecb7a76a1c8f3db7ae0c76c9e8 SHA1: 352e0c4fc5fdc05a967498d343e34c84798269ab SHA256: c9ff2cb8198b7bbc60ffb721dd54238acd364095208c8269d394f52299f5fab7 SHA512: 8c124620888d3416f915bc40a8750f5e60dc6a3f2333d920e8c50c7650fa068c3020e0e53936ac11fb63bdc255c76a2ee8d61234b2918d096d067653f5f17644 Homepage: https://cran.r-project.org/package=OmicNavigator Description: CRAN Package 'OmicNavigator' (Open-Source Software for 'Omic' Data Analysis and Visualization) A tool for interactive exploration of the results from 'omics' experiments to facilitate novel discoveries from high-throughput biology. The software includes R functions for the 'bioinformatician' to deposit study metadata and the outputs from statistical analyses (e.g. differential expression, enrichment). These results are then exported to an interactive JavaScript dashboard that can be interrogated on the user's local machine or deployed online to be explored by collaborators. The dashboard includes 'sortable' tables, interactive plots including network visualization, and fine-grained filtering based on statistical significance. Package: r-cran-omics Architecture: all Version: 0.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4, r-cran-pheatmap Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-omics_0.1-5-1.ca2004.1_all.deb Size: 54844 MD5sum: 6e0407519a78a079bafe74ee5115c4bf SHA1: e6073af40b943abb7394505a8883bd2497e36b65 SHA256: 17fd45e032f3a763b59704696624062004ed12ec10fffc1e0241970895da4f8a SHA512: 6606a0f893f75febddda076ef0f3826f53be5ef5eb538b20415bf7c5d7119284164173ade1f18861dea96d7d36fb7901ce504e86efb1f3d8ab18f95b71ed3a55 Homepage: https://cran.r-project.org/package=omics Description: CRAN Package 'omics' ('--omics' Data Analysis Toolbox) A collection of functions to analyse '--omics' datasets such as DNA methylation and gene expression profiles. Package: r-cran-omicsense Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-kernlab Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-omicsense_0.2.0-1.ca2004.1_all.deb Size: 129500 MD5sum: ec0fdcc4fde54147124dff60b3bd6e4e SHA1: c5571b62a5fed6ca8e0602df1b623522a5e196cb SHA256: f0f524f9466a9f6507f582b6bd7ebea1b5f9afc0a462830bb4416f9f3e7cb145 SHA512: 61117004e786d7502b19b3ead2a1978d5372108739754c22bcae4ca1f76ea1aac30ffe69a7a3a8b18a55836684df7c844673fbc992df710a0e0dece0dc405040 Homepage: https://cran.r-project.org/package=OmicSense Description: CRAN Package 'OmicSense' (Biosensor Development using Omics Data) A method for the quantitative prediction using omics data. This package provides functions to construct the quantitative prediction model using omics data. Package: r-cran-omicspls Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 472 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-tibble, r-cran-softimpute, r-cran-withr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-gplots Filename: pool/dists/focal/main/r-cran-omicspls_2.1.0-1.ca2004.1_all.deb Size: 356160 MD5sum: a0c7c29734f5d07df8808cf143d25555 SHA1: 33aa6bcc772050c0f474c1842aea28b44722746b SHA256: f744741a5851f0a9ad350b0559eb1af4419cba4407a355f0b4c7a29c952abd66 SHA512: 7e7c9c7e24ef455de0d80814b0eab706f81ca8fb5a5e8c365dbe3bacdfe42e79b9949ef95173931f461daded11fbac29c763256f085ee4482ddf1fcc051f405b Homepage: https://cran.r-project.org/package=OmicsPLS Description: CRAN Package 'OmicsPLS' (Data Integration with Two-Way Orthogonal Partial Least Squares) Performs the O2PLS data integration method for two datasets, yielding joint and data-specific parts for each dataset. The algorithm automatically switches to a memory-efficient approach to fit O2PLS to high dimensional data. It provides a rigorous and a faster alternative cross-validation method to select the number of components, as well as functions to report proportions of explained variation and to construct plots of the results. See the software article by el Bouhaddani et al (2018) , and Trygg and Wold (2003) . It also performs Sparse Group (Penalized) O2PLS, see Gu et al (2020) and cross-validation for the degree of sparsity. Package: r-cran-omicsqc Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1915 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fitdistrplus, r-cran-lsa, r-cran-boutroslab.plotting.general Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-dplyr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-omicsqc_1.1.0-1.ca2004.1_all.deb Size: 1011512 MD5sum: 4fc4177e8f557ef1c40982fdbff87588 SHA1: b8500cb8ae2d9ccb0fd5ad08e766240f6dac1002 SHA256: 3d56a68aa022abd8986871a03094380936759700f09b1049d6841587d3f7af3e SHA512: fc00c663ebe9d84b0ebd1e6a0cc49ec86add3b68c5f3003af8370306b1348b21161106991d3b3a440fa61c69a7f7de457ee6f2dba092ed1e6eab81bfa56ca2bd Homepage: https://cran.r-project.org/package=OmicsQC Description: CRAN Package 'OmicsQC' (Nominating Quality Control Outliers in Genomic Profiling Studies) A method that analyzes quality control metrics from multi-sample genomic sequencing studies and nominates poor quality samples for exclusion. Per sample quality control data are transformed into z-scores and aggregated. The distribution of aggregated z-scores are modelled using parametric distributions. The parameters of the optimal model, selected either by goodness-of-fit statistics or user-designation, are used for outlier nomination. Two implementations of the Cosine Similarity Outlier Detection algorithm are provided with flexible parameters for dataset customization. Package: r-cran-omicstools Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 541 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-bs4dash, r-cran-config, r-cran-dplyr, r-cran-dt, r-cran-golem, r-cran-magrittr, r-cran-readr, r-cran-shiny, r-cran-tibble Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-omicstools_1.0.5-1.ca2004.1_all.deb Size: 179948 MD5sum: 95d88841880215591b79c2dcaf075491 SHA1: 08bfb0230f187b4f6a65591c49d622372f65a84f SHA256: 9c1ec9e576940f6d4c4ed9c575d9eb1dbc49688dc78750965e701f6add8f0c16 SHA512: bda0aea0e628a472d1c1f726392fac7b8ff5d7e310cdd71668981cc8b84e68c6e99edd94ee481ffb682b870c7acf3c14b3466f226bd2f43eee434aa4e8620333 Homepage: https://cran.r-project.org/package=omicsTools Description: CRAN Package 'omicsTools' (Omics Data Process Toolbox) Processing and analyzing omics data from genomics, transcriptomics, proteomics, and metabolomics platforms. It provides functions for preprocessing, normalization, visualization, and statistical analysis, as well as machine learning algorithms for predictive modeling. 'omicsTools' is an essential tool for researchers working with high-throughput omics data in fields such as biology, bioinformatics, and medicine.The QC-RLSC (quality control–based robust LOESS signal correction) algorithm is used for normalization. Dunn et al. (2011) . Package: r-cran-omicwas Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4144 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-broom, r-cran-data.table, r-cran-dplyr, r-cran-ff, r-cran-glmnet, r-cran-magrittr, r-cran-mass, r-cran-matrixstats, r-cran-purrr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-omicwas_0.8.0-1.ca2004.1_all.deb Size: 4153148 MD5sum: 1ad194ff1bfd3a03a6b6d740f86b3f98 SHA1: b4745c4cd075475544ccf333e099253f1a862bcb SHA256: 8e2b0197e4ee9038e2bc9175bf36effe4be9f77891b8f3bdaea41b25af28b3ed SHA512: cdb01b0720a368663ebdc8e5833f99a6e3f3b77758c492e7d7dff3b3139304e5160bb4e8279635c8545957cf96f801906781d1fe5ded18adbde45c0bbdb6452f Homepage: https://cran.r-project.org/package=omicwas Description: CRAN Package 'omicwas' (Cell-Type-Specific Association Testing in Bulk Omics Experiments) In bulk epigenome/transcriptome experiments, molecular expression is measured in a tissue, which is a mixture of multiple types of cells. This package tests association of a disease/phenotype with a molecular marker for each cell type. The proportion of cell types in each sample needs to be given as input. The package is applicable to epigenome-wide association study (EWAS) and differential gene expression analysis. Takeuchi and Kato (submitted) "omicwas: cell-type-specific epigenome-wide and transcriptome association study". Package: r-cran-omisc Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-psych, r-cran-copula Suggests: r-cran-lavaan Filename: pool/dists/focal/main/r-cran-omisc_0.1.5-1.ca2004.1_all.deb Size: 111256 MD5sum: a15c80948b1543d76ea5869a0f422ac8 SHA1: e05091f26f5c8599426b0655d956b895f55e59f5 SHA256: 2ce3d740511808fb847fdd0bad9ccb432cce0f0b0e325fffc9d81186df86bd97 SHA512: ab2e2dd485798c1ec32da68a07956a61de8bfc8916bdefa403b379bb64fdcc859c763c2ade963446359d7f1ea2b4f8c5948ea76c93c4ed8e21704594ee5ec256 Homepage: https://cran.r-project.org/package=Omisc Description: CRAN Package 'Omisc' (Univariate Bootstrapping and Other Things) Primarily devoted to implementing the Univariate Bootstrap (as well as the Traditional Bootstrap). In addition there are multiple functions for DeFries-Fulker behavioral genetics models. The univariate bootstrapping functions, DeFries-Fulker functions, regression and traditional bootstrapping functions form the original core. Additional features may come online later, however this software is a work in progress. For more information about univariate bootstrapping see: Lee and Rodgers (1998) and Beasley et al (2007) . Package: r-cran-omnibus Architecture: all Version: 1.2.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 322 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-omnibus_1.2.15-1.ca2004.1_all.deb Size: 271520 MD5sum: 345d97aefef71c6efe0077a46ac9041d SHA1: a1ffd87614d028c117c3c6809a137a25b1678386 SHA256: 1dcfcb7a3590c44ae6110f5634c68fba6797b0cad96905e3d90e4cb5c12e9b84 SHA512: f135de9d3cabab6581a3e6b2b61b5318ae8fc94e74e35b4c271b29091b099bfbdc7dcbfb705ce199b8e06f636572993e9255142376a2f5167c11748b4d38e943 Homepage: https://cran.r-project.org/package=omnibus Description: CRAN Package 'omnibus' (Helper Tools for Managing Data, Dates, Missing Values, and Text) An assortment of helper functions for managing data (e.g., rotating values in matrices by a user-defined angle, switching from row- to column-indexing), dates (e.g., intuiting year from messy date strings), handling missing values (e.g., removing elements/rows across multiple vectors or matrices if any have an NA), text (e.g., flushing reports to the console in real-time); and combining data frames with different schema (copying, filling, or concatenating columns or applying functions before combining). Package: r-cran-omnibusfisher Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 128 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-compquadform, r-cran-stringr, r-cran-survey Filename: pool/dists/focal/main/r-cran-omnibusfisher_1.0-1.ca2004.1_all.deb Size: 93572 MD5sum: 20b61ad678ffb614264295ab766e5a4c SHA1: a5bfc30b9de49ca16827de8709a939dc69b92472 SHA256: 58a808aaf46d482a82bfbf88f97d935df060b408ea0ff75979171a16c29337fd SHA512: 7b21938592ce9bc16a7f2f8c198b13ad42d054d4f8f68ba1665f8f07136afbfc3fae284e423434f3eb2c01764da2d034ef87bf71376f08864cf0448af38b7b34 Homepage: https://cran.r-project.org/package=OmnibusFisher Description: CRAN Package 'OmnibusFisher' (A Modified Fisher’s Method to Test Overall Gene-Level Effect) The separate p-values of SNPs, RNA expressions and DNA methylations are calculated by KM regression. The correlation between different omics data are taken into account. This method can be applied to either samples with all three types of omics data or samples with two types. 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The package offers functions crafted with pipeline-friendly implementation, enabling users to effortlessly include only the necessary tables for their testing needs. 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Package: r-cran-oncmap Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readr, r-cran-readxl, r-cran-dplyr, r-cran-hms, r-cran-lubridate, r-cran-zoo Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-oncmap_0.1.7-1.ca2004.1_all.deb Size: 58532 MD5sum: 1801f7be273767ab98b3c9b50e663554 SHA1: 7d6642bdb0f723d4c3fa6f3c60c028dc1ac2544d SHA256: e2a41f0dab4dcf09b7ff53a1a702eb588d76bc5150434214fb479c65adc413e9 SHA512: b267a51c068ba7d8f85602951efba0158f8ba3663de08f8ec1f7bc4f5308f16c3c2f2554d09714ba5ce76ca49a8d3722875c21ad46daa220747c1ff2948e19bc Homepage: https://cran.r-project.org/package=oncmap Description: CRAN Package 'oncmap' (Analyze Data from Electronic Adherence Monitoring Devices) Medication adherence, defined as medication-taking behavior that aligns with the agreed-upon treatment protocol, is critical for realizing the benefits of prescription medications. Medication adherence can be assessed using electronic adherence monitoring devices (EAMDs), pill bottles or boxes that contain a computer chip that records the date and time of each opening (or “actuation”). Before researchers can use EAMD data, they must apply a series of decision rules to transform actuation data into adherence data. The purpose of this R package ('oncmap') is to transform EAMD actuations in the form of a raw .csv file, information about the patient, regimen, and non-monitored periods into two daily adherence values -- Dose Taken and Correct Dose Taken. Package: r-cran-oncodatasets Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2476 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-dplyr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-oncodatasets_0.1.0-1.ca2004.1_all.deb Size: 1319036 MD5sum: 0f54d2061743b6bc906acdb0a747cf18 SHA1: d93c15a69e2f12a014dfd8af6cc395bc08a0b7c9 SHA256: cd93e1c276510aa4bbe1af84f4f86a0eacc82acbfb6619e68c10ef8df7e3567a SHA512: d80b29f76204ea379a46e3c637abb37a838490dbcfca863ce4edab43e9e66d3ee4e2c3c0f5e14aaec283e2d33fad6051ec32cae8e48d5e74ce5d25384c6c0665 Homepage: https://cran.r-project.org/package=OncoDataSets Description: CRAN Package 'OncoDataSets' (A Comprehensive Collection of Cancer Types and Cancer-RelatedDatasets) Offers a rich collection of data focused on cancer research, covering survival rates, genetic studies, biomarkers, and epidemiological insights. Designed for researchers, analysts, and bioinformatics practitioners, the package includes datasets on various cancer types such as melanoma, leukemia, breast, ovarian, and lung cancer, among others. It aims to facilitate advanced research, analysis, and understanding of cancer epidemiology, genetics, and treatment outcomes. Package: r-cran-oncofilterfast Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 421 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-survminer Filename: pool/dists/focal/main/r-cran-oncofilterfast_1.0.0-1.ca2004.1_all.deb Size: 153312 MD5sum: 9a44c912a7cf26fec89941a0d3f8eab6 SHA1: 431890531df5e47f981f49566a9dcc9e523b19f6 SHA256: 653c83080574bb8f86356e9af0354238f78eda627859c7f950accb51930f193c SHA512: ff69f9ec9188132a782ff76e485162ee7ca5f20c3a9d7f44f5b97988f07cdba7d0eff03312262cb68c2975118187591c1927bd7555e824c085ba5bca1a238ee0 Homepage: https://cran.r-project.org/package=Oncofilterfast Description: CRAN Package 'Oncofilterfast' (Aids in the Analysis of Genes Influencing Cancer Survival) Aids in the analysis of genes influencing cancer survival by including a principal function, calculator(), which calculates the P-value for each provided gene under the optimal cutoff in cancer survival studies. Grounded in methodologies from significant works, this package references Therneau's 'survival' package (Therneau, 2024; ) and the survival analysis extensions by Therneau and Grambsch (2000, ISBN 0-387-98784-3). It also integrates the 'survminer' package by Kassambara et al. (2021; ), enhancing survival curve visualizations with 'ggplot2'. Package: r-cran-oncopredict Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 400 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ridge, r-cran-car, r-cran-glmnet, r-cran-pls, r-bioc-sva, r-bioc-preprocesscore, r-bioc-genomicfeatures, r-bioc-org.hs.eg.db, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene, r-cran-tidyverse, r-bioc-tcgabiolinks, r-bioc-biocgenerics, r-bioc-genomicranges, r-bioc-iranges, r-bioc-s4vectors Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-gdata, r-bioc-genefilter, r-bioc-maftools, r-cran-readxl, r-cran-testthat Filename: pool/dists/focal/main/r-cran-oncopredict_1.2-1.ca2004.1_all.deb Size: 108544 MD5sum: a77de2e88f9c0b01d24fd14c47dd9719 SHA1: 4bdb3818b4db042fab0d7cb888a10ac766e66064 SHA256: 3ba700e83b0beb8c2fdc20f9bab40db6739fcd623bb46676e4e0345ce6fa47ba SHA512: a9bc96e4893096ad12a23079d73187f806fbd6ddad6b55504729cd6e63d98c7ddb9264315ab2f3f9952ddcdc6e76463da8d34618e3b0634441e969d378e603f5 Homepage: https://cran.r-project.org/package=oncoPredict Description: CRAN Package 'oncoPredict' (Drug Response Modeling and Biomarker Discovery) Allows for building drug response models using screening data between bulk RNA-Seq and a drug response metric and two additional tools for biomarker discovery that have been developed by the Huang Laboratory at University of Minnesota. There are 3 main functions within this package. (1) calcPhenotype is used to build drug response models on RNA-Seq data and impute them on any other RNA-Seq dataset given to the model. (2) GLDS is used to calculate the general level of drug sensitivity, which can improve biomarker discovery. (3) IDWAS can take the results from calcPhenotype and link the imputed response back to available genomic (mutation and CNV alterations) to identify biomarkers. Each of these functions comes from a paper from the Huang research laboratory. Below gives the relevant paper for each function. calcPhenotype - Geeleher et al, Clinical drug response can be predicted using baseline gene expression levels and in vitro drug sensitivity in cell lines. GLDS - Geeleher et al, Cancer biomarker discovery is improved by accounting for variability in general levels of drug sensitivity in pre-clinical models. IDWAS - Geeleher et al, Discovering novel pharmacogenomic biomarkers by imputing drug response in cancer patients from large genomics studies. 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Funded by the National Renewable Energy Laboratory and Possibility Lab, maintained by the Moore Institute for Plastic Pollution Research. Package: r-cran-onearm2stage Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-flexsurv, r-cran-ipdfromkm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-onearm2stage_1.2.1-1.ca2004.1_all.deb Size: 109336 MD5sum: a0bbe1d32b23d48c5585d8087e3f46fd SHA1: a6da59ea01dab325a8c19fee9cf7ad3c6a649095 SHA256: bb35af5b5571f6569c9a4fd86be7885f4eade7bf37335f14e939a98edc497f62 SHA512: 028cc47522806c35a993564107dbcb60a997167c3193ac832921be14327ca37dcd20456edfde0cf26cdd685f9f186b27be068db942be67f8229ad09c2417a862 Homepage: https://cran.r-project.org/package=OneArm2stage Description: CRAN Package 'OneArm2stage' (Phase II Single-Arm Two-Stage Designs with Time-to-EventOutcomes) Two-stage design for single-arm phase II trials with time-to-event endpoints (e.g., clinical trials on immunotherapies among cancer patients) can be calculated using this package. Two notable advantages of the package: 1) It provides flexible choices from three design methods (optimal, minmax, and admissible), and 2) the power of the design is more accurately calculated using the exact variance in the one-sample log-rank test. The package can be used for 1) planning the sample sizes and other design parameters, and 2) conducting the interim and final analyses for the Go/No-go decisions. More details about the design method can be found in: Wu, J, Chen L, Wei J, Weiss H, Chauhan A. (2020). . Package: r-cran-onearmtte Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-tibble, r-cran-dplyr, r-cran-tidyr, r-cran-survival Filename: pool/dists/focal/main/r-cran-onearmtte_1.0-1.ca2004.1_all.deb Size: 49004 MD5sum: 378917d2872b99ca886b2cadb03c4438 SHA1: d37c85cf046a59a6b9957bf5a2cd6e911c30c22f SHA256: ebc54b4a909b03da85d8a3ecf87a59580cec7d102c822a464bfdc2091092df0a SHA512: 7a835961b1232e921f2bd977c0613e377d1ed4fa1826db9a47ba29ec505ee368daefafde81a7c15072d760358fd5a18d0c5d1ad7b7943078715b4ed8f1031cf0 Homepage: https://cran.r-project.org/package=OneArmTTE Description: CRAN Package 'OneArmTTE' (One-Arm Clinical Trial Designs for Time-to-Event Endpoint) Get operating characteristics of one-arm clinical trial designs for time-to-event endpoint through simulation and perform analysis with time-to-event data. Package: r-cran-oneinfl Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 166 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-oneinfl_1.0.2-1.ca2004.1_all.deb Size: 136380 MD5sum: 8f5cbeefa911e44948941539e0a54df6 SHA1: d64ff9220922239b1b84ad4201e3642b790944f4 SHA256: 5e54d1a3f487d793e191602643f2f5f061d20f0ce5bfe7df657f8c34acd92fd6 SHA512: 4545daa8266c5883a1c06caf1a82008a998d4ddc8190f8959771238bb68b2b5ee19627ba17038b4a25baf9b10a18d2722cdb5e28d0f9af0feee99f440e8e7d74 Homepage: https://cran.r-project.org/package=oneinfl Description: CRAN Package 'oneinfl' (Estimates OIPP and OIZTNB Regression Models) Estimates one-inflated positive Poisson (OIPP) and one-inflated zero-truncated negative binomial (OIZTNB) regression models. A suite of ancillary statistical tools are also provided, including: estimation of positive Poisson (PP) and zero-truncated negative binomial (ZTNB) models; marginal effects and their standard errors; diagnostic likelihood ratio and Wald tests; plotting; predicted counts and expected responses; and random variate generation. The models and tools, as well as four applications, are shown in Godwin, R. T. (2024). "One-inflated zero-truncated count regression models" arXiv preprint . Package: r-cran-onelogin Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-glue, r-cran-safer, r-cran-magrittr, r-cran-jsonlite, r-cran-tibble Filename: pool/dists/focal/main/r-cran-onelogin_0.2.0-1.ca2004.1_all.deb Size: 86748 MD5sum: 7f146a84d61210c7351697be12ee4bf3 SHA1: 135407ff4906a5c2c8238abcaa7f93a629c0e7ce SHA256: c77ef97549fa6940dd062f422d6adaab49eafced291f8508431a7435cf740cc8 SHA512: fe5efa4b42d7d2ac7905ab13c620097e74665719e332da351c37597460873e478a8825de98678a976147d1687b6cecfd61f59b803044d6f00439222ff8480c0a Homepage: https://cran.r-project.org/package=onelogin Description: CRAN Package 'onelogin' (Interact with the 'OneLogin' API) The identity provider ['OneLogin'] is used for authentication via Single Sign On (SSO). This package provides an R interface to their API. Package: r-cran-onemapsgapi Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rlang, r-cran-httr2, r-cran-dplyr, r-cran-purrr, r-cran-stringr, r-cran-tidyr, r-cran-future, r-cran-furrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-googlepolylines Filename: pool/dists/focal/main/r-cran-onemapsgapi_2.0.0-1.ca2004.1_all.deb Size: 91596 MD5sum: 6c0d51c714d8a06abb2a3d0a93000cb3 SHA1: 89255f9d90d59743f845878a2aa98404c07cbc4d SHA256: 5d8a1a8e027a60a91ce53276b4860585e1e622923f823eb51b96dbf18cfed5cc SHA512: 782798f699c292d26f193cffa300694191e26970aa13c109003845e9ef0f73827ec930c10208a1ce2ea19d56ac6862bb49c654130b3d3edb64412713fadce320 Homepage: https://cran.r-project.org/package=onemapsgapi Description: CRAN Package 'onemapsgapi' (R Wrapper for the 'OneMap.Sg API') An R wrapper for the 'OneMap.Sg' API . Functions help users query data from the API and return raw JSON data in "tidy" formats. Support is also available for users to retrieve data from multiple API calls and integrate results into single dataframes, without needing to clean and merge the data themselves. This package is best suited for users who would like to perform analyses with Singapore's spatial data without having to perform excessive data cleaning. Package: r-cran-onepass Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-onepass_0.1.2-1.ca2004.1_all.deb Size: 26092 MD5sum: b2c8e63e574972b71f769c908c000ffc SHA1: 8fc0406aa89103d73d25a2573c7aa03605d9bb32 SHA256: f0dd2dd0698e2a649563ebf084130ebd028ab811f00a37a421854155f54a685d SHA512: 683f287d241119fb55b0f494b8606ef49ecd6ce6f310878aaf297016fd412abc71ac0aa0a90ed35e5bb8f8f506feba00dff521ae0d9cb3bc110958335719d306 Homepage: https://cran.r-project.org/package=onepass Description: CRAN Package 'onepass' (1password Credential Retrieval) Interaction with 1Password via the command-line tool to read vault contents and download credentials. 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It is useful as a baseline for machine learning models and the rules are often helpful heuristics. 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When there is no proper control group or obtaining such data is cumbersome, one sample log-rank test can be applied. This package performs one sample log-rank test as described in Finkelstein et al. (2003) and variation of the test for small sample sizes which is detailed in FD Liddell (1984) paper. Visualization function in the package generates Kaplan-Meier Curve comparing survival curve of the general population against that of the population of interest. 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The package includes implementations of; the Sanderson and Windmeijer (2016) conditional F-statistic, the multiplicative structural mean model Hernán and Robins (2006) , and two-stage predictor substitution and two-stage residual inclusion estimators explained by Terza et al. (2008) . 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Input to the program should be binary(1/0) pathology data, where “0” may stand for negative and “1” for positive. Additional examples were given using the data from Rimm et al. (2017 ). 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The reference is Yigiter A, Chen J, An L, Danacioglu N (2015) . The link to the package is . Package: r-cran-onlineretail Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2831 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-onlineretail_0.1.2-1.ca2004.1_all.deb Size: 2863444 MD5sum: c9ac0b42b5df2e3e3ee3b1e237670c54 SHA1: 193ed838dbc47b42020836015cb2545928e351f5 SHA256: 1fe73e555f20dd78f59186749af068fd9686be10daa1f20cd78dd9a4895c8820 SHA512: 0785e7128e7d7f9d58429e11e3b131769bf12863ce75b5af0a56dd7074478ce87ed190e727e4fb767cb5ba6707308cf59d7bb7c1212e7507e5c3eda2daf33a4b Homepage: https://cran.r-project.org/package=onlineretail Description: CRAN Package 'onlineretail' (Online Retail Dataset) Transactions occurring for a UK-based and registered, non-store online retail between 01/12/2010 and 09/12/2011 (Chen et. al., 2012, ). This dataset is included in this package with the donor's permission, Dr. Daqing Chen. Package: r-cran-onls Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 522 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-minpack.lm Filename: pool/dists/focal/main/r-cran-onls_0.1-2-1.ca2004.1_all.deb Size: 428172 MD5sum: 29daeefed4f2d0ceedac6ab4850f2224 SHA1: 8446c25c2aaa292451646ea150c9e8319d795444 SHA256: 9617314b3f723f1ebe42e2e3ac4158b53885d13ee3175d6075523767aa603097 SHA512: 615caf62f984bbee23d03d8e83d0fe5913a3603c4329d5367c3272d7b48a511768f2c8d8c806549040aecb5b65657d9cb8f026abbf68974fdcd2dfb70d803ba0 Homepage: https://cran.r-project.org/package=onls Description: CRAN Package 'onls' (Orthogonal Nonlinear Least-Squares Regression) Fits two-dimensional data by means of orthogonal nonlinear least-squares using Levenberg-Marquardt minimization and provides functionality for fit diagnostics and plotting. 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The model consists of four dimensions: In 2021, these dimensions were updated to "Material Resources" (previously called "Material Deprivation"), "Households and Dwellings" (previously called "Residential Instability"), "Age and Labour Force" (previously called "Dependency"), and "Racialized and Newcomer Populations" (previously called "Ethnic Concentration"). This update reflects a movement away from deficit-based language. 2021 data will load with these new dimension names, wheras 2011 and 2016 data will load with the historical dimension names. Each of these dimensions are imported for a variety of geographic levels (DA, CD, etc.) for the 2021, 2011 and 2016 administrations of the census. These data sets contribute to community analysis of equity with respect to Ontario's Anti-Racism Act. The Ontario Marginalization Index data is retrieved from the Public Health Ontario website: . The shapefile data is retrieved from the Statistics Canada website: . 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It is inspired by the Food and Agrilculture Organizations (FAO) caliper platform and makes use of the Simple Knowledge Organisation System (SKOS). 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Package: r-cran-ontologyplot Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 391 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ontologyindex, r-cran-paintmap, r-bioc-rgraphviz Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ontologyplot_1.7-1.ca2004.1_all.deb Size: 258236 MD5sum: c5fd7701eab40628396c34e6f0983cdb SHA1: 4e6cbae242042df4f2c2b841854bdc53b3b7ec60 SHA256: 0dcf72ce546e4047c63de5bf368528b18eaaef4b425ed3b6a486f0cd52bd9059 SHA512: d61c4c9e2bc1bf109f4375e071e43f18bf881927ea9ee81e6f77454f5500b8c278b1cfa2fc812c65d6ad518814f2d09ad75a68a7dbb308fb16151e09a6b28750 Homepage: https://cran.r-project.org/package=ontologyPlot Description: CRAN Package 'ontologyPlot' (Visualising Sets of Ontological Terms) Create R plots visualising ontological terms and the relationships between them with various graphical options - Greene et al. 2017 . 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It expands on the previous work of Tarasov et al. (2019) . The PARAMO pipeline allows to reconstruct ancestral phenomes treating groups of morphological traits as a single complex character. The pipeline incorporates knowledge from ontologies during the amalgamation of individual character stochastic maps. Here we expand the current PARAMO functionality by adding new statistical methods for inferring evolutionary phenome dynamics using non-homogeneous Poisson process (NHPP). The new functionalities include: (1) reconstruction of evolutionary rate shifts of phenomes across lineages and time; (2) reconstruction of morphospace dynamics through time; and (3) estimation of rates of phenome evolution at different levels of anatomical hierarchy (e.g., entire body or specific regions only). The package also includes user-friendly tools for visualizing evolutionary rates of different anatomical regions using vector images of the organisms of interest. 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Supported random forest packages are 'randomForest' and 'ranger' and trained models of these packages with the train function of 'mlr'. The main function is OOBCurve() that calculates the out-of-bag curve depending on the number of trees. With the OOBCurvePars() function out-of-bag curves can also be calculated for 'mtry', 'sample.fraction' and 'min.node.size' for the 'ranger' package. 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This package offers a standard workflow with functions to prepare, administer and evaluate a human-in-the-loop validity test. This package provides functions for validating topic models using word intrusion, topic intrusion (Chang et al. 2009, ) and word set intrusion (Ying et al. 2021) tests. This package also provides functions for generating gold-standard data which are useful for validating dictionary-based methods. The default settings of all generated tests match those suggested in Chang et al. (2009) and Song et al. (2020) . 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Package: r-cran-opendatatoronto Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ckanr, r-cran-magrittr, r-cran-readxl, r-cran-sf, r-cran-tibble, r-cran-xml2, r-cran-curl Suggests: r-cran-covr, r-cran-dplyr, r-cran-ggiraph, r-cran-ggplot2, r-cran-knitr, r-cran-purrr, r-cran-tidyr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-opendatatoronto_0.1.6-1.ca2004.1_all.deb Size: 71232 MD5sum: 8b37c086dee717b21293f72a0026ee98 SHA1: b4891fe52141f49f13182d885006ed9b4aed24a9 SHA256: 7deac69b0f4360b356d88538875e96b1e3c52d84a9ffb77d4e8303a60dd27e55 SHA512: bd64e44a3ebf775ff8380e69ade74312a665b97ae60d9cf8d71440139250eb6a30d8a88660fdc46e008582957b59b73d2401b196ff61a800eddcd33862782136 Homepage: https://cran.r-project.org/package=opendatatoronto Description: CRAN Package 'opendatatoronto' (Access the City of Toronto Open Data Portal) Access data from the "City of Toronto Open Data Portal" () directly from R. 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Package: r-cran-openebgm Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 721 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-ggplot2 Suggests: r-cran-deoptim, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-openebgm_0.9.1-1.ca2004.1_all.deb Size: 422868 MD5sum: 64bf2c86f51d870d32896d335dff13e7 SHA1: 046aa9367b67481c1670b3ef9653b24316383478 SHA256: b2bb3a23c88740160c8ebd67ddcb1db85fd78f3eec0f3b5612f020bfb9f67e07 SHA512: 708af0d22e3a76eb27a1481c3ce926b19c4f3d7ad6a9ca3f440575db24b1c0b3580aa8e28963cc336c362716ba8bc3acfeaefaa7743118f310ac073c465872b2 Homepage: https://cran.r-project.org/package=openEBGM Description: CRAN Package 'openEBGM' (EBGM Disproportionality Scores for Adverse Event Data Mining) An implementation of DuMouchel's (1999) Bayesian data mining method for the market basket problem. Calculates Empirical Bayes Geometric Mean (EBGM) and posterior quantile scores using the Gamma-Poisson Shrinker (GPS) model to find unusually large cell counts in large, sparse contingency tables. Can be used to find unusually high reporting rates of adverse events associated with products. In general, can be used to mine any database where the co-occurrence of two variables or items is of interest. Also calculates relative and proportional reporting ratios. Builds on the work of the 'PhViD' package, from which much of the code is derived. Some of the added features include stratification to adjust for confounding variables and data squashing to improve computational efficiency. Includes an implementation of the EM algorithm for hyperparameter estimation loosely derived from the 'mederrRank' package. Package: r-cran-openeo Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2716 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-jsonlite, r-cran-httr2, r-cran-r6, r-cran-lubridate, r-cran-base64enc, r-cran-sf, r-cran-irdisplay, r-cran-htmltools, r-cran-rlang Suggests: r-cran-tibble, r-cran-testthat, r-cran-knitr, r-cran-stars, r-cran-pkgdown, r-cran-rmarkdown, r-cran-kableextra, r-cran-dt, r-cran-terra, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-openeo_1.4.0-1.ca2004.1_all.deb Size: 1732468 MD5sum: 57dac83db4f41601501592bd4bec058b SHA1: 346df999527cec4c8589f697671714deb2e59a21 SHA256: f85a85eb0bc45e63221c2a4703ecdc4cf3dc4fdda23f9050902f4f6060b787ee SHA512: 38783fac1902daed7e65dca1d0f7a3d210d66dd88c1f816e46e84d2b24eb7a2dc72b514cf09a39727e12892aca19c18acc5f1a205fc869cb33b475b61d7fe95c Homepage: https://cran.r-project.org/package=openeo Description: CRAN Package 'openeo' (Client Interface for 'openEO' Servers) Access data and processing functionalities of 'openEO' compliant back-ends in R. 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This package makes the API easily accessible, returning objects which the user can convert to JSON data and parse. Kass-Hout TA, Xu Z, Mohebbi M et al. (2016) . 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It includes support for loading spatiotemporal raster data and synthesized spatial plotting. Several LUC change (LUCC) metrics in regular or irregular time intervals can be extracted and visualized through one- and multistep sankey and chord diagrams. A complete intensity analysis according to Aldwaik and Pontius (2012) is implemented, including tools for the generation of standardized multilevel output graphics. 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Package: r-cran-openspecy Architecture: all Version: 1.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1766 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-jsonlite, r-cran-yaml, r-cran-catools, r-cran-hyperspec, r-cran-mmand, r-cran-plotly, r-cran-digest, r-cran-signal, r-cran-glmnet, r-cran-jpeg, r-cran-shiny Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-shinyjs, r-cran-shinywidgets, r-cran-bs4dash, r-cran-dplyr, r-cran-dt, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-openspecy_1.5.3-1.ca2004.1_all.deb Size: 1385344 MD5sum: ce71f17a89652349189900ce6586091b SHA1: c0535cae6a0c49f2f53e56158dfb291851376dd8 SHA256: 6ac2138ae8610a6e59e1aefaecade4bd47ffc38f17883688085e60a23ee34be6 SHA512: 59eebdf1f67bae679233a5263d8c0f3a84c75571e1ada420682c4ee8b7e5b77b6d460172dec4814eaf86ccd59df11bdab9349bca1a91a307785129f86a6b5b43 Homepage: https://cran.r-project.org/package=OpenSpecy Description: CRAN Package 'OpenSpecy' (Analyze, Process, Identify, and Share Raman and (FT)IR Spectra) Raman and (FT)IR spectral analysis tool for plastic particles and other environmental samples (Cowger et al. 2021, ). With read_any(), Open Specy provides a single function for reading individual, batch, or map spectral data files like .asp, .csv, .jdx, .spc, .spa, .0, and .zip. process_spec() simplifies processing spectra, including smoothing, baseline correction, range restriction and flattening, intensity conversions, wavenumber alignment, and min-max normalization. Spectra can be identified in batch using an onboard reference library (Cowger et al. 2020, ) using match_spec(). A Shiny app is available via run_app() or online at . Package: r-cran-openstars Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 9474 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-rgrass7, r-cran-progress, r-cran-rgdal, r-cran-sp, r-cran-raster, r-cran-ssn Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-openstars_1.2.3-1.ca2004.1_all.deb Size: 2664316 MD5sum: 1a99f93c5fcd3d1f9dda32d029ecc234 SHA1: efda4c5926fa2700b0d3429f611c4f306c0b03c5 SHA256: b25128da52525288f58a7830c849c0386f6d1cba0754c259422c2d7274b9aa34 SHA512: f545237eeb92cfc56c8e003fe6046a1ea583c39dc4225afb54c0d0d27b3655dcef2509ff7a2bd4ce06f1e808834f4faada8315f993d8d9351de8bec1e5a5a200 Homepage: https://cran.r-project.org/package=openSTARS Description: CRAN Package 'openSTARS' (An Open Source Implementation of the 'ArcGIS' Toolbox 'STARS') An open source implementation of the 'STARS' toolbox (Peterson & Ver Hoef, 2014, ) using 'R' and 'GRASS GIS'. It prepares the *.ssn object needed for the 'SSN' package. A Digital Elevation Model (DEM) is used to derive stream networks (in contrast to 'STARS' that can clean an existing stream network). Package: r-cran-openstreetmap Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2283 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-rjava, r-cran-raster, r-cran-sp Filename: pool/dists/focal/main/r-cran-openstreetmap_0.4.0-1.ca2004.1_all.deb Size: 2264780 MD5sum: 4b698392e1ee79bbe25159fd8f34b761 SHA1: cb149d6194e1a9980230c637e227a5910ed9b258 SHA256: b6428d57dd3adb2627829f89edadb79690f8862bf3aa4fc67c2ee385e093ed9d SHA512: 2271ea0e3fabe025ade34bfb0e9d3ef53173ce3e8170d2ef0991887d82c352fbf788c99fb3637f2e12af267bab92b941c694eeb2f8c98d04eea6ddc52682f21d Homepage: https://cran.r-project.org/package=OpenStreetMap Description: CRAN Package 'OpenStreetMap' (Access to Open Street Map Raster Images) Accesses high resolution raster maps using the OpenStreetMap protocol. Dozens of road, satellite, and topographic map servers are directly supported, including Apple, Mapnik, Bing, and stamen. Additionally raster maps may be constructed using custom tile servers. Maps can be plotted using either base graphics, or ggplot2. This package is not affiliated with the OpenStreetMap.org mapping project. Package: r-cran-opentraj Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4150 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-maptools, r-cran-openair, r-cran-raster, r-cran-rgdal, r-cran-reshape, r-cran-doparallel, r-cran-foreach, r-cran-sp Filename: pool/dists/focal/main/r-cran-opentraj_1.0-1.ca2004.1_all.deb Size: 3715080 MD5sum: 0b8cf5480732811c1abbaf367369f03e SHA1: 18c8097074028d84682f4314c7be00ff88feb1ff SHA256: b83806b4bea46b6eea8b37c72b77bf76edba361aeef73580e3a71f2b4c32ee46 SHA512: 5310290b1451427b40ee5a359ff0f426c28f3c4ae87a3884cb44306cb2d74ba0ade16616ac97068f82fe8d9444f1ff725731635a200b0dd75ff4ac6dc0672479 Homepage: https://cran.r-project.org/package=opentraj Description: CRAN Package 'opentraj' (Tools for Creating and Analysing Air Trajectory Data) opentraj uses the Hybrid Single Particle Lagrangian Integrated Trajectory Model (HYSPLIT) for computing simple air parcel trajectories. The functions in this package allow users to run HYSPLIT for trajectory calculations, as well as get its results, directly from R without using any GUI interface. Package: r-cran-opentreechronograms Architecture: all Version: 2022.1.28-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2688 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ape, r-cran-geiger, r-cran-knitcitations, r-cran-paleotree, r-cran-plyr, r-cran-rotl, r-cran-stringr, r-cran-taxize, r-cran-treebase, r-cran-usethis Filename: pool/dists/focal/main/r-cran-opentreechronograms_2022.1.28-1.ca2004.1_all.deb Size: 2704148 MD5sum: 4c28d6eb92159f43a441ee90a324231b SHA1: 4b33219da54b7a63de57c24734ac686f3cca6060 SHA256: 5cee6c75412a94485ca895441f123831e281b1883ae3b5257f328f5949b010d0 SHA512: 117de0bcde0071692e3e6297e75400396b8800556d7e8539cfa620d1c5f13612d0a7fd4083e152cfe0e52e78e294f9b1a449f4254c1a54770948e870fc31e0ed Homepage: https://cran.r-project.org/package=OpenTreeChronograms Description: CRAN Package 'OpenTreeChronograms' (Open Tree of Life Chronograms) Chronogram database constructed from Open Tree of Life's phylogenetic store. Package: r-cran-opentripplanner Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1324 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-data.table, r-cran-geodist, r-cran-googlepolylines, r-cran-curl, r-cran-rjson, r-cran-purrr, r-cran-rcppsimdjson, r-cran-progressr, r-cran-sf, r-cran-sfheaders Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-terra, r-cran-tibble Filename: pool/dists/focal/main/r-cran-opentripplanner_0.5.2-1.ca2004.1_all.deb Size: 843220 MD5sum: 60e059bb743411fd6f9dfc4c40ef4913 SHA1: 9d6309924c94511ec5de97d12c3acc10114f3e1e SHA256: f5a37f7b11e8a662e1d7bf327894bcb2ed335b5ca513c1c29c9821ce7de8a807 SHA512: 72536e3373eb04da24142eebe2114785f0b0d67c63e228da78759ca0a38184e47296a1d620dbd5a0a5ec944d44d7bbf131c678870aa86263426b9245973c4faa Homepage: https://cran.r-project.org/package=opentripplanner Description: CRAN Package 'opentripplanner' (Setup and connect to 'OpenTripPlanner') Setup and connect to 'OpenTripPlanner' (OTP) . OTP is an open source platform for multi-modal and multi-agency journey planning written in 'Java'. The package allows you to manage a local version or connect to remote OTP server to find walking, cycling, driving, or transit routes. This package has been peer-reviewed by rOpenSci (v. 0.2.0.0). Package: r-cran-openva Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2445 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-interva5, r-cran-insilicova, r-cran-interva4, r-cran-tariff, r-cran-ggplot2, r-cran-crayon, r-cran-cli Suggests: r-cran-covr, r-cran-nbc4va, r-cran-testthat, r-cran-r.rsp, r-cran-knitr Filename: pool/dists/focal/main/r-cran-openva_1.1.2-1.ca2004.1_all.deb Size: 1344628 MD5sum: 6de4f39463afc199ee1c590ecaeeb8c3 SHA1: f2a8699f67cf1bd0d6a130a07deff54c9c518b7b SHA256: ca91bf03b2f388318f9b70a055bed9db59f15bbd1b9521f626ab151d5060d910 SHA512: 2f71bb0b8be18413fad9d1d8eb1febdb4297e91bb7502ca51b34bf994425307543199510582ff3297247b82182e3885483ed9909165b8c5c9e60cd42a9574288 Homepage: https://cran.r-project.org/package=openVA Description: CRAN Package 'openVA' (Automated Method for Verbal Autopsy) Implements multiple existing open-source algorithms for coding cause of death from verbal autopsies. The methods implemented include 'InterVA4' by Byass et al (2012) , 'InterVA5' by Byass at al (2019) , 'InSilicoVA' by McCormick et al (2016) , 'NBC' by Miasnikof et al (2015) , and a replication of 'Tariff' method by James et al (2011) and Serina, et al. (2015) . It also provides tools for data manipulation tasks commonly used in Verbal Autopsy analysis and implements easy graphical visualization of individual and population level statistics. The 'NBC' method is implemented by the 'nbc4va' package that can be installed from . Note that this package was not developed by authors affiliated with the Institute for Health Metrics and Evaluation and thus unintentional discrepancies may exist in the implementation of the 'Tariff' method. Package: r-cran-operator.tools Architecture: all Version: 1.6.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-operators, r-cran-magrittr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-operator.tools_1.6.3-1.ca2004.1_all.deb Size: 52712 MD5sum: b4d4fbb8f5a7eda194824e87f425e738 SHA1: 2b8f31b2f207da121d930333c6fbf00936d4ef71 SHA256: 357eeb04831b58451363590291039c1b326258e72fcd36669ab170a0f8687b40 SHA512: 1fcfba971c84c5f73688eea621c21a748d912b7ea7f3b4d27af4df818c138624882d519a197d4c743fcec2e375ca820d6264302122f5700ca51f4164dca355c6 Homepage: https://cran.r-project.org/package=operator.tools Description: CRAN Package 'operator.tools' (Utilities for Working with R's Operators) Provides a collection of utilities that allow programming with R's operators. Routines allow classifying operators, translating to and from an operator and its underlying function, and inverting some operators (e.g. comparison operators), etc. All methods can be extended to custom infix operators. Package: r-cran-operators Architecture: all Version: 0.1-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-operators_0.1-8-1.ca2004.1_all.deb Size: 65536 MD5sum: 369f10af827fe712dcb2fcbad4599582 SHA1: 19388f59fd2caa292ff5c091da50ecf43639cd28 SHA256: 138eb0d3c29acb9ae53f3ebedb63cc459a1bb64ab23855dd463143e82ee6c0fc SHA512: fde04ca187c30748338550f0bb7167f407c2f3daf66e8c8b4218c91bfb4c2ba98e8c665ad8ac0a4fdd4acdcee906c6edf37dad9afccab52913d5730baea6ffb6 Homepage: https://cran.r-project.org/package=operators Description: CRAN Package 'operators' (Additional Binary Operators) A set of binary operators for common tasks such as regex manipulation. Package: r-cran-opgmmassessment Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-adaptgauss, r-cran-datavisualizations, r-cran-distributionoptimization, r-cran-cluster, r-cran-mixtools, r-cran-foreach, r-cran-rlang, r-cran-ggplot2, r-cran-catools, r-cran-dplyr, r-cran-mclust, r-cran-mixak, r-cran-multimode, r-cran-nbclust, r-cran-clusterr, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-opgmmassessment_0.4-1.ca2004.1_all.deb Size: 63956 MD5sum: 12808b3259bdd5d3c00b1380b7f30017 SHA1: 016cf6797f222ed8d4af32bbbcd9ddfcbef7934a SHA256: 8924c9057ae3390e186a7529df48329f0ef9e816a35c6c887c8bd69364034457 SHA512: 73689ecf0fb2eaca95417c3dfe31878bbb5a8e3d381366c00b8da96dff7b49ca47bd8afa631d827e2fb8e760f38b49610f0ae461adbcae49337c407da0945672 Homepage: https://cran.r-project.org/package=opGMMassessment Description: CRAN Package 'opGMMassessment' (Optimized Automated Gaussian Mixture Assessment) Necessary functions for optimized automated evaluation of the number and parameters of Gaussian mixtures in one-dimensional data. Various methods are available for parameter estimation and for determining the number of modes in the mixture. A detailed description of the methods ca ben found in Lotsch, J., Malkusch, S. and A. Ultsch. (2022) . Package: r-cran-opi Architecture: all Version: 3.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 758 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite, r-cran-rfast, r-cran-abind, r-cran-openssl Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-opi_3.0.4-1.ca2004.1_all.deb Size: 621852 MD5sum: fe16cce3c09fd70a74aee0f102385b2c SHA1: 3026deea1983be9dc590d3edfb1d4a81ec48065f SHA256: f3e330a047c0e40aa65a27d422ad3d30536365cfe2c65ec28158b9aefca6cb42 SHA512: f1c4bcec7d5bb013f2bd228bf3d530c0f9d794c69f2b1f7c80b19876c2d99768eab7bdb293c0fbb7c1625ae85b4969d857b5eb950d42c5811ab0df90bf76ed6e Homepage: https://cran.r-project.org/package=OPI Description: CRAN Package 'OPI' (Open Perimetry Interface) Implementation of the Open Perimetry Interface (OPI) for simulating and controlling visual field machines using R. The OPI is a standard for interfacing with visual field testing machines (perimeters) first started as an open source project with support of Haag-Streit in 2010. It specifies basic functions that allow many visual field tests to be constructed. As of February 2022 it is fully implemented on the Haag-Streit Octopus 900 and 'CrewT ImoVifa' ('Topcon Tempo') with partial implementations on the Centervue Compass, Kowa AP 7000 and Android phones. It also has a cousin: the R package 'visualFields', which has tools for analysing and manipulating visual field data. Package: r-cran-opinar Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 171 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-haven, r-cran-janitor, r-cran-rvest, r-cran-glue, r-cran-dplyr, r-cran-purrr, r-cran-stringr, r-cran-magrittr, r-cran-assertthat, r-cran-rlang, r-cran-sjplot, r-cran-gt, r-cran-lubridate Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-opinar_1.0.0-1.ca2004.1_all.deb Size: 70752 MD5sum: c5c68df89de2e0884fd15a366f2d4a63 SHA1: c8551341a977c5091539d79c27ab7ffa73882fbc SHA256: 83f47e6329f83a93b85d2b969ab7b425905e25b1806cc045c51f19057d5fa271 SHA512: cc047fbfb103bebd99cf1f1317bd4fa920f254c35f6997bee0396116e4043f899953d7eef406dfc9b71f2147855f2701371514bbc0d998ff9bdc0f3c6befab80 Homepage: https://cran.r-project.org/package=opinAr Description: CRAN Package 'opinAr' (Argentina's Public Opinion Toolbox) A toolbox for working with public opinion data from Argentina. It facilitates access to microdata and the calculation of indicators of the Trust in Government Index (ICG), prepared by the Torcuato Di Tella University. Although we will try to document everything possible in English, by its very nature Spanish will be the main language. El paquete fue pensado como una caja de herramientas para el trabajo con datos de opinión pública de Argentina. El mismo facilita el acceso a los microdatos y el cálculos de indicadores del Índice de Confianza en el Gobierno (ICG), elaborado por la Universidad Torcuato Di Tella. Package: r-cran-opitools Architecture: all Version: 1.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1143 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-tibble, r-cran-tidytext, r-cran-magrittr, r-cran-dplyr, r-cran-stringr, r-cran-purrr, r-cran-tidyr, r-cran-likert, r-cran-tm, r-cran-wordcloud2, r-cran-forcats, r-cran-cowplot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-rvest, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-opitools_1.8.0-1.ca2004.1_all.deb Size: 882732 MD5sum: 8095650f7384313604532830bc74d71a SHA1: 8d65b07dae70dd8965bd1cc2f8d99f967afbe535 SHA256: 433f0ecf952fba8d452e1eed6b68775a28b005c2bf06fab0ab9cea217b2e5c46 SHA512: d952a849fe37c988535d5134008dc4c640994dae04f69e893658180e1ad27aaaca1f1aec05cb19af4b9597f49f9561078a98f18364c86df47a6ab129e963d174 Homepage: https://cran.r-project.org/package=opitools Description: CRAN Package 'opitools' (Analyzing the Opinions in a Big Text Document) Designed for performing impact analysis of opinions in a digital text document (DTD). The package allows a user to assess the extent to which a theme or subject within a document impacts the overall opinion expressed in the document. The package can be applied to a wide range of opinion-based DTD, including commentaries on social media platforms (such as 'Facebook', 'Twitter' and 'Youtube'), online products reviews, and so on. The utility of 'opitools' was originally demonstrated in Adepeju and Jimoh (2021) in the assessment of COVID-19 impacts on neighbourhood policing using Twitter data. Further examples can be found in the vignette of the package. Package: r-cran-opl Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 196 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-pander, r-cran-randomforest, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-opl_1.0.2-1.ca2004.1_all.deb Size: 69856 MD5sum: 9283ed251a5d06177dd02c3cd9166287 SHA1: a70ac336ab50dc8b5c370980f355737ac82b2f0f SHA256: e0e022a1fd5cede84cd628ecabff1295076f96111037f60247ed2770a5ef9cd7 SHA512: 06fef67522d47fea7eb3c2d091ec6ccb9fe83d7dd5e7a63a8338beec6c3fc731b74e583dc6fc36b8a8b50b9329ae97dc12ae71a77436fd56839eedebe9a7606f Homepage: https://cran.r-project.org/package=OPL Description: CRAN Package 'OPL' (Optimal Policy Learning) Provides functions for optimal policy learning in socioeconomic applications helping users to learn the most effective policies based on data in order to maximize empirical welfare. Specifically, 'OPL' allows to find "treatment assignment rules" that maximize the overall welfare, defined as the sum of the policy effects estimated over all the policy beneficiaries. Documentation about 'OPL' is provided by several international articles via Athey et al (2021, ), Kitagawa et al (2018, ), Cerulli (2022, ), the paper by Cerulli (2021, ) and the book by Gareth et al (2013, ). Package: r-cran-opportunistic Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-hopbyhop, r-cran-endtoend Filename: pool/dists/focal/main/r-cran-opportunistic_1.2-1.ca2004.1_all.deb Size: 28732 MD5sum: 24b2b86a4598ac25ef04cd8657c2a0a7 SHA1: c849c045a3f75574c1a950c6546291ec13164f49 SHA256: 7fc9fa78dc1eb6de037958f3cf4d8bd204f352fc43591465a89fd77e2027b317 SHA512: d2fbb7a34b6e25306f2b8902af7aea585961659ceac498420c64331c85af0bf3a68fe4c90fc37dba276d2974f31d37a7adf7373989e904c1c35b3acf50285e49 Homepage: https://cran.r-project.org/package=Opportunistic Description: CRAN Package 'Opportunistic' (Routing Distribution, Broadcasts, Transmissions and Receptionsin an Opportunistic Network) Computes the routing distribution, the expectation of the number of broadcasts, transmissions and receptions considering an Opportunistic transport model. It provides theoretical results and also estimated values based on Monte Carlo simulations. Package: r-cran-optauc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-optauc_1.0-1.ca2004.1_all.deb Size: 38744 MD5sum: b307dd91185c912340e5771bd25eab6a SHA1: 60e464ce3650755eb13e673ce4e9100117757c82 SHA256: c22967649ea4f0c8bdad2a77941e472321dbac4bf8bd4be16f0b275e706ec320 SHA512: 1978392c9df5ee91153ead573006ccf58ae86d763cb5a7b23d0be9e2a65429b9f9ff6cff91d66c605e8d501c4c5671ab5087834ccdc09a63befaf410cc1b8fc1 Homepage: https://cran.r-project.org/package=optAUC Description: CRAN Package 'optAUC' (Optimal Combinations of Diagnostic Tests Based on AUC) Searches for optimal linear combination of multiple diagnostic tests (markers) that maximizes the area under the receiver operating characteristic curve (AUC); performs an approximated cross-validation for estimating the AUC associated with the estimated coefficients. Package: r-cran-optband Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 340 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lambertw Suggests: r-cran-survival, r-cran-km.ci, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optband_0.2.2-1.ca2004.1_all.deb Size: 207896 MD5sum: 0591a5e1d95c92e165eefc347b840969 SHA1: 27dfdcdf69f463577061c9deea11b61c9438beac SHA256: 16f2bca0d1391d51bdc480673118c81f0ba67d796ed0c9e2b1edcda3444e49b9 SHA512: 19d475e45aedf69168851019bd3f6b62a311cd0cb4bc403d28778efbbba1fe51732005dfabba1d3e7c53a177bdd639691d41505b34c10791a10c2ef08d01b75a Homepage: https://cran.r-project.org/package=optband Description: CRAN Package 'optband' ('surv' Object Confidence Bands Optimized by Area) Given a certain coverage level, obtains simultaneous confidence bands for the survival and cumulative hazard functions such that the area between is minimized. Produces an approximate solution based on local time arguments. Package: r-cran-optbdmaeat Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-igraph Filename: pool/dists/focal/main/r-cran-optbdmaeat_1.0.2-1.ca2004.1_all.deb Size: 128072 MD5sum: d9fead8f7acb03db40b0c740cdb9f086 SHA1: 0531ea8590fac7430fedf0e809f18917ff517643 SHA256: aa55e715d10c935edac7845fab1d115c342173a9c11ac2e6ca86290283ed4569 SHA512: afff670c7590bb8ab125d9eb83a784db0e4e64414781d54ac17040071cb8e85ad8a125711befe0aacbcc9e7877f386006957ab66c2c59dcd63661a87b75a005f Homepage: https://cran.r-project.org/package=optbdmaeAT Description: CRAN Package 'optbdmaeAT' (Optimal Block Designs for Two-Colour cDNA Microarray Experiments) Computes A-, MV-, D- and E-optimal or near-optimal block designs for two-colour cDNA microarray experiments using the linear fixed effects and mixed effects models where the interest is in a comparison of all possible elementary treatment contrasts. The algorithms used in this package are based on the treatment exchange and array exchange algorithms of Debusho, Gemechu and Haines (2018) . The package also provides an optional method of using the graphical user interface (GUI) R package tcltk to ensure that it is user friendly. Package: r-cran-optbiomarker Architecture: all Version: 1.0-28-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 471 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rpanel, r-cran-mass, r-cran-randomforest, r-cran-e1071, r-cran-ipred, r-cran-msm, r-cran-rgl, r-cran-matrix Filename: pool/dists/focal/main/r-cran-optbiomarker_1.0-28-1.ca2004.1_all.deb Size: 443332 MD5sum: 27ecc4f98fcf6a2f38f78e459eda7540 SHA1: e3516caf6394831d385261873dbc054a6a782fa2 SHA256: e347cd99b1ec173a2a22df152469a427d06a3448eb11c44d12680efbafcdaa90 SHA512: b46acb9ade83920908951b10ce9948f20e1a11a7685bd06e03543f76c43e2ca924a12a6d6752bbfd8d5a9bd079bf225684f09717017314935ff4b992b9552405 Homepage: https://cran.r-project.org/package=optBiomarker Description: CRAN Package 'optBiomarker' (Estimation of Optimal Number of Biomarkers for Two-GroupMicroarray Based Classifications at a Given Error ToleranceLevel for Various Classification Rules) Estimates optimal number of biomarkers for two-group classification based on microarray data. Package: r-cran-optcluster Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 384 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rankaggreg, r-cran-mclust, r-cran-cluster, r-cran-gplots, r-cran-kohonen, r-cran-mbcluster.seq Suggests: r-bioc-biobase, r-bioc-annotate Filename: pool/dists/focal/main/r-cran-optcluster_1.3.2-1.ca2004.1_all.deb Size: 310532 MD5sum: e8ba780096a1acad95a3e934b22f350e SHA1: 6eaf107fbd9ff713fda2d3fe0a8091c6725b84f9 SHA256: 8fc26209288d24e494dfc96dcbfb9575f6e91de21ba3f60dc9dd162ee3bf4ce1 SHA512: fc12b4817bc9f66af54f7d9b8e90c8e55ab73103eb557f8df2c6f19a0fb8d487de38c298da342c7e08449c4f8e7cec23e016f2df5e17fd3eec65703a30cacd7c Homepage: https://cran.r-project.org/package=optCluster Description: CRAN Package 'optCluster' (Determine Optimal Clustering Algorithm and Number of Clusters) Cluster analysis using statistical and biological validation measures for both continuous and count data. Package: r-cran-optdesignslopeint Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-optdesignslopeint_1.1.1-1.ca2004.1_all.deb Size: 50248 MD5sum: b8b5ddd8317d8838608d52c39f397e38 SHA1: 7cc2846c0a8529b35fa1c979cf173b113750ef2c SHA256: 576f5b904a1587faef2eb9058a5a14bc2ec9e53275b52a1977b698004ad949cb SHA512: 22eb0dd9c032fca657723e28a836d1e2028f288e671e34d04402687dc948da1273a67089fe839f467a364363a9081b8e76d2a9420936a3fd7c19dcf93a9406b9 Homepage: https://cran.r-project.org/package=optDesignSlopeInt Description: CRAN Package 'optDesignSlopeInt' (Optimal Designs for Estimating the Slope Divided by theIntercept) Aids practitioners to optimally design experiments that measure the slope divided by the intercept and provides confidence intervals for the ratio. Package: r-cran-optecd Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-optecd_1.0.0-1.ca2004.1_all.deb Size: 13564 MD5sum: f7722866074f0acb284c0aa4740fb8c3 SHA1: 3893c4910a3e984c8b2fee83a677d07567e64cb0 SHA256: d0e33edca6822ae34c93daae52d53eb89156ca7fa10141cac0aa8fc667512a59 SHA512: 1dd6146100700248e9ac8f1073581b41a5d9ed1f22bd213fb60dbacaea66d1fc7386579d6ef841af4e32790184563a42b01e5f2c829d92706644fcb8f9ab6b85 Homepage: https://cran.r-project.org/package=OPTeCD Description: CRAN Package 'OPTeCD' (Optimal Partial Tetra-Allele Cross Designs) Tetra-allele cross often referred as four-way cross or double cross or four-line cross are those type of mating designs in which every cross is obtained by mating amongst four inbred lines. A tetra-allele cross can be obtained by crossing the resultant of two unrelated diallel crosses. A common triallel cross involving four inbred lines A, B, C and D can be symbolically represented as (A X B) X (C X D) or (A, B, C, D) or (A B C D) etc. Tetra-allele cross can be broadly categorized as Complete Tetra-allele Cross (CTaC) and Partial Tetra-allele Crosses (PTaC). Rawlings and Cockerham (1962) firstly introduced and gave the method of analysis for tetra-allele cross hybrids using the analysis method of single cross hybrids under the assumption of no linkage. The set of all possible four-way mating between several genotypes (individuals, clones, homozygous lines, etc.) leads to a CTaC. If there are N number of inbred lines involved in a CTaC, the the total number of crosses, T = N*(N-1)*(N-2)*(N-3)/8. When more number of lines are to be considered, the total number of crosses in CTaC also increases. Thus, it is almost impossible for the investigator to carry out the experimentation with limited available resource material. This situation lies in taking a fraction of CTaC with certain underlying properties, known as PTaC. Package: r-cran-optedr Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1995 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-purrr, r-cran-rlang, r-cran-crayon, r-cran-cli, r-cran-dplyr, r-cran-nleqslv, r-cran-shiny Suggests: r-cran-testthat, r-cran-mockery, r-cran-markdown, r-cran-dt, r-cran-shinydashboard, r-cran-shinyalert, r-cran-plotly, r-cran-hrbrthemes, r-cran-shinyjs, r-cran-orthopolynom, r-cran-magrittr, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-optedr_2.2.0-1.ca2004.1_all.deb Size: 615620 MD5sum: 79880f655b52e3352213827035dd1257 SHA1: 1879ee02655ea0685cb7a0b702443c584be084f0 SHA256: eb3e8469a12c95b235f05233850425ca64c8ff82a2e8283bd0b778a3e5185acb SHA512: b83ab47de73a5b087de0f7d10c9f4bffb2c48dc49ea7b8d50de70500a3f58c6a152821306752bc835bc7e7b9e0487f711ef1528a2e3baba93bcc0cfb0347a2b4 Homepage: https://cran.r-project.org/package=optedr Description: CRAN Package 'optedr' (Calculating Optimal and D-Augmented Designs) Calculates D-, Ds-, A-, I- and L-optimal designs for non-linear models, via an implementation of the cocktail algorithm (Yu, 2011, ). Compares designs via their efficiency, and augments any design with a controlled efficiency. An efficient rounding function has been provided to transform approximate designs to exact designs. Package: r-cran-optextras Architecture: all Version: 2019-12.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-optextras_2019-12.4-1.ca2004.1_all.deb Size: 118116 MD5sum: e2727d710cfa3dc2450f6188f6d1850d SHA1: e72263f5e26e0fa332c35e4dc0ad50a881163ff9 SHA256: 91f8252db81efffc636cd6ff96e2c2c023259a6b69de49a109fcc3a1222e2ebf SHA512: 8b68e490bb37c2e62c998ab979e937ce31f3cc8903ef399d442cdc079aa6cc4cd788f112bbc39369d010183a60183e5952e396d6d08ca1522dfb1f7ad5626cd8 Homepage: https://cran.r-project.org/package=optextras Description: CRAN Package 'optextras' (Tools to Support Optimization Possibly with Bounds and Masks) Tools to assist in safely applying user generated objective and derivative function to optimization programs. These are primarily function minimization methods with at most bounds and masks on the parameters. Provides a way to check the basic computation of objective functions that the user provides, along with proposed gradient and Hessian functions, as well as to wrap such functions to avoid failures when inadmissible parameters are provided. Check bounds and masks. Check scaling or optimality conditions. Perform an axial search to seek lower points on the objective function surface. Includes forward, central and backward gradient approximation codes. Package: r-cran-optholdoutsize Architecture: all Version: 0.1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3623 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrixstats, r-cran-mnormt, r-cran-mvtnorm, r-cran-ranger, r-cran-mle.tools Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optholdoutsize_0.1.0.1-1.ca2004.1_all.deb Size: 3343704 MD5sum: 56c329716755bc7694fa7e79c0a981e0 SHA1: 8ff613b767546a0ad8f905eebf475d8699c7523e SHA256: 23dacee4a1c402fb4e99e2084fe1046751ad240a3b0a6eae0181c5344272578b SHA512: a73a707c6e8120ba4ad568e780b022acfc3da3bc482396103a5723ca91d48738a2dd8a3d88f1e83466ee6a66ee5ba67fce5b3e663ed7fc9d4b82fe1c25c88238 Homepage: https://cran.r-project.org/package=OptHoldoutSize Description: CRAN Package 'OptHoldoutSize' (Estimation of Optimal Size for a Holdout Set for Updating aPredictive Score) Predictive scores must be updated with care, because actions taken on the basis of existing risk scores causes bias in risk estimates from the updated score. A holdout set is a straightforward way to manage this problem: a proportion of the population is 'held-out' from computation of the previous risk score. This package provides tools to estimate a size for this holdout set and associated errors. Comprehensive vignettes are included. Please see: Haidar-Wehbe S, Emerson SR, Aslett LJM, Liley J (2022) (to appear in Annals of Applied Statistics) for details of methods. Package: r-cran-optic Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 427 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-did, r-cran-dplyr, r-cran-future.apply, r-cran-lmtest, r-cran-magrittr, r-cran-mass, r-cran-purrr, r-cran-r6, r-cran-rlang, r-cran-sandwich, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-optic_1.0.1-1.ca2004.1_all.deb Size: 250772 MD5sum: 93a600af0548e05501ad72529950bfb0 SHA1: 802c94aaf6f82015bf560a422b5cd87e653c861d SHA256: da7702f13ee30e97fddace42d9858743b19f417a30861aba64483f37e947ae05 SHA512: fc44e7e7eecc39bbcddb22c5b86bd32eac27d341880dcafe99dadee6114e9c6ea9690a45a19c1372195678dca9ad566f7b510d60a2e904d27c76439168c2e681 Homepage: https://cran.r-project.org/package=optic Description: CRAN Package 'optic' (Simulation Tool for Causal Inference Using Longitudinal Data) Implements a simulation study to assess the strengths and weaknesses of causal inference methods for estimating policy effects using panel data. See Griffin et al. (2021) and Griffin et al. (2022) for a description of our methods. Package: r-cran-optical Architecture: all Version: 1.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 492 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-optical_1.7.1-1.ca2004.1_all.deb Size: 469540 MD5sum: 02b498e57eb224362904f363aaa86e5c SHA1: 737cc8e76593b47358e965d152d167fc57d99a01 SHA256: 34c097e60b061b60c147072f184e689640897ff305e698d1a3fcca28a745ea16 SHA512: a929fa9cc49b61b2374042cd43d20857d8f9832d87e606eedf8d06304ac48782a05e2ea4297d2b9345a2a0166ee452e8d13eaa5e596aa1bd44a3ca5a1951e734 Homepage: https://cran.r-project.org/package=optical Description: CRAN Package 'optical' (Optimal Item Calibration) The restricted optimal design method is implemented to optimally allocate a set of items that require calibration to a group of examinees. The optimization process is based on the method described in detail by Ul Hassan and Miller in their works published in (2019) and (2021) . To use the method, preliminary item characteristics must be provided as input. These characteristics can either be expert guesses or based on previous calibration with a small number of examinees. The item characteristics should be described in the form of parameters for an Item Response Theory (IRT) model. These models can include the Rasch model, the 2-parameter logistic model, the 3-parameter logistic model, or a mixture of these models. The output consists of a set of rules for each item that determine which examinees should be assigned to each item. The efficiency or gain achieved through the optimal design is quantified by comparing it to a random allocation. This comparison allows for an assessment of how much improvement or advantage is gained by using the optimal design approach. This work was supported by the Swedish Research Council (Vetenskapsrådet) Grant 2019-02706. Package: r-cran-opticskxi Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2903 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-magrittr, r-cran-matrix, r-cran-rlang Suggests: r-cran-amap, r-cran-dbscan, r-cran-cowplot, r-cran-fastica, r-cran-fpc, r-cran-ggrepel, r-cran-gtable, r-cran-knitr, r-cran-plyr, r-cran-reshape2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-opticskxi_1.2.1-1.ca2004.1_all.deb Size: 2619092 MD5sum: cbf2d42cd7a717dc9119d8a06c1ba3e8 SHA1: 2b28cf8e2c2a352842d5775b464ea32fdde8f553 SHA256: 8976b58c466b5bb8d853c1c05638a5a9e2fbf59a7053ec22092db212d1bfc116 SHA512: 0fd28fef96b20a0e79092e3016ef09b71f674f233b6841e295f37d44916b832bca7768c461435736d984bd1e185760c13b128a9cee45de759be997687b299daf Homepage: https://cran.r-project.org/package=opticskxi Description: CRAN Package 'opticskxi' (OPTICS K-Xi Density-Based Clustering) Density-based clustering methods are well adapted to the clustering of high-dimensional data and enable the discovery of core groups of various shapes despite large amounts of noise. This package provides a novel density-based cluster extraction method, OPTICS k-Xi, and a framework to compare k-Xi models using distance-based metrics to investigate datasets with unknown number of clusters. The vignette first introduces density-based algorithms with simulated datasets, then presents and evaluates the k-Xi cluster extraction method. Finally, the models comparison framework is described and experimented on 2 genetic datasets to identify groups and their discriminating features. The k-Xi algorithm is a novel OPTICS cluster extraction method that specifies directly the number of clusters and does not require fine-tuning of the steepness parameter as the OPTICS Xi method. Combined with a framework that compares models with varying parameters, the OPTICS k-Xi method can identify groups in noisy datasets with unknown number of clusters. Results on summarized genetic data of 1,200 patients are in Charlon T. (2019) . A short video tutorial can be found at . Package: r-cran-opticut Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 455 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pbapply, r-cran-mass, r-cran-pscl, r-cran-betareg, r-cran-resourceselection, r-cran-mefa4 Filename: pool/dists/focal/main/r-cran-opticut_0.1-3-1.ca2004.1_all.deb Size: 405520 MD5sum: b0bd1b3baf03bd47a9953def0dfc408b SHA1: f61896a72cc96a0f38a4042c4f4294c2bee24f17 SHA256: fa376388e19eef11907e741e9631057677d3cf6dd7388115cf5cf29d501d0559 SHA512: 0c0066d3db74b6073b664a9d76f4ad29c50b7bc48d8c5d545b6f9ae27f0be1b80e5a1851226c29f5d067cd7818457cab1c34019bcad20d8f4fdf86d7ea177364 Homepage: https://cran.r-project.org/package=opticut Description: CRAN Package 'opticut' (Likelihood Based Optimal Partitioning and Indicator SpeciesAnalysis) Likelihood based optimal partitioning and indicator species analysis. Finding the best binary partition for each species based on model selection, with the possibility to take into account modifying/confounding variables as described in Kemencei et al. (2014) . The package implements binary and multi-level response models, various measures of uncertainty, Lorenz-curve based thresholding, with native support for parallel computations. Package: r-cran-optifunset Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 42 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-optifunset_1.0-1.ca2004.1_all.deb Size: 10888 MD5sum: 16f67773907fcba2be2e0983d4e547f2 SHA1: 657b878b7647be26381c7131b552728ceea3bf16 SHA256: 8d09317b7705a2148425a23522f0c1896017cecc7141330214dcf4a54ee30e6c SHA512: f007de9cda53d6b185f9cb0288f0e5c584199b796ca52cbfc1ab72394f0904671ac50b2c2353bd39d5deced98eaee627547e7fcd92db5573b02133e4d111a2bc Homepage: https://cran.r-project.org/package=optifunset Description: CRAN Package 'optifunset' (Set Options if Unset) A single function 'options.ifunset(...)' is contained herewith, which allows the user to set a global option ONLY if it is not already set. By this token, for package maintainers this function can be used in preference to the standard 'options(...)' function, making provision for THEIR end user to place 'options(...)' directives within their '.Rprofile' file, which will not be overridden at the point when a package is loaded. Package: r-cran-optigrab Architecture: all Version: 0.9.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 169 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringi, r-cran-magrittr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optigrab_0.9.2.1-1.ca2004.1_all.deb Size: 85184 MD5sum: 3a84bc38846f98eae1fa6efa06cf1183 SHA1: 1a326f9d6aaee85872c82d9ae3b70c701297f382 SHA256: becc095687aaaf9f2913ba30d85904f04177bfe0ee12e1e167db9aa99132a24c SHA512: cacb75f8fe84870e02716b6bec0353d22b1aa73024ed9f0bf5e41ac9e74e67f73b92e0ef19bd02ddef4d8ef566f1cbb8814cf462ccbbc8c1a15d5f6599007b31 Homepage: https://cran.r-project.org/package=optigrab Description: CRAN Package 'optigrab' (Command-Line Parsing for an R World) Parse options from the command-line using a simple, clean syntax. It requires little or no specification and supports short and long options, GNU-, Java- or Microsoft- style syntaxes, verb commands and more. Package: r-cran-optim.functions Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lhs, r-cran-randtoolbox, r-cran-stringr Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-optim.functions_0.1-1.ca2004.1_all.deb Size: 24736 MD5sum: 8a8f633768258ac1a69cf33cf55562d4 SHA1: 376d9502ddbe8bd23b10ffcdaf0bca7a9b9cc08d SHA256: 20269352ae89266092f0b3cdcdd7d3e4c3b33d8b39760d9fd79f65bb24ce6fd1 SHA512: dc1b30e169b7366c84da52579543dcdd6c7fd2d320bdfdeedaeabf8810d70df164ca333bbcaefd45843b0049cbd38cc7a4cdc04ccb7baab244e6f0b2901f4deb Homepage: https://cran.r-project.org/package=optim.functions Description: CRAN Package 'optim.functions' (Standard Benchmark Optimization Functions) A set of standard benchmark optimization functions for R and a common interface to sample them. Package: r-cran-optimalcutpoints Architecture: all Version: 1.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-optimalcutpoints_1.1-5-1.ca2004.1_all.deb Size: 176628 MD5sum: acdcfda2fe9d39db4fcc0768a6685ee2 SHA1: 69613819889aa72c8d17dab9f0476747fb629fa8 SHA256: b7706176bb0742307874c3c127693c0b54a81e7276cafe0133330bd02c49ffd5 SHA512: 5d7b0b0731844b287b2580720dbd8f3f2e1ce74d54a32b3823ea6ff0d3e469da53e1b4075ff795ce1a139130f55187c307f918bd3622160371f5e75ca59af70f Homepage: https://cran.r-project.org/package=OptimalCutpoints Description: CRAN Package 'OptimalCutpoints' (Computing Optimal Cutpoints in Diagnostic Tests) Computes optimal cutpoints for diagnostic tests or continuous markers. Various approaches for selecting optimal cutoffs have been implemented, including methods based on cost-benefit analysis and diagnostic test accuracy measures (Sensitivity/Specificity, Predictive Values and Diagnostic Likelihood Ratios). Numerical and graphical output for all methods is easily obtained. Package: r-cran-optimaldesign Architecture: all Version: 1.0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 418 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-lpsolve, r-cran-matrixstats, r-cran-matrixcalc, r-cran-plyr, r-cran-quadprog, r-cran-rgl Filename: pool/dists/focal/main/r-cran-optimaldesign_1.0.2.1-1.ca2004.1_all.deb Size: 387796 MD5sum: d13bb1e9771353c58573e0e26d94df14 SHA1: a5715dfd63a3f9b45dc04126134ff8693eafa09c SHA256: 64023d44731779c181768ecd5eeb9451996bff49bf09f87eaacce85abb82a0a8 SHA512: d0b2774c5b9b447b99a169200ecba9cd903a9b1b7a5fb2e504efc32b9adad4d320f0e75cfb49f69a4f863bdee158c43ce56d369bf85fc4088c0162464a1dedde Homepage: https://cran.r-project.org/package=OptimalDesign Description: CRAN Package 'OptimalDesign' (A Toolbox for Computing Efficient Designs of Experiments) Algorithms for D-, A-, I-, and c-optimal designs. Some of the functions in this package require the 'gurobi' software and its accompanying R package. For their installation, please follow the instructions at and the file gurobi_inst.txt, respectively. Package: r-cran-optimalgoldstandarddesigns Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1425 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nloptr, r-cran-mvtnorm, r-cran-cli, r-cran-dplyr, r-cran-tibble, r-cran-rdpack Suggests: r-cran-testthat, r-cran-here, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-fpcompare, r-cran-mnormt, r-cran-future.apply Filename: pool/dists/focal/main/r-cran-optimalgoldstandarddesigns_1.0.1-1.ca2004.1_all.deb Size: 737532 MD5sum: 1f345ad5f0a4e5aac8d4a4c1dda0e490 SHA1: edad12bd8dbe55eda7e396401d136de8c2ac48d4 SHA256: 07fe843868581657817c5b22ad6e2f46e808866a9ea4644d289f5c9f96004b6c SHA512: f56fbbec9917f720f565e4496f29d08440f17d2d6baae544c053f9ade677dcb05ed99e986e0c95778531ace619adad4e1321114f4ce00e873ca1130ddff7fb5b Homepage: https://cran.r-project.org/package=OptimalGoldstandardDesigns Description: CRAN Package 'OptimalGoldstandardDesigns' (Design Parameter Optimization for Gold-Standard Non-InferiorityTrials) Methods to calculate optimal design parameters for one- and two-stage three-arm group-sequential gold-standard non-inferiority trial designs with or without binding or nonbinding futility boundaries, as described in Meis et al. (2023) . Package: r-cran-optimall Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4559 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-magrittr, r-cran-rlang, r-cran-tibble Suggests: r-cran-bslib, r-cran-diagrammer, r-cran-dt, r-cran-globals, r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-shiny, r-cran-shinytest, r-cran-survey, r-cran-tidyr, r-cran-testthat, r-cran-webshot Filename: pool/dists/focal/main/r-cran-optimall_1.1.1-1.ca2004.1_all.deb Size: 3143888 MD5sum: 87db8b12e213b395655c4dd330d66867 SHA1: b0d1cab03fc9a6f9ba7830ae8028defc27166692 SHA256: e3a53475f676e6566c94b7ef5afe2b0b41eac90de9e211ca7bd697fd1dad5816 SHA512: 770310207bad3ec6cf83461539c5ec616da9a4f798bd24e91af2db6bb528440828f67ef411448a2aa34c8ba123a21590407c9649c20803870f92c3b00c393a83 Homepage: https://cran.r-project.org/package=optimall Description: CRAN Package 'optimall' (Allocate Samples Among Strata) Functions for the design process of survey sampling, with specific tools for multi-wave and multi-phase designs. Perform optimum allocation using Neyman (1934) or Wright (2012) allocation, split strata based on quantiles or values of known variables, randomly select samples from strata, allocate sampling waves iteratively, and organize a complex survey design. Also includes a Shiny application for observing the effects of different strata splits. Package: r-cran-optimalrerandexpdesigns Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-momentchi2, r-cran-greedyexperimentaldesign Filename: pool/dists/focal/main/r-cran-optimalrerandexpdesigns_1.1-1.ca2004.1_all.deb Size: 74612 MD5sum: 98e508862b0c53579ed61b3fcbbf6ee0 SHA1: d3267ee0a581c4baa88bcf828a3ce89c6824113c SHA256: 45b0b79328e1540928ab5e413ebc1c9dd1f582be1359f4207500f4551ea44bab SHA512: ad0f6e0848c930b4a9c57bddf043cd146fbe38c72fa54c8e82b2ba825348718848ed7e74bccf460df8afdad49bfd481a6ab6cc8774b580ec895e16aeb0b6cf3c Homepage: https://cran.r-project.org/package=OptimalRerandExpDesigns Description: CRAN Package 'OptimalRerandExpDesigns' (Optimal Rerandomization Experimental Designs) This is a tool to find the optimal rerandomization threshold in non-sequential experiments. We offer three procedures based on assumptions made on the residuals distribution: (1) normality assumed (2) excess kurtosis assumed (3) entire distribution assumed. Illustrations are included. Also included is a routine to unbiasedly estimate Frobenius norms of variance-covariance matrices. Details of the method can be found in "Optimal Rerandomization via a Criterion that Provides Insurance Against Failed Experiments" Adam Kapelner, Abba M. Krieger, Michael Sklar and David Azriel (2020) . Package: r-cran-optimalsurrogate Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-optimalsurrogate_1.0-1.ca2004.1_all.deb Size: 42692 MD5sum: 5230817ec7fae1c5f113f26642e24103 SHA1: ec07d0cff23238bc8c428bf8815b7e501ae198b3 SHA256: 20e11a974ec87eeabb2abb9d3cde778db193e360f973a1c0666b25c6134575ff SHA512: d6172cad3898de09e163986817120ab95234162864dfd82f4f9f7f088ac5f3fe4959be081a515482021eb5accac62675ba28d0532ee27432c4d89e08b7b66ccd Homepage: https://cran.r-project.org/package=OptimalSurrogate Description: CRAN Package 'OptimalSurrogate' (Model Free Approach to Quantifying Surrogacy) Identifies an optimal transformation of a surrogate marker such that the proportion of treatment effect explained can be inferred based on the transformation of the surrogate and nonparametrically estimates two model-free quantities of this proportion. Details are described in Wang et al (2020) . Package: r-cran-optimalthreshold Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 505 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ars, r-cran-rjags, r-cran-hdinterval, r-cran-mgcv, r-cran-coda Filename: pool/dists/focal/main/r-cran-optimalthreshold_1.0-1.ca2004.1_all.deb Size: 391232 MD5sum: e3ef0372ff87133ba43e8b1a37528de1 SHA1: c45a1dfec6e864ba689e25507a62e52ec814e265 SHA256: d13904021cdb15180e8a4453b56a7d381d036c43c1683a4263eda8115ddaac9b SHA512: 0b87bfa9a8f440fc7542ba5f70d13ffb228537f679db6e53fe09f053f7c968a9d63f59b172c4973f61af3b074f7b2ffa5b0231771d38905c8075041a2a031ee8 Homepage: https://cran.r-project.org/package=optimalThreshold Description: CRAN Package 'optimalThreshold' (Bayesian Methods for Optimal Threshold Estimation) Functions to estimate the optimal threshold of diagnostic markers or treatment selection markers. The optimal threshold is the marker value that maximizes the utility of the marker based-strategy (for diagnostic or treatment selection) in a given population. The utility function depends on the type of marker (diagnostic or treatment selection), but always takes into account the preferences of the patients or the physician in the decision process. For estimating the optimal threshold, ones must specify the distributions of the marker in different groups (defined according to the type of marker, diagnostic or treatment selection) and provides data to estimate the parameters of these distributions. Ones must also provide some features of the target populations (disease prevalence or treatment efficacies) as well as the preferences of patients or physicians. The functions rely on Bayesian inference which helps producing several indicators derived from the optimal threshold. See Blangero, Y, Rabilloud, M, Ecochard, R, and Subtil, F (2019) for the original article that describes the estimation method for treatment selection markers and Subtil, F, and Rabilloud, M (2019) for diagnostic markers. Package: r-cran-optimaltiming Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mstate, r-cran-survival Filename: pool/dists/focal/main/r-cran-optimaltiming_0.1.0-1.ca2004.1_all.deb Size: 74716 MD5sum: 33a04f21cf226d08047d850a3f04e3f8 SHA1: cef4b99fe2b6231102ae5aca5ddcd7fe44e99e77 SHA256: 950a3a9f86a9d0fc2632b5dd5da844506901a2b2c8282dc77b0dedcd28a935ab SHA512: d1bd46fa00925f4ed7af0ecc71b2273451b14f7bbbce0dd20795e449e8af3cb79c7e5325cdad5ac8625f1083b7a183bb379cd5802c9f93d7f9ba1d1dd70aee78 Homepage: https://cran.r-project.org/package=OptimalTiming Description: CRAN Package 'OptimalTiming' (Optimal Timing Identification) Identify the optimal timing for new treatment initiation during multiple state disease transition, including multistate model fitting, simulation of mean residual lifetime for a given transition state, and estimation of confidence interval. The method is referred to de Wreede, L., Fiocco, M., & Putter, H. (2011) . Package: r-cran-optimaregion Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 183 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-boot, r-cran-depthproc, r-cran-fields, r-cran-magrittr, r-cran-nloptr, r-cran-rsm, r-cran-rdpack, r-cran-rdsdp, r-cran-spam, r-cran-stringr Suggests: r-cran-knitr, r-cran-lhs, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optimaregion_1.2-1.ca2004.1_all.deb Size: 146628 MD5sum: a5c081a277b6973d79ee5a882af12482 SHA1: b3b07fec13e8da09cb5a787907917eab5e30bd8e SHA256: 85f2f3199f143a68c87201a20bb778084e43cb4e8608fb51eef2d757d27adb72 SHA512: 9844c7a83ab30fbd0205c6315f7a36380312d1e45c1491c1be35d6aaeff996408d4b546351002e0dc81c26dc2fb97c901796dd863bc6e9d219b35122197c1a6f Homepage: https://cran.r-project.org/package=OptimaRegion Description: CRAN Package 'OptimaRegion' (Confidence Regions for Optima of Response Surfaces) Computes confidence regions on the location of response surface optima. Response surface models can be up to cubic polynomial models in up to 5 controllable factors, or Thin Plate Spline models in 2 controllable factors. Package: r-cran-optimbase Architecture: all Version: 1.0-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1043 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optimbase_1.0-10-1.ca2004.1_all.deb Size: 383284 MD5sum: 290b3f9ec60b05ae744213c8e6fd6e2f SHA1: 44a4ab3e470d1d18d0983a55f4b20e3047d87624 SHA256: 06ad4dc03a952fe493d5a364726539eb747aa5cb61612ec94b8650e602d7a70e SHA512: 53093e4457a0df15de4bc8f787aeffb32bb527fb6980ba14ad371cbcded6485e40be2be4c07d14745e9823819ecc2187f925d508b2f1138add619c5d405a80b8 Homepage: https://cran.r-project.org/package=optimbase Description: CRAN Package 'optimbase' (R Port of the 'Scilab' Optimbase Module) Provides a set of commands to manage an abstract optimization method. The goal is to provide a building block for a large class of specialized optimization methods. This package manages: the number of variables, the minimum and maximum bounds, the number of non linear inequality constraints, the cost function, the logging system, various termination criteria, etc... Package: r-cran-optimcheck Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 346 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-quantreg, r-cran-mclust, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optimcheck_1.0.1-1.ca2004.1_all.deb Size: 217972 MD5sum: 1ffeb33987fa58cbb007ae1101dbd489 SHA1: eeb59f5369afcbf7d8f31bd584c306febad5d7c4 SHA256: fba5bb6fb999b5d798a9c0bbe6bb7c182acf2fac5557118bd87a9b944bf3ac56 SHA512: 951696efaa21a9d24bc630ada214515b7a0b33275474926f21b0991b8b7d8e7969ee7e7cbf27643223cf0da39f32cff9684b91c0e2a02d89885c21c569e41fec Homepage: https://cran.r-project.org/package=optimCheck Description: CRAN Package 'optimCheck' (Graphical and Numerical Checks for Mode-Finding Routines) Tools for checking that the output of an optimization algorithm is indeed at a local mode of the objective function. This is accomplished graphically by calculating all one-dimensional "projection plots" of the objective function, i.e., varying each input variable one at a time with all other elements of the potential solution being fixed. The numerical values in these plots can be readily extracted for the purpose of automated and systematic unit-testing of optimization routines. Package: r-cran-optimg Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ucminf Filename: pool/dists/focal/main/r-cran-optimg_0.1.2-1.ca2004.1_all.deb Size: 32352 MD5sum: a7b6f07787b2620913d61a473401cb60 SHA1: 4f0ef3166eb3959b168a9e7d0b9da462f7285d4e SHA256: db1e62ba40234f4e440ef9cf0d58d79625f1e3361dd86b8579ef1632c89d0e52 SHA512: 9ba1cbe3c3348271d7f260ade5e21d3cac39204881134ac33cd36ef0bfb1699ae84a185fc187dabf3323e294ee29b2a8f65364214fcc67f796a68eeefe2149a1 Homepage: https://cran.r-project.org/package=optimg Description: CRAN Package 'optimg' (General-Purpose Gradient-Based Optimization) Provides general purpose tools for helping users to implement steepest gradient descent methods for function optimization; for details see Ruder (2016) . Currently, the Steepest 2-Groups Gradient Descent and the Adaptive Moment Estimation (Adam) are the methods implemented. Other methods will be implemented in the future. Package: r-cran-optimizer Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-lbfgsb3c, r-cran-numderiv, r-cran-oeli, r-cran-pracma, r-cran-r6, r-cran-testfunctions, r-cran-ucminf Suggests: r-cran-ggplot2, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-optimizer_1.2.1-1.ca2004.1_all.deb Size: 269452 MD5sum: 3a1bcdb1e2a17b0fe6fa95550e4ac04f SHA1: d699eebf479ae0819d5decec748ed2b2f66aff71 SHA256: bb5a02a5e2db387fc05363819458393e52106ab31f174a9c47e0b7f82344d027 SHA512: 7686a9cf8ddd1a9b12b7050cf170f728ff290cf6750b2775e6d2ecad7e437793eba6196e6a8d3665098c46fe84abdc958fed8c0020e686cb651bd2654e78302f Homepage: https://cran.r-project.org/package=optimizeR Description: CRAN Package 'optimizeR' (Unified Framework for Numerical Optimizers) Provides a unified object-oriented framework for numerical optimizers in R. Allows for both minimization and maximization with any optimizer, optimization over more than one function argument, measuring of computation time, setting a time limit for long optimization tasks. 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Solves the problem of allocating scarce land to various land-use options with regard to multiple, coequal indicators. The method aims to find the land allocation that represents the indicator composition with the best possible trade-off under uncertainty. optimLanduse includes the actual optimization procedure as described by Knoke et al. (2016) and the post-hoc calculation of the portfolio performance as presented by Gosling et al. (2020) . 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Package: r-cran-optimparallel Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 239 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-r.rsp, r-cran-roxygen2, r-cran-spam, r-cran-microbenchmark, r-cran-testthat, r-cran-ggplot2, r-cran-numderiv, r-cran-lbfgsb3c Filename: pool/dists/focal/main/r-cran-optimparallel_1.0-2-1.ca2004.1_all.deb Size: 201220 MD5sum: 80fb82bd8c23ada2fd39258196c1c9d8 SHA1: 4037bfd3aa69e07256b3f0cc2e545dc50a8e8e5b SHA256: bd2ff37bccfd82ee98743d28e060d7e416813812526ffe6ed6d34c887ecfd822 SHA512: c6edf28725ea1efa0ea40440f0f1f97373638e312b8263db9b33394f3de2463e8e644800d25f93764acfdf45dab22d7d9f41bf92dcea171ff535f7c2e44e2f7c Homepage: https://cran.r-project.org/package=optimParallel Description: CRAN Package 'optimParallel' (Parallel Version of the L-BFGS-B Optimization Method) Provides a parallel version of the L-BFGS-B method of optim(). 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This version has a reduced set of methods and is intended to be on CRAN. Package: r-cran-optimsimplex Architecture: all Version: 1.0-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1181 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-optimbase Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optimsimplex_1.0-8-1.ca2004.1_all.deb Size: 380684 MD5sum: be43c78980adcf1e48934ae8c6d70192 SHA1: 486afd859f5620510c7256ef36fd79d3af4bb1b1 SHA256: de9b3935746a472c71959b3e9b46555184e732f14b93a466a6ab172ee725c1a1 SHA512: 536f01c0ac03ad50c15ec1ddac126fb971bc8d3b86703b9e61abccd39034639e403ae276601a5bad647c73e6ba1ba72dde00ee30dde2e5d75ba8563de1fcb623 Homepage: https://cran.r-project.org/package=optimsimplex Description: CRAN Package 'optimsimplex' (R Port of the 'Scilab' Optimsimplex Module) Provides a building block for optimization algorithms based on a simplex. 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Package: r-cran-optimus Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvabund, r-cran-ordinal Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-optimus_0.2.0-1.ca2004.1_all.deb Size: 108280 MD5sum: 7e7797c79adbbc75022078082295df88 SHA1: d15243de336e394a61fae9d89ca40741347ebd8d SHA256: 440d6ddbbfa2ae56cb34915ee23f0f100b67104948ed2353366257e0a6cf26f0 SHA512: 1f8cf05067efe3b139f4ca139c651096cdcf8787ed4803aa8e5b45b7968f731211f89c699c2eb3dbf461924cd95f361e8c385bc23fba1f4af9938fbd22d33ebb Homepage: https://cran.r-project.org/package=optimus Description: CRAN Package 'optimus' (Model Based Diagnostics for Multivariate Cluster Analysis) Assessment and diagnostics for comparing competing clustering solutions, using predictive models. 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Package: r-cran-optiscale Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice Filename: pool/dists/focal/main/r-cran-optiscale_1.2.3-1.ca2004.1_all.deb Size: 60884 MD5sum: eab5c69640efbc14699e63cb0e1af434 SHA1: 40f50b9ab4bd04fce81d09269281ba698f082846 SHA256: 8faeff826c07eccfbac563dcabc937b33ccc35caa8634ac176a5c7ae58a7c349 SHA512: 9cabe7d1a8160f9820c20d914454ac62902f955f670d3921824d7260134fad513faff975ef77bf0a2f74b78c13d78347b35f27cd6489ded144368cec68a4d5bb Homepage: https://cran.r-project.org/package=optiscale Description: CRAN Package 'optiscale' (Optimal Scaling) Optimal scaling of a data vector, relative to a set of targets, is obtained through a least-squares transformation subject to appropriate measurement constraints. The targets are usually predicted values from a statistical model. If the data are nominal level, then the transformation must be identity-preserving. If the data are ordinal level, then the transformation must be monotonic. If the data are discrete, then tied data values must remain tied in the optimal transformation. If the data are continuous, then tied data values can be untied in the optimal transformation. Package: r-cran-optisembleforecasting Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-keras, r-cran-tsutils, r-cran-readxl, r-cran-tibble, r-cran-tensorflow, r-cran-metrics, r-cran-forecast, r-cran-dplyr, r-cran-neuralnet, r-cran-mcs, r-cran-caretforecast, r-cran-kknn, r-cran-metaheuristicopt, r-cran-factominer, r-cran-factoextra Filename: pool/dists/focal/main/r-cran-optisembleforecasting_0.1.0-1.ca2004.1_all.deb Size: 53752 MD5sum: fcbf2ca4a199c9a07ceb12d873479b7b SHA1: 84ca59a5a369c4cf5ae5602f8b00f3ca3195ab59 SHA256: 832e575be87d6b01df8e4a9735af94e6ca3ad9b44d35ea35ac8fe19c4073f049 SHA512: afb29481b817baa26a26bc677ce0c3a4ac6c523628b4cd958ef1d8f65424252990aad520f73215e7f5d2d81f8b5e37d607b83e9f381820f4c5d06005ca5b1fec Homepage: https://cran.r-project.org/package=OptiSembleForecasting Description: CRAN Package 'OptiSembleForecasting' (Optimization Based Ensemble Forecasting Using MCS Algorithm) The real-life data is complex in nature. No single model can capture all aspect of complex time series data. In this package, 14 models, namely Recurrent Neural Network (RNN), Gated Recurrent Unit (GRU), Long Short-Term Memory (LSTM), Bidirectional LSTM, Deep LSTM, Artificial Neural Network (ANN), Support Vector Regression (SVR), Random Forest (RF), k-Nearest Neighbour (KNN), XGBoost (XGB), Autoregressive Integrated Moving Average (ARIMA), Error-Trend-Seasonality (ETS) and TBATS models, have been implemented and their accuracy have been checked. An PCA based error index has been proposed to select a group of best models using MCS algorithms. After selecting the models, the forecasts from these models have been ensembled using optimization techniques. This package allows to implement 20 optimization techniques, namely, Artificial Bee Colony (ABC), Ant Lion Optimizer (ALO), Bat Algorithm (BA), Black Hole Optimization Algorithm (BHO), Clonal Selection Algorithm (CLONALG), Cuckoo Search (CS), Cat Swarm Optimization (CSO), Dragonfly Algorithm (DA), Differential Evolution (DE), Firefly Algorithm (FFA), Genetic Algorithm (GA), Gravitational Based Search Algorithm (GBS), Grasshopper Optimisation Algorithm (GOA), Grey Wolf Optimizer (GWO), Harmony Search Algorithm (HS), Krill-Herd Algorithm (KH), Moth Flame Optimizer (MFO), Particle Swarm Optimization (PSO), Sine Cosine Algorithm (SCA), Shuffled Frog Leaping (SFL) and Whale Optimization Algorithm (WOA). This package has been developed using concept of Wang et al. (2022) , Qu et al. (2022) and Kriz (2019) . Package: r-cran-optisolve Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 814 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-shapes, r-cran-alabama, r-cran-cccp, r-cran-nloptr, r-cran-mass, r-cran-plyr, r-cran-stringr, r-cran-rcpp Filename: pool/dists/focal/main/r-cran-optisolve_1.0-1.ca2004.1_all.deb Size: 800140 MD5sum: 0a5c9245f3a30f77cf71ecb5a57f2a76 SHA1: eb5e22b8228c33943bc578b841298ac2cb9b7242 SHA256: 82c5ab95deafee7db9495043ff289ada641ee67876b7b7bb127b502d7696c20a SHA512: 0b82ee31197010a2ebecaa4c79724943cf09c6336edd822c72b044221a5bea1961ba2f680865d7d6eae57e813c736ca1ba9e1b2e359e1bde752c5237d368b555 Homepage: https://cran.r-project.org/package=optiSolve Description: CRAN Package 'optiSolve' (Linear, Quadratic, and Rational Optimization) Solver for linear, quadratic, and rational programs with linear, quadratic, and rational constraints. A unified interface to different R packages is provided. Optimization problems are transformed into equivalent formulations and solved by the respective package. For example, quadratic programming problems with linear, quadratic and rational constraints can be solved by augmented Lagrangian minimization using package 'alabama', or by sequential quadratic programming using solver 'slsqp'. Alternatively, they can be reformulated as optimization problems with second order cone constraints and solved with package 'cccp'. Package: r-cran-optistock Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1206 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyverse, r-cran-shiny, r-cran-shinydashboard Filename: pool/dists/focal/main/r-cran-optistock_0.0.2-1.ca2004.1_all.deb Size: 640448 MD5sum: 506f6ba629a02c41fb055c3374f77a64 SHA1: 937e84b988159fcd58052d7c3777cab05a2fd78a SHA256: 30057fbe57b5e6120f297e3e1a2219c86297b1121fa61fc8ab739c358012a001 SHA512: 36d06c40aa0b11c2b5704d78f03291641a64b1fd70ed2d88df5e5add663f6ee41ae814ff78c26bb14736af7a3c6fdcf4a8318b09740bd3c8622a40240873f89e Homepage: https://cran.r-project.org/package=optistock Description: CRAN Package 'optistock' (Determine Optimum Stocking Times Used in Fishery Enhancements) A collection of functions that aid in calculating the optimum time to stock hatchery reared fish into a body of water given the growth, mortality and cost of raising a particular number of individuals to a certain length. Package: r-cran-optm Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 577 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-sizer Filename: pool/dists/focal/main/r-cran-optm_0.1.9-1.ca2004.1_all.deb Size: 220364 MD5sum: dc6938bd248b692b7f79193534e873fe SHA1: 5d3e2bd38d191244248c5475ab8420a8920f023f SHA256: d2c29eea77679c6cab366df1a47d61a6f0e9f905ba70abb626f752c1d4d3d329 SHA512: 557f382a18d06590320a91250ded4806bd4c56467f54b3b140a0e2eac70d1a16490527d11180057393c05f83547d0a094cceba3d0b94de43a93d398e864372ff Homepage: https://cran.r-project.org/package=OptM Description: CRAN Package 'OptM' (Estimating the Optimal Number of Migration Edges from 'Treemix') The popular population genetic software 'Treemix' by 'Pickrell and Pritchard' (2012) estimates the number of migration edges on a population tree. However, it can be difficult to determine the number of migration edges to include. 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Package: r-cran-optr Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-optr_1.2.5-1.ca2004.1_all.deb Size: 86724 MD5sum: 5dfec66b3ae32d30c173908705187d30 SHA1: 5d806c3e6da661a61287a034a3c27eeee10ff1c7 SHA256: 8a918404ee4232ccbf692b996c7a3d3503c4a2ce7e289d19ea053165273a323b SHA512: e2624753077dbe957ac039e4915ca69220bb7820080a3f3b055749447a7883c708942f7ac2be739d80fd9025e8c2d9b14f0888a57598c70513d4ab8b0dff96f2 Homepage: https://cran.r-project.org/package=optR Description: CRAN Package 'optR' (Optimization Toolbox for Solving Linear Systems) Solves linear systems of form Ax=b via Gauss elimination, LU decomposition, Gauss-Seidel, Conjugate Gradient Method (CGM) and Cholesky methods. Package: r-cran-optrcdmaeat Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 170 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-igraph Filename: pool/dists/focal/main/r-cran-optrcdmaeat_1.0.1-1.ca2004.1_all.deb Size: 141500 MD5sum: cb7196181af9ba899d7e38e663f480ab SHA1: 5e1be91a6f062daedf0086b373db86d196d9e40f SHA256: 9004275c431c9c9048f1e49f565337500ee15bc8fe153e06bfdfd499d0c78b79 SHA512: b41e6d906f80eac61723ac2399fb16928a2532489469308c82bdc661647aa6d4e925acfb271738fef065c93831ad8e3042af8db5a2cd6fea14c5a00bb32b755c Homepage: https://cran.r-project.org/package=optrcdmaeAT Description: CRAN Package 'optrcdmaeAT' (Optimal Row-Column Designs for Two-Colour cDNA MicroarrayExperiments) Computes A-, MV-, D- and E-optimal or near-optimal row-column designs for two-colour cDNA microarray experiments using the linear fixed effects and mixed effects models where the interest is in a comparison of all pairwise treatment contrasts. 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To solve the linear program, the 'Gurobi' commercial optimization software is recommended, but not required. The 'gurobi' R package can be installed following the instructions at . 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The non-linear relationship between stability and numbers of trees is described using a logistic regression model and used to estimate the optimal number of trees. Package: r-cran-opts Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-cvtools, r-cran-changepoint Filename: pool/dists/focal/main/r-cran-opts_0.1-1.ca2004.1_all.deb Size: 29148 MD5sum: e08e76f3ff57025b20fc0757d70823ca SHA1: 1f5c46ed8fa85c91f2c35126891d9da6c833b2b9 SHA256: c94928ac9dc7cad6e2757aee97f3ea06a5da5aed4627d078a44d638bdeab0a54 SHA512: 34267f066dbdd2b05c8e742344c46bdd380220ded0c46ff5ec81ad6ac62bc998bfed4779dce11af9adbd22111a660c589f85a7c406b4ca4312f5f6e8f59c986c Homepage: https://cran.r-project.org/package=OPTS Description: CRAN Package 'OPTS' (Optimization via Subsampling (OPTS)) Subsampling based variable selection for low dimensional generalized linear models. The methods repeatedly subsample the data minimizing an information criterion (AIC/BIC) over a sequence of nested models for each subsample. Marinela Capanu, Mihai Giurcanu, Colin B Begg, Mithat Gonen, Subsampling based variable selection for generalized linear models. 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A range of statistical tests are covered, including the test for the population mean, population proportion, and a linear restriction in a multiple regression model. The details are covered in Kim and Choi (2020) , and Kim (2021) . 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The implementation comprises functions for modeling loss frequencies and loss severities with plain, mixed (Frigessi et al. (2012) ) or spliced distributions using Maximum Likelihood estimation and Bayesian approaches (Ergashev et al. (2013) ). In particular, the parametrization of tail distributions includes the fitting of Tukey-type distributions (Kuo and Headrick (2014) ). Furthermore, the package contains the modeling of bivariate dependencies between loss severities and frequencies, Monte Carlo simulation for total loss estimation as well as a closed-form approximation based on Degen (2010) to determine the value-at-risk. Package: r-cran-orakle Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4637 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-mlmetrics, r-cran-mumin, r-cran-r.utils, r-cran-caret, r-cran-survival, r-cran-countrycode, r-cran-doparallel, r-cran-dplyr, r-cran-ggthemes, r-cran-glmnet, r-cran-httr, r-cran-jsonlite, r-cran-lubridate, r-cran-mgcv, r-cran-patchwork, r-cran-purrr, r-cran-xml2, r-cran-zoo Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-orakle_1.0.1-1.ca2004.1_all.deb Size: 4243724 MD5sum: b5d2be1ae33ecd9d122ea9165b598807 SHA1: 9f61c99f01099abac1db92b498c43c973886e889 SHA256: 79c306452e8471f1a6d0e91e88a0f556c8d118e2c525fc09029284438e345bd1 SHA512: bd150f853ba7a4d4ef071b7be5d887855fc49083edf9f3130c4d7e268db6502d7d74664a3852b57debc63b0aaa930e078f930f8a3456f2b7c38f26dd101ce6b0 Homepage: https://cran.r-project.org/package=oRaklE Description: CRAN Package 'oRaklE' (Multi-Horizon Electricity Demand Forecasting in High Resolution) Advanced forecasting algorithms for long-term energy demand at the national or regional level. The methodology is based on Grandón et al. (2024) ; Zimmermann & Ziel (2024) . Real-time data, including power demand, weather conditions, and macroeconomic indicators, are provided through automated API integration with various institutions. The modular approach maintains transparency on the various model selection processes and encompasses the ability to be adapted to individual needs. 'oRaklE' tries to help facilitating robust decision-making in energy management and planning. Package: r-cran-oralopioids Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 820 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-readr, r-cran-purrr, r-cran-plyr, r-cran-jsonlite, r-cran-reshape2, r-cran-stringr, r-cran-openxlsx, r-cran-rvest, r-cran-xml2, r-cran-rlang, r-cran-magrittr, r-cran-httr, r-cran-writexl Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-oralopioids_2.0.4-1.ca2004.1_all.deb Size: 686916 MD5sum: 65e084b613bd81f4c5731bc1f8d09469 SHA1: 1379ac25495cf25cd76d2bf4bd08d147da653804 SHA256: 2190bfd7253405636997baa83d4e1614981a34614f19cc47309c31501793e1da SHA512: 42175fb74f008fdc9e7415d2dcb4235cd3db2e7e3f1eb4271aa81688a3991a7b098139996af6b8d295b955e7f29f7aff32e98cfa11d4974791408ed249b4bb01 Homepage: https://cran.r-project.org/package=OralOpioids Description: CRAN Package 'OralOpioids' (Retrieving Oral Opioid Information) Provides details such as Morphine Equivalent Dose (MED), brand name and opioid content which are calculated of all oral opioids authorized for sale by Health Canada and the FDA based on their Drug Identification Number (DIN) or National Drug Code (NDC). MEDs are calculated based on recommendations by Canadian Institute for Health Information (CIHI) and Von Korff et al (2008) and information obtained from Health Canada's Drug Product Database's monthly data dump or FDA Daily database for Canadian and US databases respectively. Please note in no way should output from this package be a substitute for medical advise. All medications should only be consumed on prescription from a licensed healthcare provider. Package: r-cran-orbital Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-generics, r-cran-rlang Suggests: r-cran-arrow, r-cran-bonsai, r-cran-dbi, r-cran-dbplyr, r-cran-dtplyr, r-cran-duckdb, r-cran-embed, r-cran-glue, r-cran-gt, r-cran-hardhat, r-cran-jsonlite, r-cran-kknn, r-cran-knitr, r-cran-modeldata, r-cran-parsnip, r-cran-partykit, r-cran-r6, r-cran-recipes, r-cran-rmarkdown, r-cran-rsqlite, r-cran-rstanarm, r-cran-sparklyr, r-cran-testthat, r-cran-themis, r-cran-tibble, r-cran-tidypredict, r-cran-workflows Filename: pool/dists/focal/main/r-cran-orbital_0.3.0-1.ca2004.1_all.deb Size: 135996 MD5sum: e75ce52e8d46134ba29c217da714789f SHA1: f48bc06cbeedd37150e672a0a718767c43382eb9 SHA256: fe629f8b38f3a9fa998c560a71dfecabd0d730cde6e909a78eae66e6798a935f SHA512: f51272286908dfe1949a8cf3b9e5eecb724fe8513d03fb675cc6ad6f35b6b880d5f32977b29bb30419b46025021f4c4b28cdb9d352723012b05440d818b5e0cd Homepage: https://cran.r-project.org/package=orbital Description: CRAN Package 'orbital' (Predict with 'tidymodels' Workflows in Databases) Turn 'tidymodels' workflows into objects containing the sufficient sequential equations to perform predictions. 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This package enables access to detailed information on budget allocations and expenditures of the federal government, making it easier to analyze and visualize these data. Technical information on the Brazilian federal budget is available (Portuguese only) at . The 'SIOP' endpoint is available at . Package: r-cran-orci Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biasedurn, r-cran-blakerci, r-cran-propcis Filename: pool/dists/focal/main/r-cran-orci_1.1-1.ca2004.1_all.deb Size: 49968 MD5sum: a96877b3d59a29aa90bc43007d6db0d9 SHA1: 39c4ed4057de18d9687543e0bd51bc14009ae328 SHA256: 4db7f61bbb9c0844663be302daa0b428caf10ad53136ea916140ced41f1fadaa SHA512: 34b8181e6a2dca2956eaad8d84ccdce36f3175fa6119c80931a2c019a15f0d88aa121fb5533ec47195a72a86af5892099fd02c2dbe125bd29e10abf698c28b4b Homepage: https://cran.r-project.org/package=ORCI Description: CRAN Package 'ORCI' (Several confidence intervals for the odds ratio) Computes various confidence intervals for the odds ratio of two independent binomial proportions. 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Package: r-cran-orcme Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-iso Filename: pool/dists/focal/main/r-cran-orcme_2.0.2-1.ca2004.1_all.deb Size: 129492 MD5sum: c51cefdc75a5b150dd118ba99f519098 SHA1: 6b51d5c5589bb3e93766a2eb08d6632bac9c5d36 SHA256: 48ec2a96de6ca7dfa5a508be7da8b377549f3e469f88997fb610d67592abe787 SHA512: f82a94e7a3453e3d22d44666625e5f77c3eb6208901518234875a8773b7bb8c4b0d1932879064c62596ad88fdacade0fd17ef70e2456cb3a7456be9ee8496903 Homepage: https://cran.r-project.org/package=ORCME Description: CRAN Package 'ORCME' (Order Restricted Clustering for Microarray Experiments) Provides clustering of genes with similar dose response (or time course) profiles. It implements the method described by Lin et al. (2012). Package: r-cran-orcutt Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lmtest Filename: pool/dists/focal/main/r-cran-orcutt_2.3-1.ca2004.1_all.deb Size: 37980 MD5sum: 8a6f2225863bf721c7a3d265606cf7d8 SHA1: f3cc8b07b70436f87ead7afe2d406db5a0b191b0 SHA256: cd988cb0f3d9667465d76605b392ebc14c6e0d0f2b3c60d61bd4b271b1f03ab9 SHA512: ba57fa3a3cf780e1c7535d733572eea598414fb6f358d92f41f49094df4e5f085e531d65c9bdcb716173245ad01d95d8162a12c508bb4e2f5bd209c052cb7f26 Homepage: https://cran.r-project.org/package=orcutt Description: CRAN Package 'orcutt' (Estimate Procedure in Case of First Order Autocorrelation) Solve first order autocorrelation problems using an iterative method. This procedure estimates both autocorrelation and beta coefficients recursively until we reach the convergence (8th decimal as default). 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For more information, see Kubinec (2023) . The package is a front-end to the R package 'brms', which facilitates a range of regression specifications, including hierarchical, dynamic and multivariate modeling. Package: r-cran-ordcd Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-grbase, r-cran-mass, r-cran-bnlearn, r-cran-igraph, r-cran-matrix Filename: pool/dists/focal/main/r-cran-ordcd_1.1.2-1.ca2004.1_all.deb Size: 47192 MD5sum: da8eda136755ee1046e032feeaca96d1 SHA1: 320147756381e41832dd6bed20c2f3367ece2121 SHA256: cf52d1691dfc246907898b1d3b2461dbe8aa157a31fe99c48eec79b548aadaf4 SHA512: b39dd85c2c18053082672aece77f3998a1ca2bbff45dd07ea2410b4481809874dfdbd3bc340adc8783f3b75d4229343e4baa3acee46ef3cb0f0c232aed7d9e56 Homepage: https://cran.r-project.org/package=OrdCD Description: CRAN Package 'OrdCD' (Ordinal Causal Discovery) Algorithms for ordinal causal discovery. This package aims to enable users to discover causality for observational ordinal categorical data with greedy and exhaustive search. See Ni, Y., & Mallick, B. (2022) "Ordinal Causal Discovery. 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These functions allow customization of design characteristics to vary sample size, cohort sizes, target dose-limiting toxicity (DLT) rates, discrete or continuous dose levels, combining ordinal grades 0 and 1 into one category, and incorporate safety and/or stopping rules. For POM and CR model designs, ordinal toxicity grades are specified by common terminology criteria for adverse events (CTCAE) version 4.0. Function 'pseudodata' creates the necessary starting models for these 3 designs, and function 'nextdose' estimates the next dose to test in a cohort of patients for a target DLT rate. We also provide the function 'crmsimulations' to assess the performance of these 3 dose finding designs under various scenarios. Package: r-cran-orddisp Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-vgam Filename: pool/dists/focal/main/r-cran-orddisp_2.1.2-1.ca2004.1_all.deb Size: 82564 MD5sum: 54d87b82566acb9a88c84aa5a708bb4f SHA1: 446b8754cd6951c224c71eb94700f2a44b4168e8 SHA256: e8f1eb7b9530aa5bc4177b6fbc9fbe196f91724323269501e4f895179b1a7e91 SHA512: 79fd0c5048787af8b6b65f82125121c4d0bef42c8d770e3c063436fa9774e2dcb372105e603637357d214f74a286418c983f57264cd994edbc3515d06955f176 Homepage: https://cran.r-project.org/package=ordDisp Description: CRAN Package 'ordDisp' (Separating Location and Dispersion in Ordinal Regression Models) Estimate location-shift models or rating-scale models accounting for response styles (RSRS) for the regression analysis of ordinal responses. Package: r-cran-ordensity Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 662 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cluster, r-cran-distances, r-cran-rfast, r-cran-plyr, r-cran-foreach, r-cran-dorng, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-ordensity_1.0-1.ca2004.1_all.deb Size: 597060 MD5sum: cf64ab3364ea61ca9eba7f1fe3cb7139 SHA1: f98c7409c78b0281c3f5c7445eafa8f0d9cb5ba9 SHA256: d141ea6763b1d2194d2145cb0417ba6498810f2a7fe6fa8df89c8fabb003af86 SHA512: 4c772ccb0aa06e89885824a0bf0104c745facfb190bd377ef872b9864dc68012a34ba0eec3d290b5cab862433eb7752926b4d6a1bb85a870308ad5c27e2c7ce2 Homepage: https://cran.r-project.org/package=ORdensity Description: CRAN Package 'ORdensity' (Identification of Differentially Expressed Genes) Automated discovery of differentially expressed genes. The method (called ORdensity) is composed of two phases: discovering potential differentially expressed genes and recognizing differentially expressed genes. It makes use of a permutation resampling procedure to build outlying and density indexes. References: a) Irigoien, I. and Arenas, C. (2018). "Identification of differentially expressed genes by means of outlier detection". . b) Martínez-Otzeta, J. M., Irigoien, I., Sierra, B., and Arenas, C. (2020). "ORdensity: user-friendly R package to identify differentially expressed genes". . Package: r-cran-order2parent Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Filename: pool/dists/focal/main/r-cran-order2parent_1.0-1.ca2004.1_all.deb Size: 35524 MD5sum: b7c2e8b9c2c66571163f20b6cb8b75e7 SHA1: a7fd8f8f7891f0392a1cfdc8666a30644065cffa SHA256: ccfbbdaf84cbb03f12e8effec090ddf5bc6d6636f5392d1e7168525aab43f53f SHA512: 911b049d02a9a54dcb6403b84f0c5643f82a4d4f51ecdf231f600a9d62acc62a0f6a619cd31ae1fdfc9957b047002dc88cf2125fed2227e5ae005849484b8c38 Homepage: https://cran.r-project.org/package=ORDER2PARENT Description: CRAN Package 'ORDER2PARENT' (Estimate parent distributions with data of several orderstatistics) This package uses B-spline based nonparametric smooth estimators to estimate parent distributions given observations on multiple order statistics. Package: r-cran-orderanalyzer Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 418 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tidyselect, r-cran-data.table, r-cran-dplyr, r-cran-matrixcalc, r-cran-quanteda, r-cran-rlist, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-purrr, r-cran-digest, r-cran-lubridate Suggests: r-cran-pdftools, r-cran-tesseract, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-orderanalyzer_1.0.0-1.ca2004.1_all.deb Size: 368832 MD5sum: 2a18b6611f32772ad28c51a97e938a89 SHA1: fef1da5b69d5ad719bcd7b861972e3bb2b3c343d SHA256: b26bcc3586e76671791c46964b2af67a52d13f775078fe07f8a8f4611ab83ff7 SHA512: 9664d9f4ddaf5545122c6819f7519a90b4b6dc3fb9dc23a87290d7901a24f051127f2fac46e6fdb4bf12a7cae4629e4f34493bbcd5d771e2e74979b2b1049655 Homepage: https://cran.r-project.org/package=orderanalyzer Description: CRAN Package 'orderanalyzer' (Extracting Order Position Tables from PDF-Based Order Documents) Functions for extracting text and tables from PDF-based order documents. 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Package: r-cran-orderbook Architecture: all Version: 1.03-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1084 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice, r-cran-hash Filename: pool/dists/focal/main/r-cran-orderbook_1.03-1.ca2004.1_all.deb Size: 462832 MD5sum: f0016185d38e0de77d37c2deca0c747e SHA1: d192b2aae19125b38b63704d8002036464b87e1c SHA256: 0422cd590ec9b590db0f866ad86235001d854325cd9fe7b73b3cdecc6c2706fa SHA512: 20d764a26563d2694a3dddb2eb2a8930fc5b6a735f875b50469c4011d28d24b9069a9fd73980c99cff7ea4487b80812237cad63a589e10a285a94203c047a103 Homepage: https://cran.r-project.org/package=orderbook Description: CRAN Package 'orderbook' (Orderbook visualization/Charting software) Functions for visualizing and retrieving data for the state of an orderbook at a particular period in time. Package: r-cran-ordering Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ordering_0.7.0-1.ca2004.1_all.deb Size: 21372 MD5sum: d061c54cbd7fab0ff27b8f536339f4c7 SHA1: 3c1fcede8db0b7a82fb360a5b494d0f815582f37 SHA256: d1b2810d55ce774ab677a76af01e7b37fe3620e0ef96c22aff9ff99436d5eca6 SHA512: 66566ea99d9d01ea3519152022c416b32b1543d45b268fb13b4a3975c4d6ff2e96f7ddafa392a0619927115fb4a9b54927d05f7b629c4f4250a562e525054379 Homepage: https://cran.r-project.org/package=ordering Description: CRAN Package 'ordering' (Test, Check, Verify, Investigate the Monotonic Properties ofVectors) Functions to test/check/verify/investigate the ordering of vectors. The 'is_[strictly_]*' family of functions test vectors for 'sorted', 'monotonic', 'increasing', 'decreasing' order; 'is_constant' and 'is_incremental' test for the degree of ordering. `ordering` provides a numeric indication of ordering -2 (strictly decreasing) to 2 (strictly increasing). Package: r-cran-orderly Architecture: all Version: 1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1335 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dbi, r-cran-r6, r-cran-rsqlite, r-cran-crayon, r-cran-digest, r-cran-docopt, r-cran-fs, r-cran-gert, r-cran-ids, r-cran-withr, r-cran-yaml, r-cran-zip Suggests: r-cran-httr, r-cran-jsonlite, r-cran-knitr, r-cran-markdown, r-cran-mockery, r-cran-processx, r-cran-rmarkdown, r-cran-testthat, r-cran-vaultr Filename: pool/dists/focal/main/r-cran-orderly_1.4.3-1.ca2004.1_all.deb Size: 920908 MD5sum: 79f510a986e649dffe9291a4efb4cb3e SHA1: d0242c27bbcd69279f742d4b5955d84a39f61318 SHA256: 00ff3f88e2002144a84420b2ddf5c924dd3ebdd15c9d9bb37b7a076d6cc31272 SHA512: 9905a8f534d1dd2a3e9cfac5c6c472741a2803cb7d7366dfbf21a1f3a146a6ca6e2222884ceb90de6eb54469f503e158ddae0e4e9a8eb47aae920cd304f7fa9e Homepage: https://cran.r-project.org/package=orderly Description: CRAN Package 'orderly' (Lightweight Reproducible Reporting) Order, create and store reports from R. By defining a lightweight interface around the inputs and outputs of an analysis, a lot of the repetitive work for reproducible research can be automated. We define a simple format for organising and describing work that facilitates collaborative reproducible research and acknowledges that all analyses are run multiple times over their lifespans. Package: r-cran-orders Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-newdistns, r-cran-gamlss.dist, r-cran-actuar, r-cran-vgam Filename: pool/dists/focal/main/r-cran-orders_0.1.8-1.ca2004.1_all.deb Size: 125660 MD5sum: 6a66ba70733adfca2e8ec46c1188adb0 SHA1: 8d12ccca79d7ec1a662e34ad4c0a06af627bbfc3 SHA256: 23d15a4607afc6f00b605e6379ebfeb3654c33bd97c7e409b46663d214b7b32e SHA512: 749b8d82c14b9a100af59871f2e829bb1e1ba6b5cd1dd95bb4d28dbd4723d1c8b649070dc1d9ef2d80d49d56d53bd8596daafb04ca754b043644c9b1549c821f Homepage: https://cran.r-project.org/package=orders Description: CRAN Package 'orders' (Sampling from k-th Order Statistics of New Families ofDistributions) Set of tools to generate samples of k-th order statistics and others quantities of interest from new families of distributions. The main references for this package are: C. Kleiber and S. Kotz (2003) Statistical size distributions in economics and actuarial sciences; Gentle, J. (2009), Computational Statistics, Springer-Verlag; Naradajah, S. and Rocha, R. (2016), and Stasinopoulos, M. and Rigby, R. (2015), . The families of distributions are: Benini distributions, Burr distributions, Dagum distributions, Feller-Pareto distributions, Generalized Pareto distributions, Inverse Pareto distributions, The Inverse Paralogistic distributions, Marshall-Olkin G distributions, exponentiated G distributions, beta G distributions, gamma G distributions, Kumaraswamy G distributions, generalized beta G distributions, beta extended G distributions, gamma G distributions, gamma uniform G distributions, beta exponential G distributions, Weibull G distributions, log gamma G I distributions, log gamma G II distributions, exponentiated generalized G distributions, exponentiated Kumaraswamy G distributions, geometric exponential Poisson G distributions, truncated-exponential skew-symmetric G distributions, modified beta G distributions, exponentiated exponential Poisson G distributions, Poisson-inverse gaussian distributions, Skew normal type 1 distributions, Skew student t distributions, Singh-Maddala distributions, Sinh-Arcsinh distributions, Sichel distributions, Zero inflated Poisson distributions. Package: r-cran-orderstats Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-orderstats_0.1.0-1.ca2004.1_all.deb Size: 23192 MD5sum: 92c96aed57852bb75e9ac41c0aa90e4f SHA1: ade65dbfe75b5a95c868585e8f041847d1d25803 SHA256: 7ae6c7c546fd3eb1c6af42617887017c9dad60c4c3eebfe051e5b127229c4684 SHA512: 4dae0b652f786d78b5bc04f10461e491cd9004a71a337f276afe704efc699cca2fe4bba0f6a8be2d170462f178284521fe134be2b2038d2688a0d6deb858ae75 Homepage: https://cran.r-project.org/package=orderstats Description: CRAN Package 'orderstats' (Efficiently Generates Random Order Statistic Variables) All the methods in this package generate a vector of uniform order statistics using a beta distribution and use an inverse cumulative distribution function for some distribution to give a vector of random order statistic variables for some distribution. This is much more efficient than using a loop since it is directly sampling from the order statistic distribution. Package: r-cran-ordfacreg Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-eha, r-cran-mass Filename: pool/dists/focal/main/r-cran-ordfacreg_1.0.6-1.ca2004.1_all.deb Size: 73588 MD5sum: 89926e8d3a7903ba5c99364f78aca332 SHA1: f06ed25a0605f728d587d5fd039c6a2c480ba808 SHA256: cab74141c0f7114c8df331b980f6de1ad5f7734b3d9cded49652f3e0ca74eb4b SHA512: 109b1b4f200f998c4d5816e39d26573a25a7248dea26c211edd7abac185e3ba0b87e65d7c09298e355eecbd45532d0f950e4495835191a4f7ce60de4017ec78d Homepage: https://cran.r-project.org/package=OrdFacReg Description: CRAN Package 'OrdFacReg' (Least Squares, Logistic, and Cox-Regression with OrderedPredictors) In biomedical studies, researchers are often interested in assessing the association between one or more ordinal explanatory variables and an outcome variable, at the same time adjusting for covariates of any type. The outcome variable may be continuous, binary, or represent censored survival times. In the absence of a precise knowledge of the response function, using monotonicity constraints on the ordinal variables improves efficiency in estimating parameters, especially when sample sizes are small. This package implements an active set algorithm that efficiently computes such estimators. Package: r-cran-ordgam Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2267 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cubicbsplines, r-cran-matrix, r-cran-mgcv, r-cran-marqlevalg, r-cran-sn, r-cran-mass, r-cran-numderiv, r-cran-ucminf Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ordgam_0.9.1-1.ca2004.1_all.deb Size: 1308348 MD5sum: 4c8e95d1eb61177cbef49a084af534eb SHA1: c1f2560f8242edd8887be1d5de9d3b9b7fd86b01 SHA256: ce6abb6c0f1107a8a7b4c871cbbc96fb3e98a84a9de65c9b7f2e84cfb1aba5f3 SHA512: d522c549ff9f210f8470cabd7adccb4e9978933fcae4fd95ee33262d9796b05b0a429f322929fb3b9f6373c9d239e3e8ee4603b34fb288734ff00991ad87bb51 Homepage: https://cran.r-project.org/package=ordgam Description: CRAN Package 'ordgam' (Additive Model for Ordinal Data using Laplace P-Splines) Additive proportional odds model for ordinal data using Laplace P-splines. The combination of Laplace approximations and P-splines enable fast and flexible inference in a Bayesian framework. Specific approximations are proposed to account for the asymmetry in the marginal posterior distributions of non-penalized parameters. For more details, see Lambert and Gressani (2023) ; Preprint: ). Package: r-cran-ordibreadth Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vegan Filename: pool/dists/focal/main/r-cran-ordibreadth_1.0-1.ca2004.1_all.deb Size: 73572 MD5sum: 61b1917de17f276e771799234538090c SHA1: b65c6eb4d0a43f13a6aa1f93f43e6eaef281a8e8 SHA256: 54f4cfa4e9da650a472cf12fa6ce54da03676ea0a443d08a7ed13b1e65e1fe79 SHA512: 814170fd2d2a165457fc93e2b4eec2ec61443964d0eae96b9f81c62b654365032fe0b0864ef51ceb3f22cf69d9e572b97dce515d8b1a65acd4a158e1c4e0ef54 Homepage: https://cran.r-project.org/package=ordiBreadth Description: CRAN Package 'ordiBreadth' (Ordinated Diet Breadth) Calculates ordinated diet breadth with some plotting functions. Package: r-cran-ordinalbayes Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4392 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-deseq2, r-bioc-summarizedexperiment, r-cran-coda, r-cran-dclone, r-cran-runjags Suggests: r-cran-knitr, r-bioc-biobase, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ordinalbayes_0.1.2-1.ca2004.1_all.deb Size: 4329864 MD5sum: edae1ebcd894774c17615593d203bc45 SHA1: 8170587bbae119d91a171383bba63c119f1c75d3 SHA256: 0cc9fa8fcb90abbc4b6ce22fd0b96dbdb1fc389e819c83c435db0c977f6bf9a4 SHA512: 851d25f2d8158317b80c541215473e5b1f0d2079de97d114a067b6713279ffa9d83f6598215196fe7c676b1cfa2c6e581cccf0c72b822cd1aa18e8960c87b51e Homepage: https://cran.r-project.org/package=ordinalbayes Description: CRAN Package 'ordinalbayes' (Bayesian Ordinal Regression for High-Dimensional Data) Provides a function for fitting various penalized Bayesian cumulative link ordinal response models when the number of parameters exceeds the sample size. These models have been described in Zhang and Archer (2021) . Package: r-cran-ordinalcont Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 254 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-boot, r-cran-deriv Filename: pool/dists/focal/main/r-cran-ordinalcont_2.0.2-1.ca2004.1_all.deb Size: 220420 MD5sum: 5ec0be5a8678b26b1bc0d3597c70d5f5 SHA1: 736acef2d7556506ab2329522d37a49db18966b1 SHA256: 41f3fafa95e715d728546e2b3cb0dfdb9bbddc08e72fb2b2f6d63ffa230a422f SHA512: c45655b56bb508442d923d2f7d619a2d7743e7e2e19d53d0bd0ea61f4be0fa41f23b9d02d784fddce98a61e3dd9fcf4babfaf9c4210144ed5f28a5b09843d7b7 Homepage: https://cran.r-project.org/package=ordinalCont Description: CRAN Package 'ordinalCont' (Ordinal Regression Analysis for Continuous Scales) A regression framework for response variables which are continuous self-rating scales such as the Visual Analog Scale (VAS) used in pain assessment, or the Linear Analog Self-Assessment (LASA) scales in quality of life studies. These scales measure subjects' perception of an intangible quantity, and cannot be handled as ratio variables because of their inherent non-linearity. We treat them as ordinal variables, measured on a continuous scale. A function (the g function) connects the scale with an underlying continuous latent variable. The link function is the inverse of the CDF of the assumed underlying distribution of the latent variable. A variety of link functions are currently implemented. Such models are described in Manuguerra et al (2020) . Package: r-cran-ordinallbm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-ordinallbm_1.0-1.ca2004.1_all.deb Size: 54548 MD5sum: 2fd4b71e170a886ca269504cbe975965 SHA1: dc6b03bb753b883589749316bafe2dee53efcbf5 SHA256: 6f6f418c999ddc3a0034d96ba2e7d75695c4c3aa00e7b67eb8abf9fd34841757 SHA512: 45ce743f53713d3a34d7bb2aa8624304926774fcf891a1ccf1078ede5af0e5761c2fb830c7b48236e863263dd774feccc74438ea87d0eb109c64cadf4e6cd434 Homepage: https://cran.r-project.org/package=ordinalLBM Description: CRAN Package 'ordinalLBM' (Co-Clustering of Ordinal Data via Latent Continuous RandomVariables) It implements functions for simulation and estimation of the ordinal latent block model (OLBM), as described in Corneli, Bouveyron and Latouche (2019). Package: r-cran-ordinallogisticbiplot Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mirt, r-cran-mass, r-cran-nominallogisticbiplot Filename: pool/dists/focal/main/r-cran-ordinallogisticbiplot_0.4-1.ca2004.1_all.deb Size: 169424 MD5sum: f6b75dd3f4f9abc458df0483785e7049 SHA1: 5a1ace1c1ce1a55c463d129ab0f742dacef33cd6 SHA256: 1622aba34ab8dc5a9f421cd170fe0fe748ce3b7ef7fd244150bdc2ab44b86da5 SHA512: bd603cfc48c00e157758ac638ce068f59d175b567f24c385ddb66c89570aa253190de0a504c3711f6c5a56f2af54d6ae0432423f5625c57b473caf284213face Homepage: https://cran.r-project.org/package=OrdinalLogisticBiplot Description: CRAN Package 'OrdinalLogisticBiplot' (Biplot representations of ordinal variables) Analysis of a matrix of polytomous items using Ordinal Logistic Biplots (OLB) The OLB procedure extends the binary logistic biplot to ordinal (polytomous) data. The individuals are represented as points on a plane and the variables are represented as lines rather than vectors as in a classical or binary biplot, specifying the points for each of the categories of the variable. The set of prediction regions is established by stripes perpendicular to the line between the category points, in such a way that the prediction for each individual is given by its projection into the line of the variable. Package: r-cran-ordinalnet Architecture: all Version: 2.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 149 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-mass, r-cran-glmnet, r-cran-penalized, r-cran-vgam, r-cran-rms Filename: pool/dists/focal/main/r-cran-ordinalnet_2.13-1.ca2004.1_all.deb Size: 118864 MD5sum: cc525a3258e0cb25906acbbf41c465a7 SHA1: e5d1d9fbb91298008ded0a2b15fd685111597557 SHA256: 3d2207e470e5a2fe750c7a4c75c25da51691b37ab0dd66951a20409f0820ce91 SHA512: 526110030ee4ad168ce331a82a7941de689944d93a6b0f0ceb9acc8d1acf50e53cb9d753bb43ae88352d2d01d5f8f20a11c5fbea54d4429ee9fb92249b13571b Homepage: https://cran.r-project.org/package=ordinalNet Description: CRAN Package 'ordinalNet' (Penalized Ordinal Regression) Fits ordinal regression models with elastic net penalty. Supported model families include cumulative probability, stopping ratio, continuation ratio, and adjacent category. These families are a subset of vector glm's which belong to a model class we call the elementwise link multinomial-ordinal (ELMO) class. Each family in this class links a vector of covariates to a vector of class probabilities. Each of these families has a parallel form, which is appropriate for ordinal response data, as well as a nonparallel form that is appropriate for an unordered categorical response, or as a more flexible model for ordinal data. The parallel model has a single set of coefficients, whereas the nonparallel model has a set of coefficients for each response category except the baseline category. It is also possible to fit a model with both parallel and nonparallel terms, which we call the semi-parallel model. The semi-parallel model has the flexibility of the nonparallel model, but the elastic net penalty shrinks it toward the parallel model. For details, refer to Wurm, Hanlon, and Rathouz (2021) . Package: r-cran-ordinalrr Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjags Filename: pool/dists/focal/main/r-cran-ordinalrr_1.1-1.ca2004.1_all.deb Size: 73828 MD5sum: a67990ee062636a8762a5f995e0566e0 SHA1: 4a3fb15fa16bf3821813a831485eec0e1dc262e7 SHA256: 591f01d6fcf69a283e2fbb47d5b122d6b575ac4f0709f9987c67660a83ac0154 SHA512: 593871e45214175e6e6294b47f101fb32099d2e4d2e1c65557ecde1284a268d1c0633bcfa0390e851e97e6fa6c6bc6da5eba122a76a3f2dba1caafcdae9c1379 Homepage: https://cran.r-project.org/package=ordinalRR Description: CRAN Package 'ordinalRR' (Analysis of Repeatability and Reproducibility Studies withOrdinal Measurements) Implements Bayesian data analyses of balanced repeatability and reproducibility studies with ordinal measurements. Model fitting is based on MCMC posterior sampling with 'rjags'. Function ordinalRR() directly carries out the model fitting, and this function has the flexibility to allow the user to specify key aspects of the model, e.g., fixed versus random effects. Functions for preprocessing data and for the numerical and graphical display of a fitted model are also provided. There are also functions for displaying the model at fixed (user-specified) parameters and for simulating a hypothetical data set at a fixed (user-specified) set of parameters for a random-effects rater population. For additional technical details, refer to Culp, Ryan, Chen, and Hamada (2018) and cite this Technometrics paper when referencing any aspect of this work. The demo of this package reproduces results from the Technometrics paper. Package: r-cran-ordinalsimr Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2021 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-assertthat, r-cran-bslib, r-cran-callr, r-cran-coin, r-cran-config, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-golem, r-cran-rhandsontable, r-cran-rlang, r-cran-rms, r-cran-shiny, r-cran-shinycssloaders, r-cran-shinywidgets, r-cran-tidyr, r-cran-withr Suggests: r-cran-knitr, r-cran-pkgload, r-cran-purrr, r-cran-rmarkdown, r-cran-testthat, r-cran-writexl Filename: pool/dists/focal/main/r-cran-ordinalsimr_0.2.2-1.ca2004.1_all.deb Size: 1879600 MD5sum: 535ce0c7c2658fda9d5b1b0ec4c33712 SHA1: 8c05b96413ddc88b062e8cbfc752515e019730f3 SHA256: e7722dfbd4a452f8bd03f18bf8e95d382a0ef0ba18464c8dabc4bfab9cd0fcd6 SHA512: a093403cfa8b7e60c5acc6c4d59212b4c3719d71ce78f0d6d95c2c7059c58cfe58951c3b40941b5f89db830a8e0dc54041635fa3881fc02201c01c33ce1c1bd9 Homepage: https://cran.r-project.org/package=ordinalsimr Description: CRAN Package 'ordinalsimr' (Compare Ordinal Endpoints Using Simulations) Simultaneously evaluate multiple ordinal outcome measures. Applied data analysts in particular are faced with uncertainty in choosing appropriate statistical tests for ordinal data. The included 'shiny' application allows users to simulate outcomes given different ordinal data distributions. Package: r-cran-ordmonreg Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ordmonreg_1.0.3-1.ca2004.1_all.deb Size: 87572 MD5sum: c1ada64c512c94818034b84efa1c0026 SHA1: d32dac80147bc07974e7f6a7ea689f0dffc6e836 SHA256: e0a987b48a7e68ee0976d693d8857a77151d40f343088a75fcdac82954131206 SHA512: ab82ad2d2e663e56add7d48d99ef2f00f61d8ecf2209d71dac2b302d2dab2db007cfc1557ad02481a417d471cb5465154274cbc1bf54c104eeddee4b7d15ec5f Homepage: https://cran.r-project.org/package=OrdMonReg Description: CRAN Package 'OrdMonReg' (Compute least squares estimates of one bounded or two orderedisotonic regression curves) We consider the problem of estimating two isotonic regression curves g1* and g2* under the constraint that they are ordered, i.e. g1* <= g2*. Given two sets of n data points y_1, ..., y_n and z_1, ..., z_n that are observed at (the same) deterministic design points x_1, ..., x_n, the estimates are obtained by minimizing the Least Squares criterion L(a, b) = sum_{i=1}^n (y_i - a_i)^2 w1(x_i) + sum_{i=1}^n (z_i - b_i)^2 w2(x_i) over the class of pairs of vectors (a, b) such that a and b are isotonic and a_i <= b_i for all i = 1, ..., n. We offer two different approaches to compute the estimates: a projected subgradient algorithm where the projection is calculated using a PAVA as well as Dykstra's cyclical projection algorithm. 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The details of the method are explained in Demirtas et al. (2015) . 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Package: r-cran-orkm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 472 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-matrix Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-orkm_1.0.0-1.ca2004.1_all.deb Size: 413888 MD5sum: f17def34f38a92ae3c0871e8dbbc6771 SHA1: 1a1791da9e783e68897ecb9637f73f5e1fe1544d SHA256: 4d470d444e2828165eb69f7cc942ce1bf7e5e0cc55b7365e45818b67803c9749 SHA512: 4d49ca069682da97dde15380e3af421888e97def84317edefb63dd2a971dc18e647931f4838dda49ee83c1c34ac637349fbc7732af98660fe3d80d763c14389c Homepage: https://cran.r-project.org/package=ORKM Description: CRAN Package 'ORKM' (The Online Regularized K-Means Clustering Algorithm) Algorithm of online regularized k-means to deal with online multi(single) view data. The philosophy of the package is described in Guo G. (2024) . Package: r-cran-orloca.es Architecture: all Version: 5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-orloca Filename: pool/dists/focal/main/r-cran-orloca.es_5.5-1.ca2004.1_all.deb Size: 89948 MD5sum: 0e09a7557212fcb491ba9bbefe5142ad SHA1: c5fa258e85e21e7f71b9db9ea007c30e597a6719 SHA256: ac921b834ff405feb4ac9b4c2fa2db670750b52e1c810ca29ff101628b041dc5 SHA512: 44381198834873d2675a555cd10f93a91263fe15f5a5f34413193ef86d4219d0b5c11fa7f05b15d3e8fcad9021b4cc3f61c57166a83d448eef5d66889d8c20a0 Homepage: https://cran.r-project.org/package=orloca.es Description: CRAN Package 'orloca.es' (Spanish version of orloca package. Modelos de localizacion eninvestigacion operativa) Help and demo in Spanish of the orloca package. Ayuda y demo en espanol del paquete orloca. Objetos y metodos para manejar y resolver el problema de localizacion de suma minima, tambien conocido como problema de Fermat-Weber. El problema de localizacion de suma minima busca un punto tal que la suma ponderada de las distancias a los puntos de demanda se minimice. Vease "The Fermat-Weber location problem revisited" por Brimberg, Mathematical Programming, 1, pag. 71-76, 1995. . Se usan algoritmos generales de optimizacion global para resolver el problema, junto con el metodo especifico Weiszfeld, vease "Sur le point pour lequel la Somme des distance de n points donnes est minimum", por Weiszfeld, Tohoku Mathematical Journal, First Series, 43, pag. 355-386, 1937 o "On the point for which the sum of the distances to n given points is minimum", por E. Weiszfeld y F. Plastria, Annals of Operations Research, 167, pg. 7-41, 2009. . 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The min-sum location problem search for a point such that the weighted sum of the distances to the demand points are minimized. See "The Fermat-Weber location problem revisited" by Brimberg, Mathematical Programming, 1, pg. 71-76, 1995. . General global optimization algorithms are used to solve the problem, along with the adhoc Weiszfeld method, see "Sur le point pour lequel la Somme des distances de n points donnes est minimum", by Weiszfeld, Tohoku Mathematical Journal, First Series, 43, pg. 355-386, 1937 or "On the point for which the sum of the distances to n given points is minimum", by E. Weiszfeld and F. Plastria, Annals of Operations Research, 167, pg. 7-41, 2009. . 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This package can convert microarray probe ID from GPL6864 , GPL8852 , and GPL2025 platforms to RAP-DB ID. RAP-DB "The Rice Annotation Project Database" is a well-known database for rice Oryza sativa, and the gene ID in this database is widely used in many areas related to rice research. For multiple probes representing a single gene, This package can merge them by taking the mean, max, or min value of these probes. Or we can keep multiple probes by appending sequence numbers to duplicate the RAP-DB ID. 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Package: r-cran-osmapir Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 705 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-httr2, r-cran-xml2 Suggests: r-cran-httptest2, r-cran-httpuv, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-testthat Filename: pool/dists/focal/main/r-cran-osmapir_0.2.3-1.ca2004.1_all.deb Size: 459192 MD5sum: 212f22f93dedb24382cee13a29e97be4 SHA1: 1c4b495572b3d31a123a7d2f829416370d2778f8 SHA256: 74ec7a2230a8098008102d28f7b38f7a44a7f3b3d8ea5b086b5db833b3723529 SHA512: e28bff682fe0ec1c8edaef6371ae9027e58e1cf1800062e43f31efe589c06192d01a12b4563064ebe5cb2afbe8d2dcc3085e2feeb729a4195796cefe459603f5 Homepage: https://cran.r-project.org/package=osmapiR Description: CRAN Package 'osmapiR' ('OpenStreetMap' API) Interface to 'OpenStreetMap API' for fetching and saving data from/to the 'OpenStreetMap' database (). 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Package: r-cran-osnmtf Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-osnmtf_0.1.0-1.ca2004.1_all.deb Size: 212784 MD5sum: 5edc74672ca92c032e4fb9032633bebd SHA1: 9498374d913200bcca861827c6d1cf45c72dd190 SHA256: b05579a6ea6ae60e3c0b46874170bec169d6a2736e07f0c3770d719f518a6907 SHA512: bfc11058e5c06dc0b0a380f0fcf1d0c978af1bb0116a31320c4f21cfe5b8d82c30ef2169018fc78d7bfcee9a98ccf0b1974d7053d380f46b130fe1df34699aab Homepage: https://cran.r-project.org/package=OSNMTF Description: CRAN Package 'OSNMTF' (Orthogonal Sparse Non-Negative Matrix Tri-Factorization) A novel method to implement cancer subtyping and subtype specific drug targets identification via non-negative matrix tri-factorization. To improve the interpretability, we introduce orthogonal constraint to the row coefficient matrix and column coefficient matrix. To meet the prior knowledge that each subtype should be strongly associated with few gene sets, we introduce sparsity constraint to the association sub-matrix. The average residue was introduced to evaluate the row and column cluster numbers. This is part of the work "Liver Cancer Analysis via Orthogonal Sparse Non-Negative Matrix Tri- Factorization" which will be submitted to BBRC. Package: r-cran-osrm Architecture: all Version: 4.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 562 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcppsimdjson, r-cran-curl, r-cran-mapiso, r-cran-googlepolylines, r-cran-sf Suggests: r-cran-mapsf, r-cran-tinytest, r-cran-covr Filename: pool/dists/focal/main/r-cran-osrm_4.2.0-1.ca2004.1_all.deb Size: 352864 MD5sum: 012090c6a8a91c2b8f3899a2d19972ac SHA1: c8c20d7f619953d14c77336509a8e3df2e0357ca SHA256: 9a78c458dd9fa74160df0745c4868b01e42ed9bd0afdd91844cef07d581a0f79 SHA512: 0f1ee861f25b03341594fd64148cea1febc875dcf81fffc8087080d3a33435ba65c3d6ae282f6e8bab83feb6cd63ce3e543eba53aef6a3ce49572bd3246e4b9b Homepage: https://cran.r-project.org/package=osrm Description: CRAN Package 'osrm' (Interface Between R and the OpenStreetMap-Based Routing ServiceOSRM) An interface between R and the 'OSRM' API. 'OSRM' is a routing service based on 'OpenStreetMap' data. See for more information. This package enables the computation of routes, trips, isochrones and travel distances matrices (travel time and kilometric distance). Package: r-cran-osrmr Architecture: all Version: 0.1.36-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 173 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertthat, r-cran-bitops, r-cran-rjson, r-cran-r.utils, r-cran-stringr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-microbenchmark Filename: pool/dists/focal/main/r-cran-osrmr_0.1.36-1.ca2004.1_all.deb Size: 87700 MD5sum: f2f1cdfd67d4317e2e3611618ea9015c SHA1: 126a13f767b38d1332ccc11440f811d46a0da41e SHA256: f7e1614ec8dc9502d762fb95cf414088069fc940afe5ee3632a38a25df3758eb SHA512: 846faaa98246e40c1f03ec9c6273f938d0863060289423363412768ade4aa362e42b50eb7ce6d6644795148eda539abba7fd95821ccf0a18f8a7cbf3452eca37 Homepage: https://cran.r-project.org/package=osrmr Description: CRAN Package 'osrmr' (Wrapper for the 'OSRM' API) Wrapper around the 'Open Source Routing Machine (OSRM)' API . 'osrmr' works with API versions 4 and 5 and can handle servers that run locally as well as the 'OSRM' webserver. Package: r-cran-ossanma Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-nlcoptim, r-cran-deoptimr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-netmeta Filename: pool/dists/focal/main/r-cran-ossanma_0.1.2-1.ca2004.1_all.deb Size: 35444 MD5sum: c437a06f7d587bb77d41c06ff73e0b18 SHA1: 5fd41ace8d085423983992a15dd05ed4b3a6d2d4 SHA256: f5cc6eb0c90ee1097f1dea66f5467792c95655e8a5cca68c3a78f5c9d18c04f8 SHA512: a937f6a76b4c6c2f93b2896422390a42ee552092447127b28aff1f7c9235afb83377b4311c284a668cd80b3ce57c854ac9994d64a6d39d0d98a2411e7e7ca93c Homepage: https://cran.r-project.org/package=OssaNMA Description: CRAN Package 'OssaNMA' (Optimal Sample Size and Allocation with a Network Meta-Analysis) A system for calculating the minimum total sample size needed to achieve a prespecified power or the optimal allocation for each treatment group with a fixed total sample size to maximize the power. Package: r-cran-ossurvival Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ossurvival_1.0-1.ca2004.1_all.deb Size: 85576 MD5sum: 03fb27877d539ae7421dce752ffe9f2b SHA1: 1d7e48b1f115ace6e2b429967084afd422cc0312 SHA256: daf171da5b88afeb1ef7dd99bd8974d90a05175c17a9c19190c735f00c9fe8b7 SHA512: 513fabcf055ba1afea7bc374a3516afe0eecd8db222e547d9bb22eea560ca37c362de1d0b5b6a0ad10a7bb8ecf3aba786612379c1f8627a4f99a2e514862af83 Homepage: https://cran.r-project.org/package=OSsurvival Description: CRAN Package 'OSsurvival' (Assessing Surrogacy with a Censored Outcome) Identifies the optimal transformation of a surrogate marker and estimates the proportion of treatment explained (PTE) by the optimally-transformed surrogate at an earlier time point when the primary outcome of interest is a censored time-to-event outcome; details are described in Wang et al (2021) . Package: r-cran-ostats Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 876 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-sfsmisc, r-cran-matrixstats, r-cran-circular, r-cran-hypervolume, r-cran-ggplot2, r-cran-gridextra, r-cran-viridis, r-cran-mass Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ostats_0.2.0-1.ca2004.1_all.deb Size: 574044 MD5sum: 3039b8ccccf5121de17e472aee1522da SHA1: 1ce31ff8847131b5f28a6bc662963fe2ec4a6619 SHA256: c72a1c1139607a9212205f67855086ebaea60fa148e6274b7e90f62cb980c6a0 SHA512: 31fd4b2d66ecca532b0ca8379294805478ce76df2ded9b13b3e0fed2ecd25e88b5e320c8484a88d773fa294a0b85fa6a05d1d95a6d9011b613bdf2181ac89fa1 Homepage: https://cran.r-project.org/package=Ostats Description: CRAN Package 'Ostats' (O-Stats, or Pairwise Community-Level Niche Overlap Statistics) O-statistics, or overlap statistics, measure the degree of community-level trait overlap. They are estimated by fitting nonparametric kernel density functions to each species’ trait distribution and calculating their areas of overlap. For instance, the median pairwise overlap for a community is calculated by first determining the overlap of each species pair in trait space, and then taking the median overlap of each species pair in a community. This median overlap value is called the O-statistic (O for overlap). The Ostats() function calculates separate univariate overlap statistics for each trait, while the Ostats_multivariate() function calculates a single multivariate overlap statistic for all traits. O-statistics can be evaluated against null models to obtain standardized effect sizes. 'Ostats' is part of the collaborative Macrosystems Biodiversity Project "Local- to continental-scale drivers of biodiversity across the National Ecological Observatory Network (NEON)." For more information on this project, see the Macrosystems Biodiversity Website (). Calculation of O-statistics is described in Read et al. (2018) , and a teaching module for introducing the underlying biological concepts at an undergraduate level is described in Grady et al. (2018) . Package: r-cran-oste Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ranger, r-cran-pec, r-cran-survival, r-cran-prodlim Filename: pool/dists/focal/main/r-cran-oste_1.0-1.ca2004.1_all.deb Size: 35184 MD5sum: fece984c747b6b02392e2d1d2837443e SHA1: 6aacdfbdce41d1ebf6d2fff2acb188b458543507 SHA256: 100074e9cc8a083b4509026367fb33dc4ad350e439fb075a7b3f8d8ccdc3d898 SHA512: b30040b3cb20975590e60109ee70aabd215814f3484026d2697b2bbc6db09c81f1ce9139935640a65c1f6ef945d7f25d40eb3c13b60f12fdef6d7f4cf4f59259 Homepage: https://cran.r-project.org/package=OSTE Description: CRAN Package 'OSTE' (Optimal Survival Trees Ensemble) Function for growing survival trees ensemble ('Naz Gul', 'Nosheen Faiz', 'Dan Brawn', 'Rafal Kulakowski', 'Zardad Khan', and 'Berthold Lausen' (2020) ) is given. The trees are grown by the method of random survival forest ('Marvin Wright', 'Andreas Ziegler' (2017) ). The survival trees grown are assessed for both individual and collective performances. The ensemble can give promising results on fewer survival trees selected in the final ensemble. 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Various filtering and sorting options are also proposed. Package: r-cran-ot Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ot_0.2.0-1.ca2004.1_all.deb Size: 23564 MD5sum: dfd35437fe942544fd605371939440fb SHA1: 624e2557ed9e2bdea3f0439f4cf849a838f2a9ed SHA256: 17ccd2fee48fef2e6f286e2d2cdd1533b79ffcb490d228a680304430fc5860b1 SHA512: fe03236e09a1e0884e0521ed7bf86e249d239ff89f3be332f8c93f91234fb3e400573c1d8a6a2626bb517a41a8104f389b6646b08994cdf53e8a5cf9ef0a81dc Homepage: https://cran.r-project.org/package=ot Description: CRAN Package 'ot' ('Open Tracing') 'Open Tracing' allows developers to add instrumentation to their application code using interfaces that are vendor-agnostic. This is used to monitor services, triage failures and find performance bottlenecks, among other things. 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Package: r-cran-otargen Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 934 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ghql, r-cran-janitor, r-cran-ggiraphextra, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-ggrepel, r-cran-jsonlite, r-cran-rlang, r-cran-magrittr, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-otargen_1.1.5-1.ca2004.1_all.deb Size: 903472 MD5sum: e7c9f3797c8c0bb7a38aeb20cc35537c SHA1: 7aeeb5066c820e71974d978fec59c1243dea98d6 SHA256: a7c836c5c933659d1024e73550707ed6c3d9b155172e360b15b61ed2cb5aff00 SHA512: f2c33fbf695827cd62ac3b103494a167fd0f464fd69806378fe3c23556b9bcef25aa19b4071bb38db9894a373476da1af1ed74fad9fffd4db4415e867cb0bd30 Homepage: https://cran.r-project.org/package=otargen Description: CRAN Package 'otargen' (Access Open Target Genetics) Interact seamlessly with Open Target Genetics' GraphQL endpoint to query and retrieve tidy data tables, facilitating the analysis of genetic data. For more information about the Open Target Genetics API (). Package: r-cran-otbsegm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1597 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-terra, r-cran-link2gi Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-otbsegm_0.1.0-1.ca2004.1_all.deb Size: 1574228 MD5sum: 1929fc32b82b1286d1e22eb8b676d06d SHA1: b2ae8c5564081173c53492fc7ed699e02d4726ce SHA256: c47ccfda3454658ad7c1853de3f4eba3ac082197a02db221cd806bd8426f23f4 SHA512: 20bfb961dc0cd5307b6032939b5427f28ea8caf577ce571c920b5b8ec0257567cd4ac30ecd4d2baacddc0fa0048cb0affad2e7f5be738369c17ec6c5c6c7491b Homepage: https://cran.r-project.org/package=OTBsegm Description: CRAN Package 'OTBsegm' (Apply Unsupervised Segmentation Algorithms from 'OTB') Apply unsupervised segmentation algorithms included in 'Orfeo ToolBox' software (), such as mean shift or watershed segmentation. Package: r-cran-ote Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-ote_1.0.1-1.ca2004.1_all.deb Size: 83608 MD5sum: 3ea081d6351d5d71f9ab1d627f4f92e6 SHA1: 294281af939cf2f45cdd250852e406de611effd2 SHA256: 44d4fa899a8661952e4cfb983621d44e2530e1c86a900b0f3e7968547a58a554 SHA512: 0872c9dfc314041824c042a9763b0eaa3e116390c1c04c15475ac22ae5354d20251d8a994941ae8ad05ac032f8f0b3fdba44c11a698e073465f61fe0475f12a9 Homepage: https://cran.r-project.org/package=OTE Description: CRAN Package 'OTE' (Optimal Trees Ensembles for Regression, Classification and ClassMembership Probability Estimation) Functions for creating ensembles of optimal trees for regression, classification (Khan, Z., Gul, A., Perperoglou, A., Miftahuddin, M., Mahmoud, O., Adler, W., & Lausen, B. (2019). (2019) ) and class membership probability estimation (Khan, Z, Gul, A, Mahmoud, O, Miftahuddin, M, Perperoglou, A, Adler, W & Lausen, B (2016) ) are given. A few trees are selected from an initial set of trees grown by random forest for the ensemble on the basis of their individual and collective performance. Three different methods of tree selection for the case of classification are given. The prediction functions return estimates of the test responses and their class membership probabilities. Unexplained variations, error rates, confusion matrix, Brier scores, etc. are also returned for the test data. 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Queries are submitted to the relevant 'OpenTripPlanner' API resource, the response is parsed and useful R objects are returned. 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From two databases with no overlapping part except a subset of shared variables, the functions of the package assist users until obtaining a unique synthetic database, where the missing information is fully completed. Package: r-cran-otrimle Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-foreach, r-cran-doparallel, r-cran-robustbase, r-cran-mclust Filename: pool/dists/focal/main/r-cran-otrimle_2.0-1.ca2004.1_all.deb Size: 185980 MD5sum: dfa2c5f6c88b295136aa236574b61253 SHA1: 81feee639dd9383b3e425ddcce2074dd8650f261 SHA256: 2c42e7a7c5729bc51c3c1321f08f9f05107e54b6854dbe72fe9d5dfb1368cbf9 SHA512: 9506af8c9e1d96b7faefa72edaa47fd2beea0ee22458d875620a7bb241bb6bc081c9ea945b9289e911e823687cfa18799d35106c6aa2a4bea7154257a5fc2419 Homepage: https://cran.r-project.org/package=otrimle Description: CRAN Package 'otrimle' (Robust Model-Based Clustering) Performs robust cluster analysis allowing for outliers and noise that cannot be fitted by any cluster. The data are modelled by a mixture of Gaussian distributions and a noise component, which is an improper uniform distribution covering the whole Euclidean space. Parameters are estimated by (pseudo) maximum likelihood. This is fitted by a EM-type algorithm. See Coretto and Hennig (2016) , and Coretto and Hennig (2017) . Package: r-cran-otrkm Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rgenoud, r-cran-survival Filename: pool/dists/focal/main/r-cran-otrkm_0.2.1-1.ca2004.1_all.deb Size: 94656 MD5sum: 498724fd5e657136fd96837a98c92f9e SHA1: ae05790a6ae823e3fcae18288de606216d4e662a SHA256: 78805d650fc27c009887dad1eec80676e7c0f16340359614f6030628045afc3d SHA512: 11580bfde1fc1dfe4d3c2959dc1db54403f1a483f2d0fc4e3d76bebaf5f7f913d858b7c9e4d96c98316792c9de05e43449cca941061566da78e163a14cdc16c7 Homepage: https://cran.r-project.org/package=otrKM Description: CRAN Package 'otrKM' (Optimal Treatment Regimes in Survival Contexts withKaplan-Meier-Like Estimators) Provide methods for estimating optimal treatment regimes in survival contexts with Kaplan-Meier-like estimators when no unmeasured confounding assumption is satisfied (Jiang, R., Lu, W., Song, R., and Davidian, M. (2017) ) and when no unmeasured confounding assumption fails to hold and a binary instrument is available (Xia, J., Zhan, Z., Zhang, J. (2022) ). Package: r-cran-otrselect Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lars, r-cran-survival Filename: pool/dists/focal/main/r-cran-otrselect_1.3-1.ca2004.1_all.deb Size: 43124 MD5sum: 70352eff5b5c70cfeaa5423d7a5ebc9f SHA1: acbf6d25b066b2109d72f8ecdac9ee82da1d4f99 SHA256: f397949cab5f77940dba6d5253913067f8e70a586aef7cb7fc0a1842093aae1d SHA512: f79363c744f1298c98e0be969b0c5a0b33b79bc1ce10e5587a1b3c2ef4f85953cda4d3dbfce01bc60c980e9cc63908c26badf69c56ad39d1f33bcca18cc2c250 Homepage: https://cran.r-project.org/package=OTRselect Description: CRAN Package 'OTRselect' (Variable Selection for Optimal Treatment Decision) A penalized regression framework that can simultaneously estimate the optimal treatment strategy and identify important variables. Appropriate for either censored or uncensored continuous response. Package: r-cran-otsad Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2751 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plotly, r-cran-sigmoid, r-cran-reticulate Suggests: r-cran-testthat, r-cran-stream, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-otsad_0.2.0-1.ca2004.1_all.deb Size: 1701708 MD5sum: 83ec3b153c523301c2c23ecb8f4ee58b SHA1: e53bc8320646e3f76e31e0444294dc18093ee95e SHA256: 50a09bb84e239010d822d06bc9639919f1dbabec5c47eccf4b98436ae2dad52a SHA512: 131c99b52baab9ae4a094519fd9fcd97f692e0d43172db0eb4aa8dbe76977aed8a3d39773c66b6f4f500e92aeec342813391005012b72a76aed7377377d0b7f0 Homepage: https://cran.r-project.org/package=otsad Description: CRAN Package 'otsad' (Online Time Series Anomaly Detectors) Implements a set of online fault detectors for time-series, called: PEWMA see M. Carter et al. (2012) , SD-EWMA and TSSD-EWMA see H. Raza et al. (2015) , KNN-CAD see E. Burnaev et al. (2016) , KNN-LDCD see V. Ishimtsev et al. (2017) and CAD-OSE see M. Smirnov (2018) . The first three algorithms belong to prediction-based techniques and the last three belong to window-based techniques. In addition, the SD-EWMA and PEWMA algorithms are algorithms designed to work in stationary environments, while the other four are algorithms designed to work in non-stationary environments. Package: r-cran-otsfeatures Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 347 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-astsa, r-cran-latex2exp, r-cran-rdpack, r-cran-bolstad2 Filename: pool/dists/focal/main/r-cran-otsfeatures_1.0.0-1.ca2004.1_all.deb Size: 312816 MD5sum: 83e0ce4fdbd5e28c5f483acdf0b2cd92 SHA1: 102ef83b1a13f9c641d3e811a37569a991fb904f SHA256: 003c1f198e09779663a1f9340c1c88ddae253258908d5a11aa77b03e5de3e5ce SHA512: 450eee127ce7a289022619a06d2c213c181931683b959e9ec3da8880d460592858de7f25991985d10e6e332431ccd0d1afbb0e281e51906b1ca1b7063912a443 Homepage: https://cran.r-project.org/package=otsfeatures Description: CRAN Package 'otsfeatures' (Ordinal Time Series Analysis) An implementation of several functions for feature extraction in ordinal time series datasets. Specifically, some of the features proposed by Weiss (2019) can be computed. 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Package: r-cran-otsufire Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 232 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-gdalutilities, r-cran-glue, r-cran-purrr, r-cran-raster, r-cran-sf, r-cran-stringr, r-cran-terra, r-cran-magrittr, r-cran-tidyr, r-cran-rlang, r-cran-otsuseg Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-otsufire_0.1.4-1.ca2004.1_all.deb Size: 205468 MD5sum: ab91c2c9001e22d369397ed736cde553 SHA1: a3fbd8491252591913e919006f5aa86feeaf4c5d SHA256: ffd4a4cfabdca5404a76d97333ae1c1955dc6c7641db33793b9f966001b8d654 SHA512: 684f77b5e1bb5c70eb455b3a4c652714240f05f4c8442bb8d56ea60864f11cfba3218e36209dbfcd85f6e1b03614ebb81e2f05d0ab5b0a9e667d85cd1e2ea2d4 Homepage: https://cran.r-project.org/package=OtsuFire Description: CRAN Package 'OtsuFire' (Fire Scars, Severity and Regeneration Mapping Using 'Otsu'Thresholding) Tools to segment fire scars and assess severity and vegetation regeneration using 'Otsu' thresholding on Relative Burn Ratio (RBR) and differenced Normalized Burn Ratio (dNBR) image composites. 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Implements the method described by Otsu (1979) , a data-driven technique that determines an optimal threshold by maximizing the inter-class variance of pixel intensities. It includes validation functions to assess segmentation accuracy against reference data using standard accuracy metrics such as precision, recall, and F1-score. Package: r-cran-ottr Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 244 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite, r-cran-testthat, r-cran-r6, r-cran-zip Suggests: r-cran-irdisplay, r-cran-mockery, r-cran-rmarkdown, r-cran-stringr, r-cran-withr, r-cran-irkernel Filename: pool/dists/focal/main/r-cran-ottr_1.5.1-1.ca2004.1_all.deb Size: 195060 MD5sum: 423fa8389f8b655da95ee3b20cc5ac58 SHA1: f127607f1b294c043274ebb796b5ae3dd3ff2870 SHA256: ea62313c2e7c213adb0a6fcfccce56ac73635d3a49e66800a8b5976dadd8a9d0 SHA512: 37a8bdacdf911cbd037b288031eb0e4b54fb34dfee25524ca33244b68f0d31357ec64e38d31e2e66bbcb6f89b7d6b35ddee5b37bd76948e31169f9e85e01f059 Homepage: https://cran.r-project.org/package=ottr Description: CRAN Package 'ottr' (An R Autograding Extension for Otter-Grader) An R autograding extension for Otter-Grader (). It supports grading R scripts, R Markdown documents, and R Jupyter Notebooks. 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The rare biosphere in this package is subset by the relative abundance threshold (for details about rare biosphere please see Lynch and Neufeld (2015) ). 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The package’s main function, combined_dataset(), allows the user to choose whether the returned data set includes assessment, demographics, virtual learning environment (VLE), or registration variables etc. Package: r-cran-outbreaks Architecture: all Version: 1.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1399 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-covr, r-cran-ape, r-cran-incidence Filename: pool/dists/focal/main/r-cran-outbreaks_1.9.0-1.ca2004.1_all.deb Size: 1307556 MD5sum: d6e55b5a0e591715351be7822b755088 SHA1: a3c07b1250a2d09a153de0854f6b411b9ec44b94 SHA256: 03d5f138b0405397a4859493c47bfca9007e81b224924329f43abb48d99ffb34 SHA512: fef34221b5058f07746dcb5a1c898e72479cfce734c672e7c3a4a6fb97ad0641ed725430ab2c5d03cb3bd55c4239a2e8f094fa48c540cd3d851e816dc47a3768 Homepage: https://cran.r-project.org/package=outbreaks Description: CRAN Package 'outbreaks' (A Collection of Disease Outbreak Data) Empirical or simulated disease outbreak data, provided either as RData or as text files. 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It works as follows: Each numeric variable is regressed onto all other variables by a random forest. If the scaled absolute difference between observed value and out-of-bag prediction of the corresponding random forest is suspiciously large, then a value is considered an outlier. The package offers different options to replace such outliers, e.g. by realistic values found via predictive mean matching. Once the method is trained on a reference data, it can be applied to new data. 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The optimal number of outliers is chosen based on the dissimilarity between the theoretical and observed distributions of the scaled squared sample Mahalanobis distances. Also includes an extension for Gaussian linear cluster-weighted models using the distribution of studentized residuals. Doherty, McNicholas, and White (2025) . Package: r-cran-outliers.ts.oga Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-forecast, r-cran-gsarima, r-cran-parallelly, r-cran-robust, r-cran-slbdd Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-outliers.ts.oga_1.0.1-1.ca2004.1_all.deb Size: 59472 MD5sum: 2d1f91f5f96f4e9e6de0c073ca4b0e41 SHA1: 4ad9a8f7ed4928d423afba78edd569351a925d68 SHA256: 8afe89b6fe07152780f39764eaca28aace0a75373491d3dc898c2f17567aa145 SHA512: 4dbc474a1864234508260bf34eff2ddb0a6b7761188cbfb088e7a5df853879af847cfa76823380522f8ca26c602b8ffc1d123cb153d91efe8945df2e067193b7 Homepage: https://cran.r-project.org/package=outliers.ts.oga Description: CRAN Package 'outliers.ts.oga' (Efficient Outlier Detection for Large Time Series Databases) Programs for detecting and cleaning outliers in single time series and in time series from homogeneous and heterogeneous databases using an Orthogonal Greedy Algorithm (OGA) for saturated linear regression models. The programs implement the procedures presented in the paper entitled "Efficient Outlier Detection for Large Time Series Databases" by Pedro Galeano, Daniel Peña and Ruey S. Tsay (2025), working paper, Universidad Carlos III de Madrid. Version 1.0.1 contains some improvements to the algorithm, so the results may vary slightly compared to those obtained with version 0.0.1. Package: r-cran-outliers Architecture: all Version: 0.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-outliers_0.15-1.ca2004.1_all.deb Size: 83544 MD5sum: c26da4dac37c8cbde64c23fdc6052825 SHA1: 8e3ea4009b1926a7eed6d890e06c66ec39f1a687 SHA256: c7ecf04239496320da80e93a6349b05ff3cc7c9b2016c76de3cec183230b96b9 SHA512: b554cef4d3fac3bd68390d9927074c4847dd56ae82abc517db96d1698b3a0fc7548a3ad343eb8abd8a337b9bfd9d3d6532517a4aa1928f2a91f88ae70699584a Homepage: https://cran.r-project.org/package=outliers Description: CRAN Package 'outliers' (Tests for Outliers) A collection of some tests commonly used for identifying outliers. Package: r-cran-outlierslearn Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 317 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-outlierslearn_1.0.0-1.ca2004.1_all.deb Size: 94732 MD5sum: d6209d587d4851715672491503963081 SHA1: 4f1ee357813abeda4278e5f669035b2a41fee3ce SHA256: 9dbc5effaaad58d4956e3d6225085744da8f415b4515313b1eed6fb13dd9faf2 SHA512: 594117e723684507a676881683d179e9b2361e689992cab1e6143bc2764c804647e21f304fdf82cc5e35e884f06d9189fc1255fc7b387ff1c5853f7115ec7652 Homepage: https://cran.r-project.org/package=OutliersLearn Description: CRAN Package 'OutliersLearn' (Educational Outlier Package with Common Outlier DetectionAlgorithms) Provides implementations of some of the most important outlier detection algorithms. 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O3 plots are described in Unwin(2019) . The available methods are HDoutliers() from the package 'HDoutliers', FastPCS() from the package 'FastPCS', mvBACON() from 'robustX', adjOutlyingness() from 'robustbase', DectectDeviatingCells() from 'cellWise', covMcd() from 'robustbase'. Package: r-cran-outqrf Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 715 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ranger, r-cran-dplyr, r-cran-missranger, r-cran-ggpubr, r-cran-ggplot2, r-cran-tidyr Suggests: r-cran-renv, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-outqrf_1.0.0-1.ca2004.1_all.deb Size: 242264 MD5sum: a8c0d5633a030fc2ce9ce57a418bab6a SHA1: 3b7f62f2a687d5720780ed73c6280fe76efe6d35 SHA256: 2a55b12f91ad9dd4541b5fea1a4d39aee21e7389d4956b410c43c9f8f386c2c6 SHA512: 165f7259b3854c8424942e95b9128a7402f503ca4fde1c44b6280b399e2d485ec4ae72a8b0cc3afae2ea0b1858eaad9e7f81f3d0e73a067357efc8d59d4cd21b Homepage: https://cran.r-project.org/package=outqrf Description: CRAN Package 'outqrf' (Find the Outlier by Quantile Random Forests) Provides a method to find the outlier in custom data by quantile random forests method. Introduced by Meinshausen Nicolai (2006) . 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Beaulieu et al (2012). Package: r-cran-ovbsa Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-lmtest, r-cran-tidyr Suggests: r-cran-sensemakr Filename: pool/dists/focal/main/r-cran-ovbsa_2.0.0-1.ca2004.1_all.deb Size: 71440 MD5sum: 3b54e5cda3fed412ebf2f29f208dbdc3 SHA1: 8f97eb25ae4acfc51c28622958d21d1d9e3e2b89 SHA256: 83d0fd03db383547867518129bbe9dd77ea03082360929ae2e5dcb0fc2a66dd7 SHA512: 9a04e4c158bee7a7cb108193ab167b36cd0b257d0fa5ce29fa63d1e21dd33042d02493c8283c78b6d06e16cd60e10975dadb49edf589f196b60a909fb1978723 Homepage: https://cran.r-project.org/package=ovbsa Description: CRAN Package 'ovbsa' (Sensitivity Analysis of Omitted Variable Bias) Conduct sensitivity analysis of omitted variable bias in linear econometric models using the methodology presented in Basu (2025) . Package: r-cran-overdisp Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-overdisp_0.1.2-1.ca2004.1_all.deb Size: 16636 MD5sum: c0beb6f2d12f0260139b654f6bb897cd SHA1: 89b73fc23a2751ae5d3b630786ad01d581d0ea55 SHA256: ad31e5bafbd90723ce9ba8cc473fb03437b73f8a5809794e49ce39f15e336170 SHA512: 4d7610f226118396421a5edc8b50e66e4ea4ec00484809c68eeec550d52f414b7799770c9339b87fcadac5433fb6138aa567c912108ab4de70d605d1f083cfba Homepage: https://cran.r-project.org/package=overdisp Description: CRAN Package 'overdisp' (Overdispersion in Count Data Multiple Regression Analysis) Detection of overdispersion in count data for multiple regression analysis. Log-linear count data regression is one of the most popular techniques for predictive modeling where there is a non-negative discrete quantitative dependent variable. In order to ensure the inferences from the use of count data models are appropriate, researchers may choose between the estimation of a Poisson model and a negative binomial model, and the correct decision for prediction from a count data estimation is directly linked to the existence of overdispersion of the dependent variable, conditional to the explanatory variables. Based on the studies of Cameron and Trivedi (1990) and Cameron and Trivedi (2013, ISBN:978-1107667273), the overdisp() command is a contribution to researchers, providing a fast and secure solution for the detection of overdispersion in count data. Another advantage is that the installation of other packages is unnecessary, since the command runs in the basic R language. 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Package: r-cran-overlapptest Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1165 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spatstat.geom Suggests: r-cran-sf Filename: pool/dists/focal/main/r-cran-overlapptest_1.4-1.ca2004.1_all.deb Size: 975080 MD5sum: b722f87bf74a3553f88f9f94eea0d8d9 SHA1: edfef04e249c06c612363748f2de3dd358ce9eb1 SHA256: 8b0f203212d8e1044423c9813399e0a11719f9c9674356915e893e1e82a13188 SHA512: 4cbae88ebc7e6594dc9ae3487dbe65c1ed66c203e2f88cd39bf014778e406c169e8c466867d6ec190d280996e6c19efd5bf12873d371a8a069bff9ba54062d8b Homepage: https://cran.r-project.org/package=overlapptest Description: CRAN Package 'overlapptest' (Test Overlapping of Polygons Against Random Rotation) Tests the observed overlapping polygon area in a collection of polygons against a null model of random rotation, as explained in De la Cruz et al. (2017) . Package: r-cran-overture Architecture: all Version: 0.4-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bigmemory Suggests: r-cran-testthat, r-cran-mockery, r-cran-covr Filename: pool/dists/focal/main/r-cran-overture_0.4-0-1.ca2004.1_all.deb Size: 53012 MD5sum: 30bae26c6b885ebbba87acfab01cc775 SHA1: 3e945f978592d52d21ef53f497f4840ec0b270a8 SHA256: b244e11c6738aa3bf31b1bf9e60a126aaeb36be43602f4207e41071c2a994e35 SHA512: 169a7345ad65d019e2fda428dbc20cf9cfa01cf4b29217b68e2d67bc781ba016f04e3b0f45e7b0772ef0f8966b0ab949ab19b8653c321273164fc670a412a169 Homepage: https://cran.r-project.org/package=overture Description: CRAN Package 'overture' (Tools for Writing MCMC) Simplifies MCMC setup by automatically looping through sampling functions and saving the results. Reduces the memory footprint of running MCMC and saves samples to disk as the chain runs. Allows samples from the chain to be analyzed while the MCMC is still running. Provides functions for commonly performed operations such as calculating Metropolis acceptance ratios and creating adaptive Metropolis samplers. References: Roberts and Rosenthal (2009) . 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Package: r-cran-ovl.ci Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ks Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ovl.ci_0.1.0-1.ca2004.1_all.deb Size: 111280 MD5sum: c08d16e3c08bd7c9bd6d87f9561f7518 SHA1: e96b72e869958a6834807aaec3561d4f567e736f SHA256: ada431d58ed5c08971f2b7faa309f177ccb061d58173a4775157b0834be089c1 SHA512: 09b4aff4cc9648f72c3d997a7e9ef4a233f16e0df4f4b9ebd007666b5d117d5b756cf00a5c3e651838329f858fc88388f4834956986ae6fdd0ca94992ba20d21 Homepage: https://cran.r-project.org/package=OVL.CI Description: CRAN Package 'OVL.CI' (Inference on the Overlap Coefficient: The Binormal Approach andAlternatives) Provides functions to construct confidence intervals for the Overlap Coefficient (OVL). OVL measures the similarity between two distributions through the overlapping area of their distribution functions. Given its intuitive description and ease of visual representation by the straightforward depiction of the amount of overlap between the two corresponding histograms based on samples of measurements from each one of the two distributions, the development of accurate methods for confidence interval construction can be useful for applied researchers. Implements methods based on the work of Franco-Pereira, A.M., Nakas, C.T., Reiser, B., and Pardo, M.C. (2021) . 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Package: r-cran-owdbr Architecture: all Version: 1.0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-data.table, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-owdbr_1.0.1.1-1.ca2004.1_all.deb Size: 32644 MD5sum: 9b5ee5028dfc8ec3ed040486adadc09e SHA1: dc1aaf4678fa6506418751459a533d84507e00f1 SHA256: 98041b9f21a8ba22c0ec2a476ed089681160be4278e99afd37d59d36999ac9bf SHA512: b259d040f1446cf692bdc512be3feee70977bd6ab2ab61fb3b35025217e3b12003938d33d38f8fbba2ac0233d5ced6a75e35cab1be133e1f046112be21544c51 Homepage: https://cran.r-project.org/package=owdbr Description: CRAN Package 'owdbr' (Open Welfare Data Brazil) Tools for collecting municipal-level data from several Brazilian governmental social programs. 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Package: r-cran-pacta.multi.loanbook Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4074 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-config, r-cran-dplyr, r-cran-ggalluvial, r-cran-ggplot2, r-cran-ggrepel, r-cran-glue, r-cran-r2dii.analysis, r-cran-r2dii.data, r-cran-r2dii.match, r-cran-r2dii.plot, r-cran-readr, r-cran-readxl, r-cran-rlang, r-cran-scales, r-cran-tidyr, r-cran-yaml, r-cran-yesno Suggests: r-cran-diagrammer, r-cran-gt, r-cran-knitr, r-cran-pkgdown, r-cran-rmarkdown, r-cran-usethis, r-cran-testthat, r-cran-tibble, r-cran-withr, r-cran-writexl Filename: pool/dists/focal/main/r-cran-pacta.multi.loanbook_0.1.1-1.ca2004.1_all.deb Size: 1968072 MD5sum: 6ef58324c5a93210c48d78716c35416f SHA1: 7beae6b5d57066bcfaa6c693be895f2e5270ed20 SHA256: 63e8bb1f053ec06d1f028f788e538b83d84a8405d960518c89d82485382527d7 SHA512: a1c50c3d07cd038cb926624e266b81dc9c426ee44f9749ca41319a6d163b8468ce3ce3eccc449719ba5f355ddaf67713102ee8fabd0f2a94dc1225cb29244611 Homepage: https://cran.r-project.org/package=pacta.multi.loanbook Description: CRAN Package 'pacta.multi.loanbook' (Run 'PACTA' on Multiple Loan Books Easily) Run Paris Agreement Capital Transition Assessment ('PACTA') analyses on multiple loan books in a structured way. 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(1) The PAGI package can prioritize the pathways associated with two biological states by statistical significance or FDR. (2) The PAGI package can evaluated the global influence factor (GIF) score in the global gene-gene network constructed based on the relationships of genes extracted from each pathway in KEGG database and the overlapped genes between pathways. 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Package: r-cran-pakpmics2014hl Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3281 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Filename: pool/dists/focal/main/r-cran-pakpmics2014hl_0.1.1-1.ca2004.1_all.deb Size: 3324320 MD5sum: ba8f6462b2ab219e39aa0cc80926ed5d SHA1: 2ebb6d56411e9f8834293deeb798da3eefca9703 SHA256: 33e5d4b358f0e439dea3580c4609a8756b933c39ecd54d1f357740c2fefbad49 SHA512: 37657e71b132714ba4c58550104903f30351cd5be27fca39fb0369e59caf15d8d83e1922d8136fc2f3639227bfa775a5003660a0b8fedb50a0c8dc955fdc17c3 Homepage: https://cran.r-project.org/package=PakPMICS2014HL Description: CRAN Package 'PakPMICS2014HL' (Multiple Indicator Cluster Survey (MICS) 2014 Household ListingQuestionnaire Data for Punjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey 2014 Household Listing questionnaire data for Punjab, Pakistan. Package: r-cran-pakpmics2014wm Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2883 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Filename: pool/dists/focal/main/r-cran-pakpmics2014wm_0.1.1-1.ca2004.1_all.deb Size: 2915880 MD5sum: 93718fb0a2eb750c57dc66626b049001 SHA1: ea562dba9cc3072b7738e51b1e220b49a4994aca SHA256: 5035e49298f1edafa12a5d96887c30955e4fef3b3ce073e83604d9c2d85137a0 SHA512: 4f8a80e90574f5c3f1705618736a86ea353b481e053e4ae4b645686b589a524d890e46af1a1930e669fffe65e85acd7fd346fdaabdb08f122cb55f4ee93cd935 Homepage: https://cran.r-project.org/package=PakPMICS2014Wm Description: CRAN Package 'PakPMICS2014Wm' (Multiple Indicator Cluster Survey (MICS) 2014 WomenQuestionnaire Data for Punjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey 2014 Women (age 15-49 years) questionnaire data for Punjab, Pakistan. Package: r-cran-pakpmics2018 Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1947 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pakpmics2018_1.2.0-1.ca2004.1_all.deb Size: 1794364 MD5sum: 9f448c94a6d4cc4e3f4e17ed6b066867 SHA1: 065618be9bd68f0ef236b62d59986f13bf3c9e92 SHA256: f922e3645a80642a31f5ca11924c041f73fe24f0082e0a39d69007a4341ced67 SHA512: 5e5b83fce401ced11b890c8edf319489d08caa6fdaa93042e2e1f95a9e162a2b46cb7d10d07aa04f20a11fd768c000085bbe19e53c70e689e2b8cc38381fee29 Homepage: https://cran.r-project.org/package=PakPMICS2018 Description: CRAN Package 'PakPMICS2018' (Multiple Indicator Cluster Survey (MICS) 2017-18 Data forPunjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey (MICS) 2017-18 data for Punjab, Pakistan. The results of the present survey are critically important for the purposes of SDG monitoring, as the survey produces information on 32 global SDG indicators. The data was collected from 53,840 households selected at the second stage with systematic random sampling out of a sample of 2,692 clusters selected using Probability Proportional to size sampling. Six questionnaires were used in the survey: (1) a household questionnaire to collect basic demographic information on all de jure household members (usual residents), the household, and the dwelling; (2) a water quality testing questionnaire administered in three households in each cluster of the sample; (3) a questionnaire for individual women administered in each household to all women age 15-49 years; (4) a questionnaire for individual men administered in every second household to all men age 15-49 years; (5) an under-5 questionnaire, administered to mothers (or caretakers) of all children under 5 living in the household; and (6) a questionnaire for children age 5-17 years, administered to the mother (or caretaker) of one randomly selected child age 5-17 years living in the household. Package: r-cran-pakpmics2018bh Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3865 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pakpmics2018bh_0.1.0-1.ca2004.1_all.deb Size: 3782196 MD5sum: 9798ccc5ddb0ff7a30053c2cd236fcdb SHA1: 7a3b114e2393d2840c75218e03a0c2300e9a99e3 SHA256: 486e0fa77f052948e320e79f975607cd51f346746958631b9849abe85286c5ae SHA512: f60a80ec8b6dd0990cc81911e3395cf08b17616d06e895bcab0699d844268f6d7082cf99a46cf006a7bd54c4e9ca882bd81b628aa76ace16d7dfb6c73a2c1a14 Homepage: https://cran.r-project.org/package=PakPMICS2018bh Description: CRAN Package 'PakPMICS2018bh' (Multiple Indicator Cluster Survey (MICS) 2017-18 Birth Historyof Children Questionnaire Data for Punjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey (MICS) 2017-18 Household questionnaire data for Punjab, Pakistan. The results of the present survey are critically important for the purposes of SDG monitoring, as the survey produces information on 32 global SDG indicators. The data was collected from 53,840 households selected at the second stage with systematic random sampling out of a sample of 2,692 clusters selected using Probability Proportional to size sampling. Six questionnaires were used in the survey: (1) a household questionnaire to collect basic demographic information on all de jure household members (usual residents), the household, and the dwelling; (2) a water quality testing questionnaire administered in three households in each cluster of the sample; (3) a questionnaire for individual women administered in each household to all women age 15-49 years; (4) a questionnaire for individual men administered in every second household to all men age 15-49 years; (5) an under-5 questionnaire, administered to mothers (or caretakers) of all children under 5 living in the household; and (6) a questionnaire for children age 5-17 years, administered to the mother (or caretaker) of one randomly selected child age 5-17 years living in the household (). Package: r-cran-pakpmics2018fs Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3592 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pakpmics2018fs_0.1.0-1.ca2004.1_all.deb Size: 3496528 MD5sum: c80a693d03f2cd8799029f870357a6aa SHA1: 04f1938b6033b400c12aabcbb002794dc7faafc3 SHA256: 10fe7a0fa3b1e282e3e5987c3b103938ab9647ec4bdab6b3356eb6bacd5e83c6 SHA512: 7337ebfc4a7775510796e1351ee873d9127a77ddaf87ab72660c880b2bf2ea10b59d2bd40e73ed694196b8eea020243122708fec4d1876083edd4a9c15b758e1 Homepage: https://cran.r-project.org/package=PakPMICS2018fs Description: CRAN Package 'PakPMICS2018fs' (Multiple Indicator Cluster Survey (MICS) 2017-18 Children Age5-17 Questionnaire Data for Punjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey (MICS) 2017-18 Children Age 5-17 questionnaire data for Punjab, Pakistan. The results of the present survey are critically important for the purposes of Sustainable Development Goals (SDGs) monitoring, as the survey produces information on 32 global Sustainable Development Goals (SDGs) indicators. The data was collected from 53,840 households selected at the second stage with systematic random sampling out of a sample of 2,692 clusters selected using probability proportional to size sampling. Six questionnaires were used in the survey: (1) a household questionnaire to collect basic demographic information on all de jure household members (usual residents), the household, and the dwelling; (2) a water quality testing questionnaire administered in three households in each cluster of the sample; (3) a questionnaire for individual women administered in each household to all women age 15-49 years; (4) a questionnaire for individual men administered in every second household to all men age 15-49 years; (5) an under-5 questionnaire, administered to mothers (or caretakers) of all children under 5 living in the household; and (6) a questionnaire for children age 5-17 years, administered to the mother (or caretaker) of one randomly selected child age 5-17 years living in the household (). Package: r-cran-pakpmics2018hh Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4735 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pakpmics2018hh_0.1.0-1.ca2004.1_all.deb Size: 4550588 MD5sum: 7da1b5326138bb47373a69c0bd50e318 SHA1: c1a5ca36f2640bff2560d2ebe58dc0c427594ab3 SHA256: 886bccc33377c9225b640d38574ebef18184873acc7bdfec21df8bf1b08ce9e4 SHA512: c095850740462005e3cff8d9d5a4beb3a51fae02ebea571d6110fac3a1b8860ab39b03a7b7c6c2f12eb6fba6d503b4c267558e3c4cc3f0c668bd8041891c5521 Homepage: https://cran.r-project.org/package=PakPMICS2018hh Description: CRAN Package 'PakPMICS2018hh' (Multiple Indicator Cluster Survey (MICS) 2017-18 HouseholdQuestionnaire Data for Punjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey (MICS) 2017-18 Household questionnaire data for Punjab, Pakistan. The results of the present survey are critically important for the purposes of Sustainable Development Goals (SDGs) monitoring, as the survey produces information on 32 global Sustainable Development Goals (SDGs) indicators. The data was collected from 53,840 households selected at the second stage with systematic random sampling out of a sample of 2,692 clusters selected using probability proportional to size sampling. Six questionnaires were used in the survey: (1) a household questionnaire to collect basic demographic information on all de jure household members (usual residents), the household, and the dwelling; (2) a water quality testing questionnaire administered in three households in each cluster of the sample; (3) a questionnaire for individual women administered in each household to all women age 15-49 years; (4) a questionnaire for individual men administered in every second household to all men age 15-49 years; (5) an under-5 questionnaire, administered to mothers (or caretakers) of all children under 5 living in the household; and (6) a questionnaire for children age 5-17 years, administered to the mother (or caretaker) of one randomly selected child age 5-17 years living in the household (). Package: r-cran-pakpmics2018mm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3473 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pakpmics2018mm_0.1.0-1.ca2004.1_all.deb Size: 3326788 MD5sum: c206a01371a5cdffd9222215c6e34eb8 SHA1: 742d673bc0b7b40c6b35fa47b7df99c8dbac6dfb SHA256: e694253f1f83f413ad0eb48ec32f8289da2876d1bfd2bd40094ef0cb936f7ae8 SHA512: 16e3fa67106421527d7f6f7a1807abbaebe0ef1466f21ecc91198adfb65c817070b9d88872edc950f38d9d5c45b975edef519bcdf8c78177b0674e8be34dcaa1 Homepage: https://cran.r-project.org/package=PakPMICS2018mm Description: CRAN Package 'PakPMICS2018mm' (Multiple Indicator Cluster Survey (MICS) 2017-18 MaternalMortality Questionnaire Data for Punjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey (MICS) 2017-18 Maternal Mortality questionnaire data for Punjab, Pakistan. The results of the present survey are critically important for the purposes of Sustainable Development Goals (SDGs) monitoring, as the survey produces information on 32 global Sustainable Development Goals (SDGs) indicators. The data was collected from 53,840 households selected at the second stage with systematic random sampling out of a sample of 2,692 clusters selected using probability proportional to size sampling. Six questionnaires were used in the survey: (1) a household questionnaire to collect basic demographic information on all de jure household members (usual residents), the household, and the dwelling; (2) a water quality testing questionnaire administered in three households in each cluster of the sample; (3) a questionnaire for individual women administered in each household to all women age 15-49 years; (4) a questionnaire for individual men administered in every second household to all men age 15-49 years; (5) an under-5 questionnaire, administered to mothers (or caretakers) of all children under 5 living in the household; and (6) a questionnaire for children age 5-17 years, administered to the mother (or caretaker) of one randomly selected child age 5-17 years living in the household (). Package: r-cran-pakpmics2018mn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3013 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pakpmics2018mn_0.1.0-1.ca2004.1_all.deb Size: 2904928 MD5sum: c0ba84bfa1f9f7302479554a75314dfa SHA1: b77c3870cd32db89e4e664977f5a49deb32ae046 SHA256: 443ad2887e427af59b84d9e929e93aeec43f403de26fa8558599643177b8d13f SHA512: 1cb3e461b322711b5be3865d5af85ba7065fa23feb8e5e23435c9ab11eca2170934a893bb0c498235ece6216316cd990897911958f3cc6d4c1c3137e5179457a Homepage: https://cran.r-project.org/package=PakPMICS2018mn Description: CRAN Package 'PakPMICS2018mn' (Multiple Indicator Cluster Survey (MICS) 2017-18 MenQuestionnaire Data for Punjab, Pakistan) Provides data set and function for exploration of Multiple Indicator Cluster Survey (MICS) 2017-18 Men questionnaire data for Punjab, Pakistan. The results of the present survey are critically important for the purposes of Sustainable Development Goals (SDGs) monitoring, as the survey produces information on 32 global Sustainable Development Goals (SDGs) indicators. The data was collected from 53,840 households selected at the second stage with systematic random sampling out of a sample of 2,692 clusters selected using probability proportional to size sampling. Six questionnaires were used in the survey: (1) a household questionnaire to collect basic demographic information on all de jure household members (usual residents), the household, and the dwelling; (2) a water quality testing questionnaire administered in three households in each cluster of the sample; (3) a questionnaire for individual women administered in each household to all women age 15-49 years; (4) a questionnaire for individual men administered in every second household to all men age 15-49 years; (5) an under-5 questionnaire, administered to mothers (or caretakers) of all children under 5 living in the household; and (6) a questionnaire for children age 5-17 years, administered to the mother (or caretaker) of one randomly selected child age 5-17 years living in the household (). Package: r-cran-pakret Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-cran-readr, r-cran-rmarkdown, r-cran-withr Suggests: r-cran-callr, r-cran-pkgload, r-cran-testthat, r-cran-usethis Filename: pool/dists/focal/main/r-cran-pakret_0.2.2-1.ca2004.1_all.deb Size: 63520 MD5sum: 9a851de10c9a5679872e7bc3c2433d41 SHA1: 56884ff20e6f9cc287976c36f9b97da16485f41f SHA256: 1b1f4f254a8c188853991859613d48549a5e5f7fcfbbcbc62b7c583cd3709058 SHA512: fb464296a0668afca7f673373eae196b8c9fd9cef10145cdf526ada685ff4b0f4ed95d9bcf3ea1bf623b145fc6cd628ca4c659c76623d253e3006c59b92f32cb Homepage: https://cran.r-project.org/package=pakret Description: CRAN Package 'pakret' (Cite 'R' Packages on the Fly in 'R Markdown' and 'Quarto') References and cites 'R' and 'R' packages on the fly in 'R Markdown' and 'Quarto'. 'pakret' provides a minimalistic API that generates preformatted citations of 'R' and 'R' packages, and adds their reference to a '.bib' file directly from within your document. Package: r-cran-palaeosig Architecture: all Version: 2.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 584 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-teachingdemos, r-cran-rioja, r-cran-mgcv, r-cran-mass, r-cran-tibble, r-cran-dplyr, r-cran-magrittr, r-cran-ggplot2, r-cran-forcats, r-cran-assertr, r-cran-vegan, r-cran-rlang, r-cran-ggrepel, r-cran-tidyr, r-cran-purrr Suggests: r-cran-units, r-cran-knitr, r-cran-rmarkdown, r-cran-gstat, r-cran-sf, r-cran-analogue, r-cran-testthat Filename: pool/dists/focal/main/r-cran-palaeosig_2.1-3-1.ca2004.1_all.deb Size: 435636 MD5sum: f931edb7212be7a137807e6eef4a16d8 SHA1: a1e6bba47fdc1a610877197a40f5495ce9057435 SHA256: b00df2e54e458e51bb4db5d3fb1fff2c5df31627d3f50d288b63fe8955c2d9eb SHA512: f53bfbb106fe02fd4c45e458c9b66b6744c5125b4e7e625479cb68a89786b8c750c7cb3675388545381fa5435bda1da00711bc14bb8b5b7dd7cc2a4cdf28f65b Homepage: https://cran.r-project.org/package=palaeoSig Description: CRAN Package 'palaeoSig' (Significance Tests for Palaeoenvironmental Reconstructions) Several tests of quantitative palaeoenvironmental reconstructions from microfossil assemblages, including the null model tests of the statistically significant of reconstructions developed by Telford and Birks (2011) , and tests of the effect of spatial autocorrelation on transfer function model performance using methods from Telford and Birks (2009) and Trachsel and Telford (2016) . Age-depth models with generalized mixed-effect regression from Heegaard et al (2005) are also included. Package: r-cran-palaeoverse Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2799 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-ape, r-cran-sf, r-cran-stringdist, r-cran-geosphere, r-cran-h3jsr, r-cran-httr, r-cran-pbapply, r-cran-lifecycle Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-vdiffr, r-cran-paleotree, r-cran-phytools, r-cran-covr Filename: pool/dists/focal/main/r-cran-palaeoverse_1.4.0-1.ca2004.1_all.deb Size: 2075556 MD5sum: 0c75d4bac9ce2551816f2bf28a74084d SHA1: 6f0f712e288c9f44d067f52f66094d8c4a79e0a1 SHA256: 138ee49d115c5af5f035bd63bcb02b0a92b72a176843371760924bf4476be6ef SHA512: df8502bf51a94801c402e5fc5cd3886765e94a5554c094569cc2d422df63525f0cc501c45b35d3afbd131effda13cee98f47ac513ebaf3658846bab1296c7a74 Homepage: https://cran.r-project.org/package=palaeoverse Description: CRAN Package 'palaeoverse' (Prepare and Explore Data for Palaeobiological Analyses) Provides functionality to support data preparation and exploration for palaeobiological analyses, improving code reproducibility and accessibility. The wider aim of 'palaeoverse' is to bring the palaeobiological community together to establish agreed standards. The package currently includes functionality for data cleaning, binning (time and space), exploration, summarisation and visualisation. Reference datasets (i.e. Geological Time Scales ) and auxiliary functions are also provided. Details can be found in: Jones et al., (2023) . Package: r-cran-palasso Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 466 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-matrix, r-cran-survival Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown, r-cran-remotes, r-cran-proc, r-bioc-edger, r-cran-ashr Filename: pool/dists/focal/main/r-cran-palasso_1.0.0-1.ca2004.1_all.deb Size: 173252 MD5sum: 0c067033cdc1beb8c4107b1b026f0a3e SHA1: fed330aa8320f4336881a48ca46012524f4842df SHA256: f371080c402026523cfbbcaff112748b11c89304d9f77d3f657760280ebe206a SHA512: 0ba11edd24f92b02323b5f529daba5324b3cc0afc23c9a067d70a8330fce9fe5379bb8623b09d02aa382cbd3050683d030cc9effb3499c51b4a530d23a2d4efd Homepage: https://cran.r-project.org/package=palasso Description: CRAN Package 'palasso' (Sparse Regression with Paired Covariates) Implements sparse regression with paired covariates (). The paired lasso is designed for settings where each covariate in one set forms a pair with a covariate in the other set (one-to-one correspondence). For the optional correlation shrinkage, install ashr () and CorShrink () from GitHub (see README). Package: r-cran-pald Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 915 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-igraph, r-cran-glue Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pald_0.0.5-1.ca2004.1_all.deb Size: 810168 MD5sum: 903e1c0f047ea1ae7c071f0c4791d4d7 SHA1: 5505306ae95b8cab466c01b9585e866bb4945e1d SHA256: 76b4e02cc63c72e61d939c7eb06d86fde48a213b93a2f1fc8ac3ba54d36ba415 SHA512: f448c0c17a1d53f45aafec0b34c30a450dfd0d8f4baea0f052d2355f3fd63c6ebd6a3a275c95f7fb0ef8e5d1c1779e68d7e474ed7df0bf773632eb6da0cc3919 Homepage: https://cran.r-project.org/package=pald Description: CRAN Package 'pald' (Partitioned Local Depth for Community Structure in Data) Implementation of the Partitioned Local Depth (PaLD) approach which provides a measure of local depth and the cohesion of a point to another which (together with a universal threshold for distinguishing strong and weak ties) may be used to reveal local and global structure in data, based on methods described in Berenhaut, Moore, and Melvin (2022) . No extraneous inputs, distributional assumptions, iterative procedures nor optimization criteria are employed. This package includes functions for computing local depths and cohesion as well as flexible functions for plotting community networks and displays of cohesion against distance. Package: r-cran-paleoam Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-vegan Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-paleoam_1.0.1-1.ca2004.1_all.deb Size: 155380 MD5sum: aafc12b5b3beca83d91a1f1ce45e1fb7 SHA1: dd575b0a37d770222d2f22b545e5cce94e5d159a SHA256: ae141db37f7eba5916a335fb5f77b6190581aad904cb9e34d4143744476da6a8 SHA512: b328b7415f2fa075968ab06b599e4ae9dc1ceb339a6daf598d09e5b6b7ceeb8d18abe6c57edaf4b317a2d07a09abe4ed2b74df457a49cd276051da0fe8c5611d Homepage: https://cran.r-project.org/package=paleoAM Description: CRAN Package 'paleoAM' (Simulating Assemblage Models of Abundance for the Fossil Record) Provides functions for fitting abundance distributions over environmental gradients to the species in ecological communities, and tools for simulating the fossil assemblages from those abundance models for such communities, as well as simulating assemblages across various patterns of sedimentary history and sampling. These tools are for particular use with fossil records with detailed age models and abundance distributions used for calculating environmental gradients from ordinations or other indices based on fossil assemblages. Package: r-cran-paleobiodb Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 525 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-curl, r-cran-gtools, r-cran-maps, r-cran-rjson, r-cran-terra Suggests: r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-paleobiodb_1.0.0-1.ca2004.1_all.deb Size: 440440 MD5sum: 9c4c72f8e73821cee643f00ed4aae0fe SHA1: e20f539e58a24c856c418918b0840592bd145768 SHA256: f5658213c58769ea749152c197f4c7d51dd6514083b7dde3ae489b92565d3712 SHA512: d4358717eeed9f3592d56a2ddb2b7df7413adcead46d15e27fa251993e2157fd5cfbfe9d014909eaeef056dd625e6c85ed2b53c58b17f5dbe5b3c7061ca57468 Homepage: https://cran.r-project.org/package=paleobioDB Description: CRAN Package 'paleobioDB' (Download and Process Data from the Paleobiology Database) Includes functions to wrap most endpoints of the 'PaleobioDB' API and functions to visualize and process the fossil data. The API documentation for the Paleobiology Database can be found at . Package: r-cran-paleobuddy Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3394 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ape, r-cran-fitdistrplus, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-paleobuddy_1.1.0-1.ca2004.1_all.deb Size: 1688600 MD5sum: c4996f20c6cee61d2deccabef1945a89 SHA1: 688c04c145211c3d8f78c0e6f7b520d267ffc912 SHA256: 740e98ea15dc0153da94bccc80cf4a5797fc789e4a11cdd26d0026e8f2e035ff SHA512: 14eb81a1b92d2cfc8e072a9ddbcc3a2615f66a678a859fc919d30bc3f9bc7ba7b249788519154e56591f83537e16e8b9b6663ee11dc30102acde6a3090b9d70f Homepage: https://cran.r-project.org/package=paleobuddy Description: CRAN Package 'paleobuddy' (Simulating Diversification Dynamics) Simulation of species diversification, fossil records, and phylogenies. While the literature on species birth-death simulators is extensive, including important software like 'paleotree' and 'APE', we concluded there were interesting gaps to be filled regarding possible diversification scenarios. Here we strove for flexibility over focus, implementing a large array of regimens for users to experiment with and combine. In this way, 'paleobuddy' can be used in complement to other simulators as a flexible jack of all trades, or, in the case of scenarios implemented only here, can allow for robust and easy simulations for novel situations. Environmental data modified from that in 'RPANDA': Morlon H. et al (2016) . Package: r-cran-paleodiv Architecture: all Version: 0.4.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 976 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-stringr Suggests: r-cran-testthat, r-cran-strap, r-cran-divdyn, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-paleodiv_0.4.6-1.ca2004.1_all.deb Size: 749600 MD5sum: cf6efaed9dadabe4bb64e6fa4b801483 SHA1: 8616eaeeb9e77d68e6371bc8a25ea2205cf6c191 SHA256: ade142d98d24a6688ccb57adafb3f64d33a35b3bf9dea5a48bec4ece6f64e9ae SHA512: 0a3af0e4dcf0386d78d5a9d4b44d43d0a51d28b2872eaeb4e035ae62156c6f9622cb79a664aa9c661413e9fbe0cf79c3c3ea4135ba131b80af15483ee5b66c07 Homepage: https://cran.r-project.org/package=paleoDiv Description: CRAN Package 'paleoDiv' (Extracting and Visualizing Paleobiodiversity) Contains various tools for conveniently downloading and editing taxon-specific datasets from the Paleobiology Database , extracting information on abundance, temporal distribution of subtaxa and taxonomic diversity through deep time, and visualizing these data in relation to phylogeny and stratigraphy. Package: r-cran-paleofire Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3712 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gcd, r-cran-locfit, r-cran-raster, r-cran-ggplot2, r-cran-plyr, r-cran-rgdal, r-cran-lattice Suggests: r-cran-gtools, r-cran-catools, r-cran-pscl, r-cran-agricolae, r-cran-imap, r-cran-sp, r-cran-rworldmap, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-paleofire_1.2.4-1.ca2004.1_all.deb Size: 3711824 MD5sum: ba2080a4da49693b69736ccd4793361c SHA1: cf43cce46d04d009835fc17d66617ecba5868054 SHA256: 3c4a9afe7137abaa7af7d356e762acbfb4d4ab1d028b76c1fb245b58aae5a3b9 SHA512: d4710900b6150262886609b89c200548b5d0a69f5597f5cffc4786ead31a9fbc987922b602e9b4c802ebf9dcd234ff4259a427ac9b19f5c7938eff22c6b8c8b7 Homepage: https://cran.r-project.org/package=paleofire Description: CRAN Package 'paleofire' (Analysis of Charcoal Records from the Global Charcoal Database) Tools to extract and analyse charcoal sedimentary data stored in the Global Charcoal Database. Main functionalities includes data extraction and sites selection, transformation and interpolation of the charcoal records as well as compositing. Package: r-cran-paleomas Architecture: all Version: 2.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 227 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-vegan, r-cran-lattice Filename: pool/dists/focal/main/r-cran-paleomas_2.0-1-1.ca2004.1_all.deb Size: 194168 MD5sum: 664e4805f0633884605125dc0ba2765f SHA1: 7041336aa691b9e2f3e6989c1d9a51990ffa2d87 SHA256: 4cb521733a16dd3d4de20863bc14ffd703a57b34fcbc6c728f94423108ca6dfd SHA512: c5504562cbdb8c473f7b192ce300932afb0e4fe6faba42b4733dfd96e1255c8e103ea01e187bb31ea785fb044cd38e64395008634944287c1a1d987461c5bd02 Homepage: https://cran.r-project.org/package=paleoMAS Description: CRAN Package 'paleoMAS' (Paleoecological Analysis) Transfer functions and statistical operations for paleoecology Package: r-cran-paleomorph Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-testthat, r-cran-abind, r-cran-rgl Filename: pool/dists/focal/main/r-cran-paleomorph_0.1.4-1.ca2004.1_all.deb Size: 64568 MD5sum: 91b228a55aadd244b5a46b9d5a903820 SHA1: 2eddb7167a94f6e8f436c93624d56b5a60f5c36e SHA256: 8f9a8e656192b9917988b02a21cbfc7765975c45aeb8cb6f8f1fce163742ebf8 SHA512: e78dcdba8a728ca51e4c13b63dcb64ea27784377ef6c1769b4dfefc7b68250cbd8241983e59feab3a0b89bd73ad58846202ae8e81a396306f2a9eba013f205e5 Homepage: https://cran.r-project.org/package=paleomorph Description: CRAN Package 'paleomorph' (Geometric Morphometric Tools for Paleobiology) Fill missing symmetrical data with mirroring, calculate Procrustes alignments with or without scaling, and compute standard or vector correlation and covariance matrices (congruence coefficients) of 3D landmarks. Tolerates missing data for all analyses. Package: r-cran-paleopop Architecture: all Version: 2.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4393 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-poems, r-cran-r6, r-cran-sf, r-cran-trend Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-dplyr, r-cran-raster Filename: pool/dists/focal/main/r-cran-paleopop_2.1.7-1.ca2004.1_all.deb Size: 4060264 MD5sum: fbe922596d4e6537375b56167ea149a3 SHA1: 647294499a71c49a182d66302fd15657421bb9c0 SHA256: a27da9f9936fc223682c0a5bca2ad817429111a23884bf2a848947cfa5924f07 SHA512: 5af0222671bb3f58f2df239c07f3cf9cc9c4871cf6e106bd21fb4373e2aa2d4725df4f5d5661b0fe117c96c4ee3d6dd2030870235f884c95aa0f88aade07dc25 Homepage: https://cran.r-project.org/package=paleopop Description: CRAN Package 'paleopop' (Pattern-Oriented Modeling Framework for Coupled Niche-PopulationPaleo-Climatic Models) This extension of the poems pattern-oriented modeling (POM) framework provides a collection of modules and functions customized for paleontological time-scales, and optimized for single-generation transitions and large populations, across multiple generations. Package: r-cran-paleotree Architecture: all Version: 3.4.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1571 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-phangorn, r-cran-phytools, r-cran-jsonlite, r-cran-png, r-cran-rcurl Suggests: r-cran-spelling, r-cran-testthat, r-cran-curl Filename: pool/dists/focal/main/r-cran-paleotree_3.4.7-1.ca2004.1_all.deb Size: 1519192 MD5sum: 88c88f918ef34665a42aa52717ddc766 SHA1: d54af141cb0166d93ba8305339ad141462be28e2 SHA256: d0aa3757ebae42b1eff5c3d289c7b3ef63e5316793d55a701067bbbd66953c13 SHA512: b488481923d4ad041ea0d9cefb1df1ce48ad2cb4a29d5889b9ee65a8f5cd5807eddf744a180947ff6eea47cb4c9cdfe3cacaad2e72c91a65cddfef9b4446c743 Homepage: https://cran.r-project.org/package=paleotree Description: CRAN Package 'paleotree' (Paleontological and Phylogenetic Analyses of Evolution) Provides tools for transforming, a posteriori time-scaling, and modifying phylogenies containing extinct (i.e. fossil) lineages. In particular, most users are interested in the functions timePaleoPhy, bin_timePaleoPhy, cal3TimePaleoPhy and bin_cal3TimePaleoPhy, which date cladograms of fossil taxa using stratigraphic data. This package also contains a large number of likelihood functions for estimating sampling and diversification rates from different types of data available from the fossil record (e.g. range data, occurrence data, etc). paleotree users can also simulate diversification and sampling in the fossil record using the function simFossilRecord, which is a detailed simulator for branching birth-death-sampling processes composed of discrete taxonomic units arranged in ancestor-descendant relationships. Users can use simFossilRecord to simulate diversification in incompletely sampled fossil records, under various models of morphological differentiation (i.e. the various patterns by which morphotaxa originate from one another), and with time-dependent, longevity-dependent and/or diversity-dependent rates of diversification, extinction and sampling. Additional functions allow users to translate simulated ancestor-descendant data from simFossilRecord into standard time-scaled phylogenies or unscaled cladograms that reflect the relationships among taxon units. Package: r-cran-paleots Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 728 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mnormt, r-cran-foreach, r-cran-doparallel Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-paleots_0.6.2-1.ca2004.1_all.deb Size: 576944 MD5sum: 66f24f050580d805c8f873f01f6d235f SHA1: beaabbc577907947440b2f9cb4441830cb2713fd SHA256: dec0284894cdb767d0319b5cc19567ae9e89ce6f3e2517ad916fdebaf50e0918 SHA512: 97bdd1b6a99e13687895d25498255e96b106e36298fef57836d9ae7b2e3fdb3ad89b8f46b4515b67b00359ff4517e95e5f2b7345e4f1e9042e41f1322bed6b1a Homepage: https://cran.r-project.org/package=paleoTS Description: CRAN Package 'paleoTS' (Analyze Paleontological Time-Series) Facilitates analysis of paleontological sequences of trait values. Functions are provided to fit, using maximum likelihood, simple evolutionary models (including unbiased random walks, directional evolution,stasis, Ornstein-Uhlenbeck, covariate-tracking) and complex models (punctuation, mode shifts). Package: r-cran-palette Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-pillar, r-cran-vctrs Suggests: r-cran-ggplot2, r-cran-spelling, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-palette_0.0.2-1.ca2004.1_all.deb Size: 107380 MD5sum: 248fe313385bddf5b31faa2394ab9152 SHA1: 1003a99d657feb654d81d25c23fea6e4a4fc8385 SHA256: df18bd7bf05b704aaa401779ca0dd1bc9e7fdaf261b634fb99b45d45a2b1082b SHA512: 7898ad47e22b8f5849ca3b08d7f0911b046eb8d1810f6f8b024f02a2d1be6a1e084774f315f6ef62071699c70559d23cb938b9c955b6800fa4ff247d2a96e4c8 Homepage: https://cran.r-project.org/package=palette Description: CRAN Package 'palette' (Color Scheme Helpers) Hexadecimal codes are typically used to represent colors in R. Connecting these codes to their colors requires practice or memorization. 'palette' provides a 'vctrs' class for working with color palettes, including printing and plotting functions. The goal of the class is to place visual representations of color palettes directly on or, at least, next to their corresponding character representations. Palette extensions also are provided for data frames using 'pillar'. 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This packages aims to collect all color palettes across the R ecosystem under the same package with a streamlined API. Package: r-cran-paletteknife Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-paletteknife_0.4.2-1.ca2004.1_all.deb Size: 57128 MD5sum: 1e82a25bd4c60bc3ea8419e8b5dff03a SHA1: 2ecc48ba9ed0d483334873ae33c5819ef5cc4d30 SHA256: f342a2af30d65f8ebcc9bb5923857bf90774ecd35e0565b7d1b4810151829a2c SHA512: 4ece337167ba277d5193ae1714dd44e7a73292e700c20135bc783f10067d8a715f67c655659fffb403ab25b11fb485823bdeae70ea3e0c17a320eafc52cc921f Homepage: https://cran.r-project.org/package=paletteknife Description: CRAN Package 'paletteknife' (Create Colour Scales and Legend from Continuous or CategoricalVectors) Streamlines the steps for adding colour scales and associated legends when working with base R graphics, especially for interactive use. Popular palettes are included and pretty legends produced when mapping a large variety of vector classes to a colour scale. An additional helper for adding axes and grid lines complements the base::plot() work flow. 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Capabilities include: formatting, casting and coercion, extraction and updating of components, plotting, colour mixing arithmetic, and colour interpolation. Package: r-cran-palettesforr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 175 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-palettesforr_0.1.2-1.ca2004.1_all.deb Size: 122836 MD5sum: 76891c88297e184ccb8c7c8629f0f575 SHA1: 2789fd57640139ef941e39a2f3f9c948a5ce774d SHA256: 5f219c8ffa6f612e308761985b1b82514bad59722cc6fd9768c99f432cdedffa SHA512: 68d4c3b9ef19a246140fa46b6310f6a28d2d90f548f07d7d7c6b42ce44dbb01be3ea9757e84311b0dfd60ace20296e57bcb681d4bd70630301abf18b1ad2cf03 Homepage: https://cran.r-project.org/package=palettesForR Description: CRAN Package 'palettesForR' (GPL Palettes Copied from 'Gimp' and 'Inkscape') A set of palettes imported from 'Gimp' distributed under GPL3 (), and 'Inkscape' distributed under GPL2 (). Package: r-cran-palettetown Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-palettetown_0.1.1-1.ca2004.1_all.deb Size: 52572 MD5sum: ac901d4bc0345a74aa743560a8f33698 SHA1: d659515083a6f364f1b029eac33d0ea6185d1671 SHA256: f76cb12dac0d12c80a161ca3de9ebc5b4c31959868780401fa916b3b2f8ce8a8 SHA512: 47940f622b68ca091aabb8538affb33b0c252c77b1305cfe4bedae65354f2a8a672d24c19dab03a80916ac82a7bd04f028f7c08fa9880b3bdc40486d64b75a14 Homepage: https://cran.r-project.org/package=palettetown Description: CRAN Package 'palettetown' (Use Pokemon Inspired Colour Palettes) Use Pokemon(R) inspired palettes with additional 'ggplot2' scales. Palettes are the colours in each Pokemon's sprite, ordered by how common they are in the image. The first 386 Pokemon are currently provided. Package: r-cran-palinsol Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4448 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-gsl Filename: pool/dists/focal/main/r-cran-palinsol_1.0-1.ca2004.1_all.deb Size: 4364388 MD5sum: 1018812df46eedeb76cc110e06b0f883 SHA1: 3d19c7694ea2f9dedd0357a082ed330b5bf78414 SHA256: fab822f7843d47c0a1d6d89337d236beaa42c794db09279f71d283a5e7df6baf SHA512: 197e5e63859b45565f8cb2b4a0dea0902892184662e936891551b875d7569baa3be8ac1b3d989db1de6fb6b9ddf79ac20ef08cda8ac2ac4d3e0a6e91392b6cce Homepage: https://cran.r-project.org/package=palinsol Description: CRAN Package 'palinsol' (Insolation for Palaeoclimate Studies) R package to compute Incoming Solar Radiation (insolation) for palaeoclimate studies. Features three solutions: Berger (1978), Berger and Loutre (1991) and Laskar et al. (2004). Computes daily-mean, season-averaged and annual means and for all latitudes, and polar night dates. Package: r-cran-palmerpenguins Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3217 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tibble, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-recipes Filename: pool/dists/focal/main/r-cran-palmerpenguins_0.1.1-1.ca2004.1_all.deb Size: 2971768 MD5sum: 62e5ebd99100a3b4f4b0f4942e683a93 SHA1: ee35b598da29a5a532bc2b76d196cc79e66a5fbd SHA256: 1a658004e9a3389068c0f74dfa7d7052a3e3e3c793fd800b35e36cc2c61a6251 SHA512: 9d95cb2841e85b1a1f24145a2960e1d44ac874ccccdb9d327341677662f9c98b06e142c69462d82ee4586ec24ebcc5b8bfb0fbb4ed636823ff3ef91d4dba2175 Homepage: https://cran.r-project.org/package=palmerpenguins Description: CRAN Package 'palmerpenguins' (Palmer Archipelago (Antarctica) Penguin Data) Size measurements, clutch observations, and blood isotope ratios for adult foraging Adélie, Chinstrap, and Gentoo penguins observed on islands in the Palmer Archipelago near Palmer Station, Antarctica. Data were collected and made available by Dr. Kristen Gorman and the Palmer Station Long Term Ecological Research (LTER) Program. Package: r-cran-palmid Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 871 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-dbplyr, r-cran-downloadthis, r-cran-dbi, r-cran-dt, r-cran-ggplotify, r-cran-ggwordcloud, r-cran-ggextra, r-cran-gridextra, r-cran-htmltools, r-cran-htmlwidgets, r-cran-leaflet, r-cran-plotly, r-cran-rmarkdown, r-cran-rpostgresql, r-cran-scales, r-cran-viridislite Suggests: r-cran-sf, r-cran-rnaturalearth, r-cran-rnaturalearthdata Filename: pool/dists/focal/main/r-cran-palmid_0.0.3-1.ca2004.1_all.deb Size: 738208 MD5sum: d3d9200438a8e94df9e1271468025414 SHA1: e2f32ec9d7dbed2831960bbe5d8f82c052b5cfd9 SHA256: a2de0bbd2e0cc762c250e8f88d72e3754234d19176da4b72971c1e369dde11ad SHA512: 3b2bc8d75928c8572fffe6f8502e02c12e55b987b232a7f4e12aed6c245d58cfe583bc01348f422dbb57b1670d00ad1362a963958fd44c3d089677f7fc0ce24e Homepage: https://cran.r-project.org/package=palmid Description: CRAN Package 'palmid' (RdRP Analysis Suite) R Analysis suite for viral RNA dependent RNA polymerase (RdRP). Statistical and meta-data analysis of 'palmscan' output and 'palmDB'/ 'DIAMOND' alignment files. Cross reference an input RNA virus against 145,000 RdRP identified in the Serratus project. Package: r-cran-palmo Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2176 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-seurat, r-cran-ggrepel, r-cran-pbapply, r-cran-lme4, r-cran-ggforce, r-bioc-mast, r-cran-factoextra, r-cran-rtsne, r-cran-knitr, r-cran-dplyr, r-cran-ggplot2, r-cran-reshape2, r-bioc-complexheatmap, r-cran-circlize, r-cran-cowplot, r-cran-pheatmap, r-cran-tidyverse Suggests: r-cran-ggpubr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-palmo_0.1.2-1.ca2004.1_all.deb Size: 1418988 MD5sum: d8f8244f06d187f41727fabe27208845 SHA1: 5832d70e717fcd2c31f57e90deb77f4da360b32b SHA256: 08868047b5bad508e82376c9df4ff53e845c519cfb823680a7590bb79f8f73c5 SHA512: 08fe8c832201969cac0aedf7ed5e6cfaa7c7f9c7579168587c809c090143bc0e66d326bf83a65772af288d15953c5e1849bfbbd73155b798865270bd4843f09d Homepage: https://cran.r-project.org/package=PALMO Description: CRAN Package 'PALMO' (Identify Intra and Inter-Donor Variations in Bulk or Single CellLongitudinal Dataset) It is a platform for analyzing longitudinal data from bulk as well as single cell datasets. It allows to identify variations in molecular features within and across donors over longitudinal time points. The analysis can be done on bulk expression dataset without known cell type information or single cell with cell type/user-defined groups. It allows to infer stable and variable features in given donor and each cell type (or user defined group). The outlier analysis can be performed to identify technical/biological perturbed samples in donor/participant. Further, differential analysis can be performed to decipher time-wise changes in gene expression in a cell type. Package: r-cran-palmr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-palmr_0.2.0-1.ca2004.1_all.deb Size: 53716 MD5sum: bc90f0220a8aa5b0078ab9fd530d631b SHA1: 976ada6edc89ad58e409e854f44650d9129c9f1e SHA256: 5022638c4880dcb9e4a78e4b25d1b72bad540f8d6d687a0b61ee285e00b25c50 SHA512: 2a29a1d8f7c3c41e0cbab44143f7d46239133f30c2cfbe9ce44ba2f0ae5b78a920b494e2f92a71d7ccead62c01d6e716a4a7cd3e9e2c6c2b1d7fe2bf6cc30e7b Homepage: https://cran.r-project.org/package=PaLMr Description: CRAN Package 'PaLMr' (Interface for 'Google Pathways Language Model 2 (PaLM 2)') 'Google Pathways Language Model 2 (PaLM 2)' as a coding and writing assistant designed for 'R'. 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Package: r-cran-palmtree Architecture: all Version: 0.9-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-partykit, r-cran-formula Suggests: r-cran-mvtnorm, r-cran-psychotools Filename: pool/dists/focal/main/r-cran-palmtree_0.9-1-1.ca2004.1_all.deb Size: 33320 MD5sum: 5a89ade5d9a96dd11cd91c2829deb27b SHA1: 5e4f02af0d9530c735711c747548716f6c35dd41 SHA256: 1f03c7c5b0feadd2e1b2e2730351501592c6aaf27cd89b412ce99285dcdb4166 SHA512: 4fc989ef98c893124d2dafb1ecd1c0924c69d5130a278e8aa886cf0b84b96553fac804d6e020a104216f2f5705df3a48714e5f62e257cb0f4a10c695ea9d5f54 Homepage: https://cran.r-project.org/package=palmtree Description: CRAN Package 'palmtree' (Partially Additive (Generalized) Linear Model Trees) This is an implementation of model-based trees with global model parameters (PALM trees). 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Package: r-cran-palr Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 343 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-raster, r-cran-testthat, r-cran-covr, r-cran-stars, r-cran-viridis Filename: pool/dists/focal/main/r-cran-palr_0.4.0-1.ca2004.1_all.deb Size: 223408 MD5sum: 3bce7139109e76da302560789d5bfd9d SHA1: 01a8147044de7c30c0ba7bc378984fb6184a913b SHA256: 8d4a5ed8b741692d8232eb30e2db14eea28f7e6d90fba6b63d7f645ab389eccb SHA512: 78769849717335e481a7c41c2f9baf83ba3ee4847ce81ced1ff5bd1e89be4962505f71a125d7207fb5f5efad24628c2cac5df0cc6103f81d7f4e4c974152e89d Homepage: https://cran.r-project.org/package=palr Description: CRAN Package 'palr' (Colour Palettes for Data) Colour palettes for data, based on some well known public data sets. 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See Kovesi (2015) . Package: r-cran-pam Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rlang, r-cran-data.table, r-cran-dplyr, r-cran-ggplot2, r-cran-minpack.lm, r-cran-cowplot, r-cran-gridextra, r-cran-ggthemes Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pam_1.0.2-1.ca2004.1_all.deb Size: 141132 MD5sum: 2b998bde99ab10d8f1343491b50ea071 SHA1: ee53aa5d548057b6c0aacd750836b9ab2b5b3a8c SHA256: a45384cff8579289a2d930a4669ae73f8b5500b5e1a9460b18fd2fa8bae8b3fb SHA512: db35a8336115138a472fdc827ff3d53cf4e0ac3b73f01e643e29cf11faf03d96cd323a9677b519840a24db46aab2cc51fa65b74783180ad99c767acc95ea9bba Homepage: https://cran.r-project.org/package=pam Description: CRAN Package 'pam' (Fast and Efficient Processing of PAM Data) Processing Chlorophyll Fluorescence & P700 Absorbance data generated by WALZ hardware. Four models are provided for the regression of Pi curves, which can be compared with each other in order to select the most suitable model for the data set. Control plots ensure the successful verification of each regression. Bundled output of alpha, ETRmax, Ik etc. enables fast and reliable further processing of the data. Package: r-cran-pambinaries Architecture: all Version: 1.9.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2978 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pambinaries_1.9.3-1.ca2004.1_all.deb Size: 1396720 MD5sum: 98c51c8227981211b081ace6e8bba684 SHA1: 86a22a27e42d7febcdedc3299f4ab3c1a597f8a7 SHA256: 699659a940e8d786f81546546fd5e48b90eb9b1bdbd42a0a2d29f74c57cbb319 SHA512: c3316d2bde84115875690a64dac434dca0eeb4c4ce4c4899fd1d03dcdc0c9c7537f2a0a9c800173c8c115042be5f032ee2ebd49ea0501146b3e9716d7f7a8605 Homepage: https://cran.r-project.org/package=PamBinaries Description: CRAN Package 'PamBinaries' (Read and Process 'Pamguard' Binary Data) Functions for easily reading and processing binary data files created by 'Pamguard' (). All functions for directly reading the binary data files are based on 'MATLAB' code written by Michael Oswald. Package: r-cran-pamctdp Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ade4, r-cran-xtable, r-cran-factoclass Filename: pool/dists/focal/main/r-cran-pamctdp_0.3.2-1.ca2004.1_all.deb Size: 315080 MD5sum: 3f9bc033708146f8ca3d4fe976b9fdec SHA1: 507902af6ff8c449677fc966bc736a9bb92e7a70 SHA256: 2e20104ec2ba93dc6d012d3a1f2d762aa341825d2f03f473fb7bdbd66f29317f SHA512: 03f9a10cffd7f701aea41d85649072e429efef29f23307f92059a0fed8ab44a989aa79f3f416f749c5ecbfe8d2eed6fdd7cf185f05cac12d8b0c25e6a3cdcad2 Homepage: https://cran.r-project.org/package=pamctdp Description: CRAN Package 'pamctdp' (Principal Axes Methods for Contingency Tables with PartitionStructures on Rows and Columns) Correspondence Analysis of Contingency Tables with Simple and Double Structures Superimposed Representations, Intra Blocks Correspondence Analysis (IBCA), Weighted Intra Blocks Correspondence Analysis (WIBCA). Package: r-cran-pameasures Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pameasures_0.1.0-1.ca2004.1_all.deb Size: 29760 MD5sum: 0ce1a10e486746644210862be49f7c69 SHA1: 798cc706ecdbe69a6dad28e12c01b2b42375b87f SHA256: efd28e221f694ccd9f0d18099b40a2d9b71c77d144451c8d5433f7e436f62d01 SHA512: a8aafff3e6a7026f7d838bc7851dc20240e699450aaf930cdc55b9becc4a83fe94d5136682990c0aa402403d691d0ec7c3f482df9ab9a0a85187c267621989ad Homepage: https://cran.r-project.org/package=PAmeasures Description: CRAN Package 'PAmeasures' (Prediction and Accuracy Measures for Nonlinear Models and forRight-Censored Time-to-Event Data) We propose a pair of summary measures for the predictive power of a prediction function based on a regression model. The regression model can be linear or nonlinear, parametric, semi-parametric, or nonparametric, and correctly specified or mis-specified. The first measure, R-squared, is an extension of the classical R-squared statistic for a linear model, quantifying the prediction function's ability to capture the variability of the response. The second measure, L-squared, quantifies the prediction function's bias for predicting the mean regression function. When used together, they give a complete summary of the predictive power of a prediction function. Please refer to Gang Li and Xiaoyan Wang (2016) for more details. Package: r-cran-pamhm Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 419 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-heatmapflex, r-cran-cluster, r-cran-rcolorbrewer, r-cran-r.utils, r-cran-readxl, r-cran-readmore, r-cran-plyr, r-cran-robusthd Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-pamhm_0.1.2-1.ca2004.1_all.deb Size: 259296 MD5sum: 520ae08a0d55b394cb5b89f7d7220f62 SHA1: 620161f570137b8664c5637fd04fe5cc052180fe SHA256: edfe6044dba3d27b990efc82293748d75c649066b9d96271563b6413991a602c SHA512: 5d88aa67ac214681c4ccc662ccb14b884973c9e0e741ae2e1d96222a828b93e63c6f8bb9bc062ce02a0071569fe00cce2a0e751c854947d2295570deeb6a1c33 Homepage: https://cran.r-project.org/package=PAMhm Description: CRAN Package 'PAMhm' (Generate Heatmaps Based on Partitioning Around Medoids (PAM)) Data are partitioned (clustered) into k clusters "around medoids", which is a more robust version of K-means implemented in the function pam() in the 'cluster' package. The PAM algorithm is described in Kaufman and Rousseeuw (1990) . Please refer to the pam() function documentation for more references. Clustered data is plotted as a split heatmap allowing visualisation of representative "group-clusters" (medoids) in the data as separated fractions of the graph while those "sub-clusters" are visualised as a traditional heatmap based on hierarchical clustering. Package: r-cran-pamm Architecture: all Version: 1.122-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lmertest, r-cran-lattice, r-cran-mvtnorm, r-cran-lme4 Suggests: r-cran-rgl Filename: pool/dists/focal/main/r-cran-pamm_1.122-1.ca2004.1_all.deb Size: 87064 MD5sum: dad665cf3fd145a18d596c42054998b8 SHA1: 7381894768ee0d44bbdfddebca83a30e9d57d0bb SHA256: 059940cc6d1c2f0edb8ce06c39d51c10e6baae16d8abb6e32f85e1380ab64c51 SHA512: 0d90a3d5c8e3cc497d3f04346385060a835c9b2472aa00ce7a83131d77ea949699f6fc3b16b259228a058de7aaa0f0740dd712ad0bd83dac38268c017a408e9d Homepage: https://cran.r-project.org/package=pamm Description: CRAN Package 'pamm' (Power Analysis for Random Effects in Mixed Models) Simulation functions to assess or explore the power of a dataset to estimates significant random effects (intercept or slope) in a mixed model. The functions are based on the "lme4" and "lmerTest" packages. Package: r-cran-pammtools Architecture: all Version: 0.7.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 818 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv, r-cran-survival, r-cran-checkmate, r-cran-magrittr, r-cran-rlang, r-cran-tidyr, r-cran-ggplot2, r-cran-dplyr, r-cran-purrr, r-cran-tibble, r-cran-lazyeval, r-cran-formula, r-cran-mvtnorm, r-cran-pec, r-cran-vctrs, r-cran-scam Suggests: r-cran-testthat, r-cran-mstate Filename: pool/dists/focal/main/r-cran-pammtools_0.7.3-1.ca2004.1_all.deb Size: 765372 MD5sum: 321c1b222d347a72331374489255f953 SHA1: 5c81b8c1f829e274b88cfe70383898f7ab565606 SHA256: 9473803eb76f41430dac4b9404243095d779a91a5e8aa04772afe94375f743ec SHA512: f8f3f9ff4e95f84fba2a7147a8eb4564d8bb440ff3db69471d86c275a595abb608e6394537cde704bbdb5299ed7d2647d4ea145ffda7ee32e9a5eb1f62dd639b Homepage: https://cran.r-project.org/package=pammtools Description: CRAN Package 'pammtools' (Piece-Wise Exponential Additive Mixed Modeling Tools forSurvival Analysis) The Piece-wise exponential (Additive Mixed) Model (PAMM; Bender and others (2018) ) is a powerful model class for the analysis of survival (or time-to-event) data, based on Generalized Additive (Mixed) Models (GA(M)Ms). It offers intuitive specification and robust estimation of complex survival models with stratified baseline hazards, random effects, time-varying effects, time-dependent covariates and cumulative effects (Bender and others (2019)), as well as support for left-truncated data as well as competing risks, recurrent events and multi-state settings. pammtools provides tidy workflow for survival analysis with PAMMs, including data simulation, transformation and other functions for data preprocessing and model post-processing as well as visualization. Package: r-cran-pampal Architecture: all Version: 1.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1873 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-pambinaries, r-cran-pammisc, r-cran-tuner, r-cran-seewave, r-cran-gam, r-cran-data.table, r-cran-rsqlite, r-cran-purrr, r-cran-signal, r-cran-tidyr, r-cran-ggplot2, r-cran-knitr, r-cran-xml2, r-cran-rlang, r-cran-reticulate, r-cran-lubridate, r-cran-geosphere, r-cran-shiny, r-cran-future.apply Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pampal_1.4.4-1.ca2004.1_all.deb Size: 1189444 MD5sum: 0872f5b23272e3073a6b055845854245 SHA1: 38e7538365889a25e37090de5e295b463526f45c SHA256: 4675da74e0345ac11b1023970d1901f21d266eb6958a1983959e985309fe8e06 SHA512: 2c8ee822ba8d51d4347e42e9093af25033afd91bcfc649a2993d7f9c6bec12dca0bed0c6cf307aafaed8425196e53912bdad958c8c7e02571592b2919f5956a6 Homepage: https://cran.r-project.org/package=PAMpal Description: CRAN Package 'PAMpal' (Load and Process Passive Acoustic Data) Tools for loading and processing passive acoustic data. Read in data that has been processed in 'Pamguard' (), apply a suite processing functions, and export data for reports or external modeling tools. Parameter calculations implement methods by Oswald et al (2007) , Griffiths et al (2020) and Baumann-Pickering et al (2010) . Package: r-cran-pampe Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-leaps Filename: pool/dists/focal/main/r-cran-pampe_1.1.2-1.ca2004.1_all.deb Size: 61004 MD5sum: 8245a3ff9efbb2d95c1b626c2f0bab78 SHA1: efb84d49e1a44b554071412305cb8716bcf7a24c SHA256: dffca8fd2621af6eb79ed9156e2d678308a6c459e2ab690723513db1afe90d13 SHA512: 90e01982937cbe00ee2fcffd465449923004b3a412dfd7ce896de242d186bf78ddfd25d9104ab1e4d85aa601308f2b7063b0b43e5a13760a518d71779bbcc658 Homepage: https://cran.r-project.org/package=pampe Description: CRAN Package 'pampe' (Implementation of the Panel Data Approach Method for ProgramEvaluation) Implements the Panel Data Approach Method for program evaluation as developed in Hsiao, Ching and Ki Wan (2012). pampe estimates the effect of an intervention by comparing the evolution of the outcome for a unit affected by an intervention or treatment to the evolution of the unit had it not been affected by the intervention. Package: r-cran-pamr Architecture: all Version: 1.57-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 689 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cluster, r-cran-survival Filename: pool/dists/focal/main/r-cran-pamr_1.57-1.ca2004.1_all.deb Size: 662308 MD5sum: 53cadeae19603b0eb2b58626941fe86c SHA1: ecb58e13241d6e514f36fe3ed5f0f45c3a10d74a SHA256: 1f1fbf5e35be423aa3eb170b497b331d6155762b3045dbd9926c2b690ca3f24d SHA512: 700906930a29ad17fd6ae6899b22af60bc351311b8e9fa245d458ac6bbe790ff73658a2e0692a2eb48b0bdfb1db32f652041f004e58539670f35e0343c1b7e1c Homepage: https://cran.r-project.org/package=pamr Description: CRAN Package 'pamr' (Pam: Prediction Analysis for Microarrays) Some functions for sample classification in microarrays. Package: r-cran-pamscapes Architecture: all Version: 0.14.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1392 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-ggplot2, r-cran-lubridate, r-cran-scales, r-cran-tidyr, r-cran-httr, r-cran-data.table, r-cran-geosphere, r-cran-sf, r-cran-pammisc, r-cran-ncdf4, r-cran-tdigest, r-cran-purrr, r-cran-shiny, r-cran-future.apply, r-cran-signal, r-cran-tuner, r-cran-dt Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pamscapes_0.14.0-1.ca2004.1_all.deb Size: 1020012 MD5sum: 58eb4784f677327c8282faa381b5fa09 SHA1: b64238c192cb86e2f41f7297fcfae357cc25a889 SHA256: 28b43369e11d0d09b75c5b84f9d5613da48702af3181177f0e810a5d03e2c22e SHA512: c8cfb2cd302f9632d07085956166abc3cdfece43c5a712a05a5be39afa7322745816526463757639f06ddc1dcedb4e7982f3d04669e81f7af5452bfee767059c Homepage: https://cran.r-project.org/package=PAMscapes Description: CRAN Package 'PAMscapes' (Tools for Summarising and Analysing Soundscape Data) A variety of tools relevant to the analysis of marine soundscape data. There are tools for downloading AIS (automatic identification system) data from Marine Cadastre , connecting AIS data to GPS coordinates, plotting summaries of various soundscape measurements, and downloading relevant environmental variables (wind, swell height) from the National Center for Atmospheric Research data server . Most tools were developed to work well with output from 'Triton' software, but can be adapted to work with any similar measurements. Package: r-cran-panalysis Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-coin Filename: pool/dists/focal/main/r-cran-panalysis_2.0-1.ca2004.1_all.deb Size: 58264 MD5sum: a9e99888330c824379f0de1a62c840ec SHA1: 1a8c80457c8ca0be04cae3eafa3525c2992a7f7f SHA256: 0a81d18dea96f0ae60f61dba4c9e9d0524f5b50dd859ec44ca2bd3cabe941720 SHA512: 30a7997c1464b50b15cae1301db7791b0705ecc18736488a9b5a27704ce7093f9252195323014ce8405ad6fea4498cc41936feac70c0096a8b088cd35518b3ea Homepage: https://cran.r-project.org/package=pAnalysis Description: CRAN Package 'pAnalysis' (Benchmarking and Rescaling R2 using Noise Percentile Analysis) Provides the tools needed to benchmark the R2 value corresponding to a certain acceptable noise level while also providing a rescaling function based on that noise level yielding a new value of R2 we refer to as R2k which is independent of both the number of degrees of freedom and the noise distribution function. Package: r-cran-pancanvarsel Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-matrix, r-cran-smoothmest, r-cran-msm Filename: pool/dists/focal/main/r-cran-pancanvarsel_0.0.3-1.ca2004.1_all.deb Size: 75256 MD5sum: 942a8063bc2f716947a9b276277a4e52 SHA1: d17ebc2b64d1ccd82cba4b4627832265cc069582 SHA256: 4f2cc32fb7894381eb0ea0ac498af73e6f438a84f06aaf58360fafbc9caae144 SHA512: 7d5e73890c2d3703d83c3d31206dcebc885a943b682739b1587f9a6ba3cb2b1b56791336b73d356ed3d44c678b5762f6ff89bc3176c0b4959641679540fca3fe Homepage: https://cran.r-project.org/package=PanCanVarSel Description: CRAN Package 'PanCanVarSel' (Pan-Cancer Variable Selection) Provides function for performing Bayesian survival regression using Horseshoe prior in the accelerated failure time model with log normal assumption in order to achieve high dimensional pan-cancer variable selection as developed in Maity et. al. (2019) . Package: r-cran-pandemics Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pandemics_0.1.0-1.ca2004.1_all.deb Size: 81360 MD5sum: 3b84da7444924edd8133714a567218a7 SHA1: 42dd206e9eef81049ebbabb44dcb40e4253c6757 SHA256: e7fdeefd1325740586e2c1f8ba49912f0bdd527763f9859ef5a0c8d0f60d239f SHA512: d487496d8ae21ad4753a2ed0549f615681381d43c96813f4e296297fef443e3a04c68666a0cbdf45920a208028b3f1cdb06b4baac68fa56d32bdef617b1707cb Homepage: https://cran.r-project.org/package=pandemics Description: CRAN Package 'pandemics' (Monitoring a Developing Pandemic with Available Data) Full dynamic system to describe and forecast the spread and the severity of a developing pandemic, based on available data. These data are number of infections, hospitalizations, deaths and recoveries notified each day. The system consists of three transitions, infection-infection, infection-hospital and hospital-death/recovery. The intensities of these transitions are dynamic and estimated using non-parametric local linear estimators. The package can be used to provide forecasts and survival indicators such as the median time spent in hospital and the probability that a patient who has been in hospital for a number of days can leave it alive. Methods are described in Gámiz, Mammen, Martínez-Miranda, and Nielsen (2024) and . Package: r-cran-pandoc Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fs, r-cran-rappdirs, r-cran-rlang Suggests: r-cran-covr, r-cran-gh, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-withr Filename: pool/dists/focal/main/r-cran-pandoc_0.2.0-1.ca2004.1_all.deb Size: 147476 MD5sum: c5b03def8838d452339a6fbac3611b80 SHA1: 402505694bf1156c0273608adef0fa8da9ab0f3c SHA256: ab12a2302d7303ef0b4d4bf7162e8fb8ca2a451a317449a964d2a72164233eec SHA512: 3c581402399505deda71e75ab51bf307e3419177c6fc332b22e63b15d58edf4a216c5ea9de4f242088064ec8627ae6b8bba49433992eb480b478c779613311bc Homepage: https://cran.r-project.org/package=pandoc Description: CRAN Package 'pandoc' (Manage and Run Universal Converter 'Pandoc' from 'R') Provides a set of tools to install, manage and run several 'Pandoc' versions. Package: r-cran-pandocfilters Architecture: all Version: 0.1-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 299 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-pandocfilters_0.1-6-1.ca2004.1_all.deb Size: 246752 MD5sum: dcf7e37c5329e679087649c0b7463ea8 SHA1: 9adab6ea024f936484030f8417b61f1bc21024d3 SHA256: dfd7df11c385fe88fc4b7f1934996e5c2a36662eb7931ad9d9a43002fad7dd3d SHA512: decbdeaa62314e43dfdb3b104ed1f69a9ce5d246254ad158599e046b43b0d53e760f4d5d54b1af2538f3df8adf336ec9ca2f0fd10122ba660424469f59fa58d9 Homepage: https://cran.r-project.org/package=pandocfilters Description: CRAN Package 'pandocfilters' (Pandoc Filters for R) The document converter 'pandoc' is widely used in the R community. One feature of 'pandoc' is that it can produce and consume JSON-formatted abstract syntax trees (AST). This allows to transform a given source document into JSON-formatted AST, alter it by so called filters and pass the altered JSON-formatted AST back to 'pandoc'. This package provides functions which allow to write such filters in native R code. Although this package is inspired by the Python package 'pandocfilters' , it provides additional convenience functions which make it simple to use the 'pandocfilters' package as a report generator. Since 'pandocfilters' inherits most of it's functionality from 'pandoc' it can create documents in many formats (for more information see ) but is also bound to the same limitations as 'pandoc'. Package: r-cran-pandora Architecture: all Version: 24.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 128 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-curl, r-cran-jsonlite, r-cran-magrittr, r-cran-openxlsx, r-cran-readods, r-cran-readr, r-cran-readxl, r-cran-rlang, r-cran-yaml Suggests: r-cran-knitr, r-cran-qpdf, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-pandora_24.2.0-1.ca2004.1_all.deb Size: 69012 MD5sum: 98698c020c6cf6fd11d91023ce411b5b SHA1: a0992176261f11202a1f9208cb510c40f6ec681f SHA256: d762420ecaac102988a5e4f9e890619c61e5aad26e3cd4aff2b9a389726b0bbf SHA512: 25aa5482e7f5298f587ced3631346bb46ccfbf00c97fdbe6c9546e5f652a80f5cc34417f2d44de75eeab449228e528d53473994f9c58e1577413c85ac8057769 Homepage: https://cran.r-project.org/package=Pandora Description: CRAN Package 'Pandora' (Retrieve Data using the API of the 'Pandora' Data Platform) API wrapper that contains functions to retrieve data from the 'Pandora' databases. Web services for API: . Package: r-cran-panelaggregation Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 187 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Filename: pool/dists/focal/main/r-cran-panelaggregation_0.1.1-1.ca2004.1_all.deb Size: 149208 MD5sum: a1178da79d39ab4d95e582afdec17925 SHA1: 2b031f6dba52a87c902810b6d05c0af225b3c0ed SHA256: 21364a5825b9ff94c1434570f8bc971432b968fa07dd3082ee59a40cb662756f SHA512: 1c9e5dac80f3a557f03cdef0f6f4076518420f358252a654742c0708fd0d7bd727346f6c19a5fda7439e49e956c831ac5029b7ce49c373c79673befc12d84dff Homepage: https://cran.r-project.org/package=panelaggregation Description: CRAN Package 'panelaggregation' (Aggregate Longitudinal Survey Data) Aggregate Business Tendency Survey Data (and other qualitative surveys) to time series at various aggregation levels. Run aggregation of survey data in a speedy, re-traceable and a easily deployable way. Aggregation is substantially accelerated by use of data.table. This package intends to provide an interface that is less general and abstract than data.table but rather geared towards survey researchers. Package: r-cran-paneldata Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-paneldata_1.0-1.ca2004.1_all.deb Size: 26932 MD5sum: 2fe119c71c28d6888fab15a6d727a339 SHA1: ca749d2b3e1444bfebee15d68441f9216cb248ea SHA256: 3bc202286095a852042f51345b9557bef28d6eeeab2101bb1253a663af93b0e0 SHA512: d7cc70951b13df4f0223fd59e6bd78e9fdd07ae65da12cc891e6afdb93d1a38861d5c9c6301adc37f6389bec092ee961ab0ae355bfe4228fb612e636022326b3 Homepage: https://cran.r-project.org/package=Paneldata Description: CRAN Package 'Paneldata' (Linear models for panel data) Linear models for panel data: the fixed effect model and the random effect model Package: r-cran-panelhetero Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 346 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-boot, r-cran-ggplot2, r-cran-kernsmooth, r-cran-rearrangement Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-panelhetero_1.0.1-1.ca2004.1_all.deb Size: 223512 MD5sum: 775576216eb8eb09b61263a595dfd6fa SHA1: efd18b57371ef334b50a546fbb1b0bf692405637 SHA256: 78291b5faa45ca61ad75ace2e43cc54f16af9e27d07cf46a243a6f8226762328 SHA512: 1c714959cb6b0386c69abfeae12d79fd25b387fb72a0b9ea41fbc138fe95df057b2c43b64ff72fb68d6ffe906ae0a7de90013069473741eb6415dac5702441ac Homepage: https://cran.r-project.org/package=panelhetero Description: CRAN Package 'panelhetero' (Panel Data Analysis with Heterogeneous Dynamics) Understanding the dynamics of potentially heterogeneous variables is important in statistical applications. This package provides tools for estimating the degree of heterogeneity across cross-sectional units in the panel data analysis. The methods are developed by Okui and Yanagi (2019) and Okui and Yanagi (2020) . Package: r-cran-panelpomp Architecture: all Version: 1.5.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1984 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pomp, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bookdown Filename: pool/dists/focal/main/r-cran-panelpomp_1.5.0.0-1.ca2004.1_all.deb Size: 1052724 MD5sum: 5dd8308062f1eb7ab35034e355a0e649 SHA1: 1d60c48e1a0d06164746de73fc844a682c07885d SHA256: 0fe178805bfb35f74d879fcb7d69bb1fdd0ae70d12b6b53b54562b3b0829cff3 SHA512: e0b868aedd2e7650ea93a232f2800f890de12b410d15c649128258e7b17d2164f4acd6fc91f5aa98f605d47dfa3b504ac88548ae31c982dc44985a9705f71fc6 Homepage: https://cran.r-project.org/package=panelPomp Description: CRAN Package 'panelPomp' (Inference for Panel Partially Observed Markov Processes) Data analysis based on panel partially-observed Markov process (PanelPOMP) models. To implement such models, simulate them and fit them to panel data, 'panelPomp' extends some of the facilities provided for time series data by the 'pomp' package. Implemented methods include filtering (panel particle filtering) and maximum likelihood estimation (Panel Iterated Filtering) as proposed in Breto, Ionides and King (2020) "Panel Data Analysis via Mechanistic Models" . Package: r-cran-panelr Architecture: all Version: 0.7.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1618 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lme4, r-cran-crayon, r-cran-dplyr, r-cran-formula, r-cran-ggplot2, r-cran-jtools, r-cran-lmertest, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-brms, r-cran-broom.mixed, r-cran-car, r-cran-clubsandwich, r-cran-geepack, r-cran-generics, r-cran-nlme, r-cran-plm, r-cran-sandwich, r-cran-skimr, r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-panelr_0.7.8-1.ca2004.1_all.deb Size: 845544 MD5sum: 4779149603f7b801c0cb850cad0e91cf SHA1: 0dd46845de5ed0756452ca2e538066c447c90fce SHA256: c68d7d03aff7c86b432e7f1095dccfb9e8b2379cced4be06c81f3e9a271bb716 SHA512: f1d8fe1eb47d106eeb6ca3ee6fbc2324987131d8846c208c829459f4af7095b89588e897e14ab0566467a810b3693fad06b3370c0d58c3a4e94edec79d7d7f58 Homepage: https://cran.r-project.org/package=panelr Description: CRAN Package 'panelr' (Regression Models and Utilities for Repeated Measures and PanelData) Provides an object type and associated tools for storing and wrangling panel data. Implements several methods for creating regression models that take advantage of the unique aspects of panel data. Among other capabilities, automates the "within-between" (also known as "between-within" and "hybrid") panel regression specification that combines the desirable aspects of both fixed effects and random effects econometric models and fits them as multilevel models (Allison, 2009 ; Bell & Jones, 2015 ). These models can also be estimated via generalized estimating equations (GEE; McNeish, 2019 ) and Bayesian estimation is (optionally) supported via 'Stan'. Supports estimation of asymmetric effects models via first differences (Allison, 2019 ) as well as a generalized linear model extension thereof using GEE. Package: r-cran-panelsummary Architecture: all Version: 0.1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 955 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-fixest, r-cran-kableextra, r-cran-modelsummary, r-cran-rlang, r-cran-stringr, r-cran-tidyselect Suggests: r-cran-covr, r-cran-gt, r-cran-knitr, r-cran-parameters, r-cran-performance, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-panelsummary_0.1.2.1-1.ca2004.1_all.deb Size: 673028 MD5sum: 509f47aa825623715932beb637ba8b81 SHA1: 0eba76f20790041d10c2e0f5a5afdb09ccd3a630 SHA256: 2ae57d36ef3c9783d2ef39b79c977cd19fb9636741545a9b52814d46b12b0b49 SHA512: a9dda41ba1efce6b996e76a5bf4984cc62cbe353fe2c66985b16381fc6a9997ad74d9e8d6201b1fa361e7ab7f93c1b7e17d9f03ec30c1ea740cf45bbb408325d Homepage: https://cran.r-project.org/package=panelsummary Description: CRAN Package 'panelsummary' (Create Publication-Ready Regression Tables with Panels) Create an automated regression table that is well-suited for models that are estimated with multiple dependent variables. 'panelsummary' extends 'modelsummary' (Arel-Bundock, V. (2022) ) by allowing regression tables to be split into multiple sections with a simple function call. Utilize familiar arguments such as fmt, estimate, statistic, vcov, conf_level, stars, coef_map, coef_omit, coef_rename, gof_map, and gof_omit from 'modelsummary' to clean the table, and additionally, add a row for the mean of the dependent variable without external manipulation. Package: r-cran-panelsur Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-formula.tools, r-cran-plm, r-cran-matlib, r-cran-fastmatrix Filename: pool/dists/focal/main/r-cran-panelsur_0.1.0-1.ca2004.1_all.deb Size: 72956 MD5sum: 6240410d81289712038b03e7cd4d0060 SHA1: 5a3334fc79bb196ac9face3e175060dc3491f382 SHA256: 016f6697a0aa1000470123452c7d2a6d1351276b0a0cf9188ed2f45c493dd58a SHA512: 87a7df44272df493f5fc9bc72f73d3fe293275df372cd906217c962a3bc9546e7fae7dae4b18dcd0cbcf8eda44230065bcc086fbca5b40ff290d1ebec1dc044c Homepage: https://cran.r-project.org/package=panelSUR Description: CRAN Package 'panelSUR' (Two-Way Error Component SUR Systems Estimation on UnbalancedPanel Data) Generalized Least Squares (GLS) estimation of Seemingly Unrelated Regression (SUR) systems on unbalanced panel in the one/two-way cases also taking into account the possibility of cross equation restrictions. Methodological details can be found in Biørn (2004) and Platoni, Sckokai, Moro (2012) . Package: r-cran-paneltm Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-paneltm_1.0-1.ca2004.1_all.deb Size: 138720 MD5sum: 10984a1bbf72fda57117b8766b64646e SHA1: 293ac35b5aa00d0de4fa9afc38466654203d86a4 SHA256: 7febf8cb0e0d85b391bb422211b5874237e86077b0af2f4bfea1bc084fcc271c SHA512: a1989fb890294ee080eb23df1bb2c9982ba4f1189807c72b939bf839ebdaebae3a4d835a5c8be473d674c80b5bffee66840587364585534742d42f14135ef741 Homepage: https://cran.r-project.org/package=PanelTM Description: CRAN Package 'PanelTM' (Two- And Three-Way Dynamic Panel Threshold Regression Model forChange Point Detection) Estimation of two- and three-way dynamic panel threshold regression models (Di Lascio and Perazzini (2024) ; Di Lascio and Perazzini (2022, ISBN:978-88-9193-231-0); Seo and Shin (2016) ) through the generalized method of moments based on the first difference transformation and the use of instrumental variables. The models can be used to find a change point detection in the time series. In addition, random number generation is also implemented. Package: r-cran-panelvar Architecture: all Version: 0.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2694 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-cran-mass, r-cran-matrix, r-cran-progress, r-cran-matrixcalc, r-cran-texreg, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-panelvar_0.5.6-1.ca2004.1_all.deb Size: 2637468 MD5sum: 4737a6bc397584b6db51edfb32cef2c0 SHA1: 206d1dd3475f39552d81692722f7d7e3d16b064c SHA256: d79964d942c81adf002cc004680e2373c6f4959bbbfe060bf7ef37bc69374d93 SHA512: 1f314c16814e3f213a6cfc1c1d85f4b3956653b8dd436b9ddc3a02e1b9e67442cbd94bc75ed469659c9d70a30296915ab20701bf7b8833f63c93c03b71827b71 Homepage: https://cran.r-project.org/package=panelvar Description: CRAN Package 'panelvar' (Panel Vector Autoregression) We extend two general methods of moment estimators to panel vector autoregression models (PVAR) with p lags of endogenous variables, predetermined and strictly exogenous variables. This general PVAR model contains the first difference GMM estimator by Holtz-Eakin et al. (1988) , Arellano and Bond (1991) and the system GMM estimator by Blundell and Bond (1998) . We also provide specification tests (Hansen overidentification test, lag selection criterion and stability test of the PVAR polynomial) and classical structural analysis for PVAR models such as orthogonal and generalized impulse response functions, bootstrapped confidence intervals for impulse response analysis and forecast error variance decompositions. Package: r-cran-panelview Architecture: all Version: 1.1.18-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 235 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-panelview_1.1.18-1.ca2004.1_all.deb Size: 201268 MD5sum: e2223de407f95316a08cb7230c3a3084 SHA1: ec548d298d3eb4c6a854e36587084e31a76249f6 SHA256: 48e69c24151d61fdfe0b2d7b4065a048c87a651c97d27019a73b3dcb9f73e004 SHA512: 22d1d0d9fb0658b031211d63b184fa1893f6f7f6428a824621038f12b46bd6d175e95f34b7d00d1155c57cea64634da330687cc52e34aae37d57bccac832f86b Homepage: https://cran.r-project.org/package=panelView Description: CRAN Package 'panelView' (Visualizing Panel Data) Visualizes panel data. It has three main functionalities: (1) it plots the treatment status and missing values in a panel dataset; (2) it visualizes the temporal dynamics of a main variable of interest; (3) it depicts the bivariate relationships between a treatment variable and an outcome variable either by unit or in aggregate. For details, see . Package: r-cran-panelwranglr Architecture: all Version: 1.2.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-hmisc, r-cran-caret Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-panelwranglr_1.2.13-1.ca2004.1_all.deb Size: 39660 MD5sum: 36b29e212af1a0e9db7c1e25fcda9064 SHA1: 171a255cf008bbab9c0b7bcf9b13a454f3de7216 SHA256: e3c0b883432f9a38d9435e7822710178d402231e8aac8751aa78efc89d4ca176 SHA512: 0b917b45a6efe1c4ccafd2b2f04c4c153929924263cb71839b226a43f808d4f77d735d56e295a98dffa074768fa1a6e1ba5a78bfd92fa60c044b8b486fe86609 Homepage: https://cran.r-project.org/package=panelWranglR Description: CRAN Package 'panelWranglR' (Panel Data Wrangling Tools) Leading/lagging a panel, creating dummy variables, taking panel differences, looking for panel autocorrelations, and more. Implemented via a 'data.table' back end. Package: r-cran-pangaear Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 162 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crul, r-cran-jsonlite, r-cran-xml2, r-cran-oai, r-cran-tibble, r-cran-hoardr, r-cran-png Suggests: r-cran-knitr, r-cran-testthat, r-cran-vcr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-pangaear_1.1.0-1.ca2004.1_all.deb Size: 86112 MD5sum: 670940193c7c0e5f1d658fb01efb991f SHA1: 3cc06f5f96d57578b2a6cce84e481ab408e7e311 SHA256: c937ba1922c08c3c9be7fbd0d13a485caa1b09e20bfe3dcc9a73b1706edd43a5 SHA512: 29f7fda78d9ebeb21730ad432f15a3fd87e5ef25d002034c087143162f40ae9fa5c36034b9e2c53f5a69adcf01d1fcf4d429be3563f66cebeb4672fa1d198f6f Homepage: https://cran.r-project.org/package=pangaear Description: CRAN Package 'pangaear' (Client for the 'Pangaea' Database) Tools to interact with the 'Pangaea' Database (), including functions for searching for data, fetching 'datasets' by 'dataset' 'ID', and working with the 'Pangaea' 'OAI-PMH' service. Package: r-cran-pangoling Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2668 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cachem, r-cran-data.table, r-cran-memoise, r-cran-reticulate, r-cran-rstudioapi, r-cran-tidyselect, r-cran-tidytable Suggests: r-cran-brms, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tictoc, r-cran-covr Filename: pool/dists/focal/main/r-cran-pangoling_1.0.3-1.ca2004.1_all.deb Size: 793304 MD5sum: 3d52cb98519d6e06080c77ae12929b9f SHA1: 5972d03f8d822c3c339e31f940ca7df049694048 SHA256: 192f10217a1be14361327ee8f0c10e8c1ae4cea3cf4b6621fd7cfecb77f98753 SHA512: 3f61962fa850638b0a016c68b4acb345cfd06507a695b965154e75f61c67b96603f32d4d1e6a3a152371ae2fa25e25b9ce52982593b92770cddb6e006dd5143f Homepage: https://cran.r-project.org/package=pangoling Description: CRAN Package 'pangoling' (Access to Large Language Model Predictions) Provides access to word predictability estimates using large language models (LLMs) based on 'transformer' architectures via integration with the 'Hugging Face' ecosystem . The package interfaces with pre-trained neural networks and supports both causal/auto-regressive LLMs (e.g., 'GPT-2') and masked/bidirectional LLMs (e.g., 'BERT') to compute the probability of words, phrases, or tokens given their linguistic context. For details on GPT-2 and causal models, see Radford et al. (2019) , for details on BERT and masked models, see Devlin et al. (2019) . By enabling a straightforward estimation of word predictability, the package facilitates research in psycholinguistics, computational linguistics, and natural language processing (NLP). Package: r-cran-panjen Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-panjen_1.6-1.ca2004.1_all.deb Size: 74204 MD5sum: 988af42941801e09a6661b29d0b9cdd6 SHA1: a7bf23e3b26b95335c1a42608c6275ddcfcc88c3 SHA256: bc34f47a56c9cc3e640dfa69a6aaf5eda54a9c976a2b389eed3be26ce33dee78 SHA512: cdc5a638af1b0fc2ee467fc638f25f09f8c4e55f4cd45de2836c2718c2b7d20010b3056ec00f1bb9a93ccb305ceb144432c1807c0d5a590829c4bfea0d1bed17 Homepage: https://cran.r-project.org/package=PanJen Description: CRAN Package 'PanJen' (A Semi-Parametric Test for Specifying Functional Form) A central decision in a parametric regression is how to specify the relation between an dependent variable and each explanatory variable. This package provides a semi-parametric tool for comparing different transformations of an explanatory variables in a parametric regression. The functions is relevant in a situation, where you would use a box-cox or Box-Tidwell transformations. In contrast to the classic power-transformations, the methods in this package allows for theoretical driven user input and the possibility to compare with a non-parametric transformation. Package: r-cran-pannotator Architecture: all Version: 1.0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2434 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bslib, r-cran-colourpicker, r-cran-config, r-cran-configr, r-cran-dplyr, r-cran-exiftoolr, r-cran-geojsonsf, r-cran-ggplot2, r-cran-golem, r-cran-htmlwidgets, r-cran-jpeg, r-cran-jsonify, r-cran-jsonlite, r-cran-leaflet, r-cran-leaflet.extras, r-cran-leafpm, r-cran-magrittr, r-cran-readr, r-cran-scales, r-cran-sf, r-cran-shiny, r-cran-shinyfiles, r-cran-shinyhelper, r-cran-shinyjs, r-cran-shinythemes, r-cran-shinywidgets, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-pannotator_1.0.0.4-1.ca2004.1_all.deb Size: 1815352 MD5sum: e3a6a28aeb364cb796514d3cfa98cd16 SHA1: 9ae2b7890b92282a76ac943dc99bafc04c0902b3 SHA256: 0161ec51582cc1a67822e0ea6b17cc9705d4eb353d1bd77a90f2f8538be5522c SHA512: 5d8af4927efdc4505deee9a26148dd673f65ea56528baf81ff839ef0cfa31847aeeb45a713a1e42439e48415daeeac5561f64bc72318d90b360671099dcb8a6b Homepage: https://cran.r-project.org/package=pannotator Description: CRAN Package 'pannotator' (Visualisation and Annotation of 360 Degree Imagery) Provides a customisable R 'shiny' app for immersively visualising, mapping and annotating panospheric (360 degree) imagery. The flexible interface allows annotation of any geocoded images using up to 4 user specified dropdown menus. The app uses 'leaflet' to render maps that display the geo-locations of images and panellum , a lightweight panorama viewer for the web, to render images in virtual 360 degree viewing mode. Key functions include the ability to draw on & export parts of 360 images for downstream applications. Users can also draw polygons and points on map imagery related to the panoramic images and export them for further analysis. Downstream applications include using annotations to train Artificial Intelligence/Machine Learning (AI/ML) models and geospatial modelling and analysis of camera based survey data. Package: r-cran-panstarrs Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 499 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bit64, r-cran-checkmate, r-cran-curl, r-cran-data.table, r-cran-httr, r-cran-jsonlite Suggests: r-cran-dplyr, r-cran-knitr, r-cran-magick, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-panstarrs_0.2.2-1.ca2004.1_all.deb Size: 357340 MD5sum: 9910a24b56036c729fbe5abbab9fff59 SHA1: 90f8af887fddf0c84ff453dcb0be6f4a7b5308b4 SHA256: c29cffe683010d276e43ffc74d915a01e434906aa4f69782dd28c37fd2697d66 SHA512: 5dfc4c839121a71d9f636bc388e2ed8b1e9616ff03132cb04a5c41ff017d7afaff21c126b2678c4693a8f3a5aa6956f25e4f6c4854f609250692b68a85040f56 Homepage: https://cran.r-project.org/package=panstarrs Description: CRAN Package 'panstarrs' (Interface to the Pan-STARRS API) An interface to the API for 'Pan-STARRS1', a data archive of the PS1 wide-field astronomical survey. The package allows access to the PS1 catalog and to the PS1 images. (see for more information). You can use it to plan astronomical observations, make guidance pictures, find magnitudes in five broadband filters (g, r, i, z, y) and more. Package: r-cran-pantarhei Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1097 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tibble Filename: pool/dists/focal/main/r-cran-pantarhei_0.1.2-1.ca2004.1_all.deb Size: 550416 MD5sum: bf428fb0fbd0c8be6020090f37d9f20c SHA1: 34876addcd8289ac52059b2110d0fe58754544d2 SHA256: 837ebb5f68a24ef01d474370282406d0127a812607c330e7b56c965892a5cf24 SHA512: 40a1e4432ff16e53004847dab4939239b1419ebe71351b4df9419723dd5713ca7b90daf6fa56813c5c82e15dc328269129b0406b873bda62968087fb679d35dc Homepage: https://cran.r-project.org/package=PantaRhei Description: CRAN Package 'PantaRhei' (Plots Sankey Diagrams) Sankey diagrams are a powerfull and visually attractive way to visualize the flow of conservative substances through a system. They typically consists of a network of nodes, and fluxes between them, where the total balance in each internal node is 0, i.e. input equals output. Sankey diagrams are typically used to display energy systems, material flow accounts etc. Unlike so-called alluvial plots, Sankey diagrams also allow for cyclic flows: flows originating from a single node can, either direct or indirect, contribute to the input of that same node. This package, named after the Greek aphorism Panta Rhei (everything flows), provides functions to create publication-quality diagrams, using data in tables (or spread sheets) and a simple syntax. Package: r-cran-papaja Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2442 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tinylabels, r-cran-bookdown, r-cran-broom, r-cran-glue, r-cran-knitr, r-cran-rmarkdown, r-cran-rmdfiltr, r-cran-yaml, r-cran-zip Suggests: r-cran-afex, r-cran-bayesfactor, r-cran-beeswarm, r-cran-boot, r-cran-car, r-cran-dplyr, r-cran-effectsize, r-cran-emmeans, r-cran-ggforce, r-cran-ggplot2, r-cran-latex2exp, r-cran-lme4, r-cran-lmertest, r-cran-mass, r-cran-mbess, r-cran-multcomp, r-cran-nlme, r-cran-nnet, r-cran-r.rsp, r-cran-skimr, r-cran-spelling, r-cran-testthat, r-cran-vgam Filename: pool/dists/focal/main/r-cran-papaja_0.1.3-1.ca2004.1_all.deb Size: 1192020 MD5sum: bd357b8131a2c8e0ae8576b51d438ee6 SHA1: ca620bd8ba670b63c04a7ce4c0d1b86cdac40aeb SHA256: 3d75b57370ea9e503cdd024e33aac027ac0fdf8883f9baf43de28685680f3567 SHA512: 354b70a187d15b5e3abb79c605df9f29123d7a7120f9dd513bc8b44314b81e26c6d527a0d9208c28167569c68194660d483edc87f882663d67c3fce892572b15 Homepage: https://cran.r-project.org/package=papaja Description: CRAN Package 'papaja' (Prepare American Psychological Association Journal Articles withR Markdown) Tools to create dynamic, submission-ready manuscripts, which conform to American Psychological Association manuscript guidelines. We provide R Markdown document formats for manuscripts (PDF and Word) and revision letters (PDF). Helper functions facilitate reporting statistical analyses or create publication-ready tables and plots. Package: r-cran-papci Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyverse, r-cran-binom, r-cran-propcis, r-cran-ratesci, r-cran-hmisc, r-cran-shiny, r-cran-shinythemes, r-cran-readxl, r-cran-dt Filename: pool/dists/focal/main/r-cran-papci_0.1.0-1.ca2004.1_all.deb Size: 54036 MD5sum: 2827b45e73daba88646fde0faa3bc2ba SHA1: da89c9834fce99ff8258f626de08584b805c6928 SHA256: 3aab7c194de4cb6ffd32fc228ec359667757c4f2c6aa743f00251595ad98c302 SHA512: 19eda17d4d7aa3d531e4d14de2b7c780f6ef388d9e5fcdd52689ef6a9e36b735c90362c935ce2a283423cdd5540adba61fd596cd976a8623c7235663e8b31a22 Homepage: https://cran.r-project.org/package=papci Description: CRAN Package 'papci' (Prevalence Adjusted PPV Confidence Interval) Positive predictive value (PPV) defined as the conditional probability of clinical trial assay (CTA) being positive given Companion diagnostic device (CDx) being positive is a key performance parameter for evaluating the clinical validity utility of a companion diagnostic test in clinical bridging studies. When bridging study patients are enrolled based on CTA assay results, Binomial-based confidence intervals (CI) may are not appropriate for PPV CI estimation. Bootstrap CIs which are not restricted by the Binomial assumption may be used for PPV CI estimation only when PPV is not 100%. Bootstrap CI is not valid when PPV is 100% and becomes a single value of [1, 1]. We proposed a risk ratio-based method for constructing CI for PPV. By simulation we illustrated that the coverage probability of the proposed CI is close to the nominal value even when PPV is high and negative percent agreement (NPA) is close to 100%. There is a lack of R package for PPV CI calculation. we developed a publicly available R package along with this shiny app to implement the proposed approach and some other existing methods. 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You can import your own data with our import functions or use one of the example datasets to create your own PARAFAC models. Selection of the optimal number of components can be done using assessModelQuality() and assessModelStability(). The selected model can then be plotted using plotPARAFACmodel(). The Parallel Factor Analysis method was originally described by Caroll and Chang (1970) and Harshman (1970) . 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Detailed references to the R package and the web site are described in the methods, as detailed in the method documentation. 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The main operation is parallel mapping over lists. Supports 'local', 'multicore', 'mpi' and 'BatchJobs' mode. Allows tagging of the parallel operation with a level name that can be later selected by the user to switch on parallel execution for exactly this operation. 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The resulting outputs are the same as in 'SAS' software. A dataset (Butterfly) to test the function is also joined. 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Package: r-cran-paramgui Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-shinydashboard, r-cran-timp, r-cran-fields Filename: pool/dists/focal/main/r-cran-paramgui_2.2.0-1.ca2004.1_all.deb Size: 155168 MD5sum: f47cef6bb61630bac6490540219b5322 SHA1: eeada5b524ce5a683a6fe240dc882428afb72d43 SHA256: 63b9e7a7c4fed61d351baf1d813f4c2b2aa48bd72893dc14bf777dd8114561ea SHA512: 289f1ff02f072b4c295abd938b1d39ed96ec4ab2d6474c0bea10dcdca8dd0d9893958632ebe462c7732a808aa1d1512672773eb3e153efdac20040f107738473 Homepage: https://cran.r-project.org/package=paramGUI Description: CRAN Package 'paramGUI' (A Shiny GUI for some Parameter Estimation Examples) Allows specification and fitting of some parameter estimation examples inspired by time-resolved spectroscopy via a Shiny GUI. 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Currently supports linear and generalized linear models. 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Package: r-cran-paramlink2 Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 204 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pedtools, r-cran-pedprobr Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-paramlink2_1.0.6-1.ca2004.1_all.deb Size: 148164 MD5sum: 24e5833356ea896a9cc4d579d1a279ad SHA1: e0556867cb5d8d4676bbdc56e002df31babf816b SHA256: 6ac04219eb45a057caba0851a8b09b6f501347ba775466efb96a491cfe02c65a SHA512: a52e9bd62eea9432c9b7488789d339c145941cbff8135edd7458bd433f06e8e0c51e0741ed1dbe471617a9c9c44b54be9570a86e6a2f59b4d83292c2c1d1f391 Homepage: https://cran.r-project.org/package=paramlink2 Description: CRAN Package 'paramlink2' (Parametric Linkage Analysis) Parametric linkage analysis of monogenic traits in medical pedigrees. Features include singlepoint analysis, multipoint analysis via 'MERLIN' (Abecasis et al. (2002) ), visualisation of log of the odds (LOD) scores and summaries of linkage peaks. Disease models may be specified to accommodate phenocopies, reduced penetrance and liability classes. 'paramlink2' is part of the 'pedsuite' package ecosystem, presented in 'Pedigree Analysis in R' (Vigeland, 2021, ISBN:9780128244302). 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A suite of tools for analysing pedigrees with marker data, including parametric linkage analysis, forensic computations, relatedness analysis and marker simulations. The core of the package is an implementation of the Elston-Stewart algorithm for pedigree likelihoods, extended to allow mutations as well as complex inbreeding. Features for linkage analysis include singlepoint LOD scores, power analysis, and multipoint analysis (the latter through a wrapper to the 'MERLIN' software). Forensic applications include exclusion probabilities, genotype distributions and conditional simulations. Data from the 'Familias' software can be imported and analysed in 'paramlink'. Finally, 'paramlink' offers many utility functions for creating, manipulating and plotting pedigrees with or without marker data (the actual plotting is done by the 'kinship2' package). 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Package: r-cran-paramsim Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-forecast, r-cran-foreach, r-cran-doparallel, r-cran-future, r-cran-tibble Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-paramsim_0.1.0-1.ca2004.1_all.deb Size: 33356 MD5sum: a9a2d5f3fda86611765e514996b09809 SHA1: cec262e12dee8b417bf3e77cc6c7b0525812003d SHA256: fac47bfdfddbbac09a22aeab122971fc230bb679ea974bc891ae98260df63bf9 SHA512: 3862d5792d81e95db40a21b5d6b3ee002843377c6c1a8819bf87100860c2a0d1147533b2a9a891c9729a68fd65054fa81c40dfd6031c70e688565d77944a3818 Homepage: https://cran.r-project.org/package=paramsim Description: CRAN Package 'paramsim' (Parameterized Simulation) This function obtains a Random Number Generator (RNG) or collection of RNGs that replicate the required parameter(s) of a distribution for a time series of data. Consider the case of reproducing a time series data set of size 20 that uses an autoregressive (AR) model with phi = 0.8 and standard deviation equal to 1. When one checks the arima.sin() function's estimated parameters, it's possible that after a single trial or a few more, one won't find the precise parameters. This enables one to look for the ideal RNG setting for a simulation that will accurately duplicate the desired parameters. 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In particular, the package provides a non-trivial algorithm that can be used to match the expected losses of a tower of reinsurance layers with a layer-independent collective risk model. The theoretical background of the matching algorithm and most other methods are described in Ulrich Riegel (2018) . 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Package: r-cran-paris2024colours Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-paris2024colours_0.2.0-1.ca2004.1_all.deb Size: 47292 MD5sum: c237702f6e1def6fa5dc6afd13665df9 SHA1: 3ce0e44e360694653458b198720d70bb4da8c1ac SHA256: 8c4e3ea574bbcf210970251fa74425af1e5310b1c53d1e67abe0164fcd08ecc4 SHA512: 353fccf04fdc65fceca1be091a889b383dda78bbb8bcc2b811b1a5bf79e20f6a95ffb50bf0b0f6b68be89ca66ad69e21dfe5c22ff68a486d2a33114b75c0d285 Homepage: https://cran.r-project.org/package=Paris2024Colours Description: CRAN Package 'Paris2024Colours' (Color Palettes Inspired by Paris 2024 Olympic and ParalympicGames) Palettes inspired by Paris 2024 Olympic and Paralympic Games for data visualizations. Length of color palettes is configurable. 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You provide a function wrapper for your 'RSelenium' scraping routine with a set of inputs, and 'parsel' runs it in several browser instances. Chunked input processing as well as error catching and logging ensures seamless execution and minimal data loss, even when unforeseen 'RSelenium' errors occur. You can additionally build safe scraping functions with minimal coding by utilizing constructor functions that act as wrappers around 'RSelenium' methods. 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The model belong to the semiparametric class, that including a parametric and nonparametric component. The error term considered belongs to the scale-mixture of normal (SMN) distribution, that includes well-known heavy tails distributions as the Student-t distribution, among others. To examine the performance of the fitted model, case-deletion and local influence techniques are provided to show its robust aspect against outlying and influential observations. This work is based in Ferreira, C. S., & Paula, G. A. (2017) but considering the SMN family. 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A full derivation and explanation of the statistical corrections used here is available in Clark et al. (2019) . 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'patchwork' is a package that expands the API to allow for arbitrarily complex composition of plots by, among others, providing mathematical operators for combining multiple plots. Other packages that try to address this need (but with a different approach) are 'gridExtra' and 'cowplot'. Package: r-cran-patentsview Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-patentsview_0.3.0-1.ca2004.1_all.deb Size: 84416 MD5sum: a12252cac5149dafaca47625cc94652f SHA1: 48e7bc84b0465167a8c44a494509da79059466eb SHA256: a169de096e1826e1badc1d7ef09089f803b845626861f1143987ca1fede06651 SHA512: 94b37718821df13ac7c3a48a97adb33ebd649b2e66c10d00845aabca3522c57db60d88bf75a27906456869ef7dba313355a266b9508291e792bad6dcff108d5a Homepage: https://cran.r-project.org/package=patentsview Description: CRAN Package 'patentsview' (An R Client to the 'PatentsView' API) Provides functions to simplify the 'PatentsView' API () query language, send GET and POST requests to the API's seven endpoints, and parse the data that comes back. Package: r-cran-path.analysis Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2686 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-corrr, r-cran-corrplot, r-cran-hmisc, r-cran-gplots, r-cran-mathjaxr, r-cran-pastecs, r-cran-diagrammer, r-bioc-complexheatmap, r-cran-metan Suggests: r-cran-car, r-cran-ggplot2, r-cran-devtools, r-cran-usethis, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling Filename: pool/dists/focal/main/r-cran-path.analysis_0.1-1.ca2004.1_all.deb Size: 639036 MD5sum: a1981e37efc8cfe85d46742d5071f7c4 SHA1: 2e573a1266e6fc7b6c66263d7c3dc67cb67a9593 SHA256: b1bd200a19f4768f7de96481e2afd53880f635c028fb6a14f35cb0a45531dcf1 SHA512: a931c39df38b3f91cc16706adb985df25547f4b1b5ed6e53233bdfe433f0a247757457e931d574c0e42de25665c0a86c7cbfaf07bbfe8caeb098f24a669c3840 Homepage: https://cran.r-project.org/package=Path.Analysis Description: CRAN Package 'Path.Analysis' (Path Coefficient Analysis) Facilitates the performance of several analyses, including simple and sequential path coefficient analysis, correlation estimate, drawing correlogram, Heatmap, and path diagram. When working with raw data, that includes one or more dependent variables along with one or more independent variables are available, the path coefficient analysis can be conducted. It allows for testing direct effects, which can be a vital indicator in path coefficient analysis. The process of preparing the dataset rule is explained in detail in the vignette file "Path.Analysis_manual.Rmd". You can find this in the folders labelled "data" and "~/inst/extdata". Also see: 1)the 'lavaan', 2)a sample of sequential path analysis in 'metan' suggested by Olivoto and Lúcio (2020) , 3)the simple 'PATHSAS' macro written in 'SAS' by Cramer et al. (1999) , and 4)the semPlot() function of 'OpenMx' as initial tools for conducting path coefficient analyses and SEM (Structural Equation Modeling). To gain a comprehensive understanding of path coefficient analysis, both in theory and practice, see a 'Minitab' macro developed by Arminian, A. in the paper by Arminian et al. (2008) . Package: r-cran-path.chain Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 336 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rlang, r-cran-stringi Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-config, r-cran-yaml, r-cran-fs, r-cran-magrittr, r-cran-logger Filename: pool/dists/focal/main/r-cran-path.chain_1.0.0-1.ca2004.1_all.deb Size: 192248 MD5sum: 8212538c3a9a98a3bd2d4f7bca7ece35 SHA1: e99dfce918ff83309cb06d19d78ce1628e696278 SHA256: 02b0e8ba9ae3d3d5f4ff1a90f0cf144d214238aa75d5dca17a25f1f91fc16e6d SHA512: 2b42c14d7ada8654d122d5a7c3024a963076fa15d99345e297a1b3334123ab46c27c409fb8192abb46658208c4e1cdcd610395beddbf698cdbe84d2c2bd45989 Homepage: https://cran.r-project.org/package=path.chain Description: CRAN Package 'path.chain' (Concise Structure for Chainable Paths) Provides path_chain class and functions, which facilitates loading and saving directory structure in YAML configuration files via 'config' package. The file structure you created during exploration can be transformed into legible section in the config file, and then easily loaded for further usage. Package: r-cran-pathdiagram Architecture: all Version: 0.1.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 365 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shape Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-pathdiagram_0.1.9.1-1.ca2004.1_all.deb Size: 279560 MD5sum: db3e511bc94a9cdf1a86721a0db455ef SHA1: ce1ca7c4c8017a30ced56b3d47ae355fb83148c2 SHA256: 7130d9c20f64b2782d5e8b3e4fcb5acf7587bbcd50f5c516865bd36d3f26c744 SHA512: 6fd27fabc46f83f0f4fec17bee1e0ac35c26a2055baa0757e78fa28cc1d1ba0dbec34789d0a223cd0163239829527649d42418a38b1eea75e20f1ef5161545d3 Homepage: https://cran.r-project.org/package=pathdiagram Description: CRAN Package 'pathdiagram' (Basic Functions for Drawing Path Diagrams) Implementation of simple functions to draw basic path diagrams just for visualization purposes. Package: r-cran-pathfindr.data Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5191 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pathfindr.data_2.1.0-1.ca2004.1_all.deb Size: 5274960 MD5sum: 784a7557e4c1cf2fb4291d4ccae87c52 SHA1: a7f5a68079f195f5700ede641d42f6963e789bca SHA256: b93c26d1f8f562626c33540433ceef6335dc08c52aa788ad2911ea0bd19899b8 SHA512: 92c0b2ee46e5697a19dcb1d3e196cef78e15c624618d9769f9f10585405585bed18c456b3205ec8c61b01b4c9cfe73612f1fc54eb60d42817be8e07e383b072b Homepage: https://cran.r-project.org/package=pathfindR.data Description: CRAN Package 'pathfindR.data' (Data Package for 'pathfindR') This is a data-only package, containing data needed to run the CRAN package 'pathfindR', a package for enrichment analysis utilizing active subnetworks. This package contains protein-protein interaction network data, data related to gene sets and example input/output data. Package: r-cran-pathfindr Architecture: all Version: 2.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3155 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-pathfindr.data, r-cran-dbi, r-bioc-annotationdbi, r-cran-doparallel, r-cran-foreach, r-cran-rmarkdown, r-bioc-org.hs.eg.db, r-cran-ggplot2, r-cran-ggraph, r-cran-ggupset, r-cran-fpc, r-bioc-ggkegg, r-cran-httr, r-cran-igraph, r-cran-r.utils, r-cran-msigdbr, r-cran-knitr Suggests: r-cran-testthat, r-cran-covr, r-cran-mockery Filename: pool/dists/focal/main/r-cran-pathfindr_2.5.0-1.ca2004.1_all.deb Size: 1893124 MD5sum: 20afc5f3b8b5ab397fd86fa67e96d85a SHA1: 8ed5fb95a52fd41ba3ddb833b2252e1c4ab9e13d SHA256: abdda2eab13ae9ce9eef3ea5ef382d3bb47694429b8ef4c2ef53a113694e2e28 SHA512: fde7be9696eb585477ba107a5b3abf36d34d5b427b412f02f7b93f0641bf4cfb45a22da213bc4a6e7fe60f984dfb4cb8cbd3bc872f368e6f7cbe2f654b4d1683 Homepage: https://cran.r-project.org/package=pathfindR Description: CRAN Package 'pathfindR' (Enrichment Analysis Utilizing Active Subnetworks) Enrichment analysis enables researchers to uncover mechanisms underlying a phenotype. However, conventional methods for enrichment analysis do not take into account protein-protein interaction information, resulting in incomplete conclusions. 'pathfindR' is a tool for enrichment analysis utilizing active subnetworks. The main function identifies active subnetworks in a protein-protein interaction network using a user-provided list of genes and associated p values. It then performs enrichment analyses on the identified subnetworks, identifying enriched terms (i.e. pathways or, more broadly, gene sets) that possibly underlie the phenotype of interest. 'pathfindR' also offers functionalities to cluster the enriched terms and identify representative terms in each cluster, to score the enriched terms per sample and to visualize analysis results. The enrichment, clustering and other methods implemented in 'pathfindR' are described in detail in Ulgen E, Ozisik O, Sezerman OU. 2019. 'pathfindR': An R Package for Comprehensive Identification of Enriched Pathways in Omics Data Through Active Subnetworks. Front. Genet. . Package: r-cran-pathlibr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-magrittr, r-cran-glue, r-cran-logging, r-cran-rlang, r-cran-purrr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pathlibr_0.1.0-1.ca2004.1_all.deb Size: 65856 MD5sum: 3d39b03d9083caefc353ff7a3530fd15 SHA1: 4f64a5b536bf5591f880605c52a73d140288375a SHA256: 4e388e68279c3fe0d0b55b7eb7318cf0a7001ad6b3d0fa171baa4aceee1f65e7 SHA512: 65917f9945afca1df74576cf070808cc4b8ed69b4a3b61e10c4f3880059fd36e407aa33b2bcaaaca1a0f03a4dafeac5264a6e013b50af416ffb9258976336bf4 Homepage: https://cran.r-project.org/package=pathlibr Description: CRAN Package 'pathlibr' (OO Path Manipulation in R) An OO Interface for path manipulation, emulating pythons "pathlib". Package: r-cran-pathlit Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-timeseries, r-cran-testthat, r-cran-usethis Filename: pool/dists/focal/main/r-cran-pathlit_0.1.0-1.ca2004.1_all.deb Size: 31304 MD5sum: 41123099a529f405e51ce0cce44a390a SHA1: 53fe4ff82e2596e26adca689e2d4c66df789fca1 SHA256: 58083cc12ee4b9d2d8caedcc1cdd8726d557981e6bee930050a5de0a1a726b1a SHA512: 5d257f91f927840a3c1d0d011c95d46f815bbf61be8f43190a31d70f1051d7f79d3ee1ffd8f34d9deceb1177fc2d33ed28da6be06a5f195f86acf66c68ebd708 Homepage: https://cran.r-project.org/package=pathlit Description: CRAN Package 'pathlit' (An SDK for the PathLit Engine) This wrapper houses PathLit API endpoints for R. The usage of these endpoints require the use of an API key which can be obtained at . Package: r-cran-pathmodelfit Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lavaan Filename: pool/dists/focal/main/r-cran-pathmodelfit_1.0.5-1.ca2004.1_all.deb Size: 26368 MD5sum: 206319f008a66186590ccd6a3783a297 SHA1: 49d285c69fac5bdf5df7039b3deb4c69f534055c SHA256: 75c2c161b952369354f84b4fc44dc4f7c081ff2ff79069b17387097597b7f75d SHA512: ad848f52758f12e979ed190f6ce8084f246d22e75f2bdc5240714424b2789582d451046775ed113a896ea09d32bcc4b43b56db9cc785c5a8d505ecc25fe38339 Homepage: https://cran.r-project.org/package=pathmodelfit Description: CRAN Package 'pathmodelfit' (Path Component Fit Indices for Latent Structural Equation Models) Functions for computing fit indices for evaluating the path component of latent variable structural equation models. Available fit indices include RMSEA-P and NSCI-P originally presented and evaluated by Williams and O'Boyle (2011) and demonstrated by O'Boyle and Williams (2011) and Williams, O'Boyle, & Yu (2020) . Also included are fit indices described by Hancock and Mueller (2011) . Package: r-cran-paths Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 169 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bart, r-cran-boot, r-cran-gbm, r-cran-ggplot2, r-cran-metr, r-cran-pryr, r-cran-twang, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-paths_0.1.1-1.ca2004.1_all.deb Size: 121760 MD5sum: 0d69fbe5b65461c1b387f82f80074e10 SHA1: dea0d1e332a14a04dc957943117f4909aa20c59f SHA256: 553dd6b3c51b66787577f024aacac7303804d85d6fd87dd6b83a3f30c21e826c SHA512: ba5c2ba834d8c56b1ad7a02ce8bf5a89a22435678416569872e83584348fb98b0c2d2051e178d80bcafabbf50979fba82161eaa67d752bfbcc5a21a90fdc9490 Homepage: https://cran.r-project.org/package=paths Description: CRAN Package 'paths' (An Imputation Approach to Estimating Path-Specific CausalEffects) In causal mediation analysis with multiple causally ordered mediators, a set of path-specific effects are identified under standard ignorability assumptions. This package implements an imputation approach to estimating these effects along with a set of bias formulas for conducting sensitivity analysis (Zhou and Yamamoto ). It contains two main functions: paths() for estimating path-specific effects and sens() for conducting sensitivity analysis. Estimation uncertainty is quantified using the nonparametric bootstrap. Package: r-cran-pathselectmp Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 266 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mice, r-cran-mplusautomation Filename: pool/dists/focal/main/r-cran-pathselectmp_1.1-1.ca2004.1_all.deb Size: 238736 MD5sum: b787d8481a5d730a2551a534f9853d3d SHA1: 85427bab1e5c0e000a97c47cea8d88ada3e9f3f6 SHA256: 52dd7d4501e4d63c2ffd56ce4d5ad533ba9f608bc98db274db7688350bc3fb01 SHA512: 75d9d62cbe60359bcaa38a42a1e909899c5f62588e6d41765847c1c5463e4e1c7677ad08c2a558c3737f1f4dd0a01bcb2f34f65cd630476b6228296a63556598 Homepage: https://cran.r-project.org/package=PathSelectMP Description: CRAN Package 'PathSelectMP' (Backwards Variable Selection for Paths using M Plus) Primarily for use with datasets containing only categorical variables, although continuous variables may be included as independent variables in paths. Using M Plus, backward variable selection is performed on all Total, Total Indirect, and then Direct effects until none of these effects have p-values greater than the specified target p-value. If there are missing values in the data, imputations are performed using the Mice package. Then selection is performed with the imputed data sets, and results are averaged. Package: r-cran-pathviewr Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3355 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-r.matlab, r-cran-data.table, r-cran-magrittr, r-cran-dplyr, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-fancova, r-cran-purrr, r-cran-ggplot2, r-cran-tidyselect, r-cran-cowplot, r-cran-lubridate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-anomalize, r-cran-covr Filename: pool/dists/focal/main/r-cran-pathviewr_1.1.8-1.ca2004.1_all.deb Size: 2183872 MD5sum: 59341db41fd8bd882636275e7e1b550b SHA1: 986ec5aa5250e9e6e4772ebcf7872b85766e1664 SHA256: 7849e88fa7f35f88ee19841a2c883c02d429de0131d03b30ef58c26ae3af2ddf SHA512: 1492112272277ccf39133d0650259be105ca472d0b7b026a28b3023208b938f880956bbe04fa7ba8310a5bfc7da13007fd5686446671d9cbccf2ac1cb9335737 Homepage: https://cran.r-project.org/package=pathviewr Description: CRAN Package 'pathviewr' (Wrangle, Analyze, and Visualize Animal Movement Data) Tools to import, clean, and visualize movement data, particularly from motion capture systems such as Optitrack's 'Motive', the Straw Lab's 'Flydra', or from other sources. We provide functions to remove artifacts, standardize tunnel position and tunnel axes, select a region of interest, isolate specific trajectories, fill gaps in trajectory data, and calculate 3D and per-axis velocity. For experiments of visual guidance, we also provide functions that use subject position to estimate perception of visual stimuli. Package: r-cran-pathwayspace Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4708 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rgraphspace, r-cran-scales, r-cran-igraph, r-cran-rann, r-cran-ggplot2, r-cran-ggrepel, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-reder Filename: pool/dists/focal/main/r-cran-pathwayspace_1.0.1-1.ca2004.1_all.deb Size: 3434980 MD5sum: 3d09c8f33c2aa61c4c3c9efd6fc9d445 SHA1: ecb98e51ff35665e96681a071077a8cf44c68896 SHA256: 4db810be60f72eae0f2f0c8f55187e527636365d66357ee4ee7ae8235750acce SHA512: f08d4654b1b6e6f2a2837ba68bf593492d3725160aea316772f62e724cfe875c57b237fa47411b0a27067690025d616b8c5f8f0e7d27d355483d8d505ce47075 Homepage: https://cran.r-project.org/package=PathwaySpace Description: CRAN Package 'PathwaySpace' (Spatial Projection of Network Signals along Geodesic Paths) For a given graph containing vertices, edges, and a signal associated with the vertices, the 'PathwaySpace' package performs a convolution operation, which involves a weighted combination of neighboring vertices and their associated signals. The package then uses a decay function to project these signals, creating geodesic paths on a 2D-image space. 'PathwaySpace' could have various applications, such as visualizing and analyzing network data in a graphical format that highlights the relationships and signal strengths between vertices. It can be particularly useful for understanding the influence of signals through complex networks. By combining graph theory, signal processing, and visualization, the 'PathwaySpace' package provides a novel way of representing and analyzing graph data. Package: r-cran-pathwaytmb Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1936 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-bioc-biocgenerics, r-cran-purrr, r-cran-glmnet, r-cran-randomforest, r-cran-survival, r-cran-survminer, r-cran-caret, r-cran-data.table, r-cran-rcolorbrewer, r-cran-proc, r-bioc-maftools, r-bioc-clusterprofiler Suggests: r-cran-stringi, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-biocmanager, r-cran-xfun, r-cran-e1071, r-cran-qpdf, r-cran-tinytex, r-cran-spelling Filename: pool/dists/focal/main/r-cran-pathwaytmb_0.1.3-1.ca2004.1_all.deb Size: 777688 MD5sum: 1800869045d6d705c92e07a630141f0b SHA1: 117cdb2a9cdd59d73d98ae0ed03035347ec1c469 SHA256: dcd2222fe359a27bfbafdec2491d57da905f8c3df2772d9290d225f2b7c19416 SHA512: 4bdaca0a46595109b77a092b79c7a1a6b435bd454776c3386c20a092dd16a4831906c87f41e875ab7d187fdcfb775e43db2166740801c1f3bced702244ba93a4 Homepage: https://cran.r-project.org/package=pathwayTMB Description: CRAN Package 'pathwayTMB' (Pathway Based Tumor Mutational Burden) A systematic bioinformatics tool to develop a new pathway-based gene panel for tumor mutational burden (TMB) assessment (pathway-based tumor mutational burden, PTMB), using somatic mutations files in an efficient manner from either The Cancer Genome Atlas sources or any in-house studies as long as the data is in mutation annotation file (MAF) format. Besides, we develop a multiple machine learning method using the sample's PTMB profiles to identify cancer-specific dysfunction pathways, which can be a biomarker of prognostic and predictive for cancer immunotherapy. Package: r-cran-pathwayvote Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-annotationdbi, r-bioc-clusterprofiler, r-cran-future, r-cran-furrr, r-bioc-go.db, r-bioc-org.hs.eg.db, r-cran-parallelly, r-bioc-reactome.db Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pathwayvote_0.1.1-1.ca2004.1_all.deb Size: 58816 MD5sum: e180541b6042296ee45aef6c931ff58c SHA1: c620fbfe3fa521227ea1aac674e3806612ca47c6 SHA256: 30f0456869011060bcbd5e6e85bb1dce78c37c8cb7d63eeaae4e8544027052ea SHA512: 821417c9c8220217190a9a14f4b4b2ace178be86b992c0b15f3dda3b2a19271dbc827941e313576cdb7c64c88b458ebc1d68456190bb79db3689c7d5967a8972 Homepage: https://cran.r-project.org/package=PathwayVote Description: CRAN Package 'PathwayVote' (Robust Pathway Enrichment for DNA Methylation Studies UsingEnsemble Voting) Performs pathway enrichment analysis using a voting-based framework that integrates CpG–gene regulatory information from expression quantitative trait methylation (eQTM) data. For a grid of top-ranked CpGs and filtering thresholds, gene sets are generated and refined using an entropy-based pruning strategy that balances information richness, stability, and probe bias correction. In particular, gene lists dominated by genes with disproportionately high numbers of CpG mappings are penalized to mitigate active probe bias—a common artifact in methylation data analysis. Enrichment results across parameter combinations are then aggregated using a voting scheme, prioritizing pathways that are consistently recovered under diverse settings and robust to parameter perturbations. Package: r-cran-patientlevelprediction Architecture: all Version: 6.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3243 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-andromeda, r-cran-cyclops, r-cran-databaseconnector, r-cran-digest, r-cran-dplyr, r-cran-featureextraction, r-cran-matrix, r-cran-memuse, r-cran-parallellogger, r-cran-proc, r-cran-prroc, r-cran-rlang, r-cran-sqlrender, r-cran-tidyr Suggests: r-cran-curl, r-cran-eunomia, r-cran-glmnet, r-cran-ggplot2, r-cran-gridextra, r-cran-iterativehardthresholding, r-cran-knitr, r-cran-lightgbm, r-cran-metrics, r-cran-mgcv, r-cran-ohdsishinyappbuilder, r-cran-polspline, r-cran-readr, r-cran-resourceselection, r-cran-resultmodelmanager, r-cran-reticulate, r-cran-rmarkdown, r-cran-rsqlite, r-cran-scoring, r-cran-survival, r-cran-survminer, r-cran-testthat, r-cran-withr, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-patientlevelprediction_6.4.1-1.ca2004.1_all.deb Size: 2160200 MD5sum: ceff43e46c73d48550325f1e8073fcea SHA1: 733d9869dac0a5c3b515723b975c88026c82dee0 SHA256: 913e8a3535930dbeabaefbbe384b4091eb2100b7f1b6cfd9b49b45f9cd422d60 SHA512: 572c879acd1cb7bd2096dc3ab7cf4228c9aa406c9af99809312508fe30765c8dd946d2985175094a0e14fd4451d69a5e8c45755116784694c3fa09e5598dd025 Homepage: https://cran.r-project.org/package=PatientLevelPrediction Description: CRAN Package 'PatientLevelPrediction' (Develop Clinical Prediction Models Using the Common Data Model) A user friendly way to create patient level prediction models using the Observational Medical Outcomes Partnership Common Data Model. Given a cohort of interest and an outcome of interest, the package can use data in the Common Data Model to build a large set of features. These features can then be used to fit a predictive model with a number of machine learning algorithms. This is further described in Reps (2017) . Package: r-cran-patientprofiles Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3879 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cdmconnector, r-cran-cli, r-cran-dplyr, r-cran-lifecycle, r-cran-omopgenerics, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr Suggests: r-cran-bit64, r-cran-codelistgenerator, r-cran-covr, r-cran-dbi, r-cran-dbplyr, r-cran-dt, r-cran-duckdb, r-cran-ggplot2, r-cran-glue, r-cran-gt, r-cran-here, r-cran-hmisc, r-cran-knitr, r-cran-odbc, r-cran-omock, r-cran-patchwork, r-cran-rmarkdown, r-cran-rpostgres, r-cran-scales, r-cran-spelling, r-cran-testthat, r-cran-tictoc, r-cran-withr Filename: pool/dists/focal/main/r-cran-patientprofiles_1.4.1-1.ca2004.1_all.deb Size: 728928 MD5sum: c4d7e7f8df3c0f9d0c85c6ad4d0759d7 SHA1: d37c42177ee35989a3b3e465debdc927bad4be8b SHA256: 58c927ef7ec4dd1bda21998c0f7ebec186d257da5336e80f2f531a25740eba8a SHA512: ca11f9e869126f83d83fe435cb668b05d3748f6806f4809b72c748d9c920f6326e00cd01918e42497bd69b91eebe82878bb70d3c78b6be2bdea8b5b41986a62a Homepage: https://cran.r-project.org/package=PatientProfiles Description: CRAN Package 'PatientProfiles' (Identify Characteristics of Patients in the OMOP Common DataModel) Identify the characteristics of patients in data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model. Package: r-cran-patientprofilesvis Architecture: all Version: 2.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5645 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-clinutils, r-cran-ggplot2, r-cran-plyr, r-cran-cowplot, r-cran-reshape2, r-cran-knitr, r-cran-stringr, r-cran-gridextra, r-cran-scales Suggests: r-cran-pander, r-cran-shiny, r-cran-testthat, r-cran-rmarkdown, r-cran-gtable, r-cran-pdftools, r-cran-viridislite Filename: pool/dists/focal/main/r-cran-patientprofilesvis_2.0.9-1.ca2004.1_all.deb Size: 2438952 MD5sum: 264adbc3febca554e506b36fedbaf05f SHA1: c268722c3eb62fa738f106bc5c0389fd9d64940d SHA256: be2060f5a436e55f1281d91367427cdb3bd3846b02cde798f444b1c343cc0f20 SHA512: 09d03819a1c4a2156c1e4b7469de814703bf9f928487b2f3bb11b2faa0bbc84a1ec027fb12cb339da98d9391ee8164764755ffb6f3412e5c6825723fce66617d Homepage: https://cran.r-project.org/package=patientProfilesVis Description: CRAN Package 'patientProfilesVis' (Visualization of Patient Profiles) Creation of patient profile visualizations for exploration, diagnostic or monitoring purposes during a clinical trial. These static visualizations display a patient-specific overview of the evolution during the trial time frame of parameters of interest (as laboratory, ECG, vital signs), presence of adverse events, exposure to a treatment; associated with metadata patient information, as demography, concomitant medication. The visualizations can be tailored for specific domain(s) or endpoint(s) of interest. Visualizations are exported into patient profile report(s) or can be embedded in custom report(s). Package: r-cran-patpro Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-ggplot2, r-cran-gridextra, r-cran-plyr, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-patpro_1.1.0-1.ca2004.1_all.deb Size: 107652 MD5sum: 153b3a505223db86b597db1e8d02bcdb SHA1: c56d126c768f5af5e5ee5252d8ed476ad4ff68af SHA256: d30a087b5043133e8b9d90e627dde074bfcb8e42340374387a90c5c788eff2c4 SHA512: 70e5acca8878640dcd230f4848dff7e1688fdebf8a9583a476ce4eb0662e39dc4774850e33494a4332e5ec913ec3395b039a6845d62807d0dba06b92a2d4860a Homepage: https://cran.r-project.org/package=patPRO Description: CRAN Package 'patPRO' (Visualizing Temporal Microbiome Data) Quickly and easily visualize longitudinal microbiome profiles using standard output from the QIIME microbiome analysis toolkit (see for more information). Package: r-cran-patrick Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-purrr, r-cran-rlang, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-patrick_0.3.0-1.ca2004.1_all.deb Size: 21352 MD5sum: 5436b20cb2db326d7fe753a0c80e1a2d SHA1: 23d09b2104bb03fcd1bb4fd9f4bd9302c8a778d0 SHA256: bab74d6ae8006e7518d4e4622bffbb4ec247df9e4e7589205ae50e90e94010eb SHA512: 3e8c0e8ad4418de661906e5e9a0927125c82894635a3e2daad0b831424cf91d42568d93797b93f944e7804757f57e3c43a31b8e303d6752bf37d1b0c9343825d Homepage: https://cran.r-project.org/package=patrick Description: CRAN Package 'patrick' (Parameterized Unit Testing) This is an extension of the 'testthat' package that lets you add parameters to your unit tests. Parameterized unit tests are often easier to read and more reliable, since they follow the DNRY (do not repeat yourself) rule. Package: r-cran-pattern.checks Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pattern.checks_0.1.0-1.ca2004.1_all.deb Size: 23608 MD5sum: 2ed63c893175d673026f4f5f5cd9741e SHA1: 16a8f0c7d3734ada6a92a654ffd9f33e06e3d286 SHA256: 2f48016b440268727baa697c90670d194b84de76a1acd522aab832671cec8e5e SHA512: 18c0dd2071ad440f0692dddece14149e5dd587e88e14bce432c60629cf8694441355d73987d429786dbc845cf0625ef50708514bf543e2b8fc3ab43b5260eb8e Homepage: https://cran.r-project.org/package=pattern.checks Description: CRAN Package 'pattern.checks' (Identifies Patterned Responses in Scales) Identifies the entries with patterned responses for psychometric scales. The patterns included in the package are identical (a, a, a), ascending (a, b, c), descending (c, b, a), alternative (a, b, a, b / a, b, c, a, b, c). Package: r-cran-patternator Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Suggests: r-cran-plyr Filename: pool/dists/focal/main/r-cran-patternator_0.1.0-1.ca2004.1_all.deb Size: 29080 MD5sum: fd40c89c2c02d13843e2b618bcc3ea8f SHA1: 09f9b746609e6c8a2b856b1b2d51fc5f6f808c2f SHA256: 1e1b728eb9a4c9e4bf386cf66053ef977050f0d2e9c4f3d4b472f4c15ae7a1cb SHA512: 9aa75515b79bbe7f8a7714447051806fb621661ae433f637579f0f4f32653bf3330e4685f32fec7a2e6d0120c1c11cd3f4d9d123b18727d15874d8bc93635327 Homepage: https://cran.r-project.org/package=patternator Description: CRAN Package 'patternator' (Feature Extraction from Female Brown Anole Lizard DorsalPatterns) Provides a set of functions to efficiently recognize and clean the continuous dorsal pattern of a female brown anole lizard (Anolis sagrei) traced from 'ImageJ', an open platform for scientific image analysis (see for more information), and extract common features such as the pattern sinuosity indices, coefficient of variation, and max-min width. Package: r-cran-patterncausality Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3929 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-plot3d, r-cran-ggplot2, r-cran-reshape2, r-cran-ggthemes, r-cran-tidyr, r-cran-statebins, r-cran-ggrepel, r-cran-rcolorbrewer, r-cran-scales, r-cran-gridextra Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat, r-cran-lintr, r-cran-zoo Filename: pool/dists/focal/main/r-cran-patterncausality_0.2.1-1.ca2004.1_all.deb Size: 3348948 MD5sum: 0ed864823c1ff84aae4456ed35829928 SHA1: 8fb3b760eb991cbac6b5e2a8e45b532809acf6ba SHA256: e425ce6e9d2049b0125bfc6c43613a524342cca1c937b70b6f0968ab386dbd68 SHA512: 0c58287cda39297fc101c1da8160c5da94dde29e1334cb17b656fe15447ba6a3016ed91b649f9233f085c13dc084c324eb7c94fb023eccbb00e4f06237cf7e9b Homepage: https://cran.r-project.org/package=patterncausality Description: CRAN Package 'patterncausality' (Pattern Causality Algorithm) A comprehensive package for detecting and analyzing causal relationships in complex systems using pattern-based approaches. Key features include state space reconstruction, pattern identification, and causality strength evaluation. Package: r-cran-patternize Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 923 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-raster, r-cran-sp, r-cran-sf, r-cran-abind, r-cran-morpho, r-cran-dplyr, r-cran-imager, r-cran-magrittr, r-cran-purrr, r-cran-vegan, r-cran-rniftyreg, r-cran-geomorph, r-cran-clusterr Filename: pool/dists/focal/main/r-cran-patternize_0.0.5-1.ca2004.1_all.deb Size: 808088 MD5sum: b04b64689c6d62d068d271a25686efe6 SHA1: b71adf77535b9701e68f9001e42f9261ec37e839 SHA256: 2cceea9a600c49672de2931c926ddb755560ca8df8997f1658ccc4c67ef53ffd SHA512: c4633fc1b87758dd3d808199f073ad60f7d0ed4d78f1c7b296d531f149d1ff988d2a264ba47b59f0fb0b64f0113be5166c162e3eb8bf00b049b3d6fef52ee8a2 Homepage: https://cran.r-project.org/package=patternize Description: CRAN Package 'patternize' (Quantification of Color Pattern Variation) Quantification of variation in organismal color patterns as obtained from image data. Patternize defines homology between pattern positions across images either through fixed landmarks or image registration. Pattern identification is performed by categorizing the distribution of colors using RGB thresholds or image segmentation. Package: r-cran-patterns Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2337 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-abind, r-cran-cluster, r-cran-e1071, r-cran-gplots, r-cran-igraph, r-cran-jetset, r-cran-lars, r-cran-lattice, r-bioc-limma, r-bioc-mfuzz, r-cran-movmf, r-cran-nnls, r-cran-plotrix, r-cran-repmis, r-cran-selectboost, r-cran-tnet, r-cran-vgam, r-cran-wgcna Suggests: r-cran-animation, r-bioc-biobase, r-bioc-biomart, r-cran-c060, r-cran-cascadedata, r-cran-elasticnet, r-cran-glmnet, r-cran-knitr, r-cran-pixmap, r-cran-r.rsp, r-cran-rmarkdown, r-cran-spls Filename: pool/dists/focal/main/r-cran-patterns_1.5-1.ca2004.1_all.deb Size: 1515444 MD5sum: 558140501583cded426d515d71c2ebf1 SHA1: cfa9b2a45e24a6de8e53f20e70f7eecb87a46baf SHA256: 49e83aa8bc5ef095df858adcbbb9b62445c63216196ec5d61882922283542386 SHA512: f4614bb8268ca1fc52480fd1556bbf845d330c29c475a3042865cf1d4840a0fb7eb203867e01d33017495fc618fbba80bf936b78fd9e643db2c6e8ac93b2ca6b Homepage: https://cran.r-project.org/package=Patterns Description: CRAN Package 'Patterns' (Deciphering Biological Networks with Patterned HeterogeneousMeasurements) A modeling tool dedicated to biological network modeling (Bertrand and others 2020, ). It allows for single or joint modeling of, for instance, genes and proteins. It starts with the selection of the actors that will be the used in the reverse engineering upcoming step. An actor can be included in that selection based on its differential measurement (for instance gene expression or protein abundance) or on its time course profile. Wrappers for actors clustering functions and cluster analysis are provided. It also allows reverse engineering of biological networks taking into account the observed time course patterns of the actors. Many inference functions are provided and dedicated to get specific features for the inferred network such as sparsity, robust links, high confidence links or stable through resampling links. Some simulation and prediction tools are also available for cascade networks (Jung and others 2014, ). Example of use with microarray or RNA-Seq data are provided. 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This package can also convert a given proper and equireplicate block design into a position balanced or nearly position balanced block design. Package: r-cran-pbcc Architecture: all Version: 0.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rgenoud, r-cran-ggplot2, r-cran-qcc, r-cran-ggpubr Filename: pool/dists/focal/main/r-cran-pbcc_0.0.7-1.ca2004.1_all.deb Size: 63468 MD5sum: 796dfda1136d62f218f1d4f95ef31d5e SHA1: 97374a5fbdfa056e2f8e689dda5c6d74bb77d659 SHA256: 4a3e56dbbc584a8b562abb786acc4cf9d9b52248dd0e9a3a1fac1d7c4e189bba SHA512: 6874cf9dd382e544fe7921e7bae7a913239d6b8510f942f1899d3120548a39f411dea51ef4725bc2731f6f4926cb1670f0e671f16809b08cad6f576f98ebbd12 Homepage: https://cran.r-project.org/package=pbcc Description: CRAN Package 'pbcc' (Percentile-Based Control Chart) Design and implementation of Percentile-based Shewhart Control Charts for continuous data. Faraz (2019) . 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Package: r-cran-pbimisc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1795 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lme4, r-cran-matrix Suggests: r-cran-ggplot2, r-cran-ca, r-cran-lattice Filename: pool/dists/focal/main/r-cran-pbimisc_1.0-1.ca2004.1_all.deb Size: 1780396 MD5sum: 094b9dd3f4138e3ca5831ae706d2abb4 SHA1: e660c712f7ae561a746fb10e9c21aa6142243856 SHA256: 038f282219ea2b7d33562572e2b5cf6ae968161c582eee2af4a5d8bf096db7fd SHA512: ad52c999add1c8612a318fb38f15184cc0b999aecd9a62c040a95693096c8e72b0f195d55b453ffd16dd98ececed8d2f8a240227b9db7dab4bb40465ca89d481 Homepage: https://cran.r-project.org/package=PBImisc Description: CRAN Package 'PBImisc' (A Set of Datasets Used in My Classes or in the Book 'ModeleLiniowe i Mieszane w R, Wraz z Przykladami w Analizie Danych') A set of datasets and functions used in the book 'Modele liniowe i mieszane w R, wraz z przykladami w analizie danych'. 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Package: r-cran-pbs Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pbs_1.1-1.ca2004.1_all.deb Size: 19464 MD5sum: 9deef4db6f5784e27eb77b1481077213 SHA1: 261b2a81dbde7b191c9a7e2f6d4cffe13a0a6540 SHA256: 0ce9ac98a30865f6f372baac2a246b46bc50cf1c06c3f6d770ed99bb33c90c54 SHA512: 9e0946653f8cecb2815da3ef131f4e877069fc066713ce18757735d572da344634ba8b0bcbafd44c051c84fd2b5bad5f325295229fb18d035961fb7ebf50c1dc Homepage: https://cran.r-project.org/package=pbs Description: CRAN Package 'pbs' (Periodic B Splines) Periodic B Splines Basis Package: r-cran-pbsadmb Architecture: all Version: 1.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3086 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pbsmodelling Filename: pool/dists/focal/main/r-cran-pbsadmb_1.1.6-1.ca2004.1_all.deb Size: 2847848 MD5sum: 85a44278383d13e0e4b1e00f714ce1a4 SHA1: 3eb2403f6b236e61394ba62cf7ff64a1ac05e875 SHA256: ad82f2903711276ab82e4d9da093f1918f1b5c95af5b3751422f3bde466e967c SHA512: dd8332a0c025b0926ce22002e22c9139ed2a511e0f5d84a8224ff2fdd634b8e545191c23b2bc84b6defc8212af5a415eb090538d6d984318511de4c617c2d9de Homepage: https://cran.r-project.org/package=PBSadmb Description: CRAN Package 'PBSadmb' (ADMB for R Using Scripts or GUI) A collection of software provides R support for 'ADMB' (Automatic Differentiation Model Builder) and a 'GUI' interface facilitates the conversion of 'ADMB' template code to 'C code' followed by compilation to a binary executable. Stand-alone functions can also be run by users not interested in clicking a 'GUI'. Package: r-cran-pbtdesigns Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-pbtdesigns_1.0.0-1.ca2004.1_all.deb Size: 26276 MD5sum: d0dbde54a4ab19f0534780e4ff389602 SHA1: 2587de6ecd9cc5a4351965228206180ba2700536 SHA256: d35602521ed9a317dbe1ce43cd9a6a1ca072e727ba640e5c97aa5598ba6808a3 SHA512: 57a85acd0ab9ef78caba3f47198a663cc7e28ae7ea24e21f62bd44d38877e886b2964c7ae0aeb7c507a1ba23f93bd5702726bd1a8ac4d56045d7a5bf47940bc4 Homepage: https://cran.r-project.org/package=PBtDesigns Description: CRAN Package 'PBtDesigns' (Partially Balanced t-Designs (PBtDesigns)) The t-designs represent a generalized class of balanced incomplete block designs in which the number of blocks in which any t-tuple of treatments (t >= 2) occur together is a constant. When the focus of an experiment lies in grading and selecting treatment subgroups, t-designs would be preferred over the conventional ones, as they have the additional advantage of t-tuple balance. t-designs can be advantageously used in identifying the best crop-livestock combination for a particular location in Integrated Farming Systems that will help in generating maximum profit. But as the number of components increases, the number of possible t-component combinations will also increase. Most often, combinations derived from specific components are only practically feasible, for example, in a specific locality, farmers may not be interested in keeping a pig or goat and hence combinations involving these may not be of any use in that locality. In such situations partially balanced t-designs with few selected combinations appearing in a constant number of blocks (while others not at all appearing) may be useful (Sayantani Karmakar, Cini Varghese, Seema Jaggi & Mohd Harun (2021)). Further, every location may not have the resources to form equally sized homogeneous blocks. Partially balanced t-designs with unequal block sizes (Damaraju Raghavarao & Bei Zhou (1998). Sayantani Karmakar, Cini Varghese, Seema Jaggi & Mohd Harun (2022)." Partially Balanced t-designs with unequal block sizes") prove to be more suitable for such situations.This package generates three series of partially balanced t-designs namely Series 1, Series 2 and Series 3. Series 1 and Series 2 are designs having equal block sizes and with treatment structures 4(t + 1) and a prime number, respectively. Series 3 consists of designs with unequal block sizes and with treatment structure n(n-1)/2. This package is based on the function named PBtD() for generating partially balanced t-designs along with their parameters, information matrices, average variance factors and canonical efficiency factors. Package: r-cran-pca3d Architecture: all Version: 0.10.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rgl, r-cran-ellipse Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pca3d_0.10.2-1.ca2004.1_all.deb Size: 243844 MD5sum: f601e81273b74b046c55ed13e629aaf0 SHA1: aa772f6073fbda20fd155f815143ac344300ef32 SHA256: fef1eb017a52b66e839f3533971bfed7a57045778124942a267c758e3f66f277 SHA512: f997428b8303255646a308f11d08719f462c4a9ace8ffb7c8f89b8268dbd03317b17b7b6c0ab263567612403217d88b2415524372afcb45acc3052ee76f94eda Homepage: https://cran.r-project.org/package=pca3d Description: CRAN Package 'pca3d' (Three Dimensional PCA Plots) Functions simplifying presentation of PCA models in a 3D interactive representation using 'rgl'. Package: r-cran-pcabootplot Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-factominer, r-cran-rcolorbrewer Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-pcabootplot_0.2.0-1.ca2004.1_all.deb Size: 34104 MD5sum: 8e992d3a2e3a60b5f578c77b0d54843a SHA1: b82740d07609c1c479c3b0ba4d9cadf21875a447 SHA256: 12ea599249b9780175f904cf1c3420fbb22a94bb1c2990a63c4a8176bf180434 SHA512: 22142c8d98a8e0ef5904101c0a0fa0642153033c97763342d1ff213e63bd1d535a009087b966d0a571ff5ebdeb42ef142e9b48a44f22f138681c61702b6edd2b Homepage: https://cran.r-project.org/package=pcaBootPlot Description: CRAN Package 'pcaBootPlot' (Create 2D Principal Component Plots with Bootstrapping) Draws a 2D principal component plot using the first 2 principal components from the original and bootstrapped data to give some sense of variability. Package: r-cran-pcadsc Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-pander, r-cran-ggplot2, r-cran-matrix Filename: pool/dists/focal/main/r-cran-pcadsc_0.8.0-1.ca2004.1_all.deb Size: 59116 MD5sum: 09bcb908159827645c16dbc73e18a16e SHA1: 8143dc26cef929fccba2f7856f55fc5555660982 SHA256: 01285b22d0cec84182be7056e2cc1725fb18c7890b1db1e8ed970d1b9bc5a66e SHA512: 1329254d39423b7740eb4c69e77066b0b75fbbe4f3ef7db281b6880ca6b641cf828557a0cb87ed4cc4a94ba2bed3c0c5afffa9e00bde8e088d02d588a5aa07e3 Homepage: https://cran.r-project.org/package=PCADSC Description: CRAN Package 'PCADSC' (Tools for Principal Component Analysis-Based Data StructureComparisons) A suite of non-parametric, visual tools for assessing differences in data structures for two datasets that contain different observations of the same variables. These tools are all based on Principal Component Analysis (PCA) and thus effectively address differences in the structures of the covariance matrices of the two datasets. The PCASDC tools consist of easy-to-use, intuitive plots that each focus on different aspects of the PCA decompositions. The cumulative eigenvalue (CE) plot describes differences in the variance components (eigenvalues) of the deconstructed covariance matrices. The angle plot presents the information loss when moving from the PCA decomposition of one dataset to the PCA decomposition of the other. The chroma plot describes the loading patterns of the two datasets, thereby presenting the relative weighting and importance of the variables from the original dataset. Package: r-cran-pcal Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rdpack Suggests: r-cran-covr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pcal_1.0.0-1.ca2004.1_all.deb Size: 62952 MD5sum: b52e0ae6a7316cd91c4c75b3dc128469 SHA1: 909e01448f8d5da99a616c5d5c5ee0afb9cbea6b SHA256: 89d179e14f27c6ea0e812923a708438577f2d177847a050c4053c03dce0911d7 SHA512: a6b0ed7642d7eeca582a609602ae98567ba4761939dea9c7384619876185906131c5b72fda9dd7ed35baefe715399f9f4d176ab47e31fe77c3d4ecf3e648c78d Homepage: https://cran.r-project.org/package=pcal Description: CRAN Package 'pcal' (Calibration of P-Values for Point Null Hypothesis Testing) Calibrate p-values under a robust perspective using the methods developed by Sellke, Bayarri, and Berger (2001) and obtain measures of the evidence provided by the data in favor of point null hypotheses which are safer and more straightforward to interpret. Package: r-cran-pcalibrate Architecture: all Version: 0.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-exact2x2, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-pcalibrate_0.2-1-1.ca2004.1_all.deb Size: 89920 MD5sum: 16a9a48723c23a1c61c3453b1b6b75c2 SHA1: 18ec1239e325fd877f2ee534a8a5525bcfda0be3 SHA256: 6d764de8f9321c12dd2b06a46451a2183f0edb85963f643db6e8beb6997e0c15 SHA512: 29ff7add0af2a77cc6dff5e1db737f09bb45e59f468980e551c2c715c5725b5a2621fc4bbcb402d83b531a1a41fbe77dae293ac640536b817bd4c247c8b9a1f2 Homepage: https://cran.r-project.org/package=pCalibrate Description: CRAN Package 'pCalibrate' (Bayesian Calibrations of p-Values) Implements transformations of p-values to the smallest possible Bayes factor within the specified class of alternative hypotheses, as described in Held & Ott (2018, ). Covers several common testing scenarios such as z-tests, t-tests, likelihood ratio tests and the F-test. Package: r-cran-pcalls Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pcalls_1.0-1.ca2004.1_all.deb Size: 25104 MD5sum: 1b70e43c20efcf7c017bfddbf45cce6e SHA1: 820afef10bc7957d0ba30bb3e4367cbe0bd5d57c SHA256: d76baca46a1792be4d5ae58acfb4d17f6877c19bf01e89a9a794b04e9f9f7f6e SHA512: 53dbb2f5c6f25054d4df46b7a06850a7d12b3ef615d5af26b1eb905977a93c54686f47911ea6c4fdb569d0a716ba1b4921f33a1b1181cbd361f6aa6acdada302 Homepage: https://cran.r-project.org/package=pcalls Description: CRAN Package 'pcalls' (Pricing of Different Types of Call) Compute the price of different types of call using different methods. The types available are Vanilla European Calls, Vanilla American Calls and American Digital Calls. Available methods are Montecarlo Simulation, Montecarlo Simulation with Antithetic Variates, Black-Scholes and the Binary Tree. Package: r-cran-pcamatchr Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 553 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-optmatch, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pcamatchr_0.3.3-1.ca2004.1_all.deb Size: 487760 MD5sum: 9c905888de8af208765feb3001181442 SHA1: ab1be23fc6206ae4fb15d9e4f7328b8c84f55a1b SHA256: 3252e21eda66ff0a252878ec0a72c012931645b5385348fb8469cf28377e59cb SHA512: cedb8ce892b9c6f6401b48ea84e8c5b95e20488a66125d95a3dbee1758ea84c1b8ed7495fac4558fd1df4333e0dbfa0dc6cb79d6362b2e2bd95e45b71f107b4a Homepage: https://cran.r-project.org/package=PCAmatchR Description: CRAN Package 'PCAmatchR' (Match Cases to Controls Based on Genotype Principal Components) Matches cases to controls based on genotype principal components (PC). In order to produce better results, matches are based on the weighted distance of PCs where the weights are equal to the % variance explained by that PC. A weighted Mahalanobis distance metric (Kidd et al. (1987) ) is used to determine matches. Package: r-cran-pcamixdata Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2583 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pcamixdata_3.1-1.ca2004.1_all.deb Size: 1816848 MD5sum: 775d322334b19bc99b1ab4169e9953b7 SHA1: dbcd52b0b63589cd62762c4390603469979bc17a SHA256: 55f0496e8a8a0220cfb8a81fc464a1360c8dd48f456c113f4ff5d7aac89e469b SHA512: 261f9c12fc4009eea349ce4aa975943e12d1561d34df06ce05db0d4697cad61432353885668a3e943e87dad6ebfb858073bac4b41863d638cc690db4f085f07d Homepage: https://cran.r-project.org/package=PCAmixdata Description: CRAN Package 'PCAmixdata' (Multivariate Analysis of Mixed Data) Implements principal component analysis, orthogonal rotation and multiple factor analysis for a mixture of quantitative and qualitative variables. Package: r-cran-pcapam50 Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2097 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-biobase, r-cran-lattice, r-bioc-complexheatmap, r-bioc-impute Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pcapam50_1.0.3-1.ca2004.1_all.deb Size: 868644 MD5sum: e1b4f87e3a8ccdf24158583b03035fca SHA1: b35ad1a2e89963d58c12a90d182a9fd6567ab583 SHA256: 2309e1462e472a0d9199734c17cf8674d9365e78ea8d72ea44afcfb3a29a4ddb SHA512: 75a6b684c584114a1499df09563a6332a40b91972df6c3bfe29c562fc277650f9db7ca804b7ac29e8ce63562babcc44b6aef719b6467c0b273339ebf7a06589f Homepage: https://cran.r-project.org/package=PCAPAM50 Description: CRAN Package 'PCAPAM50' (Enhanced 'PAM50' Subtyping of Breast Cancer) Accurate classification of breast cancer tumors based on gene expression data is not a trivial task, and it lacks standard practices.The 'PAM50' classifier, which uses 50 gene centroid correlation distances to classify tumors, faces challenges with balancing estrogen receptor (ER) status and gene centering. The 'PCAPAM50' package leverages principal component analysis and iterative 'PAM50' calls to create a gene expression-based ER-balanced subset for gene centering, avoiding the use of protein expression-based ER data resulting into an enhanced Breast Cancer subtyping. Package: r-cran-pcatsapiclientr Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pcatsapiclientr_1.3.0-1.ca2004.1_all.deb Size: 53264 MD5sum: f38717114ccc717868734b41f8693be6 SHA1: 63b6d4d3439d6ab9bd369d670b211ff621991da0 SHA256: ec8ab6629d0e57fbea097400da77912dcf34cbe20dfa0c6d4c4e59d344ba191c SHA512: 62151c6e121b27d1c72d970db66d35e0082a59423e664b526eb52770999e0dd2996806206bdcd9b9c0a878143ac8b710de4839535b93dffabcd49bb8e2b8391d Homepage: https://cran.r-project.org/package=pcatsAPIclientR Description: CRAN Package 'pcatsAPIclientR' ('PCATS' API Client) Provides an R interface to the 'PCATS' API , allowing R users to submit tasks and retrieve results. Package: r-cran-pcbs Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1614 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-tibble, r-cran-ggrepel, r-cran-dplyr, r-cran-data.table Filename: pool/dists/focal/main/r-cran-pcbs_0.1.1-1.ca2004.1_all.deb Size: 1602520 MD5sum: 661e46c16158a59b4ca3e355f6a071fd SHA1: bd3d687320b9b1405f1348ef2ba9c18aceb9bd16 SHA256: 3fc49ebbd6a5e23bfbbf689fd01de7409e87f3ce305b24263718db7a666ec3e9 SHA512: b93c50f8476d67d2a82ae837f06f634b8e6d89e233922b45ef745b4e32dcb4674f109b5a7ebea65d212d93e9ae8fa95e1c7fcbf2239fa14ec677893c0dd7dfe3 Homepage: https://cran.r-project.org/package=PCBS Description: CRAN Package 'PCBS' (Principal Component BiSulfite) A system for fast, accurate, and flexible whole genome bisulfite sequencing (WGBS) data analysis of two-condition comparisons. Principal Component BiSulfite, 'PCBS', assigns methylated loci eigenvector values from the treatment-delineating principal component in lieu of running millions of pairwise statistical tests, which dramatically increases analysis flexibility and reduces computational requirements. Methods: . Package: r-cran-pcdimension Architecture: all Version: 1.1.14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 396 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-classdiscovery, r-cran-oompabase, r-cran-kernlab, r-cran-changepoint, r-cran-cpm Suggests: r-cran-mass, r-cran-nfactors Filename: pool/dists/focal/main/r-cran-pcdimension_1.1.14-1.ca2004.1_all.deb Size: 278864 MD5sum: 2ab4a9523dacfc2676d34c9180d34007 SHA1: 79d67aaeddd614594a89a095782db4b2740d21ac SHA256: 00f4e2418eb44b753b25ae535b7069ab2cb17a227a7d729ada014f5102bc9f31 SHA512: 17abbf82dae1033ec0e1e302d0889e1fd0624a443c60c5f5b2092f7fc3c3075b2307787098bf47f892342f56b355f968b1e59b76e94e330e1d9692ec6bede226 Homepage: https://cran.r-project.org/package=PCDimension Description: CRAN Package 'PCDimension' (Finding the Number of Significant Principal Components) Implements methods to automate the Auer-Gervini graphical Bayesian approach for determining the number of significant principal components. Automation uses clustering, change points, or simple statistical models to distinguish "long" from "short" steps in a graph showing the posterior number of components as a function of a prior parameter. See . Package: r-cran-pcdpca Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-freqdom, r-cran-fda Filename: pool/dists/focal/main/r-cran-pcdpca_0.4-1.ca2004.1_all.deb Size: 20572 MD5sum: 1527fddd51579ed6f26885bdb55bc5ee SHA1: 0432d8224aa3be10dd464944d9121cf58c08b9bf SHA256: 9e0e82824a2059ea4a92e73dc6e36ba32ce9b3cd68bb873494fbb7a5de1162b0 SHA512: 13f318e3bf2b03d103c7f51b3113a95505143faaf5afeb14d7abf1f091532b73071cb5cc35cd9269b14389dcb1433fee072198f1dc27f109994ad47e378e8b40 Homepage: https://cran.r-project.org/package=pcdpca Description: CRAN Package 'pcdpca' (Dynamic Principal Components for Periodically CorrelatedFunctional Time Series) Method extends multivariate and functional dynamic principal components to periodically correlated multivariate time series. This package allows you to compute true dynamic principal components in the presence of periodicity. We follow implementation guidelines as described in Kidzinski, Kokoszka and Jouzdani (2017), in Principal component analysis of periodically correlated functional time series . Package: r-cran-pcds.ugraph Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 578 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pcds, r-cran-interp, r-cran-rdpack Suggests: r-cran-knitr, r-cran-scatterplot3d, r-cran-rmarkdown, r-cran-bookdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-pcds.ugraph_0.1.1-1.ca2004.1_all.deb Size: 512256 MD5sum: 297542226a9ee2665d25d8f3ef976877 SHA1: 36fcd18306a96472cdebf4847f3ed31747557f99 SHA256: 00d67885e55cc3f5a6d552258b68fbc8ae7dad98dde4dbb10d35c7bc51d27e41 SHA512: 69910e599bb7dc1adae21a115c29e61590e7bac7bc1164658ef568231cb9a313d70359d742876b50c8a4d135d9d106299ad863ba2e2d8848fcf33b702f0a1f8f Homepage: https://cran.r-project.org/package=pcds.ugraph Description: CRAN Package 'pcds.ugraph' (Underlying Graphs of Proximity Catch Digraphs and TheirApplications) Contains the functions for construction and visualization of underlying and reflexivity graphs of the three families of the proximity catch digraphs (PCDs), see (Ceyhan (2005) ISBN:978-3-639-19063-2), and for computing the edge density of these PCD-based graphs which are then used for testing the patterns of segregation and association against complete spatial randomness (CSR)) or uniformity in one and two dimensional cases. The PCD families considered are Arc-Slice PCDs, Proportional-Edge (PE) PCDs (Ceyhan et al. (2006) ) and Central Similarity PCDs (Ceyhan et al. (2007) ). See also (Ceyhan (2016) ) for edge density of the underlying and reflexivity graphs of PE-PCDs. The package also has tools for visualization of PCD-based graphs for one, two, and three dimensional data. Package: r-cran-pcds Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4406 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-combinat, r-cran-interp, r-cran-gmoip, r-cran-plot3d, r-cran-plotrix, r-cran-rdpack Suggests: r-cran-knitr, r-cran-scatterplot3d, r-cran-spatstat.random, r-cran-rmarkdown, r-cran-bookdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-pcds_0.1.8-1.ca2004.1_all.deb Size: 2917676 MD5sum: 0affb4369cd6d7d7bd553c26564f7c3e SHA1: 740218cda6daf39f82b02f6f80a5ad58534c733a SHA256: 297955645538c74f386f5fdf63b4996bffd191e73283cb023c3638e6de16cb3d SHA512: 4ef0bef87a2b183fdb019f458dd4660a806d0e1a96ccbf0e89b7b25a8b0a08bf5065e87b7f6d59097cbb3f659f8e6b94766688b2ced549612b9a375206c85f3a Homepage: https://cran.r-project.org/package=pcds Description: CRAN Package 'pcds' (Proximity Catch Digraphs and Their Applications) Contains the functions for construction and visualization of various families of the proximity catch digraphs (PCDs), see (Ceyhan (2005) ISBN:978-3-639-19063-2), for computing the graph invariants for testing the patterns of segregation and association against complete spatial randomness (CSR) or uniformity in one, two and three dimensional cases. The package also has tools for generating points from these spatial patterns. The graph invariants used in testing spatial point data are the domination number (Ceyhan (2011) ) and arc density (Ceyhan et al. (2006) ; Ceyhan et al. (2007) ). The PCD families considered are Arc-Slice PCDs, Proportional-Edge PCDs, and Central Similarity PCDs. Package: r-cran-pcensmix Architecture: all Version: 1.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pcensmix_1.2-1-1.ca2004.1_all.deb Size: 87212 MD5sum: 94e4abd1e6d9f91a97c3cacc62d1118d SHA1: cae646961b782d6bc5f65e7b4d818319348f86b0 SHA256: 1a42d93d48a13bbb462272059dfea198aeb215332acf5d00d71b765bfb2de903 SHA512: 3a4f9179f13364380149151cd9589a023de5a4abd9c94e5dc3f87f8e1171babf23eb6554bba008c5aa9228c1e3ccc776ebd1895a3ad4a2455b7d4813c618b88f Homepage: https://cran.r-project.org/package=pcensmix Description: CRAN Package 'pcensmix' (Model Fitting to Progressively Censored Mixture Data) Functions for generating progressively Type-II censored data in a mixture structure and fitting models using a constrained EM algorithm. It can also create a progressive Type-II censored version of a given real dataset to be considered for model fitting. Package: r-cran-pcev Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 690 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rmtstat, r-cran-corpcor Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-pcev_2.2.2-1.ca2004.1_all.deb Size: 639264 MD5sum: c64b4c925a83f51e305cc97f24a2d623 SHA1: 7538a58c4204d3516a70d8a19b9c3e841516bf60 SHA256: af2bc68fb8eb5bb1fd43664b184d959f5eb108f133039121b8a7332b31cfadd5 SHA512: 327dc55213830288bd62b285cafadc9443aa2f8e852363fc357ddf78a3f4f13d4429556d762977dc75d228d284b40a39dbaedd7fdefbd32c62dfa8ac4ad88675 Homepage: https://cran.r-project.org/package=pcev Description: CRAN Package 'pcev' (Principal Component of Explained Variance) Principal component of explained variance (PCEV) is a statistical tool for the analysis of a multivariate response vector. 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Package: r-cran-pcfam Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pcfam_1.0-1.ca2004.1_all.deb Size: 120592 MD5sum: e1b6191da75c3017f7a188d752079877 SHA1: c21847396a255b764b038e00c9b6f207b7ca9728 SHA256: 7600bb9c1a22296194b40021b5da4b7c8eb41c2e80a94eb10a10479f34646721 SHA512: 066fcc931149ebdabb94c682d5e119b43258d9ace3e495af55be3f9c152719516b0f3456003e749b0366c85a7bf73828883f7db645f889e76bc8cfd3dffb72a7 Homepage: https://cran.r-project.org/package=PCFAM Description: CRAN Package 'PCFAM' (Computation of Ancestry Scores with Mixed Families and UnrelatedIndividuals) We provide several algorithms to compute the genotype ancestry scores (such as eigenvector projections) in the case where highly correlated individuals are involved. Package: r-cran-pcg Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 41 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pcg_1.1-1.ca2004.1_all.deb Size: 11376 MD5sum: 00f0ce90d36634f36e0d466b6c037086 SHA1: 512378007bff7c3b5dbc79df00bb094073f4ed99 SHA256: 7ff71be797a0b23fc4003b652f2f2d2208233fc5fc45441493f065d57520a5a0 SHA512: 7b0035bb7f41006fa4cab34baa083f48a29c9da48064fb6a27515bfee680d7113c28b6794cb56b5d66ac53769a680b897d5f99d3bb225d3a671c00b245d988a1 Homepage: https://cran.r-project.org/package=pcg Description: CRAN Package 'pcg' (Preconditioned Conjugate Gradient Algorithm for solving Ax=b) The package solves linear system of equations Ax=b by using Preconditioned Conjugate Gradient Algorithm where A is real symmetric positive definite matrix. A suitable preconditioner matrix may be provided by user. 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Package: r-cran-pcgen Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 171 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pcalg, r-bioc-graph, r-cran-matrix, r-cran-mass, r-cran-hmisc, r-cran-lme4, r-cran-sommer, r-cran-ggm Filename: pool/dists/focal/main/r-cran-pcgen_0.2.0-1.ca2004.1_all.deb Size: 143648 MD5sum: 84ec282875bd16f61a6b18d61018a3d5 SHA1: 16c4ce5d182ccd289ae73b5e376d06bfdbb35255 SHA256: 3ac8af792ebbfa6dc8a20680e5433e1f605d37fffda30e6bb5f943b579b3db47 SHA512: edc511892c589585e62231a0ca042760c773c888848c7197f825c4884cf0239a2b3d5335661b0069bab7afdc48263a69a28fd08faffab202d2f75ee409c26653 Homepage: https://cran.r-project.org/package=pcgen Description: CRAN Package 'pcgen' (Reconstruction of Causal Networks for Data with Random GeneticEffects) Implements the pcgen algorithm, which is a modified version of the standard pc-algorithm, with specific conditional independence tests and modified orientation rules. pcgen extends the approach of Valente et al. 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This package is developed for estimating and testing partial correlation graphs with prior information incorporated. Package: r-cran-pcgse Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rmtstat, r-cran-mass Filename: pool/dists/focal/main/r-cran-pcgse_0.5.0-1.ca2004.1_all.deb Size: 42684 MD5sum: 0534693ee71f3c54a520d16586562dc3 SHA1: dc2cf28ad0599a6ccc19e7dd1438f555368a074a SHA256: 4346fd89364023bb0667e386d2af1874608b4bae4efabbce1feac1742efdf377 SHA512: 98de3dc896889ba12d663e00b3a14f03130d983f11143e30702e699be04d8b930dd9a8d34102166c3c1a729b87cb9b04d40f6bbe90b10728d3418fe8b77358ea Homepage: https://cran.r-project.org/package=PCGSE Description: CRAN Package 'PCGSE' (Principal Component Gene Set Enrichment) Contains logic for computing the statistical association of variable groups, i.e., gene sets, with respect to the principal components of genomic data. Package: r-cran-pch Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-hmisc Filename: pool/dists/focal/main/r-cran-pch_2.1-1.ca2004.1_all.deb Size: 107980 MD5sum: 00fb1dcc4177246308b719471327c89e SHA1: 7125c292d5dd964dd4e018df152197730d837038 SHA256: 5958ffc3686d29d47e528b0bc95772be7493e8376fb354294bba46b267be9212 SHA512: c19654a8d0e697f7b573b8aa15144bdfe8643dc43a54fb1b464f357027e388cf384ab63860b77190f24431557cf7926c639b306964ffc550bbe8b571190c41bc Homepage: https://cran.r-project.org/package=pch Description: CRAN Package 'pch' (Piecewise Constant Hazard Models for Censored and Truncated Data) Piecewise constant hazard models for survival data. The package allows for right-censored, left-truncated, and interval-censored data. Package: r-cran-pchc Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 261 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bigstatsr, r-cran-bnlearn, r-cran-dcov, r-cran-foreach, r-cran-doparallel, r-cran-rfast, r-cran-rfast2, r-cran-robustbase Suggests: r-cran-bigreadr, r-bioc-rgraphviz Filename: pool/dists/focal/main/r-cran-pchc_1.3-1.ca2004.1_all.deb Size: 228840 MD5sum: 43978ae4664e1d34a1afce61856d03b2 SHA1: aa5b4e4d0dd8a488f8fe48b89b1e845a59a89d43 SHA256: 9da6498b2f618fd17a10ef97f968d3b1b9b199b1ca1dc0a3c047b3ae54aad585 SHA512: 00a365ee173e2b8f792a6cfe3decaa27e43ec0714c3de9c735b01f3b7b26f81dcab7895f44fa4fd3dda87017cddc9151ab700181de26914373832353707b965c Homepage: https://cran.r-project.org/package=pchc Description: CRAN Package 'pchc' (Bayesian Network Learning with the PCHC and Related Algorithms) Bayesian network learning using the PCHC, FEDHC, MMHC and variants of these algorithms. PCHC stands for PC Hill-Climbing, a new hybrid algorithm that uses PC to construct the skeleton of the BN and then applies the Hill-Climbing greedy search. More algorithms and variants have been added, such as MMHC, FEDHC, and the Tabu search variants, PCTABU, MMTABU and FEDTABU. The relevant papers are: a) Tsagris M. (2021). "A new scalable Bayesian network learning algorithm with applications to economics". Computational Economics, 57(1): 341-367. . b) Tsagris M. (2022). "The FEDHC Bayesian Network Learning Algorithm". Mathematics 2022, 10(15): 2604. . Package: r-cran-pci Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-vek Suggests: r-cran-tinytest, r-cran-devtools Filename: pool/dists/focal/main/r-cran-pci_1.0.1-1.ca2004.1_all.deb Size: 42448 MD5sum: 885ac50cf1b58a2a9c01b85f05855beb SHA1: c349c48b92a2948a2c4cccdd36e40a5b29cd6340 SHA256: 0992670acfd6ac985567b29e7283a38ff289b771051fd695fd6a72ae0a0a65a7 SHA512: cbc88bd86bc80ce26fcf7287968d48e7eeaccac1a5cba8f655dd727694816c71770999982ccdb6865ca211900fde20629caaba61a36e736d03b613d7a5649ddc Homepage: https://cran.r-project.org/package=pci Description: CRAN Package 'pci' (A Collection of Process Capability Index Functions) A collection of process capability index functions, such as C_p(), C_pk(), C_pm(), and others, along with metadata about each, like 'LaTeX' equations and 'R' expressions. Its primary purpose is to form a foundation for other quality control packages to build on top of, by providing basic resources and functions. The indices belong to the field of statistical quality control, and quantify the degree to which a manufacturing process is able to create items that adhere to a certain standard of quality. For details see Montgomery, D. C. (2019, ISBN:978-1-119-39930-8). Package: r-cran-pcl Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pcl_1.0-1.ca2004.1_all.deb Size: 17344 MD5sum: ad3158494c6f23a2a3dce1e6add746b0 SHA1: c54e2c67deb53bb73b701c88498206b92044cd51 SHA256: 415c3d23963d84d2d770c2e27ad8db5eba7df6e3aebfe26e5e4c66af242e2f62 SHA512: 1a993f0eb48ecb372e66a396d8b49a1d486f5ed1de5088c7115b3de9c12d007eed0178ae6ad0a23bdd2d9d7bd1b1382fa1af69b3362828bc8ad31c1c07ddb2b0 Homepage: https://cran.r-project.org/package=PCL Description: CRAN Package 'PCL' (Proximal Causal Learning) We fit causal models using proxies. We implement two stage proximal least squares estimator. E.J. Tchetgen Tchetgen, A. Ying, Y. Cui, X. Shi, and W. Miao. (2020). An Introduction to Proximal Causal Learning. arXiv e-prints, arXiv-2009 . Package: r-cran-pclassoreg Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1017 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-grpreg Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-pclassoreg_1.0.0-1.ca2004.1_all.deb Size: 898640 MD5sum: 0d0434e041885c174566174ae4aa3bf9 SHA1: 80689b87428fc33975c0d498ff1cd85bff4b7d1e SHA256: 620e0658848a3d45f068ce4d63090baff849cf968a7549d09b5cc08fe6dc87e6 SHA512: 138f8281b7791a549876fd7b02509d72a3183745c319d4aaca6e8c1c6054b9f53d33628e0005c361b7fc16969f0eff2732f18d77bcc717840b0808ffeb715f94 Homepage: https://cran.r-project.org/package=PCLassoReg Description: CRAN Package 'PCLassoReg' (Group Regression Models for Risk Protein Complex Identification) Two protein complex-based group regression models (PCLasso and PCLasso2) for risk protein complex identification. PCLasso is a prognostic model that identifies risk protein complexes associated with survival. PCLasso2 is a classification model that identifies risk protein complexes associated with classes. For more information, see Wang and Liu (2021) . Package: r-cran-pcmabc Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ape, r-cran-mvslouch, r-cran-phangorn, r-cran-yuima Suggests: r-cran-geiger, r-cran-distory Filename: pool/dists/focal/main/r-cran-pcmabc_1.1.3-1.ca2004.1_all.deb Size: 150548 MD5sum: 6828cd67c24c3180e74ba8d6dd5ad5cc SHA1: 054fa38bf3831b9f4edb932f3e333dc9e16ba8d7 SHA256: 4ed71aeff7499b60aa5eb0ad10342823dbe0011461797a8f71830df331ea81e0 SHA512: 09f2334c338c1bc780507ca3d621e6295efead3a622e238a070848ef9b8527edcc3f69fb2f035dc4a662c67ffe41b8b2c9c49f1c45c3eeb8a61be5521ee2a7f0 Homepage: https://cran.r-project.org/package=pcmabc Description: CRAN Package 'pcmabc' (Approximate Bayesian Computations for Phylogenetic ComparativeMethods) Fits by ABC, the parameters of a stochastic process modelling the phylogeny and evolution of a suite of traits following the tree. The user may define an arbitrary Markov process for the trait and phylogeny. Importantly, trait-dependent speciation models are handled and fitted to data. See K. Bartoszek, P. Lio' (2019) . The suggested geiger package can be obtained from CRAN's archive , suggested to take latest version. Otherwise its required code is present in the pcmabc package. The suggested distory package can be obtained from CRAN's archive , suggested to take latest version. Package: r-cran-pcmbase Architecture: all Version: 1.2.14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2264 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ape, r-cran-abind, r-cran-expm, r-cran-mvtnorm, r-cran-data.table, r-cran-ggplot2, r-cran-xtable Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-bioc-ggtree, r-cran-cowplot, r-cran-covr, r-cran-mvslouch, r-cran-biocmanager Filename: pool/dists/focal/main/r-cran-pcmbase_1.2.14-1.ca2004.1_all.deb Size: 1102428 MD5sum: 4f2d2d0874d9dc9150f506a6ba927801 SHA1: 9bf3d8f416174c7d6482e2e3b9de344350e5e88a SHA256: 0040f7f36c723319de552fd2a79f3771107ac1c6c9d0f2064892addbb509db44 SHA512: 6d11290f8d4ce506da340f1d8450f9ef7abebf2b9bc7bceaaeb35518395d5ffd5d05a92ea0b5bcf152ea0190ef5ac5c57629d438f8eea7e18071156156d52179 Homepage: https://cran.r-project.org/package=PCMBase Description: CRAN Package 'PCMBase' (Simulation and Likelihood Calculation of PhylogeneticComparative Models) Phylogenetic comparative methods represent models of continuous trait data associated with the tips of a phylogenetic tree. Examples of such models are Gaussian continuous time branching stochastic processes such as Brownian motion (BM) and Ornstein-Uhlenbeck (OU) processes, which regard the data at the tips of the tree as an observed (final) state of a Markov process starting from an initial state at the root and evolving along the branches of the tree. The PCMBase R package provides a general framework for manipulating such models. This framework consists of an application programming interface for specifying data and model parameters, and efficient algorithms for simulating trait evolution under a model and calculating the likelihood of model parameters for an assumed model and trait data. The package implements a growing collection of models, which currently includes BM, OU, BM/OU with jumps, two-speed OU as well as mixed Gaussian models, in which different types of the above models can be associated with different branches of the tree. The PCMBase package is limited to trait-simulation and likelihood calculation of (mixed) Gaussian phylogenetic models. The PCMFit package provides functionality for inference of these models to tree and trait data. The package web-site provides access to the documentation and other resources. 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Compute theoretical periodic autocovariances and related properties of PC autoregressive moving average models. Some original methods including Boshnakov & Iqelan (2009) , Boshnakov (1996) . 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Package: r-cran-pcv Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 501 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pcv_1.1.0-1.ca2004.1_all.deb Size: 476396 MD5sum: b67196d228d0b02f89857355b3b9f330 SHA1: ea26d9a8b08a1387c26b443dee22ebe6866c7ce9 SHA256: a956097becd1875d8f2f1c88ee149b0516c3e8ccdf75192b768e766e30afd2ba SHA512: 97d815b8ecee3247e807968926139ebc900abc2394d94b1923ceb37581d069236ae5d8cb406852d5dea50e8dd5f831ec858f802fb5978fafa9bea1a726c27c79 Homepage: https://cran.r-project.org/package=pcv Description: CRAN Package 'pcv' (Procrustes Cross-Validation) Implements Procrustes cross-validation method for Principal Component Analysis, Principal Component Regression and Partial Least Squares regression models. S. Kucheryavskiy (2023) . 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Permutation-based and asymptotic hypothesis testing for zero partial distance correlation are also performed. References include: Szekely G. J. and Rizzo M. L. (2014). "Partial distance correlation with methods for dissimilarities". The Annals Statistics, 42(6): 2382--2412. . Shen C., Panda S. and Vogelstein J. T. (2022). "The Chi-Square Test of Distance Correlation". Journal of Computational and Graphical Statistics, 31(1): 254--262. . Szekely G. J. and Rizzo M. L. (2023). "The Energy of Data and Distance Correlation". Chapman and Hall/CRC. . 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(2015) "A simple new test for slope homogeneity in panel data models with interactive effects" , Ando, T. and Bai, J. (2015) "Asset Pricing with a General Multifactor Structure" , Ando, T. and Bai, J. (2016) "Panel data models with grouped factor structure under unknown group membership" , Ando, T. and Bai, J. (2017) "Clustering huge number of financial time series: A panel data approach with high-dimensional predictors and factor structures" , Ando, T. and Bai, J. (2020) "Quantile co-movement in financial markets" , Ando, T., Bai, J. and Li, K. (2021) "Bayesian and maximum likelihood analysis of large-scale panel choice models with unobserved heterogeneity" . 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Estimation of the model parameters relies on the Generalized Method of Moments (GMM) and instrumental variables (IV) estimation, numerical optimization (when nonlinear moment conditions are employed) and the computation of closed form solutions (when estimation is based on linear moment conditions). One-step, two-step and iterated estimation is available. For inference and specification testing, Windmeijer (2005) and doubly corrected standard errors (Hwang, Kang, Lee, 2021 ) are available. Additionally, serial correlation tests, tests for overidentification, and Wald tests are provided. Functions for visualizing panel data structures and modeling results obtained from GMM estimation are also available. The plot methods include functions to plot unbalanced panel structure, coefficient ranges and coefficient paths across GMM iterations (the latter is implemented according to the plot shown in Hansen and Lee, 2021 ). 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The OUSS is a parsimonious model for stochastically fluctuating variables with linear stabilizing forces, subject to uncorrelated measurement errors. Contrary to the classical white noise null model for detecting cyclicity, the OUSS model can account for temporal correlations typically occurring in ecological and geological time series. Citation: Louca, Stilianos and Doebeli, Michael (2015) . 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Package: r-cran-pearson7 Architecture: all Version: 1.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pearson7_1.0-3-1.ca2004.1_all.deb Size: 34432 MD5sum: 290db78b2fff90302ca607d6f1b3cbc0 SHA1: 16ed082d85f7abdcf362203e3e3dfe7181d465b1 SHA256: 9e54dc9222f1639d59ae46d66f12c1190e5edcfc139da075738d1de96a7d6d6e SHA512: ad344735d22eefa3d15d76a1cd0abdad65da17c32cde02b15d51f2ee72f5491c1860007851e2640bb5f71c29ae0dd38320b417810201fb1ae9d38ef2cf79357d Homepage: https://cran.r-project.org/package=pearson7 Description: CRAN Package 'pearson7' (Maximum Likelihood Inference for the Pearson VII Distributionwith Shape Parameter 3/2) Supports maximum likelihood inference for the Pearson VII distribution with shape parameter 3/2 and free location and scale parameters. This distribution is relevant when estimating the velocity of processive motor proteins with random detachment. Package: r-cran-pearsonica Architecture: all Version: 1.2-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pearsonica_1.2-5-1.ca2004.1_all.deb Size: 36216 MD5sum: 312cf0ec6715b3aa8692a9722a69aa0b SHA1: c6cbbbbac87f58d943301b772ef0d5c1518aad2f SHA256: 7ca6a33975d63a76578e644d0855a9a2f1160d3092f00215ac224ad79d52a0fb SHA512: 164f8940d6adb3b99e1c38df9ab181f26c5e8f966b880b0d773ae346b7b9900d47f863412fb1943c2d83ad687786a0ac7cc8b98dadf7597d78c83e979fef3d52 Homepage: https://cran.r-project.org/package=PearsonICA Description: CRAN Package 'PearsonICA' (Independent Component Analysis using Score Functions from thePearson System) The Pearson-ICA algorithm is a mutual information-based method for blind separation of statistically independent source signals. 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Package: r-cran-pedbuildr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pedtools, r-cran-forrel, r-cran-glue, r-cran-pedmut, r-cran-pedprobr, r-cran-ribd Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pedbuildr_0.3.0-1.ca2004.1_all.deb Size: 221632 MD5sum: 5b060455beade3aa61248b2db7bae55f SHA1: 5bdfa857bba97cb04b28a854231261ff1672becc SHA256: 251b0db3cbb04cb19a4c17d9259f121a5f877f09ac1de995c4216dc412cb9a10 SHA512: 8fa8e6d9cfca16b4175bd222ab4839d0f585a4367fdef1ab4b2ec3c6aff9d4b360e1365de18a11477b1704e60ebf3050ea8e7d307aa01bd9b35f2a77c0acdca7 Homepage: https://cran.r-project.org/package=pedbuildr Description: CRAN Package 'pedbuildr' (Pedigree Reconstruction) Reconstruct pedigrees from genotype data, by optimising the likelihood over all possible pedigrees subject to given restrictions. Tailor-made plots facilitate evaluation of the output. This package is part of the 'pedsuite' ecosystem for pedigree analysis. In particular, it imports 'pedprobr' for calculating pedigree likelihoods and 'forrel' for estimating pairwise relatedness. Package: r-cran-pedfamilias Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pedtools, r-cran-pedmut Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pedfamilias_0.2.4-1.ca2004.1_all.deb Size: 97648 MD5sum: cbde9a42509c3ed2b69571f81c33a8d3 SHA1: 3d1ee3f3fcee4f40d5fc181219a33fdab815ecb6 SHA256: 4ba7e5b2670b9cacebcd459b77bf6bcc59d14008d22d8b42f6fb13434c549bb0 SHA512: be939be71ffbe93972bd8877d00c9463ab16d7cf0f7ef4e3f188a87d2f9409e00299c328abb2801228739d44ab17313f4417c637a12f4760d5101730d2296cea Homepage: https://cran.r-project.org/package=pedFamilias Description: CRAN Package 'pedFamilias' (Import and Export 'Familias' Files) Tools for exchanging pedigree data between the 'pedsuite' packages and the 'Familias' software for forensic kinship computations (Egeland et al. (2000) ). 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Package: r-cran-pedgene Architecture: all Version: 3.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 334 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix, r-cran-compquadform, r-cran-survey, r-cran-kinship2 Filename: pool/dists/focal/main/r-cran-pedgene_3.9-1.ca2004.1_all.deb Size: 278836 MD5sum: 41047c44ba12f4ec051c32735e6fd6bb SHA1: 47b7675af1d4b879ed5d44397cd30aaaad27780c SHA256: a9a6b45a66f2cf68db3210a0722de4621e254fe8fd8865bc8c2d4621c38f3165 SHA512: a1f09c182a7d6dc2930740f01e53dd6ac3e2cd9a849e7dde8b48475ad8094051bc69041e997de73153172e196983d945207428ac2d3b0bbfb79b8ee8301c84b2 Homepage: https://cran.r-project.org/package=pedgene Description: CRAN Package 'pedgene' (Gene-Level Variant Association Tests for Pedigree Data) Gene-level variant association tests with disease status for pedigree data: kernel and burden association statistics. Package: r-cran-pedmermaid Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 868 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-diagrammer, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pedmermaid_1.0.2-1.ca2004.1_all.deb Size: 251676 MD5sum: 80a27b50befbffcf88b43e42e294af29 SHA1: f33714448047efeea8fb383d3df14a2675e79f6f SHA256: 0a031d04d9ba3d63aa9aaf19d134a287477ea9c67ce74784babc7686bf668b3d SHA512: cb102c024af2e8cd8a89401122a4630771482f1d71389d1951a8ed4d5a3d4af7b7cd6edf5de0c1ce242ccaa56532605f572059136828f8f5b92169bfc8a5dd49 Homepage: https://cran.r-project.org/package=pedMermaid Description: CRAN Package 'pedMermaid' (Pedigree Mermaid Syntax) Generate Mermaid syntax for a pedigree flowchart from a pedigree data frame. Mermaid syntax is commonly used to generate plots, charts, diagrams, and flowcharts. It is a textual syntax for creating reproducible illustrations. This package generates Mermaid syntax from a pedigree data frame to visualize a pedigree flowchart. The Mermaid syntax can be embedded in a Markdown or R Markdown file, or viewed on Mermaid editors and renderers. Links' shape, style, and orientation can be customized via function arguments, and nodes' shapes and styles can be customized via optional columns in the pedigree data frame. Package: r-cran-pedmut Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 176 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lpsolve Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pedmut_0.9.0-1.ca2004.1_all.deb Size: 143276 MD5sum: 6694828197260004879f917eaab8b377 SHA1: b3900f06a22c93d145d2cfd22df63262c022f4af SHA256: 4855a02aec0234e27b7a622299d8d5784c92edc2692ca1eaf793f7be72f8ac1d SHA512: 8c7a10e8cbc65570de9d96449d97ffdc6a672f94f9647781643f603aa0143c59686645ada976419161034ecda143ea1f3c17bfbe780e42e1dbedb235be6707dc Homepage: https://cran.r-project.org/package=pedmut Description: CRAN Package 'pedmut' (Mutation Models for Pedigree Likelihood Computations) A collection of functions for modelling mutations in pedigrees with marker data, as used e.g. in likelihood computations with microsatellite data. Implemented models include equal, proportional and stepwise models, as well as random models for experimental work, and custom models allowing the user to apply any valid mutation matrix. Allele lumping is done following the lumpability criteria of Kemeny and Snell (1976), ISBN:0387901922. Package: r-cran-pedprobr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-pedtools, r-cran-pedmut Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pedprobr_1.0.1-1.ca2004.1_all.deb Size: 193996 MD5sum: 7f2983f4f5fc17aa0665d365eacbedfa SHA1: 58fe67641e257060811d49713a43aeddb3b8cc34 SHA256: 6f5adc1a321d0a60a6b4d46aab92ef44f23ad7e58d4f84bb9c86a5281b53b2f3 SHA512: 60b6adcee0de6a20859e6822f27ae982fc9b9286fdfcaa16f201d151f36adfeb06e2831bb4a47689191528131775027dbc5de68c384bb48c1d6f5ef5c55fc580 Homepage: https://cran.r-project.org/package=pedprobr Description: CRAN Package 'pedprobr' (Probability Computations on Pedigrees) An implementation of the Elston-Stewart algorithm for calculating pedigree likelihoods given genetic marker data (Elston and Stewart (1971) ). The standard algorithm is extended to allow inbred founders. 'pedprobr' is part of the 'pedsuite', a collection of packages for pedigree analysis in R. In particular, 'pedprobr' depends on 'pedtools' for pedigree manipulations and 'pedmut' for mutation modelling. For more information, see 'Pedigree Analysis in R' (Vigeland, 2021, ISBN:9780128244302). 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The data sources including NBS, FRED, Sina, Eastmoney and etc. It also provides quantitative functions for trading strategies based on the 'data.table', 'TTR', 'PerformanceAnalytics' and etc packages. Package: r-cran-pedsimulate Architecture: all Version: 1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pedsimulate_1.4.3-1.ca2004.1_all.deb Size: 66532 MD5sum: 0bed7372a6869bc2f37e7557f42eb25d SHA1: d07d412ed0bf58425fff63b48f9855d732a2ab7e SHA256: 2607d72eb69ab3a9895b3d7af33d6cc493f7bd26b1533dabfaab2d41e580258d SHA512: 98bf3f1f1725b66ebeaac85905069446cc88d10ff47a839e3b3578e5db9c80e66c20a1be3f33e338d690b3f2262f0e14f41d111db27752e6cb9edd74a1dd54ba Homepage: https://cran.r-project.org/package=pedSimulate Description: CRAN Package 'pedSimulate' (Pedigree, Genetic Merit, Phenotype, and Genotype Simulation) Simulate pedigree, genetic merits and phenotypes with random/non-random matings followed by random/non-random selection with different intensities and patterns in males and females. Genotypes can be simulated for a given pedigree, or an appended pedigree to an existing pedigree with genotypes. Mrode, R. A. (2005) ; Nilforooshan, M.A. (2022) . 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Pedigrees can be read from text files or created on the fly with built-in functions. A range of utilities enable modifications like adding or removing individuals, breaking loops, and merging pedigrees. An online tool for creating pedigrees interactively, based on 'pedtools', is available at . 'pedtools' is the hub of the 'pedsuite', a collection of packages for pedigree analysis. A detailed presentation of the 'pedsuite' is given in the book 'Pedigree Analysis in R' (Vigeland, 2021, ISBN:9780128244302). 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Four functions including p.mle(), p.gart(), p.burrow() and p.order() are provided to implement four estimating methods including the maximum likelihood estimate, Gart's estimate, Burrow's estimate, and order statistic estimate. Package: r-cran-peiman2 Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4301 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-glue, r-cran-lifecycle, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-forcats, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-peiman2_1.0.1-1.ca2004.1_all.deb Size: 3965684 MD5sum: a096734c34d13cfede253e05a042cbd3 SHA1: 7acc3784a4ba75155b20083869513e33bab058e8 SHA256: 37f3c76b8eb42e69b6e035e756ae1eaa5abebe335a5849649aa9d9e78908ce53 SHA512: 8865c3eff2b3411bf65fba7ad4102f0229dac157923a4e5873c0d8ec4c422b97d5ca9938e8d60389fcf11eae74c6c9d2a4cf47bf296ab107b4222e267492a938 Homepage: https://cran.r-project.org/package=PEIMAN2 Description: CRAN Package 'PEIMAN2' (Post-Translational Modification Enrichment, Integration, andMatching Analysis) Functions and mined database from 'UniProt' focusing on post-translational modifications to do single enrichment analysis (SEA) and protein set enrichment analysis (PSEA). Payman Nickchi, Uladzislau Vadadokhau, Mehdi Mirzaie, Marc Baumann, Amir Ata Saei, Mohieddin Jafari (2025) . Package: r-cran-peip Architecture: all Version: 2.2-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-bvls, r-cran-matrix, r-cran-rseis, r-cran-pracma, r-cran-geigen, r-cran-fields Filename: pool/dists/focal/main/r-cran-peip_2.2-5-1.ca2004.1_all.deb Size: 172620 MD5sum: da81a979f7e96ed551bae310bda5fc64 SHA1: d5c18d49d75ddf0e4752fc0978abf69534489557 SHA256: c113727f4c70b9180d1263d944731d4064b495da8cf4f32c3dba5beb71f4b299 SHA512: 1e7e740f231ede6c0d485c1268a3a6244dfa3256ebc6f71eaecbd4fe2235e6d8c5b76ab32315590bffa736b080583791df1e6583fdcaa14f45f9e689221bfd76 Homepage: https://cran.r-project.org/package=PEIP Description: CRAN Package 'PEIP' (Geophysical Inverse Theory and Optimization) Several functions introduced in Aster et al.'s book on inverse theory. The functions are often translations of MATLAB code developed by the authors to illustrate concepts of inverse theory as applied to geophysics. Generalized inversion, tomographic inversion algorithms (conjugate gradients, 'ART' and 'SIRT'), non-linear least squares, first and second order Tikhonov regularization, roughness constraints, and procedures for estimating smoothing parameters are included. 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The two classifiers presented are the marginal classifier (that assumes test data is i.i.d.) next to a more computationally costly but accurate simultaneous classifier (that finds a labelling for the entire test dataset at once based on simultanous use of all the test data to predict each label). We also provide the Maximum Likelihood Estimation (MLE) of the only underlying parameter of the partition exchangeability generative model as well as hypothesis testing statistics for equality of this parameter with a single value, alternative, or multiple samples. We present functions to simulate the sequences from Ewens Sampling Formula as the realisation of the Poisson-Dirichlet distribution and their respective probabilities. 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The package is tailored for but not limited to proteomics data applications, in which a large proportion of the data are often missing-not-at-random with lower values (or absolute values) more likely to be missing. 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The package includes a dedicated 'pems' data class that manages many of the quality control, unit handling and data archiving issues that can hinder efforts to standardise 'PEMS' research. 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For more details about the theory, please refer to Cuntrera, D., Augugliaro, L., & Muggeo, V. M. (2022) . 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The smoothly clipped absolute deviation (SCAD), 'L1-norm', 'Elastic Net' ('L1-norm' and 'L2-norm') and 'Elastic SCAD' (SCAD and 'L2-norm') penalties are available. The tuning parameters can be found using either a fixed grid or a interval search. 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See Signorelli (2024) and Signorelli et al. (2021) for details. 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Potential applications of 'PepMapViz' include the visualization of cross-software mass spectrometry results at the peptide level for specific protein and domain details in a linearized format and post-translational modification coverage across different experimental conditions; unraveling insights into disease mechanisms. It also enables visualization of Major histocompatibility complex-presented peptide clusters in different antibody regions predicting immunogenicity in antibody drug development. 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The statistical analysis package presented herein provides a collection of software tools used to facilitate the prioritization of putative bioactive peptides from a complex biological matrix. Tools are provided to deconvolute mass spectrometry features into a single representation for each peptide charge state, filter compounds to include only those possibly contributing to the observed bioactivity, and prioritize these remaining compounds for those most likely contributing to each bioactivity data set. 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Users can manipulate peptides by adding amino acids at every position, count occurrences of each amino acid at each position, and transform amino acid counts based on probabilities. The package offers functionalities to select the best versus the worst peptides and analyze these peptides, which includes counting specific residues, reducing peptide sequences, extracting features through One Hot Encoding (OHE), and utilizing Quantitative Structure-Activity Relationship (QSAR) properties (based in the package 'Peptides' by Osorio et al. (2015) ). This package is intended for both researchers and bioinformatics enthusiasts working on peptide-based projects, especially for their use with machine learning. 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P., Jenkins, G. M., Reinsel, G. (1994) Brockwell, P. J., Davis, R. A. (1991, ISBN:978-1-4419-0319-8) Bretz, F., Hothorn, T., Westfall, P. (2010, ISBN: 9780429139543) Westfall, P. H., Young, S. S. (1993, ISBN:978-0-471-55761-6) Bloomfield, P., Hurd, H. L.,Lund, R. (1994) Dehay, D., Hurd, H. L. (1994, ISBN:0-7803-1023-3) Vecchia, A. (1985) Vecchia, A. (1985) Jones, R., Brelsford, W. (1967) Makagon, A. (1999) Sakai, H. (1989) Gladyshev, E. G. (1961) Ansley (1979) Hurd, H. L., Gerr, N. L. (1991) . 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Jagadeesan K., Barden R. and Kasprzyk-Hordern B. (2022) . Package: r-cran-perm Architecture: all Version: 1.0-0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-coin Filename: pool/dists/focal/main/r-cran-perm_1.0-0.4-1.ca2004.1_all.deb Size: 85640 MD5sum: 2020b405e322cb896652936958762347 SHA1: 143a55decff26c2454e19af0382612ec8aff0d7e SHA256: b2699b298e551412c93f82863ffb97639eb34ae762d78ca4ec1df816576cee07 SHA512: 07cd73fada115dec9f4326746b33db8d40f545c3fd3b356d03dd8fee5f7492742b6d8f15816c9813b82cd90f4b8743abb5899ae5a2b084a328790c0aea97d354 Homepage: https://cran.r-project.org/package=perm Description: CRAN Package 'perm' (Exact or Asymptotic Permutation Tests) Perform Exact or Asymptotic permutation tests [see Fay and Shaw ]. Package: r-cran-permalgo Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-permalgo_1.2-1.ca2004.1_all.deb Size: 30180 MD5sum: 3b07b2739193beccc01343a75aa99665 SHA1: 01124b5e02edf8bac8715ff8c8d939b2d645dd51 SHA256: 387316966c5b86d9133a5e28360a1edc2066146349c08a2245efeef2d0a8fccb SHA512: 56a97afd33e9dc2bb1fa8a2d11c624533d4abda1cce0a94f0ae18069ffcd4423c4e87698f6b296ee743655930a856a0a3ac6a1c9cb64fceab23deeb91c1a57b4 Homepage: https://cran.r-project.org/package=PermAlgo Description: CRAN Package 'PermAlgo' (Permutational Algorithm to Simulate Survival Data) This version of the permutational algorithm generates a dataset in which event and censoring times are conditional on an user-specified list of covariates, some or all of which are time-dependent. 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The pictorial representation is based on the principal coordinates of the group means. There are some original results that will be published soon. 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Package: r-cran-permchacko Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-permchacko_1.0.1-1.ca2004.1_all.deb Size: 41780 MD5sum: f68ab62d9b48cc3772b972792efe6d66 SHA1: 0ad9424da86c45afb3c6dcf40e9f4249ccd2543a SHA256: 1662dd47b90a9ab9e1d6ce8bd06af215d6dab5e11a8c7b7f99ac77f42fc2d2d6 SHA512: 9a5f1a90036e5c3fc4e2a2d903a894476d12859daaf15bb9b07d088340bf01186d44ba5802c2e77e48887895b44dda58db8cac880155c870ed0cc4ba84a0cb31 Homepage: https://cran.r-project.org/package=permChacko Description: CRAN Package 'permChacko' (Chacko Test for Order-Restriction with Permutation) Implements an extension of the Chacko chi-square test for ordered vectors (Chacko, 1966, ). Our extension brings the Chacko test to the computer age by implementing a permutation test to offer a numeric estimate of the p-value, which is particularly useful when the analytic solution is not available. Package: r-cran-permcor Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-permcor_0.1.0-1.ca2004.1_all.deb Size: 42944 MD5sum: 69141b5bcd2b944ae3c016014825025d SHA1: b7c206bbff9df71afe28bb3144d568718c49ead8 SHA256: 91a72623846a9dcf0917310ac490ac58027686ee81694a5ad904afd4de2633b2 SHA512: ab5836565b7f508ab72451113dabca05878ee1d39d912ab2538fd3c004fb6d60531caf8660baa51e04bc98e8228b43b980d510e93165553f3735506b9752b87b Homepage: https://cran.r-project.org/package=PermCor Description: CRAN Package 'PermCor' (Robust Permutation Tests of Correlation Coefficients) Provides tools for statistical testing of correlation coefficients through robust permutation method and large sample approximation method. Tailored to different types of correlation coefficients including Pearson correlation coefficient, weighted Pearson correlation coefficient, Spearman correlation coefficient, and Lin's concordance correlation coefficient.The robust permutation test controls type I error under general scenarios when sample size is small and two variables are dependent but uncorrelated. The large sample approximation test generally controls type I error when the sample size is large (>200). Package: r-cran-permgs Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-coin Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-permgs_0.2.5-1.ca2004.1_all.deb Size: 87688 MD5sum: fbdff33930984925b3e7623baeaed798 SHA1: 219d6c3108f9933c3cca4f7d433ed407d495f715 SHA256: 4213d0c30c1d69b059e741578a660c93d629f36b2f0a83d2245490131d4cc3a2 SHA512: ccdd956d7b4cca52c07a849033d0889ec940040b93344fcec33476c45487453fe5415f48a86fddccd0be49106e1522a2ab3aff10481c5f6d7ebaccd643c2f30d Homepage: https://cran.r-project.org/package=permGS Description: CRAN Package 'permGS' (Permutational Group Sequential Test for Time-to-Event Data) Permutational group-sequential tests for time-to-event data based on the log-rank test statistic. Supports exact permutation test when the censoring distributions are equal in the treatment and the control group and approximate imputation-permutation methods when the censoring distributions are different. Package: r-cran-permimp Architecture: all Version: 1.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ipred, r-cran-party, r-cran-pbapply, r-cran-randomforest, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-scales, r-cran-testthat Filename: pool/dists/focal/main/r-cran-permimp_1.1-0-1.ca2004.1_all.deb Size: 145276 MD5sum: 78ddf4ad3e3c5c58ff2aec43e5808cf9 SHA1: ef9aae279654097270481e744d02662dd8a29287 SHA256: edacec91149e128cb0bfca27053792f5c45ebdd29f4215645eb51c4311b8826c SHA512: c5e62038ee8c7dcd82e1fa15ff2443b087a8f8ae4a3344936c7e9b629084f47002d06b43e5746e6fb7613f0d0d513b9bb4768e3a79d557e5acdb1e44f2c98f1a Homepage: https://cran.r-project.org/package=permimp Description: CRAN Package 'permimp' (Conditional Permutation Importance) An add-on to the 'party' package, with a faster implementation of the partial-conditional permutation importance for random forests. The standard permutation importance is implemented exactly the same as in the 'party' package. The conditional permutation importance can be computed faster, with an option to be backward compatible to the 'party' implementation. The package is compatible with random forests fit using the 'party' and the 'randomForest' package. The methods are described in Strobl et al. (2007) and Debeer and Strobl (2020) . Package: r-cran-permubiome Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-rlang, r-cran-dabestr, r-cran-gridextra, r-cran-matrix, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-permubiome_1.3.2-1.ca2004.1_all.deb Size: 58636 MD5sum: 20f6e7e469934b4ad8a7b7664dfea000 SHA1: cb8bf4ed518052386f51c8555a1cb7eb48190b06 SHA256: 0a269c4c1210dedf07716e630298e3a58a85b901e0a13051d13a4d8fe6de678e SHA512: 64bb79087f8e0ae1c9e035f158cb0d9326a38999b2f49a5e64f2bf827867769d252cf451852e2b2d7e18ac43ae10b8694f9d421c8a6c7fc64c0f9de8a04cf4f6 Homepage: https://cran.r-project.org/package=permubiome Description: CRAN Package 'permubiome' (A Permutation Based Test for Biomarker Discovery in MicrobiomeData) The permubiome R package was created to perform a permutation-based non-parametric analysis on microbiome data for biomarker discovery aims. This test executes thousands of comparisons in a pairwise manner, after a random shuffling of data into the different groups of study with a prior selection of the microbiome features with the largest variation among groups. Previous to the permutation test itself, data can be normalized according to different methods proposed to handle microbiome data ('proportions' or 'Anders'). The median-based differences between groups resulting from the multiple simulations are fitted to a normal distribution with the aim to calculate their significance. A multiple testing correction based on Benjamini-Hochberg method (fdr) is finally applied to extract the differentially presented features between groups of your dataset. LATEST UPDATES: v1.1 and olders incorporates function to parse COLUMN format; v1.2 and olders incorporates -optimize- function to maximize evaluation of features with largest inter-class variation; v1.3 and olders includes the -size.effect- function to perform estimation statistics using the bootstrap-coupled approach implemented in the 'dabestr' (>=0.3.0) R package. Current v1.3.2 fixed bug with "Class" recognition and updated 'dabestr' functions. Package: r-cran-permutationr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-permutationr_0.1.0-1.ca2004.1_all.deb Size: 13928 MD5sum: 0e464529088ef93890c8022b8d93c980 SHA1: 13b322fe7e023710cf46cadd2c3ad4c028c516ed SHA256: 1b56d440acb06907a0980b201d18e6b269b9b2aed4d84d5ccac610fb220a82e5 SHA512: d27bc06f3427ab05a030d8d7089d5d6f573272da614e7413c2ffe5d0d03a67840ba07cb4ec5ec6f9d7c1fd3aefe2e2b513e3a69806f055187c666fe192ab2381 Homepage: https://cran.r-project.org/package=PermutationR Description: CRAN Package 'PermutationR' (Conduct Permutation Analysis of Variance in R) Conduct permutation One-Way or Two-Way Analysis of Variance in R. Use different permutation types for two-way designs. 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Can transform from word form to cycle form and back. To cite the package in publications please use Hankin (2020) "Introducing the permutations R package", SoftwareX, volume 11 . 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Package: r-cran-permutes Architecture: all Version: 2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3310 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-plyr Suggests: r-cran-buildmer, r-cran-car, r-cran-doparallel, r-cran-ggplot2, r-cran-glmmtmb, r-cran-knitr, r-cran-lme4, r-cran-lmperm, r-cran-permuco, r-cran-rmarkdown, r-cran-viridis Filename: pool/dists/focal/main/r-cran-permutes_2.8-1.ca2004.1_all.deb Size: 2987692 MD5sum: b302aed161cd6cdd2b771968a8cf82a3 SHA1: c97da48615d269cf134764f0c4bee69bc3af3d6f SHA256: 8891fe06694c88d8a23d65adcde1a732d1800ccbf5a3f04493528744f33c9215 SHA512: 0616846ca3bacd6c9f07a99e2ecfa039d8bc8cdc0608fc1c4adbc4711751698a4e14b7008b5d629d89bed46ffebfdeb8ecbf68c03a6a3b7c83110e7924b9313f Homepage: https://cran.r-project.org/package=permutes Description: CRAN Package 'permutes' (Permutation Tests for Time Series Data) Helps you determine the analysis window to use when analyzing densely-sampled time-series data, such as EEG data, using permutation testing (Maris & Oostenveld, 2007) . These permutation tests can help identify the timepoints where significance of an effect begins and ends, and the results can be plotted in various types of heatmap for reporting. Mixed-effects models are supported using an implementation of the approach by Lee & Braun (2012) . 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Included are functions for various purposes, including evaluating the accuracy of judgments and predictions, performing scoring of assessments, generating correlation matrices, conversion of data between various types, data management, psychometric evaluation, extensions related to latent variable modeling, various plotting capabilities, and other miscellaneous useful functions. By making the package available, we hope to make our methods reproducible and replicable by others and to help others perform their data processing and analysis methods more easily and efficiently. The codebase is provided in Petersen (2024) and on CRAN: . The package is described in "Principles of Psychological Assessment: With Applied Examples in R" (Petersen, 2024, 2025) , , . 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Package: r-cran-pgirmess Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 247 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-sf, r-cran-sp, r-cran-spdep Suggests: r-cran-mass, r-cran-nlme Filename: pool/dists/focal/main/r-cran-pgirmess_2.0.3-1.ca2004.1_all.deb Size: 202996 MD5sum: d478a5285e442ce071abd91b7d0c5e0a SHA1: 8e536bbd5eb83cc2bcedd8e648822dc08adcb200 SHA256: 0bd70f3f47e15a4c24bcf7ab10ca673b524cff97e47631a38fb9d5b3d02e5410 SHA512: b42fdb5776cf02f2b16d859b246ba622ff254b9b523dbfeed0d2e82c4c9abb51dd58ee40ad16d83ae204539dbd42578d09464e8cb49d78d6b310d1f255b75942 Homepage: https://cran.r-project.org/package=pgirmess Description: CRAN Package 'pgirmess' (Spatial Analysis and Data Mining for Field Ecologists) Set of tools for reading, writing and transforming spatial and seasonal data, model selection and specific statistical tests for ecologists. 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Package: r-cran-pgm2 Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pgm2_1.2-1.ca2004.1_all.deb Size: 31640 MD5sum: c01935426c4bd366340496ed379ab668 SHA1: 849ad50cb736188ab8405dbfb01ed19147baed65 SHA256: ef8e2204edc5834696b6e5c6b0cfe51fdff8e802463d0eb3c686fbede87f133d SHA512: ad20de9e3c011735d0c4671ac63157604d83517e58ed43988e05af778bb3c6404085fb858b397555aae70973211a3c9ebdfaed304acf21849d84521840ee3cf8 Homepage: https://cran.r-project.org/package=PGM2 Description: CRAN Package 'PGM2' (Recursive Construction of Nested Resolvable Designs andAssociated Uniform Designs) Implements recursive construction methods for balanced incomplete block designs (BIBDs), their second generation, resolvable BIBDs (RBIBDs), and uniform designs (UDs) derived from projective geometries over GF(2). 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Package: r-cran-pguimp Architecture: all Version: 0.0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6326 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-dt, r-cran-datavisualizations, r-cran-dbscan, r-cran-dplyr, r-cran-e1071, r-cran-finalfit, r-cran-ggplot2, r-cran-ggthemes, r-cran-hmisc, r-cran-magrittr, r-cran-mass, r-cran-rweka, r-cran-vim, r-cran-bbmle, r-cran-gridextra, r-cran-mice, r-cran-nortest, r-cran-outliers, r-cran-plotly, r-cran-psych, r-cran-purrr, r-cran-rcompanion, r-cran-readr, r-cran-readxl, r-cran-rjava, r-cran-rlang, r-cran-rmarkdown, r-cran-robust, r-cran-shiny, r-cran-shinydashboard, r-cran-shinyjs, r-cran-shinywidgets, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-writexl Suggests: r-cran-knitr, r-cran-devtools, r-cran-ellipsis, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-pguimp_0.0.0.3-1.ca2004.1_all.deb Size: 2161508 MD5sum: 9cfc8ccb044cfcdae8f0633ded9a03f2 SHA1: 70e7103c635012fdb0bf64d68dc54210cb815cec SHA256: d1fc7f130c62a3bc709365b1748203b9212d48d109a1ff38cfcb3a5ff2477fad SHA512: ae0e2cb0cc324ec11441bea6e86aa000a62d87074a19fd9320e7bdb53b8abdc001fd747012a289299d7b570a411591784766c6a7cf67935e126f0d9d57a1723b Homepage: https://cran.r-project.org/package=pguIMP Description: CRAN Package 'pguIMP' ('pguIMP') Reproducible cleaning of bio-medical laboratory data using methods of visualization,error correction and transformation implemented as interactive R-notebooks. Package: r-cran-ph1xbar Architecture: all Version: 0.11.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-forecast, r-cran-mvtnorm, r-cran-pracma, r-cran-vgam Filename: pool/dists/focal/main/r-cran-ph1xbar_0.11.3-1.ca2004.1_all.deb Size: 82176 MD5sum: 5fbf484ebc69c7a85f25b26ff0281704 SHA1: b38cede95290d5ad6513fceea65f083eed001723 SHA256: bb2d43a90eaf4e3f55a003a8b7d048be89f55fc0916122980219fbd7c7448c20 SHA512: 91e6fe1facc7c9c877c330bf3aa8ae893064b71a30f1aaadc7ad63c66f9698723d344ec0ac55062d3c9c7f10fdd490b8a594cd6c8cdd347360373a7d747e63b0 Homepage: https://cran.r-project.org/package=PH1XBAR Description: CRAN Package 'PH1XBAR' (Phase I Shewhart X-Bar Chart) The purpose of 'PH1XBAR' is to build a Phase I Shewhart control chart for the basic Shewhart, the variance components and the ARMA models in R for subgrouped and individual data. More details can be found: Yao and Chakraborti (2020) , Yao and Chakraborti (2021) , and Yao et al. (2023) . Package: r-cran-ph2mult Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-clinfun Suggests: r-cran-gsdesign, r-cran-survival Filename: pool/dists/focal/main/r-cran-ph2mult_0.1.1-1.ca2004.1_all.deb Size: 57012 MD5sum: 64ace8bd703c93d4515e702764dfb6ce SHA1: 7a0606eed59bcdcbd249bc8d5d59e36177930af8 SHA256: b80a2a4a2a232d77b2b7d6eb90d748e45a783126afd489cac99e5e8416117fb3 SHA512: 4629ae89827824189ba899d6406f178798de1d4e559c8b3f3e20b500ad14b28d6f0697bff3d06b280329a7c520dcf3878b9bcdd4447b1a527c14a23ee7c2b31e Homepage: https://cran.r-project.org/package=ph2mult Description: CRAN Package 'ph2mult' (Phase II Clinical Trial Design for Multinomial Endpoints) Provide multinomial design methods under intersection-union test (IUT) and union-intersection test (UIT) scheme for Phase II trial. The design types include : Minimax (minimize the maximum sample size), Optimal (minimize the expected sample size), Admissible (minimize the Bayesian risk) and Maxpower (maximize the exact power level). Package: r-cran-phagecocktail Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-readxl, r-cran-stringr, r-cran-factoextra, r-cran-bipartite, r-cran-smerc, r-cran-rjsonio Filename: pool/dists/focal/main/r-cran-phagecocktail_1.0.3-1.ca2004.1_all.deb Size: 67828 MD5sum: 6c460108dfeef212edca6ed6c50b4edc SHA1: b533ed040b3a5f8d8f9840d44c9f5c038c2ba07b SHA256: e02001ec52e0a843cd69805187f14fbf5416e133f0dfa4860b1c2bdebecc29c9 SHA512: cf813dbba0a5ac6f606bb02aaa95734f21010f3f34bdace9061aa6db0ec3c69c0e14e07946f62fa810e1bfcf5bdbd6c23e8ab6de30639352c16783a676256b4b Homepage: https://cran.r-project.org/package=PhageCocktail Description: CRAN Package 'PhageCocktail' (Design of the Best Phage Cocktail) There are 4 possible methods: "ExhaustiveSearch"; "ExhaustivePhi"; "ClusteringSearch"; and "ClusteringPhi". "ExhaustiveSearch"--> gives you the best phage cocktail from a phage-bacteria infection network. It checks different phage cocktail sizes from 1 to 7 and only stops before if it lyses all bacteria. Other option is when users have decided not to obtain a phage cocktail size higher than a limit value. "ExhaustivePhi"--> firstly, it finds Phi out. Phi is a formula indicating the necessary phage cocktail size. Phi needs nestedness temperature and fill, which are internally calculated. This function will only look for the best combination (phage cocktail) with a Phi size. "ClusteringSearch"--> firstly, an agglomerative hierarchical clustering using Ward's algorithm is calculated for phages. They will be clustered according to bacteria lysed by them. PhageCocktail() chooses how many clusters are needed in order to select 1 phage per cluster. Using the phages selected during the clustering, it checks different phage cocktail sizes from 1 to 7 and only stops before if it lyses all bacteria. Other option is when users have decided not to obtain a phage cocktail size higher than a limit value. "ClusteringPhi"--> firstly, an agglomerative hierarchical clustering using Ward's algorithm is calculated for phages. They will be clustered according to bacteria lysed by them. PhageCocktail() chooses how many clusters are needed in order to select 1 phage per cluster. Once the function has one phage per cluster, it calculates Phi. If the number of clusters is less than Phi number, it will be changed to obtain, as minimum, this quantity of candidates (phages). Then, it calculates the best combination of Phi phages using those selected during the clustering with Ward algorithm. If you use PhageCocktail, please cite it as: "PhageCocktail: An R Package to Design Phage Cocktails from Experimental Phage-Bacteria Infection Networks". María Victoria Díaz-Galián, Miguel A. Vega-Rodríguez, Felipe Molina. Computer Methods and Programs in Biomedicine, 221, 106865, Elsevier Ireland, Clare, Ireland, 2022, pp. 1-9, ISSN: 0169-2607. . Package: r-cran-phantsem Architecture: all Version: 1.0.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3643 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tidyr, r-cran-dplyr, r-cran-corpcor, r-cran-lavaan Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-devtools, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-phantsem_1.0.0.0-1.ca2004.1_all.deb Size: 3635932 MD5sum: de5651dee6a38bebc972c349a3bfed63 SHA1: e66e65e9ca9fae027193de70e2ccb0820094cb2e SHA256: 49bca67d5bdec9d0422017e2327aa417171fdd52834adc0dc86643aa374bf449 SHA512: 30d2fe166941896fda7c882cbf839a4b61ce00201a2b554e7b206375687cfc634c55be81d24d82f496e3a602395895ca72504af6dc0a849883fa15076774b8dd Homepage: https://cran.r-project.org/package=phantSEM Description: CRAN Package 'phantSEM' (Create Phantom Variables in Structural Equation Models forSensitivity Analyses) Create phantom variables, which are variables that were not observed, for the purpose of sensitivity analyses for structural equation models. The package makes it easier for a user to test different combinations of covariances between the phantom variable(s) and observed variables. The package may be used to assess a model's or effect's sensitivity to temporal bias (e.g., if cross-sectional data were collected) or confounding bias. 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Package: r-cran-phase1rmd Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-boot, r-cran-rjags, r-cran-mvtnorm, r-cran-ggplot2, r-cran-arrayhelpers Suggests: r-bioc-biocparallel Filename: pool/dists/focal/main/r-cran-phase1rmd_1.0.9-1.ca2004.1_all.deb Size: 226096 MD5sum: 8158aa9b71953e545db7303258a25042 SHA1: 7d0348620a1bc161691726c418f2d78fae5dbe89 SHA256: cd0ac8a8c0f3d3b25dad7c84ad7fca95047fc9d1c38df152b40db5830ce9ad16 SHA512: 1160eae7696b28b3cb902058100d4a82bd005caf2dd6b89e7218f6e80aa2eded75605d97fc0b91a30e59c7cc3ca1fd2edadc4cefe63f41669a4426954aa7c7c2 Homepage: https://cran.r-project.org/package=phase1RMD Description: CRAN Package 'phase1RMD' (Repeated Measurement Design for Phase I Clinical Trial) Implements our Bayesian phase I repeated measurement design that accounts for multidimensional toxicity endpoints from multiple treatment cycles. 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The following methods were used to compute periodograms - Chi-square periodogram: Sokolove and Bushell (1978) , Lomb-Scargle periodogram: Lomb (1976) , Scargle (1982) and Ruf (1999) , and Autocorrelation: Eijzenbach et al. (1986) . Identification of activity peaks is done after using a Savitzky-Golay filter (Savitzky and Golay (1964) ) to smooth raw activity data. Three methods to estimate anticipation of activity are used based on the following papers - Slope method: Fernandez et al. (2020) , Harrisingh method: Harrisingh et al. (2007) , and Stoleru method: Stoleru et al. (2004) . Rose plots and circular analysis are based on methods from - Batschelet (1981) and Zar (2010) . 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Package: r-cran-phdcocktail Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1358 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-here, r-cran-rcolorbrewer, r-cran-rstudioapi, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-phdcocktail_0.1.0-1.ca2004.1_all.deb Size: 1246904 MD5sum: f65ea0fd4404e821b8840336cbbc538e SHA1: d8f6cf4af51f75c4d44882901cafadc15b3a3fb2 SHA256: bcc517f19011e38494dedfedc06991280a12fbbd9763438508c909010d4e7361 SHA512: 18d8aa9d3739627e95ce5cb9a7d25456dad9f5bd733b732b410abe0c328fb1e1cd13bc0c428aa28ec664c0fdb7a7759f303f1e7bf597646c9488152d50af6f8a Homepage: https://cran.r-project.org/package=phdcocktail Description: CRAN Package 'phdcocktail' (Enhance the Ease of R Experience as an Emerging Researcher) A toolkit of functions to help: i) effortlessly transform collected data into a publication ready format, ii) generate insightful visualizations from clinical data, iii) report summary statistics in a publication-ready format, iv) efficiently export, save and reload R objects within the framework of R projects. 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Package: r-cran-pheble Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 714 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-adabag, r-cran-c50, r-cran-caret, r-cran-catools, r-cran-data.table, r-cran-doparallel, r-cran-dplyr, r-cran-e1071, r-cran-earth, r-cran-evtree, r-cran-frbs, r-cran-glmnet, r-cran-gmodels, r-cran-hda, r-cran-hdclassif, r-cran-ipred, r-cran-kernlab, r-cran-kknn, r-cran-klar, r-cran-magrittr, r-cran-mass, r-cran-matrix, r-cran-mda, r-cran-mlmetrics, r-cran-nnet, r-cran-party, r-cran-pls, r-cran-randomforest, r-cran-rpartscore, r-cran-sparselda, r-cran-themis Suggests: r-cran-h2o Filename: pool/dists/focal/main/r-cran-pheble_0.1.0-1.ca2004.1_all.deb Size: 693592 MD5sum: 741c8a8dcec05759b9809465841f5060 SHA1: 5657cb8efb4cf5a2f31331d2841c0eef00257081 SHA256: fa0ecf7ddfb9a64b374e8c66313611b943771d546a15fc337d7d3d4e09b9e721 SHA512: d8a93023d7b313894b8458eaecf6620c71e45064294960babbcf7766adb5bdefc5a31164cce5efa4db70df9fcbd3085d46490d349946bea2216ea6e3ec10a4fe Homepage: https://cran.r-project.org/package=pheble Description: CRAN Package 'pheble' (Classifying High-Dimensional Phenotypes with Ensemble Learning) A system for binary and multi-class classification of high-dimensional phenotypic data using ensemble learning. By combining predictions from different classification models, this package attempts to improve performance over individual learners. The pre-processing, training, validation, and testing are performed end-to-end to minimize user input and simplify the process of classification. Package: r-cran-phecap Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4479 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-rmysql Suggests: r-cran-ggplot2, r-cran-e1071, r-cran-randomforestsrc, r-cran-xgboost, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-phecap_1.2.1-1.ca2004.1_all.deb Size: 3942536 MD5sum: 49406bd850efcdd07482d96664263e6c SHA1: 89159ef29d0d7c8c636669b5cc99ea049fa515e2 SHA256: c6bc8caf1fb69bb48bf5f56c9710c4f17bc67567b96327f6705c5b1378355d39 SHA512: 04aecbf529d8a71805866516f737ec404246dd9b7f05f28cef9bc3f54483104ba21564948fa3c74ec2af69d6083603845bf6e494a0b2df444fb4f38f75637f1e Homepage: https://cran.r-project.org/package=PheCAP Description: CRAN Package 'PheCAP' (High-Throughput Phenotyping with EHR using a Common AutomatedPipeline) Implement surrogate-assisted feature extraction (SAFE) and common machine learning approaches to train and validate phenotyping models. Background and details about the methods can be found at Zhang et al. (2019) , Yu et al. (2017) , and Liao et al. (2015) . Package: r-cran-phecodemap Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2989 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-shinybs, r-cran-collapsibletree, r-cran-config, r-cran-dplyr, r-cran-dt, r-cran-golem, r-cran-plotly, r-cran-purrr, r-cran-readr, r-cran-rintrojs, r-cran-shinycssloaders, r-cran-shinydashboard, r-cran-shinydashboardplus Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-shinytest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-phecodemap_0.1.0-1.ca2004.1_all.deb Size: 2523112 MD5sum: 447be806e7b8ccf707c9fbd710bde763 SHA1: e8a5235c9e87dcd382ca878284fdf802b4a08551 SHA256: 5a135921e65f0eafcf12f619d880df98222df4f5a313f3f1ea9b002ed265b6ac SHA512: 5cf801a8d35e1d598f7c7a245cfa2ed55f75fb3db025a9251dfc0fc33e0d90f12cbc423cdc5b42a4357a8f999bd79e63ae50540d045c562b402b61eb17b56d6a Homepage: https://cran.r-project.org/package=phecodemap Description: CRAN Package 'phecodemap' (Visualization for PheCode Mapping with ICD-9 and ICD-10-CM Codes) To build a shiny app for visualization of the hierarchy of PheCode Mapping with International Classification of Diseases (ICD). The same PheCode hierarchy is displayed in two ways: as a sunburst plot and as a tree. Package: r-cran-pheindicatormethods Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 750 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyselect, r-cran-tidyr, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-readxl, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-pheindicatormethods_2.1.0-1.ca2004.1_all.deb Size: 508928 MD5sum: 8ef071db3220f0b490ee75049f8054c2 SHA1: f02e59e0a8c426948bb29ce02ace7c95835f7976 SHA256: e2419ce38a921e604c1332105015f3fb9b5b5b19d44ad41ff498b54fcfb098d9 SHA512: 54899b51b20c9175e1c82ba7da3e0e09694ccc011d9c48337995bddcb179120fc8515d7c00c8728bfc73a3dd5dd7edfdb7ae642725e91e4e70c64edb19761fc3 Homepage: https://cran.r-project.org/package=PHEindicatormethods Description: CRAN Package 'PHEindicatormethods' (Common Public Health Statistics and their Confidence Intervals) Functions to calculate commonly used public health statistics and their confidence intervals using methods approved for use in the production of Public Health England indicators such as those presented via Fingertips (). It provides functions for the generation of proportions, crude rates, means, directly standardised rates, indirectly standardised rates, standardised mortality ratios, slope and relative index of inequality and life expectancy. Statistical methods are referenced in the following publications. Breslow NE, Day NE (1987) . Dobson et al (1991) . Armitage P, Berry G (2002) . Wilson EB. (1927) . Altman DG et al (2000, ISBN: 978-0-727-91375-3). Chiang CL. (1968, ISBN: 978-0-882-75200-6). Newell C. (1994, ISBN: 978-0-898-62451-9). Eayres DP, Williams ES (2004) . Silcocks PBS et al (2001) . Low and Low (2004) . Fingertips Public Health Technical Guide: . Package: r-cran-phenability Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-calibrate Filename: pool/dists/focal/main/r-cran-phenability_2.0-1.ca2004.1_all.deb Size: 47352 MD5sum: cbab8b92b12248f175ecdc7d9e117c49 SHA1: 4b1b0f2b2ba0ade299ba50dbd65b854626a8a504 SHA256: c917c9828552005ff462c292cdb630fa6242069f4568b3ab51cff6a863bb9001 SHA512: 5f83dd83e09f9392529b6c011656fcf55f69ce3e0861b8a6c9e617fd37df04c67ed65444fa7889d10d0646517118d59a78d5e9320c29c69e8505fca3113e5aa7 Homepage: https://cran.r-project.org/package=phenability Description: CRAN Package 'phenability' (Nonparametric Stability Analysis) An alternative to carrying out phenotypic adaptability and stability analyses, taking into account nonparametric statistics. Can be used as a robust approach, less sensitive to departures from common genotypic, environmental, and GxE effects data assumptions (e.g., normal distribution of errors). Package: r-cran-phenesse Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-boot, r-cran-fitdistrplus Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-phenesse_0.1.3-1.ca2004.1_all.deb Size: 46512 MD5sum: c978cc10381c4478f3fe9fec06993ac8 SHA1: 10cc49435fb08e9ccc7597477c4858716147292d SHA256: ba5e7205d10fa3dfdfc2465b01f57ff6be6dbdd744b0cc3991c44912185eb00d SHA512: 8e8951efc9b8ca21021c829e9bb9c7035e5f9fe48b8d9062d11253f1e1d65b8cb4e1fa98cd9b5c5d0f4796ebc6b8b6fdb1fc2ff9888a6bc5dc1535aea54d4fb4 Homepage: https://cran.r-project.org/package=phenesse Description: CRAN Package 'phenesse' (Estimate Phenological Metrics using Presence-Only Data) Generates Weibull-parameterized estimates of phenology for any percentile of a distribution using the framework established in Cooke (1979) . Extensive testing against other estimators suggest the weib_percentile() function is especially useful in generating more accurate and less biased estimates of onset and offset (Belitz et al. 2020) . Non-parametric bootstrapping can be used to generate confidence intervals around those estimates, although this is computationally expensive. Additionally, this package offers an easy way to perform non-parametric bootstrapping to generate confidence intervals for quantile estimates, mean estimates, or any statistical function of interest. Package: r-cran-phenix Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ppcor, r-cran-suppdists Filename: pool/dists/focal/main/r-cran-phenix_1.3.1-1.ca2004.1_all.deb Size: 83600 MD5sum: 97d57c782eb3a18b07ac0025411a26ce SHA1: c88ec353d1914b4f2681b7ca3efa4b0369afe309 SHA256: d11c416bb18fbe94bf6df9ffb014709a38df60ccd54a997f1caf807ae3ab7d13 SHA512: 3a8907b36eb6e07aa7cecebe484ceaf1d88fdf66e05c60482953adbd1da2d42a2bd8e0e1af64a0529957866c8c078f98695a7d58ac6c3a8b1f76a6adaa5e2040 Homepage: https://cran.r-project.org/package=PHENIX Description: CRAN Package 'PHENIX' (Phenotypic Integration Index) Provides functions to estimate the size-controlled phenotypic integration index, a novel method by Torices & Méndez (2014) to solve problems due to individual size when estimating integration (namely, larger individuals have larger components, which will drive a correlation between components only due to resource availability that might obscure the observed measures of integration). In addition, the package also provides the classical estimation by Wagner (1984), bootstrapping and jackknife methods to calculate confidence intervals and a significance test for both integration indices. Package: r-cran-phenmodel Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 234 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-reshape Filename: pool/dists/focal/main/r-cran-phenmodel_1.0-1.ca2004.1_all.deb Size: 191688 MD5sum: 5ab64cf121d3d73ef43b7572f6a33264 SHA1: 8e7274ecfa3980fa2d584bc65fbe6e78463aed23 SHA256: 1165c79e302cb8c73923e11257698a506b93c7295743ed6f0ed183ff6aecebbb SHA512: 1ca1b504b73b0f6f9f2b7ce025c177e2540d60f4f58760010e406c473ee41c18d89fc4bf9bec1e9c0468e2dd0a2da8dbc307072df03caab930283ab6069c070f Homepage: https://cran.r-project.org/package=phenModel Description: CRAN Package 'phenModel' (Insect Phenology Model Evaluation Based on Daily Temperatures) Generates predicted stage change days for an insect, based on daily temperatures and development rate parameters, as developed by Pollard (2014) . A few example datasets are included and implemented for P. vulgatissima, the blue willow beetle, but the approach can be readily applied to other species that display similar behaviour. Package: r-cran-phenocamr Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 382 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite, r-cran-changepoint, r-cran-httr, r-cran-zoo, r-cran-memoise, r-cran-daymetr, r-cran-modistools Suggests: r-cran-shiny, r-cran-covr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-shinydashboard, r-cran-leaflet, r-cran-plotly, r-cran-dt Filename: pool/dists/focal/main/r-cran-phenocamr_1.1.5-1.ca2004.1_all.deb Size: 242632 MD5sum: 5bea22acb5b295423e9b9ed479600364 SHA1: 7f9d161de81d5d36cf1d1667b762ac01551f94b3 SHA256: a8bea76fc4d30e8b187a3de51c830b01494db2297861012617f7dfc145e7889f SHA512: d7dc42b56cb210e08ad9172a752497f5d0930b72596ac115ceba8e1dda93e2301d570de21d35d87184a145b2dfb57372c27710b823cc9685255f99e22a588faa Homepage: https://cran.r-project.org/package=phenocamr Description: CRAN Package 'phenocamr' (Facilitates 'PhenoCam' Data Access and Time SeriesPost-Processing) Programmatic interface to the 'PhenoCam' web services (). Allows for easy downloading of 'PhenoCam' data directly to your R workspace or your computer and provides post-processing routines for consistent and easy timeseries outlier detection, smoothing and estimation of phenological transition dates. Methods for this package are described in detail in Hufkens et. al (2018) . Package: r-cran-phenocdm Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 222 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjags Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-phenocdm_0.1.3-1.ca2004.1_all.deb Size: 126772 MD5sum: 4a4cf71943c61760aa4126124ecf6014 SHA1: 0cdd4a0efb1c3857cc0527d7ef12468a88dbbede SHA256: 9c2bf1589bdd0eec685724dce059c579cba84c0727a8c9d3f9c35d54d92808e7 SHA512: cc8657cc9d2e82df0b97c3c64c2b19fefaa8b7bc00898e42ebc03253d07f3a3c4dfa162375faf5cc8e30c8d8842033721f3777e31e36d0f6eb56d58fb815862c Homepage: https://cran.r-project.org/package=phenoCDM Description: CRAN Package 'phenoCDM' (Continuous Development Models for Incremental Time-SeriesAnalysis) Using the Bayesian state-space approach, we developed a continuous development model to quantify dynamic incremental changes in the response variable. While the model was originally developed for daily changes in forest green-up, the model can be used to predict any similar process. The CDM can capture both timing and rate of nonlinear processes. Unlike statics methods, which aggregate variations into a single metric, our dynamic model tracks the changing impacts over time. The CDM accommodates nonlinear responses to variation in predictors, which changes throughout development. Package: r-cran-phenolocrop Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-purrr Suggests: r-cran-dplyr, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-phenolocrop_0.0.2-1.ca2004.1_all.deb Size: 27392 MD5sum: 33dc731c6736f475bff21457394e733d SHA1: 449896b461d876ec4c0f29938263b58aa32fb09b SHA256: 375c7fbcab917848a890d6451106ae1ffa230a3138f850a907c4e2da738d2307 SHA512: c266a77044daebe3d7b1fb9302633df5c91fa9f038896e2a1bba096a32f642d16b4bc38ce216539613d37151ce5583bbf4efe6fe209698aebf024dad6e2c2eff Homepage: https://cran.r-project.org/package=phenolocrop Description: CRAN Package 'phenolocrop' (Time-Series Models to the Crop Phenology) Fit a time-series model to a crop phenology data, such as time-series rice canopy height. This package returns the model parameters as the summary statistics of crop phenology, and these parameters will be useful to characterize the growth pattern of each cultivar and predict manually-measured traits, such as days to heading and biomass. Please see Taniguchi et al. (2022) for detail. This package has been designed for scientific use. Use for commercial purposes shall not be allowed. Package: r-cran-phenology Architecture: all Version: 10.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1395 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-numderiv, r-cran-optimx, r-cran-helpersmg Suggests: r-cran-shiny, r-cran-fields, r-cran-progress, r-cran-car, r-cran-multirng, r-cran-nlwaldtest, r-cran-pbapply, r-cran-cranlogs Filename: pool/dists/focal/main/r-cran-phenology_10.3-1.ca2004.1_all.deb Size: 1306856 MD5sum: 36c202821d30759650892d796b55431f SHA1: 09cd06bdb3eb72eef70411a31196892b73e1f674 SHA256: f7f29004eb4b9ebe8ad4e4c1556a7f68916e3a6716ac22a53641f3647676d907 SHA512: c834df945299ea66e28fb4cb0f927aa747ca9b278ab2720adcd302184dd2eb7070fac7f6521ffff7b2e3124bfb3310eb570f1894788722052af8a9aa9e75b00d Homepage: https://cran.r-project.org/package=phenology Description: CRAN Package 'phenology' (Tools to Manage a Parametric Function that Describes Phenologyand More) Functions used to fit and test the phenology of species based on counts. Based on Girondot, M. (2010) for the phenology function, Girondot, M. (2017) for the convolution of negative binomial, Girondot, M. and Rizzo, A. (2015) for Bayesian estimate, Pfaller JB, ..., Girondot M (2019) for tag-loss estimate, Hancock J, ..., Girondot M (2019) for nesting history, Laloe J-O, ..., Girondot M, Hays GC (2020) for aggregating several seasons. 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Package: r-cran-phenorm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-phenorm_0.1.0-1.ca2004.1_all.deb Size: 24608 MD5sum: 2e2c646ed30f637782c5023d7123cdea SHA1: 44b07ffd5b9ed236af429da4d99072dba38761dd SHA256: 38078f712cc8e75ed818f81fca8864ded6a591ecce02b57d972bff3856b6f253 SHA512: 10dd0d322512a88fec3906f272074ea540bd7cd91dee26c8c1ee294f44b9d2b250079c464aa89a1ae90361a5dc81534fac2c5dab1a1260edce3c26b65dffd97b Homepage: https://cran.r-project.org/package=PheNorm Description: CRAN Package 'PheNorm' (Unsupervised Gold-Standard Label Free Phenotyping Algorithm forEHR Data) The algorithm combines the most predictive variable, such as count of the main International Classification of Diseases (ICD) codes, and other Electronic Health Record (EHR) features (e.g. health utilization and processed clinical note data), to obtain a score for accurate risk prediction and disease classification. In particular, it normalizes the surrogate to resemble gaussian mixture and leverages the remaining features through random corruption denoising. Background and details about the method can be found at Yu et al. (2018) . 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Best linear unbiased prediction (BLUP) is a standard method for estimating random effects of a mixed model. This method can be used to process phenotypic data under different conditions and is widely used in animal and plant breeding. The 'Phenotype' can remove outliers from phenotypic data and performs the best linear unbiased prediction (BLUP), help researchers quickly complete phenotypic data analysis. H.P.Piepho. (2008) . 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Part of the 'r4photobiology' suite, Aphalo P. J. (2015) . Package: r-cran-photogea Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4288 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-openxlsx, r-cran-lattice, r-cran-dfoptim, r-cran-deoptim Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-plantecophys, r-cran-testthat Filename: pool/dists/focal/main/r-cran-photogea_1.3.3-1.ca2004.1_all.deb Size: 2448328 MD5sum: 5032baf556549900cd00329eab339a0a SHA1: dab518a8181c854acb0139bb08ccc672937a4387 SHA256: 44a1aa022ae911e192820063075a26fe2162ec8739007e474a5c2bbf7c3667b2 SHA512: 452d4d4c5324ce13ccb633db7f1c01e3b79d62c99894c3ae9886021b371989b151813aa22cdde6aad756f37f4b84beedb37f4914c410c8d4e91b964a21370155 Homepage: https://cran.r-project.org/package=PhotoGEA Description: CRAN Package 'PhotoGEA' (Photosynthetic Gas Exchange Analysis) Read, process, fit, and analyze photosynthetic gas exchange measurements. 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Facilitates the setup of local 'photon' instances to enable offline geocoding. Package: r-cran-photosynq Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-getpass Filename: pool/dists/focal/main/r-cran-photosynq_0.2.3-1.ca2004.1_all.deb Size: 41484 MD5sum: d8433b5ed5f2361bbe050d684154de38 SHA1: 57bc79d254f2f3c4525fb596fa102269a715bcbe SHA256: 9b066ba2e65753913c8f98a6fa3924fa8d31710020daa3a98e2a962c9497835d SHA512: 49411924a28ed870150cf7bed07a34ee43e2bb20813d630854210fb013954a423390c1d67d4fbc4d8d3f096821d818eb82884e061565971980378debc97f4c2d Homepage: https://cran.r-project.org/package=PhotosynQ Description: CRAN Package 'PhotosynQ' (Connect to PhotosynQ) Connect R to the PhotosynQ platform (). It allows to login and logout, as well as receive project information and project data. 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MODELING: Simulate C3 photosynthesis using the Farquhar, von Caemmerer, Berry (1980) model as described in Buckley and Diaz-Espejo (2015) . It uses units to ensure that parameters are properly specified and transformed before calculations. Temperature response functions get automatically "baked" into all parameters based on leaf temperature following Bernacchi et al. (2002) . The package includes boundary layer, cuticular, stomatal, and mesophyll conductances to CO2, which each can vary on the upper and lower portions of the leaf. Use straightforward functions to simulate photosynthesis over environmental gradients such as Photosynthetic Photon Flux Density (PPFD) and leaf temperature, or over trait gradients such as CO2 conductance or photochemistry. ANALYTICAL TOOLS: Fit ACi (Farquhar et al. (1980) ) and AQ curves (Marshall & Biscoe (1980) ), temperature responses (Heskel et al. (2016) ; Kruse et al. (2008) , Medlyn et al. (2002) , Hobbs et al. 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The method is, however, based on the nowadays rather uncommon situation in which uncertainty about a phylogeny is well represented by adopting a single polytomous tree. The theory is in A. Grafen (1989, Proc. R. Soc. B 326, 119-157) and aims to cope with both recognised phylogeny (closely related species tend to be similar) and unrecognised phylogeny (a polytomy usually indicates ignorance about the true sequence of binary splits). Package: r-cran-physactbedrest Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-chron, r-cran-stringr, r-cran-lubridate Filename: pool/dists/focal/main/r-cran-physactbedrest_1.1-1.ca2004.1_all.deb Size: 41780 MD5sum: b1384237acb120e8a471a4bc67c64285 SHA1: 7466bffa324e04042eb7105e8e6dd49c29a5ebc7 SHA256: 4008e4557abe779f8c4a2042a91a9e0241e8108133a07cd78362e5faaa62938f SHA512: 0654bb20527615b61fd6585c65fcc590f231c068163ee9c66e4790aa8301214463e624b86c6186efece7505e593dc27624558fc8b12e10b7f1d0b10b74052035 Homepage: https://cran.r-project.org/package=PhysActBedRest Description: CRAN Package 'PhysActBedRest' (Marks Periods of 'Bedrest' in Actigraph Accelerometer Data) Contains a function to categorize accelerometer readings collected in free-living (e.g., for 24 hours/day for 7 days), preprocessed and compressed as counts (unit-less value) in a specified time period termed epoch (e.g., 1 minute) as either bedrest (sleep) or active. 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Package: r-cran-phytosanitarycalculator Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-acceptancesampling, r-cran-htmltools, r-cran-rmarkdown Suggests: r-cran-testthat, r-cran-devtools, r-cran-rlang Filename: pool/dists/focal/main/r-cran-phytosanitarycalculator_1.1.3-1.ca2004.1_all.deb Size: 39776 MD5sum: 780bf18c1e34746d7b30bf2cde050977 SHA1: 828aa9e2d714ca29258b66358c44a4778a8764b6 SHA256: 09a5e47078d2c07ca6804facfe29c0c1183c7e5e37c305b9c2246735ade2c271 SHA512: 18fb2fbcc2265d2b4e5a03c558d9c3dd49c0ed6d3275708bbd961058d4372ac14a92886aac43da6fd57af1576de4aae6178dc5bce2bf3f2ac4edfdbd9ffdc65c Homepage: https://cran.r-project.org/package=PhytosanitaryCalculator Description: CRAN Package 'PhytosanitaryCalculator' (Phytosanitary Calculator for Inspection Plans Based on Risks) A 'Shiny' application for calculating phytosanitary inspection plans based on risks. 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Package: r-cran-piar Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 632 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gpindex, r-cran-matrix Suggests: r-cran-data.tree, r-cran-knitr, r-cran-rmarkdown, r-cran-sps, r-cran-testthat, r-cran-treemap Filename: pool/dists/focal/main/r-cran-piar_0.8.2-1.ca2004.1_all.deb Size: 286892 MD5sum: 06694623fcd891be578c79a439d249f5 SHA1: 673dc5c1d2ea8c4461476ae2dafe136f7de40476 SHA256: 76391fded734362519ec1c89bba77a422459e9b04bebba993361672b21a31d6c SHA512: 62aa02553b8d62114c5cf12b47c81e9720c954486246457762a80b97ff9ff43f3da03efdc13b304e9e19fd56f31d2d29189e0b5d95c97a7d45c7d44a45cd1e64 Homepage: https://cran.r-project.org/package=piar Description: CRAN Package 'piar' (Price Index Aggregation) Most price indexes are made with a two-step procedure, where period-over-period elemental indexes are first calculated for a collection of elemental aggregates at each point in time, and then aggregated according to a price index aggregation structure. 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Package: r-cran-pic Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-collapse, r-cran-data.table, r-cran-dbscan, r-cran-dplyr, r-cran-foreach, r-cran-magrittr, r-cran-tictoc Suggests: r-cran-ggplot2, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-pic_1.0.3-1.ca2004.1_all.deb Size: 45668 MD5sum: e7689c8a752a5ef59ba8c8068e4fe430 SHA1: 35c95ca2fc1de7545ae18f38274482eff7a42712 SHA256: 66e5a647aca027d18671aeec286825e88fe458cbfded72e8981298857529c091 SHA512: 0e187c31702d7e7a732a752c7603827fb266a12d510983190c31eea9c775806fa526c7f56486dc20a134e14a7acadf87c3e4323382bad9288fb38afeb135b086 Homepage: https://cran.r-project.org/package=PiC Description: CRAN Package 'PiC' (Pointcloud Interactive Computation for Forest Structure Analysis) Provides advanced algorithms for analyzing pointcloud data in forestry applications. 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In contrast to the more widely used Akaike Information Criterion (AIC), which are derived under the assumption that target(s) of prediction (i.e. validation data) are independently and identically distributed to the fitting data, the PIC are derived under less restrictive assumptions and thus generalize AIC to the more practically relevant case of training/validation data heterogeneity. The methodology featured in this package is based on Flores (2021) "A new class of information criteria for improved prediction in the presence of training/validation data heterogeneity". Package: r-cran-pid Architecture: all Version: 0.50-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2010 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-png, r-cran-frf2, r-cran-doe.base, r-cran-frf2.catlg128 Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-pid_0.50-1.ca2004.1_all.deb Size: 871184 MD5sum: b9e97df21b73d6b103af00e1971ffa25 SHA1: 84f737e93567a456c40a7aeac5cd3d7c17c1803a SHA256: 388e4953b6cbf6d2b02153b310573e57a5d4a7fa920cc1c3197c83f3334d6d31 SHA512: 8274a183cbea202e25fdc27c93a04560893897211c77645a851230e628e0a931f03faf40d0d2f1b52d2b8a0f9d7799b14c774fc5f6dea2b0b796a1303c39b576 Homepage: https://cran.r-project.org/package=pid Description: CRAN Package 'pid' (Process Improvement using Data) A collection of scripts and data files for the statistics text: "Process Improvement using Data" and the online course "Experimentation for Improvement" found on Coursera. 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See the paper, Wang, Yang, Li, and Wang (2021) . Package: r-cran-piecemaker Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-rlang, r-cran-stringi, r-cran-stringr Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-piecemaker_1.0.2-1.ca2004.1_all.deb Size: 40092 MD5sum: f937705f33d543ea96e895e569094ae1 SHA1: 57e21dbd09682c979b0560ecf040afd2598041d4 SHA256: ac806ad200ef2e50c0267e362b2bef48da2f235a008ae28d893972092c493473 SHA512: bd535fc3c9956809bbf44c3a21d8578425d25264548a5fea5a30c37886cc7e21c7ae7481583e8814925c142aa90585460873779728456295f90fa5e3405e853a Homepage: https://cran.r-project.org/package=piecemaker Description: CRAN Package 'piecemaker' (Tools for Preparing Text for Tokenizers) Tokenizers break text into pieces that are more usable by machine learning models. 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Package: r-cran-piecenorms Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-scales, r-cran-r6, r-cran-classint, r-cran-univariateml, r-cran-coinr, r-cran-vdiffr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-piecenorms_1.1.0-1.ca2004.1_all.deb Size: 182656 MD5sum: f276974f6b38a0e7ee1edf022116b218 SHA1: 5869e521cad55376f5ba96dc236d5a47b786865c SHA256: 7a1034742c9bdc3178b8108c3994425ef207ee50b659ee75df5ba630b34c966e SHA512: f6cce9a4b25d9d5acbe107099749ffc539e80727e08256a8974a654473d75d2b1ef7ed615bf2410ad8c16e9374ba9f11dd79b387aecf4d91aa6e34659bd70a49 Homepage: https://cran.r-project.org/package=piecenorms Description: CRAN Package 'piecenorms' (Calculate a Piecewise Normalised Score Using Class Intervals) Provides an implementation of piecewise normalisation techniques useful when dealing with the communication of skewed and highly skewed data. 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Package: r-cran-pieglyph Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2647 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-rlang, r-cran-ggiraph, r-cran-ggforce, r-cran-purrr, r-cran-forcats, r-cran-plyr, r-cran-scales, r-cran-cli Suggests: r-cran-spelling, r-cran-ranger, r-cran-maps, r-cran-cowplot, r-cran-mapproj, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-pieglyph_1.0.0-1.ca2004.1_all.deb Size: 732440 MD5sum: be03b0870313090649354b26496dadc3 SHA1: 9782c34a0d6663bec648133c4119b78045992f84 SHA256: 9501eea255c093486117e0e4d69a2cac9d5a15779fb4ce86c2a2f0b142e88461 SHA512: cf33689169fc52aa8234930c5bd4368b9ca261e0a4f48c69c880dd83f82e0ffa67b28dac36a7e26594aeac1412ad4879bec994c0311979d10fb345809d5f32df Homepage: https://cran.r-project.org/package=PieGlyph Description: CRAN Package 'PieGlyph' (Axis Invariant Scatter Pie Plots) Extends 'ggplot2' to help replace points in a scatter plot with pie-chart glyphs showing the relative proportions of different categories. 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Package: r-cran-piggyback Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 766 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-gh, r-cran-httr, r-cran-jsonlite, r-cran-fs, r-cran-lubridate, r-cran-memoise Suggests: r-cran-spelling, r-cran-readr, r-cran-covr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-gert, r-cran-withr, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-piggyback_0.1.5-1.ca2004.1_all.deb Size: 556024 MD5sum: 3dc3e66881791c33f40fe0606ea253e8 SHA1: ce468089b70437c518d8125c3a3a667a5116281e SHA256: ecdbe881349f3f726a6339cc1c9f52198b3f2fd2c1d655b667ec394d048fe93a SHA512: ac2d42adf6eb116afebcccfed0ce34d4d18156a8aca4b85161e8c24d3fa7ddbbe73bbed50cc2d42488056265a810a616e7396246ee0fe38129bc600bd8f28af9 Homepage: https://cran.r-project.org/package=piggyback Description: CRAN Package 'piggyback' (Managing Larger Data on a GitHub Repository) Because larger (> 50 MB) data files cannot easily be committed to git, a different approach is required to manage data associated with an analysis in a GitHub repository. 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Package: r-cran-piglet Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1508 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-bioc-biostrings, r-bioc-decipher, r-cran-alakazam, r-cran-dendextend, r-cran-data.table, r-cran-tigger, r-cran-rlang, r-cran-splitstackshape, r-cran-zen4r, r-cran-rcolorbrewer, r-cran-ggplot2, r-cran-circlize, r-cran-r6, r-cran-jsonlite, r-cran-magrittr, r-bioc-ggmsa, r-bioc-complexheatmap Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-htmltools, r-cran-stringi, r-cran-bookdown Filename: pool/dists/focal/main/r-cran-piglet_1.0.1-1.ca2004.1_all.deb Size: 1007260 MD5sum: f86cce6ac5fed3edcc18132574f13dd7 SHA1: c788909f048ac7c2a545295dcbcf4742aced2640 SHA256: 23f1b22224465ff4c0fe12fad410949b775cf0e627ab589da66112d41589649a SHA512: 2b0bf99c028aa37a8e9fe9e1c35ea9c78a68a57872fbde788bb57eb21febcb9243a74a0a59e9ef5cf68813351ec1e8dce7fb68a23630471d5053a7e0ab934c82 Homepage: https://cran.r-project.org/package=piglet Description: CRAN Package 'piglet' (Program for Inferring Ig Allele Similarity Clusters andGenotypes) Improves genotype inference and downstream AIRR-seq data analysis. Inference of allele similarity clusters, an alternative naming scheme and genotype inference for IGH repertoires. The main tools are allele similarity clusters (ASC), and allele based genotype. The first tool is designed to reduce the ambiguity within the IGHV alleles. The ambiguity is caused by duplicated or similar alleles which are shared among different genes. The second tool is an allele based genotype, that determined the presence of an allele based on a threshold derived from a naive population. Citation: Peres, et al (2022) . Package: r-cran-pigshift Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 501 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-pigshift_1.0.1-1.ca2004.1_all.deb Size: 475656 MD5sum: 301672a974a62ec1c14373b313c9fed6 SHA1: 9ca5941bc8c052705dba15aebc798488f4ebbfa5 SHA256: c873c41f45b38cf0110e602719a97c1a6b2a17f589ceb496ebc39ca4c5d3759d SHA512: 0115f9e21f6b08f5037db43a960827060ce29340e1b0fe4c8d2e80d90adf0500350091a8b8c1a8b45ceb6a8a79f1f4b540c7b63b9cb4510b47aeea4a5b78f707 Homepage: https://cran.r-project.org/package=PIGShift Description: CRAN Package 'PIGShift' (Polygenic Inverse Gamma Shifts) Fits models of gene expression evolution to expression data from coregulated groups of genes, assuming inverse gamma distributed rate variation. 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Package: r-cran-pim Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 799 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nleqslv, r-cran-bb Suggests: r-cran-testthat, r-cran-mass Filename: pool/dists/focal/main/r-cran-pim_2.0.4-1.ca2004.1_all.deb Size: 646708 MD5sum: b39609e0f31d0a8cad5171140ef167b9 SHA1: db79cd951e656b72c23718edceb722d8d393b1f1 SHA256: b3a99ed91185598c07b259017e947a4a7f9af79e6819c8f396c91e7b43c51a2c SHA512: 2ce120f99e73e330b88db414d70dffd3c84e8fa88421ff548b27792db23938bfb25f45684e4933013de556825fdba2ac83f7a1fe9e1ac14a8c344f7126e25540 Homepage: https://cran.r-project.org/package=pim Description: CRAN Package 'pim' (Fit Probabilistic Index Models) Fit a probabilistic index model as described in Thas et al, 2012: . The interface to the modeling function has changed in this new version. The old version is still available at R-Forge. Package: r-cran-pinfsc50 Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4234 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pinfsc50_1.3.0-1.ca2004.1_all.deb Size: 3416068 MD5sum: 8661dcb03fbd989c19d5761bad6ae8dd SHA1: 17edd77e1bd4a5451b43ab5a57baf3c4a704102e SHA256: 2ce7e2253243d3030e24133c3b2d6f1d5295c1dd036439a41629c17ce48afca5 SHA512: 089a9f0d259786ec009d20b22430ba2354d8e63918bf39c273cee550fda6991e34f64b5440b34a9500941d12216fd4d3e8df0fe1bd96c03b2dfea897d61402f7 Homepage: https://cran.r-project.org/package=pinfsc50 Description: CRAN Package 'pinfsc50' (Sequence ('FASTA'), Annotation ('GFF') and Variants ('VCF') for17 Samples of 'P. Infestans" and 1 'P. Mirabilis') Genomic data for the plant pathogen "Phytophthora infestans." It includes a variant file ('VCF'), a sequence file ('FASTA') and an annotation file ('GFF'). This package is intended to be used as example data for packages that work with genomic data. 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It does this by allowing you to retrieve the top trace route destinations your internet provider uses, and recursively ping each server in series while capturing the results and writing them to a log file. Each iteration it queries the destinations again, before shuffling the sequence of destinations to ensure the analysis is unbiased and consistent across each trace route. 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Package: r-cran-pins Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 985 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-digest, r-cran-fs, r-cran-generics, r-cran-glue, r-cran-httr, r-cran-jsonlite, r-cran-lifecycle, r-cran-magrittr, r-cran-purrr, r-cran-rappdirs, r-cran-rlang, r-cran-tibble, r-cran-whisker, r-cran-withr, r-cran-yaml Suggests: r-cran-archive, r-cran-arrow, r-cran-azurestor, r-cran-covr, r-cran-data.table, r-cran-filelock, r-cran-gitcreds, r-cran-googlecloudstorager, r-cran-googledrive, r-cran-httr2, r-cran-ids, r-cran-knitr, r-cran-microsoft365r, r-cran-mime, r-cran-mockery, r-cran-nanoparquet, r-cran-openssl, r-cran-paws.storage, r-cran-qs, r-cran-r.utils, r-cran-rmarkdown, r-cran-rsconnect, r-cran-shiny, r-cran-sodium, r-cran-testthat, r-cran-webfakes, r-cran-xml2, r-cran-zip Filename: pool/dists/focal/main/r-cran-pins_1.4.1-1.ca2004.1_all.deb Size: 679044 MD5sum: 7855f73c75e250108221e353c149f011 SHA1: 3150e0c6fc1156ec40f7548e7227af10787fc459 SHA256: d786ec05613a74c8533f9eb9fc34b2235d0432c35169ed6d988aae06d14127f4 SHA512: fcb1cb36ca9b346c959672511efea2019d8b8394401d1a128e01d4beab18de304df9ad718cabf1d8ef7ebd896d10b646481728fd0a03e842a2bb76ad8564d7f7 Homepage: https://cran.r-project.org/package=pins Description: CRAN Package 'pins' (Pin, Discover, and Share Resources) Publish data sets, models, and other R objects, making it easy to share them across projects and with your colleagues. 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Package: r-cran-pklmtest Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ranger Filename: pool/dists/focal/main/r-cran-pklmtest_1.0.1-1.ca2004.1_all.deb Size: 21852 MD5sum: 09ca030c72f9285876ac4cd15c6a0df8 SHA1: a3e32a2458b96f4852518314fda109fbe3985175 SHA256: bdbc1ee55390cc7bdf1db9b571c77c3d5a41f0815791eef1f8a96e6db8471b65 SHA512: a1f73b95e518830cabee620b210f5f66764e1255bd3979a0a2cb25deb824fdf449ef601aba188158b9609142d0dbb7a6ddb838aff33ee200d4ecdc14fcd8bc59 Homepage: https://cran.r-project.org/package=PKLMtest Description: CRAN Package 'PKLMtest' (Classification Based MCAR Test) Implementation of a KL-based (Kullback-Leibler) test for MCAR (Missing Completely At Random) in the context of missing data as introduced in Michel et al. (2021) . Package: r-cran-pkmon Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pkmon_1.1-1.ca2004.1_all.deb Size: 67116 MD5sum: c5af98a938ac3bcdc615a4f99556fb49 SHA1: 6e6248024fcbb1bcf0d600033a27bcb1901649c8 SHA256: 92d388af91bb92f2255d17c206212add36fa29e5fb00a1be0614d975db09de7c SHA512: 116f4b10c620ad9765d6f5bb0ebf37394cfcb5a0620919523afcc723c8a830c96d1714f4e0773f217e96725ca0e5e717e64689c2078cdd7505ebba29a983caed Homepage: https://cran.r-project.org/package=pkmon Description: CRAN Package 'pkmon' (Least-Squares Estimator under k-Monotony Constraint for DiscreteFunctions) We implement two least-squares estimators under k-monotony constraint using a method based on the Support Reduction Algorithm from Groeneboom et al (2008) . The first one is a projection estimator on the set of k-monotone discrete functions. The second one is a projection on the set of k-monotone discrete probabilities. This package provides functions to generate samples from the spline basis from Lefevre and Loisel (2013) , and from mixtures of splines. Package: r-cran-pknca Architecture: all Version: 0.12.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2927 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-dplyr, r-cran-digest, r-cran-nlme, r-cran-purrr, r-cran-rlang, r-cran-tidyr, r-cran-tibble, r-cran-lifecycle Suggests: r-cran-covr, r-cran-cowplot, r-cran-ggplot2, r-cran-knitr, r-cran-labeling, r-cran-pander, r-cran-pmxtools, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-units, r-cran-withr Filename: pool/dists/focal/main/r-cran-pknca_0.12.0-1.ca2004.1_all.deb Size: 1113192 MD5sum: 5e44f7e166a082db5102fb5bd431538c SHA1: 7e79e20043214e19962a8db29e9f52ce545f7db6 SHA256: 8d3916376bda392538125cb10dc430c5f55db08b4e2e3ca44746d3d6fc631658 SHA512: 7f03f7f5a4b0010ce80c93d22d62a058022aaef8edd050a342e2cfde6acca732e433e3d747cd13d4f625f5e1b1656b32b606f7fd596df90cadf0d96adb17dab6 Homepage: https://cran.r-project.org/package=PKNCA Description: CRAN Package 'PKNCA' (Perform Pharmacokinetic Non-Compartmental Analysis) Compute standard Non-Compartmental Analysis (NCA) parameters for typical pharmacokinetic analyses and summarize them. Package: r-cran-pkpdmodels Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 258 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-pkpdmodels_0.3.2-1.ca2004.1_all.deb Size: 208356 MD5sum: 96aff908abfae6d508b88d24f242cbee SHA1: 4bb4ae7f80a40f93a77ebb51f259590de640633b SHA256: 716a9bac238c97704b7d1be0d73857d645bf0f76c50b4177909352b090d49fd0 SHA512: 39154336f32b1b5bf7beb8d1c486c080b51212c8f60be9c50fa5d962c9157beed73a1dc6ae98b6929fdc2f7ea23596626fe1e9386cd65e5f3d27e40d74e59ad4 Homepage: https://cran.r-project.org/package=PKPDmodels Description: CRAN Package 'PKPDmodels' (Pharmacokinetic/pharmacodynamic models) Provides functions to evaluate common pharmacokinetic/pharmacodynamic models and their gradients. Package: r-cran-pkr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 401 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-foreign, r-cran-binr, r-cran-forestplot, r-cran-rtf Filename: pool/dists/focal/main/r-cran-pkr_0.1.3-1.ca2004.1_all.deb Size: 363872 MD5sum: 25710a19a57c8214364b2593a6f75974 SHA1: e7c22abafd22485541367226164be26b61181985 SHA256: 99ffcd4b1db23781a318b1078b1db6faf48f1a4bb0b518a015263463f6067171 SHA512: 017f9ce86e4b961efaf6938f4c70c7e037afd77e662885bb8cde8e57612252d1bf645c17d8477cef8ea7dea2901c581e7460f89c156eb4898b9dc01b7c38ff04 Homepage: https://cran.r-project.org/package=pkr Description: CRAN Package 'pkr' (Pharmacokinetics in R) Conduct a noncompartmental analysis as closely as possible to the most widely used commercial software. Some features are 1) CDISC SDTM terms 2) Automatic slope selection with the same criterion of WinNonlin(R) 3) Supporting both 'linear-up linear-down' and 'linear-up log-down' method 4) Interval(partial) AUCs with 'linear' or 'log' interpolation method * Reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications. 5th ed. 2016. (ISBN:9198299107). Package: r-cran-pkreport Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 716 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-pkreport_1.5-1.ca2004.1_all.deb Size: 579292 MD5sum: 9baba884c4cfbec9791e033287715ff7 SHA1: 0e3d448f34ee1ed471f0534807fb625a4de770ed SHA256: 1f21d4a7dd0408e427036f82100b2ad0588b6fa7acab83a1b768c2fa49517420 SHA512: eecba8b6465c99f501b24827203eea102bf532d877b01ede3b642e49872205ba5ddeaa2db44cc6057a1b708b435a0b4eaf0bf117cb4eaa4098159c7913654730 Homepage: https://cran.r-project.org/package=PKreport Description: CRAN Package 'PKreport' (A reporting pipeline for checking population pharmacokineticmodel assumption) PKreport aims to 1) provide automatic pipeline for users to visualize data and models. It creates a flexible R framework with automatically generated R scripts to save time and cost for later usage; 2) implement an archive-oriented management tool for users to store, retrieve and modify figures. 3) offer powerful and convenient service to generate high-quality graphs based on two R packages: lattice and ggplot2. Package: r-cran-pks Architecture: all Version: 0.6-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 521 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sets Suggests: r-cran-relations, r-bioc-rgraphviz Filename: pool/dists/focal/main/r-cran-pks_0.6-1-1.ca2004.1_all.deb Size: 466836 MD5sum: eacefe5bf01773519f1ea1aeb388d591 SHA1: 215a68cef7e6b6b8a4979cddf468dc47966192c5 SHA256: afe24c7966a823d28f7a8403a1ab82d67ec778595dca655e43f0fcc7b296e0e4 SHA512: 8aa549cf6b351f2843493429062c718bddc14dd41270467b7953aac08fe01e69f2d37aebdbd4c0a2cb8043853ee1f3ce56070027d8ecc72af0ca59435ded453f Homepage: https://cran.r-project.org/package=pks Description: CRAN Package 'pks' (Probabilistic Knowledge Structures) Fitting and testing probabilistic knowledge structures, especially the basic local independence model (BLIM, Doignon & Flamagne, 1999) and the simple learning model (SLM), using the minimum discrepancy maximum likelihood (MDML) method (Heller & Wickelmaier, 2013 ). Package: r-cran-pksea Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2932 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pksea_0.0.1-1.ca2004.1_all.deb Size: 2636168 MD5sum: a8d1617c48a5e211cd95934b7cd129db SHA1: 6139c43f25cb65816a6721b70fd243755e7c6962 SHA256: 9c398c22b3da45c7944bb59662dba02fc8e28199c3a3289d12d11aa8eb27dd23 SHA512: 62b20d6dfab9081f5fb0317a96c8041c23a5b872d083785a29080c0eb9b2aa0798f56f98dbc4c6de49af6cc86ff1c12181f330165ab65c610605f24c966e92b6 Homepage: https://cran.r-project.org/package=pKSEA Description: CRAN Package 'pKSEA' (Prediction-Based Kinase-Substrate Enrichment Analysis) A tool for inferring kinase activity changes from phosphoproteomics data. 'pKSEA' uses kinase-substrate prediction scores to weight observed changes in phosphopeptide abundance to calculate a phosphopeptide-level contribution score, then sums up these contribution scores by kinase to obtain a phosphoproteome-level kinase activity change score (KAC score). 'pKSEA' then assesses the significance of changes in predicted substrate abundances for each kinase using permutation testing. This results in a permutation score (pKSEA significance score) reflecting the likelihood of a similarly high or low KAC from random chance, which can then be interpreted in an analogous manner to an empirically calculated p-value. 'pKSEA' contains default databases of kinase-substrate predictions from 'NetworKIN' (NetworKINPred_db) Horn, et. al (2014) and of known kinase-substrate links from 'PhosphoSitePlus' (KSEAdb) Hornbeck PV, et. al (2015) . Package: r-cran-pksensi Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 434 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-data.table, r-cran-desolve, r-cran-foreach, r-cran-doparallel Suggests: r-cran-covr, r-cran-knitr, r-cran-httk, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-pksensi_1.2.3-1.ca2004.1_all.deb Size: 232700 MD5sum: bb3627ffc87f6d541db0976f7b875857 SHA1: 69114a396278bba10d44ba309dafd1480b310913 SHA256: e9eb7b4b13db8e6c5b65a744050c3090d367fcf2c3ea469b473830e514be9f08 SHA512: 8cd73a98ad527159a597256e6c02a1c3c5140ab6ca6d5166ac3bf7ab4f26940aa4dbd0b86147f44798880cdcfc45785c5cf0d869ef2a51e8d5b0f63897324982 Homepage: https://cran.r-project.org/package=pksensi Description: CRAN Package 'pksensi' (Global Sensitivity Analysis in Physiologically Based KineticModeling) Applying the global sensitivity analysis workflow to investigate the parameter uncertainty and sensitivity in physiologically based kinetic (PK) models, especially the physiologically based pharmacokinetic/toxicokinetic model with multivariate outputs. The package also provides some functions to check the convergence and sensitivity of model parameters. The workflow was first mentioned in Hsieh et al., (2018) , then further refined (Hsieh et al., 2020 ). Package: r-cran-pl94171 Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1066 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-stringr, r-cran-readr, r-cran-dplyr, r-cran-tinytiger, r-cran-sf, r-cran-withr, r-cran-httr Suggests: r-cran-testthat, r-cran-lifecycle, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-pl94171_1.1.3-1.ca2004.1_all.deb Size: 315576 MD5sum: 3176f41b9e7055e9ab742fae53efe24f SHA1: d8c0c7ba1a33955344ebf99652960e46aec77718 SHA256: 68095ba06cbd3f30b0b4da05c209b1350d89680a3f1d57c46fe5c806046b05b2 SHA512: f88b23e105a2e6dc9b62aa5f648440321401e2d11842e00716872ecea7c204ef83231474b0f0b9cf0f0c03cea350fcc72dddc8ac3e8642cfdfae77ced58fc7b8 Homepage: https://cran.r-project.org/package=PL94171 Description: CRAN Package 'PL94171' (Tabulate P.L. 94-171 Redistricting Data Summary Files) Tools to process legacy format summary redistricting data files produced by the United States Census Bureau pursuant to P.L. 94-171. These files are generally available earlier but are difficult to work with as-is. Package: r-cran-placer Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-placer_0.1.3-1.ca2004.1_all.deb Size: 47884 MD5sum: f1a38793729b60a434f7d2c646731646 SHA1: 22e49fcda35efe7cd7ff0d5488dfa572ead80186 SHA256: f679e44ea9eeb3013d73c039c362f2661029af020eca4e530497d4e5c9da1cd2 SHA512: a19ded36293c8320eeec443f44a7ae93a0672d14e3393675e21972a2b56e9c4c1624d72d4eed95a8eca418adb72f8f5252b112c20cff9a02e652226ed615cc60 Homepage: https://cran.r-project.org/package=placer Description: CRAN Package 'placer' (PLastic ACcumulation Estimate using R (PLACER)) Assessment of the prevalence of plastic debris in bird nests based on bootstrap replicates. The package allows for calculating bootstrapped 95% confidence intervals for the estimated prevalence of debris. Combined with a Bayesian approach, the resampling simulations can be also used to define appropriate sample sizes to detect prevalence of plastics. The method has wide application, and can also be applied to estimate confidence intervals and define sample sizes for the prevalence of plastics ingested by any other organisms. The method is described in Tavares et al. (Submitted). Package: r-cran-places Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-sp, r-cran-rgdal, r-cran-geosphere, r-cran-data.table, r-cran-rlang, r-cran-googleway, r-cran-stringr, r-cran-hms Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-places_0.1.1-1.ca2004.1_all.deb Size: 283784 MD5sum: ce416f4a3ae5a40ea16335b8bf8c3122 SHA1: 43bd41e1364f7fbbd524772ea65eaff03de5719b SHA256: 0ca0db889b23fb190a8017909943803a2bb8eca976d1566258908d2e8126e75a SHA512: d02d0490f49e4c4804b4ea554ec87465c4b886a1cb17cacf2bd8aba2206d47c8adeb31cb20198d204f9a54d68e681c87e0ba06ba510e22ef1bc602219ff71820 Homepage: https://cran.r-project.org/package=places Description: CRAN Package 'places' (Clusters GPS Data into Places) Clusters GPS coordinates into places (i.e., meaningful stops). Additionally, categorizes places into types (e.g., home, cafe, gym). 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Package: r-cran-plackettluce Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2076 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cvxr, r-cran-matrix, r-cran-igraph, r-cran-matrixstats, r-cran-partykit, r-cran-psychotools, r-cran-psychotree, r-cran-r6, r-cran-rspectra, r-cran-qvcalc, r-cran-sandwich Suggests: r-bioc-biocstyle, r-cran-bayesmallows, r-cran-bradleyterry2, r-cran-plmix, r-cran-rologit, r-cran-statrank, r-cran-bookdown, r-cran-covr, r-cran-hyper2, r-cran-kableextra, r-cran-knitr, r-cran-lbfgs, r-cran-gnm, r-cran-pmr, r-cran-prefmod, r-cran-rmarkdown, r-cran-survival, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plackettluce_0.4.3-1.ca2004.1_all.deb Size: 741952 MD5sum: c2cda69a3a5415d7cf49978771bbeaff SHA1: b1223f70c88fd150834e8e42384144a1bafcafaf SHA256: dc2c875d79f99ba576ebc1829eebfec2a9abda165c8c7d9fb79e70061fa10adf SHA512: 4f6242ec69181d6431578807e51b5ea30a9f1534843476cde226ef9eced44454333cff3ab4e3cc3c4912210e65ca8b50baa56682e36bba88c161110f5c83efdf Homepage: https://cran.r-project.org/package=PlackettLuce Description: CRAN Package 'PlackettLuce' (Plackett-Luce Models for Rankings) Functions to prepare rankings data and fit the Plackett-Luce model jointly attributed to Plackett (1975) and Luce (1959, ISBN:0486441369). The standard Plackett-Luce model is generalized to accommodate ties of any order in the ranking. Partial rankings, in which only a subset of items are ranked in each ranking, are also accommodated in the implementation. Disconnected/weakly connected networks implied by the rankings may be handled by adding pseudo-rankings with a hypothetical item. Optionally, a multivariate normal prior may be set on the log-worth parameters and ranker reliabilities may be incorporated as proposed by Raman and Joachims (2014) . Maximum a posteriori estimation is used when priors are set. Methods are provided to estimate standard errors or quasi-standard errors for inference as well as to fit Plackett-Luce trees. See the package website or vignette for further details. Package: r-cran-plainview Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 733 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-htmltools, r-cran-htmlwidgets, r-cran-lattice, r-cran-png, r-cran-raster, r-cran-viridislite Suggests: r-cran-shiny, r-cran-sf, r-cran-sp Filename: pool/dists/focal/main/r-cran-plainview_0.2.1-1.ca2004.1_all.deb Size: 672524 MD5sum: a5ac3904b60f9400d6eb1c524c76b211 SHA1: 1e871660e4322434ef13fd88cfff2cd6180fd460 SHA256: 0cdf353f5357613bdf0bc63bb057122a469afe71d88dc4f6615c8442314b9fc1 SHA512: 0d22ccf55d7e199a421c078fc790c5d813dd8e582266b48d73069bb594eee11b8b850305cd18944d2ae191a152d5afba34c7430da9877de9a5986440b5fc6401 Homepage: https://cran.r-project.org/package=plainview Description: CRAN Package 'plainview' (Plot Raster Images Interactively on a Plain HTML Canvas) Provides methods for plotting potentially large (raster) images interactively on a plain HTML canvas. In contrast to package 'mapview' data are plotted without background map, but data can be projected to any spatial coordinate reference system. Supports plotting of classes 'RasterLayer', 'RasterStack', 'RasterBrick' (from package 'raster') as well as 'png' files located on disk. Interactivity includes zooming, panning, and mouse location information. In case of multi-layer 'RasterStacks' or 'RasterBricks', RGB image plots are created (similar to 'raster::plotRGB' - but interactive). Package: r-cran-plan Architecture: all Version: 0.4-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 426 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plan_0.4-5-1.ca2004.1_all.deb Size: 300152 MD5sum: d938499c7448887cb083914dff52bfaf SHA1: f2e6528576aa4645c74c51d45d0bc326d108b210 SHA256: b98dfbf1d51df681d22feffcf1081cc23aaa9ed17a6d24dbab6b4940f1ff8736 SHA512: 60a0162ca9d3c5e23039cef7fc00de2e20485fedb2483e0f29274777c41c1901519991f1ab4cfef21789af04fa08d7568c2bf012e963f79102e38ee20043ad2a Homepage: https://cran.r-project.org/package=plan Description: CRAN Package 'plan' (Tools for Project Planning) Supports the creation of 'burndown' charts and 'gantt' diagrams. Package: r-cran-planegeometry Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7119 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-carlson, r-cran-cvxr, r-cran-fitconic, r-cran-r6, r-cran-rcdd, r-cran-sdpt3r, r-cran-stringr, r-cran-uniformly Suggests: r-cran-ellipse, r-cran-elliptic, r-cran-freegroup, r-cran-knitr, r-cran-rgl, r-cran-rmarkdown, r-cran-sets, r-cran-testthat, r-cran-viridislite Filename: pool/dists/focal/main/r-cran-planegeometry_1.6.0-1.ca2004.1_all.deb Size: 5384200 MD5sum: 5ff1927eee498d8d10c3bae345c54c9b SHA1: 644d7eef971d5e5a54411691cf5e58b841b68e60 SHA256: ffe2a9bd17daaaf8e8b85e24feb193f53249fcf6e20e3969d5b6c68a6b34df5c SHA512: ea01f4ae4cc5ebc10dc85fdf2068ece07d08d4cd019c6b7303763d9d7cc3625f9505e66ed1ba9595e391eb1c5f95b069b8951c5ebb210cbc54272561488bb563 Homepage: https://cran.r-project.org/package=PlaneGeometry Description: CRAN Package 'PlaneGeometry' (Plane Geometry) An extensive set of plane geometry routines. Provides R6 classes representing triangles, circles, circular arcs, ellipses, elliptical arcs, lines, hyperbolae, and their plot methods. Also provides R6 classes representing transformations: rotations, reflections, homotheties, scalings, general affine transformations, inversions, Möbius transformations. Package: r-cran-planesmuestra Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-planesmuestra_0.1-1.ca2004.1_all.deb Size: 68368 MD5sum: d39b9657d0b4f784a5e68c68bd20d296 SHA1: 55819714d549cdd50c455110ff5085a70bb9ad50 SHA256: 6e04569b66eb882ee679158e4616ed9a666c85c32a52d7293cc6ea4e272cc249 SHA512: 199f3f8dc3887c47565c7bf9d33baa999a23617a40a3d3678caf2d38c62b715d24220f145dbc384dafcff382edef76f78b5ee1c433582d2e9329b1be6ff209ec Homepage: https://cran.r-project.org/package=Planesmuestra Description: CRAN Package 'Planesmuestra' (Functions for Calculating Dodge Romig, MIL STD 105E and MIL STD414 Acceptance Sampling Plan) Calculates an acceptance sampling plan, (sample size and acceptance number) based in MIL STD 105E, Dodge Romig and MIL STD 414 tables and procedures. The arguments for each function are related to lot size, inspection level and quality level. The specific plan operating curve (OC), is calculated by the binomial distribution. Package: r-cran-planetnicfi Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4233 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-sf, r-cran-data.table, r-cran-glue, r-cran-terra Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-planetnicfi_1.0.5-1.ca2004.1_all.deb Size: 2001728 MD5sum: e3d10c1aed4f585bdb31af6d24637035 SHA1: 02237251d77fcff11c2384f19daa24260de81b3f SHA256: 2e9a0aa775978aad5cf890fce624961b77701e0bbffe04ef24909886d67df842 SHA512: 6e702b7788395f38e09eee86e91dd509b4f47b9bab0f6fe707ef7bd623ec3e0f212eb52429a205752293e1402a6e263eae83aab6646a634630b79bcbc12c2d12 Homepage: https://cran.r-project.org/package=PlanetNICFI Description: CRAN Package 'PlanetNICFI' (Processing of the 'Planet NICFI' Satellite Imagery) It includes functions to download and process the 'Planet NICFI' (Norway's International Climate and Forest Initiative) Satellite Imagery utilizing the Planet Mosaics API . 'GDAL' (library for raster and vector geospatial data formats) and 'aria2c' (paralleled download utility) must be installed and configured in the user's Operating System. Package: r-cran-planets Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-planets_0.1.0-1.ca2004.1_all.deb Size: 90128 MD5sum: f3cc09895a8949f10b67bee2074a7ca1 SHA1: 3ea5bc3518f6c4d146a7ad42d6f444525256319a SHA256: 3b3cf7a8e84d60415c08128602dee10d55d1ca31eac28a121275560633c56f2a SHA512: 1f78e4d97c2cf0b18eefae67da8f95f3085863b474fdada4c8a2bcc4d0500a3de41344118300dde86751ac381f1f53cecfe429fec1a9f06a23640f7b161f786b Homepage: https://cran.r-project.org/package=planets Description: CRAN Package 'planets' (Simple and Accessible Data from all Known Planets) The goal of 'planets' is to provide of very simple and accessible data containing basic information from all known planets. Package: r-cran-planningml Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3032 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-glmnet, r-cran-caret, r-cran-lubridate, r-cran-matrix, r-cran-mess, r-cran-dplyr, r-cran-proc Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-planningml_1.0.1-1.ca2004.1_all.deb Size: 1377728 MD5sum: 05f9cba60f0e7a78bab86f7f60ada622 SHA1: a73331e12a22a40e6d00df793a3f7cb5f2897144 SHA256: 8f377a541f661bff0e57904be5be27f11ff8a7a46a99accfb09a0f04483eedef SHA512: 102e9a8f3442fbf9330453dd170179dad352dbf28294dddddec1c85a3c72a15289252b584b92d73a994344f2e839c942b7cb257c66c4e0469868e84802f6cae5 Homepage: https://cran.r-project.org/package=planningML Description: CRAN Package 'planningML' (A Sample Size Calculator for Machine Learning Applications inHealthcare) Advances in automated document classification has led to identifying massive numbers of clinical concepts from handwritten clinical notes. These high dimensional clinical concepts can serve as highly informative predictors in building classification algorithms for identifying patients with different clinical conditions, commonly referred to as patient phenotyping. However, from a planning perspective, it is critical to ensure that enough data is available for the phenotyping algorithm to obtain a desired classification performance. This challenge in sample size planning is further exacerbated by the high dimension of the feature space and the inherent imbalance of the response class. Currently available sample size planning methods can be categorized into: (i) model-based approaches that predict the sample size required for achieving a desired accuracy using a linear machine learning classifier and (ii) learning curve-based approaches (Figueroa et al. (2012) ) that fit an inverse power law curve to pilot data to extrapolate performance. We develop model-based approaches for imbalanced data with correlated features, deriving sample size formulas for performance metrics that are sensitive to class imbalance such as Area Under the receiver operating characteristic Curve (AUC) and Matthews Correlation Coefficient (MCC). This is done using a two-step approach where we first perform feature selection using the innovated High Criticism thresholding method (Hall and Jin (2010) ), then determine the sample size by optimizing the two performance metrics. Further, we develop software in the form of an R package named 'planningML' and an 'R' 'Shiny' app to facilitate the convenient implementation of the developed model-based approaches and learning curve approaches for imbalanced data. We apply our methods to the problem of phenotyping rare outcomes using the MIMIC-III electronic health record database. We show that our developed methods which relate training data size and performance on AUC and MCC, can predict the true or observed performance from linear ML classifiers such as LASSO and SVM at different training data sizes. Therefore, in high-dimensional classification analysis with imbalanced data and correlated features, our approach can efficiently and accurately determine the sample size needed for machine-learning based classification. Package: r-cran-planr Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3999 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-lubridate, r-cran-magrittr, r-cran-rcpproll Suggests: r-cran-highcharter, r-cran-knitr, r-cran-reactable, r-cran-reactablefmtr, r-cran-rmarkdown, r-cran-shiny, r-cran-tidyverse, r-cran-sparkline, r-cran-dt, r-cran-diagrammer, r-cran-networkd3, r-cran-testthat Filename: pool/dists/focal/main/r-cran-planr_0.5.1-1.ca2004.1_all.deb Size: 665732 MD5sum: 0a51d916475ef06638519ad2559d5d09 SHA1: aee4d5a285d652a3037d6378e2275b9debc840ab SHA256: c4c3bc2c2818f227fce210d6d6900599c8da0f7cdd9d01b8b22965cc91398811 SHA512: 1985853879a7afeb27d87bfd40d4aadc5b2ad55766998cc0e62841f6b359e7dcadd18ca24a0af651ec2da53b0b606f2f49e88af0c5c1bf6f711d173d27a31348 Homepage: https://cran.r-project.org/package=planr Description: CRAN Package 'planr' (Tools for Supply Chain Management, Demand and Supply Planning) Perform flexible and quick calculations for Demand and Supply Planning, such as projected inventories and coverages, as well as replenishment plan. For any time bucket, daily, weekly or monthly, and any granularity level, product or group of products. Package: r-cran-planscorer Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 466 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-dplyr, r-cran-fs, r-cran-httr2, r-cran-jsonlite, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-sf, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-webshot2 Suggests: r-cran-httptest2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-planscorer_0.0.2-1.ca2004.1_all.deb Size: 412896 MD5sum: 02f5578ed2f1c91f83663ab05d9ce011 SHA1: 94f157912c066dd5cefcbc0d484979c9fa531f89 SHA256: 762c4abb6e2533c2f033ac32680fe7da2e337aa4c0053615ad2490245f6f40be SHA512: b697e04338efe2890832ef3c888166249c66ac336104eb853f0e80d3bf64d78f854baae0a95c72e2c826c756019e73634904dd6a4d7bb912b8427c6e8004f775 Homepage: https://cran.r-project.org/package=planscorer Description: CRAN Package 'planscorer' (Score Redistricting Plans with 'PlanScore') Provides access to the 'PlanScore' Application Programming Interface () for scoring redistricting plans. Allows for upload of plans from block assignment files and shape files. For shapes in memory, such as from 'sf' or 'redist', it processes them to save and upload. Includes tools for tidying responses and saving output from the website. Package: r-cran-plantecophys Architecture: all Version: 1.4-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 344 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-nlstools, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-dt Filename: pool/dists/focal/main/r-cran-plantecophys_1.4-6-1.ca2004.1_all.deb Size: 228276 MD5sum: 2ee650a85b532bc43ea73f920cb6add0 SHA1: 9c4e7cbee4f93f6b30ea01594db78cd643d3e799 SHA256: bdd467969ca95945a4875f9e69ea8602751238cd80c12ae8858d4a6f92abc93e SHA512: 93a876d1bff0a9a115b07aa169af31b14bc33c939f39159b7b4ae4f9cc56a13a03b9e71fbc00e0c0757d757ff4f83e8050ec95aa39ff516fcd02c8eaf32cbb35 Homepage: https://cran.r-project.org/package=plantecophys Description: CRAN Package 'plantecophys' (Modelling and Analysis of Leaf Gas Exchange Data) Coupled leaf gas exchange model, A-Ci curve simulation and fitting, Ball-Berry stomatal conductance models, leaf energy balance using Penman-Monteith, Cowan-Farquhar optimization, humidity unit conversions. See Duursma (2015) . Package: r-cran-plantecowrap Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1468 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-minpack.lm, r-cran-plantecophys, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plantecowrap_1.0.4-1.ca2004.1_all.deb Size: 321324 MD5sum: 7f21244e3a5f7500fefdb8b28f23e49b SHA1: b2fb55805e2a70d0f3f04a0ba69698c6fdcec0c8 SHA256: 52c7884b43ea814c6de996eeada5f13396e15da1a8ea71e54a6bb43c81c34eaa SHA512: 768ca9106f25ab94c229ce00b6eb57ed08fbea2f1f44e0bf17858d730facc963342d635644f774107fa0559182b035fe50dca11178498c84261a789393e275ec Homepage: https://cran.r-project.org/package=plantecowrap Description: CRAN Package 'plantecowrap' (Enhancing Capabilities of 'plantecophys') Provides wrapping functions to add to capabilities to 'plantecophys' (Duursma, 2015, ). Key added capabilities include temperature responses of mesophyll conductance (gm, gmeso), apparent Michaelis-Menten constant for rubisco carboxylation in air (Km, Kcair),and photorespiratory CO2 compensation point (GammaStar) for fitting A-Ci or A-Cc curves for C3 plants (for temperature responses of gm, Km, & GammaStar, see Bernacchi et al., 2002, ; for theory on fitting A-Ci or A-Cc curves, see Farquhar et al., 1980; , von Caemmerer, 2000, ISBN:064306379X; Ethier & Livingston, 2004 ; and Gu et al., 2010, ). Includes the ability to fit the Arrhenius and modified Arrhenius temperature response functions (see Medlyn et al., 2002, ) for maximum rubisco carboxylation rates (Vcmax) and maximum electron transport rates (Jmax) (see Farquhar et al., 1980; ). Package: r-cran-plantphysior Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-plantphysior_1.0.0-1.ca2004.1_all.deb Size: 88584 MD5sum: faf9d1f44299dd3cc82ec828580f628d SHA1: 1a9c5924bda8b82325670841753eae9c33b932ce SHA256: c8cc77067c6f6c99ee705c308f8b06f102ffd412ae9dc0ccfdc701014d14dc9f SHA512: bb0a572edc89012315088a09f265b756e4dabb435795eea32b0284eb85083c3e875dce48b19c361b867367f9ba4cb16d7266101642066d2a01dcdf03bf9ad9e6 Homepage: https://cran.r-project.org/package=plantphysioR Description: CRAN Package 'plantphysioR' (Fundamental Formulas for Plant Physiology) Functions tailored for scientific and student communities involved in plant science research. Functionalities encompass estimation chlorophyll content according to Arnon (1949) , determination water potential of Polyethylene glycol(PEG)6000 as in Michel and Kaufmann (1973) and functions related to estimation of yield related indices like Abiotic tolerance index as given by Moosavi et al.(2008), Geometric mean productivity (GMP) by Fernandez (1992) , Golden Mean by Moradi et al.(2012), HAM by Schneider et al.(1997),MPI and TOL by Hossain etal., (1990), RDI by Fischer et al. (1979),SSI by Fisher et al.(1978), STI by Fernandez (1993),YSI by Bouslama & Schapaugh (1984), Yield index by Gavuzzi et al.(1997). Package: r-cran-planttracker Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4256 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix, r-cran-igraph, r-cran-sf, r-cran-units Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-minidown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-planttracker_1.1.0-1.ca2004.1_all.deb Size: 2873892 MD5sum: 35dd0e5e73d5aa620082643f51ed8d2a SHA1: f3fc2f700c3e2ac56c89f7f8b6eac2f4054d74f6 SHA256: 4f7b312f7c601a5f8d09136d7ff3b1ac9ad5b2d81e9196184b33fbba9e885fe4 SHA512: ae5448bae73182b758f236ece9bd54ec732aa1e83926313b05e659f3a9d93e614bf00c02e00c99dc9a814f6c3c769439c191012f460e3d6a4ced9199baf46021 Homepage: https://cran.r-project.org/package=plantTracker Description: CRAN Package 'plantTracker' (Extract Demographic and Competition Data from Fine-Scale Maps) Extracts growth, survival, and local neighborhood density information from repeated, fine-scale maps of organism occurrence. Further information about this package can be found in our journal article, "plantTracker: An R package to translate maps of plant occurrence into demographic data" published in 2022 in Methods in Ecology and Evolution (Stears, et al., 2022) . Package: r-cran-plaqr Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-quantreg Filename: pool/dists/focal/main/r-cran-plaqr_2.0-1.ca2004.1_all.deb Size: 74624 MD5sum: 02e8ad313a6ec775218fb586e68c3448 SHA1: b568e806b41a6b153a984b3bf5990781013f01e2 SHA256: a36fb7f7b7de434712781b5d1fbff897bb82f5e964a4c32978f286f1a98a2e10 SHA512: 73b368bf337c494530f57e040040272b9ec463b6a8cc7854d9aab18a1378065b7a96f84cbddd5ff3c7c6f5c0fd37ddab539dfe416f1f574ef2372a2214c32dbe Homepage: https://cran.r-project.org/package=plaqr Description: CRAN Package 'plaqr' (Partially Linear Additive Quantile Regression) Estimation, prediction, thresholding, transformation, and plotting for partially linear additive quantile regression. Intuitive functions for fitting and plotting partially linear additive quantile regression models. Uses and works with functions from the 'quantreg' package. Package: r-cran-plasma Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3363 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-survival, r-cran-pls, r-cran-plsrcox, r-cran-polychrome, r-cran-viridislite, r-cran-beanplot, r-cran-oompabase Suggests: r-cran-r.rsp, r-cran-tidyr, r-cran-classdiscovery Filename: pool/dists/focal/main/r-cran-plasma_1.1.5-1.ca2004.1_all.deb Size: 1814948 MD5sum: b4062cefe59a20692ebfbc80161013c0 SHA1: e7987280b74e5e3aba70fab3e954ed227db9209d SHA256: a22a61f8b6dbeb7388ad26ddaec57a51705db1a07a8032a5b6f5c5d11caa19a9 SHA512: 57303d4d4034b773fb946706e6a026f19c2635614a574d8a2c6d6aac17d7fcece558477573171b03f81db533ae0e832704205838dae9dcebaa7cf2b7b76ac498 Homepage: https://cran.r-project.org/package=plasma Description: CRAN Package 'plasma' (Partial LeAst Squares for Multiomic Analysis) Contains tools for supervised analyses of incomplete, overlapping multiomics datasets. Applies partial least squares in multiple steps to find models that predict survival outcomes. See Yamaguchi et al. (2023) . Package: r-cran-plasmamutationdetector2 Architecture: all Version: 1.1.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4109 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-bioc-genomicranges, r-bioc-variantannotation, r-bioc-s4vectors, r-bioc-rsamtools, r-bioc-rtracklayer, r-cran-robustbase, r-bioc-summarizedexperiment Filename: pool/dists/focal/main/r-cran-plasmamutationdetector2_1.1.11-1.ca2004.1_all.deb Size: 3356696 MD5sum: 961f4535bb237d0cd71ce81a170cf844 SHA1: 338497ee955d2381fad83b64586adfc91fc1b9d9 SHA256: 164680ad9e0592d0383f5af3ecafc344f8793b889c5ab8f801331905269342ec SHA512: a2393517821d149204e908ad8916e400c253858b8f7ce178f3310177655428dc1cfd6e88ce2b049dbd040ee3d6eb261cc71fa1b42176bb09a90ce02c8f5dfd23 Homepage: https://cran.r-project.org/package=PlasmaMutationDetector2 Description: CRAN Package 'PlasmaMutationDetector2' (Tumor Mutation Detection in Plasma using Barcoding) Aims at detecting single nucleotide variation (SNV) and insertion/deletion (INDEL) in circulating tumor DNA (ctDNA), used as a surrogate marker for tumor, at each base position of an Next Generation Sequencing (NGS) analysis using barcoding. Mutations are assessed by comparing the minor-allele frequency at each position to the measured PER in control samples. This package has been used for Kjersti Tjensvoll, Morten Lapin, Bjørnar Gilje, Herish Garresori, Satu Oltedal, Rakel Brendsdal Forthun, Anders Molven, Yves Rozenholc and Oddmund N\o{o}rdgaard (2022) . Package: r-cran-plasmamutationdetector Architecture: all Version: 1.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4654 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-bioc-genomicranges, r-bioc-variantannotation, r-bioc-s4vectors, r-bioc-rsamtools, r-bioc-rtracklayer, r-cran-robustbase, r-bioc-summarizedexperiment Filename: pool/dists/focal/main/r-cran-plasmamutationdetector_1.7.2-1.ca2004.1_all.deb Size: 3882408 MD5sum: d4ad6e023caf35ee4cd27ded25004120 SHA1: 0a633641120a9d2bdc0730406bf1f530962d88d8 SHA256: 312945601e537cd2edb4e634369eca62546637f569a2289e2a9f7176a7291ec4 SHA512: 0edfd3184cd2802aa3bc0d76508745b5961d4666bb16d65696f73cee4696a1c05a22752560003cf0d1e89d390822b3001e59f734280663fdf8c1ebb07a38558c Homepage: https://cran.r-project.org/package=PlasmaMutationDetector Description: CRAN Package 'PlasmaMutationDetector' (Tumor Mutation Detection in Plasma) Aims at detecting single nucleotide variation (SNV) and insertion/deletion (INDEL) in circulating tumor DNA (ctDNA), used as a surrogate marker for tumor, at each base position of an Next Generation Sequencing (NGS) analysis. Mutations are assessed by comparing the minor-allele frequency at each position to the measured PER in control samples. Package: r-cran-plasmidprofiler Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-dplyr, r-cran-gdata, r-cran-ggdendro, r-cran-ggplot2, r-cran-gridextra, r-cran-gtable, r-cran-htmlwidgets, r-cran-magrittr, r-cran-plotly, r-cran-plyr, r-cran-rcolorbrewer, r-cran-reshape2, r-cran-stringr Suggests: r-cran-lintr Filename: pool/dists/focal/main/r-cran-plasmidprofiler_0.1.6-1.ca2004.1_all.deb Size: 97176 MD5sum: 4a3d344a317ac557f1eff6c7270e34dc SHA1: f07a593c136cd8cfe5f90aa4b63c2800f28c8ec0 SHA256: c5a205847220424ceaa7d7ca7cda5a458d749a593a157c54fe466f8aaffdd941 SHA512: a7166a9d1b687118053aacc44d1e107aca3115609c0e375744a90eed1a4af9a95801231a2b4f3b774195ccbc9e1221f5581dd8cc60b257026ea5e0f4a51faa1f Homepage: https://cran.r-project.org/package=Plasmidprofiler Description: CRAN Package 'Plasmidprofiler' (Visualization of Plasmid Profile Results) Contains functions developed to combine the results of querying a plasmid database using short-read sequence typing with the results of a blast analysis against the query results. Package: r-cran-plasso Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 265 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-glmnet, r-cran-matrix, r-cran-doparallel, r-cran-foreach, r-cran-iterators Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-xfun Filename: pool/dists/focal/main/r-cran-plasso_0.1.2-1.ca2004.1_all.deb Size: 201336 MD5sum: 0f8cd3507ce5e852e6ea0bc85ed061b0 SHA1: 410c4dd2049fe075594e2aa9d94bf509878a88c8 SHA256: 22cb442373ef379954f874ca477dc717269b0b5bc3edcafa4e85547f571d1142 SHA512: 1c64bc6b21d3fcfd0a912f14d8b2a0213e1b5dc92fdc2935388c1fb368c09d0ba2d9e1db7d884823122a4b1d4eece7cb9827912e314a06bf215e23e0504c551d Homepage: https://cran.r-project.org/package=plasso Description: CRAN Package 'plasso' (Cross-Validated (Post-) Lasso) Built on top of the 'glmnet' library by Friedman, Hastie and Tibshirani (2010) , the 'plasso' package follows Knaus (2022) and comes up with two functions that estimate least squares Lasso and Post-Lasso models. The plasso() function adds coefficient paths for a Post-Lasso model to the standard 'glmnet' output. On top of that cv.plasso() cross-validates the coefficient paths for both the Lasso and Post-Lasso model and provides optimal hyperparameter values for the penalty term lambda. Package: r-cran-plater Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-rlang Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-plater_1.0.5-1.ca2004.1_all.deb Size: 90596 MD5sum: 6150dcfbaa64911e03415e7263c1827c SHA1: 93a82a83f26cfb80a862913a946aa8f4ce61d1af SHA256: 0cdc92b04195da686129c4c1673bb259c368eb19ce30c10cd80f9e42354c1dbd SHA512: eff1e46266883bbc37b03e9610707328e5ef90e85707bb8459c3ec71fdfef076545875cea1a2d84757d425917da1f92c9b0c058ddb5269e01eecc2e37a381568 Homepage: https://cran.r-project.org/package=plater Description: CRAN Package 'plater' (Read, Tidy, and Display Data from Microtiter Plates) Tools for interacting with data from experiments done in microtiter plates. Easily read in plate-shaped data and convert it to tidy format, combine plate-shaped data with tidy data, and view tidy data in plate shape. Package: r-cran-platetools Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 187 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rcolorbrewer, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-viridis Filename: pool/dists/focal/main/r-cran-platetools_0.1.7-1.ca2004.1_all.deb Size: 145616 MD5sum: e7ce16808700bb85a8400cc60a349e14 SHA1: a2904383f8a40fdfabe7501e3ee481be17f645c4 SHA256: c376223ee915a835c3f159abddc29c5f26e81c592d4b4549846d57348eb69a11 SHA512: 6ff85f6c12e8c8b9422fbf54459a91315de37cf1528fa028a8908d3d05835a33e167f1557e91e7ab8315a5adfaf5e7c17d43c5f8d4ff8f1a735348fd6cc5d84d Homepage: https://cran.r-project.org/package=platetools Description: CRAN Package 'platetools' (Tools and Plots for Multi-Well Plates) Collection of functions for working with multi-well microtitre plates, mainly 96, 384 and 1536 well plates. Package: r-cran-platformdesign Architecture: all Version: 2.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1240 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-platformdesign_2.1.4-1.ca2004.1_all.deb Size: 541624 MD5sum: 27c50c3bc60a6ff2f4b909e6f3f1f9ce SHA1: c7b8e357edf0cc8137f4ccaf47bcf0894ccea8a2 SHA256: 8e08e568a4974a9fb6be6532fa37bbcf269cbc4df0b34667df887693166cdd08 SHA512: 63cea8cd6c23db41b2fdc3e4b43af17ea8b52d42d9609f7cb7f123cb200eabaaaf819bef64e9c2c0dc3663583de49324e0d5fd0d9937b297b8c68dfc1f62677e Homepage: https://cran.r-project.org/package=PlatformDesign Description: CRAN Package 'PlatformDesign' (Optimal Two-Period Multiarm Platform Design with NewExperimental Arms Added During the Trial) Design parameters of the optimal two-period multiarm platform design (controlling for either family-wise error rate or pair-wise error rate) can be calculated using this package, allowing pre-planned deferred arms to be added during the trial. More details about the design method can be found in the paper: Pan, H., Yuan, X. and Ye, J. (2022) "An optimal two-period multiarm platform design with new experimental arms added during the trial". Manuscript submitted for publication. For additional references: Dunnett, C. W. (1955) . Package: r-cran-platowork Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-purrr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-platowork_0.0.1-1.ca2004.1_all.deb Size: 63736 MD5sum: 32d42373e1dd18124eb3818ff18a45b7 SHA1: 8dff92c3a9a5df7f4cc8f95f106feb3e00d469f6 SHA256: f0209360120835c7fb2fd57ec768f04923e53d97fdbe9c01aa986d3bdfbea79e SHA512: 2a7f42d643f788a59d8ae9b3b580a0338fdce45267e986d725334874cfe2594a2b705936dc476bc79a5f1553f16cb909b124da97777c59ff40382957c0ba2368 Homepage: https://cran.r-project.org/package=platowork Description: CRAN Package 'platowork' (Data from a Test of the PlatoWork tDCS Headset) Data and analysis from an experiment with improving touch typing speed, using the tDCS PlatoWork headset produced by PlatoScience. Package: r-cran-plattice Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-rfast, r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-plattice_1.1-1.ca2004.1_all.deb Size: 14108 MD5sum: 16d9155656571a38612c2866b026974e SHA1: 32f263e841d2e52277e5a15644b3e705c7fd70b4 SHA256: c7bc854b6335cfa94208e1859d02a3c78bd16cccca213aedf770fc18dd5be608 SHA512: 4823332ee407dab192cdd65f2cf2d13886550bdcdbff17dcfcb7f5c776cb771ffcaa6feb6cf609f73369b2659862d759f1c3180330889b8208efe25727ef372d Homepage: https://cran.r-project.org/package=plattice Description: CRAN Package 'plattice' (Lattice Plot for Panel Data) It creates a lattice plot to visualize panel or longitudinal data. The observed values are plotted as dots and the fitted values as lines, both against time. The plot is customizable and easy to edit, even if you do not know how to construct a lattice plot from scratch. Package: r-cran-platypus Architecture: all Version: 3.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1818 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-biostrings, r-cran-cowplot, r-cran-dplyr, r-cran-ggalluvial, r-cran-ggplot2, r-cran-ggseqlogo, r-bioc-ggtree, r-cran-jsonlite, r-cran-knitr, r-cran-magrittr, r-cran-matrix, r-cran-plyr, r-cran-reshape2, r-cran-seqinr, r-cran-seurat, r-cran-seuratobject, r-cran-stringdist, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-useful Suggests: r-bioc-annotationdbi, r-cran-ape, r-bioc-biocgenerics, r-bioc-biomart, r-cran-circlize, r-cran-cluster, r-cran-doparallel, r-bioc-fgsea, r-cran-ggrepel, r-cran-ggridges, r-cran-gridextra, r-cran-harmony, r-cran-igraph, r-cran-inext, r-bioc-limma, r-cran-kmer, r-cran-msigdbr, r-cran-phangorn, r-cran-pheatmap, r-cran-phytools, r-cran-purrr, r-cran-readr, r-cran-readxl, r-cran-rstudioapi, r-cran-rtsne, r-cran-scales, r-cran-sf, r-bioc-singlecellexperiment, r-bioc-slingshot, r-cran-tidytree, r-cran-tidyselect, r-cran-tidyverse, r-cran-umap, r-cran-vegan, r-cran-viridis, r-cran-testthat Filename: pool/dists/focal/main/r-cran-platypus_3.6.0-1.ca2004.1_all.deb Size: 1516560 MD5sum: ce3e2b831f6e41f7b1aef72483305878 SHA1: 1c90138431679834da7b8ff8ba075fe778a7ef6e SHA256: 79cf24244578031d41762268b55f0f20ced498fcf487e6fd770f02a5af5746fb SHA512: a367d59481e40e379dcccc8c28289cab717ce4148f78ccef609ca129d3f3f6e95c7a21c5ef253846cda42ad26e9f04441f940b4981a2653bb85dcbff105e10a4 Homepage: https://cran.r-project.org/package=Platypus Description: CRAN Package 'Platypus' (Single-Cell Immune Repertoire and Gene Expression Analysis) We present 'Platypus', an open-source software platform providing a user-friendly interface to investigate B-cell receptor and T-cell receptor repertoires from scSeq experiments. 'Platypus' provides a framework to automate and ease the analysis of single-cell immune repertoires while also incorporating transcriptional information involving unsupervised clustering, gene expression and gene ontology. This R version of 'Platypus' is part of the 'ePlatypus' ecosystem for computational analysis of immunogenomics data: Yermanos et al. (2021) , Cotet et al. (2023) . Package: r-cran-play Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-forcats, r-cran-ggplot2, r-cran-purrr, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-worldfootballr Filename: pool/dists/focal/main/r-cran-play_0.1.3-1.ca2004.1_all.deb Size: 23100 MD5sum: e0b1a2bdb7097f7822180ce7642ce754 SHA1: 49cbd8d8260e02cf712783c19b8ebb135c4f71a0 SHA256: fdd61ab40841b94a9890764c37c0da229ca05d80730e6fcb9d054bdc429ccc06 SHA512: 3d060345e078d850a28701a9c355d6de01e41724c7052b1fbd822c49f980517c0c46ad24124cc4caf8de84f3f5767e172c3c71504f590633d6954b99fb83da97 Homepage: https://cran.r-project.org/package=play Description: CRAN Package 'play' (Visualize Sports Data) Provides functions to visualise sports data. Converts data into a format suitable for plotting charts. Helps to ease the process of working with messy sports data to a more user friendly format. Football data is accessed through 'worldfootballR' '' which gets data from 'FBref' , 'Transfermarkt' , 'Understat' , and 'fotmob' . Package: r-cran-playerchart Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggtext, r-cran-magrittr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-playerchart_1.0.0-1.ca2004.1_all.deb Size: 18232 MD5sum: 6bb37964ebdc3bbbc3894c9500372acb SHA1: 2f6b85bed2249c39bc81e318b24dd3ee0cbf0e40 SHA256: fca70006fb81bf8ce785641def8b02c68a308dc11131f902fb9911827627973e SHA512: 179ed425a4c164f28685d81e265036fae50a4895394838721f3cf885f51b5ea6f5056a5899e5737f29eb228f314c6a456930f1ffb670fa20c87331e87ce3db76 Homepage: https://cran.r-project.org/package=PlayerChart Description: CRAN Package 'PlayerChart' (Generate Pizza Chart: Player Stats 0-100) Create an interactive pizza chart visualizing a specific player's statistics across various attributes in a sports dataset. The chart is constructed based on input parameters: 'data', a dataframe containing player data for any sports; 'player_stats_col', a vector specifying the names of the columns from the dataframe that will be used to create slices in the pizza chart, with statistics ranging between 0 and 100; 'name_col', specifying the name of the column in the dataframe that contains the player names; and 'player_name', representing the specific player whose statistics will be visualized in the chart, serving as the chart title. Package: r-cran-pldamixture Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-pldamixture_0.1.1-1.ca2004.1_all.deb Size: 129400 MD5sum: 099f22d9fe8b2393e49d4271ab8af1e0 SHA1: 909709c89cdb480cd67a4901ab5fdd61bed56d49 SHA256: 809dad644bb195f272ba25430d9e147f714ce48bda05b59dd475efeeb10e9d3f SHA512: 245a7e454d1874fafe4e196d50d1eddcc283c5acf8f195f1ea4a883a082b9bb76584f8139a828098500db20a6ed417ebe7cec23c6556fe0bd5b56dc072386be9 Homepage: https://cran.r-project.org/package=pldamixture Description: CRAN Package 'pldamixture' (Post-Linkage Data Analysis Based on Mixture Modelling) Perform inference in the secondary analysis setting with linked data potentially containing mismatch errors. Only the linked data file may be accessible and information about the record linkage process may be limited or unavailable. Implements the 'General Framework for Regression with Mismatched Data' developed by Slawski et al. (2023) . The framework uses a mixture model for pairs of linked records whose two components reflect distributions conditional on match status, i.e., correct match or mismatch. Inference is based on composite likelihood and the Expectation-Maximization (EM) algorithm. The package currently supports Cox Proportional Hazards Regression (right-censored data only) and Generalized Linear Regression Models (Gaussian, Gamma, Poisson, and Logistic (binary models only)). Information about the underlying record linkage process can be incorporated into the method if available (e.g., assumed overall mismatch rate, safe matches, predictors of match status, or predicted probabilities of correct matches). Package: r-cran-plde Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-plde_0.1.2-1.ca2004.1_all.deb Size: 42340 MD5sum: af468d0d24b865ddd16cdc4dd2d5bc46 SHA1: 28ddc14ac2520d0d6a4e41cf0c6741c860d0838a SHA256: f193f52e115ae710306ef8b9522a7bcf6699db9d7b83b5d41ad2c71c414f4980 SHA512: e1756a4ae85db8df598ce768b85a2cea6fc59d3609e36109b8117a97af22e6a0e4026badc8954a7b8d875476035f2eaa4d63c421be6caa7b5656ded2eb85de1a Homepage: https://cran.r-project.org/package=plde Description: CRAN Package 'plde' (Penalized Log-Density Estimation Using Legendre Polynomials) We present a penalized log-density estimation method using Legendre polynomials with lasso penalty to adjust estimate's smoothness. Re-expressing the logarithm of the density estimator via a linear combination of Legendre polynomials, we can estimate parameters by maximizing the penalized log-likelihood function. Besides, we proposed an implementation strategy that builds on the coordinate decent algorithm, together with the Bayesian information criterion (BIC). Package: r-cran-pleio Architecture: all Version: 1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 502 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rms, r-cran-matrix Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pleio_1.9-1.ca2004.1_all.deb Size: 436764 MD5sum: d2a69de48b99cc2be7ab39e5b5a703ab SHA1: 844352fc06cec9b64f167665fdfca4a62af5ec09 SHA256: d78cb295b2ef0a12e922a94e1850360eeb2bff9f934459e0a8f07daf56df3a41 SHA512: 15dcb44fe7113146a20b33460cf464b1f7ad57ac99ac4150a1b355af09c623cc2c898330336230788e1dc9a79ebc6d9f9880d28798262b496a4b645ed51cdd7a Homepage: https://cran.r-project.org/package=pleio Description: CRAN Package 'pleio' (Pleiotropy Test for Multiple Traits on a Genetic Marker) Perform tests for pleiotropy of multiple traits of various variable types on genotypes for a genetic marker. Package: r-cran-plelma Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 396 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mlogit, r-cran-dfidx Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plelma_0.2.1-1.ca2004.1_all.deb Size: 219448 MD5sum: 71f2c826022ed3435af7c62986f62d8b SHA1: d1e4d6d547dc9b38d13e0264367f562ee89db154 SHA256: 6611bb5c19f63052298ca0c8ff3355f586c3fedfd4a6712b70becf66d2b72200 SHA512: c10e5772ade555a0420482bb868600d8bb2bcde9811ab38be7e66e3eedbb07d828e2faeb63e37c576f1787a28304235232952d72e282054a20e1c20b5b1c277b Homepage: https://cran.r-project.org/package=pleLMA Description: CRAN Package 'pleLMA' (Pseudo-Likelihood Estimation of Log-Multiplicative AssociationModels) Log-multiplicative association models (LMA) are models for cross-classifications of categorical variables where interactions are represented by products of category scale values and an association parameter. Maximum likelihood estimation (MLE) fails for moderate to large numbers of categorical variables. The 'pleLMA' package overcomes this limitation of MLE by using pseudo-likelihood estimation to fit the models to small or large cross-classifications dichotomous or multi-category variables. Originally proposed by Besag (1974, ), pseudo-likelihood estimation takes large complex models and breaks it down into smaller ones. Rather than maximizing the likelihood of the joint distribution of all the variables, a pseudo-likelihood function, which is the product likelihoods from conditional distributions, is maximized. LMA models can be derived from a number of different frameworks including (but not limited to) graphical models and uni-dimensional and multi-dimensional item response theory models. More details about the models and estimation can be found in the vignette. Package: r-cran-plexi Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-assertthat, r-cran-igraph, r-cran-keras, r-cran-ggraph, r-cran-ggplot2, r-cran-aggregation Filename: pool/dists/focal/main/r-cran-plexi_1.0.0-1.ca2004.1_all.deb Size: 87868 MD5sum: 1536323dbb40392b58c8366e4f75d8d1 SHA1: 0df455513a7f755b74d340565d604af4079d4a4b SHA256: 283c33c37fb4d3b19db3018726d3cab9abf71c8e60b2383e4b2ee57039681aad SHA512: 99a80561d73f9ba0059e1b0248a48b32d8750e081a06bd7ba3fae9546ef21440253fbe6657b62fbb82856f59df5c15c4e07449781a65af0d0fd7442dac65d89a Homepage: https://cran.r-project.org/package=PLEXI Description: CRAN Package 'PLEXI' (Multiplex Network Analysis) Interactions between different biological entities are crucial for the function of biological systems. In such networks, nodes represent biological elements, such as genes, proteins and microbes, and their interactions can be defined by edges, which can be either binary or weighted. The dysregulation of these networks can be associated with different clinical conditions such as diseases and response to treatments. However, such variations often occur locally and do not concern the whole network. To capture local variations of such networks, we propose multiplex network differential analysis (MNDA). MNDA allows to quantify the variations in the local neighborhood of each node (e.g. gene) between the two given clinical states, and to test for statistical significance of such variation. Yousefi et al. (2023) . 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Package: r-cran-plink Architecture: all Version: 1.5-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1763 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice, r-cran-mass, r-cran-statmod Filename: pool/dists/focal/main/r-cran-plink_1.5-1-1.ca2004.1_all.deb Size: 1200544 MD5sum: e6cd401b9975573b4e97765ec9225295 SHA1: 93a421bc7c51571cd1c4c3f6b3036c1f3ea3a0ca SHA256: daef22403fe2a223e6aaa3ee91a37e22d33ec2b5d29cd9b69085072e9d6cf4c1 SHA512: 7733b2753473f75e7ae9b77ee755148e481d83d59145cb826ab452219552c70083ec9760343b09a8d96981cfc28fdb14bd1c646c48f8cb27d2147d74f372e3c0 Homepage: https://cran.r-project.org/package=plink Description: CRAN Package 'plink' (IRT Separate Calibration Linking Methods) Item response theory based methods are used to compute linking constants and conduct chain linking of unidimensional or multidimensional tests for multiple groups under a common item design. The unidimensional methods include the Mean/Mean, Mean/Sigma, Haebara, and Stocking-Lord methods for dichotomous (1PL, 2PL and 3PL) and/or polytomous (graded response, partial credit/generalized partial credit, nominal, and multiple-choice model) items. The multidimensional methods include the least squares method and extensions of the Haebara and Stocking-Lord method using single or multiple dilation parameters for multidimensional extensions of all the unidimensional dichotomous and polytomous item response models. The package also includes functions for importing item and/or ability parameters from common IRT software, conducting IRT true score and observed score equating, and plotting item response curves/surfaces, vector plots, information plots, and comparison plots for examining parameter drift. Package: r-cran-plinkfile Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2051 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-plinkfile_0.2.1-1.ca2004.1_all.deb Size: 571928 MD5sum: a06d8fd1987428456edea3665ce80d1d SHA1: f82fbffbc4fc0f1a1e64ebcd0bcf185db8a5535a SHA256: d435d79419f3ac0274abf6eac13c227a09158be3bcb23c6a9ab925695498b3e4 SHA512: 0f3c0fb0109e1c17a48e0202d209ae207d29230bf706d2aab742d33dddd3b5c220c422067019635e9269313f85b0498dcf57321ecf79bae7bb8b6a98ef4fdcda Homepage: https://cran.r-project.org/package=plinkFile Description: CRAN Package 'plinkFile' ('PLINK' (and 'GCTA') File Helpers) Reads/write binary genotype file compatible with 'PLINK' into/from a R matrix; traverse genotype data one windows of variants at a time, like apply() or a for loop; reads/writes genotype relatedness/kinship matrices created by 'PLINK' or 'GCTA' into/from a R square matrix. 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'plinkQC' facilitates genotype quality control for genetic association studies as described by Anderson and colleagues (2010) . It makes 'PLINK' basic statistics (e.g. missing genotyping rates per individual, allele frequencies per genetic marker) and relationship functions accessible from 'R' and generates a per-individual and per-marker quality control report. Individuals and markers that fail the quality control can subsequently be removed to generate a new, clean dataset. Removal of individuals based on relationship status is optimised to retain as many individuals as possible in the study. Package: r-cran-plis Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-plis_1.2-1.ca2004.1_all.deb Size: 52592 MD5sum: 53b74e5a6e5c07aa66d6f401e1005501 SHA1: c9801970202d9a1d8f543e696d631a1dd72cf724 SHA256: 278df3f5f759c134392ad7cb75f3aa3d34c3ad79299ddbcba710a6a0daa52f40 SHA512: 1cdf6e45fa94f317d7ef8d8d6e5ae6c080ed566851a6dd3be4cf91bd99a7f87b4e5cebc0bfcc10602722f8c4e84c5880f16e3b533a58aee5766dd797aaed01ba Homepage: https://cran.r-project.org/package=PLIS Description: CRAN Package 'PLIS' (Multiplicity Control using Pooled LIS Statistic) A multiple testing procedure for testing several groups of hypotheses is implemented. Linear dependency among the hypotheses within the same group is modeled by using hidden Markov Models. It is noted that a smaller p value does not necessarily imply more significance due to the dependency. A typical application is to analyze genome wide association studies datasets, where SNPs from the same chromosome are treated as a group and exhibit strong linear genomic dependency. See Wei Z, Sun W, Wang K, Hakonarson H (2009) for more details. 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Package: r-cran-plot3logit Architecture: all Version: 3.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 538 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggtern, r-cran-ternary, r-cran-dplyr, r-cran-ellipse, r-cran-forcats, r-cran-generics, r-cran-ggplot2, r-cran-lifecycle, r-cran-magrittr, r-cran-purrr, r-cran-rdpack, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-mass, r-cran-mlogit, r-cran-nnet, r-cran-ordinal, r-cran-rmarkdown, r-cran-vgam, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plot3logit_3.1.4-1.ca2004.1_all.deb Size: 379092 MD5sum: 7f2a93e2c1139cc4338bfd9b5768f402 SHA1: d279b8d0b0c9f0837a91bafbf7c1b438620f1f5b SHA256: 76c1c081fae5ac302d85b9650260e6589459a9229511e4911cc4c32f0d54af37 SHA512: 4f495c37f50674085474f544aeef1d22c34af0df2470ea661fda2cab47de93be3f4b6e12229096b581c7ace17b4da3a947e21d9a3faff62c683ff7feaf9a647a Homepage: https://cran.r-project.org/package=plot3logit Description: CRAN Package 'plot3logit' (Ternary Plots for Trinomial Regression Models) An implementation of the ternary plot for interpreting regression coefficients of trinomial regression models, as proposed in Santi, Dickson and Espa (2019) . Ternary plots can be drawn using either 'ggtern' package (based on 'ggplot2') or 'Ternary' package (based on standard graphics). The package and its features are illustrated in Santi, Dickson, Espa and Giuliani (2022) . Package: r-cran-plot4fun Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magrittr, r-cran-ggplot2, r-cran-reshape2, r-cran-pcutils, r-cran-ggforce, r-cran-plot3d, r-cran-magick, r-cran-gifski, r-cran-showtext, r-cran-sysfonts Suggests: r-cran-wordcloud2, r-cran-geomtextpath Filename: pool/dists/focal/main/r-cran-plot4fun_0.1.1-1.ca2004.1_all.deb Size: 60208 MD5sum: 688d1f6d8861531010b7a079a3725a76 SHA1: b91d8b472eb1f93ecc448b47100585942678bac8 SHA256: 8a3b6a9959a27928c32f4283953571098260ba787240728b678cb1943cb9116d SHA512: a204869565b8b45f4a82de5538b527ebbfa953f1b4bb136e911c6b742fc5173fe5dc2bab0a7e30dadb741e09537aed11c3dbdf2b863c4b79a721c96170bd2cce Homepage: https://cran.r-project.org/package=plot4fun Description: CRAN Package 'plot4fun' (Just Plot for Fun) Explore the world of R graphics with fun and interesting plot functions! Use make_LED() to create dynamic LED screens, draw interconnected rings with Olympic_rings(), and make festive Chinese couplets with chunlian(). Unleash your creativity and turn data into exciting visuals! Package: r-cran-plotbart Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 377 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-bartcause, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-rpart, r-cran-ggdendro Suggests: r-cran-testthat, r-cran-vdiffr, r-cran-arm, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-plotbart_0.1.7-1.ca2004.1_all.deb Size: 294216 MD5sum: 100db37aac6ef059ab439a312d45a871 SHA1: acf8d420ed46e5bcc1f5b46c53f64445de035ba5 SHA256: 26d7ec858dc7e55e02971f4787559d8c6bdb7081300ca2e6f25e2a49d8b5d324 SHA512: a9afbcb1d10d0aa0e6c1e42b09fc88ba5e200ee48d087cf3a092dc25fcf049463cea27cfc50daea5b41302550cfe9faeb4b51e829a997b88ae2fa669ccdd4202 Homepage: https://cran.r-project.org/package=plotBart Description: CRAN Package 'plotBart' (Diagnostic and Plotting Functions to Supplement 'bartCause') Functions to assist in diagnostics and plotting during the causal inference modeling process. Supplements the 'bartCause' package. Package: r-cran-plotbb Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 712 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-rlang, r-cran-scales Suggests: r-cran-ape, r-cran-aplot, r-cran-dplyr, r-cran-ggplotify, r-cran-knitr, r-cran-rmarkdown, r-cran-prettydoc Filename: pool/dists/focal/main/r-cran-plotbb_0.0.6-1.ca2004.1_all.deb Size: 486740 MD5sum: 5b7df9182647bb690f368957ffb9618c SHA1: 9db4082f41d91eb8e986873934be32e8694a6efe SHA256: 0be51afcbd49573d68e23676dfdbd2778a707c7ac01d0f3290131649b8513232 SHA512: 0a810d589e30bc5e35f109d88f95c438bcf69f8775706b818ea73e9a7fc7f4ad66255e7bc3b97a222b3ce3eb4d5804c9b84be941f872a616e24ab5ede299fd50 Homepage: https://cran.r-project.org/package=plotbb Description: CRAN Package 'plotbb' (Grammar of Graphics for 'base' Plot) Proof of concept for implementing grammar of graphics using base plot. The bbplot() function initializes a 'bbplot' object to store input data, aesthetic mapping, a list of layers and theme elements. The object will be rendered as a graphic using base plot command if it is printed. Package: r-cran-plotbivinvgaus Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3770 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-plotly Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-plotbivinvgaus_0.1.0-1.ca2004.1_all.deb Size: 900044 MD5sum: 16040c2d0409771c0fda77220f1eab29 SHA1: ddf5bbe7226d28b9c74e6763895ea16af6b27226 SHA256: 5166f7f0bf32f616a1fb48d70687a930a6476565673f7e9f20ce1fda69c4297a SHA512: c3a5c6f091cb8e488d195b841bc719d2819b9d0b9f1a35887131a55e708887c6bb94c620f38e35f85f1620b86a625bc5949b97f82d685f1d703c634d6f3c96c9 Homepage: https://cran.r-project.org/package=PlotBivInvGaus Description: CRAN Package 'PlotBivInvGaus' (Density Contour Plot for Bivariate Inverse Gaussian Distribution) Create the density contour plot for bivariate inverse Gaussian distribution for given non negative random variables. Package: r-cran-plotcontour Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 40 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kernsmooth, r-cran-mass Filename: pool/dists/focal/main/r-cran-plotcontour_0.1.0-1.ca2004.1_all.deb Size: 10788 MD5sum: 05c0f1f049046f16f55b330241d231be SHA1: 3c8cabc428a0dcdbedf3fb439d9ee908bc4a1223 SHA256: 031c96b47d2d66ffa5a18238ba568db77171829e492000e8151ad6d18e1695e7 SHA512: 39b2fbe698c60b7e0004a9cf15d272298806741dd5f701f8be91eda4c53aa37807a7d7945f9f7778e8a27ed9d16bc005bf16140c7fc26047eb2c3a15c129a5d4 Homepage: https://cran.r-project.org/package=PlotContour Description: CRAN Package 'PlotContour' (Plot Contour Line) This function plots a contour line with a user-defined probability and tightness of fit. Package: r-cran-plotdap Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3253 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cmocean, r-cran-dplyr, r-cran-gganimate, r-cran-ggnewscale, r-cran-ggplot2, r-cran-lazyeval, r-cran-lubridate, r-cran-magrittr, r-cran-mapdata, r-cran-maps, r-cran-raster, r-cran-rerddap, r-cran-rlang, r-cran-scales, r-cran-sf, r-cran-tidyr, r-cran-viridis Suggests: r-cran-cairo, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plotdap_1.1.0-1.ca2004.1_all.deb Size: 2281532 MD5sum: 7a069226b961ea5c784aea15ae386737 SHA1: af6c4416c3780b156976316b68258051469480f8 SHA256: b6c9ccb24d1a012fbf40e67573396999477e0b2fc0e6d004f6707bef89a8e05b SHA512: 2f5ee1f4fed06802c3df99f02f83f0d11afdeaea162d759ddbe78dbacd92d4a84786fae9a0f239c7108df14dbeb2e9ad84fb4ad72a9a9b5e7286e0250ab8cdfb Homepage: https://cran.r-project.org/package=plotdap Description: CRAN Package 'plotdap' (Easily Visualize Data from 'ERDDAP™' Servers via the 'rerddap'Package) Easily visualize and animate 'tabledap' and 'griddap' objects obtained via the 'rerddap' package in a simple one-line command, using either base graphics or 'ggplot2' graphics. 'plotdap' handles extracting and reshaping the data, map projections and continental outlines. Optionally the data can be animated through time using the 'gganmiate' package. Package: r-cran-plotdk Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2465 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-mapproj, r-cran-plotly, r-cran-purrr, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-plotdk_0.1.0-1.ca2004.1_all.deb Size: 2194172 MD5sum: 026c78e55e81ccf9ae536f770631a6c6 SHA1: b676baa3c9b1adb2df0210a383463fb7ac1c1020 SHA256: 7310a3cf8efbb4a6cf0211fd6cfa13117f094144f14cc0196b6d7ab8bb6a34f2 SHA512: 5c2b62baa05086c8048ed38362b252220dd1dc7b8652ec9e6516bf3ee40dc99bbaa6e754a1ca38cfdb27dfe8628af18ee3bc48340825587de74abdf44378a3e1 Homepage: https://cran.r-project.org/package=plotDK Description: CRAN Package 'plotDK' (Plot Summary Statistics as Choropleth Maps of DanishAdministrative Areas) Provides a ggplot2 front end to plot summary statistics on danish provinces, regions, municipalities, and zipcodes. The needed geoms of each of the four levels are inherent in the package, thus making these types of plots easy for the user. This is essentially an updated port of the previously available 'mapDK' package by Sebastian Barfort. Package: r-cran-plotftir Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2912 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-rlang, r-cran-scales Suggests: r-cran-testthat, r-cran-withr, r-cran-ggplot2, r-cran-gghighlight, r-cran-ggthemes, r-cran-knitr, r-cran-rmarkdown, r-cran-ir, r-cran-chemospec, r-cran-r.utils, r-cran-readjdx Filename: pool/dists/focal/main/r-cran-plotftir_1.2.0-1.ca2004.1_all.deb Size: 1973976 MD5sum: e471ff37e2ae35f51b826c47fc0d21a5 SHA1: dff91c36f38d9c9abbd47b49e4df374256cc8fed SHA256: 37c22ddc36a72ecc3374571e50fb3a0f31c8e09999b7acfe40248bada2ce4431 SHA512: d899c4a6335a14a63c8a4281e308f9d9175fbfb78177205f8f5193874ddae5e49b295afd70f423d2a878d20ce4e84bc47e258d913a8004145ed44821e67db27c Homepage: https://cran.r-project.org/package=PlotFTIR Description: CRAN Package 'PlotFTIR' (Plot FTIR Spectra) The goal of 'PlotFTIR' is to easily and quickly kick-start the production of journal-quality Fourier Transform Infra-Red (FTIR) spectral plots in R using 'ggplot2'. The produced plots can be published directly or further modified by 'ggplot2' functions. L'objectif de 'PlotFTIR' est de démarrer facilement et rapidement la production des tracés spectraux de spectroscopie infrarouge à transformée de Fourier (IRTF) de qualité journal dans R à l'aide de 'ggplot2'. Les tracés produits peuvent être publiés directement ou modifiés davantage par les fonctions 'ggplot2'. Package: r-cran-plotfunctions Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1157 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-sp Filename: pool/dists/focal/main/r-cran-plotfunctions_1.4-1.ca2004.1_all.deb Size: 881020 MD5sum: 2c3198bd9aaf1b3b118c2a4035c0dc01 SHA1: c6ed8fb9d2091c7d1ab6d556a2e20d2eba88a13c SHA256: 2ea6c96e288dc0af57ac2d1a5f127583ba434a4230df9d92d00559a5a36ccee8 SHA512: 4f14df3575e31c8a5fe547e0e739f17569d8479ffa3fb5a489fef8e176d5c57e211703f342ab15382581ef67debcf777cce0192f0659de47fb9372dad57f15ee Homepage: https://cran.r-project.org/package=plotfunctions Description: CRAN Package 'plotfunctions' (Various Functions to Facilitate Visualization of Data andAnalysis) When analyzing data, plots are a helpful tool for visualizing data and interpreting statistical models. This package provides a set of simple tools for building plots incrementally, starting with an empty plot region, and adding bars, data points, regression lines, error bars, gradient legends, density distributions in the margins, and even pictures. The package builds further on R graphics by simply combining functions and settings in order to reduce the amount of code to produce for the user. As a result, the package does not use formula input or special syntax, but can be used in combination with default R plot functions. Note: Most of the functions were part of the package 'itsadug', which is now split in two packages: 1. the package 'itsadug', which contains the core functions for visualizing and evaluating nonlinear regression models, and 2. the package 'plotfunctions', which contains more general plot functions. Package: r-cran-plotgmm Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-wesanderson, r-cran-amerika, r-cran-ggplot2 Suggests: r-cran-mixtools, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plotgmm_0.2.2-1.ca2004.1_all.deb Size: 20756 MD5sum: 79510f5310671e2cec14705d907de492 SHA1: e38bc9c0c2a6b3b0c4afb434f26f83566f44429c SHA256: 4c981f8f29a2fcf0f3735f3b1d169e05cdbcf7dc405fe413e286b22cd67c72cb SHA512: 07e0d64aa0def2e24f9f58fb929d68e5d75b843a3063eb1a576914707c828a8b487e67ebb61449d21b7bcf63f594dc86c8654cf512a3b84cdb91887c55dc6bc4 Homepage: https://cran.r-project.org/package=plotGMM Description: CRAN Package 'plotGMM' (Tools for Visualizing Gaussian Mixture Models) The main function, plot_GMM, is used for plotting output from Gaussian mixture models (GMMs), including both densities and overlaying mixture weight component curves from the fit GMM. The package also include the function, plot_cut_point, which plots the cutpoint (mu) from the GMM over a histogram of the distribution with several color options. Finally, the package includes the function, plot_mix_comps, which is used in the plot_GMM function, and can be used to create a custom plot for overlaying mixture component curves from GMMs. For the plot_mix_comps function, usage most often will be specifying the "fun" argument within "stat_function" in a ggplot2 object. Package: r-cran-plothelper Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 331 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plyr, r-cran-ggfittext, r-cran-magick, r-cran-gridextra, r-cran-scales, r-cran-farver Filename: pool/dists/focal/main/r-cran-plothelper_0.1.9-1.ca2004.1_all.deb Size: 301104 MD5sum: 7a12f6411c3f587514ebd7da874942ea SHA1: baf7be55f1e2068f1dfcde7ed2c502d86245567d SHA256: bb162880655fc4034feab9a6c526ff67d20cc3b3c83c1eedfc10dbe41fffe641 SHA512: 13efbf8b6b8fbe8a08d7eddd71dbe8de1972576c4104c387b7edb4c7bdb6f00695b423856855e76f12f8ad7c45ddc0c2eb5848df2081dbf72f4b1ec4256f118e Homepage: https://cran.r-project.org/package=plothelper Description: CRAN Package 'plothelper' (New Plots Based on 'ggplot2' and Functions to Create RegularShapes) An extension to 'ggplot2' and 'magick'. It contains three groups of functions: Functions in the first group draw 'ggplot2' - based plots: geom_shading_bar() draws barplot with shading colors in each bar. geom_rect_cm(), geom_circle_cm() and geom_ellipse_cm() draw rectangles, circles and ellipses with centimeter as their unit. Thus their sizes do not change when the coordinate system or the aspect ratio changes. annotation_transparent_text() draws labels with transparent texts. annotation_shading_polygon() draws irregular polygons with shading colors. Functions in the second group generate coordinates for regular shapes and make linear transformations. Functions in the third group are 'magick' - based functions facilitating image processing. Package: r-cran-plotkml Architecture: all Version: 0.8-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3814 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gstat, r-cran-colorramps, r-cran-pixmap, r-cran-xml, r-cran-dismo, r-cran-sp, r-cran-raster, r-cran-rgdal, r-cran-aqp, r-cran-spacetime, r-cran-colorspace, r-cran-plyr, r-cran-stringr, r-cran-scales, r-cran-zoo, r-cran-rcolorbrewer, r-cran-classint, r-cran-sf, r-cran-stars Suggests: r-cran-rsaga, r-cran-plotrix, r-cran-adehabitatlt, r-cran-maptools, r-cran-fossil, r-cran-rjson, r-cran-animation, r-cran-spatstat, r-cran-spatstat.linnet, r-cran-spatstat.geom, r-cran-rcurl, r-cran-rgbif, r-cran-hmisc, r-cran-uuid, r-cran-r.utils, r-cran-intervals, r-cran-reshape, r-cran-snowfall, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plotkml_0.8-3-1.ca2004.1_all.deb Size: 3383904 MD5sum: 3ae5e277dab15b39dbcd95add223b6d1 SHA1: b91db7cf8104db2c7b8f1315f1b6ccbdf65110bc SHA256: f21a71e326177e2b7548668498dd22426f0dce0ddb65ce03842bd2984fad1bf7 SHA512: 0fbe725b880307e5f01e1e11749e30ee25fdd81e1d159ce0c59673b6a1e96be6fc7c11e7e74ddd4e989ab8f2cb1a717c5292189cc854fb361cb93bc00f20def2 Homepage: https://cran.r-project.org/package=plotKML Description: CRAN Package 'plotKML' (Visualization of Spatial and Spatio-Temporal Objects in GoogleEarth) Writes spatial-class, spacetime-class, raster-class and similar spatial and spatiotemporal objects to KML following some basic cartographic rules. Package: r-cran-plotluck Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 629 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc, r-cran-quantreg, r-cran-scales, r-cran-plyr, r-cran-hexbin, r-cran-rcolorbrewer, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-ggplot2movies, r-cran-mgcv, r-cran-nlme, r-cran-knitr, r-cran-rmarkdown, r-cran-gapminder Filename: pool/dists/focal/main/r-cran-plotluck_1.1.1-1.ca2004.1_all.deb Size: 477880 MD5sum: 6f23b4d12cb1709be2276cffc4295c78 SHA1: dbd86b9534ed008e56887d3b711c4f85f3490a7c SHA256: c18743e45292e5535b7a232213aa70768ef32c652c3aa62c73b24a02db0d014b SHA512: 43654f30ba10ff626d232c16301b884ff5636d62bc8729beea24bb34254354de0ef687b458264eeb9f0b8ef8042d1ed4d8d58003a6dd50928ce65106167acf26 Homepage: https://cran.r-project.org/package=plotluck Description: CRAN Package 'plotluck' ('ggplot2' Version of "I'm Feeling Lucky!") Examines the characteristics of a data frame and a formula to automatically choose the most suitable type of plot out of the following supported options: scatter, violin, box, bar, density, hexagon bin, spine plot, and heat map. The aim of the package is to let the user focus on what to plot, rather than on the "how" during exploratory data analysis. It also automates handling of observation weights, logarithmic axis scaling, reordering of factor levels, and overlaying smoothing curves and median lines. Plots are drawn using 'ggplot2'. Package: r-cran-plotly Architecture: all Version: 4.11.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7497 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-digest, r-cran-viridislite, r-cran-base64enc, r-cran-htmltools, r-cran-htmlwidgets, r-cran-tidyr, r-cran-rcolorbrewer, r-cran-dplyr, r-cran-vctrs, r-cran-tibble, r-cran-lazyeval, r-cran-rlang, r-cran-crosstalk, r-cran-purrr, r-cran-data.table, r-cran-promises Suggests: r-cran-mass, r-cran-maps, r-cran-hexbin, r-cran-ggthemes, r-cran-ggally, r-cran-ggalluvial, r-cran-testthat, r-cran-knitr, r-cran-shiny, r-cran-shinytest2, r-cran-curl, r-cran-rmarkdown, r-cran-cairo, r-cran-broom, r-cran-webshot, r-cran-listviewer, r-cran-dendextend, r-cran-sf, r-cran-png, r-cran-irdisplay, r-cran-processx, r-cran-plotlygeoassets, r-cran-forcats, r-cran-withr, r-cran-palmerpenguins, r-cran-rversions, r-cran-reticulate, r-cran-rsvg, r-cran-ggridges Filename: pool/dists/focal/main/r-cran-plotly_4.11.0-1.ca2004.1_all.deb Size: 3430044 MD5sum: ff1f156dd16aef7845f81fcb119a2769 SHA1: 0354aa40961b094fed8250352c33174aa882c8fe SHA256: 223bd431f8ab929c5dd08bd041317fba6b9191d5c636406fdb950fd541440daf SHA512: 304649851bf75c006df17069c7fe60bb4fcdb5416f8072bd24a4753561b0b1aa039d1e9bae819584d66e2c77ddda01998601d4481963eb645d78c0a8123f411b Homepage: https://cran.r-project.org/package=plotly Description: CRAN Package 'plotly' (Create Interactive Web Graphics via 'plotly.js') Create interactive web graphics from 'ggplot2' graphs and/or a custom interface to the (MIT-licensed) JavaScript library 'plotly.js' inspired by the grammar of graphics. 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Package: r-cran-plotmcmc Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1117 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-gplots, r-cran-lattice Suggests: r-cran-gdata Filename: pool/dists/focal/main/r-cran-plotmcmc_2.0.1-1.ca2004.1_all.deb Size: 1029300 MD5sum: 1879e53494bf299df942a8254ffb718e SHA1: 62e2441508dcdb842e27411cfdfc49605972c4af SHA256: c6e9cc2cca43dd406647ebb5f4e252d197962dbc123e38fbd8b87234317aa687 SHA512: bfe2e2c66d5acb5f13a6919a08cab489abce78cdfaf3051b835fd293f5e008cc3e0beb42f14b1f6d90027ff39f10168bba84928536a19eaaa3cd2600f29d0070 Homepage: https://cran.r-project.org/package=plotMCMC Description: CRAN Package 'plotMCMC' (MCMC Diagnostic Plots) Markov chain Monte Carlo diagnostic plots. The purpose of the package is to combine existing tools from the 'coda' and 'lattice' packages, and make it easy to adjust graphical details. Package: r-cran-plotmelm Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-interactiontest Filename: pool/dists/focal/main/r-cran-plotmelm_0.1.5-1.ca2004.1_all.deb Size: 22680 MD5sum: 6a805e2dc594c06a578aa928c3e4332e SHA1: 6c22cd3ad1f3d2cd0902a2404c3c589c72ae2182 SHA256: 9247ca2f730588782a725925f9c0545ef97b0a7f2307ce0d1c42210ef73e7e02 SHA512: a5462ad24b7316f51676f849c82ca01a884cb2295dfb03416faa659a96e6e06071bbfbc97bf3c4db30f052c78bc489b1ac5fd45c3b1b62eadae3ae4d68817a6c Homepage: https://cran.r-project.org/package=plotMElm Description: CRAN Package 'plotMElm' (Plot Marginal Effects from Linear Models) Plot marginal effects for interactions estimated from linear models. Package: r-cran-plotmm Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-wesanderson, r-cran-amerika, r-cran-ggplot2, r-cran-mixtools, r-cran-emcluster, r-cran-flexmix Suggests: r-cran-testthat, r-cran-dplyr, r-cran-patchwork, r-cran-survival, r-cran-magrittr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-plotmm_0.1.2-1.ca2004.1_all.deb Size: 48592 MD5sum: 03f6e031823d48c01968d0733ecd96fd SHA1: f498ef44ededf7242c9bd3d21d1804309a6444dc SHA256: ab4ad22f72aa3296ea44d59e591c31ecc26cf9944c12439fe5b39bb344068d76 SHA512: 80348d82ef8534047155b82061996e2be0c76287ef00f76ef0827f5b1dc0e42262305eb47b893b21890ed73b225147c915b4bf37a1134e8c4929154562733fdf Homepage: https://cran.r-project.org/package=plotmm Description: CRAN Package 'plotmm' (Tidy Tools for Visualizing Mixture Models) The main function, plot_mm(), is used for (gg)plotting output from mixture models, including both densities and overlaying mixture weight component curves from the fit models in line with the tidy principles. 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Package: r-cran-plotnormtest Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1175 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rdpack, r-cran-ggplot2, r-cran-matrix, r-cran-matrixextra, r-cran-mass, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-plotnormtest_1.0.1-1.ca2004.1_all.deb Size: 830752 MD5sum: 2e31ae99c496857a26aaddc68cdc985d SHA1: 49f713c642bf82cc59b077ba55d7b7524c1412a1 SHA256: 61861ecff453ce33e163a4a35892699f3e453e3216289f3a0dbabaca2bf6ca8b SHA512: 743a549a7b202973d3166a1108edc657b21c5c6cd880a97082174b21489fe5bde8bb470ed3d66aa2dc245c772c0f094e542b612dde1d0cf1e92d569ab0f368f5 Homepage: https://cran.r-project.org/package=PlotNormTest Description: CRAN Package 'PlotNormTest' (Graphical Univariate/Multivariate Assessments for NormalityAssumption) Graphical methods testing multivariate normality assumption. Methods including assessing score function, and moment generating functions,independent transformations and linear transformations. For more details see Tran (2024),"Contributions to Multivariate Data Science: Assessment and Identification of Multivariate Distributions and Supervised Learning for Groups of Objects." , PhD thesis, . 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The author/maintainer died in September 2023. 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Package: r-cran-plotthis Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3268 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-circlize, r-cran-ggplot2, r-cran-rlang, r-cran-dplyr, r-cran-tidyr, r-cran-glue, r-cran-forcats, r-cran-gtable, r-cran-reshape2, r-cran-stringr, r-cran-scales, r-cran-gridtext, r-cran-patchwork, r-cran-ggrepel, r-cran-ggnewscale, r-cran-cowplot, r-cran-zoo Suggests: r-cran-testthat, r-cran-alluvial, r-bioc-complexheatmap, r-cran-cluster, r-cran-clustree, r-cran-gglogger, r-cran-ggwordcloud, r-cran-ggalluvial, r-cran-ggvenndiagram, r-cran-ggupset, r-cran-ggpubr, r-cran-ggforce, r-cran-ggraph, r-cran-ggridges, r-bioc-ggmanh, r-cran-qqplotr, r-cran-hexbin, r-cran-igraph, r-cran-inext, r-cran-scattermore, r-cran-sf, r-cran-terra, r-cran-concaveman, r-cran-plotroc, r-cran-optimalcutpoints Filename: pool/dists/focal/main/r-cran-plotthis_0.7.1-1.ca2004.1_all.deb Size: 3179232 MD5sum: 8e21eba6178e31a2d8a1fba42193fd1a SHA1: 82ad5215e5f55816d15fe9689a7154c86f065270 SHA256: cacdb890046ea656c2f38ff9d0229a32948b6417ebde3a866c71d5fccdd3f743 SHA512: a0f257df08cd473cc417e2657f194c6ecebe56bd7de10460bb1dbbdc56f2c2e56f51e38db8c10fe5cf06feb61486471ef32fb36a95e96583752cc437c90eb031 Homepage: https://cran.r-project.org/package=plotthis Description: CRAN Package 'plotthis' (High-Level Plotting Built Upon 'ggplot2' and Other PlottingPackages) Provides high-level API and a wide range of options to create stunning, publication-quality plots effortlessly. 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Package: r-cran-pls Architecture: all Version: 2.8-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1275 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-mass, r-cran-rmpi, r-cran-testthat, r-cran-runit Filename: pool/dists/focal/main/r-cran-pls_2.8-5-1.ca2004.1_all.deb Size: 1169296 MD5sum: 579252a3d0341d55c689668fdbf71e61 SHA1: 1a797bece12ffebd49f105bf27d41f462b1a26b3 SHA256: d6f52a4d639cbb09be463ba9db1ca434962e1f7cadc3bf9e15ef01f0a2d70fce SHA512: 8eb27c9a1f7d47a2e86ea8b71a8ee5706e16978b126949aa16f3df5115c5d5c7f87649f2bc0d772590ed9ccaf1176315202f69ff0c59ce4433ec2fd5e800f92c Homepage: https://cran.r-project.org/package=pls Description: CRAN Package 'pls' (Partial Least Squares and Principal Component Regression) Multivariate regression methods Partial Least Squares Regression (PLSR), Principal Component Regression (PCR) and Canonical Powered Partial Least Squares (CPPLS). Package: r-cran-plsdepot Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-factominer Filename: pool/dists/focal/main/r-cran-plsdepot_0.2.0-1.ca2004.1_all.deb Size: 195000 MD5sum: 339852a0b429ab355557f7af99b0ea81 SHA1: 811a38911e7f61b8864f876ae6da0e7f605dc814 SHA256: d224abb770d08e7bf166e44299a6907a50a8e1f8978694d2236ce1c2e3462ee7 SHA512: fc030e660f0119ea1c89a7fdb931074def5b36e8d2af5538e53e28a1a768670be3666acd632f44b5e8d843b18fb28180bdb425f13cb59b035fa0353a3c340229 Homepage: https://cran.r-project.org/package=plsdepot Description: CRAN Package 'plsdepot' (Partial Least Squares (PLS) Data Analysis Methods) Different methods for PLS analysis of one or two data tables such as Tucker's Inter-Battery, NIPALS, SIMPLS, SIMPLS-CA, PLS Regression, and PLS Canonical Analysis. 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(2015), Deviance residuals-based sparse PLS and sparse kernel PLS regression for censored data, Bioinformatics, 31(3):397-404. Cross validation criteria were studied in , Bertrand, F., Bastien, Ph. and Maumy-Bertrand, M. (2018), Cross validating extensions of kernel, sparse or regular partial least squares regression models to censored data. 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Package: r-cran-plsvarsel Architecture: all Version: 0.9.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pls, r-cran-genalg, r-cran-mvtnorm, r-cran-bdsmatrix, r-cran-mass, r-cran-progress, r-cran-praznik Suggests: r-cran-rmpi Filename: pool/dists/focal/main/r-cran-plsvarsel_0.9.13-1.ca2004.1_all.deb Size: 268824 MD5sum: ffda66d57be4cf4400105133197b940d SHA1: 45c235e305d1c026687628e146848a8313b72060 SHA256: b8dcd992c37c79a3c52b4b24bd348f6445a32a8d213ccf757e1e01af46273948 SHA512: 037559af8ad8d1478f7cd410002f92245722cc4aa5e26df66b9cc822e8e0504573e6c21b5dc565092346695b796ba71867c38edf915cc49f8c8919e5931ae205 Homepage: https://cran.r-project.org/package=plsVarSel Description: CRAN Package 'plsVarSel' (Variable Selection in Partial Least Squares) Interfaces and methods for variable selection in Partial Least Squares. The methods include filter methods, wrapper methods and embedded methods. 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For details about 'Plus Code', visit or . Package: r-cran-pluscode Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-pluscode_0.1.0-1.ca2004.1_all.deb Size: 61444 MD5sum: 828c7e287b171126f5f98e7859131fb4 SHA1: 025eb37bc1c39db7724bb422a73101df73af1dc0 SHA256: 68c8a96be501386d13bf9bb310e90ff869bf082c1557993bd8e6eae5b66f381c SHA512: 0e1a58504344995dadffa0740af463fa30104f0f55ff8ee79f1fdbf522dfa839d2024ed05072c0054287a2ff598939db7aceddad0d3a3b045bc1c7cc4f3573ec Homepage: https://cran.r-project.org/package=pluscode Description: CRAN Package 'pluscode' (Encoder for Google 'Pluscodes') Retrieves a 'pluscode' by inputting latitude and longitude. Includes additional functions to retrieve neighbouring 'pluscodes'. Package: r-cran-plusser Architecture: all Version: 0.4-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcurl, r-cran-rjsonio, r-cran-lubridate, r-cran-plyr Filename: pool/dists/focal/main/r-cran-plusser_0.4-0-1.ca2004.1_all.deb Size: 68004 MD5sum: 6e16fec6085324f9e79e70a16890752f SHA1: 560aa3e8a74b83ed463ffcdea0c26de456ec45a0 SHA256: f298109369c893410f32c9d6bfc2601da9dbe776996980b12eb29b8b4769f768 SHA512: d346032b930ebfa015b55436e2ef3e2e5e819e74ae2b9e6e09ea9f2b060ca30be7cbe84d82901fc0b78ce206144390a5aa0da5032722151c51a8b815514a3a5a Homepage: https://cran.r-project.org/package=plusser Description: CRAN Package 'plusser' (A Google+ Interface for R) plusser provides an API interface to Google+ so that posts, profiles and pages can be automatically retrieved. 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'Pluto' was frequently conflated with 'Plutus', the god of wealth, because mineral wealth was found underground. When plotting with R, you try once, twice, practice again and again, and finally you get a pretty figure you want. It's a 'plot tour', a tour about repetition and reward. Hope 'plutor' helps you on the tour! Package: r-cran-pm3 Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tableone Filename: pool/dists/focal/main/r-cran-pm3_0.2.0-1.ca2004.1_all.deb Size: 28092 MD5sum: 26102311edbc545f3f5c090eff2e699f SHA1: 9582e4649b8bc4d2e22f1029dc3dff75399c0ed7 SHA256: 63353b8ac88fe12a997daa538ec33ca19f937f7efc27f6db385ac895422a01a7 SHA512: aa32eb9198743bc0844acc14e72ef82e1c69b8f3fe23370b73692f560f0763f7f9f7c8b71488ace520e40e9ed535947399bc4cb4995024e7c70e8330ae6ee73c Homepage: https://cran.r-project.org/package=pm3 Description: CRAN Package 'pm3' (Propensity Score Matching for Unordered 3-Group Data) You can use this program for 3 sets of categorical data for propensity score matching. Assume that the data has 3 different categorical variables. You can use it to perform propensity matching of baseline indicator groupings. 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Package: r-cran-pmapscore Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4337 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-clusterprofiler, r-cran-glmnet, r-bioc-maftools, r-bioc-org.hs.eg.db, r-cran-proc, r-cran-survival, r-cran-survminer Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pmapscore_0.1.1-1.ca2004.1_all.deb Size: 2643904 MD5sum: e7e3a99f230d60c077c2c7040e1c4c5d SHA1: 75adaefe37ca652280187cda5b958b69e78cff5b SHA256: b15292a184d64406a9e1c89328c0d12d39b15031da3e6829672a0e2dc041fa88 SHA512: b616b7f7ee118058743fb37a8f490f591cdc2765c2a8041a9dac5788ff62ff6b5b810c5e32fc84cb316b9ecffeacdc2b62a0811fbab8127cfca9d368c8002a6e Homepage: https://cran.r-project.org/package=PMAPscore Description: CRAN Package 'PMAPscore' (Identify Prognosis-Related Pathways Altered by Somatic Mutation) We innovatively defined a pathway mutation accumulate perturbation score (PMAPscore) to reflect the position and the cumulative effect of the genetic mutations at the pathway level. Based on the PMAPscore of pathways, identified prognosis-related pathways altered by somatic mutation and predict immunotherapy efficacy by constructing a multiple-pathway-based risk model (Tarca, Adi Laurentiu et al (2008) ). Package: r-cran-pmc Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-geiger, r-cran-ggplot2, r-cran-ouch, r-cran-tidyr, r-cran-phytools Suggests: r-cran-covr, r-cran-gridextra, r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pmc_1.0.6-1.ca2004.1_all.deb Size: 123404 MD5sum: f2aff9c8f5a34a5775fa44c00066d608 SHA1: 5a1373aa51d362babc4c49bf2a0824f9f863afd5 SHA256: 6f598b6f754e977409e7b55d4a3b4edaec00592b0a9783886945fd8c2e9f31bb SHA512: be9229d00a19c37fd1c7748e94b5dfa53b63af73f3167bd220e84b5d31a63f1f5d4192d594baacfcff681ba59767285891e06fa8ce5915eb9614313081901696 Homepage: https://cran.r-project.org/package=pmc Description: CRAN Package 'pmc' (Phylogenetic Monte Carlo) Monte Carlo based model choice for applied phylogenetics of continuous traits. Method described in Carl Boettiger, Graham Coop, Peter Ralph (2012) Is your phylogeny informative? Measuring the power of comparative methods, Evolution 66 (7) 2240-51. . Package: r-cran-pmcalibration Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 433 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-hmisc, r-cran-mass, r-cran-mgcv, r-cran-survival, r-cran-pbapply Suggests: r-cran-rmarkdown, r-cran-data.table, r-cran-ggplot2, r-cran-rms, r-cran-simsurv Filename: pool/dists/focal/main/r-cran-pmcalibration_0.2.0-1.ca2004.1_all.deb Size: 363120 MD5sum: 744110cde635e638adaa8bcf6ebfd4f7 SHA1: f11325fe32ac37a28663d365eb351f771d608cc0 SHA256: 8d9c06d14f6d2b62e5d3fe0e365f3ede70f302c678eca77245dc8aa6e4d147f0 SHA512: f124a36309601c11977313160f5c3e55386253c2344d1adc4bc7fdaace517f14c6212705997f8a33c8c001d77719a25eebe579dc7df74c489c2c6de89af3e6d4 Homepage: https://cran.r-project.org/package=pmcalibration Description: CRAN Package 'pmcalibration' (Calibration Curves for Clinical Prediction Models) Fit calibrations curves for clinical prediction models and calculate several associated metrics (Eavg, E50, E90, Emax). Ideally predicted probabilities from a prediction model should align with observed probabilities. Calibration curves relate predicted probabilities (or a transformation thereof) to observed outcomes via a flexible non-linear smoothing function. 'pmcalibration' allows users to choose between several smoothers (regression splines, generalized additive models/GAMs, lowess, loess). Both binary and time-to-event outcomes are supported. See Van Calster et al. (2016) ; Austin and Steyerberg (2019) ; Austin et al. (2020) . Package: r-cran-pmcgd Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mixture, r-cran-mnormt Filename: pool/dists/focal/main/r-cran-pmcgd_1.1-1.ca2004.1_all.deb Size: 114352 MD5sum: 93ed582f7c31669c920d571a776aba30 SHA1: e7cd5a059257aad08be4923214d435698a68d227 SHA256: 9c20d3c27a56ae32c4fad4a4b1b8cf57e195cc5fb9c38be1a813ffcf57cd893b SHA512: 1bfe6dd36a3311d0caf24a749ea35933dba635fab860fc0a66e617314a516d1d6734213ffb820933d74f9e8ff97ae8b75c262f4c08ed19cfacc57129ff82565f Homepage: https://cran.r-project.org/package=pmcgd Description: CRAN Package 'pmcgd' (pmcgd) Parsimonious Mixtures of Contaminated Gaussian Distributions Package: r-cran-pmcmr Architecture: all Version: 4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-multcompview Filename: pool/dists/focal/main/r-cran-pmcmr_4.4-1.ca2004.1_all.deb Size: 51284 MD5sum: 65a77dc14a797362b1e2a80843a84731 SHA1: 7aa38a91160963e4542b560f033173583df6119b SHA256: 99dad82bf8e2c12da12c36724bd0a50f51914b7f8c30f39c607ec9953bc12c06 SHA512: e432ad919ac057777cc26fda5d634705b4a8c30e4a626950db1d7ea3d224b6e7461ae953a1c9088e30956968f536518f92bf0641a7a152f3315a2c3a636a0817 Homepage: https://cran.r-project.org/package=PMCMR Description: CRAN Package 'PMCMR' (Calculate Pairwise Multiple Comparisons of Mean Rank Sums) Note, that the 'PMCMR' package is superset by the novel 'PMCMRplus' package. The 'PMCMRplus' package contains all functions from 'PMCMR' and many more parametric and non-parametric multiple comparison procedures, one-factorial trend tests, as well as improved method functions, such as print, summary and plot. The 'PMCMR' package is no longer maintained, but kept for compatibility of reverse depending packages for some time. Package: r-cran-pmd Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4655 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcolorbrewer, r-cran-igraph, r-cran-envigcms Suggests: r-cran-knitr, r-cran-shiny, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pmd_0.2.7-1.ca2004.1_all.deb Size: 3762336 MD5sum: fe89900b954af9051b88824f53683ad4 SHA1: 447ec068d876ab028bd67ecd8bd9e3ba18992ebf SHA256: ffd435a07f0ce3995217ef12ad6a65f333142e4fdc0bb034bda61cabca25f54d SHA512: 2a515114b56c2e8b0b30c02ac879617dcd0bdbf35de30241d17882c4f4d69a575077d9cf0781933f96fb31902b5565f297b038efd947f168f4dc2134fb3eb84e Homepage: https://cran.r-project.org/package=pmd Description: CRAN Package 'pmd' (Paired Mass Distance Analysis for GC/LC-MS Based Non-TargetedAnalysis and Reactomics Analysis) Paired mass distance (PMD) analysis proposed in Yu, Olkowicz and Pawliszyn (2018) and PMD based reactomics analysis proposed in Yu and Petrick (2020) for gas/liquid chromatography–mass spectrometry (GC/LC-MS) based non-targeted analysis. PMD analysis including GlobalStd algorithm and structure/reaction directed analysis. GlobalStd algorithm could found independent peaks in m/z-retention time profiles based on retention time hierarchical cluster analysis and frequency analysis of paired mass distances within retention time groups. Structure directed analysis could be used to find potential relationship among those independent peaks in different retention time groups based on frequency of paired mass distances. Reactomics analysis could also be performed to build PMD network, assign sources and make biomarker reaction discovery. GUIs for PMD analysis is also included as 'shiny' applications. Package: r-cran-pmetar Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1574 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-dplyr, r-cran-httr, r-cran-lubridate, r-cran-magrittr, r-cran-rcurl, r-cran-tidyr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-pmetar_0.5.1-1.ca2004.1_all.deb Size: 1480372 MD5sum: 182d596343c1ea416b24cc3a8ad87308 SHA1: 68661c3b79847effaa85d5bdc83393961aff7c0d SHA256: 2b9423fb7da16c321b926e25dd6778220b9692c272ab3f25b6d8fb2e1a1b29a8 SHA512: 4a01b895a2bf1ecd39aafacdf8a05dea678b289ebd4cf62c9299474014805df79605967aad335ebc6f564598e3e3b5c1dca90b32a8a6c512de6635fcc05620a1 Homepage: https://cran.r-project.org/package=pmetar Description: CRAN Package 'pmetar' (Processing METAR Weather Reports) Allows to download current and historical METAR weather reports extract and parse basic parameters and present main weather information. Current reports are downloaded from Aviation Weather Center and historical reports from Iowa Environmental Mesonet web page of Iowa State University ASOS-AWOS-METAR . Package: r-cran-pmev Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-lubridate, r-cran-zoo, r-cran-rlang, r-cran-ggplot2, r-cran-scales, r-cran-vdiffr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pmev_0.1.2-1.ca2004.1_all.deb Size: 111656 MD5sum: c35324dacfd0573490ea443da3bdac64 SHA1: 4059215984e0cca7d9681f4edbab4435db6d0ce9 SHA256: 58ab5b74d11289782bc69fcaf29cf3c2095d6ced5ae7e780c30bfc3e114b8baf SHA512: 72966a5ba9cad70e8a25569ce6fd1d1fed149d9eaf1cb687c36d74640f58d986ed8d7f458c73ddbda17b025c31e5aa5a99e52ea9dcd343a9915800dc47f2ece9 Homepage: https://cran.r-project.org/package=pmev Description: CRAN Package 'pmev' (Calculates Earned Value for a Project Schedule) Given a project schedule and associated costs, this package calculates the earned value to date. 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Package: r-cran-pmevapotranspiration Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pmevapotranspiration_0.1.0-1.ca2004.1_all.deb Size: 15420 MD5sum: fb3af6219d75f4c9ea9ad77a1304c427 SHA1: bf05c971ab777fae74093e6a62a12b1095756efe SHA256: fbd71207e8903070ed9146d384121fe18170e54ddd07408970fd1ce276cf0d59 SHA512: e69f578221971bc1529da249cb9d6a4517508548900f39598a35df9bf0729a82d598e4c2406e80b1331b819a1cf09427686822c14a31b8c05a08506169bfd706 Homepage: https://cran.r-project.org/package=PMEvapotranspiration Description: CRAN Package 'PMEvapotranspiration' (Calculation of the Penman-Monteith Evapotranspiration usingWeather Variables) The Food and Agriculture Organization-56 Penman-Monteith is one of the important method for estimating evapotranspiration from vegetated land areas. This package helps to calculate reference evapotranspiration using the weather variables collected from weather station. Evapotranspiration is the process of water transfer from the land surface to the atmosphere through evaporation from soil and other surfaces and transpiration from plants. The package aims to support agricultural, hydrological, and environmental research by offering accurate and accessible reference evapotranspiration calculation. This package has been developed using concept of Córdova et al. (2015) and Debnath et al. (2015) . Package: r-cran-pmhtutorial Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-quandl Filename: pool/dists/focal/main/r-cran-pmhtutorial_1.5-1.ca2004.1_all.deb Size: 94352 MD5sum: 5a768de7299a470c5687d18b3828355b SHA1: 232d453cf8b075ba5247fb08b6968f15da27b40d SHA256: 78ef266b52c2fb7d23e41132034f3017e48ba3f7de209d42317ea14731c62f79 SHA512: c91e5634ad2c56dd06ded1d87e3531a4149909f7ac58b58fd0bfc719f8e164a6634829aeb777a0a5f9885357525a7b5bc33c1dc7f2a6aa360a9a1db4c71b56db Homepage: https://cran.r-project.org/package=pmhtutorial Description: CRAN Package 'pmhtutorial' (Minimal Working Examples for Particle Metropolis-Hastings) Routines for state estimate in a linear Gaussian state space model and a simple stochastic volatility model using particle filtering. Parameter inference is also carried out in these models using the particle Metropolis-Hastings algorithm that includes the particle filter to provided an unbiased estimator of the likelihood. This package is a collection of minimal working examples of these algorithms and is only meant for educational use and as a start for learning to them on your own. Package: r-cran-pminternal Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1028 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dcurves, r-cran-insight, r-cran-marginaleffects, r-cran-pmcalibration, r-cran-proc, r-cran-pbapply, r-cran-purrr Suggests: r-cran-ggplot2, r-cran-glmnet, r-cran-hmisc, r-cran-knitr, r-cran-rmarkdown, r-cran-ranger, r-cran-gbm, r-cran-rms, r-cran-mgcv, r-cran-mice Filename: pool/dists/focal/main/r-cran-pminternal_0.1.0-1.ca2004.1_all.deb Size: 703624 MD5sum: f85a33533fea63c55e98666f1f91a4be SHA1: da09d1f162f498ecadd8188b45a6b29d5674da7d SHA256: 206edc8a606da28542085c860a451ecda65e3210c8571eb2ef6a88591f00819c SHA512: 012b473c9588f26ae9260911753466a87a70496f8f07a11b5ba6d7338d79828c59d6310806de93503699fb5d1cb1028fa7e9b0aee42617b86cb34688130b97d5 Homepage: https://cran.r-project.org/package=pminternal Description: CRAN Package 'pminternal' (Internal Validation of Clinical Prediction Models) Conduct internal validation of a clinical prediction model for a binary outcome. Produce bias corrected performance metrics (c-statistic, Brier score, calibration intercept/slope) via bootstrap (simple bootstrap, bootstrap optimism, .632 optimism) and cross-validation (CV optimism, CV average). Also includes functions to assess model stability via bootstrap resampling. See Steyerberg et al. (2001) ; Harrell (2015) ; Riley and Collins (2023) . Package: r-cran-pmlbr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 250 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fnn Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pmlbr_0.3.0-1.ca2004.1_all.deb Size: 219552 MD5sum: 4407a09f22bdf431caf9ceab5ac66029 SHA1: 285ac41e9c8006f10b5805fb25a38cbd270222bb SHA256: 2d584dde7974f2cb7ba8bd49a62e6ba9377308f062a69b2cfc9edaa31d32877e SHA512: 292d4a03f7581d3cc8792c16bc7f4a5ac505cf99f8d738b9e634050471b784e88fbf09f4dd7c0fe36e581f99399e5fd3056db5e442f1008c8058913cd66f182c Homepage: https://cran.r-project.org/package=pmlbr Description: CRAN Package 'pmlbr' (Interface to the Penn Machine Learning Benchmarks DataRepository) Check available classification and regression data sets from the PMLB repository and download them. The PMLB repository () contains a curated collection of data sets for evaluating and comparing machine learning algorithms. 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Package: r-cran-pmledecon Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-splitstackshape, r-cran-rmutil Filename: pool/dists/focal/main/r-cran-pmledecon_0.2.1-1.ca2004.1_all.deb Size: 41728 MD5sum: bb98ef2f61bb3f2fb17b210847632f14 SHA1: ba7a77ebfc4dba4d149cd32b00f994fdd9543df7 SHA256: e9b69c444eefaf3a9fd3e241f6edf51f45c01d5b7cd1bf5b16023a8d0ba96733 SHA512: fb70fc2bb55c7e45dab72ce5fc374093a1d8e6ac2ab0d8b8374645b6495a91cd4b0e0f33e9477df21e9f6a507ebababea5d0fe45b43d80f5aac50124548dbe99 Homepage: https://cran.r-project.org/package=pmledecon Description: CRAN Package 'pmledecon' (Deconvolution Density Estimation using Penalized MLE) Given a sample with additive measurement error, the package estimates the deconvolution density - that is, the density of the underlying distribution of the sample without measurement error. 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Package: r-cran-pmml Architecture: all Version: 2.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 817 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-stringr Suggests: r-cran-ada, r-cran-amap, r-cran-arules, r-cran-caret, r-cran-clue, r-cran-data.table, r-cran-forecast, r-cran-gbm, r-cran-glmnet, r-cran-matrix, r-cran-neighbr, r-cran-nnet, r-cran-rpart, r-cran-randomforest, r-cran-rattle, r-cran-kernlab, r-cran-e1071, r-cran-testthat, r-cran-survival, r-cran-xgboost, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-pmml_2.5.2-1.ca2004.1_all.deb Size: 639156 MD5sum: a99760125dc58ac075471475f72bc725 SHA1: 0a25c8521a9f834b678cc304776ea86a0d288cff SHA256: f6f7d80b7fee4f8d5e0ecf6f74f9ff6f266a539b2de3708fc53c2cd752092e9a SHA512: 7f29db82e712e456e4a74480ba6f6bc63515cdf12e203c0334d65d64e9103c66d75fd1ad4a4c13618d102e6879ce02082dfe4e73eca917b72b0343af9236c2db Homepage: https://cran.r-project.org/package=pmml Description: CRAN Package 'pmml' (Generate PMML for Various Models) The Predictive Model Markup Language (PMML) is an XML-based language which provides a way for applications to define machine learning, statistical and data mining models and to share models between PMML compliant applications. 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Builds structures to allow functions in the PMML package to output transformation details in addition to the model in the resulting PMML file. The Predictive Model Markup Language (PMML) is an XML-based language which provides a way for applications to define machine learning, statistical and data mining models and to share models between PMML compliant applications. More information about the PMML industry standard and the Data Mining Group can be found at . The generated PMML can be imported into any PMML consuming application, such as Zementis Predictive Analytics products, which integrate with web services, relational database systems and deploy natively on Hadoop in conjunction with Hive, Spark or Storm, as well as allow predictive analytics to be executed for IBM z Systems mainframe applications and real-time, streaming analytics platforms. Package: r-cran-pmparser Architecture: all Version: 1.0.21-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-data.table, r-cran-dbi, r-cran-foreach, r-cran-glue, r-cran-iterators, r-cran-jsonlite, r-cran-r.utils, r-cran-rcurl, r-cran-withr, r-cran-xml2 Suggests: r-cran-bigrquery, r-cran-doparallel, r-cran-rmariadb, r-cran-rpostgres, r-cran-rsqlite, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pmparser_1.0.21-1.ca2004.1_all.deb Size: 183656 MD5sum: 65ac20f11a0fe7ecafbb67a9a75c5265 SHA1: 52fb8b52028133d39a5b6786b5546df19de3ca63 SHA256: 20d7380dcb08272d8acf20b8feb3db649cf56f181608bb49602a0897fb5b1b37 SHA512: d4343852924ee9c7f38c2e98117cd11d785c4f59e2d689ff8f061c1fbd112c7c27c3e675d16a398b82df96cb7abfd9d14dbfc8169afb12ecd72575e56c1119fa Homepage: https://cran.r-project.org/package=pmparser Description: CRAN Package 'pmparser' (Create and Maintain a Relational Database of Data fromPubMed/MEDLINE) Provides a simple interface for extracting various elements from the publicly available PubMed XML files, incorporating PubMed's regular updates, and combining the data with the NIH Open Citation Collection. See Schoenbachler and Hughey (2021) . Package: r-cran-pmr Architecture: all Version: 1.2.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pmr_1.2.5.1-1.ca2004.1_all.deb Size: 118432 MD5sum: 71cea13f3f01e2c911b2206d43d46c6b SHA1: dfaa329619802f95a12f9f7dd2319a42ce2bcaa6 SHA256: 6f26309dce873d5a7e7079b04e67ef968c4b3a00a3e6387c0bc6b237161b02e8 SHA512: be36201a6cfde8c497f84cba6dc1981228b7a919689f64c899f8e399ed3b99a3c61c54331c3c2e297ae36620d5319194abc0c3d3c6664282d356d88da7b06db4 Homepage: https://cran.r-project.org/package=pmr Description: CRAN Package 'pmr' (Probability Models for Ranking Data) Descriptive statistics (mean rank, pairwise frequencies, and marginal matrix), Analytic Hierarchy Process models (with Saaty's and Koczkodaj's inconsistencies), probability models (Luce models, distance-based models, and rank-ordered logit models) and visualization with multidimensional preference analysis for ranking data are provided. Current, only complete rankings are supported by this package. Package: r-cran-pmsampsize Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pmsampsize_1.1.3-1.ca2004.1_all.deb Size: 46092 MD5sum: 2fdc09fd602927f1815417de81692268 SHA1: 876233bae6fd34cf8add1019d63d6687cfbd1fe8 SHA256: 0a8e27375c72bb3ad98d1c4bd12ae4073c55b4da27859efdae8fb4f8c314018f SHA512: 34d72ee15bbc6b2745add0c6dd4c72e466777dc49aa8cde3fef4a5c7dd9714468091dcd4c28e572879683a729a3aa31c72f2c52e2966d2733c5b3c5e4fe1d86a Homepage: https://cran.r-project.org/package=pmsampsize Description: CRAN Package 'pmsampsize' (Sample Size for Development of a Prediction Model) Computes the minimum sample size required for the development of a new multivariable prediction model using the criteria proposed by Riley et al. 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Package: r-cran-pnar Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 313 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-igraph, r-cran-nloptr, r-cran-rfast, r-cran-rfast2 Filename: pool/dists/focal/main/r-cran-pnar_1.7-1.ca2004.1_all.deb Size: 272420 MD5sum: 76e326d46345a5fc52c37ab8c0153236 SHA1: 51b538f097d2965db1b9ba1cc714e3460cbac80d SHA256: df54521b9afff92ef42ca9896de77bb9046ec235413dbed2f51b729e65342bf0 SHA512: e2bf96f3632ea24c889665dfd04c8b96f21d7d4dba9653341b479b6f70b4ed9bc7ce77e22de491138781f5ea5475057648b74eeb33daa45d8cae6c92e6fcde9e Homepage: https://cran.r-project.org/package=PNAR Description: CRAN Package 'PNAR' (Poisson Network Autoregressive Models) Quasi likelihood-based methods for estimating linear and log-linear Poisson Network Autoregression models with p lags and covariates. Tools for testing the linearity versus several non-linear alternatives. Tools for simulation of multivariate count distributions, from linear and non-linear PNAR models, by using a specific copula construction. References include: Armillotta, M. and K. Fokianos (2023). "Nonlinear network autoregression". Annals of Statistics, 51(6): 2526--2552. . Armillotta, M. and K. Fokianos (2024). "Count network autoregression". Journal of Time Series Analysis, 45(4): 584--612. . Armillotta, M., Tsagris, M. and Fokianos, K. (2024). "Inference for Network Count Time Series with the R Package PNAR". The R Journal, 15/4: 255--269. . 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The package includes classes for encapsulating and generating model parameters, and managing the POM workflow. The workflow includes: model setup; generating model parameters via Latin hyper-cube sampling (Iman & Conover, 1980, ); running multiple sampled model simulations; collating summary results; and validating and selecting an ensemble of models that best match known patterns. By default, model validation and selection utilizes an approximate Bayesian computation (ABC) approach (Beaumont et al., 2002, ), although alternative user-defined functionality could be employed. The package includes a spatially explicit demographic population model simulation engine, which incorporates default functionality for density dependence, correlated environmental stochasticity, stage-based transitions, and distance-based dispersal. The user may customize the simulator by defining functionality for translocations, harvesting, mortality, and other processes, as well as defining the sequence order for the simulator processes. The framework could also be adapted for use with other model simulators by utilizing its extendable (inheritable) base classes. 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For this reason we will work on datasets of different size (from several to several hundred thousand rows), with various level of complexity (from two to two thousand columns) and prepared in different formats (text data, quantitative data and qualitative data). All of these data sets were gathered in a single big package called PogromcyDanych to facilitate access to them. It contains all sorts of data sets such as data about offer prices of cars, results of opinion polls, information about changes in stock market indices, data about names given to newborn babies, ski jumping results or information about outcomes of breast cancer patients treatment. Package: r-cran-poiclaclu Architecture: all Version: 1.0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-poiclaclu_1.0.2.1-1.ca2004.1_all.deb Size: 61860 MD5sum: 4bb5663c732dde007a42f971282ca1dc SHA1: 73ce35e38fda2d461ecf8aeef249132cfa29b1fe SHA256: bc09d144782faaaaf0123a62b1c1e976b6166068df7adcb2b6679325c206595d SHA512: 8293afb3221ff7a58b769e5f7f61a52efa149de071a4eb8dc33ff807917329d21df9df7736d13c88a7d8c08c2c5d4754adc164c19cf78065586357a37b50f126 Homepage: https://cran.r-project.org/package=PoiClaClu Description: CRAN Package 'PoiClaClu' (Classification and Clustering of Sequencing Data Based on aPoisson Model) Implements the methods described in the paper, Witten (2011) Classification and Clustering of Sequencing Data using a Poisson Model, Annals of Applied Statistics 5(4) 2493-2518. 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Performs structure-guided collapsing, which leads to local tests that borrow information from neighboring variants on a protein and that provide association information on a variant-specific level. For details of the implemented method see West, R. M., Lu, W., Rotroff, D. M., Kuenemann, M., Chang, S-M., Wagner M. J., Buse, J. B., Motsinger-Reif, A., Fourches, D., and Tzeng, J-Y. (2019) . 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Validation pipelines can be made using easily-readable, consecutive validation steps. Upon execution of the validation plan, several reporting options are available. User-defined thresholds for failure rates allow for the determination of appropriate reporting actions. Many other workflows are available including an information management workflow, where the aim is to record, collect, and generate useful information on data tables. 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Despite this, the general software to help ecologists construct such models in an easy-to-use framework is lacking. We therefore introduce the R package 'PointedSDMs': which provides the tools to help ecologists set up integrated models and perform inference on them. There are also functions within the package to help run spatial cross-validation for model selection, as well as generic plotting and predicting functions. An introduction to these methods is discussed in Issac, Jarzyna, Keil, Dambly, Boersch-Supan, Browning, Freeman, Golding, Guillera-Arroita, Henrys, Jarvis, Lahoz-Monfort, Pagel, Pescott, Schmucki, Simmonds and O’Hara (2020) . 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It is based on the package 'polynom' and uses a lot of its methods to implement matrix operations. This package includes 3 methods of triangularization of polynomial matrices: Extended Euclidean algorithm which is most classical but numerically unstable; Sylvester algorithm based on LQ decomposition; Interpolation algorithm is based on LQ decomposition and Newton interpolation. Both methods are described in D. Henrion & M. Sebek, Reliable numerical methods for polynomial matrix triangularization, IEEE Transactions on Automatic Control (Volume 44, Issue 3, Mar 1999, Pages 497-508) and in Salah Labhalla, Henri Lombardi & Roger Marlin, Algorithmes de calcule de la reduction de Hermite d'une matrice a coefficients polynomeaux, Theoretical Computer Science (Volume 161, Issue 1-2, July 1996, Pages 69-92) . 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Bjerrum, L., Rosholm, J. U., Hallas, J., & Kragstrup, J. (1997) . Chan, D.-C., Hao, Y.-T., & Wu, S.-C. (2009a) . Fincke, B. G., Snyder, K., Cantillon, C., Gaehde, S., Standring, P., Fiore, L., ... Gagnon, D.R. (2005) . Hovstadius, B., Astrand, B., & Petersson, G. (2009) . Hovstadius, B., Astrand, B., & Petersson, G. (2010) . Kennerfalk, A., Ruigómez, A., Wallander, M.-A., Wilhelmsen, L., & Johansson, S. (2002) . Masnoon, N., Shakib, S., Kalisch-Ellett, L., & Caughey, G. E. (2017) . Narayan, S. W., & Nishtala, P. S. (2015) . Nishtala, P. S., & Salahudeen, M. S. (2015) . Park, H. Y., Ryu, H. N., Shim, M. K., Sohn, H. S., & Kwon, J. W. (2016) . Veehof, L., Stewart, R., Haaijer-Ruskamp, F., & Jong, B. M. (2000) . 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Package: r-cran-pomic Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pomic_1.0.4-1.ca2004.1_all.deb Size: 38836 MD5sum: 9ea58e04714b59f349f1aac667d0c37d SHA1: c65778158327dde3290327899af7aeacee0bbbd1 SHA256: 51940c1108c28e376a4050494a6935e43d5676afe61d9ea94513b54a7de97458 SHA512: 05163253cef5112064c3fe80a923da1ca85da6853f420e76c677bfee06c50505a75753b070204bb8f3b4ad3d5b32316408e5da5bada8af64822ef5a60ddd3f63 Homepage: https://cran.r-project.org/package=Pomic Description: CRAN Package 'Pomic' (Pattern Oriented Modelling Information Criterion) Calculations of an information criterion are proposed to check the quality of simulations results of Agent-based models (ABM/IBM) or other non-linear rule-based models. The POMDEV measure (Pattern Oriented Modelling DEViance) is based on the Kullback-Leibler divergence and likelihood theory. It basically indicates the deviance of simulation results from field observations. Once POMDEV scores and metropolis-hasting sampling on different model versions are effectuated, POMIC scores (Pattern Oriented Modelling Information Criterion) can be calculated. This method could be further developed to incorporate multiple patterns assessment. Piou C, U Berger and V Grimm (2009) . Package: r-cran-pomodoro Architecture: all Version: 3.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1041 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble, r-cran-caret, r-cran-gbm, r-cran-randomforest, r-cran-proc, r-cran-ipred Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pomodoro_3.8.0-1.ca2004.1_all.deb Size: 877368 MD5sum: a9f6d3de034de488d6d8c99953ccb8cc SHA1: a382e49f11d3a478ea730736b992ee99af43a54e SHA256: 16b47003c5d99c06e1a898228e7cff553b18d85ff205a870b3e91fd94aa0ecfa SHA512: 4c83dfd9b07d1500292784df2ec3ce39c7b7e83cc503b5d9f540e14a00f8e43fad24266dc2d731a43c1e4213bf9199a6ca323baba255be621b4779c07a2e973e Homepage: https://cran.r-project.org/package=pomodoro Description: CRAN Package 'pomodoro' (Predictive Power of Linear and Tree Modeling) Runs generalized and multinominal logistic (GLM and MLM) models, as well as random forest (RF), Bagging (BAG), and Boosting (BOOST). This package prints out to predictive outcomes easy for the selected data and data splits. Package: r-cran-pompom Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1375 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lavaan, r-cran-ggplot2, r-cran-reshape2, r-cran-qgraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-pompom_0.2.1-1.ca2004.1_all.deb Size: 1270868 MD5sum: 54e4a48a15554d2b73b2123f5c39192f SHA1: 50f8e2dee56b9b1ada58114962c5fd81f803f42d SHA256: 6371542703155826aecc775064e90f3f71cdf24374a50df46dac407fd5474174 SHA512: e9d1542a46000256c9a33db2dd00ebe5a6b0b35c7a8b08a258051e74a150ad3babaf9d4a2ac888d53476186d97fcd45d10b6d88252cc43e4d4deb6653341ce30 Homepage: https://cran.r-project.org/package=pompom Description: CRAN Package 'pompom' (Person-Oriented Method and Perturbation on the Model) An implementation of a hybrid method of person-oriented method and perturbation on the model. Pompom is the initials of the two methods. The hybrid method will provide a multivariate intraindividual variability metric (iRAM). The person-oriented method used in this package refers to uSEM (unified structural equation modeling, see Kim et al., 2007, Gates et al., 2010 and Gates et al., 2012 for details). Perturbation on the model was conducted according to impulse response analysis introduced in Lutkepohl (2007). Kim, J., Zhu, W., Chang, L., Bentler, P. M., & Ernst, T. (2007) . Gates, K. M., Molenaar, P. C. M., Hillary, F. G., Ram, N., & Rovine, M. J. (2010) . Gates, K. M., & Molenaar, P. C. M. (2012) . Lutkepohl, H. (2007, ISBN:3540262393). Package: r-cran-poms Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ape, r-cran-data.table, r-cran-mass, r-cran-phangorn, r-cran-phylolm, r-cran-xnomial Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-poms_1.0.1-1.ca2004.1_all.deb Size: 110016 MD5sum: f9a445c868bb99d6d9322ae722ff42af SHA1: 3a8f20d95a8cd39b54e057b9a572dcd3d7af7f9e SHA256: 47e74879782ff58f92ada3915c24813ec2fbfe4bfaec88b3af92a51c9911783d SHA512: c316b531a92ec01cb27e9e0df82321ff47599fbb73b3ced922e740afae761b7aa81fcb0209338ee7262dfc25bde67a91a3d2380e51f8e849d5a4a214716db80a Homepage: https://cran.r-project.org/package=POMS Description: CRAN Package 'POMS' (Phylogenetic Organization of Metagenomic Signals) Code to identify functional enrichments across diverse taxa in phylogenetic tree, particularly where these taxa differ in abundance across samples in a non-random pattern. The motivation for this approach is to identify microbial functions encoded by diverse taxa that are at higher abundance in certain samples compared to others, which could indicate that such functions are broadly adaptive under certain conditions. See 'GitHub' repository for tutorial and examples: . Citation: Gavin M. Douglas, Molly G. Hayes, Morgan G. I. Langille, Elhanan Borenstein (2022) . 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This package provides functionality to compute marginal and central rejection levels and the centrality quotient for p-value pooling functions and provides implementations of the chi-squared quantile pooled p-value (described in Salahub and Oldford (2023)) and a proposal from Heard and Rubin-Delanchy (2018) to control the quotient's value. Package: r-cran-pooldilutionr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-pooldilutionr_1.0.0-1.ca2004.1_all.deb Size: 103140 MD5sum: 26c05955291b2be023b0481a0306b504 SHA1: df670a0e7de987dcc07a46a90c48e6aed3630fda SHA256: 98a179fbdb3ea527c79895683e5a6c9af5e17f303f09af23c789645d40940250 SHA512: b6671924327dabc6700905eb79e981990d882604b12db386cc66da9481b7d93dc333a392a1acf629a2bc1bfa9c09d372db799942a15e27cc39dff833f334a4fe Homepage: https://cran.r-project.org/package=PoolDilutionR Description: CRAN Package 'PoolDilutionR' (Calculate Gross Biogeochemical Flux Rates from Isotope PoolDilution Data) Pool dilution is a isotope tracer technique wherein a biogeochemical pool is artifically enriched with its heavy isotopologue and the gross productive and consumptive fluxes of that pool are quantified by the change in pool size and isotopic composition over time. This package calculates gross production and consumption rates from closed-system isotopic pool dilution time series data. Pool size concentrations and heavy isotope (e.g., 15N) content are measured over time and the model optimizes production rate (P) and the first order rate constant (k) by minimizing error in the model-predicted total pool size, as well as the isotopic signature. The model optimizes rates by weighting information against the signal:noise ratio of concentration and heavy- isotope signatures using measurement precision as well as the magnitude of change over time. The calculations used here are based on von Fischer and Hedin (2002) with some modifications. Package: r-cran-pooledcohort Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-glue Suggests: r-cran-testthat, r-cran-covr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-pooledcohort_0.0.2-1.ca2004.1_all.deb Size: 87020 MD5sum: c30ce0ee2a8f781bcfcf4c64e537e217 SHA1: 6f800161c210f21f7287733ed6500227e777a852 SHA256: ff20f17c1ab7c339e1ed826de8b00904db1bc1c74faedf7fd5e0d94bb13718e8 SHA512: a51a57a2c86ed4a1f34b4970e51b888a271ca73cd47b8ffb03431c622e96f15ab39a5893ad4244f68c91dbceaeda570222697dd0a6d5390b2a37f79fa92332d2 Homepage: https://cran.r-project.org/package=PooledCohort Description: CRAN Package 'PooledCohort' (Predicted Risk for CVD using Pooled Cohort Equations, PREVENTEquations, and Other Contemporary CVD Risk Calculators) The 2017 American College of Cardiology and American Heart Association blood pressure guideline recommends using 10-year predicted atherosclerotic cardiovascular disease risk to guide the decision to initiate or intensify antihypertensive medication. The guideline recommends using the Pooled Cohort risk prediction equations to predict 10-year atherosclerotic cardiovascular disease risk. This package implements the original Pooled Cohort risk prediction equations and also incorporates updated versions based on more contemporary data and statistical methods. Package: r-cran-pooledmeangroup Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pooledmeangroup_1.0-1.ca2004.1_all.deb Size: 91020 MD5sum: 7e5e8cec5ea03328c7e4fab71b0fc4c7 SHA1: f52d98a539594cdff4773b3c802fcceaa9bacd94 SHA256: b0672f9440bf6eb9fa99dd6adee77eb84e62ff6827fbcea6c60da081c9d235a9 SHA512: 356d99511835a21aa7afd6118a099873d80901d14b2f4b5030a7ebfc24ebc7ddaa0c5a6ea289b1ee9c15b5be362265dd3cbe0639a7a810034fd0d905901d151e Homepage: https://cran.r-project.org/package=PooledMeanGroup Description: CRAN Package 'PooledMeanGroup' (Pooled Mean Group Estimation of Dynamic Heterogenous Panels) Calculates the pooled mean group (PMG) estimator for dynamic panel data models, as described by Pesaran, Shin and Smith (1999) . Package: r-cran-pooledpeaks Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4447 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ape, r-cran-dplyr, r-cran-fragman, r-cran-magrittr, r-cran-pdftools, r-cran-qpdf, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-plyr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-pooledpeaks_1.2.2-1.ca2004.1_all.deb Size: 1649504 MD5sum: 88cbd09cd017cc8caa3939cf44d599d4 SHA1: 7beebf9019a298b424d4d1ea9fda628f34be43ac SHA256: 69062a3cd463a096eec5847d5adb485c057115f9d0a341816505b238a3afc01c SHA512: c7dedd095f1d063eec2b64860991bd67364e968e280e880152da46e8744b0331f786128bda5a52053b6f074b2ca0bd4a3592f6a7c5a3084adf8a0ee5d1c04845 Homepage: https://cran.r-project.org/package=pooledpeaks Description: CRAN Package 'pooledpeaks' (Genetic Analysis of Pooled Samples) Analyzing genetic data obtained from pooled samples. This package can read in Fragment Analysis output files, process the data, and score peaks, as well as facilitate various analyses, including cluster analysis, calculation of genetic distances and diversity indices, as well as bootstrap resampling for statistical inference. Specifically tailored to handle genetic data efficiently, researchers can explore population structure, genetic differentiation, and genetic relatedness among samples. We updated some functions from Covarrubias-Pazaran et al. (2016) to allow for the use of new file formats and referenced the following to write our genetic analysis functions: Long et al. (2022) , Jost (2008) , Nei (1973) , Foulley et al. (2006) , Chao et al. (2008) . 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Also allows for the evaluation of the average absolute difference between allele frequencies computed from genotypes and those computed from pooled data. Carvalho et al., (2022) . 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Approaches for handling measurement error follow the framework of Schisterman et al. (2010) . Package: r-cran-poolr Architecture: all Version: 1.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 287 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mathjaxr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-poolr_1.2-0-1.ca2004.1_all.deb Size: 246320 MD5sum: 21780825ffb59c2d5f90d8379bb5f499 SHA1: 3c43dd61f919da140bc14f159405955842ae29ea SHA256: ff52714589cfaee9ec8a6899bbc347e0908caf872bd1ab5d86733439fc2fd346 SHA512: 37374234484256a9a4f98fc7a86fbc8b7c8ac713637b032de238af8f2a318931dc50c4d815ec284166e129bb5fd851cd667211e1372548eb918140b25e648b04 Homepage: https://cran.r-project.org/package=poolr Description: CRAN Package 'poolr' (Methods for Pooling P-Values from (Dependent) Tests) Functions for pooling/combining the results (i.e., p-values) from (dependent) hypothesis tests. Included are Fisher's method, Stouffer's method, the inverse chi-square method, the Bonferroni method, Tippett's method, and the binomial test. Each method can be adjusted based on an estimate of the effective number of tests or using empirically derived null distribution using pseudo replicates. For Fisher's, Stouffer's, and the inverse chi-square method, direct generalizations based on multivariate theory are also available (leading to Brown's method, Strube's method, and the generalized inverse chi-square method). An introduction can be found in Cinar and Viechtbauer (2022) . 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The function aggregates AIR importance measures from a group of SNPs or probes and outputs a p-value for each gene. The procedures builds upon the method described in and will be published soon. 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Package: r-cran-pop Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-mass Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-pop_0.1-1.ca2004.1_all.deb Size: 117560 MD5sum: 27459f3ab91d564784581c93b8c74b41 SHA1: 99627f7ec024dfc0f2fb8c345cc2087ce2d60526 SHA256: ae521d06792147550ad59514437e3523607a8e796a60bed146f5bfd4003cd810 SHA512: 1ce7eb347d39c4aaf39a69c155539a9ddd42f273f37f97b49addc7b687f6e8296a8e4377f7023d98cff5b890d3e5ca1974d06bd4ddcc959f44d0526b571d7a2e Homepage: https://cran.r-project.org/package=pop Description: CRAN Package 'pop' (A Flexible Syntax for Population Dynamic Modelling) Population dynamic models underpin a range of analyses and applications in ecology and epidemiology. The various approaches for analysing population dynamics models (MPMs, IPMs, ODEs, POMPs, PVA) each require the model to be defined in a different way. This makes it difficult to combine different modelling approaches and data types to solve a given problem. 'pop' aims to provide a flexible and easy to use common interface for constructing population dynamic models and enabling to them to be fitted and analysed in lots of different ways. Package: r-cran-popbayes Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2127 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-r2jags, r-cran-usethis Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-popbayes_1.2.0-1.ca2004.1_all.deb Size: 1400324 MD5sum: 96ebd91951ced91e00b0f083e8fedc20 SHA1: 043207c47a1c1e904365b92bf232f5c2635c91c5 SHA256: b9840119aaf25496d9d40ec2c025b86675d4653568c49f05595da387f7df730b SHA512: f8d17817f12c49bbfb51d2039008b17e0d27ab7ba6ee142ecbd0ff2cb945ada8a7a51b49f9106d95a1af19a4f2c36d9acf3eb68a3945f187aa4c185698ffccad Homepage: https://cran.r-project.org/package=popbayes Description: CRAN Package 'popbayes' (Bayesian Model to Estimate Population Trends from Counts Series) Infers the trends of one or several animal populations over time from series of counts. It does so by accounting for count precision (provided or inferred based on expert knowledge, e.g. guesstimates), smoothing the population rate of increase over time, and accounting for the maximum demographic potential of species. Inference is carried out in a Bayesian framework. This work is part of the FRB-CESAB working group AfroBioDrivers . Package: r-cran-popbio Architecture: all Version: 2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 371 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-quadprog Filename: pool/dists/focal/main/r-cran-popbio_2.8-1.ca2004.1_all.deb Size: 297448 MD5sum: 3679b8023481f822d5d9926f7662301d SHA1: 3bc8a138138470df639229f00f71f34a45d4ca33 SHA256: cbca7efbc06ef015bbd026098c3959c3508d98a69454fefc74cbdd89d7dc9f3c SHA512: 2d0e5beb802a646ae4748272d37e133121ef591d5f391302e5a09dfacbf9e16ee35d161218601ba5d37631c6b07d965fb79e6a76c4b584819db123669380e031 Homepage: https://cran.r-project.org/package=popbio Description: CRAN Package 'popbio' (Construction and Analysis of Matrix Population Models) Construct and analyze projection matrix models from a demography study of marked individuals classified by age or stage. The package covers methods described in Matrix Population Models by Caswell (2001) and Quantitative Conservation Biology by Morris and Doak (2002). Package: r-cran-popcomm Architecture: all Version: 0.1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4408 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-seurat, r-cran-broom, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-matrix, r-cran-ggplot2, r-cran-ggpubr, r-cran-pheatmap, r-cran-rcolorbrewer, r-cran-reshape2, r-cran-scales, r-cran-igraph, r-cran-pbmcapply Filename: pool/dists/focal/main/r-cran-popcomm_0.1.0.1-1.ca2004.1_all.deb Size: 4384752 MD5sum: 24b04c8e86e3d2f7a1df1d3ed6aed04d SHA1: fcdb7a30969116a8e8aae9559d6191cbbf05f5f4 SHA256: 9642026d9fb6ba0c371d70eb2e589b30230a189f8b7b4e65604906fdfb9e73ee SHA512: b1be0303a0a05e2efd0a9934132f1390af4fd71fab971b2dc7cc576f424b23199b4adc1d786bdc27ca9f4fee020ba70f5014fb687f2d4b12575833e155e3d87f Homepage: https://cran.r-project.org/package=PopComm Description: CRAN Package 'PopComm' (Population-Level Cell-Cell Communication Analysis Tools) Facilitates population-level analysis of ligand-receptor (LR) interactions using large-scale single-cell transcriptomic data. Identifies significant LR pairs and quantifies their interactions through correlation-based filtering and projection score computations. Designed for large-sample single-cell studies, the package employs statistical modeling, including linear regression, to investigate LR relationships between cell types. It provides a systematic framework for understanding cell-cell communication, uncovering regulatory interactions and signaling mechanisms. Offers tools for LR pair-level, sample-level, and differential interaction analyses, with comprehensive visualization support to aid biological interpretation. The methodology is described in a manuscript currently under review and will be referenced here once published or publicly available. Package: r-cran-popdemo Architecture: all Version: 1.3-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5681 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-expm, r-cran-mcmcpack Suggests: r-cran-knitr, r-cran-magick, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-popdemo_1.3-2-1.ca2004.1_all.deb Size: 3798904 MD5sum: ea76c79b46d95165255f197a2642171f SHA1: dfdc161e98ec9f9c7eb8419fcbce6c7d5e0a8457 SHA256: 8018f35db6dc7f18893e288952e5826d3932893b9b8667d31caa322b24245cc3 SHA512: bd2229676af7eb9f0189bd5d82717995e4fc25ba23cd3fedb91752ed9f2b51fcccbf688fe02eafe6114e43deab5561853f71396518f9091d9d23ab23071d48cd Homepage: https://cran.r-project.org/package=popdemo Description: CRAN Package 'popdemo' (Demographic Modelling Using Projection Matrices) Tools for modelling populations and demography using matrix projection models, with deterministic and stochastic model implementations. Includes population projection, indices of short- and long-term population size and growth, perturbation analysis, convergence to stability or stationarity, and diagnostic and manipulation tools. Package: r-cran-popdesign Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 521 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-iso, r-cran-knitr, r-cran-magick Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-popdesign_1.1.0-1.ca2004.1_all.deb Size: 377000 MD5sum: c3afa1e19ee1e0af196410ee7ee8836c SHA1: 3940b40ab71a132c099fc894140c866c8c87bf6e SHA256: e4b3e2603b73aaab1b5d68394531034cf27d70484b342c8bdc4f4e118368b488 SHA512: 078380b7e233a4870f9b2a0f994ad791dce931f30dc80fd83543ac3f31f22191a6251af539702e97cd785a71b0b92d5d44583f63dcc264454db99dd18ca90e47 Homepage: https://cran.r-project.org/package=PoPdesign Description: CRAN Package 'PoPdesign' (Posterior Predictive (PoP) Design for Phase I Clinical Trials) The primary goal of phase I clinical trials is to find the maximum tolerated dose (MTD). To reach this objective, we introduce a new design for phase I clinical trials, the posterior predictive (PoP) design. The PoP design is an innovative model-assisted design that is as simply as the conventional algorithmic designs as its decision rules can be pre-tabulated prior to the onset of trial, but is of more flexibility of selecting diverse target toxicity rates and cohort sizes. The PoP design has desirable properties, such as coherence and consistency. Moreover, the PoP design provides better empirical performance than the BOIN and Keyboard design with respect to high average probabilities of choosing the MTD and slightly lower risk of treating patients at subtherapeutic or overly toxic doses. Package: r-cran-poped Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4543 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-mass, r-cran-mvtnorm, r-cran-dplyr, r-cran-codetools, r-cran-magrittr, r-cran-boot, r-cran-purrr, r-cran-stringr, r-cran-tibble, r-cran-gtools Suggests: r-cran-testthat, r-cran-hmisc, r-cran-nlme, r-cran-ga, r-cran-desolve, r-cran-rcpp, r-cran-shiny, r-cran-rhandsontable, r-cran-knitr, r-cran-rmarkdown, r-cran-gridextra, r-cran-covr, r-cran-devtools, r-cran-mrgsolve Filename: pool/dists/focal/main/r-cran-poped_0.7.0-1.ca2004.1_all.deb Size: 2554716 MD5sum: 89f6f12fb5ec8f36bb4e9a4d1082b41d SHA1: 624c3ae9d6e633ece47d3cd58a4f62ab4f84bb38 SHA256: 3013077d81a80ae40014bc5fe1f93074f6c58ded39a944ef0a6ae15a7a603036 SHA512: 336ebc0217e0db56f01fe1ce77d1ab6fad6b157b244cfb6bbbd84881cb9fdd84d0c77e867ecc8f99ab748f37ca472480738a033ff8fcfda7ab718de762285aa0 Homepage: https://cran.r-project.org/package=PopED Description: CRAN Package 'PopED' (Population (and Individual) Optimal Experimental Design) Optimal experimental designs for both population and individual studies based on nonlinear mixed-effect models. Often this is based on a computation of the Fisher Information Matrix. This package was developed for pharmacometric problems, and examples and predefined models are available for these types of systems. The methods are described in Nyberg et al. (2012) , and Foracchia et al. (2004) . Package: r-cran-popepi Architecture: all Version: 0.4.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2681 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-epi, r-cran-survival Suggests: r-cran-covr, r-cran-knitr, r-cran-mstate, r-cran-relsurv, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-popepi_0.4.13-1.ca2004.1_all.deb Size: 1471704 MD5sum: d4aa908b276f794b9c8b45085154eeed SHA1: 91605b2eb925bd692be491b9b751ce71d8e63e73 SHA256: 3112749397a774097ac2b39d46e072ca1eb62972f55a6de386216ec47ee7a273 SHA512: 279565cf963747ea51c4b74eb9476891e883b975d7df5e9803dfd27bc0d563cef84f0728948aa00125311598df5863df0c8f78722831e2f150619199da049f5b Homepage: https://cran.r-project.org/package=popEpi Description: CRAN Package 'popEpi' (Functions for Epidemiological Analysis using Population Data) Enables computation of epidemiological statistics, including those where counts or mortality rates of the reference population are used. Currently supported: excess hazard models (Dickman, Sloggett, Hills, and Hakulinen (2012) ), rates, mean survival times, relative/net survival (in particular the Ederer II (Ederer and Heise (1959)) and Pohar Perme (Pohar Perme, Stare, and Esteve (2012) ) estimators), and standardized incidence and mortality ratios, all of which can be easily adjusted for by covariates such as age. Fast splitting and aggregation of 'Lexis' objects (from package 'Epi') and other computations achieved using 'data.table'. 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'PopGenHelpR' uses vcf, 'geno' (012), and csv files to generate output. Package: r-cran-popgenr Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-popgenr_0.2-1.ca2004.1_all.deb Size: 54376 MD5sum: 471d7520eff707788fe9c56c9c74d63c SHA1: e4117175b4d236c10bec1db64b2b6c6c2c08ad6c SHA256: cbb9d9b4c726ab36b5411e57f200ef1d19189476106786d4eb2a824370a20f12 SHA512: 5228b03fc2a6409854abba0301993ae36c81bc3a8323ea058513eb05abc93bdcf637bd8568414c33a739f0c7de7af4c21137f885fd03393a92ff5d83cff128b3 Homepage: https://cran.r-project.org/package=popgenr Description: CRAN Package 'popgenr' (Accompaniment to Population Genetics with R: An Introduction forLife Scientists) Provides several data sets and functions to accompany the book "Population Genetics with R: An Introduction for Life Scientists" (2021, ISBN:9780198829546). 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'PopVar' contains a set of functions that use phenotypic and genotypic data from a set of candidate parents to 1) predict the mean, genetic variance, and superior progeny value of all, or a defined set of pairwise bi-parental crosses, and 2) perform cross-validation to estimate genome-wide prediction accuracy of multiple statistical models. More details are available in Mohammadi, Tiede, and Smith (2015, ). A dataset 'think_barley.rda' is included for reference and examples. Package: r-cran-portalhacienda Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-forecast, r-cran-timetk, r-cran-lubridate, r-cran-xts, r-cran-httr, r-cran-tibble, r-cran-magrittr, r-cran-zoo, r-cran-curl, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-portalhacienda_0.1.7-1.ca2004.1_all.deb Size: 206684 MD5sum: aa7a428cd046543852f8f920cba9965d SHA1: e7a2a80faafff9e605df06d0284cf189a445aee9 SHA256: a1e74baefd7655034d3a9fa39aacec9b7a7c0ce48d34652fd631c80846997d87 SHA512: cf7a3f7aaf5c4c554e0af71633ba1ed4a99b4c8aeba00969ef75399ac1feb5726d0db42db08c7e33aa939f127a4092b32ad4769a08d64d0e831c5349903e07bd Homepage: https://cran.r-project.org/package=PortalHacienda Description: CRAN Package 'PortalHacienda' (Acceder Con R a Los Datos Del Portal De Hacienda) Obtener listado de datos, acceder y extender series del Portal de Datos de Hacienda.Las proyecciones se realizan con 'forecast', Hyndman RJ, Khandakar Y (2008) . Search, download and forecast time-series from the Ministry of Economy of Argentina. Forecasts are built with the 'forecast' package, Hyndman RJ, Khandakar Y (2008) . 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While most approaches and packages are rather complicated this one tries to simplify things and is agnostic regarding risk measures as well as optimization solvers. Some of the methods implemented are described by Konno and Yamazaki (1991) , Rockafellar and Uryasev (2001) and Markowitz (1952) . 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The method implemented in this package allows non-parametric inference to be regularized for small sample sizes, while also being more accurate than approximations such as variational Bayes. The concentration parameter is an effective sample size parameter, determining the faith we have in the model versus the data. When the concentration is low, the samples are close to the exact Bayesian logistic regression method; when the concentration is high, the samples are close to the simplified variational Bayes logistic regression. The method is described in full in the paper Lyddon, Walker, and Holmes (2018), "Nonparametric learning from Bayesian models with randomized objective functions" . Package: r-cran-postggir Architecture: all Version: 2.4.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1688 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-refund, r-cran-denseflmm, r-cran-dplyr, r-cran-xlsx, r-cran-survival, r-cran-tidyr, r-cran-zoo, r-cran-ineq, r-cran-cosinor, r-cran-cosinor2, r-cran-abind, r-cran-accelerometry, r-cran-actcr, r-cran-actfrag, r-cran-minpack.lm, r-cran-kableextra, r-cran-ggir Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-postggir_2.4.0.2-1.ca2004.1_all.deb Size: 1010848 MD5sum: 5318d34b516d95469b45392acca2a131 SHA1: ba6f4619e39d7921a983cf68768ff3c0071d72f3 SHA256: 5417c55daa33f9cebb81be001defcb49af39e77718e0c6671d6268d8fcaaf987 SHA512: 684a3d9aae7bfb34f308b03fad2b0dc006a79a02b27f956ca4e27bb8219d4eb257ec2391b321ec44364c722f320af2f5fd916d07c684d2cc2eedf4bbbf076e2c Homepage: https://cran.r-project.org/package=postGGIR Description: CRAN Package 'postGGIR' (Data Processing after Running 'GGIR' for Accelerometer Data) Generate all necessary R/Rmd/shell files for data processing after running 'GGIR' (v2.4.0) for accelerometer data. In part 1, all csv files in the GGIR output directory were read, transformed and then merged. In part 2, the GGIR output files were checked and summarized in one excel sheet. In part 3, the merged data was cleaned according to the number of valid hours on each night and the number of valid days for each subject. In part 4, the cleaned activity data was imputed by the average Euclidean norm minus one (ENMO) over all the valid days for each subject. Finally, a comprehensive report of data processing was created using Rmarkdown, and the report includes few exploratory plots and multiple commonly used features extracted from minute level actigraphy data. 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Note: This package is deprecated. For new projects, we recommend using the 'sf' package to interface with geodatabases. 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These objects can be used to store output from models fitted with Bayesian inference using 'JAGS', 'WinBUGS', 'OpenBUGS', 'NIMBLE', 'Stan', or even custom MCMC algorithms. Although the 'coda' R package provides some methods for these objects, it is somewhat limited in easily performing post-processing tasks for specific nodes. Models are ever increasing in their complexity and the number of tracked nodes, and oftentimes a user may wish to summarize/diagnose sampling behavior for only a small subset of nodes at a time for a particular question or figure. Thus, many 'postpack' functions support performing tasks on a subset of nodes, where the subset is specified with regular expressions. The functions in 'postpack' streamline the extraction, summarization, and diagnostics of specific monitored nodes after model fitting. 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Package: r-cran-povcalnetr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 387 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-stringr, r-cran-httr, r-cran-jsonlite, r-cran-readr, r-cran-tibble, r-cran-dplyr, r-cran-js, r-cran-tidyr, r-cran-naniar, r-cran-memoise Suggests: r-cran-testthat, r-cran-assertthat, r-cran-knitr, r-cran-rmarkdown, r-cran-forcats, r-cran-scales, r-cran-ggthemes, r-cran-ggplot2, r-cran-utf8, r-cran-httptest Filename: pool/dists/focal/main/r-cran-povcalnetr_0.1.1-1.ca2004.1_all.deb Size: 194476 MD5sum: 453048af06c93fb30843bf7db1fb3f62 SHA1: a55c9baf86981f53f199105457356d3a8d2f0cc6 SHA256: 7879652660490ca3e9ba2ebd62bf77fa136cdded61a92bad017183cdffd91375 SHA512: 0106ffa4b5d1e6ba8adfe4d3995288ef530c2af598d08e322742e0ffaf4b38a30cfbcfa7c09ed1e09a8080ecc5d34803f47a4c36e6f115d9b50a033ad92068b7 Homepage: https://cran.r-project.org/package=povcalnetR Description: CRAN Package 'povcalnetR' (Client for the 'Povcalnet' API) Provides an interface to compute poverty and inequality indicators for more than 160 countries and regions from the World Bank's database of household surveys. 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Package: r-cran-powerbal Architecture: all Version: 0.0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 284 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-scales, r-cran-phytools, r-cran-treebalance, r-cran-r.utils, r-cran-diversitree Suggests: r-cran-memoise Filename: pool/dists/focal/main/r-cran-powerbal_0.0.1.1-1.ca2004.1_all.deb Size: 255428 MD5sum: 8fc47dd425b66da5a4fe0151ad6c1291 SHA1: ff30ee0efe4ee082e59deedaf79d5608bc3d49d1 SHA256: de5fe1e23949859a50e84e12a439ec8209232916e72d9b8be4e580258a8002e3 SHA512: 27eca316cad17c2dcf13d4086bbc76a2fedb71b5a91196b28dd592f227002cebcc27b16edf2bcd11c1e8b1f449b9a4494df0f73ec1f5a2cf7cc9353ada356a9e Homepage: https://cran.r-project.org/package=poweRbal Description: CRAN Package 'poweRbal' (Phylogenetic Tree Models and the Power of Tree Shape Statistics) The first goal of this package is to provide a multitude of tree models, i.e., functions that generate rooted binary trees with a given number of leaves. 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The package can handle any type of outcomes (binary, continuous, count, ordinal, time-to-event) and any number of such endpoints. It allows users to calculate sample size with a given power or to calculate power with a given sample size for hypothesis testing based on win ratios, win odds, net benefit, or DOOR (desirability of outcome ranking) as treatment effect between two groups for hierarchical endpoints. The methods of this package are described further in the paper by Barnhart, H. X. et al. (2024, ). 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Package: r-cran-powerjoin Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-rlang, r-cran-tidyselect, r-cran-vctrs, r-cran-purrr, r-cran-tibble, r-cran-tidyr, r-cran-cli Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-powerjoin_0.1.0-1.ca2004.1_all.deb Size: 198840 MD5sum: f27b06f03feb92c28114aecd78e83681 SHA1: 51fd515edf07657066b10a6953dd664e8e3b477a SHA256: 68afdd19f9a55b98a2e6eed90b3ef3ac514d48bd9051f93595a8f7640f4604a0 SHA512: 2c250c0fcfdd3de79cb0a74481dd2a4813510f741fc6b53c245b234826031f6f4d5d81dcf09cff946d94e8d2211cda33b5428dcdaff791e573288f86ee280f8b Homepage: https://cran.r-project.org/package=powerjoin Description: CRAN Package 'powerjoin' (Extensions of 'dplyr' and 'fuzzyjoin' Join Functions) We extend 'dplyr' and 'fuzzyjoin' join functions with features to preprocess the data, apply various data checks, and deal with conflicting columns. Package: r-cran-powerlate Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-powerlate_0.1.2-1.ca2004.1_all.deb Size: 74600 MD5sum: 77095e264a496568371418b9a7ca7db2 SHA1: de2646ce14baf5c6941d05f5277079ea600a1464 SHA256: 697e44df89a5a0de377849ce1ec15ec8194a5eda5f5c9329b53a0b2d199b9baf SHA512: a2810cd7dd97201c94406835b911a07403916671fb2584f037e1cf06e112149df8660a8d5f7c7180a935f16dc348bf87efb32645f10d5b4f95bb9d1358c5c89e Homepage: https://cran.r-project.org/package=powerLATE Description: CRAN Package 'powerLATE' (Generalized Power Analysis for LATE) An implementation of the generalized power analysis for the local average treatment effect (LATE), proposed by Bansak (2020) . 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Package: r-cran-powerlaw Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3738 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pracma Suggests: r-cran-covr, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-powerlaw_1.0.0-1.ca2004.1_all.deb Size: 3492288 MD5sum: 122d698a927fd8cc17aba8e171f135d7 SHA1: b0451571bb62a633ad0ddd1f309429e54f75ff26 SHA256: a03ff471819e6052669020a39856743bcf337bb42ee578a530b779af33fc205c SHA512: 14e50d48c13fb5b8a3e00fa122900c24d13a989ba41c3b3ffadd9894deab4c9420c3f20f62545058b5a1bbae64c06085200c060e744307e829685eb06e04d1a5 Homepage: https://cran.r-project.org/package=poweRlaw Description: CRAN Package 'poweRlaw' (Analysis of Heavy Tailed Distributions) An implementation of maximum likelihood estimators for a variety of heavy tailed distributions, including both the discrete and continuous power law distributions. 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(2021) . The implementation takes the form of a three-step recursive algorithm designed to find an optimal sample size given a model specification and a performance measure of interest. It starts with a Monte Carlo simulation step for computing the performance measure and a statistic at various sample sizes selected from an initial sample size range. It continues with a monotone curve-fitting step for interpolating the statistic across the entire sample size range. The final step employs stratified bootstrapping to quantify the uncertainty around the fitted curve. Package: r-cran-powermediation Architecture: all Version: 0.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 243 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-powermediation_0.3.4-1.ca2004.1_all.deb Size: 202304 MD5sum: 4398b6a2ae8eea5528e048ae55235bbb SHA1: f7c338f235fd90ef60b21168b450f2679961f4e4 SHA256: 025d104fe3ae96c6e059ec0847ef86b74b5b36050cf53979ba6632f66c33515c SHA512: 2368c3c851732cc88a019458547e6e64b0ed4b0ff5ba60aed02a32ecc876c5a61f1ca0496fb37b43574dd2a1e79ef836f060fe19fc9ac21c19dc02a52bb97b86 Homepage: https://cran.r-project.org/package=powerMediation Description: CRAN Package 'powerMediation' (Power/Sample Size Calculation for Mediation Analysis) Functions to calculate power and sample size for testing (1) mediation effects; (2) the slope in a simple linear regression; (3) odds ratio in a simple logistic regression; (4) mean change for longitudinal study with 2 time points; (5) interaction effect in 2-way ANOVA; and (6) the slope in a simple Poisson regression. Package: r-cran-powernlsem Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 881 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-crayon, r-cran-lavaan, r-cran-mvtnorm, r-cran-numderiv, r-cran-pbapply, r-cran-rlang, r-cran-stringr Suggests: r-cran-knitr, r-cran-mplusautomation, r-cran-rmarkdown, r-cran-semtools, r-cran-simsem Filename: pool/dists/focal/main/r-cran-powernlsem_0.1.2-1.ca2004.1_all.deb Size: 642524 MD5sum: b240993df7872acff75530e7b77ef97e SHA1: 73442d0d25e8d933934f4267c65a1baa69615462 SHA256: 12ba2fbbbbad06f1f69f6aa1808c25eaa287b746e3639b3a9fd9dea5b104287d SHA512: 219480c1951e449a6470db7f6adb587ba1678b6b82e1dae74d0e77ea5e8acbc1a713b6c925ac24507a9b9648a5565c3574a40a8384069555dcf02ae830e6cc0e Homepage: https://cran.r-project.org/package=powerNLSEM Description: CRAN Package 'powerNLSEM' (Simulation-Based Power Estimation (MSPE) for Nonlinear SEM) Model-implied simulation-based power estimation (MSPE) for nonlinear (and linear) SEM, path analysis and regression analysis. A theoretical framework is used to approximate the relation between power and sample size for given type I error rates and effect sizes. The package offers an adaptive search algorithm to find the optimal N for given effect sizes and type I error rates. Plots can be used to visualize the power relation to N for different parameters of interest (POI). Theoretical justifications are given in Irmer et al. (2024a) and detailed description are given in Irmer et al. (2024b) . Package: r-cran-powernormal Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-powernormal_1.2.0-1.ca2004.1_all.deb Size: 34292 MD5sum: 5e3f6e0344ed48f16511cdf12b119c58 SHA1: 10ef962a001e6b642d2caa8e6bd266845155043f SHA256: d3cb3948cea18ebf45485039efa001db1922fcdba81e9c66fcb6b019732331dc SHA512: e25c6930194369711f4a85bb53cb0bf8f83b74dab79a01ee8adea948dd19ce751bcce4e4f77c781872ffbc7832fef470da7f774311307b53da68b95f98a3983f Homepage: https://cran.r-project.org/package=PowerNormal Description: CRAN Package 'PowerNormal' (Power Normal Distribution) Miscellaneous functions for a descriptive analysis and initial Bayesian and classical inference for the power parameter of the the Power Normal (PN) distribution. This miscellaneous will be extend for more distributions into the power family and the three-parameter model. Package: r-cran-powerpkg Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-powerpkg_1.6-1.ca2004.1_all.deb Size: 53512 MD5sum: 94e7d85ffe0f5f1d3ae2b6288643c6c8 SHA1: 226ea75ccacf694d5e9d0cfec2d6bb4472dceaf3 SHA256: fb3c99bffe03800202a49e9e9e58a06bb0b1c8956b2518978422ee8a5873c1a9 SHA512: a9f2a72ec74241a8cfb987e745d83eb31278737d65db7b32437abd31a1cec28e2928dd2acd375477a537197db958a81200bccf5a8e8d4b9512580e4284caefe7 Homepage: https://cran.r-project.org/package=powerpkg Description: CRAN Package 'powerpkg' (Power Analyses for the Affected Sib Pair and the TDT Design) There are two main functions: (1) To estimate the power of testing for linkage using an affected sib pair design, as a function of the recurrence risk ratios. We will use analytical power formulae as implemented in R. These are based on a Mathematica notebook created by Martin Farrall. (2) To examine how the power of the transmission disequilibrium test (TDT) depends on the disease allele frequency, the marker allele frequency, the strength of the linkage disequilibrium, and the magnitude of the genetic effect. We will use an R program that implements the power formulae of Abel and Muller-Myhsok (1998). These formulae allow one to quickly compute power of the TDT approach under a variety of different conditions. This R program was modeled on Martin Farrall's Mathematica notebook. Package: r-cran-powerpls Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 234 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-compositions, r-cran-fksum, r-cran-nipals, r-cran-mass, r-cran-foreach, r-cran-simukde, r-cran-ks, r-cran-mvtnorm, r-cran-proc, r-cran-caret Filename: pool/dists/focal/main/r-cran-powerpls_0.2.1-1.ca2004.1_all.deb Size: 202268 MD5sum: 282d07f32210ca28c299a7714c2aa00f SHA1: 0c81aab94161d6f0f9e5ae5680db33e2e22fceef SHA256: de12c7d8c971f5b4b63c5e00f695d117b67120deaa7345db1b13a102139b03b4 SHA512: 586abd1ee49722495f41418c58cea9ab81d1eb95fc16a43d86bffc1af4e2709439e14a83bf7bc85138c8432d8f73f3c80de42c8d7bc7251a30c3d608ced8be49 Homepage: https://cran.r-project.org/package=powerPLS Description: CRAN Package 'powerPLS' (Power Analysis for PLS Classification) It estimates power and sample size for Partial Least Squares-based methods described in Andreella, et al., (2024), . Package: r-cran-powerplus Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-complexplus, r-cran-phontools, r-cran-matrix, r-cran-expm, r-cran-mass Filename: pool/dists/focal/main/r-cran-powerplus_3.1-1.ca2004.1_all.deb Size: 21632 MD5sum: 8b814190cd61ff16feb9563f89f5f2fd SHA1: 5ccba34e7cb85d517f763834e04e321c4bf7518f SHA256: 4dd742344220d3bb39b3b33919683534c7265caf23f89c0dfb4f55f7de6a674f SHA512: 5d6cda4a1316f99484af9dc7d1e9e5b17c890b759da1668433101032303998f0666eaefaac7237e508c6bb824a87813b74dd9fe5a504fa210a9157c6dce0f88f Homepage: https://cran.r-project.org/package=powerplus Description: CRAN Package 'powerplus' (Exponentiation Operations) Computation of matrix and scalar exponentiation. Package: r-cran-powersdi Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 608 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lmom, r-cran-lubridate, r-cran-nasapower Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vcr, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-powersdi_1.0.0-1.ca2004.1_all.deb Size: 480244 MD5sum: 0de705de6dc100fa52f03b9611d05de7 SHA1: c348d8a97c9e45c45334f2b3c752e04bcdfbbef4 SHA256: 84e16f0a160451e254f28b1f2ddbb317007e38a16ce3802eec81e37387fbc667 SHA512: 2d1b8d3fd1c2ab3170558dddbab56e87b2cbba5b5b8cfbf2e3eabc7096c2f9aadbf2250c4c1e4fee82e40dd428f6e81b474ca9520a0a0e26d12ca11b64667617 Homepage: https://cran.r-project.org/package=PowerSDI Description: CRAN Package 'PowerSDI' (Calculate Standardised Drought Indices Using NASA POWER Data) A set of functions designed to calculate the standardised precipitation and standardised precipitation evapotranspiration indices using NASA POWER data as described in Blain et al. (2023) . These indices are calculated using a reference data source. The functions verify if the indices' estimates meet the assumption of normality and how well NASA POWER estimates represent real-world data. Indices are calculated in a routine mode. Potential evapotranspiration amounts and the difference between rainfall and potential evapotranspiration are also calculated. The functions adopt a basic time scale that splits each month into four periods. Days 1 to 7, days 8 to 14, days 15 to 21, and days 22 to 28, 29, 30, or 31, where 'TS=4' corresponds to a 1-month length moving window (calculated 4 times per month) and 'TS=48' corresponds to a 12-month length moving window (calculated 4 times per month). Package: r-cran-powersurvepi Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 240 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-survival, r-cran-pracma Filename: pool/dists/focal/main/r-cran-powersurvepi_0.1.5-1.ca2004.1_all.deb Size: 202608 MD5sum: ee3b5bc2b165f597b33ccc1ac446691b SHA1: d6f6f8583508829547220c89d7500834d22fa7a7 SHA256: 6f68adaab9796285b0fa308f9b45766b6d59129ec9f24e00ee605e1c4fcbf3d7 SHA512: 9c6dad0e6e0981889c0b60f05a0224e050e87eb5f5e4236cd85c65e92a217132b65cae538cfaa01f9a078cee0cfb67e41d1d2b91f817bfebb55a80ea63df9f31 Homepage: https://cran.r-project.org/package=powerSurvEpi Description: CRAN Package 'powerSurvEpi' (Power and Sample Size Calculation for Survival Analysis ofEpidemiological Studies) Functions to calculate power and sample size for testing main effect or interaction effect in the survival analysis of epidemiological studies (non-randomized studies), taking into account the correlation between the covariate of the interest and other covariates. Some calculations also take into account the competing risks and stratified analysis. This package also includes a set of functions to calculate power and sample size for testing main effect in the survival analysis of randomized clinical trials and conditional logistic regression for nested case-control study. Package: r-cran-powertools Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 374 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mvtnorm, r-cran-powertost, r-cran-hmisc, r-cran-knitr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-powertools_0.1.3-1.ca2004.1_all.deb Size: 334736 MD5sum: 044066dddc4124d6c533a813dcc28e60 SHA1: 9090a033db6f73ce8cedc7d0467bb31c45ac0bf2 SHA256: a87297ac7458dce03a559bb665840ebdd13a9158e3d7c5e7f43bf6f49a34b304 SHA512: 643c9564a6cd5b838af808b030ca9b3e77e584adfa9bda966554851a3d4608d79135882f5118ad0ff5ab9983aeccc1b5b6947e1a12e0d2551cbd6dca456a1517 Homepage: https://cran.r-project.org/package=powertools Description: CRAN Package 'powertools' (Power and Sample Size Tools) Power and sample size calculations for a variety of study designs and outcomes. Methods include t tests, ANOVA (including tests for interactions, simple effects and contrasts), proportions, categorical data (chi-square tests and proportional odds), linear, logistic and Poisson regression, alternative and coprimary endpoints, power for confidence intervals, correlation coefficient tests, cluster randomized trials, individually randomized group treatment trials, multisite trials, treatment-by-covariate interaction effects and nonparametric tests of location. Utilities are provided for computing various effect sizes. Companion package to the book "Power and Sample Size in R", Crespi (2025, ISBN:9781138591622). Further resources available at . Package: r-cran-powertost Architecture: all Version: 1.5-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2341 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mvtnorm, r-cran-cubature Suggests: r-cran-crossdes, r-cran-knitr, r-cran-rmarkdown, r-cran-tufte, r-cran-emmeans Filename: pool/dists/focal/main/r-cran-powertost_1.5-6-1.ca2004.1_all.deb Size: 1654680 MD5sum: b0688fd24c449c381490efe584dd72a3 SHA1: 9c24f3f27ec6e96d6e49fabe2c29cf8b65c2feb8 SHA256: fcc3866ba2a734a49b6b3964405908e462681bf885d54a780f66bcc112716ddf SHA512: 9e594ac5ed549bae5464e5e183697a44f8bac6ad0674668437d510bb43a42f899fe49ac22eee72e51d0898fb6606172bb0e63d72d688bcdec70f906d36e5771b Homepage: https://cran.r-project.org/package=PowerTOST Description: CRAN Package 'PowerTOST' (Power and Sample Size for (Bio)Equivalence Studies) Contains functions to calculate power and sample size for various study designs used in bioequivalence studies. Use known.designs() to see the designs supported. Power and sample size can be obtained based on different methods, amongst them prominently the TOST procedure (two one-sided t-tests). See README and NEWS for further information. Package: r-cran-powerupr Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 596 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-powerupr_1.1.0-1.ca2004.1_all.deb Size: 413780 MD5sum: d7ce3018586d0e7be5f47fc1b92bf47c SHA1: a812e7dba3a38d8a27143ccbb6b267f414f5e3ea SHA256: caf72e7d457ec2e1994f364033f6a4e7564f6233abdff1ac7bcba606c51c250c SHA512: ae79facc6b3e2200876696d2aa4d2d16956c079f85e031bd6aea026ab33ae778b5b43b2a65aa216bbf4f5151c19364c1e33ab81b138039a175955e044618e804 Homepage: https://cran.r-project.org/package=PowerUpR Description: CRAN Package 'PowerUpR' (Power Analysis Tools for Multilevel Randomized Experiments) Includes tools to calculate statistical power, minimum detectable effect size (MDES), MDES difference (MDESD), and minimum required sample size for various multilevel randomized experiments (MRE) with continuous outcomes. Accomodates 14 types of MRE designs to detect main treatment effect, seven types of MRE designs to detect moderated treatment effect (2-1-1, 2-1-2, 2-2-1, 2-2-2, 3-3-1, 3-3-2, and 3-3-3 designs; - - ), five types of MRE designs to detect mediated treatment effects (2-1-1, 2-2-1, 3-1-1, 3-2-1, and 3-3-1 designs; - - ), four types of partially nested (PN) design to detect main treatment effect, and three types of PN designs to detect mediated treatment effects (2/1, 3/1, 3/2; / ). See 'PowerUp!' Excel series at . Package: r-cran-powriclpm Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 428 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-future.apply, r-cran-lavaan, r-cran-lifecycle, r-cran-progressr, r-cran-rlang, r-cran-ggplot2, r-cran-future Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-powriclpm_0.2.1-1.ca2004.1_all.deb Size: 236888 MD5sum: a68b4afa6faa93f3cc0524af3a2b79c6 SHA1: f450c292abbfcde92ca4687f769ba5a1e46b6274 SHA256: eb95ee419bba3f1ca8a00f028e99a69b6ba39d8c354c7377d43a9e5272ef8266 SHA512: d0f92963601f1bcb2d6c9a5f39b72db232644bc3ce4e9a6dc5c61329262e6b8d8828fab40225c578274754cdafbdda9784df9ef7e5acb5999890d5663b4c0e39 Homepage: https://cran.r-project.org/package=powRICLPM Description: CRAN Package 'powRICLPM' (Perform Power Analysis for the RI-CLPM and STARTS Model) Perform user-friendly power analyses for the random intercept cross-lagged panel model (RI-CLPM) and the bivariate stable trait autoregressive trait state (STARTS) model. The strategy as proposed by Mulder (2023) is implemented. Extensions include the use of parameter constraints over time, bounded estimation, generation of data with skewness and kurtosis, and the option to setup the power analysis for Mplus. Package: r-cran-ppbigdata Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-datanugget, r-cran-mass, r-cran-dplyr, r-cran-magrittr, r-cran-weights, r-cran-rstiefel, r-cran-gtools, r-cran-tourr, r-cran-mclust Filename: pool/dists/focal/main/r-cran-ppbigdata_1.0.0-1.ca2004.1_all.deb Size: 137364 MD5sum: 44e7f106681c08cde3e17bdb7c0251fb SHA1: 502ecd1fded36fe697f9959dc8fd854c57bf92c2 SHA256: 14199646955129ee511fec1499c3af91fc0f2dd4456d402d2e99287fd0272301 SHA512: 21ea72dbd785d56cda8c811dd2dcb396641fd3dbc6d65e2f21763e5d773966bf70ca0bd8f51cf24b3c05fd7fd0b092b8faadb24c32927bc88e945edd49e1a93c Homepage: https://cran.r-project.org/package=PPbigdata Description: CRAN Package 'PPbigdata' (Projection Pursuit for Big Data Based on Data Nuggets) Perform 1-dim/2-dim projection pursuit, grand tour and guided tour for big data based on data nuggets. Reference papers: [1] Beavers et al., (2024) . [2] Duan, Y., Cabrera, J., & Emir, B. (2023). "A New Projection Pursuit Index for Big Data." . Package: r-cran-ppcdt Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-ppcdt_0.2.0-1.ca2004.1_all.deb Size: 18436 MD5sum: 49832f834e0c95cf932829a9ab1db25f SHA1: 07ef07d0efc9095ec23f12f695f090ec87e314d8 SHA256: 0398a35e742c4eaa43a0d60a1137c4111c63bf9a901787977d0154155f87177b SHA512: f99e32cb6fa0be46624f74d3efb2dc9bcf1dda25113538fe5e189291cdca89a553cf93228f4bdcfb311c1205d1c2ffd017757ff350fcd1b8629e42fba04f7cf0 Homepage: https://cran.r-project.org/package=PPCDT Description: CRAN Package 'PPCDT' (An Optimal Subset Selection for Distributed Hypothesis Testing) In the era of big data, data redundancy and distributed characteristics present novel challenges to data analysis. This package introduces a method for estimating optimal subsets of redundant distributed data, based on PPCDT (Conjunction of Power and P-value in Distributed Settings). Leveraging PPC technology, this approach can efficiently extract valuable information from redundant distributed data and determine the optimal subset. Experimental results demonstrate that this method not only enhances data quality and utilization efficiency but also assesses its performance effectively. The philosophy of the package is described in Guo G. (2020) . 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The clustering algorithms use optimal hyperplane separators based on minimum density, Pavlidis et. al (2016) ; minimum normalised cut, Hofmeyr (2017) ; and maximum variance ratio clusterability, Hofmeyr and Pavlidis (2015) . 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Package: r-cran-ppcor Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-ppcor_1.1-1.ca2004.1_all.deb Size: 28444 MD5sum: d286fdb90bc3d42bb7f0c3b1b9a68e0c SHA1: fe17e87428a4fba755c09885fe8a87d77fc0bf89 SHA256: 4e827893805bcd70709c4ed7f521497ed2822f98fc1f422e986d307825c64484 SHA512: 9027f30b91da5c1ce435df7716e1d76badae14eb389dd3a5e4d5f20e0aa9506b3d4b714cba9edb4c7d57149ef2729ea39372bc5fa4d92aacae3aacc7a97dc29a Homepage: https://cran.r-project.org/package=ppcor Description: CRAN Package 'ppcor' (Partial and Semi-Partial (Part) Correlation) Calculates partial and semi-partial (part) correlations along with p-value. 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It uses data from R package 'PakPC2017'. Package: r-cran-ppdiag Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 458 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-ppdiag_0.1.1-1.ca2004.1_all.deb Size: 262976 MD5sum: e8a824fed91649b405f7c90b2b8432c4 SHA1: 88bc5e8ab7136772c28bc6275c979070b862c291 SHA256: 34189117cd257fee7f9310e3141a7236c348ed9e06cdba960951e658851c1af1 SHA512: f8694f4a9ababe36d0435c8cb414f6330b9a6f32292bf1ff6a31dd646f5f8c84898c86aa96d179bdd5e0260ec1e25bd2811bc15ef9f8de181277acc6288e552f Homepage: https://cran.r-project.org/package=ppdiag Description: CRAN Package 'ppdiag' (Diagnosis and Visualizations Tools for Temporal Point Processes) A suite of diagnostic tools for univariate point processes. This includes tools for simulating and fitting both common and more complex temporal point processes. We also include functions to visualise these point processes and collect existing diagnostic tools of Brown et al. (2002) and Wu et al. (2021) , which can be used to assess the fit of a chosen point process model. Package: r-cran-ppendemic Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3196 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-assertthat, r-cran-dplyr, r-cran-fuzzyjoin, r-cran-memoise, r-cran-progress, r-cran-purrr, r-cran-readr, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ppendemic_0.1.9-1.ca2004.1_all.deb Size: 3052508 MD5sum: ad72e952c445459bafff45c0b19932b1 SHA1: 98b7a9161bb0cbc3c12228b981bafd11a7585ec4 SHA256: a2c346cb9922ca51fe894e0921bfcecee46e831fb7f543d40759e03dc57aea4a SHA512: acf56828986906d30983451ed40a516132728ae3f1eac4c56567a061c700e9ddaf17e23d00f56e822fae55b564ed7bd92955d177d146430517d1b24aed503dea Homepage: https://cran.r-project.org/package=ppendemic Description: CRAN Package 'ppendemic' (A Glimpse at the Diversity of Peru's Endemic Plants) Introducing a novel and updated database showcasing Peru's endemic plants. This meticulously compiled and revised botanical collection encompasses a remarkable assemblage of over 7,898 distinct species. The data for this resource was sourced from the work of Govaerts, R., Nic Lughadha, E., Black, N. et al., titled 'The World Checklist of Vascular Plants: A continuously updated resource for exploring global plant diversity', published in Sci Data 8, 215 (2021) . Package: r-cran-ppgam Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-mgcv, r-cran-evgam Filename: pool/dists/focal/main/r-cran-ppgam_1.0.2-1.ca2004.1_all.deb Size: 129612 MD5sum: 7eb0e77a1de7c466331a14b384953396 SHA1: 62511aa9f7f5f5be7df7ed6593f03d2f54c5ad3c SHA256: 4ea83867c72a846c6de489db7896072183075c5b05e23ed6f8160d63b151b66c SHA512: 10d121dadd005eb4a3db71e2cc18c732fd4896c1ad070265ee551b75e6bd04e6bc58d196f09d1294accee36e0b4c0cf7b5b9d1af05b851a6cefd648cbcfd805a Homepage: https://cran.r-project.org/package=ppgam Description: CRAN Package 'ppgam' (Generalised Additive Point Process Models) Methods for fitting point processes with parameters of generalised additive model (GAM) form are provided. For an introduction to point processes see Cox, D.R & Isham, V. (Point Processes, 1980, CRC Press), GAMs see Wood, S.N. (2017) , and the fitting approach see Wood, S.N., Pya, N. & Safken, B. (2016) . Package: r-cran-ppgm Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4120 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sp, r-cran-sf, r-cran-ape, r-cran-fields, r-cran-geiger, r-cran-gifski, r-cran-phangorn, r-cran-phytools, r-cran-stringi, r-cran-doparallel, r-cran-foreach Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ppgm_1.1-1.ca2004.1_all.deb Size: 3616084 MD5sum: 4085a0abe52df97a580bd3224c5e4b86 SHA1: a9b79e1bf85d4af9e5e1adff3f5e5003cde60f73 SHA256: 63db8953854b3aec69e04ebe05d95b4debb5b29255da8792689c45a271399a13 SHA512: 1f5fa5e2f365586b9b7bf90a0c1706fc441f1ee281226ec083ab988d7a135196c784ba9d524c3db9822edd325b6211bc352f46d6b1d6c52da3057ac82a44e537 Homepage: https://cran.r-project.org/package=ppgm Description: CRAN Package 'ppgm' (PaleoPhyloGeographic Modeling of Climate Niches and SpeciesDistributions) Reconstruction of paleoclimate niches using phylogenetic comparative methods and projection reconstructed niches onto paleoclimate maps. The user can specify various models of trait evolution or estimate the best fit model, include fossils, use one or multiple phylogenies for inference, and make animations of shifting suitable habitat through time. This model was first used in Lawing and Polly (2011), and further implemented in Lawing et al (2016) and Rivera et al (2020). Lawing and Polly (2011) "Pleistocene climate, phylogeny and climate envelope models: An integrative approach to better understand species' response to climate change" Lawing et al (2016) "Including fossils in phylogenetic climate reconstructions: A deep time perspective on the climatic niche evolution and diversification of spiny lizards (Sceloporus)" Rivera et al (2020) "Reconstructing historical shifts in suitable habitat of Sceloporus lineages using phylogenetic niche modelling.". Package: r-cran-ppitables Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3210 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat, r-cran-covr, r-cran-spelling, r-cran-stringr, r-cran-readxl, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ppitables_0.6.0-1.ca2004.1_all.deb Size: 3132996 MD5sum: edcad8a67e93e2f1926fe950370780bb SHA1: 51ae86f575a51c187fbb0950e59dfe9db1423771 SHA256: add39431221f8870bc155c46873dea0316a5f697f6c2dcc979cc2e8e2b96c437 SHA512: 9d9311a206e6c90ebe8e54975d6b6f02e6f58a61fc484ce612cbd7ea713a2305d97e6ba47440ef90bbcc6216cd931cff6aab3147da8f45af2503c03de0836442 Homepage: https://cran.r-project.org/package=ppitables Description: CRAN Package 'ppitables' (Lookup Tables to Generate Poverty Likelihoods and Rates usingthe Poverty Probability Index (PPI)) The Poverty Probability Index (PPI) is a poverty measurement tool for organizations and businesses with a mission to serve the poor. The PPI is statistically-sound, yet simple to use: the answers to 10 questions about a household's characteristics and asset ownership are scored to compute the likelihood that the household is living below the poverty line - or above by only a narrow margin. This package contains country-specific lookup data tables used as reference to determine the poverty likelihood of a household based on their score from the country-specific PPI questionnaire. These lookup tables have been extracted from documentation of the PPI found at and managed by Innovations for Poverty Action . Package: r-cran-pplasso Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 363 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-genlasso, r-cran-ggplot2, r-cran-cvcovest, r-cran-glmnet, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pplasso_2.0-1.ca2004.1_all.deb Size: 321164 MD5sum: d5553fb9b862ce9b86036a129ec56b7c SHA1: d3230e71c57eb108f1e2840688981d677f08ef81 SHA256: b94d25bb04637bd6ea1cecfd3f6361c0e3ba6fb442713fc2142a96f3ae45cacd SHA512: 044be7c2b64326d2fdb2d584cf6139a9e44a1497d1f05f62332ff38474b1bce85173dcfac0eab83073e4dd239c8643c222409b1dc3c047aff6ca8c590d23031d Homepage: https://cran.r-project.org/package=PPLasso Description: CRAN Package 'PPLasso' (Prognostic Predictive Lasso for Biomarker Selection) We provide new tools for the identification of prognostic and predictive biomarkers. For further details we refer the reader to the paper: Zhu et al. Identification of prognostic and predictive biomarkers in high-dimensional data with PPLasso. BMC Bioinformatics. 2023 Jan 23;24(1):25. Package: r-cran-pplot Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-mbess Filename: pool/dists/focal/main/r-cran-pplot_0.9-1.ca2004.1_all.deb Size: 26632 MD5sum: 7a52b092d849df01c6825a1ae2d6ea1a SHA1: 22b00cb1ed9ad39220cf9b63dbf8fdbe78ece256 SHA256: c9c3fb0a2e0b6816301fe102ada07c8ce59cf06987eca44504a1459a55166f70 SHA512: dc02fb7759b7cb21651a6ea4967b4d4f0e250ead3cd3f91971bf8643f179a7fee8eb53703c1c20ace950f800b75dd8ec5d0ae7d2aae000b5ff488c0c1e8b13f3 Homepage: https://cran.r-project.org/package=pplot Description: CRAN Package 'pplot' (Chronological and Ordered p-Plots for Empirical Data) Generates chronological and ordered p-plots for data vectors or vectors of p-values. The p-plot visualizes the evolution of the p-value of a significance test across the sampled data. It allows for assessing the consistency of the observed effects, for detecting the presence of potential moderator variables, and for estimating the influence of outlier values on the observed results. For non-significant findings, it can diagnose patterns indicative of underpowered study designs. The p-plot can thus either back the binary accept-vs-reject decision of common null-hypothesis significance tests, or it can qualify this decision and stimulate additional empirical work to arrive at more robust and replicable statistical inferences. Package: r-cran-ppmf Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-censable, r-cran-dplyr, r-cran-magrittr, r-cran-readr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-zip Suggests: r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-ppmf_0.1.3-1.ca2004.1_all.deb Size: 79324 MD5sum: a97cd377fafc9fe6cd106640e323834e SHA1: dd0d8edfe57c68955859a3abb74d4e1f797c99d7 SHA256: ad18019560d5dbe53187dfee633e47557c08dd81df1d2008a7b0f2ffb197f1d0 SHA512: 47a123f4c4082bef63b57bcbf5a8837f4050d9f1b4a02371b1b0b6cebf79c545386d56639db5b71ae24a03cca1884ea0cbf98b05a196cf9f599c1e70b01aafcd Homepage: https://cran.r-project.org/package=ppmf Description: CRAN Package 'ppmf' (Read Census Privacy Protected Microdata Files) Implements data processing described in to align modern differentially private data with formatting of older US Census data releases. The primary goal is to read in Census Privacy Protected Microdata Files data in a reproducible way. This includes tools for aggregating to relevant levels of geography by creating geographic identifiers which match the US Census Bureau's numbering. Additionally, there are tools for grouping race numeric identifiers into categories, consistent with OMB (Office of Management and Budget) classifications. Functions exist for downloading and linking to existing sources of privacy protected microdata. Package: r-cran-ppmhr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nleqslv Filename: pool/dists/focal/main/r-cran-ppmhr_1.0-1.ca2004.1_all.deb Size: 147208 MD5sum: 70706d81b15cba5be74181e71ee5cbd7 SHA1: 95606f35296c778aff715477d444000546165496 SHA256: 25be58d3397c6ba4f8d5a89c509a9aefcf1cfb4790d78c9a04f9a85ab75d3bd4 SHA512: 3882ff30d76871facb071d43cc4397915824bf09441dd91faa86b3b72a94a50b596fd9d0c38ab7ab9c79270c57f04e7fb316643e50efcfeeb623b3375e4154a1 Homepage: https://cran.r-project.org/package=ppmHR Description: CRAN Package 'ppmHR' (Privacy-Protecting Hazard Ratio Estimation in Distributed DataNetworks) An implementation of the one-step privacy-protecting method for estimating the overall and site-specific hazard ratios using inverse probability weighted Cox models in distributed data network studies, as proposed by Shu, Yoshida, Fireman, and Toh (2019) . This method only requires sharing of summary-level riskset tables instead of individual-level data. Both the conventional inverse probability weights and the stabilized weights are implemented. Package: r-cran-ppmlasso Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 569 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-spatstat, r-cran-data.table, r-cran-lattice, r-cran-plyr, r-cran-spatstat.explore, r-cran-spatstat.model, r-cran-spatstat.geom Filename: pool/dists/focal/main/r-cran-ppmlasso_1.4-1.ca2004.1_all.deb Size: 511388 MD5sum: 7045a246fa17e9642037fa00bc3f8dbc SHA1: a1731461f0cf4d2d5557331850125184a3c2df48 SHA256: 86cc3f32ece6973cb8b702fe1440bb8a7446ddd7e982ece9ab175d69a9510a8b SHA512: 30e35c777619c903f445cb4c8a460b715420892f032dffc644fa2f880e74bc850c0b27451d746b1a28220346552f19219cbbbae865350dcfc68be96cbb47551e Homepage: https://cran.r-project.org/package=ppmlasso Description: CRAN Package 'ppmlasso' (Point Process Models with LASSO-Type Penalties) Toolkit for fitting point process models with sequences of LASSO penalties ("regularisation paths"), as described in Renner, I.W. and Warton, D.I. (2013) . Regularisation paths of Poisson point process models or area-interaction models can be fitted with LASSO, adaptive LASSO or elastic net penalties. A number of criteria are available to judge the bias-variance tradeoff. Package: r-cran-ppqplan Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 12354 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plotly Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-ppqplan_1.1.0-1.ca2004.1_all.deb Size: 1927460 MD5sum: fa46e3503ad07f0f32e401f723e4901e SHA1: a395a59ad10fd4625854d955e49d3cdba2e1b1b1 SHA256: 7309e498158fc7647d86d729db7b3d70b515975b9887c8cf27e114a64b580634 SHA512: a3621fd2eefeba8447c86eec15cb011e40c02f69d456c9819011610501383176b1ac90d54fa28808c9bd071df7eb17897b926ddeca59fea75751455e6c7179c8 Homepage: https://cran.r-project.org/package=PPQplan Description: CRAN Package 'PPQplan' (Process Performance Qualification (PPQ) Plans in Chemistry,Manufacturing and Controls (CMC) Statistical Analysis) Assessment for statistically-based PPQ sampling plan, including calculating the passing probability, optimizing the baseline and high performance cutoff points, visualizing the PPQ plan and power dynamically. The analytical idea is based on the simulation methods from the textbook Burdick, R. K., LeBlond, D. J., Pfahler, L. B., Quiroz, J., Sidor, L., Vukovinsky, K., & Zhang, L. (2017). Statistical Methods for CMC Applications. In Statistical Applications for Chemistry, Manufacturing and Controls (CMC) in the Pharmaceutical Industry (pp. 227-250). Springer, Cham. Package: r-cran-pprank Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pprank_0.1.1-1.ca2004.1_all.deb Size: 17052 MD5sum: 6be860539ab8abe862a74e74b86cca9c SHA1: f59d214e9e9301a4d7a625560b26abe4135b91b8 SHA256: a9773272ea69049e1f09b3582c6fe91532ea3e31d10e13f1f397a8d682f8d193 SHA512: a1b067265c830b2cb12a4c165ff10774ade76ab096676218433307806e13a0678cb4edd3f4d5ccf1d18d48922ad2cfc590b24bdc600903a91c2e67e5088c7533 Homepage: https://cran.r-project.org/package=ppRank Description: CRAN Package 'ppRank' (Classification of Algorithms) Implements the Bi-objective Lexicographical Classification method and Performance Assessment Ratio at 10% metric for algorithm classification. Constructs matrices representing algorithm performance under multiple criteria, facilitating decision-making in algorithm selection and evaluation. 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Package: r-cran-pps Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pps_1.0-1.ca2004.1_all.deb Size: 202656 MD5sum: 3c5348b9130c459f246eb25d10260a32 SHA1: 2ef7b714708571306bd31661ca3790c8351426bc SHA256: b807286115ad3ef5eb196823c592cebeb68c86267e71776fabee0d183d9cbf3d SHA512: 85d56b6e5e99442a8ea18c29bedaeff4dc858a49b64f020b86d7d5eaf6070b31792eb40955a9086ca5a3b0994a7f8fb16923335f7bf02763c5f97befc60e037f Homepage: https://cran.r-project.org/package=pps Description: CRAN Package 'pps' (PPS Sampling) Functions to select samples using PPS (probability proportional to size) sampling. The package also includes a function for stratified simple random sampling, a function to compute joint inclusion probabilities for Sampford's method of PPS sampling, and a few utility functions. The user's guide pps-ug.pdf is included in the .../pps/doc directory. The methods are described in standard survey sampling theory books such as Cochran's "Sampling Techniques"; see the user's guide for references. Package: r-cran-ppsbm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 239 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rfast, r-cran-clue, r-cran-gtools Filename: pool/dists/focal/main/r-cran-ppsbm_1.0.0-1.ca2004.1_all.deb Size: 200812 MD5sum: 1d4e240175a8282588dc93e0c63983ee SHA1: 91f3288c8e2b3a694a0a8ea7dc95b0e26f1d7723 SHA256: 938e871d3b29e0e1f5ca18546528cdaf45da1cf507bbc8525a82e596edde9f55 SHA512: 28af4f5adab9ba21db9404522efea302dac16f0455c5611ad561c917600a64c4b06183917ac7b1193d3d97c69046c61f4407a2670b705b094cb75b0962cfc83d Homepage: https://cran.r-project.org/package=ppsbm Description: CRAN Package 'ppsbm' (Clustering in Longitudinal Networks) Stochastic block model used for dynamic graphs represented by Poisson processes. To model recurrent interaction events in continuous time, an extension of the stochastic block model is proposed where every individual belongs to a latent group and interactions between two individuals follow a conditional inhomogeneous Poisson process with intensity driven by the individuals’ latent groups. The model is shown to be identifiable and its estimation is based on a semiparametric variational expectation-maximization algorithm. Two versions of the method are developed, using either a nonparametric histogram approach (with an adaptive choice of the partition size) or kernel intensity estimators. The number of latent groups can be selected by an integrated classification likelihood criterion. Y. Baraud and L. Birgé (2009). . C. Biernacki, G. Celeux and G. Govaert (2000). . M. Corneli, P. Latouche and F. Rossi (2016). . J.-J. Daudin, F. Picard and S. Robin (2008). . A. P. Dempster, N. M. Laird and D. B. Rubin (1977). . G. Grégoire (1993). . L. Hubert and P. Arabie (1985). . M. Jordan, Z. Ghahramani, T. Jaakkola and L. Saul (1999). . C. Matias, T. Rebafka and F. Villers (2018). . C. Matias and S. Robin (2014). . H. Ramlau-Hansen (1983). . P. Reynaud-Bouret (2006). . Package: r-cran-ppseq Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 11208 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-furrr, r-cran-ggplot2, r-cran-plotly, r-cran-purrr, r-cran-tibble, r-cran-patchwork, r-cran-tidyr Suggests: r-cran-covr, r-cran-gt, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ppseq_0.2.5-1.ca2004.1_all.deb Size: 1363380 MD5sum: ce0f0592070d1a7a6c98a053314f56c9 SHA1: 5f83765af9135d538f6241f309eaf52f4793c44c SHA256: 121593ee7e4df700951ea0ab88c983fccbc9a0816b8ddb399f450295fb9ea14c SHA512: 0d27d9ba0531d663b9686fda8924742329e9932474c120546bb8d21708adfabe7611203498f4f822d08d7c249142fbff262c4ef6a5c1d3ecb1389efecdd56a5d Homepage: https://cran.r-project.org/package=ppseq Description: CRAN Package 'ppseq' (Design Clinical Trials using Sequential Predictive ProbabilityMonitoring) Functions are available to calibrate designs over a range of posterior and predictive thresholds, to plot the various design options, and to obtain the operating characteristics of optimal accuracy and optimal efficiency designs. Package: r-cran-ppsr Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 490 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-parsnip, r-cran-rpart, r-cran-withr, r-cran-gridextra Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ppsr_0.0.5-1.ca2004.1_all.deb Size: 400716 MD5sum: 7a2f628b442f5057c9fdc709bed8f8ba SHA1: 2564707020fc7f7b81ad5a5edd12269ecadbd394 SHA256: 47e9a990b20184cd2f005a58aab5914f8a0b91f13ebc99e2603faf3f226d6b4e SHA512: 9432c72d21c7a940542926a03840403b5abbd6859764e1f003b19c29e182aaa0f1aa848fea4c814d49f61fc34234a14c59773a61963f4d947583c6382a82c1d6 Homepage: https://cran.r-project.org/package=ppsr Description: CRAN Package 'ppsr' (Predictive Power Score) The Predictive Power Score (PPS) is an asymmetric, data-type-agnostic score that can detect linear or non-linear relationships between two variables. The score ranges from 0 (no predictive power) to 1 (perfect predictive power). PPS can be useful for data exploration purposes, in the same way correlation analysis is. For more information on PPS, see . 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Package: r-cran-pqantimalarials Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reshape2, r-cran-rcolorbrewer, r-cran-plyr, r-cran-shiny Filename: pool/dists/focal/main/r-cran-pqantimalarials_0.2-1.ca2004.1_all.deb Size: 42796 MD5sum: 91271129bcd1d0678a985295c0423b07 SHA1: 5fc13d70ce6373288ec0ef9b6f6bce25303f965b SHA256: 97221d0c2f942a3e87142d6e8b785ace5105e0b2b0e224543688345976b36786 SHA512: b7a2a33c7cb86998dfd6d703f55c9f06ada189854f2efaf9d9e98178f8b639aa81de69c0618c1a26f4d367cbd8337fc9b72fd88ae7de9e29e634cfeef0f933ad Homepage: https://cran.r-project.org/package=pqantimalarials Description: CRAN Package 'pqantimalarials' (web tool for estimating under-five deaths caused by poor-qualityantimalarials in sub-Saharan Africa) This package allows users to calculate the number of under-five child deaths caused by consumption of poor quality antimalarials across 39 sub-Saharan nations. The package supports one function, that starts an interactive web tool created using the shiny R package. The web tool runs locally on the user's machine. The web tool allows users to set input parameters (prevalence of poor quality antimalarials, case fatality rate of children who take poor quality antimalarials, and sample size) which are then used to perform an uncertainty analysis following the Latin hypercube sampling scheme. Users can download the output figures as PDFs, and the output data as CSVs. Users can also download their input parameters for reference. This package was designed to accompany the analysis presented in: J. Patrick Renschler, Kelsey Walters, Paul Newton, Ramanan Laxminarayan "Estimated under-five deaths associated with poor-quality antimalarials in sub-Saharan Africa", 2014. Paper submitted. 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We employ a novel parallel quasi-likelihood method in generalized linear models, to make the variances between different sub-estimators relatively similar. Estimates are obtained from projection subsets of data and later combined by suitably-chosen unknown weights. The philosophy of the package is described in Guo G. (2020) . 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The package includes data from affinity-based panels such as 'Olink' () and 'SomaScan' (), as well as mass spectrometry-based panels from 'CellCarta' () and 'Seer' (). The metadata encompasses updated annotations and publication details. 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Provides easy and fast out-of-the-box solutions but also a high extent of flexibility. Also provides options for embedding audio in figures and animating figures. Package: r-cran-prabclus Architecture: all Version: 2.3-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 770 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-mclust Suggests: r-cran-spdep, r-cran-spatialreg, r-cran-bootstrap, r-cran-foreign, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-prabclus_2.3-4-1.ca2004.1_all.deb Size: 463512 MD5sum: 4174f2824841a3a1556012070af26aa6 SHA1: eceaecfd26bf82a613f4aeeec489766d4d36de08 SHA256: 2c245ed4de13eced472d0481d1a4c3581aa4b31efc751bfe581ab109ca1ce6df SHA512: 7402f66bbe850e5e16aac28f24386493b4363978d72d685b11e83275d24a685bb65567e30de7eca0991cb88b759b044e499338105a494a54ba13e46a367df01d Homepage: https://cran.r-project.org/package=prabclus Description: CRAN Package 'prabclus' (Functions for Clustering and Testing of Presence-Absence,Abundance and Multilocus Genetic Data) Distance-based parametric bootstrap tests for clustering with spatial neighborhood information. Some distance measures, Clustering of presence-absence, abundance and multilocus genetic data for species delimitation, nearest neighbor based noise detection. Genetic distances between communities. Tests whether various distance-based regressions are equal. Try package?prabclus for on overview. Package: r-cran-pracma Architecture: all Version: 2.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1867 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-nlcoptim, r-cran-quadprog Filename: pool/dists/focal/main/r-cran-pracma_2.4.4-1.ca2004.1_all.deb Size: 1683316 MD5sum: ba46727f296b4d0f802291f0c1abe2cc SHA1: 95ccbe46862c3c3f5b93b181c03050f052bf6138 SHA256: a93a666aef4b1abed684aff47e973d135915e869587f9ce29ce12ff47f2c9fc1 SHA512: 27ab59170cc1300e0e3a21b51df88688e909efe19a0c54a274ab6b964efeefcabcc59e50dc919237f1af66fdbab62b9e2b45f9b94890209a631f80d3af2daded Homepage: https://cran.r-project.org/package=pracma Description: CRAN Package 'pracma' (Practical Numerical Math Functions) Provides a large number of functions from numerical analysis and linear algebra, numerical optimization, differential equations, time series, plus some well-known special mathematical functions. Uses 'MATLAB' function names where appropriate to simplify porting. 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The 'pracpac' package provides a 'usethis'-like interface to creating Dockerfiles with dependencies managed by 'renv'. The 'pracpac' functionality is described in Nagraj and Turner (2023) . Package: r-cran-practicalequidesign Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-numderiv, r-cran-temporal, r-cran-tidyr Suggests: r-cran-r.rsp, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-practicalequidesign_0.0.3-1.ca2004.1_all.deb Size: 59960 MD5sum: de7a4d4debc1505e5ad2089a92e6b7d5 SHA1: 540c644053777cf9dd3f6223aba46681c2ad164a SHA256: ab464241a8156231dbea849190df04c4be94d48a94b91ef7c396006ea04eaed2 SHA512: 15904c548e28aaf625d6caeb32026bcfc4abdf4cfc3d746af63b496ea2822482cedae0ef68a6091bea7773867353868b07992b9e77aa62cf20346a4277400da6 Homepage: https://cran.r-project.org/package=PracticalEquiDesign Description: CRAN Package 'PracticalEquiDesign' (Design of Practical Equivalence Trials) Sample size calculations for practical equivalence trial design with a time to event endpoint. Package: r-cran-practicalsigni Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 574 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-np, r-cran-generalcorr, r-cran-xtable, r-cran-shapleyvalue, r-cran-nns, r-cran-randomforest, r-cran-hypergeo Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-practicalsigni_0.1.2-1.ca2004.1_all.deb Size: 499880 MD5sum: edbe1421234dddc5ae9de335199b416f SHA1: d7ab69555b36b38637acd2cc5ff88d01134ca3a6 SHA256: 66c2e21a676205ea7ef309f739429618e43840af47f1485d853238a4f1405e09 SHA512: 65704f3c9b35235528c053c538607d9c4439f8e9f1992d619ba40107593bc871e1751995d19cb4dc77f4bdb4c0ea5d9c9aca91f55bf52179d658f08461b45ef9 Homepage: https://cran.r-project.org/package=practicalSigni Description: CRAN Package 'practicalSigni' (Practical Significance Ranking of Regressors and Exact t Density) Consider a possibly nonlinear nonparametric regression with p regressors. We provide evaluations by 13 methods to rank regressors by their practical significance or importance using various methods, including machine learning tools. Comprehensive methods are as follows. m6=Generalized partial correlation coefficient or GPCC by Vinod (2021) and Vinod (2022). m7= a generalization of psychologists' effect size incorporating nonlinearity and many variables. m8= local linear partial (dy/dxi) using the 'np' package for kernel regressions. m9= partial (dy/dxi) using the 'NNS' package. m10= importance measure using the 'NNS' boost function. m11= Shapley Value measure of importance (cooperative game theory). m12 and m13= two versions of the random forest algorithm. Taraldsen's exact density for sampling distribution of correlations added. Package: r-cran-practools Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4969 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-geosphere, r-cran-ggplot2, r-cran-mass, r-cran-usmap Suggests: r-cran-doby, r-cran-foreign, r-cran-lpsolve, r-cran-markdown, r-cran-plyr, r-cran-pps, r-cran-rcpp, r-cran-reshape, r-cran-roxygen2, r-cran-sampling, r-cran-samplingbook, r-cran-sp, r-cran-survey, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-practools_1.6.1-1.ca2004.1_all.deb Size: 3865368 MD5sum: ca9903e9fea3f8f171b8126cab42025e SHA1: e5c1d598e228418d06c8be421c6944894a41892b SHA256: 171c028ebd1e6daa599f1279e3f905e2b2c42c7128615f87a0323585287b05d9 SHA512: 712310aff3267165de32b630af7fb2efd870a02f39cedb039325a40928c7fe8ff3f74d5d506a9b0f3d23e9d110c61c76dc59ad402e433b70e2035f7be012e902 Homepage: https://cran.r-project.org/package=PracTools Description: CRAN Package 'PracTools' (Designing and Weighting Survey Samples) Functions and datasets to support Valliant, Dever, and Kreuter (2018), , "Practical Tools for Designing and Weighting Survey Samples". Contains functions for sample size calculation for survey samples using stratified or clustered one-, two-, and three-stage sample designs, and single-stage audit sample designs. Functions are included that will group geographic units accounting for distances apart and measures of size. Other functions compute variance components for multistage designs, sample sizes in two-phase designs, and a stopping rule for ending data collection. A number of example data sets are included. 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The procedure recursively estimates the coefficients and the error autocorrelation of the specified model until sufficient convergence of the AR(1) coefficient is attained. Package: r-cran-praise Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-praise_1.0.0-1.ca2004.1_all.deb Size: 17292 MD5sum: ccafb50cc026b8b4e0748d493976b5e9 SHA1: cd08f513d783a729dcf84d6cd9e3fb66ae140781 SHA256: e248fd44c36f17bb5718e322168ccfdbdd1e508bbf11f61a60b60ac4d76a3967 SHA512: 707baf25a99e662f97c335f7d2b95637c21c97b46d3b17b778a3a67c0837ef7aacf11b46dd88a8ff1ceb235523906520e30776e76524099abd0a367f146e222d Homepage: https://cran.r-project.org/package=praise Description: CRAN Package 'praise' (Praise Users) Build friendly R packages that praise their users if they have done something good, or they just need it to feel better. 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This is a direct regression modeling for the differential network analysis, and it is therefore computationally amenable for the most users. The full methodological details can be found in Ahn S et al (2023) . 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Package: r-cran-predcrg Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4752 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biostrings, r-cran-protr, r-cran-peptides, r-cran-kernlab, r-cran-e1071 Filename: pool/dists/focal/main/r-cran-predcrg_1.0.2-1.ca2004.1_all.deb Size: 4796448 MD5sum: 67e41d7f1b91d49bfebc8f8e2176c6fc SHA1: af8b66350f446bc1ec2b866241bbd147298f2828 SHA256: 77a1b2ae425d405a5a36ae984d2123ec0ba40b657718955f5cb62a67944f22a6 SHA512: 1af58956f51e7309b8638460a9bdfae9bef4bb21c0075cd37f310c77dfe0b6ee3a0a2e6298c9ccc845d89f8a6c492a733aee9b08861b7021d8d4fb886b65e9c6 Homepage: https://cran.r-project.org/package=PredCRG Description: CRAN Package 'PredCRG' (Computational Prediction of Proteins Encoded by Circadian Genes) A computational model for predicting proteins encoded by circadian genes. The support vector machine has been employed with Laplace kernel for prediction of circadian proteins, where compositional, transitional and physico-chemical features were utilized as numeric features. User can predict for the test dataset using the proposed computational model. Besides, the user can also build their own training model using their training dataset, followed by prediction for the test set. 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Users are able to incorporate parental phenotypic information in all methods based on their specific needs. (Xu S et al(2017) ; Xu Y et al (2021) ). 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Features different preprocessing methods to homogenize variance and to remove trend and seasonality. Also has the potential to bring together different predictive models to make comparatives. Features ARIMA and Data Mining Regression models (using caret). Package: r-cran-pref Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 259 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-jpeg Filename: pool/dists/focal/main/r-cran-pref_0.4.0-1.ca2004.1_all.deb Size: 157976 MD5sum: f4a114994a09e35a4962b158dc0c39a4 SHA1: 50dcd69ab57516bc84d33a5553f807d1a487ef64 SHA256: 5b94760e55134f5c61a6b58592cae6f0d62c54260147fe6ba4b29af80c1711fd SHA512: 0f5a68118afd87db8674a1d0d2b4f9bc49d4c6f07b449903640d95dcaed65674d787f1dec6791ff0df0d13f9e221a9759342cefa7bcce8c1c41a8f6994e6794b Homepage: https://cran.r-project.org/package=pref Description: CRAN Package 'pref' (Preference Voting with Explanatory Graphics) Implements the Single Transferable Vote (STV) electoral system, with clear explanatory graphics. The core function stv() uses Meek's method, the purest expression of the simple principles of STV, but which requires electronic counting. It can handle votes expressing equal preferences for subsets of the candidates. A function stv.wig() implementing the Weighted Inclusive Gregory method, as used in Scottish council elections, is also provided, and with the same options, as described in the manual. The required vote data format is as an R list: a function pref.data() is provided to transform some commonly used data formats into this format. References for methodology: Hill, Wichmann and Woodall (1987) , Hill, David (2006) , Mollison, Denis (2023) , (see also the package manual pref_pkg_manual.pdf). 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These weights can be rank existing alternatives or to define a multi-objective utility function for optimization. Package: r-cran-preferably Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1958 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-pkgdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-preferably_0.4.1-1.ca2004.1_all.deb Size: 1461936 MD5sum: a248247b84b56b13091b4abb4e6a3975 SHA1: fc438bef8e03495628f4498197e713394dff2c59 SHA256: 96f5a426b1e46fe70c356a0a7f9cbba99d2a120a7cda4a84076b2004257e9967 SHA512: 85e9f7fd4dff06453bf2fbb3f9190dc42825419250397350839ffd16a5dcf479f041365f2c22cb5acd8c0f63342bc5abac112902cf702306b7e9aa83f398a910 Homepage: https://cran.r-project.org/package=preferably Description: CRAN Package 'preferably' (A 'pkgdown' Template) This is an accessible template for 'pkgdown'. 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The package contains functions to compute the required sample size needed to detect a given preference, treatment, and selection effect; alternatively, the package contains functions that can report the study power given a fixed sample size. Finally, analysis functions are provided to test each effect using either summary data (i.e. means, variances) or raw study data . 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See Nicholas Mattei and Toby Walsh "PrefLib: A Library of Preference Data" (2013) . 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Add in external HTML document within 'rmarkdown' rendered HTML doc. Package: r-cran-prenoms Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4065 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble Suggests: r-cran-dplyr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-prenoms_0.0.1-1.ca2004.1_all.deb Size: 4110516 MD5sum: e741f57818b9057d9de615d1f5e52f83 SHA1: 44c374a5bf5c656ede8e295ea247499b1be97d00 SHA256: 1886283964de6e6c4d4476dfc2a5033c12e1303a8915a17abeb410768a260f84 SHA512: 29913b5d528a7f51ae429d55ce1651fa367eac616e49fad7ee09922201a3b12e04ecbfe8e1e5c27f8706080eaa6e8dfc0b0cfbe7eb9a3b4fcb0c4796d03a09a4 Homepage: https://cran.r-project.org/package=prenoms Description: CRAN Package 'prenoms' (Names Given to Babies in Quebec Between 1980 and 2020) A database containing the names of the babies born in Quebec between 1980 and 2020. Package: r-cran-prepdat Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-reshape2, r-cran-psych Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-prepdat_1.0.8-1.ca2004.1_all.deb Size: 117752 MD5sum: d010e87dc0629593f0bbb70657b57e14 SHA1: 71365035569b566f4e52de8547d4a2df9aa73040 SHA256: 8e93679de934b069f1cd5c05e684aa003b60072c9dd92164e174e1b34399877e SHA512: d6606177437c4de1fdecc07e9a6004ef8b2705bb71c553377a82c409147375ee9ac0918143aa03fcfb139085426c1fc1a4144b0852f39ab68f349e2bc61974e9 Homepage: https://cran.r-project.org/package=prepdat Description: CRAN Package 'prepdat' (Preparing Experimental Data for Statistical Analysis) Prepares data for statistical analysis (e.g., analysis of variance ;ANOVA) by enabling the user to easily and quickly merge (using the file_merge() function) raw data files into one merged table and then aggregate the merged table (using the prep() function) into a finalized table while keeping track and summarizing every step of the preparation. The finalized table contains several possibilities for dependent measures of the dependent variable. Most suitable when measuring variables in an interval or ratio scale (e.g., reaction-times) and/or discrete values such as accuracy. Main functions included are file_merge() and prep(). The file_merge() function vertically merges individual data files (in a long format) in which each line is a single observation to one single dataset. The prep() function aggregates the single dataset according to any combination of grouping variables (i.e., between-subjects and within-subjects independent variables, respectively), and returns a data frame with a number of dependent measures for further analysis for each cell according to the combination of provided grouping variables. 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For such situations, partially replicated (p-Rep) designs have wide application potential as only a proportion of the test lines are replicated at each environment. A collection of several utility functions related to p-Rep designs have been developed. Here, the package contains six functions for a complete stepwise analytical study of these designs. Five functions pRep1(), pRep2(), pRep3(), pRep4() and pRep5(), are used to generate five new series of p-Rep designs and also compute average variance factors and canonical efficiency factors of generated designs. A fourth function NCEV() is used to generate incidence matrix (N), information matrix (C), canonical efficiency factor (E) and average variance factor (V). This function is general in nature and can be used for studying the characterization properties of any block design. A construction procedure for p-Rep designs was given by Williams et al.(2011) which was tedious and time consuming. Here, in this package, five different methods have been given to generate p-Rep designs easily. 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This approach facilitates seamless data integration and analysis across various datasets. While users have the flexibility to modify variable names, the system intelligently ensures that changes are only permitted when they do not compromise data consistency or essential variable essence. 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Package: r-cran-presspurt Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 474 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-gridextra, r-cran-reticulate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp, r-cran-qpdf Filename: pool/dists/focal/main/r-cran-presspurt_1.0.2-1.ca2004.1_all.deb Size: 183064 MD5sum: 7551caf8be755329bce7216d2ba016d5 SHA1: 4bf707ccf3b59d05133393cdef8fa82dae9ce033 SHA256: 54440affa9c7c282119c73f6137dea6bd74732166666a27b6dde79c8afc0b5f6 SHA512: a1efa46206441fcebba5c9f1ec1f9159acb131922035d04abf0ddf214c6556c2e0d1aaf4335e7dd6830d470f7e12875016b1091e3e47697a8e07dbc4c1a86ccb Homepage: https://cran.r-project.org/package=PressPurt Description: CRAN Package 'PressPurt' (Indeterminacy of Networks via Press Perturbations) This is a computational package designed to identify the most sensitive interactions within a network which must be estimated most accurately in order to produce qualitatively robust predictions to a press perturbation. 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Automatic and manual tools are included to let the user define regions (masks) to be analyzed. Also includes functions for visualizing and animating pressure data. Example methods are described in Shi et al., (2022) , Lee et al., (2014) , van der Zward et al., (2014) , Najafi et al., (2010) , Cavanagh and Rodgers (1987) . Package: r-cran-pretest Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pretest_0.2-1.ca2004.1_all.deb Size: 41384 MD5sum: 434c1e064cae0bb397362f8a0afe9d9d SHA1: 26d420794c4844c21c64c36cdb469325f6b78c97 SHA256: 69219b92e1756fd2e68a5f90ab418cc91b1af6f9bbc7c903a5a99145b0b1d842 SHA512: 972cbf7b9b145a312fea069f681f77c89b27b9763ed9278e3dadf93f8340aa95ee2ce10b31e41755a6aa0107887481e7ebfdac5425854f2d3f41a37dc4586a8f Homepage: https://cran.r-project.org/package=pretest Description: CRAN Package 'pretest' (A Novel Approach to Predictive Accuracy Testing in NestedEnvironments) This repository contains the codes for using the predictive accuracy comparison tests developed in Pitarakis, J. (2023) . 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Guidelines usually comes from the American Heart Association (AHA), American College of Cardiology (ACC) or European Society of Cardiology (ESC). Examples of PTP scores that comes from studies are the 2020 Winther et al. basic, Risk Factor-weighted Clinical Likelihood (RF-CL) and Coronary Artery Calcium Score-weighted Clinical Likelihood (CACS-CL) models , 2019 Reeh et al. basic and clinical models and 2017 Fordyce et al. PROMISE Minimal-Risk Tool . As diagnosis of CAD involves a costly and invasive coronary angiography procedure for patients, having a reliable PTP for CAD helps doctors to make better decisions during patient management. This ensures high risk patients can be diagnosed and treated early for CAD while avoiding unnecessary testing for low risk patients. 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Companion package to the preprint Willrich et al., From prevalence to incidence - a new approach in the hospital setting; , where methods are explained in detail. 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'prewas' creates a variant matrix (where each row is a variant, each column is a sample, and the entries are presence - 1 - or absence - 0 - of the variant) that can be used as input for bGWAS tools. When creating the binary variant matrix, 'prewas' can perform 3 pre-processing steps including: dealing with multiallelic SNPs, (optional) dealing with SNPs in overlapping genes, and choosing a reference allele. 'prewas' can output matrices for use with both SNP-based bGWAS and gene-based bGWAS. This method is described in Saund et al. (2020) . 'prewas' can also provide gene matrices for variants with specific annotations from the 'SnpEff' software (Cingolani et al. 2012). 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This package provides index number methods for such price comparisons (e.g., The World Bank, 2011, ). Moreover, it contains functions for sampling and characterizing price data. Package: r-cran-pricer Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-gsubfn, r-cran-stringr, r-cran-purrr, r-cran-jsonlite, r-cran-lubridate, r-cran-stringi, r-cran-tidyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-pricer_1.0.2-1.ca2004.1_all.deb Size: 135344 MD5sum: 5e453b2523789ae27e0d99e1706dfacf SHA1: 38276cad682ec7551cfecdf39cfa9c2f6e32c2be SHA256: 8f222d1fd8ca6ddae5d26f88d0c3ed46cb02841d22d7c7f1f1db524230a07e20 SHA512: 1fb2bdcdc384133dd23155e468c701de526af2f025263993366ee08be58c26098b10298a0f1f9a66fe308f06a9808e78d8f5c3e07784187d7ff9c2b6c03939c9 Homepage: https://cran.r-project.org/package=priceR Description: CRAN Package 'priceR' (Economics and Pricing Tools) Functions to aid in micro and macro economic analysis and handling of price and currency data. 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Primary event censored distributions are useful for modeling delayed reporting scenarios in epidemiology and other fields (Charniga et al. (2024) ). It also provides support for arbitrary delay distributions, a range of common primary distributions, and allows for truncation and secondary event censoring to be accounted for (Park et al. (2024) ). A subset of common distributions also have analytical solutions implemented, allowing for faster computation. In addition, it provides multiple methods for fitting primary event censored distributions to data via optional dependencies. Package: r-cran-primate Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1577 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-caroline Suggests: r-cran-rjdbc Filename: pool/dists/focal/main/r-cran-primate_0.2.0-1.ca2004.1_all.deb Size: 625308 MD5sum: 5d5f39588aef0a86728d040829f92b61 SHA1: 1c8f3a11b7630054a7b824799778af5e01ee2e3b SHA256: c0180c87dff2c271dad3ba5aa10f98b19e5b7bc808da60fd82d82fa7f5e34091 SHA512: 132cbb13850a4a0ac7b7918a79d223abc09279363032d6d9374c70f70efe07e6a778be2a93571c0ae72354b2413afc73ccbf48032a6d85ccd55bd175cf951945 Homepage: https://cran.r-project.org/package=primate Description: CRAN Package 'primate' (Tools and Methods for Primatological Data Science) Data from All the World's Primates relational SQL database and other tabular datasets are made available via drivers and connection functions. Additionally we provide several functions and examples to facilitate the merging and aggregation of these tabular inputs. Package: r-cran-primefactr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-primefactr_0.1.1-1.ca2004.1_all.deb Size: 19804 MD5sum: bb9b62e4b02950677fca3334182df8ab SHA1: 7fce809f67df9cae85613c892bf572e27e999a3c SHA256: cbfd384d9209d22a755b0ac926466f4e1e57d0e4ae8481da372c6ad575f82c04 SHA512: 784b3d97df3f684cd9ce4398a9816ce012860aeeb6e20e1a6ce9aae10ca4e71de5794de50e14fe70414d3e334625d2d4d933e8d7316989c5918237e49b9dfd8a Homepage: https://cran.r-project.org/package=primefactr Description: CRAN Package 'primefactr' (Use Prime Factorization for Computations) Use Prime Factorization for simplifying computations, for instance for ratios of large factorials. Package: r-cran-primepca Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-softimpute, r-cran-matrix, r-cran-mass Filename: pool/dists/focal/main/r-cran-primepca_1.2-1.ca2004.1_all.deb Size: 35096 MD5sum: c543f3a8449489eeea10aae15d581c95 SHA1: 477b878254a869fb0999f75eaf12d7d4bdb5c303 SHA256: 50c912d55242da17de168fce8a9f0fb8f75abd8f5f95ec21c7b400b79f4be090 SHA512: 5b8eaa3052373ecb51840204dc46fdd88120db89559a8a9278ac46687b54771a4501119f43f2c4aaa281e9c28cf43c23eee60d0659dea2ce0c642dd6dd420633 Homepage: https://cran.r-project.org/package=primePCA Description: CRAN Package 'primePCA' (Projected Refinement for Imputation of Missing Entries in PCA) Implements the primePCA algorithm, developed and analysed in Zhu, Z., Wang, T. and Samworth, R. J. (2019) High-dimensional principal component analysis with heterogeneous missingness. . Package: r-cran-primer Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 391 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-desolve, r-cran-ggplot2, r-cran-tidyr Suggests: r-cran-bbmle, r-cran-bipartite, r-cran-cowplot, r-cran-data.table, r-cran-diagram, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-gdata, r-cran-igraph, r-cran-lavaan, r-cran-magrittr, r-cran-nlme, r-cran-phaser, r-cran-vegan, r-cran-reshape2, r-cran-rarpack, r-cran-rsvg Filename: pool/dists/focal/main/r-cran-primer_1.2.0-1.ca2004.1_all.deb Size: 331692 MD5sum: 3849de84c9d768112f34f76332601043 SHA1: ca219d67ad1eaf527f2420b19db4e051af50f48d SHA256: 57bb63c3ccf16f5d2dc3e482ae566e32579f27db34fa502646f507294952aca3 SHA512: 0a682516bae4c38eff3db1828b488bb88a7c76b1adc06740f79af65df52c6793e7545349c9a29788edc83beab18c1466275e25a9ac89327f650e1353fbf1a0e6 Homepage: https://cran.r-project.org/package=primer Description: CRAN Package 'primer' (Functions and Data for the Book, a Primer of Ecology with R) Functions are primarily functions for systems of ordinary differential equations, difference equations, and eigenanalysis and projection of demographic matrices; data are for examples. Package: r-cran-prindt Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 228 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-party, r-cran-splitstackshape, r-cran-stringr Filename: pool/dists/focal/main/r-cran-prindt_1.0.1-1.ca2004.1_all.deb Size: 183852 MD5sum: 9e2fa525a2ae627495661290af5be83e SHA1: 58cfa8074d6a76354d7a887b75ea6667a4a4e6ee SHA256: 12db1af55403e150def10b31d20a916f37dbe6887895010b1d0aeae1e59e43b2 SHA512: c3d255d3a28d5b8742a8531145d8ab66fedeccbb33bcaae9dcd28c127aad6517781e1e6f92585542beaa98127095babe8695f492a4de09a2db544165338aef38 Homepage: https://cran.r-project.org/package=PrInDT Description: CRAN Package 'PrInDT' (Prediction and Interpretation in Decision Trees forClassification and Regression) Optimization of conditional inference trees from the package 'party' for classification and regression. For optimization, the model space is searched for the best tree on the full sample by means of repeated subsampling. Restrictions are allowed so that only trees are accepted which do not include pre-specified uninterpretable split results (cf. Weihs & Buschfeld, 2021a). The function PrInDT() represents the basic resampling loop for 2-class classification (cf. Weihs & Buschfeld, 2021a). The function RePrInDT() (repeated PrInDT()) allows for repeated applications of PrInDT() for different percentages of the observations of the large and the small classes (cf. Weihs & Buschfeld, 2021c). The function NesPrInDT() (nested PrInDT()) allows for an extra layer of subsampling for a specific factor variable (cf. Weihs & Buschfeld, 2021b). The functions PrInDTMulev() and PrInDTMulab() deal with multilevel and multilabel classification. In addition to these PrInDT() variants for classification, the function PrInDTreg() has been developed for regression problems. Finally, the function PostPrInDT() allows for a posterior analysis of the distribution of a specified variable in the terminal nodes of a given tree. References are: -- Weihs, C., Buschfeld, S. (2021a) "Combining Prediction and Interpretation in Decision Trees (PrInDT) - a Linguistic Example" ; -- Weihs, C., Buschfeld, S. (2021b) "NesPrInDT: Nested undersampling in PrInDT" ; -- Weihs, C., Buschfeld, S. (2021c) "Repeated undersampling in PrInDT (RePrInDT): Variation in undersampling and prediction, and ranking of predictors in ensembles" . 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The surfaces are nonparametric and their shape is suggested by the data. The formation of a surface is found using an iterative procedure which starts with a linear summary, typically with a principal component plane. Each successive iteration is a local average of the p-dimensional points, where an average is based on a projection of a point onto the nonlinear surface of the previous iteration. For more information on principal surfaces, see Ganey, R. (2019, "https://open.uct.ac.za/items/4e655d7d-d10c-481b-9ccc-801903aebfc8"). 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For example, data frames are automatically printed as tables, and the help() pages can also be rendered in 'knitr' documents. Package: r-cran-prinvars Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 211 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rdpack, r-cran-elasticnet, r-cran-pma Suggests: r-cran-testthat, r-cran-aer Filename: pool/dists/focal/main/r-cran-prinvars_1.0.0-1.ca2004.1_all.deb Size: 165524 MD5sum: 87993b4e1c94f5fd9889553b5d50046f SHA1: f9855481c9b922c80d52d136d8a12d05ac76ab9e SHA256: 6791892ce5c9260e74c32e6973f60148ffa64b94a28273ca768b8851346e9029 SHA512: 711fbb0e298beb28ae1d4e7e5383ee3b29d87edf04d6028974860610185a8c083393e1201a215ef571e4bca3d186b25098f50c603782add2897d8383f5f4ba5a Homepage: https://cran.r-project.org/package=prinvars Description: CRAN Package 'prinvars' (Principal Variables) Provides methods for reducing the number of features within a data set. See Bauer JO (2021) and Bauer JO, Drabant B (2021) for more information on principal loading analysis. 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In this study, a candidate gene prioritization method was proposed for non-communicable diseases considering disease risks transferred between genes in weighted disease PPI networks with weights for nodes and edges based on functional information. Package: r-cran-prior3d Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4237 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-prioritizr, r-cran-terra, r-cran-maps, r-cran-highs, r-cran-viridis, r-cran-readxl, r-cran-rasterdiv, r-cran-geodiv Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-prior3d_0.1.5-1.ca2004.1_all.deb Size: 2813388 MD5sum: 13a975c27b946c443cf13ebe8158c3ee SHA1: 8f82d91ed61d9e375c63997399bd7da99cb87341 SHA256: 479e393d40468e5d221ca8d0d88dddc34f99a305ebeded760dad2406020138a4 SHA512: 69e1d6ca14cd33919c448dc3efd14b3c2997d0d9e485f5a5e7133cb75f457e463ee5744c94fae07f3156823d9ede2a04dc0fb6d423ce4737b59f3033469cb0dd Homepage: https://cran.r-project.org/package=prior3D Description: CRAN Package 'prior3D' (3D Prioritization Algorithm) Three-dimensional systematic conservation planning, conducting nested prioritization analyses across multiple depth levels and ensuring efficient resource allocation throughout the water column. It provides a structured workflow designed to address biodiversity conservation and management challenges in the 3 dimensions, while facilitating users’ choices and parameterization (Doxa et al. 2025 ). Package: r-cran-priorcd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1621 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-dplyr, r-cran-rocr, r-cran-visnetwork Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-priorcd_0.1.0-1.ca2004.1_all.deb Size: 1460100 MD5sum: ad3c361b47687c528de363cba1b8cf02 SHA1: 844b9fe84f94fe898048b2818c0b5096c6604415 SHA256: f155e68483d693a7fd387ea992624026bb668986cbd83983acecc325e40b91c9 SHA512: 67f72d8ad6809bf6f2f742dff5480fc0d78cad0dc0199aee6d19596c73216e5575333d40873f9f3bb0d74fd34ab3ecffa63ec8249821c59f2cd5f167615a4c26 Homepage: https://cran.r-project.org/package=PriorCD Description: CRAN Package 'PriorCD' (Prioritizing Cancer Drugs for Interested Cancer) Prioritize candidate cancer drugs for drug repositioning based on the random walk with restart algorithm in a drug-drug functional similarity network. 1) We firstly constructed a drug-drug functional similarity network by integrating pathway activity and drug activity derived from the NCI-60 cancer cell lines. 2) Secondly, we calculated drug repurposing score according to a set of approved therapeutic drugs of interested cancer based on the random walk with restart algorithm in the drug-drug functional similarity network. 3) Finally, the permutation test was used to calculate the statistical significance level for the drug repurposing score. Package: r-cran-priorcon Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1594 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-prioritizr, r-cran-terra, r-cran-highs, r-cran-tmap, r-cran-sf, r-cran-braingraph, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-priorcon_0.1.5-1.ca2004.1_all.deb Size: 796624 MD5sum: 6c1cb1bc1cb9007a9aae4ec20e0f24af SHA1: 5765ec69b43c5a2409fe8cf7eacc08ea01e76dc8 SHA256: 98392c51069f43815cfa6810524b83c50cfa356464410b8e0f5af898458f91d8 SHA512: 1dc8354f84a5fab779527237f26b044c5f8e18ab72f10d471a36cb6a41a9f6478063c62c027d72fe42bfe77d2e9a00456054c0646c69c106be58d83701fe9a6a Homepage: https://cran.r-project.org/package=priorCON Description: CRAN Package 'priorCON' (Graph Community Detection Methods into Systematic ConservationPlanning) An innovative tool-set that incorporates graph community detection methods into systematic conservation planning. It is designed to enhance spatial prioritization by focusing on the protection of areas with high ecological connectivity. Unlike traditional approaches that prioritize individual planning units, 'priorCON' focuses on clusters of features that exhibit strong ecological linkages. The 'priorCON' package is built upon the 'prioritizr' package , using commercial and open-source exact algorithm solvers that ensure optimal solutions to prioritization problems. Package: r-cran-priorgen Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 364 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rootsolve, r-cran-nleqslv Suggests: r-cran-spelling, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-priorgen_2.0-1.ca2004.1_all.deb Size: 205544 MD5sum: 3c732d24ff5fa1b62bb38555554dea97 SHA1: cceff325403d0b45b8ab7eeddf7681e4e9dbf623 SHA256: 95a286c0d48f5dc58e5077e647ebc9f1c58bc9519ea7191516280598143be898 SHA512: 5e0336cb92a51326e1f1a91e437283307baad69c77ef862120706bcb5e0a7c5a248a472ebbd18886e081ec8f1ea609735485086bc79d4988f79a38b821687ffb Homepage: https://cran.r-project.org/package=PriorGen Description: CRAN Package 'PriorGen' (Generates Prior Distributions for Proportions) Translates beliefs into prior information in the form of Beta and Gamma distributions. It can be used for the generation of priors on the prevalence of disease and the sensitivity/specificity of diagnostic tests and any other binomial experiment. Package: r-cran-prioritizrdata Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4636 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-terra, r-cran-sf, r-cran-tibble Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-knitr Filename: pool/dists/focal/main/r-cran-prioritizrdata_0.3.2-1.ca2004.1_all.deb Size: 4445640 MD5sum: 0277c2e24e54d8686b51ff522f6af557 SHA1: d1711574b79d9ac0d830d4617998ee6126900228 SHA256: c6b6057578177f4288e2e014420c3070d4e40fdceba90bf3f748d280bc8fc7e3 SHA512: acdea735ee574232628879a7fdd4660eb7e5faf84ed1082d52e710dc50524997d1256fa21971fa4fa32f20ce4850a4d9982c940243e122a97f769ff69167ad02 Homepage: https://cran.r-project.org/package=prioritizrdata Description: CRAN Package 'prioritizrdata' (Conservation Planning Datasets) Conservation planning datasets for learning how to use the 'prioritizr' package . 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(2018) ) by incorporating the ElasticNet penalty, allowing for both L1 and L2 regularization. This approach fits successive ElasticNet models for several blocks of (omics) data with different priorities, using the predicted values from each block as an offset for the subsequent block. It also offers robust options to handle block-wise missingness in multi-omics data, improving the flexibility and applicability of the model in the presence of incomplete datasets. 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It includes required data and tools for backtesting the performance in 2007-2020. 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Using the web service API data can easily downloaded in bulk and loaded into R for spatial analysis. Some user friendly visualizations are also provided. 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The 'PRISMA' Statement calls for a high level of reporting detail in systematic reviews and meta-analyses. An integral part of the methodological description of a review is a flow diagram. This package produces an interactive flow diagram that conforms to the 'PRISMA2020' preprint. When made interactive, the reader/user can click on each box and be directed to another website or file online (e.g. a detailed description of the screening methods, or a list of excluded full texts), with a mouse-over tool tip that describes the information linked to in more detail. Interactive versions can be saved as HTML files, whilst static versions for inclusion in manuscripts can be saved as HTML, PDF, PNG, SVG, PS or WEBP files. 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'probably' contains tools for conducting these operations as well as calibration tools and conformal inference techniques for regression models. Package: r-cran-probbayes Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 601 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-learnbayes, r-cran-ggplot2, r-cran-gridextra, r-cran-shiny Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-probbayes_1.1-1.ca2004.1_all.deb Size: 415316 MD5sum: 4d4d3d78d15d784c72bdef8009826529 SHA1: cf4d73a6f8a5785dacdc5cf0503d3f94c6b0ab41 SHA256: 20b677b20a42f5e3a7131c80b100166cd5795742442d64b7c7d4609a7519bbe3 SHA512: 96e79270cf51f224d4621e2465382b22bbd4daf82e96b22212bbb1ce65c5f354990125f6391392392c3d20d4ac946be09a3c77f287f83ad084910a88a12560a3 Homepage: https://cran.r-project.org/package=ProbBayes Description: CRAN Package 'ProbBayes' (Probability and Bayesian Modeling) Functions and datasets to accompany J. 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More information on the methods that are implemented can be found in Kosmidis (2008) . 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The package includes routines to perform criterion-related profile analysis, profile analysis via multidimensional scaling, moderated profile analysis, profile analysis by group, and a within-person factor model to derive score profiles. 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So far, there are color and fill scales for 'ggplot2', plotting theme for 'ggplot2', color palettes and utils to make the tools default choices. Package: r-cran-profmem Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-r.rsp, r-cran-markdown, r-cran-microbenchmark Filename: pool/dists/focal/main/r-cran-profmem_0.7.0-1.ca2004.1_all.deb Size: 48672 MD5sum: 56af05569da69827c1f945ae19165921 SHA1: 3446a4a621fc414aa9776b2b05c15a4001addf44 SHA256: e8888a24445ca0cc2a9585c1395a75e7885258cdf21ff25c9c8e8a5e43873bde SHA512: 4504652944f80252b50a0033f74e42e67d43b81fce1be4891d5a057c0158b99a16cf47d82fe9779bde63a9edb3364e2dbe8daf59fa7dc450ad83ecdf151c3b6f Homepage: https://cran.r-project.org/package=profmem Description: CRAN Package 'profmem' (Simple Memory Profiling for R) A simple and light-weight API for memory profiling of R expressions. 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Profile repeatability is an individual repeatability metric that uses the variances at each timepoint, the maximum variance, the number of crossings (lines that cross over each other), and the number of replicates to compute the repeatability score. For more information see Reed et al. (2019) . 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Package: r-cran-progenyclust Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc Filename: pool/dists/focal/main/r-cran-progenyclust_1.2-1.ca2004.1_all.deb Size: 59728 MD5sum: f4e873bff9581cdc307e0484d58db3d2 SHA1: a3da080729d03cd54ee081b2a5dad953a4672d09 SHA256: 5d8c801677442e8f4fd7eba855652556beb310e78d2fba5edcc190fcf1d33fe2 SHA512: 484b21aafbe325080c8d745aa61f2b26cebe4f07642b8f7e0a9b3fece2cc0eabc5886018de66ab52a4994b3b6808bbbd0de937fdc5df3537b726937e15ac4e2c Homepage: https://cran.r-project.org/package=progenyClust Description: CRAN Package 'progenyClust' (Finding the Optimal Cluster Number Using Progeny Clustering) Implementing the Progeny Clustering algorithm, the 'progenyClust' package assesses the clustering stability and identifies the optimal clustering number for a given data matrix. 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Package: r-cran-prognosticroc Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-prognosticroc_0.7-1.ca2004.1_all.deb Size: 27808 MD5sum: b5b5da5c7084e8a3ffc5667d1973ef07 SHA1: 73689e1c2b56c6891c0ada212fc3bfb0f0a7db30 SHA256: bb9d1428197d9ba51f48c6fdac238e004567796c0dd9b3844d912d590450f094 SHA512: f88c13e3bd57ed4c0febe26f73588d219f321f77e228254613b0e9b39fdca802c0fecbf387a8ef351f1dcf40ca12bffb2db2fa721486efe0a992e05838c7ba7e Homepage: https://cran.r-project.org/package=prognosticROC Description: CRAN Package 'prognosticROC' (Prognostic ROC curves for evaluating the predictive capacity ofa binary test) Prognostic ROC curve is an alternative graphical approach to represent the discriminative capacity of the marker: a receiver operating characteristic (ROC) curve by plotting 1 minus the survival in the high-risk group against 1 minus the survival in the low-risk group. This package contains functions to assess prognostic ROC curve. The user can enter the survival according to a model previously estimated or the user can also enter individual survival data for estimating the prognostic ROC curve by using Kaplan-Meier estimator. The area under the curve (AUC) corresponds to the probability that a patient in the low-risk group has a longer lifetime than a patient in the high-risk group. The prognostic ROC curve provides complementary information compared to survival curves. The AUC is assessed by using the trapezoidal rules. When survival curves do not reach 0, the prognostic ROC curve is incomplete and the extrapolations of the AUC are performed by assuming pessimist, optimist and non-informative situations. 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It will also work with parallel processing via the 'future' framework, e.g. future.apply::future_lapply(), furrr::future_map(), and 'foreach' with 'doFuture'. The package is compatible with Shiny applications. Package: r-cran-projections Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 860 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-incidence, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown, r-cran-outbreaks, r-cran-magrittr, r-cran-distcrete, r-cran-svglite, r-cran-epiestim Filename: pool/dists/focal/main/r-cran-projections_0.6.1-1.ca2004.1_all.deb Size: 779836 MD5sum: 3e1653c4ffdea30b1ddcf45b46f60953 SHA1: 09f66cde28799edf131398bea5376a6086d0bf56 SHA256: f0ef5b5b3962c43521dd55d1a41085ed47092b0d3b2271357b8d701ddcab3d70 SHA512: 330c2c3873625e9559ce7150c02fadd1cf6c939da6965a953648770ad4e8c57b7206b501a02d2c575313fa8e4090345ce5337ed026913e09166ddf3fc62adfe8 Homepage: https://cran.r-project.org/package=projections Description: CRAN Package 'projections' (Project Future Case Incidence) Provides functions and graphics for projecting daily incidence based on past incidence, and estimates of the serial interval and reproduction number. 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It obtains the duration of a project and the appropriate slack for each activity in a deterministic context. In addition it obtains a schedule of activities' time (Castro, Gómez & Tejada (2007) ). It also allows the management of resources. When the project is done, and the actual duration for each activity is known, then it can know how long the project is delayed and make a fair delivery of the delay between each activity (Bergantiños, Valencia-Toledo & Vidal-Puga (2018) ). In a stochastic context it can estimate the average duration of the project and plot the density of this duration, as well as, the density of the early and last times of the chosen activities. As in the deterministic case, it can make a distribution of the delay generated by observing the project already carried out. 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Package: r-cran-propcis Architecture: all Version: 0.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-propcis_0.3-0-1.ca2004.1_all.deb Size: 95104 MD5sum: f1c767aba0eda87e3cb78335d1ca3c59 SHA1: 6ae3dc2a6020f8fdda18adf9b579054db11ca514 SHA256: a6ed59d8c53f1cb12760617ad02b7a7d2aae8f40ea28f9eca39ac26142582448 SHA512: 44bed81bd6db06d2945246773bc1a653fad201b3a72e8510bc460ab18681eaa50e7108c50274b18388473ed9c3a8a819983e291f0a1dd8549c1c6bdb67625ddd Homepage: https://cran.r-project.org/package=PropCIs Description: CRAN Package 'PropCIs' (Various Confidence Interval Methods for Proportions) Computes two-sample confidence intervals for single, paired and independent proportions. Package: r-cran-properties Architecture: all Version: 0.0-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-properties_0.0-9-1.ca2004.1_all.deb Size: 14672 MD5sum: 42e7d4fd76c174d8c1409dd4ee17b430 SHA1: 15e4e0368ec22d2395f29430411826333979173a SHA256: 0a23a632f3565215d25f9cbf99e896937c522f551d0905b1383538a53ffc27ed SHA512: 2062a8b1040d5b05e7230927a62b45a4b199aef01cd80672530518a0c66dace1c1014ce72efaea058c18dfff58ea3cf00eebdf2a6fc8acaaa35e90dfa939a71a Homepage: https://cran.r-project.org/package=properties Description: CRAN Package 'properties' (Parse 'Java' Properties Files for 'R Service Bus' Applications) Allows to parse 'Java' properties files in the context of 'R Service Bus' applications. Package: r-cran-proporz Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 399 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-shiny, r-cran-shinymatrix, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-proporz_1.5.1-1.ca2004.1_all.deb Size: 233312 MD5sum: 0d7022c6da7db741db12e06fb4482bc6 SHA1: e552de83439e1cfed486c206c38827351c59492d SHA256: af6264da1499897b59ff96c1872962285a9f4310469aa17be4d2884db784c6ee SHA512: d0b88dd7eaae5530cd18a148eb0b935161aee9a0a8947e5ed435a026d34aefd0ac6935de4765e323e003e647b7b6e05610a7980b8c59d7a4cf2355b3da6d321a Homepage: https://cran.r-project.org/package=proporz Description: CRAN Package 'proporz' (Proportional Apportionment) Calculate seat apportionment for legislative bodies with various methods. The algorithms include divisor or highest averages methods (e.g. Jefferson, Webster or Adams), largest remainder methods and biproportional apportionment. Gaffke, N. & Pukelsheim, F. (2008) Oelbermann, K. F. (2016) . Package: r-cran-propoverlap Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4757 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-biobase Filename: pool/dists/focal/main/r-cran-propoverlap_1.0-1.ca2004.1_all.deb Size: 4838536 MD5sum: 3217c3d0077457ce520d859dd6b4563d SHA1: 240db02dbd3fdc4a6672540ab756f76882cc5891 SHA256: 8e580bd394a46c07e7b181a1c0708f504bc6f0f00298640726186e89367edfa3 SHA512: 400373f7da8d1244184ce3115be49aac7069445c0568cabe2d884a4799b9218a277fdbe258918286f8d2f462695c31dc74c0d54caf04062bf9df0b2f790df99a Homepage: https://cran.r-project.org/package=propOverlap Description: CRAN Package 'propOverlap' (Feature (gene) selection based on the Proportional OverlappingScores) A package for selecting the most relevant features (genes) in the high-dimensional binary classification problems. The discriminative features are identified using analyzing the overlap between the expression values across both classes. The package includes functions for measuring the proportional overlapping score for each gene avoiding the outliers effect. The used measure for the overlap is the one defined in the "Proportional Overlapping Score (POS)" technique for feature selection. A gene mask which represents a gene's classification power can also be produced for each gene (feature). The set size of the selected genes might be set by the user. The minimum set of genes that correctly classify the maximum number of the given tissue samples (observations) can be also produced. Package: r-cran-propscrrand Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-propscrrand_1.1.2-1.ca2004.1_all.deb Size: 35024 MD5sum: aa3fa46a4ba6d411e1f2bf555a9c8e75 SHA1: ef49bd467ebc617a7092e409cdd1c12bff60f8bd SHA256: cb73e9cf8b7bb8feada8eb23aa50b10ceedfe2d99436e0f2269a4255b5271bee SHA512: b8e79a30d6f0a462904d64bdde04f4ab31e8bc4fe8073bcdb48c6029d9e59f6c350096534e0e82e233440f5c72d5c3ff0d573db3082f64ad9a6c4734f393f107 Homepage: https://cran.r-project.org/package=PropScrRand Description: CRAN Package 'PropScrRand' (Propensity Score Methods for Assigning Treatment in RandomizedTrials) Contains functions to run propensity-biased allocation to balance covariate distributions in sequential trials and propensity-constrained randomization to balance covariate distributions in trials with known baseline covariates at time of randomization. Currently only supports trials comparing two groups. Package: r-cran-propubbills Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-dplyr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-propubbills_0.1-1.ca2004.1_all.deb Size: 22284 MD5sum: 745c1fcc400d3677140e5b297991cb18 SHA1: 9719204489ebf233d9d0679b99ed8aa9ae33d47e SHA256: 631549d011f3746c3376fbb0874d536da49a9bb5a227f4457e3226991162f5d0 SHA512: 5bbed8d78bdee3395126362d60221e11e6e106b96a607a01b56616b6e47ab6ba46c169fdc6f474c9cea00513086aa24ca498823cf1b94139a5d9b330f9340305 Homepage: https://cran.r-project.org/package=proPubBills Description: CRAN Package 'proPubBills' ('ProPublica' U.S. Congress Bills API Wrapper) An API wrapper around the 'ProPublica' API for U.S. Congressional Bills. Users can include their API key, U.S. Congress, branch, and offset ranges, to return a dataframe of all results within those parameters. This package is different from the 'RPublica' package because it is for the 'ProPublica' U.S. Congress data API, and the 'RPublica' package is for the Nonprofit Explorer, Forensics, and Free the Files data APIs. Package: r-cran-propublicar Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 366 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-stringr, r-cran-httr, r-cran-config, r-cran-lubridate Suggests: r-cran-testthat, r-cran-httptest, r-cran-knitr Filename: pool/dists/focal/main/r-cran-propublicar_1.1.4-1.ca2004.1_all.deb Size: 285884 MD5sum: 8c5e199eabc55babc401641759cd3a39 SHA1: a61975c38a3947734950292d0a83910bb94fd7c9 SHA256: 207f2ea585827cdb9341c7d5434a3baf0f846989f665587a17380addbe031832 SHA512: faebf9f2bd95d4364dbf4adfb5aef49c693ebe51def7f49c0c59e1a6ae3ed939ef3ee3af4ad556c82d7c9eefc70185803ecdd4be32dd6ef59b5b69fc6c7cf45e Homepage: https://cran.r-project.org/package=ProPublicaR Description: CRAN Package 'ProPublicaR' (Access Functions for ProPublica's APIs) Provides wrapper functions to access the ProPublica's Congress and Campaign Finance APIs. The Congress API provides near real-time access to legislative data from the House of Representatives, the Senate and the Library of Congress. The Campaign Finance API provides data from United States Federal Election Commission filings and other sources. The API covers summary information for candidates and committees, as well as certain types of itemized data. For more information about these APIs go to: . Package: r-cran-proreg Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 199 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fmsb, r-cran-car, r-cran-rcolorbrewer, r-cran-matrixcalc, r-cran-rootsolve, r-cran-numderiv, r-cran-matrix Filename: pool/dists/focal/main/r-cran-proreg_1.3-1.ca2004.1_all.deb Size: 168520 MD5sum: 48973f945beb16b7be28f7fd470d5fc8 SHA1: 8977ec13aaae1610d1a2a0c6839a1fdcde17e321 SHA256: 8e31b04cfc04f19525f8c6a1fbccead5dbe2837159fac51c1c45be260fbddeb7 SHA512: 8cc865098ca1b0b1830fcb9ef3321e5889cadd2daea45b5ea2d434c7cca9e265170b7026b2fba6ab17020a2a95950f625ab9641e673a1deca8fc9f0e0f2fa58b Homepage: https://cran.r-project.org/package=PROreg Description: CRAN Package 'PROreg' (Patient Reported Outcomes Regression Analysis) It offers a wide variety of techniques, such as graphics, recoding, or regression models, for a comprehensive analysis of patient-reported outcomes (PRO). Especially novel is the broad range of regression models based on the beta-binomial distribution useful for analyzing binomial data with over-dispersion in cross-sectional, longitudinal, or multidimensional response studies (see Najera-Zuloaga J., Lee D.-J. and Arostegui I. (2019) ). Package: r-cran-proscorer Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-proscorertools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-proscorer_0.0.4-1.ca2004.1_all.deb Size: 102240 MD5sum: f756588b5cbc3c782aefb7cb25fe6c95 SHA1: 13c04de8b61b0bc9148f704a27f4394b3a4944a9 SHA256: 746942c4bccc5fb7595039d991f35de3e3680b7d0860b7c716b35ee2a3d4e0c6 SHA512: 5dad47f332a16a76054d6e97b073075a24e151c6ab1ef600b186e48445273ad33a3250910acdea68e08c4f1d2f5ef04487aca31fa770deb562ea2d5da9b919b6 Homepage: https://cran.r-project.org/package=PROscorer Description: CRAN Package 'PROscorer' (Functions to Score Commonly-Used Patient-Reported Outcome (PRO)Measures and Other Psychometric Instruments) An extensible repository of accurate, up-to-date functions to score commonly used patient-reported outcome (PRO), quality of life (QOL), and other psychometric and psychological measures. 'PROscorer', together with the 'PROscorerTools' package, is a system to facilitate the incorporation of PRO measures into research studies and clinical settings in a scientifically rigorous and reproducible manner. These packages and their vignettes are intended to help establish and promote best practices for scoring PRO and PRO-like measures in research. The 'PROscorer' Instrument Descriptions vignette contains descriptions of each instrument scored by 'PROscorer', complete with references. These instrument descriptions are suitable for inclusion in formal study protocol documents, grant proposals, and manuscript Method sections. Each 'PROscorer' function is composed of helper functions from the 'PROscorerTools' package, and users are encouraged to contribute new functions to 'PROscorer'. More scoring functions are currently in development and will be added in future updates. Package: r-cran-proscorertools Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-proscorertools_0.0.4-1.ca2004.1_all.deb Size: 76280 MD5sum: 4417a4b7a28b86dc593e8dcc1d4a681b SHA1: c8195d43f27eb4bc247b8e83e9fd03efdefa1822 SHA256: 8457e07cf54fa6179cb2e3df06991a9f270e9d2941a1a2475b6da54e0b82d7f8 SHA512: 03e11f6559b549c39c3a920679a98686245846f131edbca3b1a85852bd14ed3578427717691ed858915bbda7b33dd8cdf3b0960142f59a972008a4777b030dfd Homepage: https://cran.r-project.org/package=PROscorerTools Description: CRAN Package 'PROscorerTools' (Tools to Score Patient-Reported Outcome (PRO) and OtherPsychometric Measures) Provides a reliable and flexible toolbox to score patient-reported outcome (PRO), Quality of Life (QOL), and other psychometric measures. The guiding philosophy is that scoring errors can be eliminated by using a limited number of well-tested, well-behaved functions to score PRO-like measures. The workhorse of the package is the 'scoreScale' function, which can be used to score most single-scale measures. It can reverse code items that need to be reversed before scoring and pro-rate scores for missing item data. Currently, three different types of scores can be output: summed item scores, mean item scores, and scores scaled to range from 0 to 100. The 'PROscorerTools' functions can be used to write new functions that score more complex measures. In fact, 'PROscorerTools' functions are the building blocks of the scoring functions in the 'PROscorer' package (which is a repository of functions that score specific commonly-used instruments). Users are encouraged to use 'PROscorerTools' to write scoring functions for their favorite PRO-like instruments, and to submit these functions for inclusion in 'PROscorer' (a tutorial vignette will be added soon). The long-term vision for the 'PROscorerTools' and 'PROscorer' packages is to provide an easy-to-use system to facilitate the incorporation of PRO measures into research studies in a scientifically rigorous and reproducible manner. These packages and their vignettes are intended to help establish and promote "best practices" for scoring and describing PRO-like measures in research. Package: r-cran-prosgpv Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3714 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-brglm2, r-cran-mass, r-cran-survival Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-prosgpv_1.0.0-1.ca2004.1_all.deb Size: 2335304 MD5sum: e85c4f53f607cf72823d1a39f8b32c09 SHA1: 188f17bda75489bcf68cb866816d0e2e0734d2a3 SHA256: 27302aedc9d13b7497ff66ab3d4bd608fc09285a2035d367553ef3f1548ee50e SHA512: 76a78c48e7695cd94aed5000367c193d86437ce6f1d2b50cc2895a1e999107e2dc99eea502affb9f8f4dcf7842bc9c1bac0fe725d64f018c16ba2fbb7fb3612d Homepage: https://cran.r-project.org/package=ProSGPV Description: CRAN Package 'ProSGPV' (Penalized Regression with Second-Generation P-Values) Implementation of penalized regression with second-generation p-values for variable selection. The algorithm can handle linear regression, GLM, and Cox regression. S3 methods print(), summary(), coef(), predict(), and plot() are available for the algorithm. Technical details can be found at Zuo et al. (2021) . Package: r-cran-prosper Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 323 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Filename: pool/dists/focal/main/r-cran-prosper_0.3.3-1.ca2004.1_all.deb Size: 259176 MD5sum: ff28080b73b5aba7a1ebc59ef61e6530 SHA1: 08205566033896bf3b1e3e76bc5f7ed09757f70c SHA256: 70ad003dbcac1eafe04b175b4f81118e60308906bc9de900c16307aedfec6a1b SHA512: 3c5889ecfeb1ef5949765ebef968c0d37bbe21bd3621a0fef36325713ea51021011c0430aa71ab5e8851c83d61c350e0708d91ab434cad6fb6beb8443214991a Homepage: https://cran.r-project.org/package=PROSPER Description: CRAN Package 'PROSPER' (Simulation of Weed Population Dynamics) An environment to simulate the development of annual plant populations with regard to population dynamics and genetics, especially herbicide resistance. It combines genetics on the individual level (Renton et al. 2011) with a stochastic development on the population level (Daedlow, 2015). Renton, M, Diggle, A, Manalil, S and Powles, S (2011) Daedlow, Daniel (2015, doctoral dissertation: University of Rostock, Faculty of Agriculture and Environmental Sciences.) Package: r-cran-prosportsdraftdata Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5005 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-prosportsdraftdata_1.0.3-1.ca2004.1_all.deb Size: 2565316 MD5sum: 42d8021fab96e81c5ae70e36a7379fe8 SHA1: 855ddd7792a067a65a7a3cf912bb0962a7e6a1d6 SHA256: d4aec87ccfec1ce1b82d93e7c4c6f44da2caa54de38824c6169d1d60d6906319 SHA512: 4fcfde790f8f3dea7982f560d80cc937138d791aaf822a1846c5cd853a14cae4dd050a4d546a0e6c8e03c3c4062438c9a1bf6bf755ccc62269cc743051a91a1e Homepage: https://cran.r-project.org/package=ProSportsDraftData Description: CRAN Package 'ProSportsDraftData' (Professional Sports Draft Data) We provide comprehensive draft data for major professional sports leagues, including the National Football League (NFL), National Basketball Association (NBA), and National Hockey League (NHL). It offers access to both historical and current draft data, allowing for detailed analysis and research on player biases and player performance. The package is useful for sports fans and researchers interested in identifying biases and trends within scouting reports. Created by web scraping data from leading websites that cover professional sports player scouting reports, the package allows users to filter and summarize data for analytical purposes. For further details on the methods used, please refer to Wickham (2022) "rvest: Easily Harvest (Scrape) Web Pages" and Harrison (2023) "RSelenium: R Bindings for Selenium WebDriver" . Package: r-cran-protag Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-rcolorbrewer Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-protag_1.0.0-1.ca2004.1_all.deb Size: 57688 MD5sum: 7136092cbb772e8ea3ca31abd415597d SHA1: 6af98be48dfd788af469568d953da7ed36e9adb1 SHA256: dfd3bacfbab06d0a73dc2d5d6faf8466c7d59b0862448138e266b223d1c149a1 SHA512: 73e32f48ac915a5b34c0b7e63606ef72ea84861e6748a2307e7abf196d2365509e59a981b53a156131b23826637484720fd04efd196e8b44d66c3333fab11d12 Homepage: https://cran.r-project.org/package=protag Description: CRAN Package 'protag' (Search Tagged Peptides & Draw Highlighted Mass Spectra) In a typical protein labelling procedure, proteins are chemically tagged with a functional group, usually at specific sites, then digested into peptides, which are then analyzed using matrix-assisted laser desorption ionization - time of flight mass spectrometry (MALDI-TOF MS) to generate peptide fingerprint. Relative to the control, peptides that are heavier by the mass of the labelling group are informative for sequence determination. Searching for peptides with such mass shifts, however, can be difficult. This package, designed to tackle this inconvenience, takes as input the mass list of two or multiple MALDI-TOF MS mass lists, and makes pairwise comparisons between the labeled groups vs. control, and restores centroid mass spectra with highlighted peaks of interest for easier visual examination. Particularly, peaks differentiated by the mass of the labelling group are defined as a “pair”, those with equal masses as a “match”, and all the other peaks as a “mismatch”.For more bioanalytical background information, refer to following publications: Jingjing Deng (2015) ; Elizabeth Chang (2016) . Package: r-cran-prote Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2193 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-vegan, r-cran-uniprotr, r-cran-stringr, r-cran-missranger, r-cran-car, r-cran-openxlsx, r-cran-tidyr, r-cran-broom, r-cran-reshape2, r-cran-ggpubr, r-cran-ggplot2, r-cran-vim, r-cran-forcats, r-bioc-limma, r-cran-pheatmap Suggests: r-cran-biocmanager, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-prote_1.0.3-1.ca2004.1_all.deb Size: 1920588 MD5sum: 35d97f6fb47b7dd03148b151dad9f8f5 SHA1: f9e9a634c8185767f1665e7e38224fbeb1d960a9 SHA256: b15d37046a530ff88545f47b7b5d5de651b09be07cb52f75667ef22a3eaefb9a SHA512: 9ff0749e823b92232629ed7138461a521f042f0056fc96a4b554d7ec3b8c742b68590e6b4d16d1c9c940584b75880aefaad7123a5e09aceab13c7df628cb5d1f Homepage: https://cran.r-project.org/package=ProtE Description: CRAN Package 'ProtE' (Processing Proteomics Data, Statistical Analysis andVisualization) The 'Proteomics Eye' ('ProtE') offers a comprehensive and intuitive framework for the univariate analysis of label-free proteomics data. By integrating essential data wrangling and processing steps into a single function, 'ProtE' streamlines pairwise statistical comparisons for categorical variables. It provides quality checks and generates publication-ready visualizations, enabling efficient and robust data analysis. 'ProtE' is compatible with proteomics data outputs from 'MaxQuant' (Cox & Mann, (2008) ), 'DIA-NN' (Demichev et al., (2020) ), and 'Proteome Discoverer' (Thermo Fisher Scientific, version 2.5). The package leverages 'ggplot2' for visualization (Wickham, (2016) ) and 'limma' for statistical analysis (Ritchie et al., (2015) ). Package: r-cran-protein8k Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4513 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pryr, r-cran-lattice, r-cran-magick, r-cran-dplyr, r-cran-gridextra, r-cran-ggplot2, r-cran-rjson, r-cran-rlang, r-cran-shiny Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-protein8k_0.0.1-1.ca2004.1_all.deb Size: 2256744 MD5sum: 1a6f2b6f7e76364266f8afcb40d0648e SHA1: 6db403ebdd30049a2a80b141f1af0c11ce9a5c3d SHA256: 6559862f4326d80874dbcb3ba51e1e5d5bb902937c69c698188601e8e632fb04 SHA512: 0ce312522b3ce88076a24cba3b6dd74f5788382ef8e33dd809521bcf1e02c720518e4674ff710fea81ad9c7fbfed9492e52b8c2fa8ecae00bb05f3fda0be13cd Homepage: https://cran.r-project.org/package=protein8k Description: CRAN Package 'protein8k' (Perform Analysis and Create Visualizations of Proteins) Read Protein Data Bank (PDB) files, performs its analysis, and presents the result using different visualization types including 3D. The package also has additional capability for handling Virus Report data from the National Center for Biotechnology Information (NCBI) database. Nature Structural Biology 10, 980 (2003) . US National Library of Medicine (2021) . Package: r-cran-proteinpca Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-proteinpca_0.1.0-1.ca2004.1_all.deb Size: 18048 MD5sum: 82cbb3001ed86c44e3de1222ddd9f011 SHA1: e73121c4233772ca22bb7f60e6ec9530f56b0b3a SHA256: 2c1c6097e83c04c9d63011ddb34f5884b4b415e55f1c38599a94bccfa9adf5d9 SHA512: 03691962add2c2aa09f3b5843dcfdf5bb67238ba84d1b96bc20a18cc679f346997b69938f335d376d349d4edab786aabed677c7bc046a9199474650543e55ea8 Homepage: https://cran.r-project.org/package=ProteinPCA Description: CRAN Package 'ProteinPCA' (Principal Component Analysis (PCA) Tool on Protein ExpressionData) Analysis of protein expression data can be done through Principal Component Analysis (PCA), and this R package is designed to streamline the analysis. This package enables users to perform PCA and it generates biplot and scree plot for advanced graphical visualization. Optionally, it supports grouping/clustering visualization with PCA loadings and confidence ellipses. With this R package, researchers can quickly explore complex protein datasets, interpret variance contributions, and visualize sample clustering through intuitive biplots. For more details, see Jolliffe (2001) , Gabriel (1971) , Zhang et al. (2024) , and Anandan et al. (2022) . 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In particular, this package provides functions to generate synthetic datasets, execute Bayesian differential analysis methods, and display results as, described in the associated article Marie Chion and Arthur Leroy (2023) . Package: r-cran-proteomicdesign Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-proteomicdesign_2.0-1.ca2004.1_all.deb Size: 129124 MD5sum: bad8457ac657de1f0a91dec49f616e8f SHA1: 1970e327ba543df2bc1366163a7c05e8018efa66 SHA256: 6c4709a7da967bb18535438c08502f2337606a476eacaceff0d53a11682ea619 SHA512: da38269f4fbc7a90330fe3f9dd0dc4a4e376a87ded76e4e345d45548a280447059bacd0b29495bc7517c0042fdd2f9c56b1e934a231249c3e1a5449537dfa40a Homepage: https://cran.r-project.org/package=proteomicdesign Description: CRAN Package 'proteomicdesign' (Optimization of a multi-stage proteomic study) This package provides functions to identify the optimal solution that maximizes numbers of detectable differentiated proteins from a multi-stage clinical proteomic study. 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Adapts and ports features for use with HMMs instead of Position Specific Scoring Matrices, in order to take advantage of more accurate multiple sequence alignment by programs such as 'HHBlits' Remmert et al. (2012) and 'HMMer' Eddy (2011) . Features calculated by this package can be used for protein fold classification, protein structural class prediction, sub-cellular localization and protein-protein interaction, among other tasks. Some examples of features extracted are found in Song et al. (2018) , Jin & Zhu (2021) , Lyons et al. (2015) and Saini et al. (2015) . 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Annals of Applied Statistics. 5(4). 2403-2424 Package: r-cran-proton Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 525 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-digest Filename: pool/dists/focal/main/r-cran-proton_1.0-1.ca2004.1_all.deb Size: 500192 MD5sum: 1279f3b572abd9b2258e25af043ab28b SHA1: 549c4759f56dad97d2b49b092e14409bf2b605ba SHA256: 8a3ae794743466b59f650cb9731589dca448bccfabc46056110fcdf8f28244a1 SHA512: b1f289ac3e8a496b6555c0fd78ecb19bf2f00a3d22c60a523fea8560540014ca1c156f4ad01d4a8e0b294ef5d8819067f7e278f4c9d0855dd35d8f2b8788d30b Homepage: https://cran.r-project.org/package=proton Description: CRAN Package 'proton' (The Proton Game) 'The Proton Game' is a console-based data-crunching game for younger and older data scientists. Act as a data-hacker and find Slawomir Pietraszko's credentials to the Proton server. You have to solve four data-based puzzles to find the login and password. 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For details on hierarchical clustering with prototypes, see Bien and Tibshirani (2011) . This package currently launches the application. 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This package offers the opportunity to import, export, manipulate and play 'ProTracker' module files. Even though the file format could be considered archaic, it still remains popular to this date. This package intends to contribute to this popularity and therewith keeping the legacy of 'ProTracker' and the Commodore Amiga alive. Package: r-cran-protti Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2287 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rlang, r-cran-dplyr, r-cran-stringr, r-cran-magrittr, r-cran-data.table, r-cran-janitor, r-cran-progress, r-cran-purrr, r-cran-tidyr, r-cran-ggplot2, r-cran-forcats, r-cran-tibble, r-cran-plotly, r-cran-ggrepel, r-cran-curl, r-cran-readr, r-cran-lifecycle, r-cran-httr, r-cran-r.utils Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-shiny, r-cran-r3dmol, r-bioc-proda, r-bioc-limma, r-cran-dendextend, r-cran-pheatmap, r-cran-heatmaply, r-cran-furrr, r-cran-future, r-cran-seriation, r-cran-drc, r-cran-igraph, r-cran-stringi, r-bioc-stringdb, r-cran-iq, r-cran-scales, r-cran-farver, r-cran-ggforce, r-cran-xml2, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-protti_0.9.1-1.ca2004.1_all.deb Size: 1724584 MD5sum: 067c800f9ff6d8ea582926899469419f SHA1: a9a3eab309c564cf7706d3eb39d7356d85761ee5 SHA256: b99f8a5b6bb53b36a58f67bfcd91f04e06538820cac9bd260512f347b5fdb75c SHA512: 08ae159eaf287735fbc4ebcc1cbef8f5bbb6c1040d1f541bd135439dc9cf664e379e319dba90338e75b93eab1d302f34d9d3a3549f1a7bb8519b903c47417f7c Homepage: https://cran.r-project.org/package=protti Description: CRAN Package 'protti' (Bottom-Up Proteomics and LiP-MS Quality Control and DataAnalysis Tools) Useful functions and workflows for proteomics quality control and data analysis of both limited proteolysis-coupled mass spectrometry (LiP-MS) (Feng et. al. (2014) ) and regular bottom-up proteomics experiments. Data generated with search tools such as 'Spectronaut', 'MaxQuant' and 'Proteome Discover' can be easily used due to flexibility of functions. Package: r-cran-proustr Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3032 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-rlang, r-cran-tidyr, r-cran-tokenizers, r-cran-snowballc, r-cran-attempt Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-proustr_0.4.0-1.ca2004.1_all.deb Size: 2973920 MD5sum: 5bc1e3755df5d4947d26d1e1214d6710 SHA1: 849b1ad1425fb8610d7161c3f7d706a487df5393 SHA256: bb262d773b3eee9901fd1dfb2a0ec73cce294b89e2c71e1ccd29b80cc93b6a9d SHA512: 2265e47648c3cffcab35cfae42aba6d79f59ea791defc640feb6487b4d75886dff7cf416fcc97a24f4c80b3deadc423c368dcb4bc25cbc25caf2c53c3b066f48 Homepage: https://cran.r-project.org/package=proustr Description: CRAN Package 'proustr' (Tools for Natural Language Processing in French) Tools for Natural Language Processing in French and texts from Marcel Proust's collection "A La Recherche Du Temps Perdu". The novels contained in this collection are "Du cote de chez Swann ", "A l'ombre des jeunes filles en fleurs","Le Cote de Guermantes", "Sodome et Gomorrhe I et II", "La Prisonniere", "Albertine disparue", and "Le Temps retrouve". Package: r-cran-provdebugr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 440 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-provgraphr, r-cran-provparser, r-cran-textutils Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-provdebugr_1.0.1-1.ca2004.1_all.deb Size: 147420 MD5sum: ce884baf2ea4cddede3f427756cf845a SHA1: f74a84b2cbba60371b0b42647b98e44eaede0c91 SHA256: ebb2c7b8d1627f91aff9b831bcf363144a8a73ffcde51323ef5c53ab0d906132 SHA512: c691ce80e36646772fa520de3087201eb6914e66b17c46b580b4f3f86a19522bd07e5a4d90583f3435dae418701b196c0714fe85b184186bec7eeb53dbe1fcdb Homepage: https://cran.r-project.org/package=provDebugR Description: CRAN Package 'provDebugR' (A Time-Travelling Debugger) Uses provenance post-execution to help the user understand and debug their script by providing functions to look at intermediate steps and data values, their forwards and backwards lineage, and to understand the steps leading up to warning and error messages. 'provDebugR' uses provenance produced by 'rdtLite' (available on CRAN), stored in PROV-JSON format. Package: r-cran-provenance Architecture: all Version: 4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1177 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Suggests: r-cran-transport, r-cran-t4transport Filename: pool/dists/focal/main/r-cran-provenance_4.4-1.ca2004.1_all.deb Size: 822832 MD5sum: 8e36a9480928690d3474bad61fac115b SHA1: ae94bac7d8fe0bfde4d8895a58b2aa3fd6689d58 SHA256: e174a41ac820895ffa6aa446a3c0cdf3bf521a283d8947b89f4b070de048d510 SHA512: bd7281a9ae7f447f2a348dd25a318ae6c131a4306bb02abf52105ce532683c280070abef4354c1b594ff91a9263aa64bd0e7b70cb4bdd69de50dc321fdc9b105 Homepage: https://cran.r-project.org/package=provenance Description: CRAN Package 'provenance' (Statistical Toolbox for Sedimentary Provenance Analysis) Bundles a number of established statistical methods to facilitate the visual interpretation of large datasets in sedimentary geology. Includes functionality for adaptive kernel density estimation, principal component analysis, correspondence analysis, multidimensional scaling, generalised procrustes analysis and individual differences scaling using a variety of dissimilarity measures. Univariate provenance proxies, such as single-grain ages or (isotopic) compositions are compared with the Kolmogorov-Smirnov, Kuiper, Wasserstein-2 or Sircombe-Hazelton L2 distances. Categorical provenance proxies such as chemical compositions are compared with the Aitchison and Bray-Curtis distances,and count data with the chi-square distance. Varietal data can either be converted to one or more distributional datasets, or directly compared using the multivariate Wasserstein distance. Also included are tools to plot compositional and count data on ternary diagrams and point-counting data on radial plots, to calculate the sample size required for specified levels of statistical precision, and to assess the effects of hydraulic sorting on detrital compositions. Includes an intuitive query-based user interface for users who are not proficient in R. Package: r-cran-proverbs Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 432 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-crayon, r-cran-httr2, r-cran-glue, r-cran-lubridate, r-cran-purrr, r-cran-rvest, r-cran-stringr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-proverbs_0.4.0-1.ca2004.1_all.deb Size: 320532 MD5sum: 00a7595b044a9d482dd6808ced67e50c SHA1: 9f53de751b9515688724d9841bed8f10e8673341 SHA256: 5913ec7c38b9f0859da85aecdf3c39c9c3ecb8c195030b39b09023b7a6a6f61f SHA512: c41ed04aba27fdf1565b57ea849ddcf9817d8b6d9af258ed1c60a2a40407290260c820d34956fd6de7e6eba36487342cda812fe4739b469aabc55c723cb72311 Homepage: https://cran.r-project.org/package=proverbs Description: CRAN Package 'proverbs' (Print a Daily Bible Proverb to Console) A simple package to grab a Bible proverb corresponding to the day of the month. Package: r-cran-provexplainr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 244 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-provparser, r-cran-diffobj, r-cran-digest, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-provexplainr_1.1.1-1.ca2004.1_all.deb Size: 68608 MD5sum: 06f2a6328543ead22d606c74b709b90a SHA1: e1bdff5027eec0b8f324a2249a5bf8686e795870 SHA256: 016fc9c3186d30186ddda116e407cc2102ccb8da36752e772b1d80e38ac05fe4 SHA512: f1e7bc6afb3c276780a66a8b83d68b00e1dcada664ead91d7006e1d19fed7ba046959f6af79ff1ac47073993b62a205ce60c0633c1cca5dcdf765679576e49b2 Homepage: https://cran.r-project.org/package=provExplainR Description: CRAN Package 'provExplainR' (Compare Provenance Collections to Explain Changed Script Outputs) Inspects provenance collected by the 'rdt' or 'rdtLite' packages, or other tools providing compatible PROV JSON output created by the execution of a script, and find differences between two provenance collections. Factors under examination included the hardware and software used to execute the script, versions of attached libraries, use of global variables, modified inputs and outputs, and changes in main and sourced scripts. Based on detected changes, 'provExplainR' can be used to study how these factors affect the behavior of the script and generate a promising diagnosis of the causes of different script results. More information about 'rdtLite' and associated tools is available at and Barbara Lerner, Emery Boose, and Luis Perez (2018), Using Introspection to Collect Provenance in R, Informatics, . Package: r-cran-provgraphr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 251 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-igraph, r-cran-matrix, r-cran-provparser Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-provgraphr_1.0.1-1.ca2004.1_all.deb Size: 102792 MD5sum: 70cd8b12673213d131c731e44ca9041d SHA1: be9a7c54ae75779e8045e3f3e43c0e24afddd91f SHA256: bd842076c84dfe39c6acbc9853f7f50ffa589a502afa6a687fe64be85623fc62 SHA512: 2b71848246830dc18849261daf887fdf85dc58298a639728a041d9d5cad44d752331cb652dc36c43f4d5120d9ce5705c02b8e27b50bd87e7abc395aabe33fa07 Homepage: https://cran.r-project.org/package=provGraphR Description: CRAN Package 'provGraphR' (Creates Adjacency Matrices for Lineage Searches) Creates and manages a provenance graph corresponding to the provenance created by the 'rdtLite' package, which collects provenance from R scripts. 'rdtLite' is available on CRAN. The provenance format is an extension of the W3C PROV JSON format (). The extended JSON provenance format is described in . Package: r-cran-provparser Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 330 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-provparser_1.0-1.ca2004.1_all.deb Size: 143556 MD5sum: 3b098ad8a56b51632e94d6c1e37cedc1 SHA1: 1d7179a3ce4bf5ab11b895af9e5ce5343234ad7f SHA256: f92a86b33cfdc8f8ea98c30b9bd73581bae93e7b0fffb45d28e0cd55b9e2f9ac SHA512: 4e62bbaaabc837b3820c6c8e12311eb90c1e67f4d264cf923d665253a4fe29e22d631ca6adbfc6f6bfc2f0f29fc51f20a6c8acaaed8219aa77f75e8543eb3776 Homepage: https://cran.r-project.org/package=provParseR Description: CRAN Package 'provParseR' (Pulls Information from Prov.Json Files) R functions to access provenance information collected by 'rdt' or 'rdtLite'. The information is stored inside a 'ProvInfo' object and can be accessed through a collection of functions that will return the requested data. The exact format of the JSON created by 'rdt' and 'rdtLite' is described in . Package: r-cran-provsummarizer Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 191 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-provparser Suggests: r-cran-digest, r-cran-knitr, r-cran-rdtlite, r-cran-testthat Filename: pool/dists/focal/main/r-cran-provsummarizer_1.5.1-1.ca2004.1_all.deb Size: 53052 MD5sum: 1d2c18d076b3553fc84c1067a33d61b4 SHA1: aee5540c0597949bda3672c22088f88d5c8d4828 SHA256: 64a84ffc6078456373af7ca2018ea497f38669c4163c47311a703166587a6e49 SHA512: c5e76585e5c5ec70d28b044300f22de1af9c6a3634a2e071126f4a35bbac227ffe7dd860c3299ceb9f6316527d70e42e5c921de1457cbb7eb80343252d141027 Homepage: https://cran.r-project.org/package=provSummarizeR Description: CRAN Package 'provSummarizeR' (Summarizes Provenance Related to Inputs and Outputs of a Scriptor Console Commands) Reads the provenance collected by the 'rdtLite' or 'rdt' packages, or other tools providing compatible PROV JSON output, created by the execution of a script or a console session, and provides a human-readable summary identifying the input and output files, the scripts used (if any), errors and warnings produced, and the environment in which it was executed. It can also optionally package all the files into a zip file. The exact format of the PROV JSON file created by 'rdtLite' and 'rdt' is described in . More information about 'rdtLite' and associated tools is available at and Lerner, Boose, and Perez (2018), Using Introspection to Collect Provenance in R, Informatics, . Package: r-cran-provtracer Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-provparser Suggests: r-cran-digest, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-provtracer_1.0-1.ca2004.1_all.deb Size: 42232 MD5sum: 8b50293dcbd76beae95e2ea5c34576c4 SHA1: d862c5dcf78a1a6ac91b4c20f6c7911347513263 SHA256: 33df643ba5b0f2c6d07aa188aad46d61d9896e1fc2a12fe168dab292e2f92ceb SHA512: 297c04d4d9dfb8bad4ec5cfa0e3399a8134da3ef5bba74a3be64bd04dc90b45ec773ce6b7a0c26c5c7ddba63aa4ec4609841a6c42d4b969b4bf7159a78f3b7f7 Homepage: https://cran.r-project.org/package=provTraceR Description: CRAN Package 'provTraceR' (Uses Provenance to Trace File Lineage for One or more R Scripts) Uses provenance collected by 'rdtLite' package or comparable tool to display information about input files, output files, and exchanged files for a single R script or a series of R scripts. Package: r-cran-provviz Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3481 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-rdtlite Filename: pool/dists/focal/main/r-cran-provviz_1.0.9-1.ca2004.1_all.deb Size: 3142780 MD5sum: 31b8aef2b645862d4ca1d7a0ef55db7f SHA1: 965c87e311c3431addebeb56ed009f8a23f02fb1 SHA256: 4c6192e3ebfe997dc8b1acfe7327d8b16015c5be1391de1c0f7a8647e1922e9b SHA512: ff6d109fd13936f3449c3c03b68d04b76bb16ab23aaa459c69b87bfcfd6287f6f35567aa85a3a626a434aa348d084208f8b6ea368b4be80bd439b5760d13342f Homepage: https://cran.r-project.org/package=provViz Description: CRAN Package 'provViz' (Provenance Visualizer) Displays provenance graphically for provenance collected by the 'rdt' or 'rdtLite' packages, or other tools providing compatible PROV JSON output. The exact format of the JSON created by 'rdt' and 'rdtLite' is described in . More information about rdtLite and associated tools is available at and Barbara Lerner, Emery Boose, and Luis Perez (2018), Using Introspection to Collect Provenance in R, Informatics, . Package: r-cran-proxirr Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-proxirr_0.4-1.ca2004.1_all.deb Size: 43596 MD5sum: f1e39dc8f56e4dedf9f8e3ce1b4a1291 SHA1: 7740c52dbec0b4d81157353f47c3b477fab53fa6 SHA256: 65ad5d6896362d6d8a92d901ddbb1ef25336ea4764ea4e6ee285f6c67e3f4971 SHA512: b6db454284960e0e07a750807d72ddbe2db118cbfad7af685097e50eb39d9c670c2b5ff416e2f3cf3dfe6bfd1997c2a94de5f4b30bba721d1f3ebf932eb96c00 Homepage: https://cran.r-project.org/package=proxirr Description: CRAN Package 'proxirr' (Alpha and Beta Proximity to Irreplaceability) Functions to measure Alpha and Beta Proximity to Irreplaceability. The methods for Alpha and Beta irreplaceability were first described in: Baisero D., Schuster R. & Plumptre A.J. Redefining and Mapping Global Irreplaceability. Conservation Biology 2021;1-11. . Package: r-cran-proxreg Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 695 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-bioc-ebimage, r-cran-glmnet Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-proxreg_1.1.2-1.ca2004.1_all.deb Size: 508400 MD5sum: b9aee0a1d1cd44fc0029fca037c6ead1 SHA1: deb00202da78c13eb5b4448fcb0bb16d9f2d4959 SHA256: a0123fa2a8326bae312d893d43878838ef4d96c084bd100f838c43be896be0b7 SHA512: acd7505d1620ffc8180276a8419e2e4f1228c12e14f2b5b95fc979528e6e2212b37340e4584455e8a8da9fd58fe50812022f17300c6652feef4d369d53adfbb6 Homepage: https://cran.r-project.org/package=ProxReg Description: CRAN Package 'ProxReg' (Linear Models for Prediction and Classification using ProximalOperators) Implements optimization techniques for Lasso regression, R.Tibshirani(1996) using Fast Iterative Shrinkage-Thresholding Algorithm (FISTA) and Iterative Shrinkage-Thresholding Algorithm (ISTA) based on proximal operators, A.Beck(2009). The package is useful for high-dimensional regression problems and includes cross-validation procedures to select optimal penalty parameters. Package: r-cran-prozor Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3795 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ahocorasicktrie, r-cran-docopt, r-cran-matrix, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-seqinr, r-cran-stringr, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-prozor_0.3.1-1.ca2004.1_all.deb Size: 2998720 MD5sum: f03148b2ac64c1dfb6d6891c79f2801d SHA1: 2288e507c399007029075803d0802fe538bacd5e SHA256: bf0615754a15ff98f6ae46d53069d273041a5b00ca86a773da7d84e3f577af38 SHA512: bab6b1d0943209f808926628d89cdfbc96260ee51bbaf1fecd149d728cc733ab398acc7394d77e47ed14be92c27249fcc1aa22abf769389a2daf11b2db1000b5 Homepage: https://cran.r-project.org/package=prozor Description: CRAN Package 'prozor' (Minimal Protein Set Explaining Peptide Spectrum Matches) Determine minimal protein set explaining peptide spectrum matches. Utility functions for creating fasta amino acid databases with decoys and contaminants. Peptide false discovery rate estimation for target decoy search results on psm, precursor, peptide and protein level. Computing dynamic swath window sizes based on MS1 or MS2 signal distributions. Package: r-cran-prp Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-prp_0.1.1-1.ca2004.1_all.deb Size: 34796 MD5sum: a08b0870712e7bde2d4f19e582586074 SHA1: 03ebfd5e3a79ef8deb6eaeaad534954f14c176fa SHA256: dff05ca02ed2244f13f3c9ec5489b464e230bd95e27e3400b5a1396c15fe60c2 SHA512: 9f802e2037b8a61294418c10542dc5c2595f41701662e266d38d694f6eb49bd4c7873c5b3428e2197bda4f00114cf39e4a4063cd797315d2cef12ff6a7869d26 Homepage: https://cran.r-project.org/package=PRP Description: CRAN Package 'PRP' (Bayesian Prior and Posterior Predictive Replication Assessment) Utilize the Bayesian prior and posterior predictive checking approach to provide a statistical assessment of replication success and failure. The package is based on the methods proposed in Zhao,Y., Wen X.(2021) . Package: r-cran-prrd Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-config, r-cran-liteq, r-cran-data.table, r-cran-crayon, r-cran-dbi, r-cran-rsqlite Suggests: r-cran-docopt, r-cran-foghorn, r-cran-anytime Filename: pool/dists/focal/main/r-cran-prrd_0.0.6-1.ca2004.1_all.deb Size: 57488 MD5sum: 619865efbdb94bb1b1dcc215bbff8824 SHA1: cf8ddc98b1115553e029c3f3d614432c15a63fba SHA256: 3d45aa0f09ee200eb662d20c9aa88f35d466dc8a837047f22f61b1e81666bd49 SHA512: 033342e578032680ee45260b486096f4576628bdba2d560f8a859e5b271a1873beb22994496e266f9be0f43b08daf7458cb1442d5dcf6a195212a393899f6340 Homepage: https://cran.r-project.org/package=prrd Description: CRAN Package 'prrd' (Parallel Runs of Reverse Depends) Reverse depends for a given package are queued such that multiple workers can run the reverse-dependency tests in parallel. 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In contrast to other implementations, the interpolation between points of the PR curve is done by a non-linear piecewise function. In addition to the areas under the curves, the curves themselves can also be computed and plotted by a specific S3-method. References: Davis and Goadrich (2006) ; Keilwagen et al. (2014) ; Grau et al. (2015) . Package: r-cran-prt Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-assertthat, r-cran-fst, r-cran-data.table, r-cran-vctrs, r-cran-tibble, r-cran-cli, r-cran-pillar, r-cran-crayon, r-cran-backports, r-cran-rlang Suggests: r-cran-testthat, r-cran-xml2, r-cran-covr, r-cran-withr, r-cran-nycflights13, r-cran-rmarkdown, r-cran-knitr, r-cran-bench Filename: pool/dists/focal/main/r-cran-prt_0.2.0-1.ca2004.1_all.deb Size: 105724 MD5sum: b15e10df9ae142f86f6d72a2320eabf3 SHA1: b6c730c1f7be07234adbb199749d77d4c83466e5 SHA256: 5d8c87525e4016dd29b3e1f535ccf8119de737d82f12f6b169d7802511864907 SHA512: 9cbc4b285ddbb91af177366f0c9a8a54e7735fa353694b2556540edfbc7d7e150daee7b6259457ef932c962c7ca80c99e4679993b93605b3224b06bccfbbc870 Homepage: https://cran.r-project.org/package=prt Description: CRAN Package 'prt' (Tabular Data Backed by Partitioned 'fst' Files) Intended for larger-than-memory tabular data, 'prt' objects provide an interface to read row and/or column subsets into memory as data.table objects. 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(2020) . Working examples to decompose shape variation into small-scale and large-scale components, and to decompose the total shape variation into outline and residual shape components are provided. Two landmark datasets are provided, that quantify skull morphology in humans and papionin primates, respectively from Mitteroecker et al. (2020) and Grunstra et al. (2020) . Package: r-cran-przewodnik Architecture: all Version: 0.16.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1773 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pogromcydanych, r-cran-pbimisc Filename: pool/dists/focal/main/r-cran-przewodnik_0.16.12-1.ca2004.1_all.deb Size: 1661452 MD5sum: f7171170ec49e49077b07db8e96c7a42 SHA1: 0b3c43c1cf5e43e7c51c199b2926be3c316519b7 SHA256: a7a86ccd7103cf6bd7cd0996f2795e53e16a78fdff2b26c2eb76e9bffbe61aaf SHA512: fe00c52565e751eef997c87b0ac4d141c574dcd3067545592b4600bf69a5a9fa04e6b1c864a3f449aca81e022210a454207d72948ff4efd6eb0804190a20bebe Homepage: https://cran.r-project.org/package=Przewodnik Description: CRAN Package 'Przewodnik' (Datasets and Functions Used in the Book 'Przewodnik po PakiecieR') Data sets and functions used in the polish book "Przewodnik po pakiecie R" (The Hitchhiker's Guide to the R). See more at . Among others you will find here data about housing prices, cancer patients, running times and many others. 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The functions in this package facilitate bootstrapping for propensity score analysis (PSA). By default, bootstrapping using two classification tree methods (using 'rpart' and 'ctree' functions), two matching methods (using 'Matching' and 'MatchIt' packages), and stratification with logistic regression. A framework is described for users to implement additional propensity score methods. Visualizations are emphasized for diagnosing balance; exploring the correlation relationships between bootstrap samples and methods; and to summarize results. Package: r-cran-psagraphics Architecture: all Version: 2.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rpart Filename: pool/dists/focal/main/r-cran-psagraphics_2.1.3-1.ca2004.1_all.deb Size: 258760 MD5sum: 395805042f10ebcc038ea0d51058a574 SHA1: b54bcfc6855026af94cddd2962a219b36462eb78 SHA256: a96e4e1f93e3b7dddd20876148a2287c1b5256792c681f3dbd6c73700d8bc0a1 SHA512: e8cdd6cd0441f7354ffb0154f6d277688e72082092028b8f18d1c26435a5ac8844499d442fd42a7d2dcb16bcfe6f037a3f30ec929bc931b0e3c225421146c0a2 Homepage: https://cran.r-project.org/package=PSAgraphics Description: CRAN Package 'PSAgraphics' (Propensity Score Analysis Graphics) A collection of functions that primarily produce graphics to aid in a Propensity Score Analysis (PSA). Functions include: cat.psa and box.psa to test balance within strata of categorical and quantitative covariates, circ.psa for a representation of the estimated effect size by stratum, loess.psa that provides a graphic and loess based effect size estimate, and various balance functions that provide measures of the balance achieved via a PSA in a categorical covariate. Package: r-cran-psawr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-tibble Suggests: r-cran-covr, r-cran-testthat, r-cran-vcr Filename: pool/dists/focal/main/r-cran-psawr_0.1.0-1.ca2004.1_all.deb Size: 51352 MD5sum: 9e2664d1f6ce7e72db2910b29c67cdff SHA1: 85c988eb977a620649540cb795ba853e4ad550e2 SHA256: 1a7db45243a1032b57f446528bef6fab8d0e42f3aa803c9bbb90adf930f76841 SHA512: 345e9e5f90b40ae34995521d080787260cbd176e118b63b515b29ec9fe213be9874c1507350dda6cdb27ac494e5986385a3216c0ec4198b5237e4d573d522bf5 Homepage: https://cran.r-project.org/package=PSAWR Description: CRAN Package 'PSAWR' ('Pushshift' API Wrapper for 'Reddit' Submission and CommentSearch) Connects to the API of to search for 'Reddit' comments and submissions. Package: r-cran-psborrow2 Architecture: all Version: 0.0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5373 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-glue, r-cran-posterior, r-cran-generics, r-cran-matrix, r-cran-mvtnorm, r-cran-future, r-cran-simsurv Suggests: r-cran-survival, r-cran-flexsurv, r-cran-eha, r-cran-testthat, r-cran-usethis, r-cran-vdiffr, r-cran-tibble, r-cran-xml2, r-cran-knitr, r-cran-rmarkdown, r-cran-bayesplot, r-cran-matrixcalc, r-cran-weightit, r-cran-matchit, r-cran-bayesppd, r-cran-ggsurvfit, r-cran-gbm, r-cran-ggplot2, r-cran-cobalt, r-cran-table1, r-cran-gt, r-cran-gtsummary Filename: pool/dists/focal/main/r-cran-psborrow2_0.0.4.0-1.ca2004.1_all.deb Size: 3121960 MD5sum: 38f7c7f301d7461b721ccb8007f42576 SHA1: 9ab5698b5c37d0a008fda8c6889813c8beac5308 SHA256: 57d96941637473ad596c6f5f8646662550c2b9a0f03f46e23d0eb409baaa57a9 SHA512: 3e87557a62241780a023ad107fab6bf6ac5e0cacb6a03a4ab12928019ebdf809dec01c39795e2da4794b78b22dcc76e1bee932b0bbe5f2e3e1549f08b3dc224b Homepage: https://cran.r-project.org/package=psborrow2 Description: CRAN Package 'psborrow2' (Bayesian Dynamic Borrowing Analysis and Simulation) Bayesian dynamic borrowing is an approach to incorporating external data to supplement a randomized, controlled trial analysis in which external data are incorporated in a dynamic way (e.g., based on similarity of outcomes); see Viele 2013 for an overview. This package implements the hierarchical commensurate prior approach to dynamic borrowing as described in Hobbes 2011 . There are three main functionalities. First, 'psborrow2' provides a user-friendly interface for applying dynamic borrowing on the study results handles the Markov Chain Monte Carlo sampling on behalf of the user. Second, 'psborrow2' provides a simulation framework to compare different borrowing parameters (e.g. full borrowing, no borrowing, dynamic borrowing) and other trial and borrowing characteristics (e.g. sample size, covariates) in a unified way. Third, 'psborrow2' provides a set of functions to generate data for simulation studies, and also allows the user to specify their own data generation process. This package is designed to use the sampling functions from 'cmdstanr' which can be installed from . 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Both tumor-normal paired and tumor-only analyses are supported. Package: r-cran-pscore Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-reshape2, r-cran-lavaan, r-cran-jwileymisc Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pscore_0.4.0-1.ca2004.1_all.deb Size: 208064 MD5sum: f6e874fcd11841252f277edc30723e75 SHA1: d3352b4e3e19a97c43c6791f098b91bee78ffdaa SHA256: 2b4f061f935ab118159894bb75b062523558fff9aa96b645258987b6379eaf05 SHA512: c2842f9ef00408b7c079bd073730d3c8d05089f17772878c2810c455c02c2f7635fe81d9212647bd18ce2062c8317da7ccda3fc601a82544b55ce8f24c4fa968 Homepage: https://cran.r-project.org/package=pscore Description: CRAN Package 'pscore' (Standardizing Physiological Composite Risk Endpoints) Provides a number of functions to simplify and automate the scoring, comparison, and evaluation of different ways of creating composites of data. It is particularly aimed at facilitating the creation of physiological composites of metabolic syndrome symptom score (MetSSS) and allostatic load (AL). Provides a wrapper to calculate the MetSSS on new data using the Healthy Hearts formula. Package: r-cran-pscr Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-survival, r-cran-pracma, r-cran-vgam Suggests: r-cran-mstate Filename: pool/dists/focal/main/r-cran-pscr_1.1-1.ca2004.1_all.deb Size: 39196 MD5sum: 74fa89dc08cc644a276e4c159d19bde5 SHA1: f624910adbaa2a88eeb58bae7f1f0019cbf77b75 SHA256: bb86b430c2eb322d31c593207ea818ebcd420b794e54e42976d3741d5b3660f1 SHA512: 545c572c17db8e2d13160b517198163aa1467dfb03825154519c4800f9252a51a27eea37d49022748d6c193a76289b87be0c718403a0c436922acca5cd0a0959 Homepage: https://cran.r-project.org/package=PScr Description: CRAN Package 'PScr' (Estimation for the Power Series Cure Rate Model) Provide estimation for particular cases of the power series cure rate model . For the distribution of the concurrent causes the alternative models are the Poisson, logarithmic, negative binomial and Bernoulli (which are includes in the original work), the polylogarithm model and the Flory-Schulz . The estimation procedure is based on the EM algorithm discussed in . For the distribution of the time-to-event the alternative models are slash half-normal, Weibull, gamma and Birnbaum-Saunders distributions. Package: r-cran-psda Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 539 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-rgeos, r-cran-plyr, r-cran-sp, r-cran-raster Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-psda_1.4.0-1.ca2004.1_all.deb Size: 461060 MD5sum: d7fedfbd9b969d682d397c044c60dbbd SHA1: 3d60d59555208ad268614d399e8c056fe7a7829b SHA256: d3a58e2565a911cf0799db3bc7b2f8c8c10047b9cc72b32f04e25b45d1a23868 SHA512: 2f0b90e2bef865d18bfb5634da70cabf9a17f7ba912d945463504720fc587619a42f0da70d9e3e33d15a8e86b35aa16cf006f0a4b6b74988b3a196843b5e0e6e Homepage: https://cran.r-project.org/package=psda Description: CRAN Package 'psda' (Polygonal Symbolic Data Analysis) A toolbox in symbolic data framework as a statistical learning and data mining solution for symbolic polygonal data analysis. This study is a new approach in data analysis and it was proposed by Silva et al. (2019) . The package presents the estimation of main descriptive statistical measures, e.g, mean, covariance, variance, correlation and coefficient of variation. In addition, a method to obtain polygonal data from classical data is presented. Empirical probability distribution function based on symbolic polygonal histogram and a regression model with its main measures are presented. Package: r-cran-psdata Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-countrycode, r-cran-datacombine, r-cran-reshape2, r-cran-rio, r-cran-xlsx Filename: pool/dists/focal/main/r-cran-psdata_0.2.2-1.ca2004.1_all.deb Size: 71664 MD5sum: 27f2fac3743f3650a9d8ce71619d54e2 SHA1: 81ba83397407af1449a7f701806c4b62c894f8a3 SHA256: 04f36e903f19a16684260b686596f54f01dde1d35e194f620ccfbb7db66e3f31 SHA512: 5eab9c60c8b893a5d6cd7988a986df935bfacc688d635c0ddb8b5ef93e684b803889c912f49e663d8ac79bff2f8112ce92ce321ffc924a1f204392aecb6496a8 Homepage: https://cran.r-project.org/package=psData Description: CRAN Package 'psData' (Download Regularly Maintained Political Science Data Sets) This R package includes functions for gathering commonly used and regularly maintained data set in political science. It also includes functions for combining components from these data sets into variables that have been suggested in the literature, but are not regularly maintained. Package: r-cran-psdistr Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pracma Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-psdistr_0.0.1-1.ca2004.1_all.deb Size: 88392 MD5sum: dfdfa3968cb22fd2b11387e9669997c6 SHA1: 8f8224d3ef6c251fabe02269792a6e18bccd4da2 SHA256: 984e8ac46af0291438c32e7a4f4d715f0dfda7a0848f4685ca3a79ab9174b13b SHA512: ede7c1fc788e0cb6f0569125ad1234e414618608c1b740f97ae3f4f97dfbe522f7e373dd00c1f77c32594b585de179b27d09e494c2c2d78b9035c1c5e2a87abd Homepage: https://cran.r-project.org/package=PSDistr Description: CRAN Package 'PSDistr' (Distributions Derived from Normal Distribution) Presentation of distributions such as: two-piece power normal (TPPN), plasticizing component (PC), DS normal (DSN), expnormal (EN), Sulewski plasticizing component (SPC), easily changeable kurtosis (ECK) distributions. Density, distribution function, quantile function and random generation are presented. For details on this method see: Sulewski (2019) , Sulewski (2021) , Sulewski (2021) , Sulewski (2022) <"New members of the Johnson family of probability dis-tributions: properties and application">, Sulewski, Volodin (2022) , Sulewski (2023) . Package: r-cran-psdr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 865 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-devtools, r-cran-ggplot2, r-cran-qpdf Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-psdr_1.0.1-1.ca2004.1_all.deb Size: 215492 MD5sum: aa9b9b4713292737972a206612da8cb6 SHA1: 3604029e88d4b86899509818f5f591ba19b92a5d SHA256: 0c4c40c832787a9958e5c2b275a1dacc699c905c55c61ab59499570b5482619a SHA512: 52e19855ce811f76d7bffe0ff60efb4146e7896871509c54bc2105b7b2e6c4dd1a21b51cc7c6c5b65efcea10ddf64ff0dbf17741eba33725f32849fb1c311ace Homepage: https://cran.r-project.org/package=psdr Description: CRAN Package 'psdr' (Use Time Series to Generate and Compare Power Spectral Density) Functions that allow you to generate and compare power spectral density (PSD) plots given time series data. Fast Fourier Transform (FFT) is used to take a time series data, analyze the oscillations, and then output the frequencies of these oscillations in the time series in the form of a PSD plot.Thus given a time series, the dominant frequencies in the time series can be identified. Additional functions in this package allow the dominant frequencies of multiple groups of time series to be compared with each other. To see example usage with the main functions of this package, please visit this site: . The mathematical operations used to generate the PSDs are described in these sites: . . Package: r-cran-pseudo Architecture: all Version: 1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kmsurv, r-cran-geepack Filename: pool/dists/focal/main/r-cran-pseudo_1.4.3-1.ca2004.1_all.deb Size: 43200 MD5sum: 93a4a50502476a434edfc5114eb0726a SHA1: 9ea374e9fd05e8db3286f51ddea3f898d6a55fef SHA256: 32f5f3a4982cd301e2b7c04af44a52c229b3ab65894f418376b81bd193f708aa SHA512: 3ede00e0f27e5e48ee99fefd8af2f81f6a991bb6b668f2f5a2695a8e2d2c669a0ca2ef9308544654caeb5c0be49a241fa395730216116f02544244db5be1b080 Homepage: https://cran.r-project.org/package=pseudo Description: CRAN Package 'pseudo' (Computes Pseudo-Observations for Modeling) Various functions for computing pseudo-observations for censored data regression. Computes pseudo-observations for modeling: competing risks based on the cumulative incidence function, survival function based on the restricted mean, survival function based on the Kaplan-Meier estimator see Klein et al. (2008) . Package: r-cran-pseudobiber Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-quanteda, r-cran-quanteda.textstats, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-magrittr Suggests: r-cran-testthat, r-cran-udpipe Filename: pool/dists/focal/main/r-cran-pseudobiber_1.2-1.ca2004.1_all.deb Size: 96268 MD5sum: 3f9b7e4fccd0a579b89c33027f902029 SHA1: 74d7e6ebfa2b2593a9a9a871305d28e0435ea4cc SHA256: c7240addfbed636422abe25ce4f3056ced2953415ead4bb605860f3351c2b9d7 SHA512: d12e5eaad26a999f030d5e69c5f1a746826d523ed19f0658f64b9c8387697e9bb233d77a23211f926837cf3d596e9ab09752d6a65d5742555ad3610a069d73e5 Homepage: https://cran.r-project.org/package=pseudobibeR Description: CRAN Package 'pseudobibeR' (Aggregate Counts of Linguistic Features) Calculates the lexicogrammatical and functional features described by Biber (1985) and widely used for text-type, register, and genre classification tasks. Package: r-cran-pseudohouseholds Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4642 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-furrr, r-cran-sf Suggests: r-cran-covr, r-cran-future, r-cran-ggplot2, r-cran-ggspatial, r-cran-knitr, r-cran-purrr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-pseudohouseholds_0.1.1-1.ca2004.1_all.deb Size: 4646108 MD5sum: 7d330478f2357d9e1ac593e015868121 SHA1: 2b06cbaa6896c50073afeea9f5008349f6208bdc SHA256: 4d7679a341e4c97f2182c23404e299dbeeab0f8c6cd1c4ddb1aec73858a1a759 SHA512: 64db7acd55305aa52a72322d3c96a665d24226fe998977e4f2beb9d1f134d4eadae2013d8df3c7c65ea43f89ad3ced9d90cbcc008fd270b3c7f94be1953f63c1 Homepage: https://cran.r-project.org/package=pseudohouseholds Description: CRAN Package 'pseudohouseholds' (Generate Pseudohouseholds on Road Networks in Regions) Given an arbitrary set of spatial regions and road networks, generate a set of representative points, or pseudohouseholds, that can be used for travel burden analysis. Parallel processing is supported. Package: r-cran-pseval Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 459 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival Suggests: r-cran-ggplot2, r-cran-testthat, r-cran-knitr, r-cran-printr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pseval_1.3.3-1.ca2004.1_all.deb Size: 262596 MD5sum: a49219de3e57f7f3714bb98842fc9cc5 SHA1: bdb09ca1b60c1a6a66697625bfa37af453ddac9b SHA256: fa586b2b4a93100f05ac788788270a3bd3fd72c599e484babf463b135f69670d SHA512: 84e368790e2d0a950966164cfd6880f026d45665380f39e42c2c42122032fbb51cfbb47010babcf20f8428c7d6b9d85edfe955e4cff14dfd2fc940afa9b2f212 Homepage: https://cran.r-project.org/package=pseval Description: CRAN Package 'pseval' (Methods for Evaluating Principal Surrogates of TreatmentResponse) Contains the core methods for the evaluation of principal surrogates in a single clinical trial. Provides a flexible interface for defining models for the risk given treatment and the surrogate, the models for integration over the missing counterfactual surrogate responses, and the estimation methods. Estimated maximum likelihood and pseudo-score can be used for estimation, and the bootstrap for inference. A variety of post-estimation summary methods are provided, including print, summary, plot, and testing. Package: r-cran-psf Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-cluster Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-forecast Filename: pool/dists/focal/main/r-cran-psf_0.5-1.ca2004.1_all.deb Size: 107180 MD5sum: 81d0a5a127ef3fe94d18a4d87553dafe SHA1: 8f9325f3268a2c5f3a476729a890aca4799e03c5 SHA256: 0207c292455768887e146a14ac7af28d601c2dc1b09cac6a4cf9746fb700f46f SHA512: 6a6319858a173954e9ad20291c6806d799516c971afe6700da72059ab3fa8bd436f58d91820bf9ad0125163d22205eab5ad0a3ee75a9d2e565d5e74019935fac Homepage: https://cran.r-project.org/package=PSF Description: CRAN Package 'PSF' (Forecasting of Univariate Time Series Using the PatternSequence-Based Forecasting (PSF) Algorithm) Pattern Sequence Based Forecasting (PSF) takes univariate time series data as input and assist to forecast its future values. This algorithm forecasts the behavior of time series based on similarity of pattern sequences. Initially, clustering is done with the labeling of samples from database. The labels associated with samples are then used for forecasting the future behaviour of time series data. The further technical details and references regarding PSF are discussed in Vignette. Package: r-cran-psfmi Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1178 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-norm, r-cran-survival, r-cran-mitools, r-cran-proc, r-cran-rms, r-cran-magrittr, r-cran-rsample, r-cran-mice, r-cran-mitml, r-cran-cvauc, r-cran-dplyr, r-cran-purrr, r-cran-tidyr, r-cran-tibble, r-cran-stringr, r-cran-lme4, r-cran-car Suggests: r-cran-foreign, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-bookdown, r-cran-readr, r-cran-gtools, r-cran-covr Filename: pool/dists/focal/main/r-cran-psfmi_1.4.0-1.ca2004.1_all.deb Size: 885636 MD5sum: 5c76df33c38e02e87a3a5fd698120df9 SHA1: 1f8e41b1ba2f779c5805af3de5e2946a1b7707eb SHA256: e6ae88ac6a3dfc0f4263b026583b1c25043b6798eb2c1eedbca4cba8e6ab4f75 SHA512: abcbf66d7b380258f095f7c3deb7d0f8f926f1cb8120cd7a433433b21cf03938972618c46091fc314569c127b90c12df561c53659f1870ab246f609219da5c08 Homepage: https://cran.r-project.org/package=psfmi Description: CRAN Package 'psfmi' (Prediction Model Pooling, Selection and Performance EvaluationAcross Multiply Imputed Datasets) Pooling, backward and forward selection of linear, logistic and Cox regression models in multiply imputed datasets. Backward and forward selection can be done from the pooled model using Rubin's Rules (RR), the D1, D2, D3, D4 and the median p-values method. This is also possible for Mixed models. The models can contain continuous, dichotomous, categorical and restricted cubic spline predictors and interaction terms between all these type of predictors. The stability of the models can be evaluated using (cluster) bootstrapping. The package further contains functions to pool model performance measures as ROC/AUC, Reclassification, R-squared, scaled Brier score, H&L test and calibration plots for logistic regression models. Internal validation can be done across multiply imputed datasets with cross-validation or bootstrapping. The adjusted intercept after shrinkage of pooled regression coefficients can be obtained. Backward and forward selection as part of internal validation is possible. A function to externally validate logistic prediction models in multiple imputed datasets is available and a function to compare models. For Cox models a strata variable can be included. Eekhout (2017) . Wiel (2009) . Marshall (2009) . Package: r-cran-psgoft Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-moments Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-psgoft_0.0.1-1.ca2004.1_all.deb Size: 26740 MD5sum: 8953f6433c298219ab3e226fcd841773 SHA1: 01a4a42afc6a3ce5421b5987c21d43c30cb3f782 SHA256: ebcb0863b1ca98940d7b13387ba822d3765ad7955c193ad50b99116cb9b58ab6 SHA512: aa52e0f7db41b92b6fc4bfbcd4b6240c37a646308aa07b291dcdcaf3f1699c3d7e59543905732010c804363becd785410b1f70951328ad148e798bdca866d3e1 Homepage: https://cran.r-project.org/package=PSGoft Description: CRAN Package 'PSGoft' (Modified Lilliefors Goodness-of-Fit Normality Test) Presentation of a new goodness-of-fit normality test based on the Lilliefors method. For details on this method see: Sulewski (2019) . Package: r-cran-psharmonize Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1014 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-magrittr, r-cran-purrr, r-cran-rcolorbrewer, r-cran-rlang, r-cran-rmarkdown, r-cran-stringr, r-cran-tidyr Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-psharmonize_0.3.5-1.ca2004.1_all.deb Size: 806476 MD5sum: d748f5d8f4c0e1b8c231b4b535300981 SHA1: 4fc1c0d57b937b5d4ed92d46e7d9e7668b4cc085 SHA256: b6a1e1006a1e288e868a309b38b6c89f98b1bf803876ff2288348bd4290c83a5 SHA512: 8bdf1d642d55a1f2f2a1260bcad156a8fb0637bcbbc704ec7fa21ab0a6ea497ac11c92c45451ef920aea00bed2d9189800c9256cd45749a30907e6a4a82bfe95 Homepage: https://cran.r-project.org/package=psHarmonize Description: CRAN Package 'psHarmonize' (Creates a Harmonized Dataset Based on a Set of Instructions) Functions which facilitate harmonization of data from multiple different datasets. Data harmonization involves taking data sources with differing values, creating coding instructions to create a harmonized set of values, then making those data modifications. 'psHarmonize' will assist with data modification once the harmonization instructions are written. Coding instructions are written by the user to create a "harmonization sheet". This sheet catalogs variable names, domains (e.g. clinical, behavioral, outcomes), provides R code instructions for mapping or conversion of data, specifies the variable name in the harmonized data set, and tracks notes. The package will then harmonize the source datasets according to the harmonization sheet to create a harmonized dataset. Once harmonization is finished, the package also has functions that will create descriptive statistics using 'RMarkdown'. Data Harmonization guidelines have been described by Fortier I, Raina P, Van den Heuvel ER, et al. (2017) . Additional details of our R package have been described by Stephen JJ, Carolan P, Krefman AE, et al. (2024) . Package: r-cran-psica Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rdpack, r-cran-gridbase, r-cran-randomforest, r-cran-rpart, r-cran-partykit, r-cran-party, r-cran-bayestree Filename: pool/dists/focal/main/r-cran-psica_1.0.2-1.ca2004.1_all.deb Size: 59468 MD5sum: 2d554d14fef1193670db8fcf119d0705 SHA1: e71c70b09af924add19dfcbee5f3539e65d9c676 SHA256: f5e0e6a91e1794b83803a9d8468a5b9fda3ad42c31e051e328d47f38ceca2056 SHA512: 9c64ac94880b36f0bf69fcacd2b3cf0f6f34b55b6d91d7f0c709818b8f54c40f1cfe1900b0b3198945807350820fda40f61af3d11a0fe360060aaaf31822fe5a Homepage: https://cran.r-project.org/package=psica Description: CRAN Package 'psica' (Decision Tree Analysis for Probabilistic Subgroup Identificationwith Multiple Treatments) In the situation when multiple alternative treatments or interventions available, different population groups may respond differently to different treatments. This package implements a method that discovers the population subgroups in which a certain treatment has a better effect than the other alternative treatments. This is done by first estimating the treatment effect for a given treatment and its uncertainty by computing random forests, and the resulting model is summarized by a decision tree in which the probabilities that the given treatment is best for a given subgroup is shown in the corresponding terminal node of the tree. Package: r-cran-psidr Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2863 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-rcurl, r-cran-foreign, r-cran-sascii, r-cran-openxlsx, r-cran-futile.logger Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-psidr_2.3-1.ca2004.1_all.deb Size: 1607792 MD5sum: 5621fb632f3e89646ae84f6411abf841 SHA1: e30e1f8acbb2f60fd03905ce510d4e3a4a9126b2 SHA256: 56d664ec04f6096b89927ac763c24c3fba72386763a57e1271f1bb1aeed4522f SHA512: 3697a9579bd9ef92b0ca5d4420def767d7b1dc020f4abc99dbfd514d27dc58e7b386963915519841408a55038aeda0bc8cac05e515bd7152cc49ac1e83e4e536 Homepage: https://cran.r-project.org/package=psidR Description: CRAN Package 'psidR' (Build Panel Data Sets from PSID Raw Data) Makes it easy to build panel data in wide format from Panel Survey of Income Dynamics (PSID) delivered raw data. Downloads data directly from the PSID server using the 'SAScii' package. 'psidR' takes care of merging data from each wave onto a cross-period index file, so that individuals can be followed over time. The user must specify which years they are interested in, and the 'PSID' variable names (e.g. ER21003) for each year (they differ in each year). The package offers helper functions to retrieve variable names from different waves. There are different panel data designs and sample subsetting criteria implemented ("SRC", "SEO", "immigrant" and "latino" samples). More information about the PSID can be obtained at . Package: r-cran-psidread Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4464 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-asciisetupreader, r-cran-dplyr, r-cran-stringr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-diagrammer, r-cran-spelling Filename: pool/dists/focal/main/r-cran-psidread_1.0.3-1.ca2004.1_all.deb Size: 2386840 MD5sum: c1d68c2d3c2befc3505c518e8bbd0722 SHA1: 1bfe206c57122d49461b70e73d2e9037bbb011b5 SHA256: d87c4efb181ada14deb6716720468c76132ead989ae706d77ab0c576149cac67 SHA512: c7c935d7b7700221dad626e2e9ee6dfbc4f6640281e8d3f870fa0314adda7744f4425d285568cc1b7d0a08b3e4570e50c8d7aa4033c1479db64f7ca753c60530 Homepage: https://cran.r-project.org/package=psidread Description: CRAN Package 'psidread' (Streamline Building Panel Data from Panel Study of IncomeDynamics ('PSID') Raw Files) Streamline the management, creation, and formatting of panel data from the Panel Study of Income Dynamics ('PSID') using this user-friendly tool. Simply define variable names and input code book details directly from the 'PSID' official website, and this toolbox will efficiently facilitate the data preparation process, transforming raw 'PSID' files into a well-organized format ready for further analysis. 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The Preference Selection Index Method uses statistical methods to calculate the criteria weights and reflects their relative importance in the final decision-making process, offering an objective and non-subjective solution. This method is beneficial in multi-criteria decision analysis. The 'PSIM' package provides a practical and accessible tool for implementing the Preference Selection Index Method in R. It calculates the weights of criteria and makes the method available to researchers, analysts, and professionals without the need to develop complex calculations manually. More details about the Preference Selection Index Method can be found in Maniya K. and Bhatt M. G.(2010) . 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See . Package: r-cran-pspower Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-pspower_0.1.1-1.ca2004.1_all.deb Size: 28144 MD5sum: 1ce271143bd34152e364c059ef0bae2f SHA1: 30d92f398b23a768996c3677dd300012721752a2 SHA256: 68ecf4898d738a626ffd51f9090f53fc2b673e2783720621be7a1c9cb441b150 SHA512: cb4347f262317d7e12dc3c84b479bfa0eff5017de6539c768a3dcd19f6d3921407287e45fdfc5b0cdd46046f5931e783e7474ad89e03131b8608549f4c6bcdb7 Homepage: https://cran.r-project.org/package=PSpower Description: CRAN Package 'PSpower' (Sample Size Calculation for Propensity Score Analysis) Sample size calculations in causal inference with observational data are increasingly desired. This package is a tool to calculate sample size under prespecified power with minimal summary quantities needed. 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There are functionalities to calculate the power, sample size to estimate or test hypotheses for means and proportions (including test for correlated groups, equivalence, non-inferiority and superiority), association, correlations coefficients, regression coefficients (linear, logistic, gamma, and Cox), linear mixed model, Cronbach's alpha, interobserver agreement, intraclass correlation coefficients, limit of agreement on Bland-Altman plots, area under the curve, sensitivity and specificity incorporating the prevalence of disease. You can also use the online version at . Package: r-cran-pssim Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pssim_0.1.0-1.ca2004.1_all.deb Size: 53380 MD5sum: 3d427ecc616d03b325490d806ae6ec54 SHA1: 9e9f05b8176fdb1f6902dbcc11bbcbfed2f731ec SHA256: 7d8527aba4f22a4c368132fab3af3c6cae8e1f14d97dd796d8ee77a4bdd280e2 SHA512: 4c0e67ba9cb3f4eb2de84b999819531959007d228af8478dd4d129e63c3f6fec21551f5ae30c4e27c2e559507849da3cc9b1656a0615fbee13cd53e9be80e4f3 Homepage: https://cran.r-project.org/package=PSSIM Description: CRAN Package 'PSSIM' (Test of Independence & Image Structural Similarity Measure PSSIM) Test-based Image structural similarity measure and test of independence. This package implements the key functions of two tasks: (1) computing image structural similarity measure PSSIM of Wang, Maldonado and Silwal (2011) ; and (2) test of independence between a response and a covariate in presence of heteroscedastic treatment effects proposed by Wang, Tolos, and Wang (2010) . Package: r-cran-pssm Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 176 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-abind, r-cran-numderiv, r-cran-mhadaptive Filename: pool/dists/focal/main/r-cran-pssm_1.1-1.ca2004.1_all.deb Size: 135940 MD5sum: 414da2cfe87416b6f46ebdfeaf968f12 SHA1: ac73d74c1945310f2d979d6ff7a485fe82649c56 SHA256: e94b7495ca640532b00b1655b0983537b1a7fe7a0cf971d6272d746c95f7e864 SHA512: 510b74434ebb3a4658fb4723a391ee51fa0c32e68be48395b73ea155ba1b0309a211f295223e271344fff15ab97ff1e4ae5d828de86aa4b9eb370253aac4e826 Homepage: https://cran.r-project.org/package=pssm Description: CRAN Package 'pssm' (Piecewise Exponential Model for Time to Progression and Timefrom Progression to Death) Estimates parameters of a piecewise exponential model for time to progression and time from progression to death with interval censoring of the time to progression and covariates for each distribution using proportional hazards. Package: r-cran-pssmcool Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3075 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools, r-cran-infotheo, r-cran-phontools, r-cran-dtt Suggests: r-cran-testthat, r-cran-spelling, r-cran-waveslim, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pssmcool_0.2.4-1.ca2004.1_all.deb Size: 1516316 MD5sum: 3542363f5c7de565a3b40f1af52ad757 SHA1: 272740e5751d6c9e3f7eb2a5a962aadc38e70764 SHA256: d5c800685fe9a02e1650b3dc946e543774367b81ad44b4d5abb53f6cb0942d0e SHA512: 75379661d6f5da0372d8f6c0602ee36fbe3b8a504d2362d30ad5c10cd6c4ff856ee81a11d817a7fd08c7e283ca34c9f7ea7910345018023a7c30d52dd2bd72d9 Homepage: https://cran.r-project.org/package=PSSMCOOL Description: CRAN Package 'PSSMCOOL' (Features Extracted from Position Specific Scoring Matrix (PSSM)) Returns almost all features that has been extracted from Position Specific Scoring Matrix (PSSM) so far, which is a matrix of L rows (L is protein length) and 20 columns produced by 'PSI-BLAST' which is a program to produce PSSM Matrix from multiple sequence alignment of proteins see for mor details. some of these features are described in Zahiri, J., et al.(2013) , Saini, H., et al.(2016) , Ding, S., et al.(2014) , Cheng, C.W., et al.(2008) , Juan, E.Y., et al.(2009) . Package: r-cran-pssmooth Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-osdesign, r-cran-np, r-cran-chngpt, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pssmooth_1.0.3-1.ca2004.1_all.deb Size: 108448 MD5sum: d11fedde81fd03ae4c27f77f2ac2681c SHA1: 3a12bb0ac0210ececb9b4db8dbaabc8e3261ced0 SHA256: 7c0fc33ee219132a80dc80d9041b631058db5fb69e0301b93bf84494e31be0a4 SHA512: 6251bbb9934b21ba6b686cb4749b056cc8052b388b93a19e4656cdbda86bd351465ab9dbe644dcb10c238819b6cc68da4fa7556bcc7bab602cc2e3491cb02979 Homepage: https://cran.r-project.org/package=pssmooth Description: CRAN Package 'pssmooth' (Flexible and Efficient Evaluation of PrincipalSurrogates/Treatment Effect Modifiers) Implements estimation and testing procedures for evaluating an intermediate biomarker response as a principal surrogate of a clinical response to treatment (i.e., principal stratification effect modification analysis), as described in Juraska M, Huang Y, and Gilbert PB (2020), Inference on treatment effect modification by biomarker response in a three-phase sampling design, Biostatistics, 21(3): 545-560 . The methods avoid the restrictive 'placebo structural risk' modeling assumption common to past methods and further improve robustness by the use of nonparametric kernel smoothing for biomarker density estimation. A randomized controlled two-group clinical efficacy trial is assumed with an ordered categorical or continuous univariate biomarker response measured at a fixed timepoint post-randomization and with a univariate baseline surrogate measure allowed to be observed in only a subset of trial participants with an observed biomarker response (see the flexible three-phase sampling design in the paper for details). Bootstrap-based procedures are available for pointwise and simultaneous confidence intervals and testing of four relevant hypotheses. Summary and plotting functions are provided for estimation results. Package: r-cran-pst Architecture: all Version: 0.94.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 682 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-traminer, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-pst_0.94.1-1.ca2004.1_all.deb Size: 479416 MD5sum: 0bf199cf7042f151f35689eee0291c36 SHA1: e91d609cf6e2c426f8a1bf981e934b50cb7547b6 SHA256: bc18da6885faadb6d2df48d5bf085fe7661956af17a8b1c4445b983498e440bf SHA512: 61bde1f0ac918c424d99459ea4dcfd1f24accb3925d3de620ecc9f2068e5da2523cff77e5e062a6f2001c71eb0202fe1a28771089ad52cba28a13f163945c09c Homepage: https://cran.r-project.org/package=PST Description: CRAN Package 'PST' (Probabilistic Suffix Trees and Variable Length Markov Chains) Provides a framework for analysing state sequences with probabilistic suffix trees (PST), the construction that stores variable length Markov chains (VLMC). Besides functions for learning and optimizing VLMC models, the PST library includes many additional tools to analyse sequence data with these models: visualization tools, functions for sequence prediction and artificial sequences generation, as well as for context and pattern mining. The package is specifically adapted to the field of social sciences by allowing to learn VLMC models from sets of individual sequences possibly containing missing values, and by accounting for case weights. The library also allows to compute probabilistic divergence between two models, and to fit segmented VLMC, where sub-models fitted to distinct strata of the learning sample are stored in a single PST. This software results from research work executed within the framework of the Swiss National Centre of Competence in Research LIVES, which is financed by the Swiss National Science Foundation. The authors are grateful to the Swiss National Science Foundation for its financial support. Package: r-cran-pstat Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-pstat_1.2-1.ca2004.1_all.deb Size: 106232 MD5sum: 8dbcf4a58a02e3fde0b6f9568ad47a80 SHA1: 6c47d5909ba44188e84b5fd4cda251c7d3e204f3 SHA256: 1ea06879820ace888f779dffd8743bf791039ba946eb25ee1b07849240671087 SHA512: b9ea0b864f2cf875376b4af01fa962b03c977acd3b5da1fc08de9e9b16854ad5fd13dea9eac78d8a5cc15d0508a06151ab5b382e20b7568ddfdc3e61d4e9dbfa Homepage: https://cran.r-project.org/package=Pstat Description: CRAN Package 'Pstat' (Assessing Pst Statistics) Calculating Pst values to assess differentiation among populations from a set of quantitative traits is the primary purpose of such a package. The bootstrap method provides confidence intervals and distribution histograms of Pst. Variations of Pst in function of the parameter c/h^2 are studied as well. Finally, the package proposes different transformations especially to eliminate any variation resulting from allometric growth (calculation of residuals from linear regressions, Reist standardizations or Aitchison transformation). Package: r-cran-pstest Architecture: all Version: 0.1.3.900-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmx, r-cran-mass Filename: pool/dists/focal/main/r-cran-pstest_0.1.3.900-1.ca2004.1_all.deb Size: 30564 MD5sum: 71506a7298526101a66c85f710b8e22e SHA1: 77af95eefa144c78216dd8663d68b57ecda8f79e SHA256: 22ce35d8b21f596f16f93f3c6e6db8ddf61ce59c1e10088daa6d240c3267fbc3 SHA512: 895c4cc5a17aaf9a60fd0216b8e3c65ce7266fedec59be7abd9dcd5fd594136d15710d705d0836192ae65fb8c30472e4200f19eec1344e53e848cf2a6bd2c4c8 Homepage: https://cran.r-project.org/package=pstest Description: CRAN Package 'pstest' (Specification Tests for Parametric Propensity Score Models) The propensity score is one of the most widely used tools in studying the causal effect of a treatment, intervention, or policy. Given that the propensity score is usually unknown, it has to be estimated, implying that the reliability of many treatment effect estimators depends on the correct specification of the (parametric) propensity score. This package implements the data-driven nonparametric diagnostic tools for detecting propensity score misspecification proposed by Sant'Anna and Song (2019) . Package: r-cran-pstrata Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 446 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-rstan, r-cran-lme4, r-cran-abind, r-cran-dplyr, r-cran-purrr, r-cran-stringr Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-pstrata_0.0.5-1.ca2004.1_all.deb Size: 396640 MD5sum: f8af5dc5b924f38559393f290c3a0230 SHA1: b72ab37503e76a6f6533aa11aea30338537a92ca SHA256: 41d6272e0aebad24b32f7fd6efdec47834bd61b11f3552429eb8c779d853e60a SHA512: 92c0d5ecd126d9224b096c674078b2d1f07df0c622b560efe548a069e42084abd7ef05b55d86d6323d4d0c36e692ca729f0550ecac7ec1435e6c71353813fe7f Homepage: https://cran.r-project.org/package=PStrata Description: CRAN Package 'PStrata' (Principal Stratification Analysis in R) Estimating causal effects in the presence of post-treatment confounding using principal stratification. 'PStrata' allows for customized monotonicity assumptions and exclusion restriction assumptions, with automatic full Bayesian inference supported by 'Stan'. The main function to use in this package is PStrata(), which provides posterior estimates of principal causal effect with uncertainty quantification. Visualization tools are also provided for diagnosis and interpretation. See Liu and Li (2023) for details. 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Package: r-cran-psvmsdr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-psvmsdr_1.0.2-1.ca2004.1_all.deb Size: 94404 MD5sum: eb6981899e05a52a7f202b3c3d4b1530 SHA1: 4bd5011fb86bf9127c98f5cf2074a59c2a5843f9 SHA256: 9f25756af011ba9fc5f7cddddc7e5ec7e40c9385ab4d33c704881ac9fc093c89 SHA512: f85ddfae0881b0a39f8d90e4a05b7860a3ac5ec8fcf3a58f1df4a1673a6527970d57e4f3d97b704337a4687920c081f497e8b35d91ef6a5865c427994a7e936f Homepage: https://cran.r-project.org/package=psvmSDR Description: CRAN Package 'psvmSDR' (Unified Principal Sufficient Dimension Reduction Package) A unified and user-friendly framework for applying the principal sufficient dimension reduction methods for both linear and nonlinear cases. The package has an extendable power by varying loss functions for the support vector machine, even for an user-defined arbitrary function, unless those are convex and differentiable everywhere over the support (Li et al. (2011) ). Also, it provides a real-time sufficient dimension reduction update procedure using the principal least squares support vector machine (Artemiou et al. (2021) ). Package: r-cran-psw Architecture: all Version: 1.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc, r-cran-gtools Filename: pool/dists/focal/main/r-cran-psw_1.1-3-1.ca2004.1_all.deb Size: 127120 MD5sum: 03352e30b38d770f7ca137c82a0f9e7e SHA1: 249a8d7ca769557a00d697c6dd572c72ad202265 SHA256: d139a22315cd23ad5fd50e5e81871cf34cbf84457da2420d365b9dceb5edd168 SHA512: 07b53c50b7e0a554f67ac592be8f6003994ec0e658f0604a16acf2f69fb54f3ca3eda75efaadc206221c549a262876050734b4b72d51ae3869300a03e34dbe8c Homepage: https://cran.r-project.org/package=PSW Description: CRAN Package 'PSW' (Propensity Score Weighting Methods for Dichotomous Treatments) Provides propensity score weighting methods to control for confounding in causal inference with dichotomous treatments and continuous/binary outcomes. It includes the following functional modules: (1) visualization of the propensity score distribution in both treatment groups with mirror histogram, (2) covariate balance diagnosis, (3) propensity score model specification test, (4) weighted estimation of treatment effect, and (5) augmented estimation of treatment effect with outcome regression. The weighting methods include the inverse probability weight (IPW) for estimating the average treatment effect (ATE), the IPW for average treatment effect of the treated (ATT), the IPW for the average treatment effect of the controls (ATC), the matching weight (MW), the overlap weight (OVERLAP), and the trapezoidal weight (TRAPEZOIDAL). Sandwich variance estimation is provided to adjust for the sampling variability of the estimated propensity score. These methods are discussed by Hirano et al (2003) , Lunceford and Davidian (2004) , Li and Greene (2013) , and Li et al (2016) . Package: r-cran-psweight Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 860 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-nnet, r-cran-mass, r-cran-ggplot2, r-cran-numderiv, r-cran-gbm, r-cran-superlearner, r-cran-survey Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-psweight_2.1.1-1.ca2004.1_all.deb Size: 791716 MD5sum: 79ba7aec37403fbc9d53ac62a4cda2f9 SHA1: f1c94c873bdf2ee97feabf539c70a0b081e8a3fe SHA256: 5e2f79e95b4fe63d7d417ccafd887e73f32a6701ab7c97832aee6be240c32b43 SHA512: 5947f9450b4372840f3f4c70393a541eac43df5606ff438e26c325da6baf017cb48bdda07223237835cd0205eb6301f7a8f48ff866464e00728fb7fe6122f1b8 Homepage: https://cran.r-project.org/package=PSweight Description: CRAN Package 'PSweight' (Propensity Score Weighting for Causal Inference withObservational Studies and Randomized Trials) Supports propensity score weighting analysis of observational studies and randomized trials. Enables the estimation and inference of average causal effects with binary and multiple treatments using overlap weights (ATO), inverse probability of treatment weights (ATE), average treatment effect among the treated weights (ATT), matching weights (ATM) and entropy weights (ATEN), with and without propensity score trimming. These weights are members of the family of balancing weights introduced in Li, Morgan and Zaslavsky (2018) and Li and Li (2019) . 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Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Validation and cross validation of scales developed using basic machine learning algorithms are provided, as are functions for simulating and testing particular item and test structures. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, including mediation models, factor analysis and structural equation models are created using basic graphics. Some of the functions are written to support a book on psychometric theory as well as publications in personality research. For more information, see the web page. 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Supports bare-bones, individual-correction, and artifact-distribution methods for meta-analyzing correlations and d values. Includes tools for converting effect sizes, computing sporadic artifact corrections, reshaping meta-analytic databases, computing multivariate corrections for range variation, and more. Bugs can be reported to or . 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The cell-key method is a post-tabular Statistical Disclosure Control perturbation technique that adds random noise to tabular data. The statistical properties of the perturbations are defined by some noise probability distributions - also referred to as perturbation tables. This tool can be used to create the perturbation tables based on a maximum entropy approach as described for example in Giessing (2016) . The perturbation tables created can finally be used to apply a cell-key method to frequency count or magnitude tables. 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Package: r-cran-pterp Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-mvtnorm, r-cran-survival Filename: pool/dists/focal/main/r-cran-pterp_1.0-1.ca2004.1_all.deb Size: 58072 MD5sum: 862e9a461afb5286d7ab63d331b33a01 SHA1: 254bedd56c36f4242fe016fb9e04c0b045d37aca SHA256: a69faf13cabff83e66fe085d8b561bc27735b5ad4c62487eb3535dca4388823f SHA512: 2c28124644634247fe9ffaba116ab5bd966427154dcb3cf53f213600be3ee3c43317b78a303cad372eb6f7456271892054459e9ad9bcf19529381be623673e1f Homepage: https://cran.r-project.org/package=PTERP Description: CRAN Package 'PTERP' (PTE and RP for Optimally-Transformed Surrogate) Evaluates the strength of a surrogate marker by estimating the proportion of treatment effect explained (PTE) and relative power(RP) for the optimally-transformed version of the surrogate. Details available in Wang et al (2022) . 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Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format. Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015) . 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There is a prior that combines information across responses and one that combines information across covariates, as well as a standard spike and slab prior for comparison. An MCMC samples from the marginal posterior distribution for the 0-1 variables indicating if each covariate belongs to the model for each response. Package: r-cran-pubbias Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rmeta, r-cran-r.utils Filename: pool/dists/focal/main/r-cran-pubbias_1.0-1.ca2004.1_all.deb Size: 33092 MD5sum: 66ef54d403be2763a5b47d745e25fb08 SHA1: 914587502982cc8cd149e731ff148848178b9c5b SHA256: 49a5c746d26e90d8da9f11d65cd049842456b045af9c115a645dc95a54ef3321 SHA512: c02250ae8cdf65d418a6f757b40c24543ca1f134b93cfb9a361fec61a136efea83d22758b493f072d80b2fe26cdb6b72cdb33ee3d332efad9aff4210d9c2714d Homepage: https://cran.r-project.org/package=PubBias Description: CRAN Package 'PubBias' (Performs simulation study to look for publication bias, using atechnique described by Ioannidis and Trikalinos; Clin Trials.2007;4(3):245-53) I adapted a method designed by Ioannidis and Trikalinos, which compares the observed number of positive studies in a meta-analysis with the expected number, if the summary measure of effect, averaged over the individual studies, were assumed true. Excess in the observed number of positive studies, compared to the expected, is taken as evidence of publication bias. The observed number of positive studies, at a given level for statistical significance, is calculated by applying Fisher's exact test to the reported 2x2 table data of each constituent study, doubling the Fisher one-sided P-value to make a two-sided test. The corresponding expected number of positive studies was obtained by summing the statistical powers of each study. The statistical power depended on a given measure of effect which, here, was the pooled odds ratio of the meta-analysis was used. By simulating each constituent study, with the given odds ratio, and the same number of treated and non-treated as in the real study, the power of the study is estimated as the proportion of simulated studies that are positive, again by a Fisher's exact test. The simulated number of events in the treated and untreated groups was done with binomial sampling. In the untreated group, the binomial proportion was the percentage of actual events reported in the study and, in the treated group, the binomial sampling proportion was the untreated percentage multiplied by the risk ratio which was derived from the assumed common odds ratio. The statistical significance for judging a positive study may be varied and large differences between expected and observed number of positive studies around the level of 0.05 significance constitutes evidence of publication bias. The difference between the observed and expected is tested by chi-square. A chi-square test P-value for the difference below 0.05 is suggestive of publication bias, however, a less stringent level of 0.1 is often used in studies of publication bias as the number of published studies is usually small. 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Works with outputs from package 'fulltext', 'xml2' package documents, and file paths to XML documents. 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These analyses enable statements such as: "For publication bias to shift the observed point estimate to the null, 'significant' results would need to be at least 30-fold more likely to be published than negative or 'nonsignificant' results." Comparable statements can be made regarding shifting to a chosen non-null value or shifting the confidence interval. Provides a worst-case meta-analytic point estimate under maximal publication bias obtained simply by conducting a standard meta-analysis of only the negative and "nonsignificant" studies. 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This includes descriptive tables, tables of logistic regression and Cox regression results as well as forest plots. Package: r-cran-pubmed.miner Architecture: all Version: 1.0.21-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1524 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcurl, r-cran-xml, r-cran-boot, r-cran-r2html, r-cran-rjsonio Filename: pool/dists/focal/main/r-cran-pubmed.miner_1.0.21-1.ca2004.1_all.deb Size: 1393372 MD5sum: 007dea5fa1ddde213c769fd3e19b604f SHA1: dc1b78822d9127d9112282b2c1711e4788f599b2 SHA256: 5dcd458c8074e0648eda6ef4fbe3f329c31ea405eda661853c0f989a703be825 SHA512: 733752b4c2bf5ec66715720e3f3e6623ba20ca9e3e0da961b7287839ffe8f28fcb6105b5a210a7eedd6b35d593632132a5fff0f60fff67cbb9fa2e04c220b450 Homepage: https://cran.r-project.org/package=pubmed.mineR Description: CRAN Package 'pubmed.mineR' (Text Mining of PubMed Abstracts) Text mining of PubMed Abstracts (text and XML) from . 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(2024) . Numerous visualization options, including static and animated, 2D and 3D, and a site map generator based on sensor and source coordinates. Package: r-cran-pugmm Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-clusterr, r-cran-doparallel, r-cran-foreach, r-cran-igraph, r-cran-mass, r-cran-matrix, r-cran-mclust, r-cran-mcompanion, r-cran-ppclust Filename: pool/dists/focal/main/r-cran-pugmm_0.1.1-1.ca2004.1_all.deb Size: 174672 MD5sum: 8e5613e6c99174b6cc2e0f3c27027620 SHA1: b6a5a8e5279a24da3eb2f7c398f410e470a90885 SHA256: 15fa499b52f83a2628748ddb0c3b3e69dae375db70418a41ba2b70256872b225 SHA512: 8c0712e9b34a68820831011dfc377b79fab809703869255e07f75030e402475a8384161f6bf48a39fc1457d845d37787cc55884139af7c56311373ec3f1dc8f5 Homepage: https://cran.r-project.org/package=PUGMM Description: CRAN Package 'PUGMM' (Parsimonious Ultrametric Gaussian Mixture Models) Parsimonious Ultrametric Gaussian Mixture Models via grouped coordinate ascent (equivalent to EM) algorithm characterized by the inspection of hierarchical relationships among variables via parsimonious extended ultrametric covariance structures. 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Package: r-cran-pulsar Architecture: all Version: 0.3.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 642 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix Suggests: r-cran-batchtools, r-cran-fs, r-cran-checkmate, r-cran-orca, r-cran-huge, r-cran-mass, r-cran-clime, r-cran-glmnet, r-cran-network, r-cran-cluster, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pulsar_0.3.11-1.ca2004.1_all.deb Size: 406364 MD5sum: 1e2a9cb083459e74c1882ce6092627eb SHA1: eaa1a6ab4ddd19780a24d7543eeaca2d50e35ab2 SHA256: dee148175eb503ca4f74d3dbbbaddd7b78f9a6f7650c96ca96781e90c438947f SHA512: 1b6057421bce65a8c16bbc949bc00072b1c446c4248ce875153c9105fb5e1a342d7ffca7d31a13ea0825c72b76871ab175b3e55953b33ef93a0da1d640dec0de Homepage: https://cran.r-project.org/package=pulsar Description: CRAN Package 'pulsar' (Parallel Utilities for Lambda Selection along a RegularizationPath) Model selection for penalized graphical models using the Stability Approach to Regularization Selection ('StARS'), with options for speed-ups including Bounded StARS (B-StARS), batch computing, and other stability metrics (e.g., graphlet stability G-StARS). Christian L. Müller, Richard Bonneau, Zachary Kurtz (2016) . 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The context is multilevel randomized experiments with multiple outcomes. The estimation takes into account the use of multiple testing procedures. Development of this package was supported by a grant from the Institute of Education Sciences (R305D170030). For a full package description, including a detailed technical appendix, see . 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Package: r-cran-pupillometryr Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1273 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-rlang, r-cran-fda, r-cran-itsadug, r-cran-mgcv, r-cran-signal, r-cran-stringr, r-cran-tidyr, r-cran-zoo Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pupillometryr_0.0.5-1.ca2004.1_all.deb Size: 966068 MD5sum: be2c2e172705fa55a6343dfaa1b4b269 SHA1: a1947407b2be595a72a66d622e3214868a35cba9 SHA256: b2ea665637b7980372e4b2d2c23a74f7e7306167172c694578f871522c79c368 SHA512: cf1077e37052e455f293133608a996a242c46f9388114e6dfaadad13ab05f42183169aea999a3dd499a2ded49bb7d7d6961570d4a2bc9a77168ce23d783147cb Homepage: https://cran.r-project.org/package=PupillometryR Description: CRAN Package 'PupillometryR' (A Unified Pipeline for Pupillometry Data) Provides a unified pipeline to clean, prepare, plot, and run basic analyses on pupillometry experiments. 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Instead of just calculating one p-value and one confidence interval, p-value functions display p-values and confidence intervals for many levels thereby allowing to gauge the compatibility of several parameter values with the data. These methods are discussed by Infanger D, Schmidt-Trucksäss A. (2019) ; Poole C. (1987) ; Schweder T, Hjort NL. (2002) ; Bender R, Berg G, Zeeb H. (2005) ; Singh K, Xie M, Strawderman WE. (2007) ; Rothman KJ, Greenland S, Lash TL. (2008, ISBN:9781451190052); Amrhein V, Trafimow D, Greenland S. (2019) ; Greenland S. (2019) and Rafi Z, Greenland S. (2020) . 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Methods adapted from Bartlett, Scoffoni and Sack (2012) . 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Functions accompany Aberson (2019) . 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It supports standard designs, including randomized block, split-plot, and Latin Square designs, while offering flexibility to accommodate a variety of other complex study designs. Package: r-cran-pwr Architecture: all Version: 1.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 267 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-scales, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-pwr_1.3-0-1.ca2004.1_all.deb Size: 145048 MD5sum: 9541904a10393378c2944de726e1afaf SHA1: 791a4f5986a09863fd0766e9317d5d191552fba7 SHA256: 5f768615172de21d958730a846ea783a89eb2f4c594e8357842de991e273c828 SHA512: 1d5c409a0dca132668efed9a7c5c0cdce7f4b6a3cd1b18a8e825a07118de2b2b4efa20a6555b1a58d5c554525bbc1fb746cc8cc2d9a9a5fa0077031a00dd5bc8 Homepage: https://cran.r-project.org/package=pwr Description: CRAN Package 'pwr' (Basic Functions for Power Analysis) Power analysis functions along the lines of Cohen (1988). 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All of these procedures involve control of some summary of the distribution of the FDP, e.g. the proportion of discoveries which are false in a given experiment. The most widely known of these, the BH-FDR procedure, controls the FDR which is the mean of the FDP. A lesser known procedure, due to Lehmann and Romano, controls the FDX, or probability that the FDP exceeds a user provided threshold. This is less conservative than FWE control procedures but much more conservative than the BH-FDR proceudre. This package and the references supporting it introduce a new procedure for controlling the FDX which we call the BH-FDX procedure. This procedure iteratively identifies, given alpha and lower threshold delta, an alpha* less than alpha at which BH-FDR guarantees FDX control. This uses asymptotic approximation and is only slightly more conservative than the BH-FDR procedure. Likewise, we can think of the power in multiple testing experiments in terms of a summary of the distribution of the True Positive Proportion (TPP), the portion of tests truly non-null distributed that are called significant. The package will compute power, sample size or any other missing parameter required for power defined as (i) the mean of the TPP (average power) or (ii) the probability that the TPP exceeds a given value, lambda, (TPX power) via asymptotic approximation. All supplied theoretical results are also obtainable via simulation. The suggested approach is to narrow in on a design via the theoretical approaches and then make final adjustments/verify the results by simulation. The theoretical results are described in Izmirlian, G (2020) Statistics and Probability letters, "", and an applied paper describing the methodology with a simulation study is in preparation. See citation("pwrFDR"). 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Alternative hypothesis can be formulated as "not equal", "less", "greater", "non-inferior", "superior", or "equivalent" in (1), (2), (3), and (4); as "not equal", "less", or "greater" in (5), (6), (7) and (8); but always as "greater" in (9), (10), (11), (12), (13), and (14). Reference: Bulus and Polat (2023) . 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The primary reference is Jungreis, D. (2019, Technical Report). Package: r-cran-qdiabetes Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4467 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-tinytest Filename: pool/dists/focal/main/r-cran-qdiabetes_1.0-2-1.ca2004.1_all.deb Size: 4464024 MD5sum: c7e78dd5f7c8ad3277462059c9620789 SHA1: 54c2c3ce243011a3c5b953d89a34561898f61101 SHA256: 7553465a0d1d01d3850b969640822b6f87501f718e7a409109245c824b468303 SHA512: 1cfc5e97868a0c21e96ed61b56cd0a870922fb37a24c15b1a6e24b1cad9450d9449c743fce6d96e85ed44541ad75c85180005081b11c416bd0840634093bf20c Homepage: https://cran.r-project.org/package=QDiabetes Description: CRAN Package 'QDiabetes' (Type 2 Diabetes Risk Calculator) Calculate the risk of developing type 2 diabetes using risk prediction algorithms derived by 'ClinRisk'. Package: r-cran-qdm Architecture: all Version: 0.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 795 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-qdm_0.1-0-1.ca2004.1_all.deb Size: 782160 MD5sum: a71d45a099e1706664f01fee2684cdc1 SHA1: 20d002cda808ca6a81741e0f674f33cfdfdd37db SHA256: f081c16fa81cfbc4d8b24bdc377f9cafff3a3ddc8a9ca73d5c2542e3b566fe20 SHA512: da67d688c329dbbde17d8aa14fe1375744753d6982580cad0826d39ffdb0e6634445a7371cc58f91b903ed5477113e7b90ae11007dc91337bee0ca23aecbe406 Homepage: https://cran.r-project.org/package=qdm Description: CRAN Package 'qdm' (Fitting a Quadrilateral Dissimilarity Model to Same-DifferentJudgments) This package provides different specifications of a Quadrilateral Dissimilarity Model which can be used to fit same-different judgments in order to get a predicted matrix that satisfies regular minimality [Colonius & Dzhafarov, 2006, Measurement and representations of sensations, Erlbaum]. From such a matrix, Fechnerian distances can be computed. Package: r-cran-qeml Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3781 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-regtools, r-cran-gtools, r-cran-rmarkdown, r-cran-tufte, r-cran-grf, r-cran-gbm, r-cran-toweranna, r-cran-tm, r-cran-rpart, r-cran-rpart.plot, r-cran-partools, r-cran-foci Suggests: r-cran-knitr, r-cran-partykit, r-cran-randomforest, r-cran-ranger, r-cran-e1071, r-cran-jousboost, r-cran-lightgbm, r-cran-keras, r-cran-neuralnet, r-cran-polyreg, r-cran-glmnet, r-cran-umap, r-cran-reticulate, r-cran-party, r-cran-proc, r-cran-xgboost, r-cran-rocr, r-cran-autoimage, r-cran-deepnet, r-cran-ncvreg, r-cran-uwot, r-cran-cdparcoord Filename: pool/dists/focal/main/r-cran-qeml_1.1-1.ca2004.1_all.deb Size: 1733040 MD5sum: 7f2842c38bd2adc39a28cfb1516b923e SHA1: e8a721fd4af383da8728c6a2bbada8d4720bfe8b SHA256: ba8857f29f3482ced1e5d13df6f6cff7cfee6faf29475a218e6c8e249dc196b1 SHA512: 8a069fe7c41421df325cd9450bff37d88208afb2141698bcfa4e8d0461506761bce2bdc471c1bdc123d2855e4bb271afa0d2cd6e8c32b7571469a6ad3d56e33d Homepage: https://cran.r-project.org/package=qeML Description: CRAN Package 'qeML' (Quick and Easy Machine Learning Tools) The letters 'qe' in the package title stand for "quick and easy," alluding to the convenience goal of the package. 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The fundamental unit of information in QFASA is a fatty acid signature (signature), which is a vector of proportions describing the composition of fatty acids within lipids. Signature data from at least one predator and from samples of all potential prey types are required. Calibration coefficients, which adjust for the differential metabolism of individual fatty acids by predators, are also required. Given those data inputs, a predator signature is modeled as a mixture of prey signatures and its diet estimate is obtained as the mixture that minimizes a measure of distance between the observed and modeled signatures. A variety of estimation options and simulation capabilities are implemented. Please refer to the vignette for additional details and references. Package: r-cran-qfrm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 284 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-qfrm_1.0.1-1.ca2004.1_all.deb Size: 240756 MD5sum: 5af0e5762eb641e7566203fa5a5218f0 SHA1: 3ab66cd9b6f22830e70bbf043697628b6917af4d SHA256: ff5c8991f90060995225809d9ef80611896c16af173fd9e534cbf6f11efcdfc0 SHA512: 1ce5d7bbe1e9daaf5fb801180c6a47e0711af005b00c9afeba591dccbb2dea64a8ee2a92bdf1ad6e9e03ded19b9c466bf331deeabea752f827b881e283a458e6 Homepage: https://cran.r-project.org/package=QFRM Description: CRAN Package 'QFRM' (Pricing of Vanilla and Exotic Option Contracts) Option pricing (financial derivatives) techniques mainly following textbook 'Options, Futures and Other Derivatives', 9ed by John C.Hull, 2014. Prentice Hall. Implementations are via binomial tree option model (BOPM), Black-Scholes model, Monte Carlo simulations, etc. This package is a result of Quantitative Financial Risk Management course (STAT 449 and STAT 649) at Rice University, Houston, TX, USA, taught by Oleg Melnikov, statistics PhD student, as of Spring 2015. 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Package: r-cran-qgametheory Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 195 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-r.utils Filename: pool/dists/focal/main/r-cran-qgametheory_0.1.2-1.ca2004.1_all.deb Size: 148228 MD5sum: 83a7f6d760c2e32cbf324e1fda0053de SHA1: 7932620a803d50412ce16f7b5a49c49563aef814 SHA256: 95111ef85c474195132d505e61522ef378e2a2b3cacd5717bc4cadb15bd87375 SHA512: ae37d874c4c2d04a53f383f9860b0b38777c81fa627cda3b2e03006e2ffa13aaaf14b65bba857936bb31215cc90ca225c75347b08b4673ed84d7587f11e47c9c Homepage: https://cran.r-project.org/package=QGameTheory Description: CRAN Package 'QGameTheory' (Quantum Game Theory Simulator) General purpose toolbox for simulating quantum versions of game theoretic models (Flitney and Abbott 2002) . Quantum (Nielsen and Chuang 2010, ISBN:978-1-107-00217-3) versions of models that have been handled are: Penny Flip Game (David A. Meyer 1998) , Prisoner's Dilemma (J. Orlin Grabbe 2005) , Two Person Duel (Flitney and Abbott 2004) , Battle of the Sexes (Nawaz and Toor 2004) , Hawk and Dove Game (Nawaz and Toor 2010) , Newcomb's Paradox (Piotrowski and Sladkowski 2002) and Monty Hall Problem (Flitney and Abbott 2002) . 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References: Pavía and Lledó (2022) . Pavía and Lledó (2023) . Pavía and Lledó (2025) . Acknowledgements: The authors wish to thank Conselleria de Educación, Universidades y Empleo, Generalitat Valenciana (grants AICO/2021/257; CIAICO/2024/031), Ministerio de Ciencia e Innovación (grant PID2021-128228NB-I00) and Fundación Mapfre (grant 'Modelización espacial e intra-anual de la mortalidad en España. Una herramienta automática para el calculo de productos de vida') for supporting this research. Package: r-cran-qmap Architecture: all Version: 1.0-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 403 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fitdistrplus Filename: pool/dists/focal/main/r-cran-qmap_1.0-6-1.ca2004.1_all.deb Size: 324444 MD5sum: 8724d8ebf53a31da88af4186e384b7ab SHA1: 75187e9c3c6665f336b5985a8d7073f9147398b2 SHA256: f637b165d965f475f087d00dc22311dee48ec74150b9a340454655dfa8458eee SHA512: df095412f02ac43cba26c21d8a2b612fc5fd1d527c77f0a219453ba1b8953148042fbb1e5c33e1693891ed8915a4280e1c4df0201fb9989f85305aeaaed81f80 Homepage: https://cran.r-project.org/package=qmap Description: CRAN Package 'qmap' (Statistical Transformations for Post-Processing Climate ModelOutput) Empirical adjustment of the distribution of variables originating from (regional) climate model simulations using quantile mapping. 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Package: r-cran-qqperm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1111 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-qqperm_1.0.1-1.ca2004.1_all.deb Size: 622620 MD5sum: 20f540a038b277521e8c4e4992b6d292 SHA1: d5b1da00d02754c8171b8914480fe95fd10faa24 SHA256: 997e88f2c200f91bb2508e94950c541c42c70581d1c9d21036debff07308c82c SHA512: a06bd504258cf8332475dfc709aca1cee215addbc5b2e6a348aebfe3b349114616fffcf1be499ed071efb6c20ce805151ff0a84074e95acfce1eb002ae754c40 Homepage: https://cran.r-project.org/package=QQperm Description: CRAN Package 'QQperm' (Permutation Based QQ Plot and Inflation Factor Estimation) Provides users the necessary utility functions to generate permutation-based QQ plots and also estimate inflation factor based on the empirical NULL distribution. While it has general utility, it is particularly helpful when the skewness of the Fisher's Exact test in sparse data situations with imbalanced case-control sample sizes renders the reliance on the uniform chi-square expected distribution inappropriate. 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Package: r-cran-qqr Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-rvest, r-cran-tidyverse, r-cran-dplyr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-qqr_0.0.1-1.ca2004.1_all.deb Size: 25940 MD5sum: 8b965a28a0ee9f60f5042799343bfa33 SHA1: e2404cff2e03f62179db6778d6dbd07ee730d5d7 SHA256: 71c6eec8d3a076787ddaeb29420fad0e8af33ac3167d1e9ab0e9408a8a4e1e13 SHA512: 155a559e575636c9771dc5fa4804aef38705879bcd6bcb54b3a1ad9659436fe0574d8d93ae82a92d74476c46ac6c8d441d8b5dccbab08d7724bdb4e53dba2295 Homepage: https://cran.r-project.org/package=qqr Description: CRAN Package 'qqr' (Data from Brazilian Soccer Championship) Get data about the Brazilian soccer championship since 2014. Official data can be found at . Package: r-cran-qqtest Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 330 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-qqtest_1.2.0-1.ca2004.1_all.deb Size: 215120 MD5sum: fec1681e3b160337ea86e894ea259fda SHA1: cfc3bb06d0a030fe6743793deacc04b2ced8f000 SHA256: 74febcd431f3ed6c509e58ffd2e62a824d1f9209f87c958f639240f786473a6f SHA512: a81bbebf289f62ae6d6920af18ca962a66fb8466325996878d75436c77fe3d949333ed504fa23402593c5f568338a6be9d8cfcc9da8695f5187c10603063efd0 Homepage: https://cran.r-project.org/package=qqtest Description: CRAN Package 'qqtest' (Self Calibrating Quantile-Quantile Plots for Visual Testing) Provides the function qqtest which incorporates uncertainty in its qqplot display(s) so that the user might have a better sense of the evidence against the specified distributional hypothesis. qqtest draws a quantile quantile plot for visually assessing whether the data come from a test distribution that has been defined in one of many ways. The vertical axis plots the data quantiles, the horizontal those of a test distribution. The default behaviour generates 1000 samples from the test distribution and overlays the plot with shaded pointwise interval estimates for the ordered quantiles from the test distribution. A small number of independently generated exemplar quantile plots can also be overlaid. Both the interval estimates and the exemplars provide different comparative information to assess the evidence provided by the qqplot for or against the hypothesis that the data come from the test distribution (default is normal or gaussian). Finally, a visual test of significance (a lineup plot) can also be displayed to test the null hypothesis that the data come from the test distribution. 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Applicable to both time series and repeated cross-sectional data. The main function is rq.break(). References for detailed theoretical and empirical explanations: (1) Qu, Z. (2008). "Testing for Structural Change in Regression Quantiles." Journal of Econometrics, 146(1), 170-184 (2) Oka, T., and Qu, Z. (2011). "Estimating Structural Changes in Regression Quantiles." Journal of Econometrics, 162(2), 248-267 . 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Includes functions to acquire, clean, and analyze text data as well as functions to document and share the results of text analysis. The package is designed to be used in conjunction with the book, but can also be used as a standalone package for text analysis. Package: r-cran-qtl2fst Architecture: all Version: 0.30-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fst, r-cran-qtl2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-qtl2fst_0.30-1.ca2004.1_all.deb Size: 91684 MD5sum: f5d293e3157177f8afcb3d924a95c48f SHA1: 71b4008aee0cb647c21e63bd24e44316bbaf3b54 SHA256: f103c7dea69f6fd16d3e582edf22c3a41d00d53361582abe1576e368603fca3c SHA512: 04688ff11af52ddbfda5f54b19c1259414fa4a35dc00b9a1743dc9ad077c1a2667021f1b522e8edfa0bce59c1c1b5e52bbd61d289967c66a8dbf471dc2d7c9b3 Homepage: https://cran.r-project.org/package=qtl2fst Description: CRAN Package 'qtl2fst' (Database Storage of Genotype Probabilities for QTL Mapping) Uses the 'fst' package to store genotype probabilities on disk for the 'qtl2' package. These genotype probabilities are a central data object for mapping quantitative trait loci (QTL), but they can be quite large. The facilities in this package enable the genotype probabilities to be stored on disk, leading to reduced memory usage with only a modest increase in computation time. Package: r-cran-qtl2pattern Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2035 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-stringr, r-cran-ggplot2, r-cran-assertthat, r-cran-qtl2, r-cran-qtl2fst, r-cran-fst, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-qtl2ggplot Filename: pool/dists/focal/main/r-cran-qtl2pattern_1.2.1-1.ca2004.1_all.deb Size: 1097508 MD5sum: 80aa726012fa550df5894192583e5386 SHA1: 59b7f73d4789f69e47f92c8831053d8ee6788cc2 SHA256: bcceb1a48b47991be507a70d34c5d729f70de0b69b9cbe951b604b3f626d6edd SHA512: a20a377c29d1fd10299fa2fe4e57cff438701d23c6e1d30402949e8c7ef6e1cdbd96d22549ab9ffeb980796337f1e50d7df808f4a2924c9c9e1173b2c667f469 Homepage: https://cran.r-project.org/package=qtl2pattern Description: CRAN Package 'qtl2pattern' (Pattern Support for 'qtl2' Package) Routines in 'qtl2' to study allele patterns in quantitative trait loci (QTL) mapping over a chromosome. Useful in crosses with more than two alleles to identify how sets of alleles, genetically different strands at the same locus, have different response levels. Plots show profiles over a chromosome. Can handle multiple traits together. See . Package: r-cran-qtlbook Architecture: all Version: 0.20-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 217 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-qtl Filename: pool/dists/focal/main/r-cran-qtlbook_0.20-1.ca2004.1_all.deb Size: 175608 MD5sum: 5352c696e9ee133d0788803a4e2c0863 SHA1: c2b9c3923522ec5468fa425d93d6aced5f3464cc SHA256: 320c1eda24708d442a99effc8283a9780857b14dd6c881fd1904a8161c247c5f SHA512: 180502902d6f07dc390caab2b54e5ec9ad9dc1bf3c04ebf4e0d74ac6492a8600df7ab757d05dec0f4ea57f0c39078766669e15f09be00b284375eb38d36b63ab Homepage: https://cran.r-project.org/package=qtlbook Description: CRAN Package 'qtlbook' (Datasets for the R/qtl Book) Datasets for the book, A Guide to QTL Mapping with R/qtl. Broman and Sen (2009) . Package: r-cran-qtlc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tiff, r-cran-rgl, r-cran-plot3d Filename: pool/dists/focal/main/r-cran-qtlc_1.0-1.ca2004.1_all.deb Size: 154448 MD5sum: a37c293efa83efb0d076a718f2ee8c06 SHA1: bd4adcdca1b188c50bb2cdcd825529ea841db79d SHA256: 23503f3fdfcd78519c7fd5cea1c288999d1dd96f5b5a004076c489e0c0b16b54 SHA512: e47e84c1315cc6fa2b99a7aa9cf92e2b0f44ba256245f1fad34e5c8726ef994d3749c11551ac4dcdf6f596f946d6bc0b70904db941594442072204cc5ab0156c Homepage: https://cran.r-project.org/package=qtlc Description: CRAN Package 'qtlc' (Densitometric Analysis of Thin-Layer Chromatography Plates) Densitometric evaluation of the photo-archived quantitative thin-layer chromatography (TLC) plates. Package: r-cran-qtlcharts Architecture: all Version: 0.18-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1831 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-qtl, r-cran-htmlwidgets Suggests: r-cran-htmltools, r-cran-jsonlite, r-cran-knitr, r-cran-devtools, r-cran-roxygen2, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-qtlcharts_0.18-1.ca2004.1_all.deb Size: 683568 MD5sum: 9d52c607e160352f2d976ccc37ff75c0 SHA1: 22c925d96b6be7acdc0966349665ddf5ca9c44d7 SHA256: a1d3976848c60f3cc4ba640ce147bb55591633b5b50f57b680223e26ee2c7b5f SHA512: ab5193b3a6558ab5f93aa31ca127497cc01ce7a6122a4d8fa3ad72a3444b14410c3bbc2d5e0158a3f3041a13944037b42822f55d0e2268235d7428481d5ca85d Homepage: https://cran.r-project.org/package=qtlcharts Description: CRAN Package 'qtlcharts' (Interactive Graphics for QTL Experiments) Web-based interactive charts (using D3.js) for the analysis of experimental crosses to identify genetic loci (quantitative trait loci, QTL) contributing to variation in quantitative traits. Broman (2015) . Package: r-cran-qtldesign Architecture: all Version: 0.953-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-qtl Filename: pool/dists/focal/main/r-cran-qtldesign_0.953-1.ca2004.1_all.deb Size: 98460 MD5sum: f1ef63ffa2c30619f8bfafe1064e17a7 SHA1: b922b3d2fbe7384f2dd4a643e88632c4ffc8688c SHA256: 1b0be49a5f3e3ff3efa2c1bcef3caba8f459061d91d7609c9861c56094c65760 SHA512: 365318679702f06d18cb34b2482a11b535194466d5784e62a2a1f1f0c1182217ca09f7327dbe82b7aed1564679c5db082779bc8eeac799e751f072e750174d16 Homepage: https://cran.r-project.org/package=qtlDesign Description: CRAN Package 'qtlDesign' (Design of QTL (Quantitative Trait Locus) Experiments) Design of QTL (quantitative trait locus) experiments involves choosing which strains to cross, the type of cross, genotyping strategies, phenotyping strategies, and the number of progeny to raise and phenotype. This package provides tools to help make such choices. Sen and others (2007) . Package: r-cran-qtlemm Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1129 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm, r-cran-gtools Filename: pool/dists/focal/main/r-cran-qtlemm_3.0.1-1.ca2004.1_all.deb Size: 1106832 MD5sum: 3c5e720c5e62618a81f26df9fd12a678 SHA1: e5ea56efc5995ee80cd4183fe695df938543a00a SHA256: 411d7cedc141877279e08b38d07b5eb7daf0a0c40985de3998ee8962c6cf072e SHA512: a8c16db2bf116929044a6b42c46a11d85be627e4e4d651a74e67fd7b7821e61296bc12861c683a511672170f5e28eefc342b8c08f83e41d3e35d0ab58405a4c0 Homepage: https://cran.r-project.org/package=QTLEMM Description: CRAN Package 'QTLEMM' (QTL EM Algorithm Mapping and Hotspots Detection) For QTL mapping, this package comprises several functions designed to execute diverse tasks, such as simulating or analyzing data, calculating significance thresholds, and visualizing QTL mapping results. The single-QTL or multiple-QTL method, which enables the fitting and comparison of various statistical models, is employed to analyze the data for estimating QTL parameters. The models encompass linear regression, permutation tests, normal mixture models, and truncated normal mixture models. The Gaussian stochastic process is utilized to compute significance thresholds for QTL detection on a genetic linkage map within experimental populations. Two types of data, complete genotyping, and selective genotyping data from various experimental populations, including backcross, F2, recombinant inbred (RI) populations, and advanced intercrossed (AI) populations, are considered in the QTL mapping analysis. For QTL hotspot detection, statistical methods can be developed based on either utilizing individual-level data or summarized data. We have proposed a statistical framework capable of handling both individual-level data and summarized QTL data for QTL hotspot detection. Our statistical framework can overcome the underestimation of thresholds resulting from ignoring the correlation structure among traits. Additionally, it can identify different types of hotspots with minimal computational cost during the detection process. Here, we endeavor to furnish the R codes for our QTL mapping and hotspot detection methods, intended for general use in genes, genomics, and genetics studies. The QTL mapping methods for the complete and selective genotyping designs are based on the multiple interval mapping (MIM) model proposed by Kao, C.-H. , Z.-B. Zeng and R. D. Teasdale (1999) and H.-I Lee, H.-A. Ho and C.-H. Kao (2014) , respectively. The QTL hotspot detection analysis is based on the method by Wu, P.-Y., M.-.H. Yang, and C.-H. Kao (2021) . Package: r-cran-qtlnet Architecture: all Version: 1.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4666 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-qtl, r-cran-igraph, r-cran-sem, r-bioc-graph, r-cran-pcalg Filename: pool/dists/focal/main/r-cran-qtlnet_1.5.4-1.ca2004.1_all.deb Size: 4615460 MD5sum: e652d2f40c8949cbc680061fd0e26e51 SHA1: 2fd00f1242ecfbc601ddbe987396420f905795dc SHA256: e8258ca354104286ac4fb42810607363527e07315a84d21be3ac2b3525b29c12 SHA512: 5956c94e3b6170a63e23813180c1872d7b4f8e678f37e0bc290e0d9db1dd69a6b39126cf5e548b71dac2ea79b75fc41cc6c289c998227c1f06e969f6e819a596 Homepage: https://cran.r-project.org/package=qtlnet Description: CRAN Package 'qtlnet' (Causal Inference of QTL Networks) Functions to Simultaneously Infer Causal Graphs and Genetic Architecture. Includes acyclic and cyclic graphs for data from an experimental cross with a modest number (<10) of phenotypes driven by a few genetic loci (QTL). Chaibub Neto E, Keller MP, Attie AD, Yandell BS (2010) Causal Graphical Models in Systems Genetics: a unified framework for joint inference of causal network and genetic architecture for correlated phenotypes. Annals of Applied Statistics 4: 320-339. . Package: r-cran-qtocen Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-rgenoud, r-cran-quantreg, r-cran-rdpack, r-cran-matrixmodels Suggests: r-cran-stringr, r-cran-testthat, r-cran-faraway, r-cran-quantoptr, r-cran-survminer Filename: pool/dists/focal/main/r-cran-qtocen_0.1.1-1.ca2004.1_all.deb Size: 130288 MD5sum: f3359647fdbf0575f0d6aa1f176fef68 SHA1: bee5007ed1161016bfb43c1e0f2b478dfcc2c273 SHA256: 0ceecd1fd072849d308ef224eb932bd950eb2fd867139f18274e20b26bdc1188 SHA512: 2981de1dcb5e2202a0f33608a5aeabb8f86359e2a0f0c027d4305961c03dcdffdb1c435b2b80818d6f479d9dd2958804bdd6eda48dbd972d3eb5ca3abbdd0993 Homepage: https://cran.r-project.org/package=QTOCen Description: CRAN Package 'QTOCen' (Quantile-Optimal Treatment Regimes with Censored Data) Provides methods for estimation of mean- and quantile-optimal treatment regimes from censored data. Specifically, we have developed distinct functions for three types of right censoring for static treatment using quantile criterion: (1) independent/random censoring, (2) treatment-dependent random censoring, and (3) covariates-dependent random censoring. It also includes a function to estimate quantile-optimal dynamic treatment regimes for independent censored data. Finally, this package also includes a simulation data generative model of a dynamic treatment experiment proposed in literature. 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Templates for personal websites and course/workshop websites are included, as well as a template with minimal content for customization. Package: r-cran-quad Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pearsonds Filename: pool/dists/focal/main/r-cran-quad_1.0-1.ca2004.1_all.deb Size: 30428 MD5sum: 2ad72b7969d504678ef2bc40388b183d SHA1: 3811d65f708b5eec2a6cc491821f9fe5917dafa6 SHA256: 88cf6e811dd0ba9ed534b88c67ade58618e7c3dc76551f83aaf62059b0d64640 SHA512: ac89bb793aa5ae1d6d2164330680de75a229ea91399e39205184c7c7f82eff6661b5e81d5e0349ce96545ccb85d3a42f8363009f217e5c1f43bd84a2c819711a Homepage: https://cran.r-project.org/package=quad Description: CRAN Package 'quad' (Exact permutation moments of quadratic form statistics) This package gives you the exact first four permutation moments for the most commonly used quadratic form statistics, which need not be positive definite. The extension of this work to quadratic forms greatly expands the utility of density approximations for these problems, including for high-dimensional applications, where the statistics must be extreme in order to exceed stringent testing thresholds. Approximate p-values are obtained by matching the exact moments to the Pearson family of distributions using the PearsonDS package. 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Package: r-cran-quadform Architecture: all Version: 0.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mathjaxr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-quadform_0.0-2-1.ca2004.1_all.deb Size: 92412 MD5sum: 28602c5f1619f643440dc6eb99a5f854 SHA1: 7913b5f4788700e7b0f18ecae5d69bb81ab4a59f SHA256: 851d8cc90680e06fc61382622e7dfacb5a0674cffb2f20428fa10649c8c77a23 SHA512: d8ee4c07be9166ad7dd221f410e70a747e4bdf55dbb1672d343a48c85fbd9f02f069d5d4818b82215a8fed0c5312a40dd8755b7b0063fb6b0f1923e227cce096 Homepage: https://cran.r-project.org/package=quadform Description: CRAN Package 'quadform' (Efficient Evaluation of Quadratic Forms) A range of quadratic forms are evaluated, using efficient methods. Unnecessary transposes are not performed. Complex values are handled consistently. 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The functions 'quadmesh' or 'triangmesh' produce a continuous surface as a 'mesh3d' object as used by the 'rgl' package. This is used for plotting raster data in 3D (optionally with texture), and allows the application of a map projection without data loss and many processing applications that are restricted by inflexible regular grid rasters. There are discrete forms of these continuous surfaces available with 'dquadmesh' and 'dtriangmesh' functions. 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Thereafter, using the quadratic curve the user can guess the Root Mean Squared Deviation (RMSD) and visualize the standard deviation (SD). For details, see Sarkar and Rashid (2019), Have You Seen the Standard Deviaton?, Nepalese Journal of Statistics, Vol. 3, 1-10. 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Package: r-cran-quantbondcurves Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 488 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lubridate, r-cran-quantdates, r-cran-rsolnp Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-quantbondcurves_0.3.1-1.ca2004.1_all.deb Size: 301764 MD5sum: a7585978e4f70a3fa701192ccd20471f SHA1: 8b94dc455b5c98badce7858da9451b51d687e366 SHA256: bfbafa143c1a5c02d3fda8ed67cd5d6bf4e9dc4bea681fba80bf0fa47ee3ad5b SHA512: 84953fbeb5f6a36098ace27ce8f4e0439fe6a9e8a1b54449b4d2b86b7a71a9ba64c0bbd0e0055bc3b4a1668f9e9617bec8bc6f0ed5293a4060aa6086ba10ec36 Homepage: https://cran.r-project.org/package=QuantBondCurves Description: CRAN Package 'QuantBondCurves' (Calculates Bond Values and Interest Rate Curves for Finance) Values different types of assets and calibrates discount curves for quantitative financial analysis. It covers fixed coupon assets, floating note assets, interest and cross currency swaps with different payment frequencies. Enables the calibration of spot, instantaneous forward and basis curves, making it a powerful tool for accurate and flexible bond valuation and curve generation. The valuation and calibration techniques presented here are consistent with industry standards and incorporates author's own calculations. Tuckman, B., Serrat, A. (2022, ISBN: 978-1-119-83555-4). 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Methods implemented in the package draw from several sources, including Alexander (1976) , Batschelet (1981, ISBN:9780120810505), Benhamou (2004) , Bovet and Benhamou (1988) , Cheung et al. (2007) , Cheung et al. (2008) , Cleasby et al. (2019) , Farlow et al. (1981) , Ostrom (1972) , Rohlf (2008) , Rohlf (2009) , Ruiz and Torices (2013) , Scrucca et al. (2016) , Thulborn and Wade (1984) . Package: r-cran-quantification Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car Filename: pool/dists/focal/main/r-cran-quantification_0.2.0-1.ca2004.1_all.deb Size: 76844 MD5sum: 3f14127b9d853541b7341f020afc1d04 SHA1: 484a44873eea1549e91460bed560dd6cffb7391e SHA256: 5a45489aeffba8d17d0719b6bb81fcf808d0d6e81ac8682b5ffccc9c1766a952 SHA512: 3145f80f61b86937afd358239f49ab13829d2e002e705913056bdd5f38ca64da77765730542efd12751937f8c6d9223b62cf9db833a47b26987ef4e87f9f98fb Homepage: https://cran.r-project.org/package=quantification Description: CRAN Package 'quantification' (Quantification of Qualitative Survey Data) Provides different functions for quantifying qualitative survey data. It supports the Carlson-Parkin method, the regression approach, the balance approach and the conditional expectations method. 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Package: r-cran-quantilegrader Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-quantilegrader_0.1.1-1.ca2004.1_all.deb Size: 71064 MD5sum: 1059f54cd1a6a4114d06a2adf69b5d68 SHA1: 3cf5207f25bc706f028cdfcd18a42bc67ab94622 SHA256: 21e5e7aa74b152f610d7a7c9f9a32289e7f9619479c32ba1a43ca99bb3d27686 SHA512: 91feff98e791b08228b934697cea7a4f74e2f8809ce399f1023189dc81a2e0e0b24e4c6b798872a541fe9519727de802d0cfd829af8acc87ec6e97e6561a8637 Homepage: https://cran.r-project.org/package=QuantileGradeR Description: CRAN Package 'QuantileGradeR' (Quantile-Adjusted Restaurant Grading) Implementation of the food safety restaurant grading system adopted by Public Health - Seattle & King County (see Ashwood, Z.C., Elias, B., and Ho. D.E. "Improving the Reliability of Food Safety Disclosure: A Quantile Adjusted Restaurant Grading System for Seattle-King County" (working paper)). As reported in the accompanying paper, this package allows jurisdictions to easily implement refinements that address common challenges with unadjusted grading systems. First, in contrast to unadjusted grading, where the most recent single routine inspection is the primary determinant of a grade, grading inputs are allowed to be flexible. For instance, it is straightforward to base the grade on average inspection scores across multiple inspection cycles. Second, the package can identify quantile cutoffs by inputting substantively meaningful regulatory thresholds (e.g., the proportion of establishments receiving sufficient violation points to warrant a return visit). Third, the quantile adjustment equalizes the proportion of establishments in a flexible number of grading categories (e.g., A/B/C) across areas (e.g., ZIP codes, inspector areas) to account for inspector differences. Fourth, the package implements a refined quantile adjustment that addresses two limitations with the stats::quantile() function when applied to inspection score datasets with large numbers of score ties. The quantile adjustment algorithm iterates over quantiles until, over all restaurants in all areas, grading proportions are within a tolerance of desired global proportions. In addition the package allows a modified definition of "quantile" from "Nearest Rank". Instead of requiring that at least p[1]% of restaurants receive the top grade and at least (p[1]+p[2])% of restaurants receive the top or second best grade for quantiles p, the algorithm searches for cutoffs so that as close as possible p[1]% of restaurants receive the top grade, and as close as possible to p[2]% of restaurants receive the second top grade. Package: r-cran-quantilenpci Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr, r-cran-kableextra, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-quantilenpci_0.9.0-1.ca2004.1_all.deb Size: 24416 MD5sum: 59d89b21b09dc6501832ee8e5bc1faef SHA1: 7619b44de4d8c9ebfd40f93adaca4c6ac64da4cd SHA256: 6db0e7cbdef2129e95d5577b70d91735b1ad68563b50f90a539093e9e5ffa889 SHA512: fb609ddedb3e165926c51401fdebab578eb0e16ea3e0996ce0b06a65f119ec44e4ac623e681357a01668d71794ed7c9db466493ca8bd58ef4b79128df78b6bef Homepage: https://cran.r-project.org/package=QuantileNPCI Description: CRAN Package 'QuantileNPCI' (Nonparametric Confidence Intervals for Quantiles) Based on Alan D. Hutson (1999) , "Calculating nonparametric confidence intervals for quantiles using fractional order statistics", Journal of Applied Statistics, 26:3, 343-353. Package: r-cran-quantilogram Architecture: all Version: 3.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 362 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-np, r-cran-quantreg, r-cran-rlang, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-sparsem Filename: pool/dists/focal/main/r-cran-quantilogram_3.1.1-1.ca2004.1_all.deb Size: 323332 MD5sum: a302efd27564125dbade52af8b99f82f SHA1: 67542200aadec5687c16ee594f9992ce5b574ea1 SHA256: d32ad02c44edc9322496da07a079eb209a61019259b5502d1571be340da0dcbc SHA512: 5d0e3b79681d296a551870d41a234e0359634758b4e78f78010b0efcafdd38f21a3a34862200b86a7a4fb9f735554d6c4b4bb6f6e7d28eec99f366b299b0eded Homepage: https://cran.r-project.org/package=quantilogram Description: CRAN Package 'quantilogram' (Cross-Quantilogram) Estimation and inference methods for the cross-quantilogram. The cross-quantilogram is a measure of nonlinear dependence between two variables, based on either unconditional or conditional quantile functions. It can be considered an extension of the correlogram, which is a correlation function over multiple lag periods that mainly focuses on linear dependency. One can use the cross-quantilogram to detect the presence of directional predictability from one time series to another. This package provides a statistical inference method based on the stationary bootstrap. For detailed theoretical and empirical explanations, see Linton and Whang (2007) for univariate time series analysis and Han, Linton, Oka and Whang (2016) for multivariate time series analysis. The full references for these key publications are as follows: (1) Linton, O., and Whang, Y. J. (2007). The quantilogram: with an application to evaluating directional predictability. Journal of Econometrics, 141(1), 250-282 ; (2) Han, H., Linton, O., Oka, T., and Whang, Y. J. (2016). The cross-quantilogram: measuring quantile dependence and testing directional predictability between time series. Journal of Econometrics, 193(1), 251-270 . 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Provides point estimates of the conditional quantile function and its derivatives based on series approximations to the nonparametric part of the model. Provides pointwise and uniform confidence intervals using analytic and resampling methods. 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Random intercepts and variable selection are allowed via the lasso penalties. The smoothing parameters are estimated as part of the model fitting, see Muggeo and others (2021) . Monotonicity and concavity constraints on the fitted curves are allowed, see Muggeo and others (2013) , and also or some code examples. Package: r-cran-quantsig Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 42 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-quantsig_0.1.0-1.ca2004.1_all.deb Size: 10364 MD5sum: 7d66b95f0121d86db15320c7067dfa0b SHA1: 1a39ea087a9c1953a10f066f14626f65a0753c5e SHA256: 41d29b8fc201a3b81d8f8ae04cb29bb2e0c7e40bc5973210257ad67c0289934b SHA512: f4edcddef0146d64df939f51400dd4631729be26c0da8ad08f7e2959f668a24f6dc14e31674bdc0b22a8591d4a9620d517fc9cbf8bf8743b295f34451d27f035 Homepage: https://cran.r-project.org/package=quantsig Description: CRAN Package 'quantsig' (Sigmoidal Quantile Function Estimator) A sigmoidal quantile function estimator based on a newly defined generalized expectile function. The generalized sigmoidal quantile function can estimate quantiles beyond the range of the data, which is important for certain applications given smaller sample sizes. The package is based on the method introduced in Hutson (2024) . Package: r-cran-quantumops Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 308 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-quantumops_3.0.1-1.ca2004.1_all.deb Size: 265768 MD5sum: 3774db2d137af553e10a048ec316ce79 SHA1: 20deceeb6ff01d50c103688bd2524fa987319fbc SHA256: 2aca99537f2a04725da4ad67ccfc4edaa3821a72cf01898db9101e3116d3eb38 SHA512: 957fefc3f2ea3f2b780a3bd1b90bca621e546c2f3e95e07e62f8b1e8230e049c290e403a9cd27f9b594bebfdaef0ded7f79471453c8626bca6208869ed16ec79 Homepage: https://cran.r-project.org/package=QuantumOps Description: CRAN Package 'QuantumOps' (Performs Common Linear Algebra Operations Used in QuantumComputing and Implements Quantum Algorithms) Contains basic structures and operations used frequently in quantum computing. Intended to be a convenient tool to help learn quantum mechanics and algorithms. Can create arbitrarily sized kets and bras and implements quantum gates, inner products, and tensor products. Creates arbitrarily controlled versions of all gates and can simulate complete or partial measurements of kets. Has functionality to convert functions into equivalent quantum gates and model quantum noise. Includes larger applications, such as Steane error correction , Quantum Fourier Transform and Shor's algorithm (Shor 1999), Grover's algorithm (1996), Quantum Approximation Optimization Algorithm (QAOA) (Farhi, Goldstone, and Gutmann 2014) , and a variational quantum classifier (Schuld 2018) . Can be used with the gridsynth algorithm to perform decomposition into the Clifford+T set. 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Currently plain-, age-, volatility-weighted- and filtered historical simulation are implemented in this package. Volatility weighting can be carried out via an exponentially weighted moving average model (EWMA) or other GARCH-type models. The performance can be assessed via Traffic Light Test, Coverage Tests and Loss Functions. The methods of the package are described in Gurrola-Perez, P. and Murphy, D. (2015) as well as McNeil, J., Frey, R., and Embrechts, P. (2015) . Package: r-cran-quarrint Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3924 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-neuralnet Filename: pool/dists/focal/main/r-cran-quarrint_1.0.0-1.ca2004.1_all.deb Size: 3972164 MD5sum: 33c311c3825704a2ddb2fc2594541cf0 SHA1: 6b12e8a33a6236bc558f5257e4b04a8aeea4e047 SHA256: 8793cdad707b0c61d8c64dac79fb04503e13eb5e669d69811b52c541ac249e76 SHA512: 21d641843e0dfb01716749d6c9467ad0d1d39dc27ddcf2bc9e0e0207e0cbd121ba1d744632ccd7c3c34bf4c6f18589803ba954f627fff88cb932e699b06e06f4 Homepage: https://cran.r-project.org/package=quarrint Description: CRAN Package 'quarrint' (Interaction Prediction Between Groundwater and Quarry ExtensionUsing Discrete Choice Models and Artificial Neural Networks) An implementation of two interaction indices between extractive activity and groundwater resources based on hazard and vulnerability parameters used in the assessment of natural hazards. 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Package: r-cran-quaxnat Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1871 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-terra Filename: pool/dists/focal/main/r-cran-quaxnat_1.0.1-1.ca2004.1_all.deb Size: 1853832 MD5sum: a6baf0b5a38159cd1274b9b6d9b7bf81 SHA1: d511bab1482f1fb5da3bce89ebcf045c4949d096 SHA256: 5c7ba4435ec47a7096573bf74428f666976118564eb0f7721858ac000ce578e2 SHA512: 154da7ac7af8df38a8d041e4a59e63e089fe289ea598f9ff57505181b0ab23e9b17ef94ddf196eb9da956f28bb6b8e07c91109b768ba2361950fa669e7bec9ee Homepage: https://cran.r-project.org/package=quaxnat Description: CRAN Package 'quaxnat' (Estimation of Natural Regeneration Potential) Functions for estimating the potential dispersal of tree species using regeneration densities and dispersal distances to nearest seed trees. A quantile regression is implemented to determine the dispersal potential. Spatial prediction can be used to identify natural regeneration potential for forest restoration as described in Axer et al (2021) . Package: r-cran-quclu Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-quclu_1.0.1-1.ca2004.1_all.deb Size: 48956 MD5sum: 46211277007a2ddb0ec01c9e03e83612 SHA1: 4e153004aa291bb32c1d12ea1bd2f1185f01c68a SHA256: f9aaf0849123b2803f4d850c636d7b0b25d81002cb4d19a6e20075aaf723e4be SHA512: 2be1324123f297fca17387e553bcd256968a018ffae5a3a047074ead78fbd066260de32001429b57661ba9038aa8ae0cfaa69a3ae894f51ff41c577147fb4c2c Homepage: https://cran.r-project.org/package=QuClu Description: CRAN Package 'QuClu' (Quantile-Based Clustering Algorithms) Various quantile-based clustering algorithms: algorithm CU (Common theta and Unscaled variables), algorithm CS (Common theta and Scaled variables through lambda_j), algorithm VU (Variable-wise theta_j and Unscaled variables) and algorithm VW (Variable-wise theta_j and Scaled variables through lambda_j). Hennig, C., Viroli, C., Anderlucci, L. (2019) "Quantile-based clustering." Electronic Journal of Statistics. 13 (2) 4849 - 4883 . Package: r-cran-querybuilder Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-rlang, r-cran-dplyr, r-cran-glue, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-querybuilder_0.1.0-1.ca2004.1_all.deb Size: 110320 MD5sum: 2f6aa2fac4482557258f7a50fa396568 SHA1: 54651dac088322e2f947f4e48f3cbe32e7b75e26 SHA256: 4569c1e66522bba5ad3541c147892124e16a6d03363cc9caf38344532596f055 SHA512: 58030620ff0088f30e821bb8853e019e4a25c0727642c7a647d570f13c06492f6eb3e11b18a46668b165684b544d61bf26d2664f023fd1be54a8688a5fd73ac9 Homepage: https://cran.r-project.org/package=queryBuilder Description: CRAN Package 'queryBuilder' (Programmatic Way to Construct Complex Filtering Queries) Syntax for defining complex filtering expressions in a programmatic way. 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This package provides functions to overview gene-environment relationships, to construct the prediction model, and to predict environmental conditions where the transcriptomes were generated. This package can quest for candidate genes for the model construction even in non-model organisms' transcriptomes without any genetic information. Package: r-cran-queueing Architecture: all Version: 0.2.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1191 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-queueing_0.2.12-1.ca2004.1_all.deb Size: 927884 MD5sum: 696affe6c214a879f1de2d4e2c18c97c SHA1: 55b95da8fc73d47c7ebac7791f08ff06e753f54a SHA256: 117c0c8eb08bfb864dc00b4feb2785fb2bf626a06c3f1b09a7ead2320a16639c SHA512: ab11e67ed653a15f0e77058f15545db422f7cd221129e2c15699a0d6bdc22ed0b89ed07d780957e5f84eb3cedd06589217758b347f5ef5aba413022a0b844201 Homepage: https://cran.r-project.org/package=queueing Description: CRAN Package 'queueing' (Analysis of Queueing Networks and Models) It provides versatile tools for analysis of birth and death based Markovian Queueing Models and Single and Multiclass Product-Form Queueing Networks. It implements M/M/1, M/M/c, M/M/Infinite, M/M/1/K, M/M/c/K, M/M/c/c, M/M/1/K/K, M/M/c/K/K, M/M/c/K/m, M/M/Infinite/K/K, Multiple Channel Open Jackson Networks, Multiple Channel Closed Jackson Networks, Single Channel Multiple Class Open Networks, Single Channel Multiple Class Closed Networks and Single Channel Multiple Class Mixed Networks. Also it provides a B-Erlang, C-Erlang and Engset calculators. This work is dedicated to the memory of D. Sixto Rios Insua. Package: r-cran-quhomology Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-numbers Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-quhomology_1.1.1-1.ca2004.1_all.deb Size: 79884 MD5sum: 7207f57aeef2033f3c70807f10e59f3e SHA1: 468b486d585106c21e4c50e6d80119bf94719392 SHA256: 54c38ed2d9bca1ac884a1c91b24348f2d39f7dc36c8eb847b814a797a4201cd8 SHA512: 615316f03667dc6b2d20609e37f5f65395e09aed09e7f56a8a2f59e9f2ea51db9fdeadaabf81ec184402587313d817d913d1b8a8a96bc7a717d76b669b7af375 Homepage: https://cran.r-project.org/package=quhomology Description: CRAN Package 'quhomology' (Calculation of Homology of Quandles, Racks, Biquandles andBiracks) Calculates the Quandle, Rack and Degenerate Homology groups of Racks and Biracks (as well as Quandles and Biquandles). 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Package: r-cran-quicknmix Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach, r-cran-optimparallel, r-cran-doparallel Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-quicknmix_1.1.1-1.ca2004.1_all.deb Size: 101144 MD5sum: a63014a8466fbbc447d45f3bc6161b9e SHA1: c2a86cce6721a4d7ca5f75ff3ec99b7bcfb65f68 SHA256: ac86335729a81b102c838759c1a7f3594e0a9aa24ad1cfc084795f2bd9de2b82 SHA512: 07793a1cb23e38d52061873ff5012fa21897b3ee70317159189d82b3829f8b41e4cedbe866745afd957391c0c12b008d3714fda54328f156f2d820ebc5520fcd Homepage: https://cran.r-project.org/package=quickNmix Description: CRAN Package 'quickNmix' (Asymptotic N-Mixture Model Fitting) For fitting N-mixture models using either FFT or asymptotic approaches. FFT N-mixture models extend the work of Cowen et al. (2017) . Asymptotic N-mixture models extend the work of Dail and Madsen (2011) , to consider asymptotic solutions to the open population N-mixture models. The FFT models are derived and described in "Parker, M.R.P., Elliott, L., Cowen, L.L.E. (2022). Computational efficiency and precision for replicated-count and batch-marked hidden population models [Manuscript in preparation]. Department of Statistics and Actuarial Sciences, Simon Fraser University.". The asymptotic models are derived and described in: "Parker, M.R.P., Elliott, L., Cowen, L.L.E., Cao, J. (2022). Fast asymptotic solutions for N-mixtures on large populations [Manuscript in preparation]. Department of Statistics and Actuarial Sciences, Simon Fraser University.". 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Package: r-cran-quicr Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 704 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-janitor, r-cran-openxlsx, r-cran-purrr, r-cran-readxl, r-cran-reshape2, r-cran-slider, r-cran-stringr, r-cran-tidyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-quicr_2.1.0-1.ca2004.1_all.deb Size: 501848 MD5sum: 88447fe10bf43e0205e46c1d50137a45 SHA1: 9542b74bde7364bef3ba23116b51c8f23867c34a SHA256: 2d76e15718086ea17a3cd0100a70f51fdeb11f811d9b2b4b6415dfb16cd5dc7d SHA512: 6925e5ca81349f0f6908b722f4d018075a246cb3fe46d30b93b5d54dcc82143296c582b702e77ec3cdf2efe87bef7309842f8e09f1cf0a3ef8c59398bee860db Homepage: https://cran.r-project.org/package=quicR Description: CRAN Package 'quicR' (RT-QuIC Data Formatting and Analysis) Designed for the curation and analysis of data generated from real-time quaking-induced conversion (RT-QuIC) assays first described by Atarashi et al. 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Package: r-cran-quicseedr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 577 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-wrs2, r-cran-magrittr, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-tidyselect, r-cran-rlang, r-cran-readxl Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-quicseedr_0.1.2-1.ca2004.1_all.deb Size: 488560 MD5sum: 377130695409575f5c99ed2ca0d8d60f SHA1: 2356e830cf4105aa4ee13dbdcd82106bd510b512 SHA256: e1aced25b16d62aeeda9c95fbff8c0605c735ba21acb2a1714107bfa58f885b5 SHA512: 80924ec30abace7d45e4dbc3ea35ef5cd7b1873a688ac0c318a3f026c20f26bd37d59ebd61462839ec34c2390f517d8b699151ff01c2182f8daa5e19b1ff0752 Homepage: https://cran.r-project.org/package=QuICSeedR Description: CRAN Package 'QuICSeedR' (Analyze Data for Fluorophore-Assisted Seed Amplification Assays) A toolkit for analysis and visualization of data from fluorophore-assisted seed amplification assays, such as Real-Time Quaking-Induced Conversion (RT-QuIC) and Fluorophore-Assisted Protein Misfolding Cyclic Amplification (PMCA). 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Package: r-cran-qvirus Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-qvirus_0.0.4-1.ca2004.1_all.deb Size: 81648 MD5sum: c0f9892321515bba70301fd1dc98e902 SHA1: 956be43c8e2db20bdd90b08aa8cc6ba3baeaf881 SHA256: f7226ef588e418507959b54069773cf8fdc5dcba1013983a959c171ab99e59f4 SHA512: b76a9c058b8515e455be4efb9f82449d94aa6c009d682e2ad444e564911ed89176ee2bc12a26eff6647fda5a66deef29b9e7a740f696b2b1729d66172fad873c Homepage: https://cran.r-project.org/package=qvirus Description: CRAN Package 'qvirus' (Quantum Computing for Analyzing CD4 Lymphocytes andAntiretroviral Therapy) Resources, tutorials, and code snippets dedicated to exploring the intersection of quantum computing and artificial intelligence (AI) in the context of analyzing Cluster of Differentiation 4 (CD4) lymphocytes and optimizing antiretroviral therapy (ART) for human immunodeficiency virus (HIV). 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Package: r-cran-r.huge Architecture: all Version: 0.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-r.methodss3, r-cran-r.oo, r-cran-r.utils Filename: pool/dists/focal/main/r-cran-r.huge_0.10.1-1.ca2004.1_all.deb Size: 208864 MD5sum: 0b7090f9c5dfd50c241e1b671624b8e6 SHA1: d42bb8961513bed6d8b616c9d200e1d6f02bf73b SHA256: 3791dcbc725535b8451faabeb7538ddb0d5dd42f8bfccefceb3bdab3d94c1f32 SHA512: 3eadbdad2c26c4976d70e431fbeaf88a4130aa3e965c7d91d4ab7f80d12e08d9de8dd627e34a8688701b03f7d881dab8c7b85fa30d44f7004633ae78093cea5d Homepage: https://cran.r-project.org/package=R.huge Description: CRAN Package 'R.huge' (Methods for Accessing Huge Amounts of Data [deprecated]) DEPRECATED. Do not start building new projects based on this package. Cross-platform alternatives are the following packages: bigmemory (CRAN), ff (CRAN), BufferedMatrix (Bioconductor). The main usage of it was inside the aroma.affymetrix package. (The package currently provides a class representing a matrix where the actual data is stored in a binary format on the local file system. This way the size limit of the data is set by the file system and not the memory.) Package: r-cran-r.jive Architecture: all Version: 2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4316 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gplots, r-cran-abind Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-r.jive_2.4-1.ca2004.1_all.deb Size: 4048136 MD5sum: 48ac75c2118af7f2b7a78ddd5dcd79cb SHA1: b9364b11802299ac9a2349a4053891a1b483c385 SHA256: 86213bfbd22ccd4546235108ad6e6ac61090d76ec44ecd3c223095c2e871be83 SHA512: 961d3774cbcb3016e22049da585f31ee191cf5a3372b800d67534e58dd4a202c4587b039fad2f8141c1ba5e6fa0ac725057ec7a28f49f65691867532cc4aecc3 Homepage: https://cran.r-project.org/package=r.jive Description: CRAN Package 'r.jive' (Perform JIVE Decomposition for Multi-Source Data) Performs the Joint and Individual Variation Explained (JIVE) decomposition on a list of data sets when the data share a dimension, returning low-rank matrices that capture the joint and individual structure of the data [O'Connell, MJ and Lock, EF (2016) ]. 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Package: r-cran-r.matlab Architecture: all Version: 3.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 395 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-r.methodss3, r-cran-r.oo, r-cran-r.utils Suggests: r-cran-matrix, r-cran-sparsem Filename: pool/dists/focal/main/r-cran-r.matlab_3.7.0-1.ca2004.1_all.deb Size: 266548 MD5sum: 40dc061bcd56078347154d0f0b0de39d SHA1: e6cdacb04fd70766175943056508b07169d995f1 SHA256: 1a204d6618c68b674cf351ba7e48e370e7944bcfaba667f90c9bfc5ebef39f32 SHA512: 466f337aba50324eaecc88050c9f4f86f284a98c792527a5fcdbea9407e559730989acf60e89f9258b990582bde56faf76f61872e525c460ff336b4be4a1d22a Homepage: https://cran.r-project.org/package=R.matlab Description: CRAN Package 'R.matlab' (Read and Write MAT Files and Call MATLAB from Within R) Methods readMat() and writeMat() for reading and writing MAT files. 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The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks. Package: r-cran-r.proxy Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-curl, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-r.proxy_0.1.3-1.ca2004.1_all.deb Size: 17116 MD5sum: 764401ae2d1b42dda6ecc6c542151a4e SHA1: ca3d0e7403e8a974072ccf66fc5b007d2cbf7ebf SHA256: d678b003fd363a2b85417b7ab6ec2b8af885224051f2acc920b7ca8914cce3c8 SHA512: e0755b5097fa827638b2455de017da6af1c63f92ca610e497fb12d684fbd4dc843af04b8327da9bd2ff41fd44fea30db180de3dafd364c930ae8422df29e3c6d Homepage: https://cran.r-project.org/package=r.proxy Description: CRAN Package 'r.proxy' (Set Proxy in R Console) The use of proxies is required in certain network environments. 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RSP provides a powerful markup for controlling the content and output of LaTeX, HTML, Markdown, AsciiDoc, Sweave and knitr documents (and more), e.g. 'Today's date is <%=Sys.Date()%>'. Contrary to many other literate programming languages, with RSP it is straightforward to loop over mixtures of code and text sections, e.g. in month-by-month summaries. RSP has also several preprocessing directives for incorporating static and dynamic contents of external files (local or online) among other things. Functions rstring() and rcat() make it easy to process RSP strings, rsource() sources an RSP file as it was an R script, while rfile() compiles it (even online) into its final output format, e.g. rfile('report.tex.rsp') generates 'report.pdf' and rfile('report.md.rsp') generates 'report.html'. RSP is ideal for self-contained scientific reports and R package vignettes. It's easy to use - if you know how to write an R script, you'll be up and running within minutes. Package: r-cran-r.sambada Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1496 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-snprelate, r-bioc-gdsfmt Suggests: r-cran-rcpp, r-cran-data.table, r-cran-shiny, r-cran-plotly, r-cran-httr, r-bioc-biomart, r-cran-ggplot2, r-cran-sp, r-cran-packcircles, r-cran-raster, r-cran-mapplots, r-cran-spdep, r-cran-rgdal, r-cran-rworldmap, r-cran-doparallel, r-cran-foreach, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-r.sambada_0.1.3-1.ca2004.1_all.deb Size: 505876 MD5sum: 0a41e27b590a6f60fc7884c8ab48c712 SHA1: 1b803ffa8ad1704feab5f8cfdde91227d428f1c5 SHA256: 6cc5cad90fbf968a533d37ea52521c0eaf424f5aadbe444fb0de2ca9b307d54e SHA512: 9d823a2e83b159382ff031b06518a06c9d7a568653e9eaa7cb29f7562cf3a808a4cd1e834339f8bc6999ff573f4b3643aeb2edfc3840046e81e5f981d770c7b6 Homepage: https://cran.r-project.org/package=R.SamBada Description: CRAN Package 'R.SamBada' (Processing Pipeline for 'SamBada' from Pre- To Post-Processing) Processing pipeline for 'SamBada' from pre- to post-processing. 'SamBada' is a landscape genomic software designed to run univariate or multivariate logistic regression between the presence of a genotype and one or several environmental variables. See Stucki (2017) and . The package provides functions that can be classified into four categories: 1) Install 'SamBada' 2) Preprocessing (prepare genomic file into standards compatible with 'SamBada' and apply quality-control; retrieve environmental conditions at sampling location; prepare environmental file including removal of correlated variables and computation of population structure) 3) Processing (run 'SamBada' on multiple cores using 'Supervision') 4) Post-processing (calculate p-values and q-values, produce interactive Manhattan plots and query 'Ensembl' database, produce maps). Package: r-cran-r.temis Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 426 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tm, r-cran-nlp, r-cran-slam, r-cran-factominer, r-cran-explor, r-cran-testthat, r-cran-wordcloud, r-cran-igraph, r-cran-stringi, r-cran-crayon, r-cran-snowballc, r-cran-tm.plugin.factiva, r-cran-tm.plugin.lexisnexis, r-cran-tm.plugin.europresse, r-cran-tm.plugin.alceste Filename: pool/dists/focal/main/r-cran-r.temis_0.1.3-1.ca2004.1_all.deb Size: 191856 MD5sum: 0d4df1850d206043298a23f81d0ba8b8 SHA1: d8a9046ef3de6234c4002aafb918c27b1185c99b SHA256: bf599955c5fef0bbbacf0e790e36c1854b35e49e6fbd7110f1ba6218abb94cb8 SHA512: b1e4eaf8458c86c6ec904168d3b4fb3446483217f106c93bb44cf93198706ac99f47697006a6b2f07578fd68f6c8f0615a7b640deb9db6a9397850562e58e951 Homepage: https://cran.r-project.org/package=R.temis Description: CRAN Package 'R.temis' (Integrated Text Mining Solution) An integrated solution to perform a series of text mining tasks such as importing and cleaning a corpus, and analyses like terms and documents counts, lexical summary, terms co-occurrences and documents similarity measures, graphs of terms, correspondence analysis and hierarchical clustering. 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Package: r-cran-r02pro Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1076 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-learnr Filename: pool/dists/focal/main/r-cran-r02pro_0.2-1.ca2004.1_all.deb Size: 867280 MD5sum: b38ad1901faf9471ef135383f91e90a6 SHA1: 36550ab30155c64d0e2ed071a4ed93b0f5d72849 SHA256: bf135b5f0a7c0e4cc199db339b0918a6e014075ac3cbf62f9573c65a0a9d03a7 SHA512: 37031331023bd9527df95626d4b6a0bcc9e768d98d487f0e8a1505b34b83b021932da439a04acc3269ee6b25996de636bcc40ba659b51583d1fd3780d9b38123 Homepage: https://cran.r-project.org/package=r02pro Description: CRAN Package 'r02pro' (R Programming: Zero to Pro) This is a companion package of the book "R Programming: Zero to Pro" . It contains the datasets used in the book and provides interactive exercises corresponding to the book. It covers a wide range of topics including visualization, data transformation, tidying data, data input and output. Package: r-cran-r0 Architecture: all Version: 1.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-r0_1.3-1-1.ca2004.1_all.deb Size: 243432 MD5sum: 736ccd1dbca77fb045b5422c0528ed5b SHA1: 5d1e721bad4b4e2a912123d8d7b4e1fc2c2b1337 SHA256: 08c4354712b43455e84b6257e7a3bac5b414cab4025f21038cfb4c2315739acd SHA512: 6b59d84f52538258c8eb7446ffec101458464cf59297947f11e2a22663e4d03c2c1df3171def9341215b63f25e2cb5d1426b3f0fc903bf7e35b147e01c378fb0 Homepage: https://cran.r-project.org/package=R0 Description: CRAN Package 'R0' (Estimation of R0 and Real-Time Reproduction Number fromEpidemics) Estimation of reproduction numbers for disease outbreak, based on incidence data. The R0 package implements several documented methods. It is therefore possible to compare estimations according to the methods used. Depending on the methods requested by user, basic reproduction number (commonly denoted as R0) or real-time reproduction number (referred to as R(t)) is computed, along with a 95% Confidence Interval. Plotting outputs will give different graphs depending on the methods requested : basic reproductive number estimations will only show the epidemic curve (collected data) and an adjusted model, whereas real-time methods will also show the R(t) variations throughout the outbreak time period. Sensitivity analysis tools are also provided, and allow for investigating effects of varying Generation Time distribution or time window on estimates. Package: r-cran-r1magic Architecture: all Version: 0.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-r1magic_0.3.4-1.ca2004.1_all.deb Size: 45536 MD5sum: bfebea32680be6e650445756884793c6 SHA1: 019916ae4cf98feccec66730578fb9ede364987b SHA256: c91067d1c8b831fa60feb9302db18ee27a52d7782a76c87d825974bbf4582b38 SHA512: 8cd8b19e382558ad9e43dcb710a03b1a22d6d57be2a3370fb3d8f180181f0b7df1e3519f3ec4aee3b0f7ad693d918b4e30dc42e207e6d8e9442ff8b0bd2493eb Homepage: https://cran.r-project.org/package=R1magic Description: CRAN Package 'R1magic' (Compressive Sampling: Sparse Signal Recovery Utilities) Utilities for sparse signal recovery suitable for compressed sensing. L1, L2 and TV penalties, DFT basis matrix, simple sparse signal generator, mutual cumulative coherence between two matrices and examples, Lp complex norm, scaling back regression coefficients. Package: r-cran-r2019ncov Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1417 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-ggplot2, r-cran-dplyr, r-cran-pinyin, r-cran-maps Suggests: r-cran-spelling, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-r2019ncov_0.1.0-1.ca2004.1_all.deb Size: 1300232 MD5sum: 8a5dde9e089d9d00ed5d174b30c30217 SHA1: 04ff62998ad301664a5495ca6359707dba2d632a SHA256: 059abe4f4f542e609289f4106064f396efe5acbd67822fca934b48daa76d6912 SHA512: ac4b55665b46db6315b9c41f01b0fdc2cffe97d312d86b424c00cfe0bcbe644fc87cf24cdfb852b0cfb803c5d9677cf1bc7cae4bc54df1bb4fa14065c28905aa Homepage: https://cran.r-project.org/package=R2019nCoV Description: CRAN Package 'R2019nCoV' (Analysis of 2019-nCoV Virus) Since December 2019, Wuhan City, Hubei Province has continued to carry out surveillance of influenza and related diseases, and found multiple cases of viral pneumonia, all of which were diagnosed with viral pneumonia / pulmonary infection. On January 12, 2020, the World Health Organization officially named the new coronavirus causing the pneumonia epidemic in Wuhan as "2019 New Coronavirus (2019-nCoV)". The current epidemic situation is very serious, here we developed an R package for 2019-nCoV analysis(Real-time monitoring and Visualization) by querying real-time statistics of 2019-nCoV virus cases from and performing follow-up analysis. 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The measure can be used as a measure of predictive capability and therefore it can be adopted in model selection process. Rava, D. and Xu, R. (2020) . 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Package: r-cran-r2dii.data Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 388 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lifecycle Suggests: r-cran-charlatan, r-cran-covr, r-cran-readr, r-cran-rlang, r-cran-rmarkdown, r-cran-stringi, r-cran-testthat Filename: pool/dists/focal/main/r-cran-r2dii.data_0.6.1-1.ca2004.1_all.deb Size: 339808 MD5sum: 749e96840560058cbb17f27127621710 SHA1: 7aa1372ce2d18ae37247961cd8d9c8bd56921719 SHA256: e27a639477302264a5cda16767ea75f31b7b33058324734275f70e76db512db3 SHA512: ca199ddd61d52287754032eaa2ef22e366af76409f9edf883716617df09dbd6cbf0e89630b646b31f846e041d6812c3d373e7f1390356bbc79c662fc99073820 Homepage: https://cran.r-project.org/package=r2dii.data Description: CRAN Package 'r2dii.data' (Datasets to Measure the Alignment of Corporate Loan Books withClimate Goals) These datasets support the implementation in R of the software 'PACTA' (Paris Agreement Capital Transition Assessment), which is a free tool that calculates the alignment between corporate lending portfolios and climate scenarios (). 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Financial institutions use 'PACTA' to study how their capital allocation decisions align with climate change mitigation goals. This package matches data from corporate lending portfolios to asset level data from market-intelligence databases (e.g. power plant capacities, emission factors, etc.). This is the first step to assess if a financial portfolio aligns with climate goals. 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Package: r-cran-r2glmm Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv, r-cran-matrix, r-cran-pbkrtest, r-cran-ggplot2, r-cran-afex, r-cran-mass, r-cran-gridextra Suggests: r-cran-lme4, r-cran-nlme, r-cran-testthat, r-cran-data.table, r-cran-dplyr, r-cran-lmertest Filename: pool/dists/focal/main/r-cran-r2glmm_0.1.3-1.ca2004.1_all.deb Size: 91924 MD5sum: 3e22f74d32ab1ea2a3b96bba6b5f2286 SHA1: f91031a011fe49ef57d8bf3ac77a7cf5632b7d11 SHA256: 340e765fe8557b12d697273ca6da3d4e5531382a0b616f8cbd8a0ce88a45fdae SHA512: d191b363daec4792ac6a08e401f9782955a8d9ae5d3f6174ac0d020bc6bd89ac7da8ff6da507cd4d63f8288be029a92b4ddde5f95e01e2d7921429233234b08c Homepage: https://cran.r-project.org/package=r2glmm Description: CRAN Package 'r2glmm' (Computes R Squared for Mixed (Multilevel) Models) The model R squared and semi-partial R squared for the linear and generalized linear mixed model (LMM and GLMM) are computed with confidence limits. The R squared measure from Edwards et.al (2008) is extended to the GLMM using penalized quasi-likelihood (PQL) estimation (see Jaeger et al. 2016 ). Three methods of computation are provided and described as follows. First, The Kenward-Roger approach. Due to some inconsistency between the 'pbkrtest' package and the 'glmmPQL' function, the Kenward-Roger approach in the 'r2glmm' package is limited to the LMM. Second, The method introduced by Nakagawa and Schielzeth (2013) and later extended by Johnson (2014) . The 'r2glmm' package only computes marginal R squared for the LMM and does not generalize the statistic to the GLMM; however, confidence limits and semi-partial R squared for fixed effects are useful additions. Lastly, an approach using standardized generalized variance (SGV) can be used for covariance model selection. Package installation instructions can be found in the readme file. Package: r-cran-r2html Architecture: all Version: 2.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 912 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-boot, r-cran-survival, r-cran-cluster, r-cran-nlme, r-cran-rpart, r-cran-nnet Filename: pool/dists/focal/main/r-cran-r2html_2.3.4-1.ca2004.1_all.deb Size: 582260 MD5sum: bb40af3f760133ed6baaf105d186ae24 SHA1: 9b3c87f9cba0c0ddc2f5cb8de6e7f8dea4e44b6c SHA256: 373acb0ad57ef19b23bcfb2860dafe984d205323cd83e494f53238d30bdc6507 SHA512: fce58dc8e370af5251a437a936c42f679c4e8f4bc8ea55ed9814f3d80ee2f7215d6249351eadc54050abf261e2d413ee7b8afa599eab84a8ea4342d956be1e62 Homepage: https://cran.r-project.org/package=R2HTML Description: CRAN Package 'R2HTML' (HTML Exportation for R Objects) Includes HTML function and methods to write in an HTML file. Thus, making HTML reports is easy. Includes a function that allows redirection on the fly, which appears to be very useful for teaching purpose, as the student can keep a copy of the produced output to keep all that he did during the course. Package comes with a vignette describing how to write HTML reports for statistical analysis. Finally, a driver for 'Sweave' allows to parse HTML flat files containing R code and to automatically write the corresponding outputs (tables and graphs). Package: r-cran-r2jags Architecture: all Version: 0.8-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rjags, r-cran-abind, r-cran-coda, r-cran-r2winbugs, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-r2jags_0.8-9-1.ca2004.1_all.deb Size: 106456 MD5sum: 4d3e4af2e42c1cefad36a1072be426e4 SHA1: 5c4de307f97ff9a06d6530365987989cb71beb3b SHA256: 40eb50cb8009a2486a7d4b370dafa7d17c48f5fbb7dfedf307a6ce8065511b17 SHA512: 1fb51abf656eb80c29b9724188239569e9e17031d4b22f60030fea4c8eaab86c81c1e3cdb7831fff6eae4d328b096453c9fe16a57b8ed71cfc575102da488b68 Homepage: https://cran.r-project.org/package=R2jags Description: CRAN Package 'R2jags' (Using R to Run 'JAGS') Providing wrapper functions to implement Bayesian analysis in JAGS. Some major features include monitoring convergence of a MCMC model using Rubin and Gelman Rhat statistics, automatically running a MCMC model till it converges, and implementing parallel processing of a MCMC model for multiple chains. Package: r-cran-r2mlm Architecture: all Version: 0.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 453 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-nlme, r-cran-dplyr, r-cran-magrittr, r-cran-rlang, r-cran-rockchalk, r-cran-stringr, r-cran-tidyselect Suggests: r-cran-testthat, r-cran-matrix Filename: pool/dists/focal/main/r-cran-r2mlm_0.3.8-1.ca2004.1_all.deb Size: 408100 MD5sum: c00d330711fdda4bbaab24fa6450f529 SHA1: be27f9daa35514b57e782529d05e91be55721131 SHA256: 1564f43198229021deebf262564a93f24bdc5c6ce7863f4888f4091d9d054e0e SHA512: 5caf1df94f25d52deca1b1c01a15953401ba4bb42af960d2b00fd60f7b6fe3979f2ab5dbe9679120fdb616593128f17cfb7b2ab495b4254550abfb55ad234ccf Homepage: https://cran.r-project.org/package=r2mlm Description: CRAN Package 'r2mlm' (R-Squared Measures for Multilevel Models) Generates both total- and level-specific R-squared measures from Rights and Sterba’s (2019) framework of R-squared measures for multilevel models with random intercepts and/or slopes, which is based on a complete decomposition of variance. 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There are many possible uses for this new tool, such as to examine mathematical expressions with very irregular shapes, to aid teaching people with impaired vision, to create raised relief maps from digital elevation maps (DEMs), to bridge the gap between mathematical tools and rapid prototyping, and many more. Ian Walker created the function r2stl() and Jose' Gama assembled the package. 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The package allows users to generate detailed routing analysis or calculate travel time and monetary cost matrices using seamless parallel computing on top of the R5 Java machine. While R5 is developed by Conveyal, the package r5r is independently developed by a team at the Institute for Applied Economic Research (Ipea) with contributions from collaborators. Apart from the documentation in this package, users will find additional information on R5 documentation at . Although we try to keep new releases of r5r in synchrony with R5, the development of R5 follows Conveyal's independent update process. Hence, users should confirm the R5 version implied by the Conveyal user manual (see ) corresponds with the R5 version that r5r depends on. This version of r5r depends on R5 v7.1. Package: r-cran-r62s3 Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table Suggests: r-cran-pkgdown, r-cran-testthat, r-cran-r6 Filename: pool/dists/focal/main/r-cran-r62s3_1.4.1-1.ca2004.1_all.deb Size: 87640 MD5sum: b8c50c5a7a55605b13e2ae6af03806c9 SHA1: 322d9bdfdc2787b999babecf27998c381c5d87dc SHA256: 00333ff9855aee877f94f32a6313c2d8b1c3bcab32fff0822ba76d7f3e50af82 SHA512: bdffeb793dabd4d29cec93518f125fcec626501b4de2e0d303203bf221ab23e48a9ce531392674724d87c94cb18598b84e7a19f19b92de5718c71369e0cf7c84 Homepage: https://cran.r-project.org/package=R62S3 Description: CRAN Package 'R62S3' (Automatic Method Generation from R6) After defining an R6 class, R62S3 is used to automatically generate optional S3/S4 generics and methods for dispatch. Also allows piping for R6 objects. Package: r-cran-r6 Architecture: all Version: 2.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-lobstr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-r6_2.6.1-1.ca2004.1_all.deb Size: 85780 MD5sum: dc6afdc7f749692b7f8e04e7530c85a9 SHA1: 99d340d5e0bef4fbd1634600e7de27ac13477db6 SHA256: bd8a82fe646727eafcfbe7cb99e19ea0a6b1cc29058b0ec8719e812db7d8e6a4 SHA512: 40126a578f89139f009914871696d38bd93793b9a1e747cc4236a88534d3ec620724dde29ab29c06fe69f41912d1dd28e0f2c93e03b929ee532d90a2b2845c67 Homepage: https://cran.r-project.org/package=R6 Description: CRAN Package 'R6' (Encapsulated Classes with Reference Semantics) Creates classes with reference semantics, similar to R's built-in reference classes. Compared to reference classes, R6 classes are simpler and lighter-weight, and they are not built on S4 classes so they do not require the methods package. 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The missing data mechanism can be defined as a part of the structural model. The class contains methods for 1) defining a structural causal model via functions, text or conditional probability tables, 2) printing basic information on the model, 3) plotting the graph for the model using packages 'igraph' or 'qgraph', 4) simulating data from the model, 5) applying an intervention, 6) checking the identifiability of a query using the R packages 'causaleffect' and 'dosearch', 7) defining the missing data mechanism, 8) simulating incomplete data from the model according to the specified missing data mechanism and 9) checking the identifiability in a missing data problem using the R package 'dosearch'. In addition, there are functions for running experiments and doing counterfactual inference using simulation. Package: r-cran-r6ds Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 410 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-r6ds_1.2.0-1.ca2004.1_all.deb Size: 272392 MD5sum: 415f2c6d8de3870758e143412dbe4335 SHA1: f7ad74a748e9ec0fc8dc1856b8a32b60aafeb354 SHA256: af6c587436881a9ce80f2de7d5872b11acb2f69fbc0233393c16136dd15eaa4f SHA512: 75b7f950ed1df3280f34bc1c899e0bab49f7f67febba457f3f8040c0c75e31dd960ff6b1c2e210721782c12327abdad5d087fe172113226db9954e28c6cc5542 Homepage: https://cran.r-project.org/package=R6DS Description: CRAN Package 'R6DS' (R6 Reference Class Based Data Structures) Provides reference classes implementing some useful data structures. The package implements these data structures by using the reference class R6. 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Package: r-cran-r6p Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-collections, r-cran-dplyr, r-cran-stringr, r-cran-r6, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat, r-cran-dbi, r-cran-rsqlite, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-r6p_0.4.0-1.ca2004.1_all.deb Size: 73148 MD5sum: ff5d87d7b5bdb84acdf462cf13b591d6 SHA1: d08f9a6c6a3f4e5c11e66e3a7e44d5c4cb2763bf SHA256: 237cb34b1cc59b3a03c5c294cbafdf2cc82b3b9170b346782ba72da4ef72e236 SHA512: 5ffc1fae74ace4997c16bdaebb29b1ba3e965c8dc9f293896a6f96337f9659c29cbd23a3e9c066fec780ebec2e41737e7cb49c3014087b7492ff0184847de3ef Homepage: https://cran.r-project.org/package=R6P Description: CRAN Package 'R6P' (Design Patterns in R) Build robust and maintainable software with object-oriented design patterns in R. Design patterns abstract and present in neat, well-defined components and interfaces the experience of many software designers and architects over many years of solving similar problems. These are solutions that have withstood the test of time with respect to re-usability, flexibility, and maintainability. 'R6P' provides abstract base classes with examples for a few known design patterns. The patterns were selected by their applicability to analytic projects in R. Using these patterns in R projects have proven effective in dealing with the complexity that data-driven applications possess. Package: r-cran-r6qualitytools Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1512 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-envstats, r-cran-ggplot2, r-cran-gridextra, r-cran-mass, r-cran-patchwork, r-cran-plotly, r-cran-r6, r-cran-rcolorbrewer, r-cran-rsolnp, r-cran-scales, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-r6qualitytools_1.0.1-1.ca2004.1_all.deb Size: 1417692 MD5sum: 5be3ebba517d990f9edee8a6b46b24b4 SHA1: 9cc4c150bcca1744c007ff23a1077530ac782d76 SHA256: 54ca67f2aaba3af0befa5fb962914fa876e56a4471f427cac7a2963c40bf1bf6 SHA512: 6fc500c2afa944caacead6c2ff68ea52c98cc8ea3cefbfe453308719cb728a47e4f781ac10dc5af37dc54aee0e56a0e0daa30d880402fac68296fccfa6e75a82 Homepage: https://cran.r-project.org/package=r6qualitytools Description: CRAN Package 'r6qualitytools' (R6-Based Statistical Methods for Quality Science) A comprehensive suite of statistical tools for Quality Management, designed around the Define, Measure, Analyze, Improve, and Control (DMAIC) cycle used in Six Sigma methodology. Based on the discontinued CRAN package 'qualitytools', this package refactors its original design by incorporating 'R6' object-oriented programming for increased flexibility and performance. It replaces traditional graphics with modern, interactive visualizations using 'ggplot2' and 'plotly'. Built on 'tidyverse' principles, it simplifies data manipulation and visualization, offering an intuitive approach to quality science. Package: r-cran-ra4bayesmeta Architecture: all Version: 1.0-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 245 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-bayesmeta Filename: pool/dists/focal/main/r-cran-ra4bayesmeta_1.0-8-1.ca2004.1_all.deb Size: 209360 MD5sum: fae387abc3fe9b0247d369b3040f1bce SHA1: f356764125a7859c88a8c494c7f924bd76a4474b SHA256: 6449d0d110255315bf3833ed003f0e41a6e0b3f35a0f8665e0e73aae324deffe SHA512: 42da27e58420bc8c3e704b05ac764be2f71d0fd5e5d7d218add21de6ddfe659a1745fb9049e893bf35c1859acf70da7f6946027f794734e3e8a5f6e3d84a35b7 Homepage: https://cran.r-project.org/package=ra4bayesmeta Description: CRAN Package 'ra4bayesmeta' (Reference Analysis for Bayesian Meta-Analysis) Functionality for performing a principled reference analysis in the Bayesian normal-normal hierarchical model used for Bayesian meta-analysis, as described in Ott, Plummer and Roos (2021) . Computes a reference posterior, induced by a minimally informative improper reference prior for the between-study (heterogeneity) standard deviation. Determines additional proper anti-conservative (and conservative) prior benchmarks. Includes functions for reference analyses at both the posterior and the prior level, which, given the data, quantify the informativeness of a heterogeneity prior of interest relative to the minimally informative reference prior and the proper prior benchmarks. The functions operate on data sets which are compatible with the 'bayesmeta' package. 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It also calculates a Bayes factor, a number that indicates the certainty level of the inference, for each haplotyped gene. Citation: Gidoni, et al (2019) . Peres and Gidoni, et al (2019) . 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For more details of the proposed method, please refer to Zhan et al. (2021) . 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The application extends the functionality in 'radiant.data'. 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The application combines the functionality of 'radiant.data', 'radiant.design', 'radiant.basics', 'radiant.model', and 'radiant.multivariate'. 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The format of this plot with companion lines to assess atmospheric stability are both standard in meteorology and difficult to create from basic graphics functions. Hence this package. One novel feature is being able add several profiles to the same plot for comparison. Use "help(ExampleSonde)" for an explanation of the variables needed and how they should be named in a data frame. See for the package home page. 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These tools also enable subsequent visualization and statistical analysis of these data. Package: r-cran-radous Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 42 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glue, r-cran-httr, r-cran-readr, r-cran-checkmate, r-cran-curl Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-radous_0.1.3-1.ca2004.1_all.deb Size: 10592 MD5sum: 709cd1e6a5cddfe3972fe4d7114bdce5 SHA1: 78642a2efcb29132b46598deb761d754b2282289 SHA256: 86e1ea6ff3cd85d8bc9a39a2c2d4910fc0dfd96751f46cce56544d3262373708 SHA512: c7de4aa0aa89bab005f67d23d69b55d6c28e2c0154ada6992e70c4ac5c2f2be46162f820d3bafecea54932c2962ddd94aec1278defa7cca5e705510a769ddd8d Homepage: https://cran.r-project.org/package=radous Description: CRAN Package 'radous' (Query Random User Data from the Random User Generator API) Generate random user data from the Random User Generator API. 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Package: r-cran-radstackshelpr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vcfr, r-cran-ggplot2, r-cran-ggridges, r-cran-gridextra Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-radstackshelpr_0.1.0-1.ca2004.1_all.deb Size: 882708 MD5sum: 676c5a6fd33deeb8ede3e1dcddf6f434 SHA1: 89480e4d4779fc909504825e15ce0a946cbb4875 SHA256: 3b989f10af5ef012c06b891ecf846fdc582b9370306c71cbdcc080d334f60c88 SHA512: b36a22198e4e1af463caa6cd9ef5b2984f71a025462807d6e95e26a563401f8f2065c7e015b2abfc9a78aacacadd5fb12a66fb6cd5884198659d0b71b1830f25 Homepage: https://cran.r-project.org/package=RADstackshelpR Description: CRAN Package 'RADstackshelpR' (Optimize the De Novo Stacks Pipeline via R) Offers a handful of useful wrapper functions which streamline the reading, analyzing, and visualizing of variant call format (vcf) files in R. This package was designed to facilitate an explicit pipeline for optimizing Stacks (Rochette et al., 2019) () parameters during de novo (without a reference genome) assembly and variant calling of restriction-enzyme associated DNA sequence (RADseq) data. The pipeline implemented here is based on the 2017 paper "Lost in Parameter Space" (Paris et al., 2017) () which establishes clear recommendations for optimizing the parameters 'm', 'M', and 'n', during the process of assembling loci. 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Output variables include hydraulic head and the discharge vector. Particle traces can be computed numerically in three dimensions. The underlying theory is described in Haitjema (1995) and references therein. 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The fast accumulation of large scale datasets has posed a challenge to classical statistical methods. Current penalized variable selection methods show unsatisfactory performance in ultra-high dimensional data. We propose a novel method, the Random Approximate Elastic Net (RAEN), with a robust and generalized solution to the variable selection problem for the PSH model. Our method shows improved sensitivity for variable selection compared with current methods. 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Package: r-cran-ramanmp Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-ggrepel, r-cran-imputets Filename: pool/dists/focal/main/r-cran-ramanmp_1.0-1.ca2004.1_all.deb Size: 4173412 MD5sum: 51dadc51ee5e7aeae202b61e02b8cc8d SHA1: c7d4b9bae7de211872603aea1d994b5e7aace631 SHA256: 1102874744b209707ce1e76f906542f737d85a6601f20152aa6205809d36d4ee SHA512: 92c81be6fa12c3d57cbfe558b2a6d4db62110b6236d16667929cca66a47b26713491c763eb50d5e04e4f071280bb6ab58a6c6ad38be59fb895f350925175c4c4 Homepage: https://cran.r-project.org/package=RamanMP Description: CRAN Package 'RamanMP' (Analysis and Identification of Raman Spectra of Microplastics) Pre-processing and polymer identification of Raman spectra of plastics. Pre-processing includes normalisation functions, peak identification based on local maxima, smoothing process and removal of spectral region of no interest. Polymer identification can be performed using Pearson correlation coefficient or Euclidean distance (Renner et al. (2019), ), and the comparison can be done with a user-defined database or with the database already implemented in the package, which currently includes 356 spectra, with several spectra of plastic colorants. Package: r-cran-ramble Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 176 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ramble_0.1.1-1.ca2004.1_all.deb Size: 81912 MD5sum: 9dc8219f0d07a7289817093bdb488dc1 SHA1: 854ec96ef849649adf30a2f014b59b9f87233946 SHA256: 46090a29d49bdb71057c2dee7c5ea00dbe9bb910a7624b0aef10e2c72a067315 SHA512: 0b31b1924c3e0c66dc4f3a0cf32e86303b8e7704ae29b31b11a7acf2961651f05e1ac58f081943f1f718f9af76560ec8367740bb51ccffb0b0b36bb838c065c4 Homepage: https://cran.r-project.org/package=Ramble Description: CRAN Package 'Ramble' (Parser Combinator for R) Parser generator for R using combinatory parsers. It is inspired by combinatory parsers developed in Haskell. Package: r-cran-rambo Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sna Filename: pool/dists/focal/main/r-cran-rambo_1.1.1-1.ca2004.1_all.deb Size: 42332 MD5sum: 92c1c0407bf2a9ae11bcf41de1ca5112 SHA1: fc5b1d6feab49e9f7a90076ccdf4d9ec96b77554 SHA256: 4ee0a272a3b2875ddace1b7369b01c42a3cab43eed134c4b08ba20457b5c5c1b SHA512: 906101464a9d5190b181c8b0880b294585c3766e25c9c4b31496dbc315c424857ca25aaba9443f10ecf53fa5da97e63b12dc0c92b0d034cf90bf9a4731017310 Homepage: https://cran.r-project.org/package=Rambo Description: CRAN Package 'Rambo' (The Random Subgraph Model) Estimate the parameters, the number of classes and cluster vertices of a random network into groups with homogeneous connection profiles. The clustering is performed for directed graphs with typed edges (edges are assumed to be drawn from multinomial distributions) for which a partition of the vertices is available. Package: r-cran-ramcharts4 Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 10924 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-htmltools, r-cran-htmlwidgets, r-cran-reactr, r-cran-shiny, r-cran-jsonlite, r-cran-lubridate, r-cran-minpack.lm, r-cran-base64enc, r-cran-xml2, r-cran-stringr Suggests: r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-ramcharts4_1.6.0-1.ca2004.1_all.deb Size: 1692300 MD5sum: 7d76b448e352c627e38e41450aa61b64 SHA1: 796ea6f6ee42bb3a8ffd2fe3e5c980c59ce20066 SHA256: b2e5c038650b76d527ed70baa424aff65280414129faf3c272173f4a2c55f7fe SHA512: 3f1686efdf49d63b5d820009d49a4a08848ce7646f65b84b62f1cfb67365ea2ee87cf4cdd53a127d2bf64484559800b89b91b3ad218e36833fd49744e8a5bccc Homepage: https://cran.r-project.org/package=rAmCharts4 Description: CRAN Package 'rAmCharts4' (Interface to the JavaScript Library 'amCharts 4') Creates JavaScript charts. The charts can be included in 'Shiny' apps and R markdown documents, or viewed from the R console and 'RStudio' viewer. Based on the JavaScript library 'amCharts 4' and the R packages 'htmlwidgets' and 'reactR'. Currently available types of chart are: vertical and horizontal bar chart, radial bar chart, stacked bar chart, vertical and horizontal Dumbbell chart, line chart, scatter chart, range area chart, gauge chart, boxplot chart, pie chart, and 100% stacked bar chart. 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Based on 'htmlwidgets', it provides a global architecture to generate 'JavaScript' source code for charts. Most of classes in the library have their equivalent in R with S4 classes; for those classes, not all properties have been referenced but can easily be added in the constructors. Complex properties (e.g. 'JavaScript' object) can be passed as named list. See examples at and for more information about the library. The package includes the free version of 'AmCharts' Library. Its only limitation is a small link to the web site displayed on your charts. If you enjoy this library, do not hesitate to refer to this page to purchase a licence, and thus support its creators and get a period of Priority Support. See also for more information about 'AmCharts' company. Package: r-cran-ramchoice Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-ramchoice_2.2-1.ca2004.1_all.deb Size: 144720 MD5sum: db944f9297ca031f5449560947050cf7 SHA1: d3e168404638138e66bdf4ad2848ff917a194453 SHA256: 9f0c89c267a3a352687e0dea41a20c1fe17ae659165e8fd5ab59ca0a5a26b0f4 SHA512: e097384f2b45330ad74563e47ad434e25a56f34f875c70464328a21674164bf063b2f36b2001e67dea7ec77ecfce5bd68c4343b0a164b305c6057ea9e8e19979 Homepage: https://cran.r-project.org/package=ramchoice Description: CRAN Package 'ramchoice' (Revealed Preference and Attention Analysis in Random LimitedAttention Models) It is widely documented in psychology, economics and other disciplines that socio-economic agent may not pay full attention to all available alternatives, rendering standard revealed preference theory invalid. This package implements the estimation and inference procedures of Cattaneo, Ma, Masatlioglu and Suleymanov (2020) and Cattaneo, Cheung, Ma, and Masatlioglu (2022) , which utilizes standard choice data to partially identify and estimate a decision maker's preference and attention. For inference, several simulation-based critical values are provided. Package: r-cran-ramclustr Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1152 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dynamictreecut, r-cran-fastcluster, r-cran-httr, r-cran-jsonlite, r-cran-e1071, r-cran-gplots, r-bioc-pcamethods, r-cran-stringr, r-cran-webchem, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-bioc-xcms, r-cran-testthat, r-cran-patrick, r-bioc-msnbase, r-cran-interpretmsspectrum, r-cran-biocmanager, r-cran-xml2, r-cran-stringi, r-cran-readxl, r-cran-curl, r-cran-rentrez Filename: pool/dists/focal/main/r-cran-ramclustr_1.3.1-1.ca2004.1_all.deb Size: 1055776 MD5sum: d06eac502080d9d0688ae3c635466697 SHA1: d7995988ac691391cfc5199fa08112433abc5330 SHA256: e9f2fee5d56f8f1d19bd43798655dfa65e864a2156edf9aae3aad5c9f6da66fd SHA512: ce3348f53daf6123c12729551a550c9592400a2501324c4d922b19064e2c0d767b73f5c78b05a571e5f742bf6e7b08f780bdcbfae7dc2a66e8836779504f2fc8 Homepage: https://cran.r-project.org/package=RAMClustR Description: CRAN Package 'RAMClustR' (Mass Spectrometry Metabolomics Feature Clustering andInterpretation) A feature clustering algorithm for non-targeted mass spectrometric metabolomics data. This method is compatible with gas and liquid chromatography coupled mass spectrometry, including indiscriminant tandem mass spectrometry data . Package: r-cran-rameritrade Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-urltools, r-cran-lubridate, r-cran-dplyr, r-cran-jsonlite, r-cran-magrittr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rameritrade_0.1.5-1.ca2004.1_all.deb Size: 80964 MD5sum: 05e7030496f2a74970cfe61a5a33d084 SHA1: f8809d940b09b6278d865e80b219d96c13226669 SHA256: 92b8024972055d90675854c5e389a4b10eb4cd996967abe4d9f1eccc0392a02a SHA512: e19d8f9f8b0f59cba083f7770de73c2a8d07d4185112ca3596e930743c9e6a57df0b1756e2468be189395e25e4953b1cbbc6953f7c1fb54f5485c719678fe374 Homepage: https://cran.r-project.org/package=rameritrade Description: CRAN Package 'rameritrade' ('TD Ameritrade' API Interface for R) Use R to interface with the 'TD Ameritrade' API . Functions include authentication, trading, price requests, account information, and option chains. 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Package: r-cran-ramify Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 433 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ramify_0.4.0-1.ca2004.1_all.deb Size: 281948 MD5sum: e47226ab9262020b8dca9c1e44494d9b SHA1: 629140cb691375a3efdc0d93b9e97d932a59e56f SHA256: a0d01d444817558aa495bda263981cbe4238451657464f9a72b76cb6ea429ad9 SHA512: 033eb6df1aa160af11136b7df80142fd27a81b6c80d0c6ce59659e73cf789a1cb1c88a7686fbbf107c0b86fd4c7b47cb2ecb1106fba0e37218bdb4b92a068150 Homepage: https://cran.r-project.org/package=ramify Description: CRAN Package 'ramify' (Additional Matrix Functionality) Additional matrix functionality for R including: (1) wrappers for the base matrix function that allow matrices to be created from character strings and lists (the former is especially useful for creating block matrices), (2) better printing of large matrices via the generic "pretty" print function, and (3) a number of convenience functions for users more familiar with other scientific languages like 'Julia', 'Matlab'/'Octave', or 'Python'+'NumPy'. Package: r-cran-ramlegacy Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 358 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cli, r-cran-crayon, r-cran-httr, r-cran-rappdirs, r-cran-readxl Suggests: r-cran-covr, r-cran-testthat, r-cran-httptest, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ramlegacy_0.2.0-1.ca2004.1_all.deb Size: 223568 MD5sum: f29b50ae2fa683cfab00fec580587ba0 SHA1: daf756539a9804a775e9290cbb8657ad0dabc35b SHA256: 52746c16c63f710a9f76e7ddaf4d1e12db2ae9ba001794280bf545c6366fb811 SHA512: 242bcf900a0df9b3057b3f81fed15d83bb8c79fa4e9d35afab62f7d517a22902577f764d469bf4c32bbabccd1f695f3ecf0bc3b76979156763eef10378734eca Homepage: https://cran.r-project.org/package=ramlegacy Description: CRAN Package 'ramlegacy' (Download and Read RAM Legacy Stock Assessment Database) Contains functions to download, cache and read in 'Excel' version of the RAM Legacy Stock Assessment Data Base, an online compilation of stock assessment results for commercially exploited marine populations from around the world. The database is named after Dr. Ransom A. Myers whose original stock-recruitment database, is no longer being updated. More information about the database can be found at . Ricard, D., Minto, C., Jensen, O.P. and Baum, J.K. (2012) . Package: r-cran-rampath Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 262 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lavaan, r-cran-ellipse, r-cran-mass Filename: pool/dists/focal/main/r-cran-rampath_0.5.1-1.ca2004.1_all.deb Size: 229336 MD5sum: 6bd5229b07bb891a5d91e3e11e7a0522 SHA1: 71ee920cb4bba64c6c223e7857ecfa0ea2e991f2 SHA256: c02765cd9358184b2c6b75b4c35b073582026021411f6d8221aa1421986b9487 SHA512: c423972339c58eb0ffb762ae130fefd3f9256d6129abe4a50cbd604704caf4849e0b69791e6959bd4da600d6fb27f88235aa4b1282b80e3ace94fb4c654bc9ed Homepage: https://cran.r-project.org/package=RAMpath Description: CRAN Package 'RAMpath' (Structural Equation Modeling Using the Reticular Action Model(RAM) Notation) We rewrite of RAMpath software developed by John McArdle and Steven Boker as an R package. In addition to performing regular SEM analysis through the R package lavaan, RAMpath has unique features. First, it can generate path diagrams according to a given model. Second, it can display path tracing rules through path diagrams and decompose total effects into their respective direct and indirect effects as well as decompose variance and covariance into individual bridges. Furthermore, RAMpath can fit dynamic system models automatically based on latent change scores and generate vector field plots based upon results obtained from a bivariate dynamic system. Starting version 0.4, RAMpath can conduct power analysis for both univariate and bivariate latent change score models. Package: r-cran-ramps Architecture: all Version: 0.6.18-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 419 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-coda, r-cran-maps, r-cran-matrix, r-cran-nlme, r-cran-fields Filename: pool/dists/focal/main/r-cran-ramps_0.6.18-1.ca2004.1_all.deb Size: 298644 MD5sum: 1795a6c5d64a01e47c79a6b6e0fad926 SHA1: 01a4d204327e24f90d1b681b7123d4b1de5f6ddf SHA256: 797e59263b0f63423a96b4596c929b1cf1240b48d37da0fb3cce902a65540134 SHA512: 4ae80cee0e27eddcb38f57965e23a22d9e5d2db67e2a9ded6f707378bb53b135f8dd2c8b1a5ba6db7e8272e801ec0d9780abb9dda851ad35ef138b42f0119150 Homepage: https://cran.r-project.org/package=ramps Description: CRAN Package 'ramps' (Bayesian Geostatistical Modeling with RAMPS) Bayesian geostatistical modeling of Gaussian processes using a reparameterized and marginalized posterior sampling (RAMPS) algorithm designed to lower autocorrelation in MCMC samples. 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Briefly, the idea is to represent the correlation matrix using Cholesky factorization and p(p-1)/2 hyperspherical coordinates (i.e., angles), sample the angles from a particular distribution and then convert to the standard correlation matrix form. The angles are sampled from a distribution with pdf proportional to sin^k(theta) (0 < theta < pi, k >= 1) using the efficient sampling algorithm described in Enes Makalic and Daniel F. Schmidt (2018) . 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Package: r-cran-randmeta Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-randmeta_0.1.0-1.ca2004.1_all.deb Size: 173432 MD5sum: f4f9812996a27aff457938a43790eaf9 SHA1: 9160678ce6e4c5f1d4ad81482066c6adbdbaaece SHA256: e5e43f93ddb94ec3f4d8115e50f8197e6e06e8cced6eb6e7c2e9775a866a02b2 SHA512: 8a1eff1f2f67ba521c68da492316de5570f74b49fcec9d159d2ee1dc319d70b5813ad05e99a749b9a5116090e1a0eff840fd1d44ed2fee8519b6d6aa0c2a0c8f Homepage: https://cran.r-project.org/package=RandMeta Description: CRAN Package 'RandMeta' (Efficient Numerical Algorithm for Exact Inference in MetaAnalysis) A novel numerical algorithm that provides functionality for estimating the exact 95% confidence interval of the location parameter in the random effects model, and is much faster than the naive method. Works best when the number of studies is between 6-20. Package: r-cran-randnames Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble, r-cran-httr, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-randnames_0.2.3-1.ca2004.1_all.deb Size: 12120 MD5sum: a6f5d422672c9cbcceed4916a7fcecc4 SHA1: 5d6aaf02d0cd7574c5f69275e357858cff81056f SHA256: fd7e156b0a5c2c07b07930094960b79f27c36d899c7bffc40388442e0c8cc567 SHA512: dd6b0e0429fe9f7f1a80cd94f2c89e00b5d6b48fe1fdc5dc9ac59f91f61b0e165939183c55c44e4064871a8612508f9d047f6a93121ad5df20967b58dd369d90 Homepage: https://cran.r-project.org/package=randNames Description: CRAN Package 'randNames' (Package Provides Access to Fake User Data) Generates random names with additional information including fake SSNs, gender, location, zip, age, address, and nationality. Package: r-cran-randnet Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 211 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix, r-cran-entropy, r-cran-auc, r-cran-sparseflmm, r-cran-mgcv, r-cran-powerlaw, r-cran-rspectra, r-cran-irlba, r-cran-pracma, r-cran-nnls, r-cran-data.table Filename: pool/dists/focal/main/r-cran-randnet_0.7-1.ca2004.1_all.deb Size: 182480 MD5sum: 8b1ef96dadf9e4db0348eae0f97d85c2 SHA1: 3907b54b1b925e33562a67c6270c03a0520ffe56 SHA256: 67133bf87c0a26cf32d3010b0826fe765663c6ddaae10b020222d804714b647e SHA512: b9e0a631b164e25a6244501c5fa37ab5d7eb988a59e2a57ec5953d5c04e0867d8164d3f84f094fd7d0f93aa0199a62a9deeb0d12c4bc617311318f2090227a28 Homepage: https://cran.r-project.org/package=randnet Description: CRAN Package 'randnet' (Random Network Model Estimation, Selection and Parameter Tuning) Model selection and parameter tuning procedures for a class of random network models. The model selection can be done by a general cross-validation framework called ECV from Li et. al. (2016) . Several other model-based and task-specific methods are also included, such as NCV from Chen and Lei (2016) , likelihood ratio method from Wang and Bickel (2015) , spectral methods from Le and Levina (2015) . Many network analysis methods are also implemented, such as the regularized spectral clustering (Amini et. al. 2013 ) and its degree corrected version and graphon neighborhood smoothing (Zhang et. al. 2015 ). It also includes the consensus clustering of Gao et. al. (2014) , the method of moments estimation of nomination SBM of Li et. al. (2020) , and the network mixing method of Li and Le (2021) . It also includes the informative core-periphery data processing method of Miao and Li (2021) . The work to build and improve this package is partially supported by the NSF grants DMS-2015298 and DMS-2015134. 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The nth-percentile of the eigenvalues distribution obtained from both the randomly generated and the real data polychoric correlation matrices is returned. A plot comparing the two types of eigenvalues (real and simulated) will help determine the number of real eigenvalues that outperform random data. The function is based on the idea that if real data are non-normal and the polychoric correlation matrix is needed to perform a Factor Analysis, then the Parallel Analysis method used to choose a non-random number of factors should also be based on randomly generated polychoric correlation matrices and not on Pearson correlation matrices. Random data sets are simulated assuming or a uniform or a multinomial distribution or via the bootstrap method of resampling (i.e., random permutations of cases). Also Multigroup Parallel analysis is made available for random (uniform and multinomial distribution and with or without difficulty factor) and bootstrap methods. An option to choose between default or full output is also available as well as a parameter to print Fit Statistics (Chi-squared, TLI, RMSEA, RMR and BIC) for the factor solutions indicated by the Parallel Analysis. Also weighted correlation matrices may be considered for PA. 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Metrics such as partial correlations and variance inflation factors are tabulated as well as plotted for the user. A function is available for tuning the main Random Forest hyper-parameter based on model performance and variable importance metrics. This grid-search technique provides tables and plots showing the effect of the main hyper-parameter on each of the assessment metrics. It also returns each of the evaluated models to the user. The package also provides superior variable importance plots for individual models. All of the plots are developed so that the user has the ability to edit and improve further upon the plots. Derivations and methodology are described in Bladen (2022) . 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Tools such as 'GoMiner' (see Zeeberg, B.R., Feng, W., Wang, G. et al. (2003) ) can leverage GO to perform ontological analysis of microarray and proteomics studies, typically generating a list of significant functional categories. The significance is traditionally determined by randomizing the input gene list to computing the false discovery rate (FDR) of the enrichment p-value for each category. We explore here the novel alternative of randomizing the GO database rather than the gene list. 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Coordinate level spatial data can be aggregated to higher geographical identities like census blocks, ZIP codes or police district boundaries. This process requires mapping each point in the given data set to a particular identity of the desired geographical hierarchy. Unless efficient data structures are used, this can be a daunting task. The operation point.in.polygon() from the package sp is computationally expensive. Here, we exploit kd-trees as efficient nearest neighbor search algorithm to dramatically reduce the effective number of polygons being searched. 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The package includes functions for visualisation, detection and alignment of continuous tracheid radial file (defined as rows) and individual tracheid position within an annual ring of coniferous species. This package is designed to be used with elaborate cell output, e.g. as provided with ROXAS (von Arx & Carrer, 2014 ). The package has been validated for Picea abies, Larix Siberica, Pinus cembra and Pinus sylvestris. Package: r-cran-raqs Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 247 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-httr2 Suggests: r-cran-data.table, r-cran-tibble Filename: pool/dists/focal/main/r-cran-raqs_1.0.2-1.ca2004.1_all.deb Size: 194180 MD5sum: f4a0e8c52b2e706df2a8481637e25e70 SHA1: 81cdd14b6075cfe8a7bbdaa22593bba9d30287c0 SHA256: e00020a161db808e056992ab21e1cb4ae8d1b23167f9349abaf709d8f0b24bec SHA512: 89876075b2574603c5f9a0e9c7a93fe875ef01744be44931b6d45a5d77c28a1081f2470dff31949bf1f2d50f4d43f417994ee24b33b023e5eb1d2cd26f945ca2 Homepage: https://cran.r-project.org/package=raqs Description: CRAN Package 'raqs' (Interface to the US EPA Air Quality System (AQS) API) Offers functions for fetching JSON data from the US EPA Air Quality System (AQS) API with options to comply with the API rate limits. See for details of the AQS API. Package: r-cran-raqsapi Architecture: all Version: 2.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1117 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-httr2, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble Suggests: r-cran-covr, r-cran-devtools, r-cran-keyring, r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling, r-cran-testthat, r-cran-usethis, r-cran-withr Filename: pool/dists/focal/main/r-cran-raqsapi_2.0.5-1.ca2004.1_all.deb Size: 680732 MD5sum: 75e2e55941ad9d840a77031921c49513 SHA1: cbdbd57fa9476b16c07f7765462fa3fe900c6b6f SHA256: 14832985c2bde72273110f121425c224fc402db5a3948031f230b741c7ceaf91 SHA512: a7fd7f0e0d9058409a144e296b7870c04b44dd1ae2c52537268b19b30b41d4b4c4f4b3bbd029c89ddcf5357e09125b6695928d78eb8d0309c1b21dd52c5880cc Homepage: https://cran.r-project.org/package=RAQSAPI Description: CRAN Package 'RAQSAPI' (A Simple Interface to the US EPA Air Quality System Data MartAPI) Retrieve air monitoring data and associated metadata from the US Environmental Protection Agency's Air Quality System service using functions. See for details about the US EPA Data Mart API. Package: r-cran-raquifer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 326 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rdpack, r-cran-magrittr, r-cran-dplyr, r-cran-pracma, r-cran-gsl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-raquifer_0.1.0-1.ca2004.1_all.deb Size: 113260 MD5sum: 4eb42a51d75be11b86161c6d20203aa5 SHA1: 6ef46b7a8a48c2f332e17d80718d8bbd6a9f5a8a SHA256: e410c72da205661b05507a31644a7727e05caccf390fe583464b1e4f89a95fbe SHA512: 3a802f240feffb9da8517b24ed52acd35685325ac6ab023d864f4da18d04e1d6429725828ed2c12f142458d0594588f46fc6e5739eef05e9c02f82735d1b2bf3 Homepage: https://cran.r-project.org/package=Raquifer Description: CRAN Package 'Raquifer' (Estimate the Water Influx into Hydrocarbon Reservoirs) Generate a table of cumulative water influx into hydrocarbon reservoirs over time using un-steady and pseudo-steady state models. Van Everdingen, A. F. and Hurst, W. (1949) . Fetkovich, M. J. (1971) . Yildiz, T. and Khosravi, A. (2007) . Package: r-cran-rarecomb Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 341 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-arules, r-cran-dplyr, r-cran-pwr, r-cran-stringr, r-cran-tidyr, r-cran-reshape2, r-cran-sqldf Filename: pool/dists/focal/main/r-cran-rarecomb_1.1-1.ca2004.1_all.deb Size: 245624 MD5sum: 9eb1b8ef940db03df8b686d7b2753d44 SHA1: 6f462bb763eb3be37fbbfd245625186de0334717 SHA256: c41aa23a49354a2a47fc60931864539b4b898cd0b1f91b3a6c182fced64905b4 SHA512: b44a37d81319c6bc293ab8ed1cb543004939ceb127411a5e156149ab7561efcb497eb948480288b241957665e0abb3b5302002afdac068995ef006099e01d963 Homepage: https://cran.r-project.org/package=RareComb Description: CRAN Package 'RareComb' (Combinatorial and Statistical Analyses of Rare Events) A custom implementation of the apriori algorithm and binomial tests to identify combinations of features (genes, variants etc) significantly enriched for simultaneous mutations/events from sparse Boolean input, see Vijay Kumar Pounraja, Santhosh Girirajan (2021). Version 1.1 includes a minor adjustment to the number of combinations to be considered for multiple testing correction. This updated version is more conservative in its approach and hence more selective. . Package: r-cran-rarefy Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 602 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ade4, r-cran-adiv, r-cran-ape, r-cran-dplyr, r-cran-geiger, r-cran-vegan Suggests: r-cran-kableextra, r-cran-knitr, r-cran-phyloregion, r-cran-picante, r-cran-phytools, r-cran-raster, r-cran-rmarkdown, r-cran-sf Filename: pool/dists/focal/main/r-cran-rarefy_1.1.1-1.ca2004.1_all.deb Size: 389164 MD5sum: dcfadfbc14949906bde423b46faf502b SHA1: 085810af08525cfdfc845cbd0859a38f73c56856 SHA256: dafb62ef76156a5cc186706f65a006e209a3839105ac1373bec5d506647d167a SHA512: 86ea8cdf6a4f8a5af3a6af648601fb765449765bd5b34f2f01f1d88c45085a478507f0cca83d0dfbfa1b17bb7f8ea86e16fb9a3c4bfdb207a49568f352b0e034 Homepage: https://cran.r-project.org/package=Rarefy Description: CRAN Package 'Rarefy' (Rarefaction Methods) Includes functions for the calculation of spatially and non-spatially explicit rarefaction curves using different indices of taxonomic, functional and phylogenetic diversity. The user can also rarefy any biodiversity metric as provided by a self-written function (or an already existent one) that gives as output a vector with the values of a certain index of biodiversity calculated per plot (Ricotta, C., Acosta, A., Bacaro, G., Carboni, M., Chiarucci, A., Rocchini, D., Pavoine, S. (2019) ; Bacaro, G., Altobelli, A., Cameletti, M., Ciccarelli, D., Martellos, S., Palmer, M. W., … Chiarucci, A. (2016) ; Bacaro, G., Rocchini, D., Ghisla, A., Marcantonio, M., Neteler, M., & Chiarucci, A. (2012) ). Package: r-cran-rarege Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-nlme, r-cran-survey Filename: pool/dists/focal/main/r-cran-rarege_0.1-1.ca2004.1_all.deb Size: 71632 MD5sum: 43b3a0b7ed8102402d57d35cdd2d62f7 SHA1: d94d70b7c54e50e6a03334cbd727c0924f886b2f SHA256: 251ac2560a1d3d6cde3320e618c439fce36e534b632e104b0dbd36903e39ad3b SHA512: cc6bfea830c8b42ab39d5bb40ac2f8a2f353e2807d3cd2a0727a713026c58948b9096f4e0627274c1ad9926f7bc796d0c1138adb155e2813b5689db13d526d06 Homepage: https://cran.r-project.org/package=rareGE Description: CRAN Package 'rareGE' (Testing Gene-Environment Interaction for Rare Genetic Variants) Tests gene-environment interaction for rare genetic variants using Sequence Kernel Association Test (SKAT) type gene-based tests. Includes two tests for the interaction term only, and one joint test for genetic main effects and gene-environment interaction. Package: r-cran-rarenmtests Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-vegan Filename: pool/dists/focal/main/r-cran-rarenmtests_1.2-1.ca2004.1_all.deb Size: 115960 MD5sum: 9843011d5cbee2d63192914ff16b5413 SHA1: 98e42babdbfbd56dea29fa8ffe8f90eeac4745cb SHA256: cc563788fcbc6cb8dcb1eeedd5eea060316431faafdb77222ec2386bda8b8fe3 SHA512: e6245ae835f3c3f3d6a2f29198ddfadba4dd22ae85d9a148a468a9cfd78ebe2f5a2535ad1e4cbe3da644d44cacce4d21193338a08b44b2461d75b48f722383fd Homepage: https://cran.r-project.org/package=rareNMtests Description: CRAN Package 'rareNMtests' (Ecological and Biogeographical Null Model Tests for ComparingRarefaction Curves) Randomization tests for the statistical comparison of i = two or more individual-based, sample-based or coverage-based rarefaction curves. The ecological null hypothesis is that the i samples were all drawn randomly from a single assemblage, with (necessarily) a single underlying species abundance distribution. The biogeographic null hypothesis is that the i samples were all drawn from different assemblages that, nonetheless, share similar species richness and species abundance distributions. Functions are described in L. Cayuela, N.J. Gotelli & R.K. Colwell (2015) . Package: r-cran-rarestr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rarestr_1.1.1-1.ca2004.1_all.deb Size: 64628 MD5sum: f5b3d674204fb8f3f30436812c6335b1 SHA1: db34453f2d3b3292b892b483a36b9472e98f59ca SHA256: a05758daaa16dbbc434a7b08f55ee3d5b5aa0b3bc7603c0e73cfe991277aae2b SHA512: a533233f543b49d774adcc58110524b34cb5fb1e7848832b41c7088d3756a4519726e7afc328170a4623d52bac00a151c88238d76fb01f1c2ee1569170d8cb1c Homepage: https://cran.r-project.org/package=rarestR Description: CRAN Package 'rarestR' (Rarefaction-Based Species Richness Estimator) Calculate rarefaction-based alpha- and beta-diversity. Offer parametric extrapolation to estimate the total expected species in a single community and the total expected shared species between two communities. Visualize the curve-fitting for these estimators. Package: r-cran-rarfreq Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 232 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-latex2exp, r-cran-magrittr, r-cran-patchwork, r-cran-tidyr, r-cran-data.table, r-cran-reshape2, r-cran-rdpack Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rarfreq_0.1.5-1.ca2004.1_all.deb Size: 200804 MD5sum: 9cce3288af6bf4a9260e2b174d522a46 SHA1: 36bfbd5ac73194d366ff409fbe700989e5eb1803 SHA256: 06ed43b61cc92a545e6a9f682f84d97de53dfc632cacf198f61ca0edc144e5da SHA512: 58a76923489fa52fe40fca09ec64be4a2466c8e543547ca98d274bfe4cea9e62d029ce8cc412089fff1a618499b756ab2e747a1461af7e6932887314d409d732 Homepage: https://cran.r-project.org/package=RARfreq Description: CRAN Package 'RARfreq' (Response Adaptive Randomization with 'Frequentist' Approaches) Provides functions and command-line user interface to generate allocation sequence by response-adaptive randomization for clinical trials. The package currently supports two families of frequentist response-adaptive randomization procedures, Doubly Adaptive Biased Coin Design ('DBCD') and Sequential Estimation-adjusted Urn Model ('SEU'), for binary and normal endpoints. One-sided proportion (or mean) difference and Chi-square (or 'ANOVA') hypothesis testing methods are also available in the package to facilitate the inference for treatment effect. Additionally, the package provides comprehensive and efficient tools to allow one to evaluate and compare the performance of randomization procedures and tests based on various criteria. For example, plots for relationship among assumed treatment effects, sample size, and power are provided. Five allocation functions for 'DBCD' and six addition rule functions for 'SEU' are implemented to target allocations such as 'Neyman', 'Rosenberger' Rosenberger et al. (2001) and 'Urn' allocations. Package: r-cran-rarity Architecture: all Version: 1.3-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rarity_1.3-8-1.ca2004.1_all.deb Size: 91060 MD5sum: f5cf44d1e3f71add991cbe54ca7dbd65 SHA1: a2eb7853d38df34d17be7f7251308137ad10b47e SHA256: 4fbbf7a79ea2ad6951a5dbd2e45524488c0eab8c7498f346bfcb3afa5bbbf5c4 SHA512: 8389efc5b8a5c2a2f2a03b9070566d56762db429eb58b4e0147179d2ac47f8e150a7523b408a137a3cf82c32b30335eda702af12f4919930edfe0c47a2090478 Homepage: https://cran.r-project.org/package=Rarity Description: CRAN Package 'Rarity' (Calculation of Rarity Indices for Species and Assemblages ofSpecies) Allows calculation of rarity weights for species and indices of rarity for assemblages of species according to different methods (Leroy et al. 2012, Insect. Conserv. Divers. 5:159-168 ; Leroy et al. 2013, Divers. Distrib. 19:794-803 ). Package: r-cran-rarms Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-rarms_1.0.0-1.ca2004.1_all.deb Size: 14180 MD5sum: 2db649e96329d56bb90968f619f138d1 SHA1: c47574419169cd3355c43ae991761a39f6cde30e SHA256: 95b034a90b0a939074c2a8d6ce00e1786517c0b6a8076d113fb36cbc6470dd63 SHA512: 645f051437b1e1ef340f0783f70f6d416fd92f741a13344a7585b7717dfb9ab15a1088ed9cd1fc4a90e37b206b03718c07767c49b36ff63119e086c67a9640c5 Homepage: https://cran.r-project.org/package=rarms Description: CRAN Package 'rarms' (Access Data from the USDA ARMS Data API) Interface to easily access data via the United States Department of Agriculture (USDA)'s Agricultural Resource Management Survey (ARMS) Data API . The downloaded data can be saved for later off-line use. Also provide relevant information and metadata for each of the input variables needed for sending the data inquery. Package: r-cran-rarpack Architecture: all Version: 0.11-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rspectra Suggests: r-cran-matrix Filename: pool/dists/focal/main/r-cran-rarpack_0.11-0-1.ca2004.1_all.deb Size: 28384 MD5sum: ce6a3265c16e521261c13b6bc6c692c4 SHA1: d5632bb8b2a05fbb73b6d26f27f4256c3b119a0a SHA256: 1d9a3ef1e86261b60958bb607f295e6313eeb3f14e21aab607ae980b6cdf4b4a SHA512: 4adc429281e55d80e8a6b6672cb8dbf4625b72e6db8791105c09a1c5413b856563f6be54ed5a9d71d5a8754ecc6d4159a9a0641f670e7a3a89fa147c843a149a Homepage: https://cran.r-project.org/package=rARPACK Description: CRAN Package 'rARPACK' (Solvers for Large Scale Eigenvalue and SVD Problems) Previously an R wrapper of the 'ARPACK' library , and now a shell of the R package 'RSpectra', an R interface to the 'Spectra' library for solving large scale eigenvalue/vector problems. The current version of 'rARPACK' simply imports and exports the functions provided by 'RSpectra'. New users of 'rARPACK' are advised to switch to the 'RSpectra' package. Package: r-cran-rartrials Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 733 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pins, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rartrials_0.0.2-1.ca2004.1_all.deb Size: 641888 MD5sum: 43037c1f790269af3b7dfcf488bba719 SHA1: 1fcd6d89ea02b4f93c2d4af7081486d511bb209b SHA256: 22ef5365a7424c5239d88ccf06e782f43b66582b5753cf4ba3a3853823618721 SHA512: af1280c83ce7308628035fe397f3c928186739b18d1181691e07dae5210e3e606e125b28344929c5240ede1aafd0c89f4f3f02891a3e8b657392b82f458be635 Homepage: https://cran.r-project.org/package=RARtrials Description: CRAN Package 'RARtrials' (Response-Adaptive Randomization in Clinical Trials) Some response-adaptive randomization methods commonly found in literature are included in this package. These methods include the randomized play-the-winner rule for binary endpoint (Wei and Durham (1978) ), the doubly adaptive biased coin design with minimal variance strategy for binary endpoint (Atkinson and Biswas (2013) , Rosenberger and Lachin (2015) ) and maximal power strategy targeting Neyman allocation for binary endpoint (Tymofyeyev, Rosenberger, and Hu (2007) ) and RSIHR allocation with each letter representing the first character of the names of the individuals who first proposed this rule (Youngsook and Hu (2010) , Bello and Sabo (2016) ), A-optimal Allocation for continuous endpoint (Sverdlov and Rosenberger (2013) ), Aa-optimal Allocation for continuous endpoint (Sverdlov and Rosenberger (2013) ), generalized RSIHR allocation for continuous endpoint (Atkinson and Biswas (2013) ), Bayesian response-adaptive randomization with a control group using the Thall \& Wathen method for binary and continuous endpoints (Thall and Wathen (2007) ) and the forward-looking Gittins index rule for binary and continuous endpoints (Villar, Wason, and Bowden (2015) , Williamson and Villar (2019) ). Package: r-cran-rasciidoc Architecture: all Version: 4.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 553 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-checkmate, r-cran-fritools, r-cran-gert, r-cran-highr, r-cran-knitr, r-cran-reticulate Suggests: r-cran-devtools, r-cran-pkgload, r-cran-rmarkdown, r-cran-rprojroot, r-cran-runit, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-rasciidoc_4.1.1-1.ca2004.1_all.deb Size: 101400 MD5sum: ae9d40958af2732fd7906bed8752ff75 SHA1: 69b317aa11ba664383fd1e77b897ae4890a594a3 SHA256: 1764f40ad0af88ae15bbcf19fde178e11bdf67df622e1c5c81b351568108cd60 SHA512: e59f4bfa44648c68e0c1cbf1ca83a5ddd391aaabac470bbb02de8842aaa783fb480f7fe8e0054be23744b011f5a0babaddb3585a0b998e4c6f7c2f698c1f9215 Homepage: https://cran.r-project.org/package=rasciidoc Description: CRAN Package 'rasciidoc' (Create Reports Using R and 'asciidoc') Inspired by Karl Broman`s reader on using 'knitr' with 'asciidoc' (), this is merely a wrapper to 'knitr' and 'asciidoc'. Package: r-cran-rasclass Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car, r-cran-nnet, r-cran-rsnns, r-cran-e1071, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-rasclass_0.2.2-1.ca2004.1_all.deb Size: 112896 MD5sum: d3467556b84f44e027076f007f5bc88b SHA1: 79eec4552469c5736740494dcd3ca71f445c3fae SHA256: df2ad770e5a00854c6597b878f633c1da9029772239179e612a7766693a48241 SHA512: 042cbd2ead0adcdf5eab5ceb9c1e353467da1bbfba6a4fd8c22bf26b728d28f81ba039f1e41bd2e9ae4d963afc79cbb1f439bf9c032fd165c1e7819e70442e2f Homepage: https://cran.r-project.org/package=rasclass Description: CRAN Package 'rasclass' (Supervised Raster Image Classification) Software to perform supervised and pixel based raster image classification. It has been designed to facilitate land-cover analysis. Five classification algorithms can be used: Maximum Likelihood Classification, Multinomial Logistic Regression, Neural Networks, Random Forests and Support Vector Machines. The output includes the classified raster and standard classification accuracy assessment such as the accuracy matrix, the overall accuracy and the kappa coefficient. An option for in-sample verification is available. Package: r-cran-rasen Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4152 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-caret, r-cran-class, r-cran-doparallel, r-cran-e1071, r-cran-foreach, r-cran-nnet, r-cran-randomforest, r-cran-rpart, r-cran-ggplot2, r-cran-gridextra, r-cran-formatr, r-cran-fnn, r-cran-ranger, r-cran-kernelknn, r-cran-modelmetrics, r-cran-glmnet Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rasen_3.0.0-1.ca2004.1_all.deb Size: 4185412 MD5sum: dc0a7fb6de1e691d62f092f2269c3034 SHA1: af0e7d26b266e4251861de97488c1ccdaec375bd SHA256: e37acaa06f972c9206fc46a3231451ff651bef8a61f48223b44fdb134fc3d4a8 SHA512: 7ae12b32695eda09fc3681765ddb3f880ed1f4e349dcfa0704af2f8768042159e2243ef6fe07ad51b7c6d95b391c08cb4e9c9be608472a038a828f6a72a168bc Homepage: https://cran.r-project.org/package=RaSEn Description: CRAN Package 'RaSEn' (Random Subspace Ensemble Classification and Variable Screening) We propose a general ensemble classification framework, RaSE algorithm, for the sparse classification problem. In RaSE algorithm, for each weak learner, some random subspaces are generated and the optimal one is chosen to train the model on the basis of some criterion. To be adapted to the problem, a novel criterion, ratio information criterion (RIC) is put up with based on Kullback-Leibler divergence. Besides minimizing RIC, multiple criteria can be applied, for instance, minimizing extended Bayesian information criterion (eBIC), minimizing training error, minimizing the validation error, minimizing the cross-validation error, minimizing leave-one-out error. There are various choices of base classifier, for instance, linear discriminant analysis, quadratic discriminant analysis, k-nearest neighbour, logistic regression, decision trees, random forest, support vector machines. RaSE algorithm can also be applied to do feature ranking, providing us the importance of each feature based on the selected percentage in multiple subspaces. RaSE framework can be extended to the general prediction framework, including both classification and regression. We can use the selected percentages of variables for variable screening. The latest version added the variable screening function for both regression and classification problems. Package: r-cran-rashnu Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-shiny, r-cran-dt Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rashnu_0.1.1-1.ca2004.1_all.deb Size: 45480 MD5sum: 92a6b82df69706f124710edd0184d479 SHA1: e4aa934d8055553e6fe33da91147efe26bc4af9c SHA256: c75a5642a3b092ab67c93fbf10d268f28194138023a50ac2c59993788221abaf SHA512: 3ad5112004045b4f13876b32a2108c0c403c16d53dabb396c63ee1f785dfdd55df2c5eff86c13332ac693228b380d81cbae40efd9ff5d45acc40981c0cd03b20 Homepage: https://cran.r-project.org/package=rashnu Description: CRAN Package 'rashnu' (Balanced Sample Size and Power Calculation Tools) Implements sample size and power calculation methods with a focus on balance and fairness in study design, inspired by the Zoroastrian deity Rashnu, the judge who weighs truth. Supports survival analysis and various hypothesis testing frameworks. 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These algorithms offer a simple framework for the stratification of geographic space based on raster layers representing landscape factors and/or factor scales. The stratification process follows a hierarchical approach, which is based on first level units (i.e., classification units) and second-level units (i.e., stratification units). Nonparametric techniques allow to measure the correspondence between the geographic space and the landscape configuration represented by the units. These correspondence metrics are useful to define sampling schemes and to model the spatial variability of environmental phenomena. The theoretical background of the algorithms and code examples are presented in Fuentes et al. (2022). . Package: r-cran-rasterbc Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1898 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-terra Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bcmaps, r-cran-units Filename: pool/dists/focal/main/r-cran-rasterbc_1.0.2-1.ca2004.1_all.deb Size: 1405184 MD5sum: d8c3456646ae0b0d6fbd515f7daee6fe SHA1: dcdfa750bc3d06099dd32630f3dc48a101373936 SHA256: ca80d330339bad8edfe1facf883662364ff5085f91945aed440835538c402e23 SHA512: d4c4dececc3d1bdad080fc2bbc8a092e53a44bf554b1d800ccecad9275122ed792e7c6147530f3edc7ddf0a4fd3f182531d20ef6b026fd4bd2e87c9498842904 Homepage: https://cran.r-project.org/package=rasterbc Description: CRAN Package 'rasterbc' (Access Forest Ecology Layers for British Columbia in 2001-2018) R-based access to a large set of data variables relevant to forest ecology in British Columbia (BC), Canada. Layers are in raster format at 100m resolution in the BC Albers projection, hosted at the Federated Research Data Repository (FRDR) with . The collection includes: elevation; biogeoclimatic zone; wildfire; cutblocks; forest attributes from Hansen et al. (2013) and Beaudoin et al. (2017) ; and rasterized Forest Insect and Disease Survey (FIDS) maps for a number of insect pest species, all covering the period 2001-2018. Users supply a polygon or point location in the province of BC, and 'rasterbc' will download the overlapping raster tiles hosted at FRDR, merging them as needed and returning the result in R as a 'SpatRaster' object. Metadata associated with these layers, and code for downloading them from their original sources can be found in the 'github' repository . 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(2021) . Package: r-cran-rasterdt Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-raster, r-cran-data.table, r-cran-fasterize, r-cran-sf Suggests: r-cran-rastervis Filename: pool/dists/focal/main/r-cran-rasterdt_0.3.2-1.ca2004.1_all.deb Size: 52224 MD5sum: f706171698ef04af0bf4dd04a6224597 SHA1: 13e9cb098a5a9b7b433ecf42089bc8563d852e28 SHA256: 9b642e31887851c8aec116d40ffd89aa0622492140f448c182a30706deed7f47 SHA512: c76fc7da0b837991c53fbcb25f64f2f9d1ee40f046e21e4696bf2a6a3748a78d8a4a2d52bf19d5f0e305b6a7ffe50c3f1cc41d1c2878e1091b05c9aa720dd164 Homepage: https://cran.r-project.org/package=rasterDT Description: CRAN Package 'rasterDT' (Fast Raster Summary and Manipulation) Fast alternatives to several relatively slow 'raster' package functions. For large rasters, the functions run from 5 to approximately 100 times faster than the 'raster' package functions they replace. The 'fasterize' package, on which one function in this package depends, includes an implementation of the scan line algorithm attributed to Wylie et al. (1967) . 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Package: r-cran-rasterize Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-png Filename: pool/dists/focal/main/r-cran-rasterize_0.1-1.ca2004.1_all.deb Size: 16824 MD5sum: 90a439c3e8d1e80650d4942803ac964b SHA1: 8345558bb2bc2b706d3bd3d4a38424f939841545 SHA256: 432bf0e0bed56a89a8810b19103beb4b81122badac4fa764fab0f6d3e7b5d8dc SHA512: aa08e46fe9968469c66638533b73a0b73a7e791975df1d98bef7bc287e45010d638411af43547e072b9d418c7d40245d291f375e7ee333814a5ab1fd09740500 Homepage: https://cran.r-project.org/package=rasterize Description: CRAN Package 'rasterize' (Rasterize Graphical Output) Provides R functions to selectively rasterize components of 'grid' output. 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The raster of objects contains a raster map with the addition of a list of generic objects: one object for each raster cells. It allows to write few lines of R code for complex map algebra. Two environmental applications about frequency analysis of raster map of precipitation and creation of a raster map of soil water retention curves have been presented. 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It implements visualization methods for quantitative data and categorical data, both for univariate and multivariate rasters. It also provides methods to display spatiotemporal rasters, and vector fields. See the website for examples. 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Package: r-cran-raters Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-raters_2.1.1-1.ca2004.1_all.deb Size: 51004 MD5sum: e41f4c529ce91098216bfaab9a29d30c SHA1: 28e14f2995d85efc2a7b671a4499af3844462d9c SHA256: bdccdb310a928457562b1b9e27620c82d65184da601010f19bae2d0438326774 SHA512: d5ddc5f86f76f5590150ebe0e17f702d321851db3f255b540b795885f1295442d452aa1c307da4d9a83462bdc4c2bf6772b373e74680eecac688bb83e472e438 Homepage: https://cran.r-project.org/package=raters Description: CRAN Package 'raters' (A Modification of Fleiss' Kappa in Case of Nominal and OrdinalVariables) The kappa statistic implemented by Fleiss is a very popular index for assessing the reliability of agreement among multiple observers. It is used both in the psychological and in the psychiatric field. Other fields of application are typically medicine, biology and engineering. Unfortunately,the kappa statistic may behave inconsistently in case of strong agreement between raters, since this index assumes lower values than it would have been expected. We propose a modification kappa implemented by Fleiss in case of nominal and ordinal variables. Monte Carlo simulations are used both to testing statistical hypotheses and to calculating percentile bootstrap confidence intervals based on proposed statistic in case of nominal and ordinal data. Package: r-cran-ratesci Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1564 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ratesci_1.0.0-1.ca2004.1_all.deb Size: 1169104 MD5sum: 905f90f7b85485054f1af7856dfcd8da SHA1: fab11204d93a727cdac9dd146dec926f5c147e44 SHA256: ddd07dbb2a2a76f63e4d811bb8df4ecf7bb8494e5d665e5e750b63d4afce8b26 SHA512: fef96d38d9e798f26739c847ae4bbd35d176fa057465e7bd89c5487244cc3a8efcbcaf2991ba33908566460ebed3986a658696adf5cade2f13a68674b43961ce Homepage: https://cran.r-project.org/package=ratesci Description: CRAN Package 'ratesci' (Confidence Intervals and Tests for Comparisons of BinomialProportions or Poisson Rates) Computes confidence intervals for binomial or Poisson rates and their differences or ratios. Including the rate (or risk) difference ('RD') or rate ratio (or relative risk, 'RR') for binomial proportions or Poisson rates, and odds ratio ('OR', binomial only). Also confidence intervals for RD, RR or OR for paired binomial data, and estimation of a proportion from clustered binomial data. Includes skewness-corrected asymptotic score ('SCAS') methods, which have been developed in Laud (2017) from Miettinen and Nurminen (1985) and Gart and Nam (1988) , and in Laud (2025, under review) for paired proportions. The same score produces hypothesis tests that are improved versions of the non-inferiority test for binomial RD and RR by Farrington and Manning (1990) , or a generalisation of the McNemar test for paired data. The package also includes MOVER methods (Method Of Variance Estimates Recovery) for all contrasts, derived from the Newcombe method but with options to use equal-tailed intervals in place of the Wilson score method, and generalised for Bayesian applications incorporating prior information. So-called 'exact' methods for strictly conservative coverage are approximated using continuity adjustments, and the amount of adjustment can be selected to avoid over-conservative coverage. Also includes methods for stratified calculations (e.g. meta-analysis), either with fixed effect assumption (matching the CMH test) or incorporating stratum heterogeneity. Package: r-cran-ratest Architecture: all Version: 0.1.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 480 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-quantreg Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ratest_0.1.10-1.ca2004.1_all.deb Size: 408524 MD5sum: a418c7ac97c116e0e634bf67468671c6 SHA1: 86f4c600c257597db7950ba198ca32592918ab42 SHA256: 9bf8b08fc4a769b04f0fd1a2cf908da7de15060cf0dce653d7eebb3e0ae014df SHA512: 061fa9cb5240ca09a9ac0bc81924d7e6253bd3d6b50154ae68cdcb636c50e364823a32c1a6a120fd68a820465de2cb1d6fd57e0a6997d2c4625800741e9b6c85 Homepage: https://cran.r-project.org/package=RATest Description: CRAN Package 'RATest' (Randomization Tests) A collection of randomization tests, data sets and examples. The current version focuses on five testing problems and their implementation in empirical work. First, it facilitates the empirical researcher to test for particular hypotheses, such as comparisons of means, medians, and variances from k populations using robust permutation tests, which asymptotic validity holds under very weak assumptions, while retaining the exact rejection probability in finite samples when the underlying distributions are identical. Second, the description and implementation of a permutation test for testing the continuity assumption of the baseline covariates in the sharp regression discontinuity design (RDD) as in Canay and Kamat (2018) . More specifically, it allows the user to select a set of covariates and test the aforementioned hypothesis using a permutation test based on the Cramer-von Misses test statistic. Graphical inspection of the empirical CDF and histograms for the variables of interest is also supported in the package. Third, it provides the practitioner with an effortless implementation of a permutation test based on the martingale decomposition of the empirical process for testing for heterogeneous treatment effects in the presence of an estimated nuisance parameter as in Chung and Olivares (2021) . Fourth, this version considers the two-sample goodness-of-fit testing problem under covariate adaptive randomization and implements a permutation test based on a prepivoted Kolmogorov-Smirnov test statistic. Lastly, it implements an asymptotically valid permutation test based on the quantile process for the hypothesis of constant quantile treatment effects in the presence of an estimated nuisance parameter. Package: r-cran-rathena Architecture: all Version: 2.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 982 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-dbi, r-cran-reticulate, r-cran-uuid Suggests: r-cran-arrow, r-cran-bit64, r-cran-dplyr, r-cran-dbplyr, r-cran-testthat, r-cran-tibble, r-cran-vroom, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-jsonify, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-rathena_2.6.1-1.ca2004.1_all.deb Size: 618880 MD5sum: addfb83bb5022b95d5da4ecc6a7bb312 SHA1: 1156b40bc0cfcab6c1ae489e0cb8c15673dd683b SHA256: 6a176cf6b169d09b37714ca2f637a8012884b5ce2e020a38d8fbec3d89dfc243 SHA512: 010e3c085805f7b122422e970460ba50f4194fa0fbc6ff10238d236d2203649a6f5b1bdfeb5cd6ba3c137cf5129cf4424563937cb2e24d4c0238b9c8d6a50a87 Homepage: https://cran.r-project.org/package=RAthena Description: CRAN Package 'RAthena' (Connect to 'AWS Athena' using 'Boto3' ('DBI' Interface)) Designed to be compatible with the R package 'DBI' (Database Interface) when connecting to Amazon Web Service ('AWS') Athena . To do this 'Python' 'Boto3' Software Development Kit ('SDK') is used as a driver. Package: r-cran-ratingscalereduction Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-proc, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-ratingscalereduction_1.4-1.ca2004.1_all.deb Size: 43048 MD5sum: 1a768af2ea6fab71d8d93d31deb75870 SHA1: 2db865ec64d54a83499ebf70fac830aa16c26edf SHA256: c59d1922d8fd47617a6e2145d28c90a115b2e271592275bfcc1cbdcc0940e8af SHA512: 889f6ca9e1737badab307b64b918a389c5456668f84430b3c4acad6a3bead004c8aacfe8d0d3f87478948bbae66d90adfdc94bb7e0984debed6317d35bdde297 Homepage: https://cran.r-project.org/package=RatingScaleReduction Description: CRAN Package 'RatingScaleReduction' (Rating Scale Reduction Procedure) Describes a new procedure of reducing items in a rating scale called Rating Scale Reduction (RSR). The new stop criterion in RSR procedure is added (stop global max). The function order is replaced by sort.list. Package: r-cran-rationalexp Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 248 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-snowfall Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rationalexp_0.2.2-1.ca2004.1_all.deb Size: 184800 MD5sum: a6d96bf8dae161ae27f356f79755bdf0 SHA1: 93cc7cd3df12ecae620607e8fb45ee6d83fa1661 SHA256: a2171c47cd3323855a12382b438638d45c93ee6da59c25b5722e02afa6ca9efd SHA512: bf8d52e9ae9dd9d96f820080230c799baee90b992e383cbafe596d7272747898dc53a129b1bbc90cfd8b2a26fc57f58d67f6231056482977b5f89518e19b607e Homepage: https://cran.r-project.org/package=RationalExp Description: CRAN Package 'RationalExp' (Rationalizing Rational Expectations. Tests and Deviations) We implement a test of the rational expectations hypothesis based on the marginal distributions of realizations and subjective beliefs from D'Haultfoeuille, Gaillac, and Maurel (2018) . This test can be used in cases where realizations and subjective beliefs are observed in two different datasets that cannot be matched, or when they are observed in the same dataset. The package also computes the estimator of the minimal deviations from rational expectations than can be rationalized by the data. Package: r-cran-rationalfun Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-polynom Filename: pool/dists/focal/main/r-cran-rationalfun_0.1-1-1.ca2004.1_all.deb Size: 48252 MD5sum: 102db6291297b022bd29698f2a7c7ecc SHA1: f3ec7f068b25d09e7b74edf79314ff1e02eb9e1b SHA256: 6ef677d209c30fb1f698215574df80998a544c98b69a91ef281331b4c352f6e9 SHA512: 678f3283deda4d30c16479935ef82cafa120c4abe945f5c9dd7ec8e77db6498822d9b040b29981e31f6893d40fb5388614a186d327b0d5fd66551922909e6f8f Homepage: https://cran.r-project.org/package=rationalfun Description: CRAN Package 'rationalfun' (Manipulation of Rational Functions) Functions to manipulate rational functions, including basic arithmetic operators, derivatives, and integrals with EXPLICIT forms. Package: r-cran-ratios Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-data.table Filename: pool/dists/focal/main/r-cran-ratios_1.2.0-1.ca2004.1_all.deb Size: 123548 MD5sum: 1f6ea349df84f86592901b471bc6b78c SHA1: 34aeebc1c1557c89a42548c696bb46228df56efc SHA256: 20a4d8ff182339acc4d564e4385e600b87d650e9469a49c41d80ff546c2772cb SHA512: 11bd5567cbe2d98dba746aaf93547b37d780ca202e5902ae4be3f1a1fb39fa15fe6eb9b0a49cc70669d6d43456c2da2e4788e1eeeb2cfeea90f543067a64373a Homepage: https://cran.r-project.org/package=ratios Description: CRAN Package 'ratios' (Calculating Ratios Between Two Data Sets and Correction forAdhering Particles on Plants) Calculation of ratios between two data sets containing environmental data like element concentrations by different methods. 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Package: r-cran-ratlas Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5035 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bookdown, r-cran-colorspace, r-cran-dplyr, r-cran-extrafont, r-cran-fs, r-cran-ggplot2, r-cran-ggtext, r-cran-glue, r-cran-hrbrthemes, r-cran-knitr, r-cran-magrittr, r-cran-officedown, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-xaringan, r-cran-xfun Suggests: r-cran-covr, r-cran-cowplot, r-cran-dichromat, r-cran-english, r-cran-here, r-cran-kableextra, r-cran-lintr, r-cran-magick, r-cran-pkgdown, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tinytex, r-cran-usethis, r-cran-vdiffr, r-cran-viridis, r-cran-withr Filename: pool/dists/focal/main/r-cran-ratlas_0.1.0-1.ca2004.1_all.deb Size: 2626836 MD5sum: 88feded506e683c94ddf3e59076150e4 SHA1: 97e8220f414c7912a37dce4c29f8eb5c08e7a39f SHA256: 846d5a463d823c2c0ad11435917c7a9946f6e0a26bd04954e65aeb533e11823d SHA512: e702b19b57370ff09d678799c0869abb59bdeaaceee844de70541303aab7427fd69a0de911accc99e12c8e2af1ad985992f313bff1adb628b5bb095ff8c00bad Homepage: https://cran.r-project.org/package=ratlas Description: CRAN Package 'ratlas' (ATLAS Formatting Functions and Templates) Provides templates, formatting tools, and 'ggplot2' themes tailored for the Accessible Teaching, Learning, and Assessment Systems (ATLAS) organization. These templates facilitate the creation of topic guides and technical reports, while the formatting functions enable users to customize numbers and tables to meet specific requirements. Additionally, the themes ensure a uniform visual style across graphics. Package: r-cran-rattains Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-crul, r-cran-curl, r-cran-dplyr, r-cran-fauxpas, r-cran-fs, r-cran-jsonlite, r-cran-lifecycle, r-cran-rlang, r-cran-rlist, r-cran-tibblify, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-vcr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-webmockr Filename: pool/dists/focal/main/r-cran-rattains_1.0.1-1.ca2004.1_all.deb Size: 164292 MD5sum: 59fba19e0485df4c82fab7d718800f4f SHA1: b8ac813001d98b14f88162b51bdd918e76552124 SHA256: 9c832706b781c5f6d35d075c06b97407b05a332fb3d669eac61550f0b1e887e1 SHA512: adf131a45ee1da6b340163858902600223c5dd0adf8338ccffe827841d70a0710367d73709c1c82dd4ffc0bb1f6983b4b65c7179e106df1a69657ff88a53fea6 Homepage: https://cran.r-project.org/package=rATTAINS Description: CRAN Package 'rATTAINS' (Access EPA 'ATTAINS' Data) An R interface to United States Environmental Protection Agency (EPA) Assessment, Total Maximum Daily Load (TMDL) Tracking and Implementation System ('ATTAINS') data. 'ATTAINS' is the EPA database used to track information provided by states about water quality assessments conducted under federal Clean Water Act requirements. ATTAINS information and API information is available at . Package: r-cran-rattle Architecture: all Version: 5.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 9707 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tibble, r-cran-bitops, r-cran-ggplot2, r-cran-magrittr, r-cran-stringi, r-cran-stringr, r-cran-tidyr, r-cran-dplyr, r-cran-xml, r-cran-rpart.plot Suggests: r-cran-pmml, r-cran-colorspace, r-cran-ada, r-cran-amap, r-cran-arules, r-cran-arulesviz, r-cran-biclust, r-cran-cba, r-cran-cluster, r-cran-corrplot, r-cran-descr, r-cran-doby, r-cran-e1071, r-cran-ellipse, r-cran-fbasics, r-cran-foreign, r-cran-fpc, r-cran-gdata, r-cran-ggdendro, r-cran-gplots, r-cran-gridextra, r-cran-gtools, r-cran-hmisc, r-cran-janitor, r-cran-kernlab, r-cran-matrix, r-cran-mice, r-cran-nnet, r-cran-party, r-cran-plyr, r-cran-psych, r-cran-randomforest, r-cran-rcolorbrewer, r-cran-readxl, r-cran-reshape, r-cran-rocr, r-cran-rodbc, r-cran-rpart, r-cran-scales, r-cran-snowballc, r-cran-survival, r-cran-timedate, r-cran-tm, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-rattle_5.5.1-1.ca2004.1_all.deb Size: 5964844 MD5sum: 45fb3bcdbe26c61d658e5072527f1bef SHA1: a066c1088b0e36869285dddd23f308176b1c1b66 SHA256: 6701a30365dab7c1dadade849b86f12413e1c6b6636ba9599899ebccf086f752 SHA512: ae9938e0d6acb7b14ba64aa9b813e2a9443b7930b08017f292c65d59602c60a1155f22058541750220f4ec8582150aa8e5c4be921f78e4289218fd8e2eb10316 Homepage: https://cran.r-project.org/package=rattle Description: CRAN Package 'rattle' (Graphical User Interface for Data Science in R) The R Analytic Tool To Learn Easily (Rattle) provides a collection of utilities functions for the data scientist. A Gnome (RGtk2) based graphical interface is included with the aim to provide a simple and intuitive introduction to R for data science, allowing a user to quickly load data from a CSV file (or via ODBC), transform and explore the data, build and evaluate models, and export models as PMML (predictive modelling markup language) or as scores. A key aspect of the GUI is that all R commands are logged and commented through the log tab. This can be saved as a standalone R script file and as an aid for the user to learn R or to copy-and-paste directly into R itself. Note that RGtk2 and cairoDevice have been archived on CRAN. See for installation instructions. Package: r-cran-ravedash Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3203 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dipsaus, r-cran-logger, r-cran-raveio, r-cran-rpymat, r-cran-shidashi, r-cran-shiny, r-cran-shinywidgets, r-cran-threebrain, r-cran-shinyvalidate, r-cran-htmlwidgets Suggests: r-cran-htmltools, r-cran-fastmap, r-cran-rlang, r-cran-crayon, r-cran-rstudioapi, r-cran-knitr, r-cran-httr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ravedash_0.1.2-1.ca2004.1_all.deb Size: 1420132 MD5sum: 08e7bd45da70404710e1964987571f2f SHA1: 1ef70083376fcb471ba3742833fc5ce153192673 SHA256: e0ee53fbcd72bf843638327808e344d60285a4ecc412acb236d98b4c34441b8b SHA512: bb3f632fb39e1951b2decf7e89007f6dec1dd7e7a8c5074ae834dff96ea57d46f47e7032281dee3d2699c90b181162e4814aa8c23cd7e9a985ed4f56ce049fad Homepage: https://cran.r-project.org/package=ravedash Description: CRAN Package 'ravedash' (Dashboard System for Reproducible Visualization of 'iEEG') Dashboard system to display the analysis results produced by 'RAVE' (Magnotti J.F., Wang Z., Beauchamp M.S. (2020), R analysis and visualizations of 'iEEG' ). Provides infrastructure to integrate customized analysis pipelines into dashboard modules, including file structures, front-end widgets, and event handlers. 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Jim Albert and Maria Rizzo (2012, ISBN 978-1-4614-1365-3). Package: r-cran-rca Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-gplots Filename: pool/dists/focal/main/r-cran-rca_2.0-1.ca2004.1_all.deb Size: 25368 MD5sum: 2673134d10cf04e569ce21418a5bec70 SHA1: 01592d96064995a7839428d00631738382b8c1e3 SHA256: ba87c70298397fe8cae1544ca4952f14ff40936ace3b1cf1563ce49d12a6b8dd SHA512: 0992f002a9b2c451db51d7e6ae3eeed67ffab46c3888f18efe56735601d9220c72967d86a1bc4fb6c83211bec382a20a829851ed63f1ec33f9b3b28091963966 Homepage: https://cran.r-project.org/package=RCA Description: CRAN Package 'RCA' (Relational Class Analysis) Relational Class Analysis (RCA) is a method for detecting heterogeneity in attitudinal data (as described in Goldberg A., 2011, Am. J. Soc, 116(5)). 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CanVec and CanVec+ datasets, which include all data used to create Canadian topographic maps, are two such datasets that are useful in creating vector-based maps for locations across Canada. This packages searches CanVec data by location, plots it using pretty defaults, and exports it to human- readable shapefiles for use in another GIS. 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Package: r-cran-rcdea Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-benchmarking Filename: pool/dists/focal/main/r-cran-rcdea_1.0-1.ca2004.1_all.deb Size: 55724 MD5sum: 9f0769eac821f52b32ad662381fa0c89 SHA1: c2bf07a8cf206f8039084811c4d83a3aef185638 SHA256: d9f1f616c18f3093d6d54002bdb091c984e8f26697e7a5368471e3568ccf1131 SHA512: 0361b1ea2ea1e1d7ff43d358d61a05486f7c07ede0fb0dc51b7ebc5640d38abeac800b9ecf2833a8d180df7a85c36e9a8064366b895fa55b7d0eadd14faac0e6 Homepage: https://cran.r-project.org/package=rcDEA Description: CRAN Package 'rcDEA' (Robust and Conditional Data Envelopment Analysis (DEA)) With this package we provide an easy method to compute robust and conditional Data Envelopment Analysis (DEA), Free Disposal Hull (FDH) and Benefit of the Doubt (BOD) scores. The robust approach is based on the work of Cazals, Florens and Simar (2002) . The conditional approach is based on Daraio and Simar (2007) . Besides we provide graphs to help with the choice of m. We relay on the 'Benchmarking' package to compute the efficiency scores and on the 'np' package to compute non parametric estimation of similarity among units. Package: r-cran-rcdk Architecture: all Version: 3.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 806 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rcdklibs, r-cran-fingerprint, r-cran-rjava, r-cran-png, r-cran-iterators, r-cran-itertools Suggests: r-cran-xtable, r-cran-runit, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-rcdk_3.8.1-1.ca2004.1_all.deb Size: 498416 MD5sum: f052445d93bcd88930a69c2e94012c54 SHA1: a77133b8e29c3c9dd9b662b738d803a67cf9ba83 SHA256: 2b667afe8424e4554672d5c06fa79cfe65e043b72a37a2d1db287ba43803dcf9 SHA512: 27e464bbe554265ef19da9909c8162707b3d6cc35dc7cd27905298eac18d26cdc32289b31877e36289abc7e987a6cb8b4089f3cfa1b5d8c7fb4056d6ea0aae76 Homepage: https://cran.r-project.org/package=rcdk Description: CRAN Package 'rcdk' (Interface to the 'CDK' Libraries) Allows the user to access functionality in the 'CDK', a Java framework for chemoinformatics. This allows the user to load molecules, evaluate fingerprints, calculate molecular descriptors and so on. In addition, the 'CDK' API allows the user to view structures in 2D. Package: r-cran-rcdklibs Architecture: all Version: 2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 20540 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rjava Filename: pool/dists/focal/main/r-cran-rcdklibs_2.9-1.ca2004.1_all.deb Size: 19307304 MD5sum: 106f2bfeef15b6a8967ca4f98ca2294c SHA1: f9d0f959f61afdc4800a6d0835ab01b7127034ff SHA256: 3de9f2c53ad5e926401b53e0b7f419d34c968f38df8132b8b263dc23254cdc60 SHA512: 6842fd35732a3ff6ca541b3159f4996069b793ff7a0e70f7aaf80bf5dd97a457bb1a3e68449630a94945f725cf6f5ce66e4708f773b6b086b7b849cf53c715b9 Homepage: https://cran.r-project.org/package=rcdklibs Description: CRAN Package 'rcdklibs' (The CDK Libraries Packaged for R) An R interface to the Chemistry Development Kit, a Java library for chemoinformatics. Given the size of the library itself, this package is not expected to change very frequently. To make use of the CDK within R, it is suggested that you use the 'rcdk' package. Note that it is possible to directly interact with the CDK using 'rJava'. However 'rcdk' exposes functionality in a more idiomatic way. The CDK library itself is released as LGPL and the sources can be obtained from . 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Package: r-cran-rceim Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1353 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rceim_0.3-1.ca2004.1_all.deb Size: 1308376 MD5sum: 52913f405541c680b594cd4811331c61 SHA1: 79aed37fc0aaabe05e636181702abc17514a40f5 SHA256: 1c52c25f0a6c6187c2a4093b7400512d51fd90e94e51f25c57ab1d44c9ca91b7 SHA512: c06407d15be3124ad99982e812993d8d3a52cde39138ea62606190d260bfc316ccf70a6a92156b738f4ac83368c19e203bfaeb665e0b12165eb3c014541c25e7 Homepage: https://cran.r-project.org/package=RCEIM Description: CRAN Package 'RCEIM' (R Cross Entropy Inspired Method for Optimization) An implementation of a stochastic heuristic method for performing multidimensional function optimization. The method is inspired in the Cross-Entropy Method. It does not relies on derivatives, neither imposes particularly strong requirements into the function to be optimized. Additionally, it takes profit from multi-core processing to enable optimization of time-consuming functions. Package: r-cran-rcelldata Architecture: all Version: 1.3-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2329 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rcelldata_1.3-2-1.ca2004.1_all.deb Size: 2318444 MD5sum: 10190f25fb1d2e76575adf8df038db94 SHA1: ab69614b8053d25b4f714ed0c3e0e37cdb3776f5 SHA256: 53129ba1cd588e429cb52615bdddaa444b6bb50b90f2e639af839150548ad096 SHA512: 6e16372a1c808cb8f3dcc9e593fa9ff219c634510b8dc2532b9bf2e9f3f4d094d14d876371d8e4f3102cad65650a7682a5c251cfa274e6f88b93628551383ebe Homepage: https://cran.r-project.org/package=RcellData Description: CRAN Package 'RcellData' (Example Dataset for 'Rcell' Package) Example dataset for 'Rcell' package. Contains images and cell data object. Package: r-cran-rcens Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rcens_0.1.1-1.ca2004.1_all.deb Size: 47224 MD5sum: c1d9a5b552de4e820431186fa75ea9f8 SHA1: 765d61b1005cafd979a2e438229214d0ceff1b97 SHA256: aae82832735ef5fd54b6c4ce52aff058eeea2b174b8f28f43041bfb6fe78624f SHA512: a95dd972349d394015e25d6d6b66759c4447b9f8c2cdca74406e755582ece374da78215ae129d48487b31eacbb9409625c60d6e15ba5fb0f9efe959e9195fa07 Homepage: https://cran.r-project.org/package=rcens Description: CRAN Package 'rcens' (Generate Sample Censoring) Provides functions to generate censored samples of type I, II and III, from any random sample generator. It also supplies the option to create left and right censorship. 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Other functions assist in searching for available datasets, geographies, group/variable concepts of interest. Also provided are functions to access and layer (via standard piping) displayable geometries for the US, states, counties, blocks/tracts, roads, landmarks, places, and bodies of water. Joining survey data with many of the geometry functions is built-in to produce choropleth maps. Package: r-cran-rcereal Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1513 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-cpp11, r-cran-rcpp, r-cran-decor, r-cran-git2r, r-cran-httr, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rcereal_1.3.2-1.ca2004.1_all.deb Size: 207800 MD5sum: d2a9364aa01558b77ac686d0a34f682e SHA1: 6c34bbbf18177b52d3a873f084ecb4250e211677 SHA256: 56a3082a3745fe20d50bd27017a88057ed26f73167022bab4a739941a51fa648 SHA512: e46a97595d372aecb7478db9ecb6cae5eb28df07021d9fd4991fb26561d65b5a921746043c06ffa650e252bd3400c05de74f6237503ae646663a682f25771a1a Homepage: https://cran.r-project.org/package=Rcereal Description: CRAN Package 'Rcereal' ("Cereal Headers for R and C++ Serialization") To facilitate using 'cereal' with R via 'cpp11' or 'Rcpp'. 'cereal' is a header-only C++11 serialization library. 'cereal' takes arbitrary data types and reversibly turns them into different representations, such as compact binary encodings, 'XML', or 'JSON'. 'cereal' was designed to be fast, light-weight, and easy to extend - it has no external dependencies and can be easily bundled with other code or used standalone. Please see for more information. 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Package: r-cran-rcgls Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcurl, r-cran-ncdf4, r-cran-raster, r-cran-sp Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rcgls_1.0.3-1.ca2004.1_all.deb Size: 23964 MD5sum: c1ed4061b44aa8679f755d4e6c311d67 SHA1: 5f55d98886495ce8e59067ffcd1b94f34fc6d9f7 SHA256: df175b9955bf3277a74fa39d3cd3a50ca238bfac8a663540f37f9bfe3b9be396 SHA512: c5870950e17b10cd8b71d35cf62d2229c6d93bab892a2a906747430b4692efedc18f9064f6cc420a473efe478ea3135ffbf8e9cfe48a962f5b6b233d7975d680 Homepage: https://cran.r-project.org/package=RCGLS Description: CRAN Package 'RCGLS' (Download and Open Data Provided by the Copernicus Global LandService) Download and open manifest files provided by the Copernicus Global Land Service data . The manifest files are available at: . Also see: . 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Package: r-cran-rchallenge Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rmarkdown, r-cran-knitr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rchallenge_1.3.4-1.ca2004.1_all.deb Size: 111068 MD5sum: 88729ee3b648cc801e02500fcfb5c3c1 SHA1: 8b044c4b9539c256adf0bbeecefc1f81b502e74e SHA256: 5684faffe6e8970cc9fbc8f883f32b0aed433005c4ee514ed58ff87db9a4bd04 SHA512: 25a0b14b15b51d49b07b379ae42b1f3242f3da4a7ce303e800f7c9053305af673aca578c87a5af1100bf1d800ec54661b1f5254e00d48573d67da0f8046863ea Homepage: https://cran.r-project.org/package=rchallenge Description: CRAN Package 'rchallenge' (A Simple Data Science Challenge System) A simple data science challenge system using R Markdown and 'Dropbox' . It requires no network configuration, does not depend on external platforms like e.g. 'Kaggle' and can be easily installed on a personal computer. Package: r-cran-rchemo Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5200 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-fnn, r-cran-signal, r-cran-e1071 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rchemo_0.1-3-1.ca2004.1_all.deb Size: 5238544 MD5sum: 36fc78e153bda2c1e8899b3c35ae2fc5 SHA1: a646bc0a245ef645f211728bba5855eb0c23b693 SHA256: 6fe3c189b5a8c7a49ae730ace6fb262f8f825098357a9b87359dec262005d829 SHA512: 31125e01c038b96838105d672b8f61a0de790c0233714ed09e2726d60edc8ec10f04b72cf091a372a6891ad582a3d0ec6e66cb78f2c7878ec896fea715d281d1 Homepage: https://cran.r-project.org/package=rchemo Description: CRAN Package 'rchemo' (Dimension Reduction, Regression and Discrimination forChemometrics) Data exploration and prediction with focus on high dimensional data and chemometrics. The package was initially designed about partial least squares regression and discrimination models and variants, in particular locally weighted PLS models (LWPLS). Then, it has been expanded to many other methods for analyzing high dimensional data. The name 'rchemo' comes from the fact that the package is orientated to chemometrics, but most of the provided methods are fully generic to other domains. Functions such as transform(), predict(), coef() and summary() are available. Tuning the predictive models is facilitated by generic functions gridscore() (validation dataset) and gridcv() (cross-validation). Faster versions are also available for models based on latent variables (LVs) (gridscorelv() and gridcvlv()) and ridge regularization (gridscorelb() and gridcvlb()). Package: r-cran-rcheology Architecture: all Version: 4.5.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 985 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rcheology_4.5.0.0-1.ca2004.1_all.deb Size: 779356 MD5sum: a6fd311d294807f73bbe042110156c46 SHA1: 5e251e2f36375d97f63757b179f39e0a89687cf0 SHA256: f00653af03adac800d69a35267f156345a01ef43aaf4377cea6a6b9176f7505d SHA512: a545b40c73a1e72e18fc3e32c41e9eea1aa07fd02be23bc888aef6e94448356a8827d4cc24e4d7d0181123114de477250b8c8426ee17430a9d3ac321d005953c Homepage: https://cran.r-project.org/package=rcheology Description: CRAN Package 'rcheology' (Data on Base and Recommended Packages for Current and PreviousVersions of R) Provides a dataset of functions in all base and recommended packages of R versions 0.50 onwards. Package: r-cran-rchess Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1996 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets, r-cran-v8, r-cran-r6, r-cran-ggplot2, r-cran-plyr, r-cran-dplyr, r-cran-assertthat Filename: pool/dists/focal/main/r-cran-rchess_0.1-1.ca2004.1_all.deb Size: 906580 MD5sum: 53532d36a09ea45f0e8a532f346f793e SHA1: 624dd5161124794b546b3be65cfd62172c956b26 SHA256: f3297e35939fd5a4939427f909f6f83b5616d269679cfef5c966412ed32d9989 SHA512: a6c47e15f759db4b049eebc0d97c28fb9c9a87eff908e22354d66846baaf184d1d213ebab1ef1fd767e771171ddf40dfa76983ef4e7e34f4850cb757b78d63a3 Homepage: https://cran.r-project.org/package=rchess Description: CRAN Package 'rchess' (Chess Move, Generation/Validation, Piece Placement/ Movement,and Check/Checkmate/Stalemate Detection) R package for chess validations, pieces movements and check detection. 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The algorithms are provably consistent, even in the presence of long-range dependencies. Knowledge of the number of change-points is not required. The code is written in Go and interfaced with R. 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Supports running checks in the background, timeouts, pretty printing and comparing check results. Package: r-cran-rcmdr Architecture: all Version: 2.9-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 8915 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcmdrmisc, r-cran-car, r-cran-effects, r-cran-tcltk2, r-cran-abind, r-cran-relimp, r-cran-lme4 Suggests: r-cran-aplpack, r-cran-boot, r-cran-colorspace, r-cran-e1071, r-cran-foreign, r-cran-hmisc, r-cran-knitr, r-cran-lattice, r-cran-leaps, r-cran-lmtest, r-cran-markdown, r-cran-mass, r-cran-mgcv, r-cran-multcomp, r-cran-nlme, r-cran-nnet, r-cran-nortest, r-cran-readxl, r-cran-rgl, r-cran-rmarkdown, r-cran-sem Filename: pool/dists/focal/main/r-cran-rcmdr_2.9-5-1.ca2004.1_all.deb Size: 5517348 MD5sum: 08fde297555256eb1957efec61782689 SHA1: 35c843b3e5a3d140fbd8eb542720bf30aa16c484 SHA256: 77e4b4d44b1329690288e283cda01e8085c38baf667bfd832e2e235d2da7f400 SHA512: aff8ba3c95aff1d309d247bd4b16a0c3cae7d0b75a5f731f1e5521a611131bf172401d255adb421ff81581df1cc6fe812540c36c169835ce4da422a957b25513 Homepage: https://cran.r-project.org/package=Rcmdr Description: CRAN Package 'Rcmdr' (R Commander) A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package. Package: r-cran-rcmdrmisc Architecture: all Version: 2.9-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 250 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-car, r-cran-sandwich, r-cran-abind, r-cran-colorspace, r-cran-hmisc, r-cran-mass, r-cran-e1071, r-cran-foreign, r-cran-haven, r-cran-readstata13, r-cran-readxl, r-cran-nortest, r-cran-lattice Suggests: r-cran-boot, r-cran-cardata Filename: pool/dists/focal/main/r-cran-rcmdrmisc_2.9-1-1.ca2004.1_all.deb Size: 214044 MD5sum: d0572eae20fc72eeed41a437c67bebc0 SHA1: 978b386295d4ab7515d88bb38f909aceb3d5ab13 SHA256: c9eb397e940fab821225b74192e0e727f8f35d91eec4deb91856cafab9d46f61 SHA512: 942826aaf77ad6c75fc0c95c04306d6597654eab98584bcb4344b455f69390e2ccc686df8359902c5aa7a43f45bf2b2ac7826924635c06b30b0934a3dd7d0dbf Homepage: https://cran.r-project.org/package=RcmdrMisc Description: CRAN Package 'RcmdrMisc' (R Commander Miscellaneous Functions) Various statistical, graphics, and data-management functions used by the Rcmdr package in the R Commander GUI for R. Package: r-cran-rcmdrplugin.arnova Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2547 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rcmdr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.arnova_0.0.6-1.ca2004.1_all.deb Size: 1935960 MD5sum: 059b3cb748a38ace04619aa5d28a2ce4 SHA1: 1e8975636e6f280fdbac86b241a29bc7df3989d9 SHA256: cd5b5f3a31877b6491aa817e64cc1c893bbd3d6b728feaa977a5885c0004d504 SHA512: e05465972ac76cc38edbecd051d51b626b5ab2762130edc80f667149b789844643edc9bc99436d272be8ecea0e9002bc88263925ecb2a8cde6b9f1c3e2d8dc6f Homepage: https://cran.r-project.org/package=RcmdrPlugin.aRnova Description: CRAN Package 'RcmdrPlugin.aRnova' (R Commander Plug-in for Repeated-Measures ANOVA) R Commander plug-in for repeated-measures and mixed-design ('split-plot') ANOVA. It adds a new menu entry for repeated measures that allows to deal with up to three within-subject factors and optionally with one or several between-subject factors. It also provides supplementary options to oneWayAnova() and multiWayAnova() functions, such as choice of ANOVA type, display of effect sizes and post hoc analysis for multiWayAnova(). Package: r-cran-rcmdrplugin.biclustgui Architecture: all Version: 1.1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3176 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-biclust, r-bioc-fabia, r-bioc-ibbig, r-cran-superbiclust, r-cran-bcdiag, r-bioc-bicare, r-cran-s4vd, r-cran-bibitr, r-cran-rcmdr, r-cran-gplots, r-cran-viridis Suggests: r-cran-knitr, r-bioc-rqubic, r-cran-biocmanager Filename: pool/dists/focal/main/r-cran-rcmdrplugin.biclustgui_1.1.3.1-1.ca2004.1_all.deb Size: 2777108 MD5sum: 93533d1473df728799b17c57966a81d7 SHA1: 653977a3051afe1bd06aba6dd376bd5538801ec5 SHA256: b38b0b2126017a0781f4d8937962f509df308f915eb4ea1d3a99343311e88d4c SHA512: 75b71574a60c8564ffaa1498d46b0660626530a0b29a3257db34591b565cc8998d3cdbed07a61093d23579445fa11be4cb2aa7c5cc005f2d1e19cc468ca0c994 Homepage: https://cran.r-project.org/package=RcmdrPlugin.BiclustGUI Description: CRAN Package 'RcmdrPlugin.BiclustGUI' ('Rcmdr' Plug-in GUI for Biclustering) A plug-in for R Commander ('Rcmdr'). The package is a Graphical User Interface (GUI) in which several biclustering methods can be executed, followed by diagnostics and plots of the results. Further, the GUI also has the possibility to connect the methods to more general diagnostic packages for biclustering. Biclustering methods from 'biclust', 'fabia', 's4vd', 'iBBiG', 'isa2', 'BiBitR', 'rqubic' and 'BicARE' are implemented. Additionally, 'superbiclust' and 'BcDiag' are also implemented to be able to further investigate results. The GUI also provides a couple of extra utilities to export, save, search through and plot the results. 'RcmdrPlugin.BiclustGUI' also provides a very specific framework for biclustering in which new methods, diagnostics and plots can be added. Scripts were prepared so that R-package developers can freely design their own dialogs in the GUI which can then be added by the maintainer of 'RcmdrPlugin.BiclustGUI'. These scripts do not required any knowledge of 'tcltk' and 'Rcmdr' and are easy to fill in. (Note: rqubic currently requires manual installation through BiocManager::install('rqubic').) Package: r-cran-rcmdrplugin.bws1 Architecture: all Version: 0.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 150 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-crossdes, r-cran-support.bws, r-cran-support.ces, r-cran-survival, r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.bws1_0.3-0-1.ca2004.1_all.deb Size: 114724 MD5sum: df639f339439cefef5e804b3b5029fb5 SHA1: 2d070a2ef4d3b6eea88ec26d937b13e0ec88b881 SHA256: e24f6c13f1aa095f53093094bb13272688ecee3375e8c47a129d60bc60b7b8f1 SHA512: 530df25cfd81f13eab4d00e544c370202830baf505c12c3585c1017077296e986c9c0248184599ed003ebe07c159b7ba2f599273a388108702f0999289a4c33e Homepage: https://cran.r-project.org/package=RcmdrPlugin.BWS1 Description: CRAN Package 'RcmdrPlugin.BWS1' (R Commander Plug-in for Case 1 Best-Worst Scaling) Adds menu items to the R Commander for implementing case 1 (object case) best-worst scaling (BWS1) from designing choice sets to measuring preferences for items. BWS1 is a question-based survey method that constructs various combinations of items (choice sets) using the experimental designs, asks respondents to select the best and worst items in each choice set, and then measures preferences for the items by analyzing the responses. For details, refer to Aizaki and Fogarty (2023) . Package: r-cran-rcmdrplugin.bws2 Architecture: all Version: 0.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-support.bws2, r-cran-support.ces, r-cran-survival, r-cran-rcmdr, r-cran-doe.base Filename: pool/dists/focal/main/r-cran-rcmdrplugin.bws2_0.3-0-1.ca2004.1_all.deb Size: 97496 MD5sum: 82442f2b68ef44002806fc44a8c8612d SHA1: 2f99ce031df427149747a86dedbc443a63744a80 SHA256: 8b02ae5fb36d4004d7a094816b625d04a11156a40ef8b583d6f795627cab35e7 SHA512: e2d8852a18ec3a637aba7b4f96e59dc15a83a8384269e56d14ccf4b7368c78f084f93699bcd1e28ccdf3dedcda37f24b2f5c6f752f46cdfed1c2f0edc4427f07 Homepage: https://cran.r-project.org/package=RcmdrPlugin.BWS2 Description: CRAN Package 'RcmdrPlugin.BWS2' (R Commander Plug-in for Case 2 Best-Worst Scaling) Adds menu items for case 2 (profile case) best-worst scaling (BWS2) to the R Commander. BWS2 is a question-based survey method that constructs profiles (combinations of attribute levels) using an orthogonal array, asks respondents to select the best and worst levels in each profile, and measures preferences for attribute levels by analyzing the responses. For details, see Aizaki and Fogarty (2019) . Package: r-cran-rcmdrplugin.bws3 Architecture: all Version: 0.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-support.bws3, r-cran-support.ces, r-cran-survival, r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.bws3_0.3-1-1.ca2004.1_all.deb Size: 102884 MD5sum: b0baaad5820e8f762f2556b991cb6c34 SHA1: d6aacabf1c397f4643201692eee0cbaa2cc6d260 SHA256: 68e02afaa9441044673777a64ffe845c8258bd2254e1e0aa8c15eb5cf42ff5d7 SHA512: de04914b21f0aeb551839c12392c2d78f125597810ef7664e275b38d75ad0eba36eebd6d736052552956dbe09755041ad2ba802d4c94814e01c0d736485fcdde Homepage: https://cran.r-project.org/package=RcmdrPlugin.BWS3 Description: CRAN Package 'RcmdrPlugin.BWS3' (R Commander Plug-in for Case 3 Best-Worst Scaling) Adds menu items for case 3 (multi-profile) best-worst scaling (BWS3) to the R Commander. BWS3 is a question-based survey method that designs various combinations of attribute levels (profiles), asks respondents to select the best and worst profiles in each choice set, and then measures preferences for the attribute levels by analyzing the responses. For details on BWS3, refer to Louviere et al. (2015) . Package: r-cran-rcmdrplugin.coin Architecture: all Version: 1.0-23-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rcmdr, r-cran-coin, r-cran-survival, r-cran-multcomp Filename: pool/dists/focal/main/r-cran-rcmdrplugin.coin_1.0-23-1.ca2004.1_all.deb Size: 126584 MD5sum: 8c747b39990e1198410b8ec87bd4eaff SHA1: ef7caee1ddfacc4741286f6f164b3d0bc703c394 SHA256: ea1da142325c8e6afb905a120c697ba970f21ba22ac0d415dee9aeeedc577acd SHA512: 2aba3674ad18f4f2bfa86b1bb0ab7d0eb65d87a75cf9daf66bc52d17555d05296193c9be4efe11ea49e03627f6668dfb8df23fd9138b263c5b10b1e29403dded Homepage: https://cran.r-project.org/package=RcmdrPlugin.coin Description: CRAN Package 'RcmdrPlugin.coin' (Rcmdr Coin Plug-in) Rcmdr GUI extension plug-in for coin package (Conditional Inference Procedures in a Permutation Test Framework). Package: r-cran-rcmdrplugin.cpd Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cpd, r-cran-rcmdrmisc, r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.cpd_0.2.0-1.ca2004.1_all.deb Size: 90824 MD5sum: 5a7b997546839f050e6fc3d5fdb4d843 SHA1: 3109805b907584f58dab7ab2a5c87f2d64b1e087 SHA256: 7a0912e567c3557a99acfa40fb33baff437248fb0287510306617219b95a2873 SHA512: 4c553e4ff03c0a74a7616d144077f752fb539d9596d495f9370a017a868cd98b1bbb3fff120bc5f7fbf3c183ed1d5e1e8bd0a99bc60659f21dc7c3d2cb003eb5 Homepage: https://cran.r-project.org/package=RcmdrPlugin.cpd Description: CRAN Package 'RcmdrPlugin.cpd' (R Commander Plug-in for Complex Pearson Distributions) Provides an 'Rcmdr' plug-in based on the 'cpd' package. Package: r-cran-rcmdrplugin.dccv Architecture: all Version: 0.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dcchoice, r-cran-rcmdr, r-cran-isocodes Filename: pool/dists/focal/main/r-cran-rcmdrplugin.dccv_0.2-0-1.ca2004.1_all.deb Size: 65772 MD5sum: 7bcb6e7fa150d84311528c2852c35e61 SHA1: 66014dd5f789b35cc65af72a8124ca564bd66d71 SHA256: 17e4f6cb5c7b44d344b9d1614363b802f5a80d53e3a73802b2d0f958e90a2de8 SHA512: ed5e898391b380b2339a1d87dc070cd87d77cd1da1b3317a5a2961a4f3281a1056f681427f9974b442a1298184e95920cf2d02ed85ac88d9453599b9b4731fe7 Homepage: https://cran.r-project.org/package=RcmdrPlugin.DCCV Description: CRAN Package 'RcmdrPlugin.DCCV' (R Commander Plug-in for Dichotomous Choice Contingent Valuation) Adds menu items to the R Commander for parametric analysis of dichotomous choice contingent valuation (DCCV) data. CV is a question-based survey method to elicit individuals' preferences for goods and services. This package depends on functions regarding parametric DCCV analysis in the package DCchoice. See Carson and Hanemann (2005) for DCCV. Package: r-cran-rcmdrplugin.dce Architecture: all Version: 0.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-support.ces, r-cran-survival, r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.dce_0.3-1-1.ca2004.1_all.deb Size: 92584 MD5sum: 81ce1515085fac1bc22d2d9fe5eb16cd SHA1: 71a8d14a29dc0ffe41cf0a3bfb885a6f4055b557 SHA256: 2c1b67fa63cc76287f29479c1bf5fd4a25f93739d5d36a5f4c48b1342c7f79e1 SHA512: 89e6b28b214aa0117db20bf64e3b37de07033bc7fbb594f7d31e219eb76fdd338d1819abbddc3d559406e2e5da1839a074a2da2b054e1466941b34a9ffaa0de8 Homepage: https://cran.r-project.org/package=RcmdrPlugin.DCE Description: CRAN Package 'RcmdrPlugin.DCE' (R Commander Plug-in for Discrete Choice Experiments) Adds menu items for discrete choice experiments (DCEs) to the R Commander. DCE is a question-based survey method that designs various combinations (profiles) of attribute levels using the experimental designs, asks respondents to select the most preferred profile in each choice set, and then measures preferences for the attribute levels by analyzing the responses. For details on DCEs, refer to Louviere et al. (2000) . Package: r-cran-rcmdrplugin.depthtools Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-depthtools Filename: pool/dists/focal/main/r-cran-rcmdrplugin.depthtools_1.4-1.ca2004.1_all.deb Size: 70920 MD5sum: cbf98e844448d8428f9b078969f02d8e SHA1: 1b80dc87223511369ce99c265e009d8592938b60 SHA256: 59f73b03fca729a75b941c414c6d49c0b122f1739657acf6bca7403976e44437 SHA512: 612b7663171c40349c5f67fedf24d9be6d86098785a885e4bab168b2b4f1d2caad6140e30b2d09ba7e25d4d800972bcfcb3226c67ec7ec1891dc0024646e49df Homepage: https://cran.r-project.org/package=RcmdrPlugin.depthTools Description: CRAN Package 'RcmdrPlugin.depthTools' (R Commander Depth Tools Plug-in) We provide an Rcmdr plug-in based on the depthTools package, which implements different robust statistical tools for the description and analysis of gene expression data based on the Modified Band Depth, namely, the scale curves for visualizing the dispersion of one or various groups of samples (e.g. types of tumors), a rank test to decide whether two groups of samples come from a single distribution and two methods of supervised classification techniques, the DS and TAD methods. Package: r-cran-rcmdrplugin.doe Architecture: all Version: 0.12-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2355 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-doe.base, r-cran-frf2, r-cran-doe.wrapper, r-cran-rcmdr, r-cran-rcmdrmisc Suggests: r-cran-frf2.catlg128 Filename: pool/dists/focal/main/r-cran-rcmdrplugin.doe_0.12-6-1.ca2004.1_all.deb Size: 2158644 MD5sum: fa41d38fdb4f0fcc89a262d1d54dbc2b SHA1: 76f21fb6524404a88c5bdeb985ab9bb556be7caa SHA256: 9ad067487fbf5121194578c2f6e60522fe80bfd6e3b1248dbe13ab147d1a6daa SHA512: 63211fbc2071e2e2f672619072ee2c3c28b1bd4098e75926ef44ab7dde723d4c062ae18d038a53f6d46bf27e08008b2861688cd4057d16a7f177df2063a4f2ac Homepage: https://cran.r-project.org/package=RcmdrPlugin.DoE Description: CRAN Package 'RcmdrPlugin.DoE' (R Commander Plugin for (Industrial) Design of Experiments) Provides a platform-independent GUI for design of experiments. The package is implemented as a plugin to the R-Commander, which is a more general graphical user interface for statistics in R based on tcl/tk. DoE functionality can be accessed through the menu Design that is added to the R-Commander menus. Package: r-cran-rcmdrplugin.eacspir Architecture: all Version: 0.2-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 442 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-r2html, r-cran-abind, r-cran-ez, r-cran-nortest, r-cran-reshape, r-cran-rcmdr, r-cran-rcmdrmisc Filename: pool/dists/focal/main/r-cran-rcmdrplugin.eacspir_0.2-3-1.ca2004.1_all.deb Size: 406892 MD5sum: af634a0f08160f823a1f975f5e042f01 SHA1: 7a92214f0c442882fe408da1b76f418beb497823 SHA256: 1643dd9fa402ba8e3514969ec0b8169514484599103c8abeb67d346ed1e2c0cb SHA512: fedd0cfad38ad9e276f8d9b9c06efc5f678109d844c0ddbe56f6406aa78e52d07149a96aa1dab4ee8a55646550127743daabc212cd8793b4b3fd318ad1281d1b Homepage: https://cran.r-project.org/package=RcmdrPlugin.EACSPIR Description: CRAN Package 'RcmdrPlugin.EACSPIR' (Plugin de R-Commander para el Manual 'EACSPIR') Este paquete proporciona una interfaz grafica de usuario (GUI) para algunos de los procedimientos estadisticos detallados en un curso de 'Estadistica aplicada a las Ciencias Sociales mediante el programa informatico R' (EACSPIR). LA GUI se ha desarrollado como un Plugin del programa R-Commander. Package: r-cran-rcmdrplugin.ebm Architecture: all Version: 1.0-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-epir, r-cran-abind Filename: pool/dists/focal/main/r-cran-rcmdrplugin.ebm_1.0-10-1.ca2004.1_all.deb Size: 62476 MD5sum: ea25a0ad5b7cd414a2c525089d048d68 SHA1: 49c8e4896b2e1df590a8337db582cdbfd147865f SHA256: cd8f5a92db4f1bb673628362f9baee73e4443540bed6838f75da1f63bcaea8a1 SHA512: 6e64679eb338dd7afceacac6a726b1c6873a8f80d10eb8676ff6e236a8c399e4bbda6c0fc7af1c8f7c6ff3d7ee24b704edaef430683a4b606dc8fd86369ff5ec Homepage: https://cran.r-project.org/package=RcmdrPlugin.EBM Description: CRAN Package 'RcmdrPlugin.EBM' (Rcmdr Evidence Based Medicine Plug-in Package) Rcmdr plug-in GUI extension for Evidence Based Medicine medical indicators calculations (Sensitivity, specificity, absolute risk reduction, relative risk, ...). Package: r-cran-rcmdrplugin.ecovirtual Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-ecovirtual Filename: pool/dists/focal/main/r-cran-rcmdrplugin.ecovirtual_1.0-1.ca2004.1_all.deb Size: 149264 MD5sum: 02ca01278e1d738a9781386f72e0aded SHA1: c5a4202184f0febe4610591a291b2489261782a3 SHA256: 8d3cfbf6e249a3013066e35ee25a7e75c5f2bdc4e10feae6a5aebac0ec7fc5ed SHA512: 7a2e3cc0ea83e97d09ff3256568f53338bf949c6577842e8e819abfa06bfb307ab803be69ff5f5f5b0541b7aac925e0a64a9dd2140af2165964b46a53333ea3c Homepage: https://cran.r-project.org/package=RcmdrPlugin.EcoVirtual Description: CRAN Package 'RcmdrPlugin.EcoVirtual' (Rcmdr EcoVirtual Plugin) A Rcmdr "plug-in" for the EcoVirtual package, designed primarily for teaching ecological models using simulations. Package: r-cran-rcmdrplugin.export Architecture: all Version: 0.3-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-xtable, r-cran-hmisc Filename: pool/dists/focal/main/r-cran-rcmdrplugin.export_0.3-1-1.ca2004.1_all.deb Size: 70172 MD5sum: 2599ae13a3c1570cdced1d0baf70a165 SHA1: 237099a6406ae86ddb0db638b655c8ed70625986 SHA256: b74180043df5fd7c137b02d4144e650d5db28360a57cd577b33865cc269f785f SHA512: 74db23eabc1b1e968cdb50a5dcd32aab97e5c343ea701512973f013319ef95ff0daa16a685fdc0ea96d32432d479c7cf12f09a5db52d387518f82336bc77284f Homepage: https://cran.r-project.org/package=RcmdrPlugin.Export Description: CRAN Package 'RcmdrPlugin.Export' (Export R Output to LaTeX or HTML) Export Rcmdr output to LaTeX or HTML code. The plug-in was originally intended to facilitate exporting Rcmdr output to formats other than ASCII text and to provide R novices with an easy-to-use, easy-to-access reference on exporting R objects to formats suited for printed output. The package documentation contains several pointers on creating reports, either by using conventional word processors or LaTeX/LyX. Package: r-cran-rcmdrplugin.ezr Architecture: all Version: 1.68-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2582 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcmdr, r-cran-readstata13 Suggests: r-cran-abind, r-cran-aod, r-cran-aplpack, r-cran-brant, r-cran-car, r-cran-clinfun, r-cran-cmprsk, r-cran-consort, r-cran-foreign, r-cran-ggplot2, r-cran-lawstat, r-cran-meta, r-cran-metatest, r-cran-netmeta, r-cran-multcomp, r-cran-mvtnorm, r-cran-matching, r-cran-plotly, r-cran-proc, r-cran-survivalroc, r-cran-survrm2, r-cran-tableone, r-cran-readxl, r-cran-lmertest, r-cran-swimplot, r-cran-currentsurvival, r-cran-rstatix Filename: pool/dists/focal/main/r-cran-rcmdrplugin.ezr_1.68-1.ca2004.1_all.deb Size: 2229868 MD5sum: a0bb12980a948d74d0e4d6b12cb263de SHA1: 21cef23d4fb4f1588776a72b3177abc531ee8945 SHA256: ea2b3a3acd55f3d353639c948ebe2f460c267b2d00b7541f4482e0c0c483b0fd SHA512: cc6c451b9fdee4ef8cbfe0199d4340a251a87ac8be33e034d2356935c394229ef2dfd72877d45197bb76c6d887470a38bea2ff76c51f4659fcc4c901fa257f6f Homepage: https://cran.r-project.org/package=RcmdrPlugin.EZR Description: CRAN Package 'RcmdrPlugin.EZR' (R Commander Plug-in for the EZR (Easy R) Package) EZR (Easy R) adds a variety of statistical functions, including survival analyses, ROC analyses, metaanalyses, sample size calculation, and so on, to the R commander. EZR enables point-and-click easy access to statistical functions, especially for medical statistics. EZR is platform-independent and runs on Windows, Mac OS X, and UNIX. Its complete manual is available only in Japanese (Chugai Igakusha, ISBN: 978-4-498-10918-6, Nankodo, ISBN: 978-4-524-26158-1, Ohmsha, ISBN: 978-4-274-22632-8), but an report that introduced the investigation of EZR was published in Bone Marrow Transplantation (Nature Publishing Group) as an Open article. This report can be used as a simple manual. It can be freely downloaded from the journal website as shown below. This report has been cited in more than 10,000 scientific articles. Package: r-cran-rcmdrplugin.factominer Architecture: all Version: 1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 556 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-factominer, r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.factominer_1.8-1.ca2004.1_all.deb Size: 489900 MD5sum: 4ac25e85e75ea97454d3e3baa2ca42d4 SHA1: 799029e900223969fe9ed967070f91224b4dda24 SHA256: 2fb437af000356fc47a849eb20f6aadfbad8f378cb42fb04575adb5370230bbd SHA512: 8d22ad8fa322529c6f3f40b543e603c1c5f7c592c0c6394dc27fdf203db5ff71daf8ab4f6964c08308521d7ea93f3217290a45d58ce9d8645d65b5ff37b2441e Homepage: https://cran.r-project.org/package=RcmdrPlugin.FactoMineR Description: CRAN Package 'RcmdrPlugin.FactoMineR' (Graphical User Interface for FactoMineR) Rcmdr Plugin for the 'FactoMineR' package. 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Package: r-cran-rcmdrplugin.kmggplot2 Architecture: all Version: 0.2-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 908 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcmdr, r-cran-ggplot2, r-cran-rlang, r-cran-ggthemes, r-cran-plyr, r-cran-rcolorbrewer, r-cran-scales, r-cran-survival, r-cran-tcltk2 Suggests: r-cran-extrafont, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rcmdrplugin.kmggplot2_0.2-7-1.ca2004.1_all.deb Size: 725844 MD5sum: 30a702e2095fc6a40c2000a9daa19ac7 SHA1: 396f8cb556aa2f69e395bda6e0aeb15380120e01 SHA256: 8e9c0d6cae582e9ce0c6e9f9ff2c03fc6bd7fd025d65a9c1055b8949db21cb40 SHA512: a7cce9165ad199a7980bb28f71beff30475f69987fc0886f47662883182d9792dc8baf97709da2117ccff5cd5ae6889521a6a4367c5a3768d5665569f84e5595 Homepage: https://cran.r-project.org/package=RcmdrPlugin.KMggplot2 Description: CRAN Package 'RcmdrPlugin.KMggplot2' (R Commander Plug-in for Data Visualization with 'ggplot2') A GUI front-end for 'ggplot2' supports Kaplan-Meier plot, histogram, Q-Q plot, box plot, errorbar plot, scatter plot, line chart, pie chart, bar chart, contour plot, and distribution plot. Package: r-cran-rcmdrplugin.lfstat Architecture: all Version: 0.8.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 874 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lfstat, r-cran-rcmdr Suggests: r-cran-testthat, r-cran-lmomrfa Filename: pool/dists/focal/main/r-cran-rcmdrplugin.lfstat_0.8.3-1.ca2004.1_all.deb Size: 663796 MD5sum: 7f37bf0d98a7db7b52077d3091b7e5aa SHA1: 4d647a4a68802142ac672e4e0fd87c6d1c72bb6e SHA256: e1a0812fa3b0e8ae4d3ddd2af441bdb60a56fef0e795b694cbe317fa5293cb0c SHA512: 6fd115e45970f7935dedc83ed01a1a63f559397ca13bafa61287902d8251e5c3d4cf900848c07ccf56ccdc3d8fb4fd0c852355bf149cc2d629bfcbc22776b8b7 Homepage: https://cran.r-project.org/package=RcmdrPlugin.lfstat Description: CRAN Package 'RcmdrPlugin.lfstat' ('Rcmdr' Plug-in for Low Flow Analysis) Provides an Rcmdr "plug-in" based on the 'lfstat' package for low flow analysis. Package: r-cran-rcmdrplugin.ma Architecture: all Version: 0.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-mad, r-cran-metafor Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-compute.es, r-cran-ggplot2, r-cran-gridextra, r-cran-scales Filename: pool/dists/focal/main/r-cran-rcmdrplugin.ma_0.0-2-1.ca2004.1_all.deb Size: 215696 MD5sum: 6f68b90adf69cc76cd74146a5276667f SHA1: f12a4f47a0a12cf086318d00dcd5824a84b4ba78 SHA256: db0e784347bc4d601d7ee38f92501a8110a9d6a829a0b99c340a61683f527099 SHA512: b84f72b41bfe2d4da8b81dd41bb59da9452ffaa9efdc3e6a01857e3729c68d7b36366d42fe2d63ced02566d95760b5ca4babdc41aff7e1b4ca3bc4d55aba8603 Homepage: https://cran.r-project.org/package=RcmdrPlugin.MA Description: CRAN Package 'RcmdrPlugin.MA' (Graphical User Interface for Conducting Meta-Analyses in R) Easy to use interface for conducting meta-analysis in R. This package is an Rcmdr-plugin, which allows the user to conduct analyses in a menu-driven, graphical user interface environment (e.g., CMA, SPSS). It uses recommended procedures as described in The Handbook of Research Synthesis and Meta-Analysis (Cooper, Hedges, & Valentine, 2009). Package: r-cran-rcmdrplugin.mpastats Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 210 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-ordinal Filename: pool/dists/focal/main/r-cran-rcmdrplugin.mpastats_1.2.2-1.ca2004.1_all.deb Size: 166100 MD5sum: 56efc857254f487daf6135afe7d637c7 SHA1: 1835908dee793bef1fd49820e1975f69a0746fd3 SHA256: aecf0d461cdd38f79c82b1ecd3bfb5e0a0944661caa671d4a60703cc70d5b7ff SHA512: 5d033223a6379c321aee9918c2736b3ccf451c032bad5026bbd2a39ec070c5e052bd66b167a3145cdc23080c17df122cc7072f7f225a03126b073a61cc913619 Homepage: https://cran.r-project.org/package=RcmdrPlugin.MPAStats Description: CRAN Package 'RcmdrPlugin.MPAStats' (R Commander Plug-in for MPA Statistics) Extends R Commander with a unified menu of new and pre-existing statistical functions related to public management and policy analysis statistics. Functions and menus have been renamed according to the usage in PMGT 630 in the Master of Public Administration program at Brigham Young University. Package: r-cran-rcmdrplugin.nmbu Architecture: all Version: 1.8.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 552 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mixlm, r-cran-mass, r-cran-pls, r-cran-xtable, r-cran-phia, r-cran-rcmdr, r-cran-car Suggests: r-cran-lme4, r-cran-leaps, r-cran-mvtnorm, r-cran-gmodels, r-cran-abind, r-cran-lattice, r-cran-pbkrtest, r-cran-vcd, r-cran-multcomp, r-cran-e1071, r-cran-nnet Filename: pool/dists/focal/main/r-cran-rcmdrplugin.nmbu_1.8.15-1.ca2004.1_all.deb Size: 485080 MD5sum: 566a55e4424b65aa6d311286ccc8fcdc SHA1: 9d7a5d1ccdcdab5621f5e27e138265a6025538d0 SHA256: 06f5b9645bf0c0b9cf5edebc6f764c25fdad37cbf712fdc11086655cefbfc589 SHA512: b525c1e74ddfc1bd9d92d28d808f36c457b19756c2048d3e490c71f00fabb9ed9bc74e8b718a2e6d1b9eb6468a55b6d18035e17f3afd836a291203543ee34758 Homepage: https://cran.r-project.org/package=RcmdrPlugin.NMBU Description: CRAN Package 'RcmdrPlugin.NMBU' (R Commander Plug-in for University Level Applied Statistics) An R Commander "plug-in" extending functionality of linear models and providing an interface to Partial Least Squares Regression and Linear and Quadratic Discriminant analysis. Several statistical summaries are extended, predictions are offered for additional types of analyses, and extra plots, tests and mixed models are available. Package: r-cran-rcmdrplugin.orloca Architecture: all Version: 4.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 573 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-orloca, r-cran-orloca.es, r-cran-rcmdr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rcmdrplugin.orloca_4.8.2-1.ca2004.1_all.deb Size: 362428 MD5sum: 5de1798658037a06c96ca3f6ec23e892 SHA1: 8d5da362971122fb8e9015c2f805ff940abb2e40 SHA256: 5e25003c24ccf7302150542a31e40d11159225a06e4fe59c2f3cc1e501dba1a2 SHA512: a328220ffee5418b6a6fada9ddf5f7875a2cd9825e24cc55533474058d445ec45affd9f9f91b68f07ee9c6b31428c0523c2fe43ef08a329628e5772958f818e8 Homepage: https://cran.r-project.org/package=RcmdrPlugin.orloca Description: CRAN Package 'RcmdrPlugin.orloca' (A GUI for Planar Location Problems) A GUI for the orloca package is provided as a Rcmdr plug-in. The package deals with continuos planar location problems. Package: r-cran-rcmdrplugin.pcarobust Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rrcov, r-cran-tkrplot, r-cran-rcmdr, r-cran-robustbase Filename: pool/dists/focal/main/r-cran-rcmdrplugin.pcarobust_1.1.4-1.ca2004.1_all.deb Size: 28200 MD5sum: 8be3f4f57aed882ec2b1e6e16ec6c0f4 SHA1: 78d4eaa7450b3ea407bd3cc5cabb345e9f74535b SHA256: 5fe89cb269ef1f99427442b637241cca7877a4be9509b1ef9a6a8b73dce69c56 SHA512: 26cb7376e04a6d3cccb44332b9803d6335583b873fdad86a052d768b53e2504d2bee25961b2ffbe22503403250cd93778c7fa85b587dd21a7b518ce6e280ad03 Homepage: https://cran.r-project.org/package=RcmdrPlugin.PcaRobust Description: CRAN Package 'RcmdrPlugin.PcaRobust' (R Commander Plug-in for Robust Principal Component Analysis) The R commander plug-in for robust principal component analysis. The Graphical User Interface for Principal Component Analysis (PCA) with Hubert Algorithm method. 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Package: r-cran-rcmdrplugin.riskdemo Architecture: all Version: 3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4436 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rcmdr, r-cran-demography, r-cran-forecast, r-cran-ftsa, r-cran-ggplot2, r-cran-dplyr, r-cran-scales, r-cran-zoo, r-cran-data.table Suggests: r-cran-tkrplot, r-cran-rgl Filename: pool/dists/focal/main/r-cran-rcmdrplugin.riskdemo_3.2-1.ca2004.1_all.deb Size: 4415724 MD5sum: daa3656231a6ccf0478204cb08458b06 SHA1: bada8dce7a13d7eecf844295fb5d076805ee0279 SHA256: 9ebc77998a6dac2e2ff84c9a1ecd1d840d7e15f8bf2787658b0ec733e87df17a SHA512: 5225443df2ac70bf6ad8670f445964e123428b88115c0ce1905ea86641683063dd3d1985109552819c24cc4a7e3bda1109de4a4394731a1a2e8f8238e9db1408 Homepage: https://cran.r-project.org/package=RcmdrPlugin.RiskDemo Description: CRAN Package 'RcmdrPlugin.RiskDemo' (R Commander Plug-in for Risk Demonstration) R Commander plug-in to demonstrate various actuarial and financial risks. 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Package: r-cran-rcmdrplugin.rmtcjags Architecture: all Version: 1.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-runjags, r-cran-rmeta, r-cran-igraph, r-cran-coda, r-cran-rjags Filename: pool/dists/focal/main/r-cran-rcmdrplugin.rmtcjags_1.0-2-1.ca2004.1_all.deb Size: 53736 MD5sum: 169723cf13514fa1ebf6cb605edf5adf SHA1: ed5b4c979cdcd3283aecafc0887b018f838036f1 SHA256: f05613ba7236fbd1b764fb15aabe5c6ad18feae8ee2259e847194859137f90ff SHA512: 0c4911ccb74ad029fd2ef723094b6a16702c7de3f181f1fd805ab2fbbb5544d391f8ef80e837c5c6d2e5fea7a2d8bce8e007f0b89f85dce1ffdb8c9d8734f1f4 Homepage: https://cran.r-project.org/package=RcmdrPlugin.RMTCJags Description: CRAN Package 'RcmdrPlugin.RMTCJags' (R MTC Jags 'Rcmdr' Plugin) Mixed Treatment Comparison is a methodology to compare directly and/or indirectly health strategies (drugs, treatments, devices). 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Package: r-cran-rcmdrplugin.roc Architecture: all Version: 1.0-19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rcmdr, r-cran-proc, r-cran-resourceselection Filename: pool/dists/focal/main/r-cran-rcmdrplugin.roc_1.0-19-1.ca2004.1_all.deb Size: 170448 MD5sum: 0f6a2078eb79723d98dccec98e4cda52 SHA1: 68486b749d9bf10a2da2863c9e8cfc9f0e7c31bc SHA256: c449bc07649352b579247ffdffe8d463473cb057fc2b8a78c1314102db3784d4 SHA512: f072bb5582782a406edaa45c8d72f3e147b35646e98cf6e9cd5ee0c5bb4ef60a38abcbd742b9408c53453821cd0273d91f0cbd5252cfaf7cc2fa21098de2fcdf Homepage: https://cran.r-project.org/package=RcmdrPlugin.ROC Description: CRAN Package 'RcmdrPlugin.ROC' (Rcmdr Receiver Operator Characteristic Plug-in Package) Rcmdr GUI extension plug-in for Receiver Operator Characteristic tools from pROC package. 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Package: r-cran-rcmdrplugin.sampling Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve, r-cran-sampling, r-cran-mass, r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.sampling_1.1-1.ca2004.1_all.deb Size: 158384 MD5sum: 8c81eb819c7eba423f3eb677375ce4d1 SHA1: 08fcfce22fbb2c6ea0c0b7178cfa3179464f5344 SHA256: 621ac74757200aa095bd5221720ee70dc392f3ffc1ab2c84ae6299d64f297a8f SHA512: a78eeb269208fcef4a88f9007f228a46155f7f996b439133ce26ae8150004243e88c91f0b29d81dd5f23a668f110012917630cf708bfac931972c0a59f12b661 Homepage: https://cran.r-project.org/package=RcmdrPlugin.sampling Description: CRAN Package 'RcmdrPlugin.sampling' (Tools for sampling in Official Statistical Surveys) This package includes tools for calculating sample sizes and selecting samples using various sampling designs. 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Package: r-cran-rcmdrplugin.scda Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-scva, r-cran-scrt, r-cran-scma, r-cran-rcmdr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.scda_1.2.0-1.ca2004.1_all.deb Size: 93352 MD5sum: 43d24c37feae02ea3e55f230ba30cd19 SHA1: 2d585271053350837dcfe2bcd3e411ea3a4ac275 SHA256: d49eb61d5c77a9dca07eec8a2920a20ee02c67f6f3453f7bb5927411e4bfc679 SHA512: 5ae1c98c6eef94289d2f04896d4f7b272a0d294bd727680d94529d92cbd152b639b28c93d4265e45077f3a4a708cb9a5191392990b8a25d13760834367e3fc2f Homepage: https://cran.r-project.org/package=RcmdrPlugin.SCDA Description: CRAN Package 'RcmdrPlugin.SCDA' (Rcmdr Plugin for Designing and Analyzing Single-Case Experiments) Provides a GUI for the SCVA, SCRT and SCMA packages as described in Bulte and Onghena (2013) . The package is written as an Rcmdr plugin. 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Package: r-cran-rcmdrplugin.sos Architecture: all Version: 0.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sos, r-cran-rcmdr, r-cran-tcltk2 Filename: pool/dists/focal/main/r-cran-rcmdrplugin.sos_0.3-0-1.ca2004.1_all.deb Size: 29684 MD5sum: 2dd165a8bc52abeb624b0064e35eaf3b SHA1: 976d7223090eaad679322280430f991d6dc12712 SHA256: 7a6e8690d57032704055911508bb00c931b097cd80c437d75de9532db56b44e0 SHA512: 897d901bb7b608152c4f8aeca574fba63edca2f0db3ffa459b81a7091e1eafd7b9b96b6e95eea0b97f81eaa52c990702f0d86c6eac17221799bccbcd35041385 Homepage: https://cran.r-project.org/package=RcmdrPlugin.sos Description: CRAN Package 'RcmdrPlugin.sos' (Efficiently search the R help pages) Rcmdr interface to the 'sos' package. The plug-in renders the 'sos' searching functionality easily accessible via the Rcmdr menus. 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Package: r-cran-rcmdrplugin.steepness Architecture: all Version: 0.3-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-steepness Filename: pool/dists/focal/main/r-cran-rcmdrplugin.steepness_0.3-2-1.ca2004.1_all.deb Size: 31848 MD5sum: 6890fd8d33f487ba12c0ad14f93e0ba4 SHA1: 6c8774043f02031d62af01ee9a4ff14f9820e05e SHA256: 7031938ad81d04ad84e594a031a70ed4c8e332680e9f790a4a85e412eb1b3565 SHA512: 80098a45133022989e06273c1c7ef26bcc9e6fb34270387f056366d563f1d7166e088a94b6e8cc0eacf0264ce6823e90ad9a282568b0087fefa3187086dcabf3 Homepage: https://cran.r-project.org/package=RcmdrPlugin.steepness Description: CRAN Package 'RcmdrPlugin.steepness' (Steepness Rcmdr Plug-in) This package provides a GUI for the steepness package, it is written as an Rcmdr plug-in. Package: r-cran-rcmdrplugin.survival Architecture: all Version: 1.3-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1243 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-survival, r-cran-date, r-cran-rcmdr, r-cran-car Filename: pool/dists/focal/main/r-cran-rcmdrplugin.survival_1.3-2-1.ca2004.1_all.deb Size: 1112968 MD5sum: 73ff6c50d5a522df296dbc78e9e3c1b5 SHA1: bc204009f3cb67e9e9f4fdc0cf7883faa546fc82 SHA256: b9ff65ca128f5aa327ad6cfefacf322806a86bd43f29bba4847ecd50873b9c8e SHA512: 6aaf437216f29a33e58ba460724e1de88246931c547861d7d6b08569a93a4b9d2a743d18369638c59d86adb9a6700c0da75fe6754a1b0007fc9aefa34cb9009c Homepage: https://cran.r-project.org/package=RcmdrPlugin.survival Description: CRAN Package 'RcmdrPlugin.survival' (R Commander Plug-in for the 'survival' Package) An R Commander plug-in for the survival package, with dialogs for Cox models, parametric survival regression models, estimation of survival curves, and testing for differences in survival curves, along with data-management facilities and a variety of tests, diagnostics and graphs. Package: r-cran-rcmdrplugin.sutteforecastr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr, r-cran-sutteforecastr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.sutteforecastr_1.0.0-1.ca2004.1_all.deb Size: 14300 MD5sum: 71217531a19c198fd67495c87e70652d SHA1: 354cd74a8c9782f7d1ff762f274f20b648b5de91 SHA256: 0836e3aa1b1702d67bbda81cf6b193e5338165775a2527a6caf8755e1341a699 SHA512: f470a11756b3c5cfd2a2855c8a95e8753fc7fb57bc27deb21cfc7c89f337cde85ccf9b8c7b2e83d51512b894dbbd1084d953fc222e906b555def9f042062e799 Homepage: https://cran.r-project.org/package=RcmdrPlugin.sutteForecastR Description: CRAN Package 'RcmdrPlugin.sutteForecastR' ('Rcmdr' Plugin for Alpha-Sutte Indicator 'sutteForecastR') The 'sutteForecastR' is a package of Alpha-Sutte indicator. 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Package: r-cran-rcmdrplugin.teachingdemos Architecture: all Version: 1.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-teachingdemos, r-cran-rcmdr Suggests: r-cran-rgl, r-cran-tkrplot Filename: pool/dists/focal/main/r-cran-rcmdrplugin.teachingdemos_1.2-0-1.ca2004.1_all.deb Size: 35148 MD5sum: ebc28ea71e926d3e12ff97d5534a2899 SHA1: 9bc9583eb056b182968b942eb745d3807f6d7d93 SHA256: b54b873a312e491a8794d7c8a0d2589c3567cf5e0029854ac3d9d43174fbc9c3 SHA512: 8f34e90fb40b0e796e10e6a91c48651e0198ab85382ea364a75a235542ba230153b3e443cae7ec2c25eb10e2648f3fee744e5923d01b2f243c15889d45b04231 Homepage: https://cran.r-project.org/package=RcmdrPlugin.TeachingDemos Description: CRAN Package 'RcmdrPlugin.TeachingDemos' (Rcmdr Teaching Demos Plug-in) Provides an Rcmdr "plug-in" based on the TeachingDemos package, and is primarily for illustrative purposes. Package: r-cran-rcmdrplugin.teachstat Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 883 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rcmdr, r-cran-hmisc, r-cran-tcltk2, r-cran-tseries, r-cran-indexnumr, r-cran-lme4, r-cran-distr, r-cran-distrex Suggests: r-cran-tkrplot, r-cran-e1071, r-cran-rcmdrmisc, r-cran-randtests Filename: pool/dists/focal/main/r-cran-rcmdrplugin.teachstat_1.1.3-1.ca2004.1_all.deb Size: 671180 MD5sum: d09e2606ec387cc1f9adcaaafb0f9cc2 SHA1: 380bf6a1b4bc4c85de486b2f00e034e02a5dda7a SHA256: c20b1b0dc34b7617763b6810e3c14d94c59c0fc11e92428025b448cacf52d48c SHA512: fc005f42b841bc2173face0f66746eefdf364943e8d7d4838eebe40c80f675d7602d3886aa3444f219df1a7db55f4fd9d972b29dea2fc9d86ab0f2ab9fc8ce69 Homepage: https://cran.r-project.org/package=RcmdrPlugin.TeachStat Description: CRAN Package 'RcmdrPlugin.TeachStat' (R Commander Plugin for Teaching Statistical Methods) R Commander plugin for teaching statistical methods. 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Package: r-cran-rcmdrplugin.temis Architecture: all Version: 0.7.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 684 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tm, r-cran-nlp, r-cran-slam, r-cran-zoo, r-cran-lattice, r-cran-rcmdr, r-cran-tcltk2, r-cran-ca, r-cran-r2html, r-cran-rcolorbrewer, r-cran-latticeextra, r-cran-stringi Suggests: r-cran-snowballc, r-cran-rodbc, r-cran-tm.plugin.factiva, r-cran-tm.plugin.lexisnexis, r-cran-tm.plugin.europresse, r-cran-tm.plugin.alceste Filename: pool/dists/focal/main/r-cran-rcmdrplugin.temis_0.7.12-1.ca2004.1_all.deb Size: 579416 MD5sum: f99814d8b55e8bacf806d63376f3df6f SHA1: ffd87b7419e0e0727a8f59a87fc65dd4c505c99d SHA256: 7dc3fd226eaf61edb8e7bd4e4b5a4e1d4c139b31267625578afd4d1d9010cd54 SHA512: b66bf2a9c5847bbd4758bef8224d8c859962df3ec854b4cff5bfeced550d17185a5d1c79060a75120f29389c50184f6c3bbb7654a74d39ff59879570731f8f36 Homepage: https://cran.r-project.org/package=RcmdrPlugin.temis Description: CRAN Package 'RcmdrPlugin.temis' (Graphical Integrated Text Mining Solution) An 'R Commander' plug-in providing an integrated solution to perform a series of text mining tasks such as importing and cleaning a corpus, and analyses like terms and documents counts, vocabulary tables, terms co-occurrences and documents similarity measures, time series analysis, correspondence analysis and hierarchical clustering. 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Package: r-cran-rcmdrplugin.uca Architecture: all Version: 5.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-iqcc, r-cran-qcc, r-cran-qicharts2, r-cran-randtests, r-cran-rmarkdown, r-cran-teachingdemos, r-cran-tseries, r-cran-rcmdr Suggests: r-cran-car, r-cran-cardata, r-cran-knitr Filename: pool/dists/focal/main/r-cran-rcmdrplugin.uca_5.1-2-1.ca2004.1_all.deb Size: 115532 MD5sum: a5a9de02f5db26fde585573d3e3d7ce5 SHA1: 422577c818e5364bff6f905d24b6b551c602d461 SHA256: 402a0a97e39e9156cde36fe20ca3b0833a144df1d9ba8fc78eb147c877314a75 SHA512: 4b16360e4c9b188e134b7c9068882a900c157419c8d9b7bed0b683b265f2193525ae9bb766b422667d418c74c812783bb87d97d6aad3251dfe604fd92d6e60b6 Homepage: https://cran.r-project.org/package=RcmdrPlugin.UCA Description: CRAN Package 'RcmdrPlugin.UCA' (UCA Rcmdr Plug-in) Some extensions to Rcmdr (R Commander), randomness test, variance test for one normal sample and predictions using active model, made by R-UCA project and used in teaching statistics at University of Cadiz (UCA). 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Package: r-cran-rcrimeanalysis Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2764 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-forecast, r-cran-ggmap, r-cran-htmltools, r-cran-igraph, r-cran-leaflet, r-cran-leafsync, r-cran-lubridate, r-cran-kernsmooth, r-cran-pals, r-cran-raster, r-cran-sp, r-cran-terra Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rcrimeanalysis_0.5.0-1.ca2004.1_all.deb Size: 2032988 MD5sum: 098a31d2f0f6a50f707f3e6c7fbf3f68 SHA1: 0bac531f220daf4e8cc59569f18e39171d4b2a5c SHA256: cec66fcbc46e93fa2b5b30df91bbfc3662661a90292149f1cd968c566fa7e3f2 SHA512: 78e959df941cb8af00284a6835bea93d8339aacd3abfdcd1da04704ea56d7eeda2d9f0174199381a0307456cdad0648938429c9917307afdfe6c309d49fccf10 Homepage: https://cran.r-project.org/package=rcrimeanalysis Description: CRAN Package 'rcrimeanalysis' (An Implementation of Crime Analysis Methods) An implementation of functions for the analysis of crime incident or records management system data. 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Robust treatment assignment by strata/blocks, that handles misfits; Power calculations of the minimum detectable treatment effect or minimum populations; Balance tables of T-test of covariates; Balance Regression: (treatment ~ all x variables) with F-test of null model; Impact_evaluation: Impact evaluation regressions. This function gives you the option to include control_vars, fixed effect variables, cluster variables (for robust SE), multiple endogenous variables and multiple heterogeneous variables (to test treatment effect heterogeneity) summary_statistics: Function that creates a summary statistics table with statistics rank observations in n groups: Creates a factor variable with n groups. Each group has a min and max label attach to each category. Athey, Susan, and Guido W. Imbens (2017) . 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'RCTrep' offers a generic protocol for treatment effect validation based on four simple steps, namely, set-selection, estimation, diagnosis, and validation. 'RCTrep' provides a simple dashboard to review the obtained results. The validation approach is introduced by Shen, L., Geleijnse, G. and Kaptein, M. (2023) . 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The classical framework is developed in Ando & Bai (2017) . The implementation within this package excludes the SCAD-penalty on the estimations of beta. This robust framework is developed in Boudt & Heyndels (2022) and is made robust against different kinds of outliers. The algorithm iteratively updates beta (the coefficients of the observable variables), group membership, and the latent factors (which can be common and/or group-specific) along with their loadings. The number of groups and factors can be estimated if they are unknown. 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The algorithm was described in the publications (Sedykh A et al. (2011) and Sedykh A (2016) ). Other parametric fitting approaches (e.g., Hill equation) are also adopted for ease of comparison. 3-parameter Hill equation from 'tcpl' package (Filer D et al., ) and 4-parameter Hill equation from Curve Class2 approach (Wang Y et al., ) are available. Also, methods for calculating the confidence interval around the activity metrics are also provided. The methods are based on the bootstrap approach to simulate the datasets (Hsieh J-H et al. ). The simulated datasets can be used to derive the baseline noise threshold in an assay endpoint. This threshold is critical in the toxicological studies to derive the point-of-departure (POD). 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The package contains functions for loading the 'SNOMED CT' release into a convenient R environment, selecting 'SNOMED CT' concepts using regular expressions, and navigating the 'SNOMED CT' ontology. It provides the 'SNOMEDconcept' S3 class for a vector of 'SNOMED CT' concepts (stored as 64-bit integers) and the 'SNOMEDcodelist' S3 class for a table of concepts IDs with descriptions. The package can be used to construct sets of 'SNOMED CT' concepts for research (). For more information about 'SNOMED CT' visit . 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The help files are extensive and have been vetted by multiple authors. 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Richard Reeve, et al. (2016) . 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Contains a dendrogram visualization for the structure of RDML object and GUI for RDML editing. Package: r-cran-rdmulti Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-rdrobust Filename: pool/dists/focal/main/r-cran-rdmulti_1.2-1.ca2004.1_all.deb Size: 76588 MD5sum: e916c41311e75b529d692ccdc690e3da SHA1: c3cc1cd00ba37695a97ddeeaa139adb9cb5df879 SHA256: 7046c3f168bf9a0d1a9d74e3e15c34b05fc9aa18d35a99d8c95b780a14dea826 SHA512: ffe66526b3d2f426a82371df191684c177e0ec01c8a573bb3478ccda1838bd5b222683a489d34afb252b0926809299a5862900c4d7a868f1cd2da3899ed80420 Homepage: https://cran.r-project.org/package=rdmulti Description: CRAN Package 'rdmulti' (Analysis of RD Designs with Multiple Cutoffs or Scores) The regression discontinuity (RD) design is a popular quasi-experimental design for causal inference and policy evaluation. The 'rdmulti' package provides tools to analyze RD designs with multiple cutoffs or scores: rdmc() estimates pooled and cutoff specific effects for multi-cutoff designs, rdmcplot() draws RD plots for multi-cutoff designs and rdms() estimates effects in cumulative cutoffs or multi-score designs. See Cattaneo, Titiunik and Vazquez-Bare (2020) for further methodological details. 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Package: r-cran-rdpower Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rdrobust Filename: pool/dists/focal/main/r-cran-rdpower_2.3-1.ca2004.1_all.deb Size: 86780 MD5sum: 5b48389d754e986d79a56fe5b7bb12bb SHA1: ae0f4650de481e239d6bbebe5e809e1b5c155738 SHA256: 4b6ede029a5b5b33fc6496e889570d1612e7e20d9249b586ce958510edafbc24 SHA512: 98146f860e055f22d6aafff0dbc1fb1e4d819bdd766b7406ea79a16d3338af69b9fc00e8799afbe38be2e023fa8a809e9efe60c7b669a92dee9b94f7bbb1e77c Homepage: https://cran.r-project.org/package=rdpower Description: CRAN Package 'rdpower' (Power Calculations for RD Designs) The regression discontinuity (RD) design is a popular quasi-experimental design for causal inference and policy evaluation. 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Package: r-cran-rdrobust Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 285 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-mass Filename: pool/dists/focal/main/r-cran-rdrobust_2.2-1.ca2004.1_all.deb Size: 252956 MD5sum: 9e6d9a10f3425d4235a2891b88d9034e SHA1: 4ae417574819ad117f19c0f72d5462b829d6ec68 SHA256: 076359639d120614f0d0815038f65f0b5d067b8edabae5d52355dad40de6cd05 SHA512: 5fe393c8445e7d3a76c39d5543737c67e1b2bb7bf400393b1762aeb657645fe18115b0dc1424e03620f90a7ffb843bc7ad7d81d1dc732c06afb0616b7289f94f Homepage: https://cran.r-project.org/package=rdrobust Description: CRAN Package 'rdrobust' (Robust Data-Driven Statistical Inference inRegression-Discontinuity Designs) Regression-discontinuity (RD) designs are quasi-experimental research designs popular in social, behavioral and natural sciences. The RD design is usually employed to study the (local) causal effect of a treatment, intervention or policy. This package provides tools for data-driven graphical and analytical statistical inference in RD designs: rdrobust() to construct local-polynomial point estimators and robust confidence intervals for average treatment effects at the cutoff in Sharp, Fuzzy and Kink RD settings, rdbwselect() to perform bandwidth selection for the different procedures implemented, and rdplot() to conduct exploratory data analysis (RD plots). 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Package: r-cran-rdrop2 Architecture: all Version: 0.8.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertive, r-cran-digest, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-purrr Suggests: r-cran-testthat, r-cran-uuid Filename: pool/dists/focal/main/r-cran-rdrop2_0.8.2.1-1.ca2004.1_all.deb Size: 88856 MD5sum: a0e8c8250a5834180c0778575aa4fe12 SHA1: 4a0b9ae90fccf4331ee2892c3f4929c69bdc9db1 SHA256: 736232af362bed8fdf87c22144a0a70e735b8930b4c17b8c9a323b2fb4ef5634 SHA512: 159d1f5380d08a2d65c2d4192f16c087bbe8e49780766f8cbba296afe253cba4c36d458d026ad5ea577e45e440c156112b0542d099539a3a8b9e5b80eb54ee62 Homepage: https://cran.r-project.org/package=rdrop2 Description: CRAN Package 'rdrop2' (Programmatic Interface to the 'Dropbox' API) Provides full programmatic access to the 'Dropbox' file hosting platform , including support for all standard file operations. Package: r-cran-rdrw Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-rdrw_1.0.2-1.ca2004.1_all.deb Size: 61364 MD5sum: d91e2263bc3c8fd2fa65937a5c14230f SHA1: 8dbbace327dd6f21b77fd0ffaa5d4b32c810ff5d SHA256: a4c2bba1f03e80891bc00c6fda6843c8a58c723593dbe04c0fe42e6ab0689a41 SHA512: 23c3f3d10be5d0cd196c453dcb13659d76318efa7a093308273055206d5d01e2da15e3af3539ec20e902aa175d5836cbaf387c36004fff2c1a37d083854389df Homepage: https://cran.r-project.org/package=Rdrw Description: CRAN Package 'Rdrw' (Univariate and Multivariate Damped Random Walk Processes) We provide a toolbox to fit and simulate a univariate or multivariate damped random walk process that is also known as an Ornstein-Uhlenbeck process or a continuous-time autoregressive model of the first order, i.e., CAR(1) or CARMA(1, 0). This process is suitable for analyzing univariate or multivariate time series data with irregularly-spaced observation times and heteroscedastic measurement errors. When it comes to the multivariate case, the number of data points (measurements/observations) available at each observation time does not need to be the same, and the length of each time series can vary. The number of time series data sets that can be modeled simultaneously is limited to ten in this version of the package. We use Kalman-filtering to evaluate the resulting likelihood function, which leads to a scalable and efficient computation in finding maximum likelihood estimates of the model parameters or in drawing their posterior samples. Please pay attention to loading the data if this package is used for astronomical data analyses; see the details in the manual. Also see Hu and Tak (2020) . Package: r-cran-rdryad Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crul, r-cran-curl, r-cran-tibble, r-cran-hoardr, r-cran-zip, r-cran-jsonlite, r-cran-mime Suggests: r-cran-testthat, r-cran-vcr Filename: pool/dists/focal/main/r-cran-rdryad_1.0.0-1.ca2004.1_all.deb Size: 80736 MD5sum: 8ddc5d17db82505a8f58f9b2421aa2ac SHA1: 9e9f0999e6d48f278378de0f5c96fbfc4fcbe5f2 SHA256: b82babca9ebbc5df6b697088ed9a6a2ed8d2091b1288f9deed251468aa01369c SHA512: 19724aa1bde0a0ed0cce60ea3086f95790a1e0448c860d0feeffee45ac559e0392ca25761a72c573fd3a9d085ae67e8f1bb730e79874158c804a6f515acf5c47 Homepage: https://cran.r-project.org/package=rdryad Description: CRAN Package 'rdryad' (Access for Dryad Web Services) Interface to the Dryad "Solr" API, their "OAI-PMH" service, and fetch datasets. Dryad () is a curated host of data underlying scientific publications. Package: r-cran-rdsm Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 178 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bigmemory Suggests: r-cran-synchronicity Filename: pool/dists/focal/main/r-cran-rdsm_2.1.1-1.ca2004.1_all.deb Size: 131148 MD5sum: 2c9b672d247f1808fc5245dbde67a353 SHA1: 714315739219250be0eee023dcb39dac33a58670 SHA256: b801688db479f963f4aae4f2e8372da9063dfd84317224d0cd95a56103db39a8 SHA512: fc4e1b3f70e0b57397de1fbd2154d00fc9abd56caee1d403c7a7394cd43465495ad5b342158bb0368a37c0c6f77d1426186cdc583bc2e05f4d94eeff7382fa69 Homepage: https://cran.r-project.org/package=Rdsm Description: CRAN Package 'Rdsm' (Threads Environment for R) Provides a threads-type programming environment for R. The package gives the R programmer the clearer, more concise shared memory world view, and in some cases gives superior performance as well. 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'rdss' includes datasets, helper functions, and plotting components to enable use and replication of the book. Package: r-cran-rdstk Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-rjson, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-rdstk_1.1-1.ca2004.1_all.deb Size: 39460 MD5sum: 14c8525060422dc4ee60b39dd5af5129 SHA1: 7c29eedd2a420750cf496317752d7c3650bf978e SHA256: 0adb4bf91c3eae3c1e31901357823043f68f68e252cf93db6f358a8507af6a14 SHA512: 7c2251b951485c41223076166748a6c125b832d89b87329aa67f7c58138c0ccf779376a51ae0e0c9663adfcb8c32d4f74384e7e9a1d75e32ebaec180c41671ff Homepage: https://cran.r-project.org/package=RDSTK Description: CRAN Package 'RDSTK' (An R wrapper for the Data Science Toolkit API) This package provides an R interface to Pete Warden's Data Science Toolkit. See www.datasciencetoolkit.org for more information. The source code for this package can be found at github.com/rtelmore/RDSTK Happy hacking! Package: r-cran-rdstreeboot Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rdstreeboot_1.0-1.ca2004.1_all.deb Size: 59256 MD5sum: 134783e8bd4e9f5134cc8eb90932816e SHA1: 75899cdda35d36284350550795a0edee3f6ecba3 SHA256: d02130c8c33c71b208c26bf1fda2069243b6839d192827a25b723af94af7a36f SHA512: 97f1c37e4cf417399cb0fd3bde8e41a94388b00a27af58725bad63b7851db46162ceabef2e5777042dc3fc603070d23dc402264309810115c13ada696615c4ee Homepage: https://cran.r-project.org/package=RDStreeboot Description: CRAN Package 'RDStreeboot' (RDS Tree Bootstrap Method) A tree bootstrap method for estimating uncertainty in respondent-driven samples (RDS). 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Package: r-cran-rdta Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mcmcpack, r-cran-mvtnorm, r-cran-rdpack Filename: pool/dists/focal/main/r-cran-rdta_1.0.1-1.ca2004.1_all.deb Size: 37664 MD5sum: 7f706d3122242fd42270dea1f8b57958 SHA1: 2c5314b99f5d980930370610ad466e8db91be79a SHA256: 3781c49b867856cdfabc841a48e8965860b0556418fa459762706181a08e214c SHA512: bfa7b67a59f385648361e0b5a114ca054d43787da89c0e2af62bfb40d9b30bdd10b7a47b523a57da4278f803d0f8491a04aefad906805fd008a443c908fb8829 Homepage: https://cran.r-project.org/package=Rdta Description: CRAN Package 'Rdta' (Data Transforming Augmentation for Linear Mixed Models) We provide a toolbox to fit univariate and multivariate linear mixed models via data transforming augmentation. Users can also fit these models via typical data augmentation for a comparison. 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Package: r-cran-rdtlite Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 395 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-curl, r-cran-digest, r-cran-gtools, r-cran-jsonlite, r-cran-knitr, r-cran-provviz, r-cran-rlang, r-cran-rmarkdown, r-cran-sessioninfo, r-cran-stringi, r-cran-xml Suggests: r-cran-ggplot2, r-cran-provsummarizer, r-cran-roxygen2, r-cran-testthat, r-cran-vroom Filename: pool/dists/focal/main/r-cran-rdtlite_1.4-1.ca2004.1_all.deb Size: 331344 MD5sum: b9d2bf1636958a952f75cdacd4c52d97 SHA1: dce14cda8cbdb6c219f5e8fcc36fa94402da7ffb SHA256: 9d3f5aa80f32ce783cd7a52a83dd4179a08a3691be17ceaee80b01358e662e05 SHA512: 44c52f527a89a43c737239389e35579f492df1e465c4f60df6efc57faa3d6fc5a5e20f0440d368eb9d630a7b8ff69d9f59368f4539cffed50f0381dee36ed045 Homepage: https://cran.r-project.org/package=rdtLite Description: CRAN Package 'rdtLite' (Provenance Collector) Defines functions that can be used to collect provenance as an 'R' script executes or during a console session. The output is a text file in 'PROV-JSON' format. Package: r-cran-rduino Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-serial Filename: pool/dists/focal/main/r-cran-rduino_0.1-1.ca2004.1_all.deb Size: 24404 MD5sum: 55ba9ff1af42ec19cac41b1c39b336db SHA1: 9f79898058de466f283d34a0198fc0242a6b8621 SHA256: 9c0a3f0130a2d6d0b55921765f49d08a35050417b1428543e362f27d49aaf7b4 SHA512: 6b5ba55d05404bdd37660f53d4a98fb0fba714892532d04e994f390644ff560cf98ef1932f8fee7092e25df3084197ea54e0dd65240a1edf0628fde98de001e4 Homepage: https://cran.r-project.org/package=Rduino Description: CRAN Package 'Rduino' (A Microcontroller Interface) Functions for connecting to and interfacing with an 'Arduino' or similar device. Functionality includes uploading of sketches, setting and reading digital and analog pins, and rudimentary servo control. This project is not affiliated with the 'Arduino' company, . Package: r-cran-rduinoiot Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 619 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-tibble, r-cran-cli, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-rduinoiot_0.1.0-1.ca2004.1_all.deb Size: 547720 MD5sum: 5d822589bf99cc3e5552ff1dbc5f422b SHA1: a576e5f6494f9244b10af8112c2b0d44bedbed44 SHA256: 98d10e83bb869f82e5a5ebad958974f5912586cb06ba7f724be3b9bbad6ddff6 SHA512: c1e85d67cdfc833d60397b88553a67b5153dfbcf57fb896cafad5f51ba234b2fd651c76f12dea707de6c0ba28e8743f22d95430112c979a18ca9b51b0160ecad Homepage: https://cran.r-project.org/package=Rduinoiot Description: CRAN Package 'Rduinoiot' ('Arduino Iot Cloud API' R Client) Easily interact with the 'Arduino Iot Cloud API' , managing devices, things, properties and data. Package: r-cran-rdune Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4851 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rdune_1.1.1-1.ca2004.1_all.deb Size: 4818408 MD5sum: dbde0b500d3c7b4a213f7df1b68ed416 SHA1: f25d4a19d7cbbb8269c738b318f6efe7fbdd93a1 SHA256: 31bba2a0f9aef30e157582565936d28b9eda535c41a5d718366e3d6ef867bf12 SHA512: 1432f777fff147370cca0db449d295c6a3884ba22c6d7c642d89e94983bbb011ea16838fba0f4286c97dec4a21d12dac4969febe896d07f15c2763229fc8584b Homepage: https://cran.r-project.org/package=Rdune Description: CRAN Package 'Rdune' ('Creates Color Palettes Inspired by Dune') Enables the use of color palettes inspired by the 'Dune' movies. These palettes are compatible with 'ggplot2'. See Wickham (2016) for more details on 'ggplot2'. Package: r-cran-rdwd Architecture: all Version: 1.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6664 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-berryfunctions, r-cran-pbapply Suggests: r-cran-rcurl, r-cran-leaflet, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-roxygen2, r-cran-devtools, r-cran-remotes, r-cran-bit64, r-cran-data.table, r-cran-osmscale, r-cran-r.utils, r-cran-ncdf4, r-cran-readr, r-cran-dwdradar, r-cran-xml, r-cran-terra, r-cran-stars, r-cran-shiny, r-cran-gsheet Filename: pool/dists/focal/main/r-cran-rdwd_1.8.0-1.ca2004.1_all.deb Size: 4633644 MD5sum: 66bc1884cbc7d1f30fc4c19b529afdfb SHA1: abae0b8622f14f982f730dab6c12d9b3a9d4347c SHA256: f8dc7fbb1d57469ef02bbe1968394fd4e2ec55309e3a0856b28e74074e9e4cca SHA512: 36eda7a9c6f4418e016fb4c4cc81ca8d2c08dee16a4bdaa29f39750a215cc335ea4aa61b2cc00fa59b3e394c2daab6b50ae62c1fe3e12d6b48159ace587ca553 Homepage: https://cran.r-project.org/package=rdwd Description: CRAN Package 'rdwd' (Select and Download Climate Data from 'DWD' (German WeatherService)) Handle climate data from the 'DWD' ('Deutscher Wetterdienst', see for more information). Choose observational time series from meteorological stations with 'selectDWD()'. Find raster data from radar and interpolation according to . Download (multiple) data sets with progress bars and no re-downloads through 'dataDWD()'. Read both tabular observational data and binary gridded datasets with 'readDWD()'. Package: r-cran-rdwplus Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 808 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rgrass, r-cran-stars, r-cran-sf, r-cran-stringr Filename: pool/dists/focal/main/r-cran-rdwplus_1.0.1-1.ca2004.1_all.deb Size: 600548 MD5sum: fc6a52274e52683a0f48ead2c50b8a57 SHA1: fabed759c1ae2da29bccfdaa562eda37c290e866 SHA256: 4c64081ebffd211831e0f60b5092aa785bd264e72547c39d7a8d06554ea8832e SHA512: 1dad02a5ec74edc4904702c097c91633b8221be1bfb578f1c98c649fb8dea78554c32a439f74985200d9f840ee31bdcb8797375bccbd269fd193f0ad07bcfe4a Homepage: https://cran.r-project.org/package=rdwplus Description: CRAN Package 'rdwplus' (Inverse Distance Weighted Percent Land Use for Streams) Compute spatially explicit land-use metrics for stream survey sites in GRASS GIS and R as an open-source implementation of IDW-PLUS (Inverse Distance Weighted Percent Land Use for Streams). The package includes functions for preprocessing digital elevation and streams data, and one function to compute all the spatially explicit land use metrics described in Peterson et al. (2011) and previously implemented by Peterson and Pearse (2017) in ArcGIS-Python as IDW-PLUS. Package: r-cran-re Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringi Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-re_0.1.0-1.ca2004.1_all.deb Size: 36968 MD5sum: cc71f5a8e3872bf66cd1ef71007b0c2c SHA1: e18a27a2b646fad90aa78f1d4fc4a28988e3dbca SHA256: b7f472697c2a4ea8b6687f5742607b0e13e25cbcbd49f94d596dc5a72d818b73 SHA512: 9881f73b48bd3e6a8cf48b7a23b64f99fa6bfe64d039a746e9bda0dfacc2ccc77534c6fb1ede9a9c6bc7a79fcec9477ba2cbbac814ddc0fda1263eeed07ef287 Homepage: https://cran.r-project.org/package=re Description: CRAN Package 're' ('Python' Style Regular Expression Functions) A comprehensive set of regular expression functions based on those found in 'Python' without relying on 'reticulate'. It provides functions that intend to (1) make it easier for users familiar with 'Python' to work with regular expressions, (2) reduce the complexity often associated with regular expressions code, (3) and enable users to write more readable and maintainable code that relies on regular expression-based pattern matching. Package: r-cran-reacnorm Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2277 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cubature, r-cran-stringi, r-cran-matrixstats Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-reacnorm_0.2.1-1.ca2004.1_all.deb Size: 2135384 MD5sum: f2a174560d4b8fdfb49e8d15d5344900 SHA1: fc65201622d75be7e122e48feecc41c20245fd59 SHA256: 52bb2ed1e8a19df59c3843ac5853e5d95170ddc603ca2435d34abb57f3791d63 SHA512: 5791c3f25f08aeb751ced512fe5d133ec99ed06e2d10db9b2e40f7523044330f7b8fdfd71ea23b92548d7e18237693c1301bb6d7b73091e8fd7ee2abc9813369 Homepage: https://cran.r-project.org/package=Reacnorm Description: CRAN Package 'Reacnorm' (Perform a Partition of Variance of Reaction Norms) Partitions the phenotypic variance of a plastic trait, studied through its reaction norm. The variance partition distinguishes between the variance arising from the average shape of the reaction norms (V_Plas) and the (additive) genetic variance . The latter is itself separated into an environment-blind component (V_G/V_A) and the component arising from plasticity (V_GxE/V_AxE). The package also provides a way to further partition V_Plas into aspects (slope/curvature) of the shape of the average reaction norm (pi-decomposition) and partition V_Add (gamma-decomposition) and V_AxE (iota-decomposition) into the impact of genetic variation in the reaction norm parameters. Reference: de Villemereuil & Chevin (2025) . Package: r-cran-react Architecture: all Version: 2024.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 43 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-rlang Filename: pool/dists/focal/main/r-cran-react_2024.1.0-1.ca2004.1_all.deb Size: 11772 MD5sum: 4a1b5927a4c312f29f81fc7f6f899ea4 SHA1: 3f69721563607482b7d5f447d6e42e6590b275cc SHA256: b41ad40300c03fb8c26714a5af49b48eae1aeef61d5223e853de1c021644a4b3 SHA512: 14a305a6b2fe563aa4b953a2e201e5ffeac795be2aa5e5eb476a447babe5502dfe4944043072ebfe825dc3861f27f9845da784b299d28ce1ccdf8430a726912d Homepage: https://cran.r-project.org/package=react Description: CRAN Package 'react' (Reactivity Helper for 'shiny') Tools to help with 'shiny' reactivity. The 'react' object offers an alternative way to call reactive expressions to better identify them in the server code. Package: r-cran-reactable.extras Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 267 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-dplyr, r-cran-htmltools, r-cran-purrr, r-cran-reactable, r-cran-rjson, r-cran-rlang, r-cran-shiny Suggests: r-cran-covr, r-cran-lintr, r-cran-mockery, r-cran-rcmdcheck, r-cran-shinytest2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-reactable.extras_0.2.1-1.ca2004.1_all.deb Size: 176160 MD5sum: 9595c7f61dff08ec81419448d7a8e431 SHA1: 12b0ae04a9a1166d8491bf8471aaa14fdb07f543 SHA256: 873d82c6b63928d1ea9b2f6a062d64fe3e98b3aea075bbabb235165ec7c21e04 SHA512: 049446a35fca372ff81b6a1974fad877654150fa94ac4ab4434a19eea917a53ad254693b0c6f503badf96716a6f06844db74b86e8d68e07b90ac10d2296ccd04 Homepage: https://cran.r-project.org/package=reactable.extras Description: CRAN Package 'reactable.extras' (Extra Features for 'reactable' Package) Enhanced functionality for 'reactable' in 'shiny' applications, offering interactive and dynamic data table capabilities with ease. With 'reactable.extras', easily integrate a range of functions and components to enrich your 'shiny' apps and facilitate user-friendly data exploration. 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Package: r-cran-reactablefmtr Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 442 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reactable, r-cran-dplyr, r-cran-htmltools, r-cran-htmlwidgets, r-cran-magrittr, r-cran-purrr, r-cran-sass, r-cran-shiny, r-cran-stringr, r-cran-webshot Suggests: r-cran-mass, r-cran-scales Filename: pool/dists/focal/main/r-cran-reactablefmtr_2.0.0-1.ca2004.1_all.deb Size: 397608 MD5sum: af691b96b910e87e8c797f37053258b3 SHA1: d673ffa221ea9f87146ea1d3f4f46f6a9c13e4cb SHA256: 41877ddc2bb05e53968d48eb571ce6d027523f3af709fe93f9cb5939e95c59c5 SHA512: 93272a1bf921f09086e12d83be44475aec635f7e273ac7c041a6c6715ff0ccbd2adcb448ed4e62ec69427c8347b9726a2cbc3f191477d5fcca766127cbb62dbb Homepage: https://cran.r-project.org/package=reactablefmtr Description: CRAN Package 'reactablefmtr' (Streamlined Table Styling and Formatting for Reactable) Provides various features to streamline and enhance the styling of interactive reactable tables with easy-to-use and highly-customizable functions and themes. Apply conditional formatting to cells with data bars, color scales, color tiles, and icon sets. Utilize custom table themes inspired by popular websites such and bootstrap themes. Apply sparkline line & bar charts (note this feature requires the 'dataui' package which can be downloaded from ). Increase the portability and reproducibility of reactable tables by embedding images from the web directly into cells. Save the final table output as a static image or interactive file. Package: r-cran-reactcheckbox Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 589 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-htmltools, r-cran-reactr Suggests: r-cran-shiny Filename: pool/dists/focal/main/r-cran-reactcheckbox_1.0.0-1.ca2004.1_all.deb Size: 99880 MD5sum: a5e3472e883a46e663f595a3dd6eb026 SHA1: 35d4dab7c127f90ab43a913447f6e16d0ef541e4 SHA256: 0d9d0d8b555e5db42ab8f93120aa524770aedd274945a8429796f5afab7b2f44 SHA512: 2c150a31c0d391433846c93c86dd88626c28946f5f9d4e7507a5308e3d105a748c364884b8f39ddb6b0091215901024f047feb77f92856150c585bec7772fa87 Homepage: https://cran.r-project.org/package=reactCheckbox Description: CRAN Package 'reactCheckbox' (Checkbox Group Input for 'Shiny') Provides a checkbox group input for usage in a 'Shiny' application. The checkbox group has a head checkbox allowing to check or uncheck all the checkboxes in the group. The checkboxes are customizable. Package: r-cran-reactlog Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3501 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-shiny, r-cran-fontawesome, r-cran-knitr, r-cran-rmarkdown, r-cran-htmltools, r-cran-testthat Filename: pool/dists/focal/main/r-cran-reactlog_1.1.1-1.ca2004.1_all.deb Size: 1663628 MD5sum: 0c31bdd2182037437d97c68eadd89aeb SHA1: 708d9f7508b8f12f49826c281c80b8a4237abcb8 SHA256: 5d5fef7f444ad1ace125866e4ba097b7cc1406dfa9343814f6683d72a3cad815 SHA512: 1ea4aacb159d328d7bedf73b8e0fa200ee78fa8779f07db364be7d819f06238a4e61c7449d2f29d7d74b7cfd6cda37a1218da9998ecf41a61ee23de09123265a Homepage: https://cran.r-project.org/package=reactlog Description: CRAN Package 'reactlog' (Reactivity Visualizer for 'shiny') Building interactive web applications with R is incredibly easy with 'shiny'. Behind the scenes, 'shiny' builds a reactive graph that can quickly become intertwined and difficult to debug. 'reactlog' (Schloerke 2019) provides a visual insight into that black box of 'shiny' reactivity by constructing a directed dependency graph of the application's reactive state at any time point in a reactive recording. Package: r-cran-reactr Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1732 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-htmltools Suggests: r-cran-htmlwidgets, r-cran-rmarkdown, r-cran-shiny, r-cran-v8, r-cran-knitr, r-cran-usethis, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-reactr_0.6.1-1.ca2004.1_all.deb Size: 468636 MD5sum: 027852c9fec2261526de896da27ed0a9 SHA1: 05adb7bd0a8446a53ad6c59713ca06563ab54165 SHA256: a3d711b74906266d6eaabeace2613259ff15c06defdd407716722b48e9cf949a SHA512: d17b2c5b8b764171c78598ad19c910bc1febcecdbb648f18956557f15ef6d5aa22cf5f594e605c53adf142fe57b50135114f22a4878633d51fecaac225a7cb03 Homepage: https://cran.r-project.org/package=reactR Description: CRAN Package 'reactR' (React Helpers) Make it easy to use 'React' in R with 'htmlwidget' scaffolds, helper dependency functions, an embedded 'Babel' 'transpiler', and examples. Package: r-cran-reactrouter Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1122 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-htmltools, r-cran-shiny, r-cran-shiny.react, r-cran-checkmate Suggests: r-cran-testthat, r-cran-chromote, r-cran-shinytest2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-reactrouter_0.1.0-1.ca2004.1_all.deb Size: 210772 MD5sum: 17552e86ba32ac822885f4fcf1bc5113 SHA1: 8fd77474da1482b3d1044c10c0c4b0cf2d8b8394 SHA256: cdd5fbe9d1f8f072e5d3aebbeac59177f6a1e7cab8c13fc3fb04001015434794 SHA512: cd05094c07772c6c83a4d62859497214e17f3d09b806cd321bf28ecdca4d14c12c3115ae7114c974052d5f974aa87756592ba3227054bc77860ed62b5f34d254 Homepage: https://cran.r-project.org/package=reactRouter Description: CRAN Package 'reactRouter' ('React Router' for 'shiny' Apps and 'Quarto') You can easily share url pages using 'React Router' in 'shiny' applications and 'Quarto' documents. 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References (citations in PubMed format in details of each function): Bolland MJ, Avenell A, Gamble GD, Grey A. (2016) . Bolland MJ, Gamble GD, Avenell A, Grey A, Lumley T. (2019) . Bolland MJ, Gamble GD, Avenell A, Grey A. (2019) . Bolland MJ, Gamble GD, Grey A, Avenell A. (2020) . Bolland MJ, Gamble GD, Avenell A, Cooper DJ, Grey A. (2021) . Bolland MJ, Gamble GD, Avenell A, Grey A. (2021) . Bolland MJ, Gamble GD, Avenell A, Cooper DJ, Grey A. (2023) . Carlisle JB, Loadsman JA. (2017) . Carlisle JB. (2017) . 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Package: r-cran-reconstructkm Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 583 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-survival, r-cran-rlang, r-cran-survminer Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-reconstructkm_0.3.0-1.ca2004.1_all.deb Size: 372548 MD5sum: 89462563f29a12edd0d3131cedd75214 SHA1: 98b213902acb8c824d2a3eb1bab11b1440d8fb3e SHA256: ceb9c49ced850aa236057c242a08a0d18082b37943529159d9e46f96b31023e5 SHA512: 5596e57f38f7de2e89cadf55c757a44402c1ba22e520ed0485f5a4862b516e84da7192e3ca3530f9e32522e61e1f7e1532cf96a8db3836cf24e1b653bd8d4dc8 Homepage: https://cran.r-project.org/package=reconstructKM Description: CRAN Package 'reconstructKM' (Reconstruct Individual-Level Data from Published KM Plots) Functions for reconstructing individual-level data (time, status, arm) from Kaplan-MEIER curves published in academic journals (e.g. NEJM, JCO, JAMA). The individual-level data can be used for re-analysis, meta-analysis, methodology development, etc. This package was used to generate the data for commentary such as Sun, Rich, & Wei (2018) . Please see the vignette for a quickstart guide. Package: r-cran-recorder Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 173 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-crayon Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-recorder_0.8.2-1.ca2004.1_all.deb Size: 90740 MD5sum: a33b605575c70df5d68a6e8d859701f8 SHA1: 0a6dac8ed358fa6a9585eda31bd9bbcf7692b83e SHA256: ffab1c9170d2d9c0f85049f180d6e54c80c84b7111e45a22df3200ac5960a536 SHA512: fd9ed5b059c293fca3fa84a0dd0c536b3c1ecbbb15ec8c13a853bf04e09eefd9c599e5bf1420688951aef5a5494629a178a80fbe9a54987618df8e053d7230d1 Homepage: https://cran.r-project.org/package=recorder Description: CRAN Package 'recorder' (Toolkit to Validate New Data for a Predictive Model) A lightweight toolkit to validate new observations when computing their predictions with a predictive model. The validation process consists of two steps: (1) record relevant statistics and meta data of the variables in the original training data for the predictive model and (2) use these data to run a set of basic validation tests on the new set of observations. Package: r-cran-records Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-records_1.0-1.ca2004.1_all.deb Size: 22296 MD5sum: 73f3028d3acf2849e09b83830372fc0c SHA1: 764f2673ec17224bed29c3ecfcab52ae58a68c63 SHA256: 32951b50d367308d391200f264b8d8deb53ff4db519896d640e14cd6b8e26c2a SHA512: 5d249ca584041b4beb3c925823400923e2a28b7f596c2484fe7183324b703af56a7f78d57450c4f91a0216f9eefba39af757f31a4b9e8e3b8d077a889c14a6a5 Homepage: https://cran.r-project.org/package=Records Description: CRAN Package 'Records' (Record Values and Record Times) Functions for generating k-record values and k-record times Package: r-cran-recordtest Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2459 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-ggpubr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-recordtest_2.2.0-1.ca2004.1_all.deb Size: 2062096 MD5sum: 9267853b3b48e13dac9cd5ebaa01942f SHA1: 8002c43999a6ce995d68b45ccf9b1b5acd1cfe63 SHA256: 8126414810a1190abe8d7c67cdb7c8a22f34ef92a14ea0e2c8940dd1439e8323 SHA512: 65f66fa379ff947d7e4c2b647fa6f6fdaf0b745eb47d4256c4f41e946f1ce684e27b3018e53caeb9b591565c73fe5d2b72872c3242a153a2fa3fdbea10097681 Homepage: https://cran.r-project.org/package=RecordTest Description: CRAN Package 'RecordTest' (Inference Tools in Time Series Based on Record Statistics) Statistical tools based on the probabilistic properties of the record occurrence in a sequence of independent and identically distributed continuous random variables. In particular, tools to prepare a time series as well as distribution-free trend and change-point tests and graphical tools to study the record occurrence. Details about the implemented tools can be found in Castillo-Mateo et al. (2023a) and Castillo-Mateo et al. (2023b) . Package: r-cran-recurrentpseudo Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 193 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-survival, r-cran-geepack, r-cran-stringr, r-cran-prodlim Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-recurrentpseudo_1.0.0-1.ca2004.1_all.deb Size: 63320 MD5sum: 216e46e0a485afd08db9a5ffec72b9e8 SHA1: ea1661f8916a1069544457d406282305cb6e4d01 SHA256: 0a39781bbcc977e18b86aac2892606436a0b2720f0c4f318e380057bb2f61a93 SHA512: 486cec82d851a4a92c7e3b2509b401d25e3b7f650a3f552b3b400c9bd72c6ba9d56c84f613fcaef1510f90c560ca6aa37c398c3467e644eb9407e8db1ba0cd55 Homepage: https://cran.r-project.org/package=recurrentpseudo Description: CRAN Package 'recurrentpseudo' (Creates Pseudo-Observations and Analysis for Recurrent EventData) Computation of one-, two- and three-dimensional pseudo-observations based on recurrent events and terminal events. Generalised linear models are fitted using generalised estimating equations. Technical details on the bivariate procedure can be found in "Bivariate pseudo-observations for recurrent event analysis with terminal events" (Furberg et al., 2021) . Package: r-cran-red Architecture: all Version: 1.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 712 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bat, r-cran-dismo, r-cran-gdistance, r-cran-geosphere, r-cran-jsonlite, r-cran-sp, r-cran-terra, r-cran-predicts Filename: pool/dists/focal/main/r-cran-red_1.6.2-1.ca2004.1_all.deb Size: 349456 MD5sum: ff4549fb46607bb91b54df13c5e5fab6 SHA1: 831ce3acd4c83999bfcbf52b75c2341576a12b91 SHA256: 2c9224dc318bb9cd86001c60f984f3c9a24cde1ae047dccbef6ec4cd17264b82 SHA512: 86b514ed162258cbab4a41a9e345c4c6a61c82b8b8828f552d258b96ea54a35ca002f28839c81c1c16ceac7bdc002f7ac0924d8733534b68a18a721ce4209fb3 Homepage: https://cran.r-project.org/package=red Description: CRAN Package 'red' (IUCN Redlisting Tools) Includes algorithms to facilitate the assessment of extinction risk of species according to the IUCN (International Union for Conservation of Nature, see for more information) red list criteria. Package: r-cran-redamor Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3687 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-visnetwork, r-cran-readr, r-cran-shiny, r-cran-shinyjs, r-cran-jsonlite, r-cran-dt, r-cran-colourpicker, r-cran-rintrojs, r-cran-markdown, r-cran-rstudioapi, r-cran-crayon, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-igraph, r-cran-base64enc Filename: pool/dists/focal/main/r-cran-redamor_0.8.2-1.ca2004.1_all.deb Size: 1542472 MD5sum: af0ee4cdf5225e1aadfc7a350261d0d1 SHA1: 19be47ff812718342391b7345ae15ebd746dc5fa SHA256: fed6bfbcbc09dfb2aeaf7d6dda05eb5a61cd58846265799ab426c9ef0e4681f8 SHA512: eb2ffd96e7c2e63a0f98e4a1becdeed1dec7bb9e26efc16bbba01835df61cbe1cf22097dc47a61a2375d7a5aecc5d373270357efb39018e5e021733db7e336c6 Homepage: https://cran.r-project.org/package=ReDaMoR Description: CRAN Package 'ReDaMoR' (Relational Data Modeler) The aim of this package is to manipulate relational data models in R. It provides functions to create, modify and export data models in json format. It also allows importing models created with 'MySQL Workbench' (). These functions are accessible through a graphical user interface made with 'shiny'. Constraints such as types, keys, uniqueness and mandatory fields are automatically checked and corrected when editing a model. Finally, real data can be confronted to a model to check their compatibility. Package: r-cran-redas Architecture: all Version: 0.9.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-car, r-cran-cluster, r-cran-foreign, r-cran-gparotation, r-cran-mass, r-cran-mclust, r-cran-psych, r-cran-usingr, r-cran-vcd Filename: pool/dists/focal/main/r-cran-redas_0.9.4-1.ca2004.1_all.deb Size: 84692 MD5sum: 524cf89796c8941116631eb51cb70dfe SHA1: e2c919eb514fcd380031535a059d7a1c49867768 SHA256: a2fb185aca9f694d4e7bae744ab75b6b8133098c052b822dfea4553dd6fa92bd SHA512: cdd33e2eb69344e25aa096373eca785b988054c1954442f3ab87fdb0fc486e0402428e0655559e09ec9d6dfdb35db3c0c4428c036cb9e32d420ae19b2dc62612 Homepage: https://cran.r-project.org/package=REdaS Description: CRAN Package 'REdaS' (Companion Package to the Book 'R: Einführung durch angewandteStatistik') Provides functions used in the 'R: Einführung durch angewandte Statistik' (second edition). Package: r-cran-redbookperu Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 922 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-redbookperu_0.0.3-1.ca2004.1_all.deb Size: 877688 MD5sum: 00150d978743836637fe72be8958d347 SHA1: 6479a78227c301cc70d399f0abc1093e3dbad127 SHA256: d650a82efa5eb1f360e65c75146ab116cb447e91deda8adee6145517ebd83fa9 SHA512: b7a63928d92429ae8b7fae4b0853e3c13c8c4291e690b1005f11cde602e3802ecb9ac8cd38a10959fd7b4711e385327761b07696816b9b83d8164ebbff809ae3 Homepage: https://cran.r-project.org/package=redbookperu Description: CRAN Package 'redbookperu' (Access and Analyze Data from the Red Book of Endemic Plants ofPeru) Provides access to and analysis of data from "The Red Book of Endemic Plants of Peru" (León, B., Roque, J., Ulloa, C., Jorgensen, P.M., Pitman, N., Cano, A. 2006) . This package offers comprehensive taxonomic, geographic, and conservation information about Peru's endemic plant species. It includes functions to verify species inclusion, obtain updated taxonomic details, and explore the dataset. Package: r-cran-redcapapi Architecture: all Version: 2.11.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3677 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-chron, r-cran-curl, r-cran-jsonlite, r-cran-labelvector, r-cran-lubridate, r-cran-mime, r-cran-shelter Suggests: r-cran-testthat, r-cran-hmisc, r-cran-mockery Filename: pool/dists/focal/main/r-cran-redcapapi_2.11.0-1.ca2004.1_all.deb Size: 3238608 MD5sum: ffad54542284ad8710c831f02f1d91c5 SHA1: 35ce70a239b17bf0c9b654d21d7c6cfcf87bbc6b SHA256: 2aa1acfc88818d2bdd124140dfea4f4d73e6114d0b95efc7bf767d08bee4af75 SHA512: b0418013e07abff20f0da756cefdff580b8a9cfeaa15e354d81bf28500b32107fc97f080adb21df28da2b25e63893727c9a524af45e349701cec902e37bf81ad Homepage: https://cran.r-project.org/package=redcapAPI Description: CRAN Package 'redcapAPI' (Interface to 'REDCap') Access data stored in 'REDCap' databases using the Application Programming Interface (API). 'REDCap' (Research Electronic Data CAPture; , Harris, et al. (2009) , Harris, et al. (2019) ) is a web application for building and managing online surveys and databases developed at Vanderbilt University. The API allows users to access data and project meta data (such as the data dictionary) from the web programmatically. The 'redcapAPI' package facilitates the process of accessing data with options to prepare an analysis-ready data set consistent with the definitions in a database's data dictionary. Package: r-cran-redcapcast Architecture: all Version: 25.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 571 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-redcapr, r-cran-tidyr, r-cran-tidyselect, r-cran-keyring, r-cran-purrr, r-cran-readr, r-cran-zip, r-cran-assertthat, r-cran-forcats, r-cran-vctrs, r-cran-gt, r-cran-bslib, r-cran-here, r-cran-glue, r-cran-gtsummary, r-cran-shiny, r-cran-haven, r-cran-openxlsx2, r-cran-readods Suggests: r-cran-httr, r-cran-jsonlite, r-cran-testthat, r-cran-hmisc, r-cran-knitr, r-cran-rmarkdown, r-cran-styler, r-cran-devtools, r-cran-roxygen2, r-cran-spelling, r-cran-rhub, r-cran-rsconnect, r-cran-pkgconfig Filename: pool/dists/focal/main/r-cran-redcapcast_25.3.2-1.ca2004.1_all.deb Size: 263620 MD5sum: 6bd160f0bbec8a32d37a013026f6ac37 SHA1: 6fc841feee98f9a41cbf58c6288be3ffba732fc8 SHA256: cb1554f85afd71a21cbc0fa455618696c94dcc7c43bc09ca80d335dd934b1ed9 SHA512: 33a438dd88ea4d076b04c8c671646cb72c50c041a0c6c038a61ef1d5015a6d381eb8b7b6f9905dcebee7cbc7933a7627d9c99c9da6000707aa91516f95cfb941 Homepage: https://cran.r-project.org/package=REDCapCAST Description: CRAN Package 'REDCapCAST' (REDCap Metadata Casting and Castellated Data Handling) Casting metadata for REDCap database creation and handling of castellated data using repeated instruments and longitudinal projects in 'REDCap'. Keeps a focused data export approach, by allowing to only export required data from the database. Also for casting new REDCap databases based on datasets from other sources. Originally forked from the R part of 'REDCapRITS' by Paul Egeler. See . 'REDCap' (Research Electronic Data Capture) is a secure, web-based software platform designed to support data capture for research studies, providing 1) an intuitive interface for validated data capture; 2) audit trails for tracking data manipulation and export procedures; 3) automated export procedures for seamless data downloads to common statistical packages; and 4) procedures for data integration and interoperability with external sources (Harris et al (2009) ; Harris et al (2019) ). Package: r-cran-redcapdm Architecture: all Version: 0.9.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 665 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-janitor, r-cran-magrittr, r-cran-openxlsx, r-cran-purrr, r-cran-redcapr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-stringi, r-cran-labelled, r-cran-cli, r-cran-forcats Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-redcapdm_0.9.9-1.ca2004.1_all.deb Size: 372052 MD5sum: c49e958f8f31d5faa772aa214d57cd14 SHA1: cd4f884ac28eb3ecbdff74c688fac4e831603709 SHA256: d4e7e6f9b7ec1ea8cc8c9617e48cc7a8f8c7dfa32ad2928d5ba55a4321db692a SHA512: 6cdd646d00cfee8b8b14441ae8358fc47b749690d66c576197bdfc3628d80cddb191fa71036ddd0bfce74f92190a4ea80d01b0b7ea5539d92262f8ec2ba88638 Homepage: https://cran.r-project.org/package=REDCapDM Description: CRAN Package 'REDCapDM' ('REDCap' Data Management) REDCap Data Management - REDCapDM is an R package that allows users to manage data exported directly from REDCap or using an API connection. This package includes several functions designed for pre-processing data, generating reports of queries such as outliers or missing values, and following up on the identified queries. 'REDCap' (Research Electronic Data CAPture; ) is a web application developed at Vanderbilt University, designed for creating and managing online surveys and databases and the REDCap API is an interface that allows external applications to connect to REDCap remotely, and is used to programmatically retrieve or modify project data or settings within REDCap, such as importing or exporting data. Package: r-cran-redcapexporter Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 385 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-keyring, r-cran-lubridate, r-cran-rjson Suggests: r-cran-devtools, r-cran-fs, r-cran-getpass, r-cran-kableextra, r-cran-knitr, r-cran-magrittr, r-cran-qwraps2, r-cran-rmarkdown, r-cran-secret Filename: pool/dists/focal/main/r-cran-redcapexporter_0.3.1-1.ca2004.1_all.deb Size: 121748 MD5sum: fddc51c3697641a52c238b36f2c5192b SHA1: 742f81380287a4620c0f7cdce5d06fd46d2651a1 SHA256: f6ddf963dcbb4577ed4e7942238bbdea23855875f4d45eb8f7b9826a2e8683ec SHA512: 152263fad0ec6b096f8494f06407fc9c0f2c4bc37bbf465e677520d0e625cc0fa2324da9f99ff11aadd91e2bf14c6ef8ae47c0ca5e2623f3d38798cc54624003 Homepage: https://cran.r-project.org/package=REDCapExporter Description: CRAN Package 'REDCapExporter' (Automated Construction of R Data Packages from REDCap Projects) Export all data, including metadata, from a REDCap (Research Electronic Data Capture) Project via the REDCap API . The exported (meta)data will be processed and formatted into a stand alone R data package which can be installed and shared between researchers. Several default reports are generated as vignettes in the resulting package. 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REDCap (Research Electronic Data CAPture) is a web application for building and managing online surveys and databases developed at Vanderbilt University. The Application Programming Interface (API) offers an avenue to access and modify data programmatically, improving the capacity for literate and reproducible programming. 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The reactions must be unique and their number must exceed that of the reactants,i.e., reactions >= reactants + 2. 'ReDirection', computes the null space of a user-defined stoichiometry matrix. The spanning non-zero and unique reaction vectors (RVs) are combinatorially summed to generate one or more subspaces recursively. Every reaction is represented as a sequence of identical components across all RVs of a particular subspace. The terms are evaluated with (biologically relevant bounds, linear maps, tests of convergence, descriptive statistics, vector norms) and the terms are classified into forward-, reverse- and equivalent-subsets. Since, these are mutually exclusive the probability of occurrence is binary (all, 1; none, 0). The combined propensity of a reaction is the p1-norm of the sub-propensities, i.e., sum of the products of the probability and maximum numeric value of a subset (least upper bound, greatest lower bound). This, if strictly positive is the probable rate constant, is used to infer dominant direction and annotate a reaction as "Forward (f)", "Reverse (b)" or "Equivalent (e)". The inherent computational complexity (NP-hard) per iteration suggests that a suitable value for the number of reactions is around 20. Three functions comprise ReDirection. These are check_matrix() and reaction_vector() which are internal, and calculate_reaction_vector() which is external. 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Its main contribution is a statistical analysis based on the Poisson-Binomial distribution that takes into account that some samples are more mutated than others. See [Canisius, Sander, John WM Martens, and Lodewyk FA Wessels. (2016) "A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains most co-occurrence." Genome biology 17.1 : 1-17. ]. The mutations matrices are sparse matrices. The method developed takes advantage of the advantages of this type of matrix to save time and computing resources. 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Also, only the median filter is implemented as a denoiser engine. However, (almost) any denoiser engine can be plugged in. There are currently available 3 reconstruction tasks: denoise, deblur and super-resolution. And again, any other task can be easily plugged into the main function 'RED'. 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(2012) RE-EM trees: a data mining approach for longitudinal and clustered data . 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The algorithm estimates the latent factors and the loading by minimizing the exponential squared loss function. To determine the appropriate number of factors, we propose a modified rank minimization technique, which has been shown to significantly enhance finite-sample performance. 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Provide functions to download sequence data from Bold Systems () and NCBI GenBank . Designed as an environment for semi-automatic and assisted construction of reference databases and to improve standardization and repeatability in barcoding and metabarcoding studies. 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Package: r-cran-referenceintervals Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-extremevalues, r-cran-mass, r-cran-outliers Filename: pool/dists/focal/main/r-cran-referenceintervals_1.3.1-1.ca2004.1_all.deb Size: 75688 MD5sum: b966c69f747b653f31d1188149fba86f SHA1: 254b081a52d10e1951168b7d15504dd3503bce8d SHA256: a87c36b8f06b6a4afe52889a531834eb4cf2bc09cd84a9fe7328aa1f5a6cef22 SHA512: 7c0097d8c4d2f71c31977220ed26c69fc940e087c3e94102910f66426488c91e1beeb1ec70d5e87b6d9fe42d555e4eadfc7d56c646f9a33f02b5de99d4b6b2de Homepage: https://cran.r-project.org/package=referenceIntervals Description: CRAN Package 'referenceIntervals' (Reference Intervals) This is a collection of tools to allow the medical professional to calculate appropriate reference ranges (intervals) with confidence intervals around the limits for diagnostic purposes. Package: r-cran-reffectivepred Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-yaml, r-cran-config, r-cran-zoo Filename: pool/dists/focal/main/r-cran-reffectivepred_1.0.1-1.ca2004.1_all.deb Size: 107340 MD5sum: d71b759b343a08f0ba08cbfdb99aac33 SHA1: a445e9e0a9649af2e6c48322916461f2ca7baef7 SHA256: b41903b2914d29915d05fc9677d3d64f3c1eb66b0eff87ed7a92432d42b9ce58 SHA512: 2c7884925825152e65fc9be7dc4855d31c99b9d75b261e7abb62364c0f1a7462f72bbac2306c58107e473d1fee0abcbaae7eb7660cfd44114f2afde54c275bf0 Homepage: https://cran.r-project.org/package=REffectivePred Description: CRAN Package 'REffectivePred' (Pandemic Prediction Model in an SIRS Framework) A suite of methods to fit and predict case count data using a compartmental SIRS (Susceptible – Infectious – Recovered – Susceptible) model, based on an assumed specification of the effective reproduction number. The significance of this approach is that it relates epidemic progression to the average number of contacts of infected individuals, which decays as a function of the total susceptible fraction remaining in the population. The main functions are pred.curve(), which computes the epidemic curve for a set of parameters, and estimate.mle(), which finds the best fitting curve to observed data. The easiest way to pass arguments to the functions is via a config file, which contains input settings required for prediction, and the package offers two methods, navigate_to_config() which points the user to the configuration file, and re_predict() for starting the fit-predict process. The main model was published in Razvan G. Romanescu et al. . Package: r-cran-refiner Architecture: all Version: 1.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4501 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ash, r-cran-future, r-cran-future.apply Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-refiner_1.6.2-1.ca2004.1_all.deb Size: 4064072 MD5sum: 7eee14192ddba698dc12ff4f12016bb4 SHA1: 39f214ce6a37ca4c556ae730a47f996db2f47272 SHA256: bfbe7ad7c45db102454c954b1e86e02154cc59cb059bd5e61e3408d91f9dccad SHA512: 75646f59745693b401a2a2bda431bbb94041e0d94703ada331fc63f14ba298a4d403c710dc72cb90d193fab0ab8f0521e306a981e980949720bb41383a759044 Homepage: https://cran.r-project.org/package=refineR Description: CRAN Package 'refineR' (Reference Interval Estimation using Real-World Data) Indirect method for the estimation of reference intervals using Real-World Data ('RWD'). It takes routine measurements of diagnostic tests, containing pathological and non-pathological samples as input and uses sophisticated statistical methods to derive a model describing the distribution of the non-pathological samples. This distribution can then be used to derive reference intervals. Furthermore, the package offers functions for printing and plotting the results of the algorithm. See ?refineR for a more comprehensive description of the features. Version 1.0 of the algorithm is described in detail in 'Ammer et al. (2021)' . Additional guidance on the usage of the algorithm is given in 'Ammer et al. (2023)' . Package: r-cran-refitgaps Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 198 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-refitgaps_0.1.2-1.ca2004.1_all.deb Size: 107124 MD5sum: c19e08280af6f77d5b8f55877448588c SHA1: dbe1b910bc2ad4ab8fbf2c2727e105bb73accd5e SHA256: a3f0978ffafe119b9e74ecba6f96b06dea1a70a69e1e608a49c19b45e9a434fb SHA512: 787de266d12207f01e2d0b0df6db2db80d0fde9d1d7aea5407c88080c09f5b537c9338be7d680791dbc913c3f97040368840b88c68e767efcf82ca5e3c56bda3 Homepage: https://cran.r-project.org/package=refitgaps Description: CRAN Package 'refitgaps' (Reduce the Number of Holes in the School Timetable) Reallocating the respective lessons by hours (respecting the constraints induced by the existence of coupled lessons) so that the total number of gaps is as small as possible. Package: r-cran-refitme Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2253 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-mgcv, r-cran-vgam, r-cran-vgamdata, r-cran-caret, r-cran-expm, r-cran-mvtnorm, r-cran-sandwich, r-cran-dplyr, r-cran-scales Filename: pool/dists/focal/main/r-cran-refitme_1.3.1-1.ca2004.1_all.deb Size: 2012228 MD5sum: 2ad8a58fa3300f8e5caec473fbd5e107 SHA1: 23350e7eeee7469d2e8208cf94650823dfb64d26 SHA256: fc3c4956144ace797816723eb021e4e664d88203f366ac144cde965fd399d712 SHA512: 1a2bb4c972dd30381b0ccd4ce463d14bd9dc84da2cc4d693dac71ca115ab8ba2e867a955e3e28757273a1a12f051f6b673b0ceb40b312f121bab482d4d754575 Homepage: https://cran.r-project.org/package=refitME Description: CRAN Package 'refitME' (Measurement Error Modelling using MCEM) Fits measurement error models using Monte Carlo Expectation Maximization (MCEM). For specific details on the methodology, see: Greg C. G. Wei & Martin A. Tanner (1990) A Monte Carlo Implementation of the EM Algorithm and the Poor Man's Data Augmentation Algorithms, Journal of the American Statistical Association, 85:411, 699-704 For more examples on measurement error modelling using MCEM, see the 'RMarkdown' vignette: "'refitME' R-package tutorial". Package: r-cran-reflectr Architecture: all Version: 2.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-reflectr_2.1.3-1.ca2004.1_all.deb Size: 56496 MD5sum: f31cd0cf9531ae4195f28c86e63a25e3 SHA1: 249e2da5a67f0925a9339aaf49807ec4a9d08efb SHA256: f5192c781ea177037484cd97629445a6e9caf5d8f560202a66fe4688e786a6d0 SHA512: 84a68f6e2badbfa2eef07cd7ea4af1b7c43381eb6fbb3c13d7ad7579a9afd53bb817ff99271469c8d49295a7de26a7b4a9e28f1a9f3700562757dd8c223074c2 Homepage: https://cran.r-project.org/package=reflectR Description: CRAN Package 'reflectR' (Automatic Scoring of the Cognitive Reflection Test) A tool for researchers and psychologists to automatically code open-ended responses to the Cognitive Reflection Test (CRT), a widely used class of tests in cognitive science and psychology for assessing an individual's propensity to override an incorrect gut response and engage in further reflection to find a correct answer. This package facilitates the standardization of Cognitive Reflection Test responses analysis across large datasets in cognitive psychology, decision-making, and related fields. By automating the coding process, it not only reduces manual effort but also aims to reduce the variability introduced by subjective interpretation of open-ended responses, contributing to a more consistent and reliable analysis. 'reflectR' supports automatic coding and machine scoring for the original English-language version of CRT (Frederick, 2005) , as well as for CRT4 and CRT7, 4- and 7-item versions, respectively (Toplak et al., 2014) , for the CRT-long version built via Item Response Theory by Primi and colleagues (2016) , and for CRT-2 by Thomson & Oppenheimer (2016) . Note: While 'reflectR' draws inspiration from the principles and scientific literature underlying the different versions of the Cognitive Reflection Test, it has been independently developed and does not hold any affiliation with any of the original authors. The development of this package benefited significantly from the kind insight and suggestion provided by Dr. Keela Thomson, whose contribution is gratefully acknowledged. Additional gratitude is extended to Dr. Paolo Giovanni Cicirelli, Prof. Marinella Paciello, Dr. Carmela Sportelli, and Prof. Francesca D'Errico, who not only contributed to the manual multi-rater coding of CRT-2 items but also profoundly influenced the understanding of the importance and practical relevance of cognitive reflection within personality, social, and cognitive psychology research. Acknowledgment is also due to the European project STERHEOTYPES (STudying European Racial Hoaxes and sterEOTYPES) for funding the data collection that produced the datasets initially used for manual multi-rater coding of CRT-2 items. 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The principle of the method was developed by Robert G Hoffmann (1963) and modified by Georg Hoffmann and colleagues (2015) , and Frank Klawonn and colleagues (2020) , (2022) . 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Package: r-cran-remla Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 176 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-gparotation, r-cran-geex Suggests: r-cran-knitr, r-cran-lavaan, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-remla_1.2.0-1.ca2004.1_all.deb Size: 94124 MD5sum: 3c613dfbaf75b51a9b624734d07719f1 SHA1: d067064e4df747bfa389a5cf15f1d10532544adb SHA256: 70a58f7edcc29f4f95b9b40e6aa8577311c2154413b6cf51c3ed6774d98097b3 SHA512: 0b8c1e5304e03f65eaf37b9efefbe78a9c48bc4b7bffbab17c397e79c33963c4af468984c24622bab0623cec7446f6d86fb6f8e0b3561d93ead17c20f3b60111 Homepage: https://cran.r-project.org/package=REMLA Description: CRAN Package 'REMLA' (Robust Expectation-Maximization Estimation for Latent VariableModels) Traditional latent variable models assume that the population is homogeneous, meaning that all individuals in the population are assumed to have the same latent structure. 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Package: r-cran-remm Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1150 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stream, r-cran-cluster, r-cran-clustergeneration, r-cran-mass, r-cran-proxy, r-cran-igraph Suggests: r-bioc-graph, r-bioc-rgraphviz, r-cran-testthat Filename: pool/dists/focal/main/r-cran-remm_1.2.1-1.ca2004.1_all.deb Size: 915916 MD5sum: 8aa77fd1b24b7dcc263b14dc877401a5 SHA1: 6157b65f8066b292bd9b576c9c7a0878ae480907 SHA256: 2c28ce57a39e445a0e32078dbab2997d5f40f3d5303e875cce01af811c426e83 SHA512: 6c9a4def1ee3d41f8eb4b9666dc7a095dfb1da7bbaa5b6a714d563faa024bfde8acc0338188aa5b35e96e47a0eba20d1c7cf51f46ac4223745a05af63480fa3f Homepage: https://cran.r-project.org/package=rEMM Description: CRAN Package 'rEMM' (Extensible Markov Model for Modelling Temporal RelationshipsBetween Clusters) Implements TRACDS (Temporal Relationships between Clusters for Data Streams), a generalization of Extensible Markov Model (EMM). TRACDS adds a temporal or order model to data stream clustering by superimposing a dynamically adapting Markov Chain. Also provides an implementation of EMM (TRACDS on top of tNN data stream clustering). Development of this package was supported in part by NSF IIS-0948893 and R21HG005912 from the National Human Genome Research Institute. Hahsler and Dunham (2010) . Package: r-cran-remmy Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 403 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-curl, r-cran-httr2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-remmy_0.1.0-1.ca2004.1_all.deb Size: 342972 MD5sum: bb7f6357de3c4599e89f1d6890171b77 SHA1: 892c5d2e1ef3219e3d105463dfc8e3ac23ae07c5 SHA256: dc2d346726d3c8beaec0aa35b94bb106de8a64964e492e9076d2597fc4e255d7 SHA512: 73736008e044d80fbee8ddbe5c9569526a85f43dfcc4cdd5d192cd0becf5ef1dcd32836fb4011d10647ffda13660e4144ad11b48454f74651b30fb4211300ade Homepage: https://cran.r-project.org/package=remmy Description: CRAN Package 'remmy' (API Client for 'Lemmy') An HTTP API client for 'Lemmy' () in R. Code and documentation are generated from the official 'JavaScript' client source (). Package: r-cran-remoter Architecture: all Version: 0.4-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 677 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pbdzmq, r-cran-getpass, r-cran-argon2, r-cran-png Suggests: r-cran-sodium Filename: pool/dists/focal/main/r-cran-remoter_0.4-0-1.ca2004.1_all.deb Size: 598516 MD5sum: 350a403618b46ec3a9626cb2aea538ed SHA1: fe507a5fdfbcdb5e3a5183d31ee41823eb714bac SHA256: 9cd0c4d71d82e14facce9b297321bd2106419ecb42a1e5c9845ab12f6750a598 SHA512: 5d36bfeb4e2d01e81574d0b75a834ffd6b8b4c2d53bb3e0a73a8f8f6eba13d4d6d34128978fdf56b418ae481392800526a16cbf05b689da80286b0c0223aedfc Homepage: https://cran.r-project.org/package=remoter Description: CRAN Package 'remoter' (Remote R: Control a Remote R Session from a Local One) A set of utilities for client/server computing with R, controlling a remote R session (the server) from a local one (the client). Simply set up a server (see package vignette for more details) and connect to it from your local R session ('RStudio', terminal, etc). The client/server framework is a custom 'REPL' and runs entirely in your R session without the need for installing a custom environment on your system. Network communication is handled by the 'ZeroMQ' library by way of the 'pbdZMQ' package. 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This package provides the 'install_*' functions in 'devtools'. Indeed most of the code was copied over from 'devtools'. Package: r-cran-rempsyc Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3688 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rlang, r-cran-dplyr Suggests: r-cran-flextable, r-cran-ggplot2, r-cran-effectsize, r-cran-performance, r-cran-insight, r-cran-correlation, r-cran-datawizard, r-cran-report, r-cran-modelbased, r-cran-see, r-cran-lmtest, r-cran-ggrepel, r-cran-boot, r-cran-bootes, r-cran-ggsignif, r-cran-qqplotr, r-cran-broom, r-cran-emmeans, r-cran-ggpubr, r-cran-interactions, r-cran-openxlsx2, r-cran-patchwork, r-cran-psych, r-cran-venndiagram, r-cran-rmisc, r-cran-tidyr, r-cran-testthat, r-cran-knitr, r-cran-markdown, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rempsyc_0.1.9-1.ca2004.1_all.deb Size: 2143192 MD5sum: 59ba950462e469f0bfb276d2ad685c45 SHA1: b4ede5bfaaa3d44b61598418c6c2cc224023e9db SHA256: 1ccb1c4f9f495c113915890bfaeb3cd0c723e38c8968f1b55a8439953b8619b4 SHA512: 400fa905ddb23e40d6ab8eac1ae34b6528f2e7f363a44e8ecf862487501aa6315904073ca47efcc2accb3fec590a88dec3d5b28be25274d4b2aa76d69a2e358a Homepage: https://cran.r-project.org/package=rempsyc Description: CRAN Package 'rempsyc' (Convenience Functions for Psychology) Make your workflow faster and easier. Easily customizable plots (via 'ggplot2'), nice APA tables (following the style of the *American Psychological Association*) exportable to Word (via 'flextable'), easily run statistical tests or check assumptions, and automatize various other tasks. Package: r-cran-remss Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-remss_1.0.1-1.ca2004.1_all.deb Size: 71220 MD5sum: 698a8119f70f7d73474fd3e4c308d636 SHA1: 6d7259934c1eaa37a5d9330590271c6e236b1723 SHA256: d9e2929822d45521a21c3d8c44cec89b618fa65b01663566c76594b9e3780239 SHA512: befb9d8a71501eef648e1e0277d640dd29ece8f6691691297f3df215f1a5eb90578ce39d2529eb86f05e16508d5b9e2ecb82565a828aed7e1d5cc2fc3f033da0 Homepage: https://cran.r-project.org/package=remss Description: CRAN Package 'remss' (Refining Evaluation Methodology on Stage System) T (extent of the primary tumor), N (absence or presence and extent of regional lymph node metastasis) and M (absence or presence of distant metastasis) are three components to describe the anatomical tumor extent. TNM stage is important in treatment decision-making and outcome predicting. The existing oropharyngeal Cancer (OPC) TNM stages have not made distinction of the two sub sites of Human papillomavirus positive (HPV+) and Human papillomavirus negative (HPV-) diseases. We developed novel criteria to assess performance of the TNM stage grouping schemes based on parametric modeling adjusting on important clinical factors. These criteria evaluate the TNM stage grouping scheme in five different measures: hazard consistency, hazard discrimination, explained variation, likelihood difference, and balance. The methods are described in Xu, W., et al. (2015) . Package: r-cran-ren Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2038 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lubridate, r-cran-glmnet, r-cran-quadprog, r-cran-doparallel, r-cran-matrix, r-cran-tictoc, r-cran-corpcor, r-cran-ggplot2, r-cran-reshape2, r-cran-foreach Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-kernsmooth, r-cran-cluster, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ren_0.1.0-1.ca2004.1_all.deb Size: 1731112 MD5sum: ad467a27bd2286afe5a55370356e7af6 SHA1: 209d102acf963d5ddbf883a9bf7ee7f7882bc738 SHA256: cec0c50cfad623b5d77d0a83ae1075a5ea26f5d3858ece85f1504ca91a1d01ed SHA512: fd263f9add09a0222b209e77c45c8108e5d8fc17862be9e60e21d3a581cf1285488ab328306bfb9660469dc61406fd6f4ec325cdcbe3a7d4286af29358029f85 Homepage: https://cran.r-project.org/package=REN Description: CRAN Package 'REN' (Regularization Ensemble for Robust Portfolio Optimization) Portfolio optimization is achieved through a combination of regularization techniques and ensemble methods that are designed to generate stable out-of-sample return predictions, particularly in the presence of strong correlations among assets. 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Based on the book by Rencher and Christensen (2012, ISBN:9780470178966). Package: r-cran-renderthis Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1065 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cli, r-cran-digest, r-cran-fs, r-cran-jsonlite, r-cran-magick, r-cran-pagedown, r-cran-progress, r-cran-quarto, r-cran-rmarkdown, r-cran-withr, r-cran-xaringan, r-cran-zip Suggests: r-cran-av, r-cran-chromote, r-cran-knitr, r-cran-lifecycle, r-cran-officer, r-cran-pdftools, r-cran-testthat, r-cran-webshot2 Filename: pool/dists/focal/main/r-cran-renderthis_0.2.0-1.ca2004.1_all.deb Size: 840924 MD5sum: d8147c587313ce97309b1a45fb2e03dd SHA1: eb72b960e52b6c552fcef6c921de92a22229066e SHA256: 28f297fc9c70b8484b4989eace137063b5a5f502167af7fb76a71eacb75fb702 SHA512: 6edf402ea1f4a2ff3c6d3ba185664391f4cc9bb69778fd0bbf1f19988c6d3db4b6f2688448cdb85af569b15c3212108d586c289243fc0366209077a1b9bf5f78 Homepage: https://cran.r-project.org/package=renderthis Description: CRAN Package 'renderthis' (Render Slides to Different Formats) Render slides to different formats, including 'html', 'pdf', 'png', 'gif', 'pptx', and 'mp4', as well as a 'social' output, a 'png' of the first slide re-sized for sharing on social media. Package: r-cran-renext Architecture: all Version: 3.1-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1995 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-evd, r-cran-numderiv Suggests: r-cran-mass, r-cran-ismev, r-cran-xml Filename: pool/dists/focal/main/r-cran-renext_3.1-4-1.ca2004.1_all.deb Size: 1885180 MD5sum: 683ad7796ed48d06451aacc436cf4bb3 SHA1: 90d69aefc3f7fcf7e6254be16265d218ba24ed6d SHA256: 92c5ca69ea1ceeedf2dff3999988162dd5fde8f6234a16ce0222b98b0726a8c9 SHA512: 132526754e752e5890e5fe02032954180405c744dd74b381169d40c9c6fae15eec58b8fa33ebf6f900203256d528e765e036c0b6a96b2e3d88967bf0b55b36f7 Homepage: https://cran.r-project.org/package=Renext Description: CRAN Package 'Renext' (Renewal Method for Extreme Values Extrapolation) Peaks Over Threshold (POT) or 'methode du renouvellement'. The distribution for the excesses can be chosen, and heterogeneous data (including historical data or block data) can be used in a Maximum-Likelihood framework. Package: r-cran-renpow Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3269 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-renpow_0.1-1-1.ca2004.1_all.deb Size: 1851952 MD5sum: 7625bf7db1581dbfd7ccd954f296e0c1 SHA1: a48677495fe561fbab7c4c7b1c6bc09599babc5f SHA256: b6c45d9de02efa7bac38ee28a4b447b80e6947324fa9b867908309237765d0a8 SHA512: 0441588066ddd60970da818c57518f252318bee975998a1ea22e70ef6ee183f8e51744617a520e2afd87660050f5a2f764403448864bc321e1b090b2fbbabdb9 Homepage: https://cran.r-project.org/package=renpow Description: CRAN Package 'renpow' (Renewable Power Systems and the Environment) Supports calculations and visualization for renewable power systems and the environment. Analysis and graphical tools for DC and AC circuits and their use in electric power systems. Analysis and graphical tools for thermodynamic cycles and heat engines, supporting efficiency calculations in coal-fired power plants, gas-fired power plants. Calculations of carbon emissions and atmospheric CO2 dynamics. Analysis of power flow and demand for the grid, as well as power models for microgrids and off-grid systems. Provides resource and power generation for hydro power, wind power, and solar power. Package: r-cran-rentrez Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 237 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-xml, r-cran-httr, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rentrez_1.2.4-1.ca2004.1_all.deb Size: 120796 MD5sum: 24d9feedb55dcbb5cb851103511d6379 SHA1: 35d119a447173e93e64931570a7b5eeaff134913 SHA256: e90e05f1d025d26cf746ee74853eb3b76e67faa4adf519bdb0d13ae3981c5fed SHA512: 7c84149e7290c3fe4969a265c3e8575561d33a83721d762cec94b8c37a16a82bcf8a8d1b7638bd361b86a5b739b2ed1da7f054297f4ff7bf69a4640b7970adab Homepage: https://cran.r-project.org/package=rentrez Description: CRAN Package 'rentrez' ('Entrez' in R) Provides an R interface to the NCBI's 'EUtils' API, allowing users to search databases like 'GenBank' and 'PubMed' , process the results of those searches and pull data into their R sessions. 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Package: r-cran-renvlp Architecture: all Version: 3.4.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 876 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rsolnp, r-cran-orthogonalsplinebasis, r-cran-pls, r-cran-matrixcalc, r-cran-matrix Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-renvlp_3.4.5-1.ca2004.1_all.deb Size: 802008 MD5sum: 1f9d95ad25180a085ebb3367089d4c0c SHA1: 5539ebc97311ac5857fb983ef8ea4009fb2d2185 SHA256: 70e94b22b7e7702749ed6e76cbb973fea821853e1ec8db1f785759fc134fd074 SHA512: db3deebcab963e5506aaa1755760392d9bfa6a7d37a87ebac9924f5c3296a90add60316bb2d02c3147a31cedf6ffcd383f2e8b91b9a7bfcc30cd399534dea51f Homepage: https://cran.r-project.org/package=Renvlp Description: CRAN Package 'Renvlp' (Computing Envelope Estimators) Provides a general routine, envMU, which allows estimation of the M envelope of span(U) given root n consistent estimators of M and U. The routine envMU does not presume a model. This package implements response envelopes, partial response envelopes, envelopes in the predictor space, heteroscedastic envelopes, simultaneous envelopes, scaled response envelopes, scaled envelopes in the predictor space, groupwise envelopes, weighted envelopes, envelopes in logistic regression, envelopes in Poisson regression envelopes in function-on-function linear regression, envelope-based Partial Partial Least Squares, envelopes with non-constant error covariance, envelopes with t-distributed errors, reduced rank envelopes and reduced rank envelopes with non-constant error covariance. For each of these model-based routines the package provides inference tools including bootstrap, cross validation, estimation and prediction, hypothesis testing on coefficients are included except for weighted envelopes. Tools for selection of dimension include AIC, BIC and likelihood ratio testing. Background is available at Cook, R. D., Forzani, L. and Su, Z. (2016) . 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"bash -l") will be used to initialize the current session. The module function can also; load or unload specific software, list all the loaded software within the current session, and list all the applications available for loading from the module system. Lastly, the module function can remove all loaded software from the current session. 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Beside the classical linearization methods (Lineweaver-Burk, Eadie-Hofstee, Hanes-Woolf and Eisenthal-Cornish-Bowden), features include the ability to carry out weighted regression analysis that, in most cases, substantially improves the estimation of kinetic parameters (Aledo (2021) ). To avoid data transformation and the potential biases introduced by them, the package also offers functions to directly fitting data to the Michaelis-Menten equation, either using ([S], v) or (time, [S]) data. Utilities to simulate substrate progress-curves (making use of the Lambert W function) are also provided. The package is accompanied of vignettes that aim to orientate the user in the choice of the most suitable method to estimate the kinetic parameter of an Michaelian enzyme. Package: r-cran-repairdata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1309 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-repairdata_0.1.0-1.ca2004.1_all.deb Size: 1228240 MD5sum: ea1b371d21be45297a00ad30dd396100 SHA1: 04dda6924f5c5e162c8ef484b2b74dd5b814be11 SHA256: 8121a2e2e1a862edf971d5740b9a93e7953d4b16ec97d37e4a232a8160ba6b43 SHA512: b12cb058657cbfa84ce135e6181fe4c1e204379d6525e885621563e12e6e664600546374fe31f4f9aad47353b7e952be11c66fa31c4c5543fccbffe1fd5e0525 Homepage: https://cran.r-project.org/package=repairData Description: CRAN Package 'repairData' (Open Repair Alliance Datasets 2021) The complete data set of open repair data, full compliant with the Open Repair Data Standards (ORDS). It combines the datasets contributed by partner organizations of the Open Repair Alliance (ORA). Last updated: 2021-02-22. The package also contains via quests enriched datasets on batteries, printer, mobiles, and tablets. 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Package: r-cran-repertoir Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-circlize, r-cran-igraph, r-cran-reshape2, r-cran-stringdist, r-cran-stringi, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-repertoir_0.0.1-1.ca2004.1_all.deb Size: 50648 MD5sum: 9525a95d00b66faec17a47cb1916e0e2 SHA1: ab446186879554d3be0f328e4c29e6e43de13336 SHA256: 0ab1d8a8fa9d09e4d78e188c95819e8f12e568244a94c07d6b2929282e879d11 SHA512: aaa71d48e7f9c4d4755c1566f1b6bb98c5bd2645aac5190389badc7fc725ce14a41224246e05569bdf47624adab2dfab132b696153ad9fe37e52c0cfc4b25a2d Homepage: https://cran.r-project.org/package=RepertoiR Description: CRAN Package 'RepertoiR' (Repertoire Graphical Visualization) Visualization platform for T cell receptor repertoire analysis output results. It includes comparison of sequence frequency among samples, network of similar sequences and convergent recombination source between species. Currently repertoire analysis is in early stage of development and requires new approaches for repertoire data examination and assessment as we intend to develop. No publication is available yet (will be available in the near future), Efroni (2021) . 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Package: r-cran-replesentr Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-modules, r-cran-dat, r-cran-knitr Suggests: r-cran-testthat, r-cran-covr, r-cran-txtplot Filename: pool/dists/focal/main/r-cran-replesentr_0.4.1-1.ca2004.1_all.deb Size: 34716 MD5sum: 7d0d4c8702b8705ea1f47aaca9e9c980 SHA1: dd3fe8c054302c1d057f3803b5ada004e01bb922 SHA256: 720ae6c3c867b316f34c350c6bf0340648b786a4440592e5143f146b5c4d30e8 SHA512: f86b70d59f003a043b9397cd18a7eb286dc9c0a5a16032365ec5afe233266ca2695222d51f9a1798b2e856d891ece1efc11c7c7bc3eed2c5b9d03ff3ff638708 Homepage: https://cran.r-project.org/package=REPLesentR Description: CRAN Package 'REPLesentR' (Presentations in the REPL) Create presentations and display them inside the R 'REPL' (Read-Eval-Print loop), aka the R console. Presentations can be written in 'RMarkdown' or any other text format. 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Package: r-cran-replicate Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-metafor, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-replicate_1.2.0-1.ca2004.1_all.deb Size: 35952 MD5sum: 29744b81d6975d7ad34710dac31992c7 SHA1: 69d3b066ff4110724e89f64627a1c6afa516e814 SHA256: 8130c378cafa217241e982c42c1b2510708d71aa103d8c301856c101e4696f03 SHA512: 1dff76fbffd2848b2d968de9b65262b252d5bcd55871465d312973434897c19241f89868bf43240cb35d9faa4d7a994aad28c21fabc75b5ec8908218e65e04b0 Homepage: https://cran.r-project.org/package=Replicate Description: CRAN Package 'Replicate' (Statistical Metrics for Multisite Replication Studies) For a multisite replication project, computes the consistency metric P_orig, which is the probability that the original study would observe an estimated effect size as extreme or more extreme than it actually did, if in fact the original study were statistically consistent with the replications. Other recommended metrics are: (1) the probability of a true effect of scientifically meaningful size in the same direction as the estimate the original study; and (2) the probability of a true effect of meaningful size in the direction opposite the original study's estimate. These two can be computed using the package \code{MetaUtility::prop_stronger}. Additionally computes older metrics used in replication projects (namely expected agreement in "statistical significance" between an original study and replication studies as well as prediction intervals for the replication estimates). See Mathur and VanderWeele (under review; ) for details. Package: r-cran-replicatebe Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 819 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-readxl, r-cran-powertost, r-cran-lmertest, r-cran-nlme, r-cran-pbkrtest Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-devtools Filename: pool/dists/focal/main/r-cran-replicatebe_1.1.3-1.ca2004.1_all.deb Size: 452592 MD5sum: 150480f6a988ae15df4e2c523a7645c3 SHA1: 94ed9052356795c25b132ee669e1cbb5e47f203c SHA256: f21d53ec39ec39aa9643ca96965a967fb036b8c859f31289ea5295e4e7076c70 SHA512: d87fb0f1980963d056e148836a1bee7b750a7f87fad42b2c140c8d5ad6a74ff4fce7bd4eec2269d46af9c299f221a7b1de34d00dbfd2d676b28041abf0b6cbd2 Homepage: https://cran.r-project.org/package=replicateBE Description: CRAN Package 'replicateBE' (Average Bioequivalence with Expanding Limits (ABEL)) Performs comparative bioavailability calculations for Average Bioequivalence with Expanding Limits (ABEL). Implemented are 'Method A' / 'Method B' and the detection of outliers. If the design allows, assessment of the empiric Type I Error and iteratively adjusting alpha to control the consumer risk. Average Bioequivalence - optionally with a tighter (narrow therapeutic index drugs) or wider acceptance range (South Africa: Cmax) - is implemented as well. Package: r-cran-replicatedpp2w Architecture: all Version: 0.1-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spatstat, r-cran-spatstat.geom, r-cran-spatstat.explore, r-cran-spatstat.utils Filename: pool/dists/focal/main/r-cran-replicatedpp2w_0.1-6-1.ca2004.1_all.deb Size: 94252 MD5sum: 8d7a9a81259ce8c8f20a053776b3667c SHA1: aee6e404802e0a72d6f2471205351e1559628d1a SHA256: 625908e32c64a6158f9cd179a9bc5bcab462b45550d4e6fe9e30dcbe5111f507 SHA512: 1f05650cf5ddcc52b5945f20538c34fe7301c8c427642e6dd8689dd246363fdbb794752d2a6b8fd335e41e0d1f6069285ebfd0324e1de435742c707edc2e00f1 Homepage: https://cran.r-project.org/package=replicatedpp2w Description: CRAN Package 'replicatedpp2w' (Two-Way ANOVA-Like Method to Analyze Replicated Point Patterns) Test for effects of both individual factors and their interaction on replicated spatial patterns in a two factorial design, as explained in Ramon et al. (2016) . Package: r-cran-replication Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lavaan, r-cran-blavaan, r-cran-mice, r-cran-quadprog, r-cran-mass, r-cran-runjags, r-cran-rjags Filename: pool/dists/focal/main/r-cran-replication_0.1.2-1.ca2004.1_all.deb Size: 95744 MD5sum: 2fca183dd86d47e6c54fde6b42f84c37 SHA1: 692f8c3f962f5ab9aaf204f887de965831402e85 SHA256: 853d53d931194a35bb08cb5446d0e8dfc8b8fffde3d035c8182a90b1e20b0d6a SHA512: 15a23aa40e3d219dd4bbb0ad810367f23ad19259785497a1211c42f48186cc85cd98182c5b09edb8505a643b313c3c0d8e056748d33831c716da8f21e797160b Homepage: https://cran.r-project.org/package=Replication Description: CRAN Package 'Replication' (Test Replications by Means of the Prior Predictive p-Value) Allows for the computation of a prior predictive p-value to test replication of relevant features of original studies. 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One solution to this problem is to examine the effect size from the original study and generate the range of effect sizes that could reasonably be obtained (due to random sampling) in a replication attempt (i.e., calculate a replication interval). If a replication effect size falls outside the replication interval, then that effect likely did not occur due to the effects of sampling error alone. Alternatively, if a replication effect size falls within the replication interval, then the replication effect could have reasonably occurred due to the effects of sampling error alone. This package has functions that calculate the replication interval for the correlation (i.e., r), standardized mean difference (i.e., d-value), and mean. The calculations used in version 2.0.0 and onward differ from past calculations due to feedback during the journal review process. The new calculations allow for a more precise interpretation of the replication interval. 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Features both traditional methods based on statistical significance and more recent methods such as the sceptical p-value; Held L. (2020) , Held et al. (2022) , Micheloud et al. (2023) . Also provides related methods including the harmonic mean chi-squared test; Held, L. (2020) , and intrinsic credibility; Held, L. (2019) . Contains datasets from five large-scale replication projects. 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Larabi Marie-Sainte and is included in the package. 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Package: r-cran-represent Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-represent_1.0.1-1.ca2004.1_all.deb Size: 47524 MD5sum: c60b152f560a23636db35d55142e703d SHA1: cfc88fc66b67fe8f06b2d638999858853db7b9ed SHA256: 5c3e8b7b941341233ac1720778f85622fa07b3b10335e27cf496488fd6eeae32 SHA512: 31130290372b3c4b142e01573b35c78fbe3b2108d44a55a531da45116fbdf16b4f730e97f6278328e9af43af4dda9f9aeaaff253b554b40d401d590016a795ad Homepage: https://cran.r-project.org/package=represent Description: CRAN Package 'represent' (Determine How Representative Two Multidimensional Data Sets are) Compute the values of various parameters evaluating how similar two multidimensional datasets' structures are in multidimensional space, as described in: Jouan-Rimbaud, D., Massart, D. L., Saby, C. A., Puel, C. (1998), . 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Functions will create appropriate modules which may pass data from one step to another. 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The goal is to encourage the sharing of small, reproducible, and runnable examples on code-oriented websites, such as and , or in email. The user's clipboard is the default source of input code and the default target for rendered output. 'reprex' also extracts clean, runnable R code from various common formats, such as copy/paste from an R session. 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The two workhorse functions are Cache() and prepInputs(). Cache() allows for nested caching, is robust to environments and objects with environments (like functions), and deals with some classes of file-backed R objects e.g., from terra and raster packages. Both functions have been developed to be foundational components of data retrieval and processing in continuous workflow situations. In both functions, efforts are made to make the first and subsequent calls of functions have the same result, but faster at subsequent times by way of checksums and digesting. Several features are still under development, including cloud storage of cached objects allowing for sharing between users. Several advanced options are available, see ?reproducibleOptions(). 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See for more information. Package: r-cran-repurrrsive Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2771 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-tibble Suggests: r-cran-jsonlite, r-cran-testthat, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-repurrrsive_1.1.0-1.ca2004.1_all.deb Size: 385768 MD5sum: bde6273b2a234dca39272918f844e00d SHA1: e7850f91128e5923fa83a1607daded95e813b24e SHA256: 793d23d3fed141e6bc2378243922226d0ae136c14ff75dfc3f95705f3d7bf56f SHA512: c3e10eef950a473d3a08ac242db5f7deb75012befb52eed6da6d9f7c0b76141c7d9c8a064839be75ab93d6880588485037e6df83054ca43b9dcd49c34eec9fd3 Homepage: https://cran.r-project.org/package=repurrrsive Description: CRAN Package 'repurrrsive' (Examples of Recursive Lists and Nested or Split Data Frames) Recursive lists in the form of R objects, 'JSON', and 'XML', for use in teaching and examples. 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Package: r-cran-reservoirnet Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 629 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-reticulate, r-cran-testthat, r-cran-rlang, r-cran-ggplot2, r-cran-ggpubr, r-cran-janitor, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-covr, r-cran-kableextra, r-cran-slider, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-reservoirnet_0.3.0-1.ca2004.1_all.deb Size: 345964 MD5sum: dd7d892c3ffc4a004a217133dec914f2 SHA1: 62e27e5327f784001117712f756c1e6adcb8e6ad SHA256: a092e2837ba71d494321290a302fff6d22a96af1595ce82535036a93ec3c5628 SHA512: 4e5baa1f89f5b30d722e9e5dd0145754bf753aa06246db786e392ee43dd085fdf6a035e2cc57b9bf61d7ac4fd682413eb271b2225bcf644039ab51c7bd01158c Homepage: https://cran.r-project.org/package=reservoirnet Description: CRAN Package 'reservoirnet' (Reservoir Computing and Echo State Networks) A simple user-friendly library based on the 'python' module 'reservoirpy'. It provides a flexible interface to implement efficient Reservoir Computing (RC) architectures with a particular focus on Echo State Networks (ESN). Some of its features are: offline and online training, parallel implementation, sparse matrix computation, fast spectral initialization, advanced learning rules (e.g. Intrinsic Plasticity) etc. It also makes possible to easily create complex architectures with multiple reservoirs (e.g. deep reservoirs), readouts, and complex feedback loops. Moreover, graphical tools are included to easily explore hyperparameters. Finally, it includes several tutorials exploring time series forecasting, classification and hyperparameter tuning. For more information about 'reservoirpy', please see Trouvain et al. (2020) . This package was developed in the framework of the University of Bordeaux’s IdEx "Investments for the Future" program / RRI PHDS. 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Robert (2023) "Reconstruction Set Test (RESET): a computationally efficient method for single sample gene set testing based on randomized reduced rank reconstruction error" . Package: r-cran-reshape Architecture: all Version: 0.8.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 207 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-plyr Filename: pool/dists/focal/main/r-cran-reshape_0.8.10-1.ca2004.1_all.deb Size: 168340 MD5sum: e9a0e406de80e0277df2a0231203eb3f SHA1: 94d9a237856a591099ce34e5ec19a8832c712187 SHA256: 6b80415cd38fefc89ae56f6be9dada8b36e72badfc7aac46029e7c859c5c4029 SHA512: 1e87869414f13becc67f97f4ab2618d3060e55088e39f4b653695092db73b1fdfec6306a45bc23c51d1780f325432a6b733d845bb2adce2b5967dbb352b2872e Homepage: https://cran.r-project.org/package=reshape Description: CRAN Package 'reshape' (Flexibly Reshape Data) Flexibly restructure and aggregate data using just two functions: melt and cast. 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The index is introduced in Vandekar, Tao, & Blume (2020, ). Software paper available at . 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With functionality to export and import marginal distributions as well as synthesise data, both with and without correlations from these marginal distributions. Using a multivariate cumulative distribution (COPULA). Additionally the International Stroke Trial (IST) is included as an example dataset under ODC-By licence Sandercock et al. (2011) , Sandercock et al. (2011) . 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Details regarding each statistical models; linear regression (Ashe et al 2019) , change point models (Cahill et al 2015) , integrated Gaussian process models (Cahill et al 2015) , temporal splines (Upton et al 2023) , spatio-temporal splines (Upton et al 2023) and generalised additive models (Upton et al 2023) . This package facilitates data loading, model fitting and result summarisation. Notably, it accommodates the inherent measurement errors found in relative sea-level data across multiple dimensions, allowing for their inclusion in the statistical models. Package: r-cran-resmush Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 944 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-httr2 Suggests: r-cran-knitr, r-cran-png, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-resmush_0.2.1-1.ca2004.1_all.deb Size: 794456 MD5sum: 591de5d161fcfb35e5b72d033c7900f5 SHA1: 9b591e844f33d8f4b4aa4baa6d4cfe040542ad05 SHA256: 4d515dd239d7f4e22802e0ca60194512dcba5c0aca2777683f4c6cafe3a0d014 SHA512: fb6065f095ae1a2b26275a41e1d4af0885c6be0762ae0d2edf9893ee06a3e473135edaedd9f6e90b2d6a52fc41d7154f546ff49ddf732c0244f35b3cf3838c73 Homepage: https://cran.r-project.org/package=resmush Description: CRAN Package 'resmush' (Optimize and Compress Image Files with 'reSmush.it') Compress local and online images using the 'reSmush.it' API service . 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In the class of resolvable designs, affine resolvable designs are said to be optimal, Bailey (1995) . Here, the package contains three functions to generate and study the characterization properties of these designs. Developed functions are named as PBIBD1(), PBIBD2() and PBIBD3(), in which first two functions are used to generate two new series of affine resolvable PBIBDs and last one is used to generate a new series of resolvable PBIBDs, respectively. In addition, these functions can also be used to generate design parameters (v, b, r and k), canonical efficiency factors, variance factor between associates and average variance factors of the generated designs. Here v is the number of treatments, b (= b1 + b2, in case of non-proper design) is the number of blocks, r is the number of replications and k (= k1 + k2; k1 is the size of b1 and k2 is the size of b2) is the block size. 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Strong emphasis is on aquatic respirometry. Tools focus on helping the researcher setup and conduct experiments. Functions for analysis of resulting respirometry data are also provided. This package provides tools for intermittent, flow-through, and closed respirometry techniques. Package: r-cran-responsepatterns Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-magrittr Filename: pool/dists/focal/main/r-cran-responsepatterns_0.1.1-1.ca2004.1_all.deb Size: 110536 MD5sum: 871f2679f1134671e885c0655216ab88 SHA1: 78da3e468bdfc0ef0dc20d944d303f9d4e3b04cc SHA256: 9cf446829386c47c0c060b90a04209a73f03159718cb1bc6bd9f48b403900aff SHA512: b268fc354d0dc4770719c99b0ad20fb8a0c6430b69d6a8ddd2a8d6f5e227abf2458699d42357f56974403eb5446ccb61e65c4de6f3fa4f84b748ceaaead9b903 Homepage: https://cran.r-project.org/package=responsePatterns Description: CRAN Package 'responsePatterns' (Screening for Careless Responding Patterns) Some survey participants tend to respond carelessly which complicates data analysis. This package provides functions that make it easier to explore responses and identify those that may be problematic. See Gottfried et al. (2022) for more information. Package: r-cran-respr Architecture: all Version: 2.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2542 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-glue, r-cran-lubridate, r-cran-magrittr, r-cran-marelac, r-cran-purrr, r-cran-roll, r-cran-segmented, r-cran-stringr, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rmr, r-cran-fishresp, r-cran-respirometry, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-respr_2.3.3-1.ca2004.1_all.deb Size: 2106128 MD5sum: 6cea02c3e9cae69ac4041d817f7a79fd SHA1: 8da4b073bb27fce728106ee16e09c914aca9bb5e SHA256: 0932c7acc9ac070018bb8580e6737d212f01f27225b5f79b98c911150a41a96a SHA512: ebaa6f17b8e1bf6e2673ffd37653f6412770073451972661cc1b4afae1a693893bc9d5c9c6faaf99103ea36b5995fc3c8e83b2cbd2ba3327575dba685095d9c2 Homepage: https://cran.r-project.org/package=respR Description: CRAN Package 'respR' (Import, Process, Analyse, and Calculate Rates from RespirometryData) Provides a structural, reproducible workflow for the processing and analysis of respirometry data. It contains analytical functions and utilities for working with oxygen time-series to determine respiration or oxygen production rates, and to make it easier to report and share analyses. See Harianto et al. 2019 . Package: r-cran-resquin Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 291 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-purrr, r-cran-rlang, r-cran-slider, r-cran-stringi, r-cran-tibble, r-cran-vctrs Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-resquin_0.1.1-1.ca2004.1_all.deb Size: 136860 MD5sum: 6a221edcef5912f092ef214cab8f143b SHA1: c1712a87aec235597b541fa668c75cb60748adf5 SHA256: ce1ac142fc611fdd771e5fb143b7381790f9eeb2d8997745f948c16aba7ead0f SHA512: 50035c1555e28991a1680567d5f0b3e3b6ccee0b711c0b324ea2bdc06fdab42fb7a3efa7344fc7d807575e4c5ba902ed688acc82af97be8d428e296c6223efea Homepage: https://cran.r-project.org/package=resquin Description: CRAN Package 'resquin' (Response Quality Indicators for Survey Research) Calculate common survey data quality indicators for multi-item scales and matrix questions. Currently supports the calculation of response style indicators and response distribution indicators. For an overview on response quality indicators see Bhaktha N, Henning S, Clemens L (2024). 'Characterizing response quality in surveys with multi-item scales: A unified framework' . Package: r-cran-ress Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ress_1.3-1.ca2004.1_all.deb Size: 39596 MD5sum: 3732ae7464c55b912b49edd8a9d7471c SHA1: d9b0f37b41481ce00292f026290c9f939eaa4e34 SHA256: 4f388dda27d84e58f038c2dba7b04e8badbb6c05a31033465582a5f2350c467f SHA512: 4da9365756c29eb0ff1de6f3ea6856c6c2647040ec1de99b9f1c0de155732a3ca0e36b5ba5f11cf6f78c7f643b4f3f5ccd3b585ef1f169359c357d48c6a525ad Homepage: https://cran.r-project.org/package=RESS Description: CRAN Package 'RESS' (Integrates R and Essentia) Contains three functions that query AuriQ Systems' Essentia Database and return the results in R. 'essQuery' takes a single Essentia command and captures the output in R, where you can save the output to a dataframe or stream it directly into additional analysis. 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Package: r-cran-rest Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 850 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcmdr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-rest_1.0.1-1.ca2004.1_all.deb Size: 734260 MD5sum: fa5dcbd5d3e3d7a994e8350abe7fb2b9 SHA1: 5db6bd9ce2f21151b85a493f9ce149522d98d965 SHA256: 8a76f177f06f057b839632230741cc20fe449505e06254aa7b550e0debe26259 SHA512: 6ce81fc1ad5f0ce75e3edc5d66a47fc1969d9a52d3a0b49213085139ceac9f69479f433c43984fcb88c3e3f4c351b60d572fd4f877989ceb5550c3d33f166116 Homepage: https://cran.r-project.org/package=REST Description: CRAN Package 'REST' (RcmdrPlugin Easy Script Templates) Contains easy scripts which can be used to quickly create GUI windows for 'Rcmdr' Plugins. No knowledge about Tcl/Tk is required to make use of these scripts (These scripts are a generalisation of the template scripts in the 'RcmdrPlugin.BiclustGUI' package). Package: r-cran-restatapi Architecture: all Version: 0.24.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 325 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-rjson, r-cran-xml2 Suggests: r-cran-chron, r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest, r-cran-remotes Filename: pool/dists/focal/main/r-cran-restatapi_0.24.2-1.ca2004.1_all.deb Size: 230680 MD5sum: 9c422e82506506ce7a5651451aaaa24e SHA1: c354020742033c8e2dd562ab489fa5043dc63fcb SHA256: 058ca66d4c4b7168d794bba20bcfe8931baaa40ff25ee3dc28d656b9ade5c0d6 SHA512: cec3a0bd2315d2c86028874fc52d82ec4c0afff02ee003357eab2fc699a82ddaca79f69fcb115b13b497ce0045dfce51f2649e8afd1ab5130dcca1b938025914 Homepage: https://cran.r-project.org/package=restatapi Description: CRAN Package 'restatapi' (Search and Retrieve Data from Eurostat Database) Eurostat is the statistical office of the European Union and provides high quality statistics for Europe. 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Package: r-cran-restatis Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 651 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-askpass, r-cran-httr2, r-cran-memoise, r-cran-readr, r-cran-tibble, r-cran-vctrs, r-cran-purrr Suggests: r-cran-httptest2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-rvest, r-cran-usethis, r-cran-withr Filename: pool/dists/focal/main/r-cran-restatis_0.3.0-1.ca2004.1_all.deb Size: 513600 MD5sum: 8eb446d205a7e0b5ca016d2420aefb74 SHA1: 8e806e60a5a33a2441e018a2215a48fc9a7f4c8e SHA256: e980fc8ba70625ef470ffa933ad1969a8c96cbdf987cca8c8f177b310aae5d20 SHA512: ab6ce5a9409180814bd810ab0717c149dd4bea4782134dfb1fbb30d0695f91612b333372c02a40a7c681e38d339098bf677335837674f35c70079f8595e55721 Homepage: https://cran.r-project.org/package=restatis Description: CRAN Package 'restatis' (R Wrapper to Access a Wide Range of Germany's FederalStatistical System Databases Based on the GENESIS Web ServiceRESTful API of the German Federal Statistical Office(Statistisches Bundesamt/Destatis)) A RESTful API wrapper for accessing the GENESIS database of the German Federal Statistical Office (Destatis) as well as its Census Database and the database of Germany's regional statistics. Supports data search functions, credential management, result caching, and handling remote background jobs for large datasets. Package: r-cran-restaurant Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-restaurant_0.1.0-1.ca2004.1_all.deb Size: 35268 MD5sum: 522f9a513326e81caef95ccd84c66f21 SHA1: 1dcbfac5eead277a15886296ae39abbd9feb17fd SHA256: 4747ac3af0203c30f5934ee486dbc1b59a0d36099bba9cba707ea67864133e71 SHA512: a5c4454cfd6024d1846c7c32c014abe8444a263de353b2506787e3add641c35daa65ab82c5b7fd02b1b8083528310e15c7cb0e33ab67272d220861c82f5abffe Homepage: https://cran.r-project.org/package=restaurant Description: CRAN Package 'restaurant' (Restaurant Data for Entity Resolution) Duplicated restaurant data (pre-processed and formatted) for entity resolution. 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Package: r-cran-restez Architecture: all Version: 2.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 492 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rentrez, r-cran-dbi, r-cran-curl, r-cran-cli, r-cran-crayon, r-cran-stringi, r-cran-duckdb, r-cran-fs, r-cran-assertthat, r-cran-ape Suggests: r-cran-sessioninfo, r-cran-testthat, r-cran-knitr, r-cran-r.utils, r-cran-rmarkdown, r-cran-mockery Filename: pool/dists/focal/main/r-cran-restez_2.1.5-1.ca2004.1_all.deb Size: 387088 MD5sum: 9fda0a38dc86c6e8545bdde808842fe1 SHA1: dfa65652c8dde4215d4e4099694cc96902c23945 SHA256: 1b8c50eb41282baebfe490383a3bca92d5de787be73e6f20d72f6e2e6a85eb28 SHA512: d3c16c8ab950883509c93931b92985c2a2742c4914750bbeab5649c3872d82d5d33d628c4cc75e618e306a1549a948f755410a1464c6355bae96037383ec7b51 Homepage: https://cran.r-project.org/package=restez Description: CRAN Package 'restez' (Create and Query a Local Copy of 'GenBank' in R) Download large sections of 'GenBank' and generate a local SQL-based database. A user can then query this database using 'restez' functions or through 'rentrez' wrappers. Package: r-cran-restimizeapi Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcurl, r-cran-rjsonio Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-restimizeapi_1.0.0-1.ca2004.1_all.deb Size: 40304 MD5sum: 6a535b46290ae72015848968fc339def SHA1: 1fa55b9b6ca2f8e6a017f1a2ae50d8c86dc314df SHA256: 1bd1bed18d630afaa75dcfaffd5b2dfedcf0be314b3ccac61fb35a0db07f7add SHA512: b06a09519d3492679daf34762b9a6ca896afdd521337b8bd80a98d79841861a1cc2dda0c38c7eca6e9ae8e12ab2688b4747db02232e17c611166311294bd28ff Homepage: https://cran.r-project.org/package=restimizeapi Description: CRAN Package 'restimizeapi' (Functions for Working with the 'www.estimize.com' Web Services) Provides the user with functions to develop their trading strategy, uncover actionable trading ideas, and monitor consensus shifts with crowdsourced earnings and economic estimate data directly from . Further information regarding the web services this package invokes can be found at . Package: r-cran-restk Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-restk_1.0.1-1.ca2004.1_all.deb Size: 32936 MD5sum: 46bcd00c782a87eaee23c073b1a0cab1 SHA1: a86b1301ffdc2c025f9e437b96f7f761a948ed03 SHA256: 4f6ba905ab1a2f2c01df5e6994b223beef1f7a3aa850fbcde9e26849d72b9053 SHA512: 2d99a6bd6a825149863251d4c4d7d2872d301acb8c836eb2fa16053a91e5e8ac2b99419ba48f030048ca00e2cd4f6b1cbd3cc83814315e578313bf54cc629f1e Homepage: https://cran.r-project.org/package=RESTK Description: CRAN Package 'RESTK' (An Implementation of the RESTK Algorithm) Implementation of the RESTK algorithm based on Markov's Inequality from Vilardell, Sergi, Serra, Isabel, Mezzetti, Enrico, Abella, Jaume, Cazorla, Francisco J. and Del Castillo, J. (2022). "Using Markov's Inequality with Power-Of-k Function for Probabilistic WCET Estimation". In 34th Euromicro Conference on Real-Time Systems (ECRTS 2022). Leibniz International Proceedings in Informatics (LIPIcs) 231 20:1-20:24. . This work has been supported by the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 772773). Package: r-cran-restoptr Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5171 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-terra, r-cran-rjava, r-cran-units, r-cran-assertthat, r-cran-magrittr, r-cran-crayon Suggests: r-cran-testthat, r-cran-knitr, r-cran-roxygen2, r-cran-rmarkdown, r-cran-landscapemetrics, r-cran-vegan, r-cran-cluster, r-cran-ggthemes, r-cran-paletteer Filename: pool/dists/focal/main/r-cran-restoptr_1.0.6-1.ca2004.1_all.deb Size: 4067764 MD5sum: e1aa174c892ceaa53065b15c623f76f2 SHA1: e050a0259244d2a10e0ddb81fbfe911bf4edf3b4 SHA256: 65089c0ad8efa80a5581b1800ac6f73d013d2ebf2193044b5aa3285fa1117c79 SHA512: 11a0b3c18f56747c3654ad61806eb40f38ec4179803ea5c364b83765fd47c4416dc1580c954064abb842cc3651d740b39e7785a6cd01ad2d50d39b04dc56dfca Homepage: https://cran.r-project.org/package=restoptr Description: CRAN Package 'restoptr' (Ecological Restoration Planning) Flexible framework for ecological restoration planning. It aims to identify priority areas for restoration efforts using optimization algorithms (based on Justeau-Allaire et al. 2021 ). Priority areas can be identified by maximizing landscape indices, such as the effective mesh size (Jaeger 2000 ), or the integral index of connectivity (Pascual-Hortal & Saura 2006 ). Additionally, constraints can be used to ensure that priority areas exhibit particular characteristics (e.g., ensure that particular places are not selected for restoration, ensure that priority areas form a single contiguous network). Furthermore, multiple near-optimal solutions can be generated to explore multiple options in restoration planning. The package leverages the 'Choco-solver' software to perform optimization using constraint programming (CP) techniques (). Package: r-cran-restorenet Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 595 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix, r-cran-xtable, r-cran-scales, r-cran-stringr, r-cran-ggplot2, r-cran-scatterpie, r-cran-rcolorbrewer Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-restorenet_1.0.1-1.ca2004.1_all.deb Size: 548048 MD5sum: d0617656e3fd946c4e6da4abb28581f0 SHA1: d29d6090707356cffd60e67317e7836e023804fa SHA256: 6d6efb67672770f54d782ff0d751b8e07684b70bb0a211ce102109b14b6293e3 SHA512: 92e9a98209d3a9c30b49c9151ec22e701b50a51097374674742b14808d10589971ee32fd798d5b07408109c8e64dfe4e99c7ca42c2d051d290dbf8d6b00496fe Homepage: https://cran.r-project.org/package=RestoreNet Description: CRAN Package 'RestoreNet' (Random-Effects Stochastic Reaction Networks) A random-effects stochastic model that allows quick detection of clonal dominance events from clonal tracking data collected in gene therapy studies. Starting from the Ito-type equation describing the dynamics of cells duplication, death and differentiation at clonal level, we first considered its local linear approximation as the base model. The parameters of the base model, which are inferred using a maximum likelihood approach, are assumed to be shared across the clones. Although this assumption makes inference easier, in some cases it can be too restrictive and does not take into account possible scenarios of clonal dominance. Therefore we extended the base model by introducing random effects for the clones. In this extended formulation the dynamic parameters are estimated using a tailor-made expectation maximization algorithm. Further details on the methods can be found in L. Del Core et al., (2022) . Package: r-cran-restorepoint Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr Filename: pool/dists/focal/main/r-cran-restorepoint_0.2-1.ca2004.1_all.deb Size: 88080 MD5sum: a84e1d16d0b85d92bcef9ff2d886c322 SHA1: c7b85ae79471e2f8370e4ceb0b74a65a9c03d25b SHA256: c2c8d666e37baae14008c0e43d3a21362dc840e0ae9991ac5231533cad4bf3fd SHA512: 6603a7535d52bf1c3f977cf34528471055d426fd186beca66fb696ed099bee5c6aef10bae252781ce9d004dd355116b1aead87813725e17187cafffa601dc9ba Homepage: https://cran.r-project.org/package=restorepoint Description: CRAN Package 'restorepoint' (Debugging with Restore Points) Debugging with restore points instead of break points. A restore point stores all local variables when called inside a function. The stored values can later be retrieved and evaluated in a modified R console that replicates the function's environment. To debug step by step, one can simply copy & paste the function body from the R script. Particularly convenient in combination with "RStudio". See the "Github" page inst/vignettes for a tutorial. Package: r-cran-restriktor Architecture: all Version: 0.6-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1824 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot, r-cran-lavaan, r-cran-mass, r-cran-mvtnorm, r-cran-tmvtnorm, r-cran-quadprog, r-cran-norm, r-cran-ggplot2, r-cran-future, r-cran-future.apply, r-cran-progressr, r-cran-scales, r-cran-gridextra Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bain, r-cran-testthat Filename: pool/dists/focal/main/r-cran-restriktor_0.6-10-1.ca2004.1_all.deb Size: 1195560 MD5sum: 7916dbaf95219be1022b4ecf45865c78 SHA1: 51607963a07a130f92f6b4d3fe9c427e1548c076 SHA256: adbb782f29a39e5c4af4a91d186d46773fa346b0489dbeff2ff436d519266c2f SHA512: f4044f01f47b0843237e31085489ac9b250841dc8e6d3ab06221f192d6d96b70b06dc683ce13cafc4ff2e43a71d5f43ce5ccc9feed4de7e86eccba95d8a66893 Homepage: https://cran.r-project.org/package=restriktor Description: CRAN Package 'restriktor' (Restricted Statistical Estimation and Inference for LinearModels) Allow for easy-to-use testing or evaluating of linear equality and inequality restrictions about parameters and effects in (generalized) linear statistical models. 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Risky expressions can be wrapped in as_result() and functions wrapped in result() to catch errors and assign the relevant result types. Monadic functions can be bound together as pipelines or transaction scripts using then_try(), to gracefully handle errors at any step. 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'ResultModelManager' provides utility functions to allow package maintainers to migrate existing SQL database models, export and import results in consistent patterns. Package: r-cran-resumer Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-useful, r-cran-dplyr, r-cran-rmarkdown Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-resumer_0.0.5-1.ca2004.1_all.deb Size: 37700 MD5sum: 451712c7eb30387f821d915c961346aa SHA1: 896daa1fc83c47d4b8cd600e403db9f7dde24825 SHA256: 6e8b4d53beefc4f6aff3aac65b84a355c6b8788ba04940c8da5be3f788ec2104 SHA512: fdc8fd23b946c432a01913c194ca57e33adc5048f184f736b8825190bd7c25946efd7f0d919126e9eb7b7a4613348613100f313e4f8fd14c06a3497808b333bb Homepage: https://cran.r-project.org/package=resumer Description: CRAN Package 'resumer' (Build Resumes with R) Using a CSV, LaTeX and R to easily build attractive resumes. 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También permite obtener tablas de frecuencia clásicas y gráficos cuando se desea realizar un análisis de series agrupadas. Su objetivo es de aplicación didáctica para un curso introductorio de Bioestadística utilizando el software R, para las carreras de grado las carreras de grado y otras ofertas educativas de la Facultad de Ciencias Agrarias de la UNJu / It generates summary measures and graphs for discrete or continuous numerical data in simple series. It also enables the creation of classic frequency tables and graphs when analyzing grouped series. Its purpose is for educational application in an introductory Biostatistics course using the R software, aimed at undergraduate programs and other educational offerings of the Faculty of Agricultural Sciences at the National University of Jujuy (UNJu). 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This work was supported by the U.S. National Science Foundation under Grants No. SES-1921523 and DMS-2015552. Package: r-cran-rethinker Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rjson Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rethinker_1.1.0-1.ca2004.1_all.deb Size: 53880 MD5sum: d90f37f33aca6b32c2125df1db87a115 SHA1: 00e12b0a9f036ec7dccdaa9fed0d26c269a22295 SHA256: c960b1b23c4ccc94d7483e4abfe46bd5f499cc37afe8bcfbe13185846a507e08 SHA512: dbb8abff2a51373a85fb47174822a00ca0108a1538f247f3d2e491c75086ad2442871407d8939c59c26a87bdc74702e190b9c13287b174ffd5b3369e27408af0 Homepage: https://cran.r-project.org/package=rethinker Description: CRAN Package 'rethinker' (RethinkDB Client) Simple, native 'RethinkDB' client. 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Design retimings and pitch (f0) transformations with tidy data and apply them via 'Praat' interface. Produce spectrograms, spectra, and amplitude envelopes. Includes implementation of vocalic speech envelope analysis (fft_spectrum) technique and example data (mm1) from Tilsen, S., & Johnson, K. (2008) . 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Hausman, Jeffrey (1978) . Allison, Paul (2009) . Neuhaus, J.M., and J. D. Kalbfleisch (1998) . 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Implemented methods can handle missing data in mixed types of variables by using prediction-based or node-based conditional distributions constructed using random forests. For prediction-based imputation, the method based on the empirical distribution of out-of-bag prediction errors of random forests and the method based on normality assumption for prediction errors of random forests are provided for imputing continuous variables. And the method based on predicted probabilities is provided for imputing categorical variables. For node-based imputation, the method based on the conditional distribution formed by the predicting nodes of random forests, and the method based on proximity measures of random forests are provided. More details of the statistical methods can be found in Hong et al. (2020) . 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Package: r-cran-rfmerge Architecture: all Version: 0.1-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1971 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-sp, r-cran-sf, r-cran-randomforest, r-cran-zoo, r-cran-pbapply Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rgdal Filename: pool/dists/focal/main/r-cran-rfmerge_0.1-10-1.ca2004.1_all.deb Size: 1856776 MD5sum: 383250e733164af934e3ad390747731d SHA1: 5c464d87b36de8c619dfb4bf43a30978bd503918 SHA256: d79f10b2646e46c67e4d8d7b83fe28bfcc5af8411b630ba332d9afa8e114a300 SHA512: 00e25382ef587f8cc3f89cf901f411ff9068ea853ae06e3ca3cdf04a330bb61fa4d2df1ab63552caeaa457928973c02b80705f5a7a89ef50f8a0cad437ff50f0 Homepage: https://cran.r-project.org/package=RFmerge Description: CRAN Package 'RFmerge' (Merging of Satellite Datasets with Ground Observations usingRandom Forests) S3 implementation of the Random Forest MErging Procedure (RF-MEP), which combines two or more satellite-based datasets (e.g., precipitation products, topography) with ground observations to produce a new dataset with improved spatio-temporal distribution of the target field. 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Package: r-cran-rfvimptest Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-party, r-cran-ranger, r-cran-permimp Filename: pool/dists/focal/main/r-cran-rfvimptest_0.1.4-1.ca2004.1_all.deb Size: 72456 MD5sum: 1716bfffac78a1b6f1fec07ce9c0c05c SHA1: cacc4208a0ceeb426f6d3274f893f53268becec4 SHA256: 22bf3c0466ca650459358ef761eeba1134479aaa03d30175b84cb68f5ea8379c SHA512: ce01b1299bbf8589e6c30206286e47aa095bc2e0a73c9479723e37182723ed8ca1f3cee8b4c43ec287eb2c8959c9d71b23dc4869344527ffffd10a40e2dfe45f Homepage: https://cran.r-project.org/package=rfvimptest Description: CRAN Package 'rfvimptest' (Sequential Permutation Testing of Random Forest VariableImportance Measures) Sequential permutation testing for statistical significance of predictors in random forests and other prediction methods. The main function of the package is rfvimptest(), which allows to test for the statistical significance of predictors in random forests using different (sequential) permutation test strategies [1]. The advantage of sequential over conventional permutation tests is that they are computationally considerably less intensive, as the sequential procedure is stopped as soon as there is sufficient evidence for either the null or the alternative hypothesis. Reference: [1] Hapfelmeier, A., Hornung, R. & Haller, B. (2023) Efficient permutation testing of variable importance measures by the example of random forests. Computational Statistics & Data Analysis 181:107689, . Package: r-cran-rfviz Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-randomforest, r-cran-loon Filename: pool/dists/focal/main/r-cran-rfviz_1.0.1-1.ca2004.1_all.deb Size: 33760 MD5sum: e6be4c0a068670cbff957ca0efcd7b9a SHA1: cdd689da303e37649c59433d4a4ae45777854fd7 SHA256: 1964736eca8005f2f40a287bcda631ea1d3286219d19e5d895d9ab18e2e96940 SHA512: 7f06af6349fe9e6073c530ef4665f3971294273719479460ad523a8e3ba75306fb9c95a2d034f3571fc12fd862b8e65558f560a76b9d14e9b8ff11c90a1c4fb3 Homepage: https://cran.r-project.org/package=rfviz Description: CRAN Package 'rfviz' (Interactive Visualization Tool for Random Forests) An interactive data visualization and exploration toolkit that implements Breiman and Cutler's original random forest Java based visualization tools in R, for supervised and unsupervised classification and regression within the algorithm random forest. Package: r-cran-rga4gh Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-magrittr Filename: pool/dists/focal/main/r-cran-rga4gh_0.1.1-1.ca2004.1_all.deb Size: 97848 MD5sum: 1e13df33a69a24d0369d26c58678cda1 SHA1: 54ed44e0e7338d9a71cede80156e8b2fc8d7f459 SHA256: 406a6ff94469cdc090803da94eeedcce3616f754c0bf85034fdd4d41360f3174 SHA512: 5133373be1bbe075147cb7e3488a4e06e5ba2e067146c989d51df41219cb43e397031cd8e7bd1795725ba2c041e819f78944204cd4a2d2bd832796e4cf56955b Homepage: https://cran.r-project.org/package=Rga4gh Description: CRAN Package 'Rga4gh' (An Interface to the GA4GH API) An Interface to the GA4GH API that allows users to easily GET responses and POST requests to GA4GH Servers. See for more information about the GA4GH project. Package: r-cran-rga Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 371 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-httr, r-cran-plyr, r-cran-lubridate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-shiny Filename: pool/dists/focal/main/r-cran-rga_0.4.2-1.ca2004.1_all.deb Size: 226776 MD5sum: 84b5fe6f3e25c7ad06a55ab1caac0532 SHA1: e9aae0e27d04d5937604874e3155375ea4983585 SHA256: 19c314f1a1a59adbb017be7e11fb36f8122bab9895078e92740761918a6444d9 SHA512: 643f6692cb060d25a3545f1a145ba791225d9bc1f9dd2f8060bd029cdf551ace30165764eede5a9d8b4171a425638bf1fe951af70aee7d9e7bac2aef68c934c9 Homepage: https://cran.r-project.org/package=RGA Description: CRAN Package 'RGA' (A Google Analytics API Client) Provides functions for accessing and retrieving data from the Google Analytics APIs (https://developers.google.com/analytics/). Supports OAuth 2.0 authorization. Package provides access to the Management, Core Reporting, Multi-Channel Funnels Reporting, Real Time Reporting and Metadata APIs. Access to all the Google Analytics accounts which the user has access to. Auto-pagination to return more than 10,000 rows of the results by combining multiple data requests. Also package provides shiny app to explore the core reporting API dimensions and metrics. Package: r-cran-rgabriel Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rgabriel_0.9-1.ca2004.1_all.deb Size: 19968 MD5sum: 17b3760ac57ff377b6bdd4d9ad35119e SHA1: a924d04957fabd1eded63c36786bf9eee7b89a22 SHA256: e010fe5ad9c581e2bb45e64b396766553ea847514d3c8aa32e902818c839da5c SHA512: 2744796536d36d27698d362edf61bdf5ea90f3b5ea64c8190ad9f299fc6a3c48c04f9e4d83b425b52acdfbdf6dfccbae267d4123ff9e881b0238122cb11fd738 Homepage: https://cran.r-project.org/package=rgabriel Description: CRAN Package 'rgabriel' (Gabriel Multiple Comparison Test and Plot the ConfidenceInterval on Barplot) Analyze multi-level one-way experimental designs where there are unequal sample sizes and population variance homogeneity can not be assumed. To conduct the Gabriel test , create two vectors: one for your observations and one for the factor level of each observation. The function, rgabriel, conduct the test and save the output as a vector to input into the gabriel.plot function, which produces a confidence interval plot for Multiple Comparison. Package: r-cran-rgammagamma Architecture: all Version: 1.0.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gsl Filename: pool/dists/focal/main/r-cran-rgammagamma_1.0.12-1.ca2004.1_all.deb Size: 18296 MD5sum: 20a475d5667798d4c02c252e3e24eaa6 SHA1: 431998dcb873284b6da68d1afdadb52834d27f8d SHA256: fb27d4313f7b9069a833062944eeccbeb12f24dcd2814e54785b168f7bd9d141 SHA512: 4ab933fd85624356f91966f748e04052cfb27364be3534619170f399d306ceb0b9341363df44fb535be493af6731c6376dbdae86d760cb588be6bd461e4c65e7 Homepage: https://cran.r-project.org/package=rGammaGamma Description: CRAN Package 'rGammaGamma' (Gamma convolutions for methylation array background correction) This package implements a Gamma convolution model for background correction. Package: r-cran-rgan Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 287 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cli, r-cran-torch, r-cran-viridis Filename: pool/dists/focal/main/r-cran-rgan_0.1.1-1.ca2004.1_all.deb Size: 248544 MD5sum: 82250d29812eaa5cfcb67d13094082bf SHA1: e3241dc4e6e8df277269351f53f09cc33f4d645e SHA256: 1a18e16d747880642666fa50f9830b875218435587491dde5d77b88bb284fbe6 SHA512: e304445f526432e9800282cbe37d47d27b2f6be7f82acecf87023356d5467d804a8d1bc505d2b1cb5f0029d7b5bc9626afd8745687d18441c2b0ad30276fd4ee Homepage: https://cran.r-project.org/package=RGAN Description: CRAN Package 'RGAN' (Generative Adversarial Nets (GAN) in R) An easy way to get started with Generative Adversarial Nets (GAN) in R. The GAN algorithm was initially described by Goodfellow et al. 2014 . A GAN can be used to learn the joint distribution of complex data by comparison. A GAN consists of two neural networks a Generator and a Discriminator, where the two neural networks play an adversarial minimax game. Built-in GAN models make the training of GANs in R possible in one line and make it easy to experiment with different design choices (e.g. different network architectures, value functions, optimizers). The built-in GAN models work with tabular data (e.g. to produce synthetic data) and image data. Methods to post-process the output of GAN models to enhance the quality of samples are available. Package: r-cran-rgap Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1803 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-kfas, r-cran-zoo, r-cran-dlm, r-cran-openxlsx, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-rgap_0.1.1-1.ca2004.1_all.deb Size: 1678900 MD5sum: 75d836199ef7a03e9ae114d532e70193 SHA1: fdd4d371f0d49d632cefe4a9020c63850bffadf7 SHA256: a60a8f14ad5764e3524b5af80c83783a45b4db2382bb2b988893b850fc0bc771 SHA512: 0d66ed443f5faf42f89d9007649e898d0cb9184a94f705c0d10db2d1acf6b000458860efdfd1a6154bdb13af0d1e5972ab232d0555e8b8f0d82eda6f90dfd63a Homepage: https://cran.r-project.org/package=RGAP Description: CRAN Package 'RGAP' (Production Function Output Gap Estimation) The output gap indicates the percentage difference between the actual output of an economy and its potential. Since potential output is a latent process, the estimation of the output gap poses a challenge and numerous filtering techniques have been proposed. 'RGAP' facilitates the estimation of a Cobb-Douglas production function type output gap, as suggested by the European Commission (Havik et al. 2014) . To that end, the non-accelerating wage rate of unemployment (NAWRU) and the trend of total factor productivity (TFP) can be estimated in two bivariate unobserved component models by means of Kalman filtering and smoothing. 'RGAP' features a flexible modeling framework for the appropriate state-space models and offers frequentist as well as Bayesian estimation techniques. Additional functionalities include direct access to the 'AMECO' database and automated model selection procedures. See the paper by Streicher (2022) for details. Package: r-cran-rgbif Architecture: all Version: 3.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1547 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-xml2, r-cran-ggplot2, r-cran-crul, r-cran-data.table, r-cran-whisker, r-cran-magrittr, r-cran-jsonlite, r-cran-oai, r-cran-tibble, r-cran-lazyeval, r-cran-r6, r-cran-wk Suggests: r-cran-testthat, r-cran-png, r-cran-terra, r-cran-magick, r-cran-protolite, r-cran-sf, r-cran-vcr, r-cran-knitr, r-cran-rmarkdown, r-cran-bit64 Filename: pool/dists/focal/main/r-cran-rgbif_3.8.2-1.ca2004.1_all.deb Size: 1404140 MD5sum: 4a377d9873ac3f059b485f665c54f64f SHA1: 46da3f6fa378702b7bda2ce1e3b2387cc99cfcd9 SHA256: e94be3090a7c4b898c5fddc71d3d7571e341c9ba5e455c4b26aef831bba2379e SHA512: 9a9df47ef18cf2c15ca7000da32577c8463d72decea1bf944c4129390aaaf94da5c9812634408debd673b3e750ebec5f2a899d83ddd3cc327f8c050f09fef685 Homepage: https://cran.r-project.org/package=rgbif Description: CRAN Package 'rgbif' (Interface to the Global Biodiversity Information Facility API) A programmatic interface to the Web Service methods provided by the Global Biodiversity Information Facility (GBIF; ). GBIF is a database of species occurrence records from sources all over the globe. rgbif includes functions for searching for taxonomic names, retrieving information on data providers, getting species occurrence records, getting counts of occurrence records, and using the GBIF tile map service to make rasters summarizing huge amounts of data. Package: r-cran-rgbp Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sn, r-cran-mnormt Filename: pool/dists/focal/main/r-cran-rgbp_1.1.4-1.ca2004.1_all.deb Size: 194660 MD5sum: eb3639a778580abc9451300ad99c29f7 SHA1: 3945827bc8568c37d9e1d93d95206ea85bcadd5e SHA256: f1e3c0f0a827e7127a14dac59b825c8f184f95d5e12a82aedbbc6f38ead6299d SHA512: 6b95dda35713627e6a1135677b821406163d88f85967fee7c1f289b991c265d6c4966d3929f368cbb88a64cc9756826684573bb3149e8889037f801d4635565d Homepage: https://cran.r-project.org/package=Rgbp Description: CRAN Package 'Rgbp' (Hierarchical Modeling and Frequency Method Checking onOverdispersed Gaussian, Poisson, and Binomial Data) We utilize approximate Bayesian machinery to fit two-level conjugate hierarchical models on overdispersed Gaussian, Poisson, and Binomial data and evaluates whether the resulting approximate Bayesian interval estimates for random effects meet the nominal confidence levels via frequency coverage evaluation. The data that Rgbp assumes comprise observed sufficient statistic for each random effect, such as an average or a proportion of each group, without population-level data. The approximate Bayesian tool equipped with the adjustment for density maximization produces approximate point and interval estimates for model parameters including second-level variance component, regression coefficients, and random effect. For the Binomial data, the package provides an option to produce posterior samples of all the model parameters via the acceptance-rejection method. The package provides a quick way to evaluate coverage rates of the resultant Bayesian interval estimates for random effects via a parametric bootstrapping, which we call frequency method checking. Package: r-cran-rgcca Architecture: all Version: 3.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 726 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-caret, r-cran-deriv, r-cran-ggplot2, r-cran-ggrepel, r-cran-gridextra, r-cran-mass, r-cran-matrixstats, r-cran-pbapply, r-cran-rlang Suggests: r-cran-devtools, r-cran-factominer, r-cran-knitr, r-cran-pander, r-cran-rmarkdown, r-cran-rticles, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-rgcca_3.0.3-1.ca2004.1_all.deb Size: 617056 MD5sum: 91a353043296a23673e85d3f9bc34395 SHA1: 6c7a293252a798c0a90f5882f3785cad863e1f8f SHA256: e1d0a13a61bf0b00e4d5d9de655c2e089dacbfbed32102009eeffb489f50d672 SHA512: 89877a3ae7dd900fe029cbf84474dd8dd9295b1c058ea1813298f8d6eb85714974bf2faa61f36a01c168b17795fdd1ab44b5ca98c9bdabf7b1974878c6797d31 Homepage: https://cran.r-project.org/package=RGCCA Description: CRAN Package 'RGCCA' (Regularized and Sparse Generalized Canonical CorrelationAnalysis for Multiblock Data) Multi-block data analysis concerns the analysis of several sets of variables (blocks) observed on the same group of individuals. 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Package: r-cran-rgcxgc Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5468 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rnetcdf, r-cran-ptw, r-cran-colorramps, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-lattice, r-cran-prettydoc Filename: pool/dists/focal/main/r-cran-rgcxgc_1.2.0-1.ca2004.1_all.deb Size: 3159468 MD5sum: f8797ab9b907c7d003e0ba284ee36c31 SHA1: eb9f92717949ac55885793975a7f303479b7bb54 SHA256: c4ef6ac813a7e70a2f8c041ac80f05bef4f1722a251db32db514a6ab7f07a488 SHA512: 109acbf39cccfe1a8a454d5ed1fb37c65e13f7933a2c887f4da0784ea4edce56822c306b3ab3c561e19eec7dfecdef44f490d6797d82f1ceebeb21c7d21f285b Homepage: https://cran.r-project.org/package=RGCxGC Description: CRAN Package 'RGCxGC' (Preprocessing and Multivariate Analysis of Bidimensional GasChromatography Data) Toolbox for chemometrics analysis of bidimensional gas chromatography data. This package import data for common scientific data format (NetCDF) and fold it to 2D chromatogram. Then, it can perform preprocessing and multivariate analysis. In the preprocessing algorithms, baseline correction, smoothing, and peak alignment are available. While in multivariate analysis, multiway principal component analysis is incorporated. Package: r-cran-rgdax Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-digest, r-cran-jsonlite, r-cran-rcurl, r-cran-httr, r-cran-plyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rgdax_1.2.1-1.ca2004.1_all.deb Size: 63352 MD5sum: da82e149edef88d0c8e93cee2a5eb8fc SHA1: a4edc6aae7a4f122142cc0517499dae8a6108b9b SHA256: a9333117cba832c4d15652f3604b1b484bdaba39d3067ba1cc422a77ff483054 SHA512: fb5873fc670cbf7018dcf608da2ec9271be5093a7b2a1552a1dc7656718761f1d7ad1bfb564c57fd1860fb5d39f21320dd9b2930aca6e641ca23eacda17735a7 Homepage: https://cran.r-project.org/package=rgdax Description: CRAN Package 'rgdax' (Wrapper for 'Coinbase Pro (erstwhile GDAX)' CryptocurrencyExchange) Allow access to both public and private end points to Coinbase Pro (erstwhile GDAX) cryptocurrency exchange. 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References: Cotes Torres JM, Gonzalez Jaimes EP, and Cotes Torres A (2016) Seleccion de Genotipos con Alta Respuesta y Estabilidad Fenotipica en Pruebas Regionales: Recuperando el Concepto Biologico. Package: r-cran-rgeckoboard Architecture: all Version: 0.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-httr Filename: pool/dists/focal/main/r-cran-rgeckoboard_0.1-5-1.ca2004.1_all.deb Size: 34820 MD5sum: 4de5c79632446317b725b384573f49ee SHA1: bf92c94c41e1e518c3cac19d63ecbc71d933dc82 SHA256: d438c504fa143470d0d637153c18f2bc20a91d45aaea46d29a7372e30d1af6fd SHA512: 9b142dffc9168ced72f4ed6b32266254535eef68d154acbbe5fdc028235cdae5f6cec42f4811949fb55cc16a962b5935ec4cd89db63f532d1b778da3db78b39d Homepage: https://cran.r-project.org/package=RGeckoboard Description: CRAN Package 'RGeckoboard' (R API for Geckoboard) Provides an interface to Geckoboard. 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See for details. Package: r-cran-rhawkes Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1018 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ihsep Filename: pool/dists/focal/main/r-cran-rhawkes_1.0-1.ca2004.1_all.deb Size: 1005760 MD5sum: 658377d4ce53447a7cc302d07eed677e SHA1: 2a2c3bb5211aa5f2e68022f6a955abce574ee9d3 SHA256: 59c7ba9cd626d34695ed9f9cd63fa4b6554fc594b42eba46f246c31b6c8a8f81 SHA512: ed15927650119e2f19b05ff7acd4a0702b7236348b9843927ddeef30342dc05fb4fb3aa55acae911940f33acba1d58a19e997093cb3f6012883b1b1a8a444e17 Homepage: https://cran.r-project.org/package=RHawkes Description: CRAN Package 'RHawkes' (Renewal Hawkes Process) The renewal Hawkes (RHawkes) process (Wheatley, Filimonov, and Sornette, 2016 ) is an extension to the classical Hawkes self-exciting point process widely used in the modelling of clustered event sequence data. 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Package: r-cran-rhoneycomb Architecture: all Version: 2.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 238 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rhoneycomb_2.3.4-1.ca2004.1_all.deb Size: 155528 MD5sum: 95c2dc9443efab30ca8d5205f7a9a800 SHA1: b8d9bd54771dc51a92ffcd8082233926eeed563f SHA256: 07e031a8aeff79fcc81553dab0c531b13697865ce844e39bb1c500b09ec6c35a SHA512: 696a2377f1f3f6c2fdb88cff040e4468a4559f9ce3f0d0b32c527660c394e9c2fe393304f046a68d8a22100e01c34c952690a94e2298b24048840574c9fa4121 Homepage: https://cran.r-project.org/package=rhoneycomb Description: CRAN Package 'rhoneycomb' (Analysis of Honeycomb Selection Designs) A useful statistical tool for the construction and analysis of Honeycomb Selection Designs. More information about this type of designs: Fasoula V. (2013) Fasoula V.A., and Tokatlidis I.S. (2012) Fasoulas A.C., and Fasoula V.A. (1995) Tokatlidis I. (2016) Tokatlidis I., and Vlachostergios D. (2016) . 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There are also functions to simulate the different models of this issue in order to quantify the previous estimators. It is necessary to read at least the first six pages of the report to understand the topic. 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This procedure provides the adjusting p-values and adjusting CIs. The methods used in this package are referenced from John Ludbrook (2000) . Package: r-cran-rht Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rht_1.0-1.ca2004.1_all.deb Size: 39452 MD5sum: e41a082c5dfe405b683009b920f2af34 SHA1: 75a55b040df29ae7295404bb377572d51de45010 SHA256: cbbee8a744250682387b7195ffc60a3c088c75b643e5853cc3b60bc903339990 SHA512: b6c1088f510234d451cf11c5ed57cb9c8325478d194ffa10e3cd9ee4151f744f0b5e15cd5c8d148a5d981fb068dedc8da93e4632f9850ceaffba1345589be6c3 Homepage: https://cran.r-project.org/package=RHT Description: CRAN Package 'RHT' (Regularized Hotelling's T-square Test for Pathway (Gene Set)Analysis) This package offers functions to perform regularized Hotelling's T-square test for pathway or gene set analysis. 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Package: r-cran-riaftbart Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mcmcpack, r-cran-msm, r-cran-dbarts, r-cran-magrittr, r-cran-foreach, r-cran-doparallel, r-cran-dplyr, r-cran-bart, r-cran-stringr, r-cran-tidyr, r-cran-survival, r-cran-cowplot, r-cran-ggplot2, r-cran-twang, r-cran-nnet, r-cran-rrf, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-riaftbart_0.3.3-1.ca2004.1_all.deb Size: 112068 MD5sum: afed77b1ea990b298972edae8d53b98d SHA1: 235e3beb59d75d64f5db5e0c13c9442ad1d1e508 SHA256: 0b03bfa649181ef9c1564e9468792b88409f5a6073c757396fb469cc25992451 SHA512: 2d699d8d095ca903fe441d55025cdafbfa6b16423c1c054c29dfa3ddc2188f137530046b174c4dd485e96f8238ceda61389193d01dc3653a24910cc653789381 Homepage: https://cran.r-project.org/package=riAFTBART Description: CRAN Package 'riAFTBART' (A Flexible Approach for Causal Inference with MultipleTreatments and Clustered Survival Outcomes) Random-intercept accelerated failure time (AFT) model utilizing Bayesian additive regression trees (BART) for drawing causal inferences about multiple treatments while accounting for the multilevel survival data structure. It also includes an interpretable sensitivity analysis approach to evaluate how the drawn causal conclusions might be altered in response to the potential magnitude of departure from the no unmeasured confounding assumption.This package implements the methods described by Hu et al. (2022) . Package: r-cran-rib Architecture: all Version: 0.25.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 233 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6 Filename: pool/dists/focal/main/r-cran-rib_0.25.3-1.ca2004.1_all.deb Size: 194852 MD5sum: 398f3e6a8c00a3543589332982183446 SHA1: 17361cb66cd67cc10a1cfdffba3f2f65b72721d7 SHA256: 50431a578c7fe6a15e1e511cdd18cf32fc8b532331b5049357b08d5bec51a0d5 SHA512: 773323a5505289acd0354985542f4caf65eee02a9b7767156284d9286cce4f90bd6bfb2d9fe2ab97d60606dd173e443ae46a522cc8814d0e8babc4d9f5b0e4db Homepage: https://cran.r-project.org/package=rib Description: CRAN Package 'rib' (An Implementation of 'Interactive Brokers' API) Allows interaction with 'Interactive Brokers' 'Trader Workstation' . Handles the connection over the network and the exchange of messages. Data is encoded and decoded between user and wire formats. Data structures and functionality closely mirror the official implementations. Package: r-cran-ribd Architecture: all Version: 1.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 687 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pedtools, r-cran-glue, r-cran-kinship2, r-cran-slam Suggests: r-cran-ggplot2, r-cran-ggrepel, r-cran-plotly, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ribd_1.7.1-1.ca2004.1_all.deb Size: 601344 MD5sum: 103a36d2e196ff281ea41bf69e0b5418 SHA1: 86e2ee2bc04598db4105637ec11e2d00f64ec59c SHA256: 4cdaeff1240fdb4be8219ba11a35dd9eda51882ab6b2420bd3800c97ff860aea SHA512: 75b2daa5e15363c7dd9981f62c4c74f3d6a79d3250fe3cf001e2fbb12c9544852c1807700ab41803e76c5eb2093b59ec5718c542b96e087ab02abed66372b850 Homepage: https://cran.r-project.org/package=ribd Description: CRAN Package 'ribd' (Pedigree-based Relatedness Coefficients) Recursive algorithms for computing various relatedness coefficients, including pairwise kinship, kappa and identity coefficients. Both autosomal and X-linked coefficients are computed. Founders are allowed to be inbred, which enables construction of any given kappa coefficients, as described in Vigeland (2020) . In addition to the standard coefficients, 'ribd' also computes a range of lesser-known coefficients, including generalised kinship coefficients, multi-person coefficients and two-locus coefficients (Vigeland, 2023, ). Many features of 'ribd' are available through the online app 'QuickPed' at ; see Vigeland (2022) . Package: r-cran-ribench Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2896 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-optparse, r-cran-digest, r-cran-data.table, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ribench_1.0.2-1.ca2004.1_all.deb Size: 1050888 MD5sum: 5e62dca6c946a02bd028b40a31b82340 SHA1: 531400b6ffffa93409f9eae8e7be131f447b1612 SHA256: 5a48bd82606f4f73e24b3a343c12fb0e585f221b45c5efde2ea9fa04a81dab86 SHA512: 933c722bd4e5863f4de1aef5c0e09552d06232d2b4162c7892c3d88391fd82af0fbf79443368116021370f4f6723ba137dc68b01d32d4dbc1f977698bd5545b9 Homepage: https://cran.r-project.org/package=RIbench Description: CRAN Package 'RIbench' (Benchmark Suite for Indirect Methods for RI Estimation) The provided benchmark suite enables the automated evaluation and comparison of any existing and novel indirect method for reference interval ('RI') estimation in a systematic way. Indirect methods take routine measurements of diagnostic tests, containing pathological and non-pathological samples as input and use sophisticated statistical methods to derive a model describing the distribution of the non-pathological samples, which can then be used to derive reference intervals. The benchmark suite contains 5,760 simulated test sets with varying difficulty. To include any indirect method, a custom wrapper function needs to be provided. The package offers functions for generating the test sets, executing the indirect method and evaluating the results. See ?RIbench or vignette("RIbench_package") for a more comprehensive description of the features. A detailed description and application is described in Ammer T., Schuetzenmeister A., Prokosch H.-U., Zierk J., Rank C.M., Rauh M. "RIbench: A Proposed Benchmark for the Standardized Evaluation of Indirect Methods for Reference Interval Estimation". Clinical Chemistry (2022) . Package: r-cran-rice Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1782 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rintcal, r-cran-rlang, r-cran-ggplot2, r-cran-maps Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-utf8, r-cran-remotes, r-cran-devtools, r-cran-sf, r-cran-rnaturalearthdata, r-cran-rnaturalearth, r-cran-leaflet, r-cran-htmltools, r-cran-copernicusmarine, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rice_1.2.0-1.ca2004.1_all.deb Size: 1320360 MD5sum: f0bd757db36dda0e42e563f80ebebdf4 SHA1: 858f8048e835e8576c855a4decb6292a59ed527a SHA256: f6d177e8caaa3aec53c3ab90ce38118c07aaab648963ccbc930b773d14918e75 SHA512: 97082e8733133a776a60008fad30269537f1774338f2fe65a14188604fb06a33093a1ed61532a8aeea04daa1b4aad719436ecb23f48437be0f5097f502cf1b8d Homepage: https://cran.r-project.org/package=rice Description: CRAN Package 'rice' (Radiocarbon Equations) Provides functions for the calibration of radiocarbon dates, as well as options to calculate different radiocarbon realms (C14 age, F14C, pMC, D14C) and estimating the effects of contamination or local reservoir offsets (Reimer and Reimer 2001 ). The methods follow long-established recommendations such as Stuiver and Polach (1977) and Reimer et al. (2004) . This package uses the calibration curves from the data package 'rintcal'. Package: r-cran-ricegeneann Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 903 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-riceidconverter Filename: pool/dists/focal/main/r-cran-ricegeneann_1.0.2-1.ca2004.1_all.deb Size: 893968 MD5sum: 78dbaa9859f68028c09889b95e175556 SHA1: 105a2cdd004cd9187be698685bb97d8015233bf3 SHA256: cb4d048a15978c98fe28433bbbfc33167313418194d504553ca6beeda1612900 SHA512: 60ba97ae0fd553b6fb68a84608e89fc7ca764049a207e27681724c074f21dcb4bdbf8c4a040afdd5adfae01d2c978cf9bdc426176101efb408c5d7ddc9f64dd4 Homepage: https://cran.r-project.org/package=ricegeneann Description: CRAN Package 'ricegeneann' (Gene Annotation of Rice (Oryza Sativa L.spp.japonica)) Gene annotation of rice (Oryza Sativa L.spp.japonica). The package is based on the annotation file from the website . Input gene's name then return some information, including the from position, the end position, the position type and the chromosome number. Package: r-cran-riceidconverter Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 642 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-riceidconverter_1.1.1-1.ca2004.1_all.deb Size: 625148 MD5sum: 8c5d4ef0b919a990c86948c71d0e4708 SHA1: 2e976cfcb9262cacda2ddb5cb17902742d453d4c SHA256: 0e2fecc860465efb7e85c5cefca16667e4ccdf4a67b495ffe41d3b382e6e541d SHA512: 9475f1959da2da561013c4b68bd8bba436ab44c21e0a7ec2214eaba64b646cea2458105df80e9448790dca002ee43ef0a64f9fc7b4195d17618cbd57612570a4 Homepage: https://cran.r-project.org/package=riceidconverter Description: CRAN Package 'riceidconverter' (Convert Biological ID from RAP or MSU to SYMBOL for Oryza Sativa) Convert one biological ID to another of rice (Oryza sativa). Rice(Oryza sativa) has more than one form gene ID for the genome. The two main gene ID for rice genome are the RAP (The Rice Annotation Project, , and the MSU(The Rice Genome Annotation Project, . All RAP rice gene IDs are of the form Os##g####### as explained on the website . All MSU rice gene IDs are of the form LOC_Os##g##### as explained on the website . All SYMBOL rice gene IDs are the unique name on the NCBI(National Center for Biotechnology Information, . The TRANSCRIPTID, is the transcript id of rice, are of the form Os##t#######. The researchers usually need to converter between various IDs. Such as converter RAP to SYMBOLS for function searching on NCBI. There are a lot of websites with the function for converting RAP to MSU or MSU to RA, such as 'ID Converter' . But it is difficult to convert super multiple IDs on these websites. The package can convert all IDs between the three IDs (RAP, MSU and SYMBOL) regardless of the number. 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Package: r-cran-rich Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 393 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vegan, r-cran-boot Suggests: r-cran-knitr, r-cran-gplots, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rich_1.0.1-1.ca2004.1_all.deb Size: 309164 MD5sum: 2255ec20a9caa65b0bbb85ced7b2a8ee SHA1: 02a3dc2ffee94632f9114b7536d8582d8f4812f0 SHA256: b3b2d2bc9c2115b872d0cb3f5b55a9ed0b21c36c5d66ab5254d5350adc58718b SHA512: 190a5518fe3477f36fb2a806f5a66992ee68d84a7b08147b405f07f47e19d7952f50d5b8408b0f93d393ab41bc6239cf5b11bdca1c20650a713b38d912e54507 Homepage: https://cran.r-project.org/package=rich Description: CRAN Package 'rich' (Computes and Compares Species Richnesses) Computes rarefaction curves, cumulated and mean species richness. Compares these estimates by means of randomization tests. 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Specifically, it can be used to analyze the treatment effect of stratified data with multiple clusters in each stratum with treatment given on cluster level. User may also input as many covariates as they want to fit the data. Methods are described by Dylan S Small et al., (2012) . Package: r-cran-ricu Architecture: all Version: 0.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2276 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-curl, r-cran-assertthat, r-cran-fst, r-cran-readr, r-cran-jsonlite, r-cran-prt, r-cran-tibble, r-cran-backports, r-cran-rlang, r-cran-vctrs, r-cran-cli, r-cran-fansi, r-cran-openssl Suggests: r-cran-xml2, r-cran-covr, r-cran-testthat, r-cran-withr, r-cran-mockthat, r-cran-pkgload, r-cran-progress, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-cowplot, r-cran-survival, r-cran-forestmodel, r-cran-rticles, r-cran-kableextra, r-cran-units, r-cran-pdftools, r-cran-magick, r-cran-pillar Filename: pool/dists/focal/main/r-cran-ricu_0.5.6-1.ca2004.1_all.deb Size: 1401684 MD5sum: 695228ed268c354487053132f67e8b15 SHA1: 5dfcc3fa8a5ee4976082468262f35205bb05aa84 SHA256: a97e5935307ac6503386db9f569d3c3bce9a812c99fd8b4776c5d14cea74de7f SHA512: 1c4278f26fa42759880401ee28d22a2ffcf1ea952ec7196f02179121bcaa1deb579491c9de0f39f99147adc24da598f59dd561a0ca69ddf89e68c8eb8119e96e Homepage: https://cran.r-project.org/package=ricu Description: CRAN Package 'ricu' (Intensive Care Unit Data with R) Focused on (but not exclusive to) data sets hosted on PhysioNet (), 'ricu' provides utilities for download, setup and access of intensive care unit (ICU) data sets. In addition to functions for running arbitrary queries against available data sets, a system for defining clinical concepts and encoding their representations in tabular ICU data is presented. Package: r-cran-rideogram Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3628 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-grimport2, r-cran-rsvg, r-cran-scales, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rideogram_0.2.2-1.ca2004.1_all.deb Size: 2642100 MD5sum: adeca52c65ba5095f5104937980a3584 SHA1: 1e123c06fa07edb79e6c10e7fa6a997ccd4386b3 SHA256: bf9f2fb0c6e604c744256ce51f7469648024840dc7e40210dc0435a89163392e SHA512: 486ff423394200c4445d0464f239e17f81804b85cbd30b4bb73bf40d39ac4ac7602cdddb5b75221d2e2ce50b0b434a562b68b9a07101acb2aa9223ae6982da00 Homepage: https://cran.r-project.org/package=RIdeogram Description: CRAN Package 'RIdeogram' (Drawing SVG Graphics to Visualize and Map Genome-Wide Data onIdiograms) For whole-genome analysis, idiograms are virtually the most intuitive and effective way to map and visualize the genome-wide information. RIdeogram was developed to visualize and map whole-genome data on idiograms with no restriction of species. Package: r-cran-ridgefusion Architecture: all Version: 1.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-ridgefusion_1.0-3-1.ca2004.1_all.deb Size: 80420 MD5sum: 388d21f8077664708fd2e1952467a4ef SHA1: dad820ca47780e39a5288766c12fc58329568555 SHA256: 2f7900d57d3d067119e2f92beffb046bcfc2bfceb2b614964b12390f6e69ffc9 SHA512: 6e6ae864dae14ff43d16e127b018d2ec1a1857e636319bed14c66972432f7be6b42835bb6d0e4ab6ae5b6384184b4104037a80875ef8deb597aaecf86cf98c45 Homepage: https://cran.r-project.org/package=RidgeFusion Description: CRAN Package 'RidgeFusion' (R Package for Ridge Fusion in Statistical Learning) This package implements ridge fusion methodology for inverse covariance matrix estimation for use in quadratic discriminant analysis. The package also contains function for model based clustering using ridge fusion for inverse matrix estimation, as well as tuning parameter selection functions. We have also implemented QDA using joint inverse covariance estimation. Package: r-cran-ridgregextra Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-plotly, r-cran-isdals, r-cran-mctest Filename: pool/dists/focal/main/r-cran-ridgregextra_0.1.1-1.ca2004.1_all.deb Size: 27184 MD5sum: 11c480903c1c25e72021aaa5ae9694d0 SHA1: 5caa8333727fc06e4d53f375da9e0c3080942076 SHA256: 56a215805677e96ca0d7c882eff8b45674c841d59f468661a8825742c0f67c8b SHA512: 574a3ce2eba436ba3119e71c399761ee805d34b1a605947dfbc6febc4d11a08541d6a3d7a3eb5b1b63f7ef8c7fe1c15f87796e8fa158561dc9c3d07e5a4349d3 Homepage: https://cran.r-project.org/package=ridgregextra Description: CRAN Package 'ridgregextra' (Ridge Regression Parameter Estimation) It is a package that provides alternative approach for finding optimum parameters of ridge regression. This package focuses on finding the ridge parameter value k which makes the variance inflation factors closest to 1, while keeping them above 1 as addressed by Michael Kutner, Christopher Nachtsheim, John Neter, William Li (2004, ISBN:978-0073108742). Moreover, the package offers end-to-end functionality to find optimum k value and presents the detailed ridge regression results. Finally it shows three sets of graphs consisting k versus variance inflation factors, regression coefficients and standard errors of them. Package: r-cran-ridigbio Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4095 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-plyr, r-cran-httr, r-cran-jsonlite, r-cran-leaflet, r-cran-kableextra, r-cran-tidyverse, r-cran-cowplot Suggests: r-cran-testthat, r-cran-markdown, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ridigbio_0.4.1-1.ca2004.1_all.deb Size: 1505284 MD5sum: 49f2bc0ceafc2731b0f22c9f54e0291b SHA1: 77963c363537a2a58a0ea5857ecc1e58f8c0b88b SHA256: d71a8625158ae7486711c244fead284e7c2b697dc8cbdef7921bffad8b293873 SHA512: 99cd2238c5df94793d5272cd30b7cb99bc50fb84236a5f8a4799032befc792712ea547f877c5160be09cd0d8d55582a5d77fd4420a9b9dcba4fda15da687256f Homepage: https://cran.r-project.org/package=ridigbio Description: CRAN Package 'ridigbio' (Interface to the iDigBio Data API) An interface to iDigBio's search API that allows downloading specimen records. 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Package: r-cran-rineq Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 440 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-sandwich, r-cran-lmtest, r-cran-mfx, r-cran-survey, r-cran-survival Filename: pool/dists/focal/main/r-cran-rineq_0.3.0-1.ca2004.1_all.deb Size: 406096 MD5sum: 038e930bd60e9e93c9db85183863d248 SHA1: bc19b8d4f18df37da0e8cf7cb14e59eecd3ee4ef SHA256: cc3cd117e0662e108f04b3058d4b60689adb4fdd5c333461c9a54f6fcdfd599c SHA512: d37a3455b1e310b24895d2e46e60f2f39750c315c31a24a62d48be04fec46606e82df981ec973d54cee3eee857994a0eb2af41fbb28120fc5360422780f056c0 Homepage: https://cran.r-project.org/package=rineq Description: CRAN Package 'rineq' (Concentration Index and Decomposition for Health Inequalities) Relative, generalized, and Erreygers corrected concentration index; plot Lorenz curves; and decompose health inequalities into contributing factors. The package currently works with (generalized) linear models, survival models, complex survey models, and marginal effects probit models. originally forked by Brecht Devleesschauwer from the 'decomp' package (no longer on CRAN), 'rineq' is now maintained by Kaspar Walter Meili. Compared to the earlier 'rineq' version on 'github' by Brecht Devleesschauwer (), the regression tree functionality has been removed. Improvements compared to earlier versions include improved plotting of decomposition and concentration, added functionality to calculate the concentration index with different methods, calculation of robust standard errors, and support for the decomposition analysis using marginal effects probit regression models. The development version is available at . Package: r-cran-ringostat Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-httr2, r-cran-stringr, r-cran-cli, r-cran-readr Filename: pool/dists/focal/main/r-cran-ringostat_0.1.5-1.ca2004.1_all.deb Size: 88364 MD5sum: 7863e9a9c9ce5f648d931808ea0f45b2 SHA1: 7b05e1440c694ebedbe347f92aceed0d7bc601e5 SHA256: f6409f2748604e3e4c48ba551b1af3d297a8d91dbd33be9296958842257a8924 SHA512: 6c329188fcb7a76a0296dca42317e81a3cade9021fb3bf5fad0177e9f24b5b60e62bd0705183e39f0201b94dea6ca68e1f3f8ed0ce813c2b3a10658067b4422f Homepage: https://cran.r-project.org/package=ringostat Description: CRAN Package 'ringostat' (Load Data from 'Ringostat API') Loading calls data from 'Ringostat API'. See . 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The tree supports queries of intervals overlapping a single number or an interval (start, end). Intervals with same bounds but different names are treated as distinct intervals. Insertion of intervals is also allowed. Deletion of intervals is not implemented at this point. See Mark de Berg, Otfried Cheong, Marc van Kreveld, Mark Overmars (2008). Computational Geometry: Algorithms and Applications, for a reference. Package: r-cran-rintimg Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-glue Filename: pool/dists/focal/main/r-cran-rintimg_0.1.0-1.ca2004.1_all.deb Size: 15484 MD5sum: a861124be15f5a6f8c824c25b60ae723 SHA1: 3054920663d67f46a394879d3372a376bfea23fc SHA256: f754a5a23e1ea95f078a1ab5d4aa05d83f05392abc150ceefae9ace574c61989 SHA512: 7327a56339e00e6cd8dda6167a08931f123ced938e56a8cd7550532002491ef54fa7d9adbaac7d2fc0636970fd2c6b3ff00c00f5b74547e1a549cec4286f90fa Homepage: https://cran.r-project.org/package=rintimg Description: CRAN Package 'rintimg' (View Images on Full Screen in 'RMarkdown' Documents and 'shiny'Applications) Allows the user to view an image in full screen when clicking on it in 'RMarkdown' documents and 'shiny' applications. The package relies on the 'JavaScript' library 'intense-images'. See for more information. 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An additional convenience function, 'convert()', provides a simple method for converting between file types. Package: r-cran-rioplot Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 923 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-ggrepel, r-cran-mass Filename: pool/dists/focal/main/r-cran-rioplot_1.1.1-1.ca2004.1_all.deb Size: 691400 MD5sum: d461213321c145dea8bfbebd7c7e4059 SHA1: 0f5eaab1587c1128286a8a0e3c866e9a735e157f SHA256: ad636c619a977fb197675decae9a5047add06d7b4b8498b032389672f42f1897 SHA512: 194e286800c647e2163f4983da8a24e514bcad0dd2d0566ae7e4d10de6db128e4a8102ad416d9d1623f145429b048350b6135d628312ebd5a63ce9bc6b9352cd Homepage: https://cran.r-project.org/package=rioplot Description: CRAN Package 'rioplot' (Turn a Regression Model Inside Out) Turns regression models inside out. Functions decompose variances and coefficients for various regression model types. Functions also visualize regression model objects using techniques developed in Schoon, Melamed, and Breiger (2024) . Package: r-cran-rip Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-iptools, r-cran-dplyr, r-cran-amerika, r-cran-jsonlite Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rip_1.2.0-1.ca2004.1_all.deb Size: 43424 MD5sum: 1eba7a8fee4cbcae4a20b3827248e80d SHA1: 056e5b737652bf2c3e1e942f86ee85d63563a11a SHA256: b57ee8cfedb1184ac3a459d34f98e3662f19f485c04ff57686cdc43e7dbdacd5 SHA512: 5bb84f55a3f0aa705faa0472950ab9bd8dbe42f43c5e8c565d5963723260e6465016a5d4813fb03fe7eaa3c2f05fa9b39cfd033afaca239bf436fee46c137029 Homepage: https://cran.r-project.org/package=rIP Description: CRAN Package 'rIP' (Detects Fraud in Online Surveys by Tracing, Scoring, andVisualizing IP Addresses) Takes an array of IPs and the keys for the services the user wishes to use (IP Hub, IP Intel, and Proxycheck), and passes these to all respective APIs. Returns a dataframe with the IP addresses (used for merging), country, ISP, labels for non-US IP Addresses, VPS use, and recommendations for blocking. The package also provides optional visualization tools for checking the distributions. Additional functions are provided to call each discrete API endpoint. The package and methods are detailed in the recent paper Waggoner, Kennedy, and Clifford (2019) . Package: r-cran-ripc Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-countrycode, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-lifecycle, r-cran-lubridate, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-sf, r-cran-stringr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ripc_0.3.1-1.ca2004.1_all.deb Size: 155868 MD5sum: 6fe4cb99977cc4935bdb34b12ede9af4 SHA1: 62c6221b3faf69b82076ee67096a5f2a40eb8c2e SHA256: 3fe3de70f630e49f69ce35a6fb1ee5979a057725a8052483f361e726d1304547 SHA512: 33f61af3d62976e7a8163636a122669b20bb10309248294dc5ab222984542cdfc7c042b762674d92d4771bfbc6bcac72783b5787fd6d39f8b1f3bd30315bd59a Homepage: https://cran.r-project.org/package=ripc Description: CRAN Package 'ripc' (Download and Tidy IPC and CH Data) Utilities to access Integrated Food Security Phase Classification (IPC) and Cadre Harmonisé (CH) food security data. Wrapper functions are available for all of the 'IPC-CH' Public API () simplified and advanced endpoints to easily download the data in a clean and tidy format. Package: r-cran-rirods Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 430 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-curl, r-cran-httr2, r-cran-jsonlite, r-cran-rappdirs, r-cran-testthat, r-cran-withr Suggests: r-cran-httptest2, r-cran-kableextra, r-cran-knitr, r-cran-purrr, r-cran-readr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-rirods_0.2.0-1.ca2004.1_all.deb Size: 200984 MD5sum: 1a76d8560a520cd5b8b701c8566043c7 SHA1: cae8339cab80d179d1b87dbd417d617b76c327f7 SHA256: 65e0e7a25ca10772c94be9b0f6663b48415b6e18ae017093c3a842ac0d543183 SHA512: 5f9e4a954b1205333eb41847d859829b2e0783974ab0398fdacb40951a7caf1ecf32899d72424692368ab7c21dae9afb495df0f8bded3427c05f1ae34ccbeb46 Homepage: https://cran.r-project.org/package=rirods Description: CRAN Package 'rirods' (R Client for 'iRODS') The open sourced data management software 'Integrated Rule-Oriented Data System' ('iRODS') offers solutions for the whole data life cycle (). The loosely constructed and highly configurable architecture of 'iRODS' frees the user from strict formatting constraints and single-vendor solutions. This package provides an interface to the 'iRODS' HTTP API, allowing you to manage your data and metadata in 'iRODS' with R. Storage of annotated files and R objects in 'iRODS' ensures findability, accessibility, interoperability, and reusability of data. Package: r-cran-risca Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1400 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-relsurv, r-cran-reticulate, r-cran-tune, r-cran-nlme, r-cran-mass, r-cran-mvtnorm, r-cran-statmod, r-cran-doparallel, r-cran-foreach, r-cran-nnet, r-cran-kernlab, r-cran-glmnet, r-cran-caret, r-cran-superlearner, r-cran-rpart, r-cran-mosaic, r-cran-cubature Filename: pool/dists/focal/main/r-cran-risca_1.0.7-1.ca2004.1_all.deb Size: 1364420 MD5sum: 995793090aa69aaed40de955379eeb16 SHA1: 4e54381543a22d510335f280baca7f895071d7bb SHA256: 38ea746176f2930a85054d3522e908c744cab8df81177740ffaf06c1c97324b8 SHA512: ebd692c0d9c7764d5e5ce448c86a57429a17b8f80120f5f7651b76322d81459a5a49436b05bc490b36dd21b8624611dcbf8a68b82ac1d283809eea70b0cafe4d Homepage: https://cran.r-project.org/package=RISCA Description: CRAN Package 'RISCA' (Causal Inference and Prediction in Cohort-Based Analyses) Numerous functions for cohort-based analyses, either for prediction or causal inference. For causal inference, it includes Inverse Probability Weighting and G-computation for marginal estimation of an exposure effect when confounders are expected. We deal with binary outcomes, times-to-events, competing events, and multi-state data. For multistate data, semi-Markov model with interval censoring may be considered, and we propose the possibility to consider the excess of mortality related to the disease compared to reference lifetime tables. For predictive studies, we propose a set of functions to estimate time-dependent receiver operating characteristic (ROC) curves with the possible consideration of right-censoring times-to-events or the presence of confounders. Finally, several functions are available to assess time-dependent ROC curves or survival curves from aggregated data. Package: r-cran-rise Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rise_1.0.4-1.ca2004.1_all.deb Size: 18092 MD5sum: 16d684a937a4e1466af58937ab2e55ab SHA1: ee16937947414eac1ae97e2f9dfacb861ca1d6e7 SHA256: e6169474e8db971b31b9e76c59e5b6a7fa3888ee1af73f8cce6fd7a32595ba48 SHA512: 155d163e9976f2dbac86aa4d59452c6e287f8c1214ce49fae32a6e10fe150a506424a28f99e3674b2650ab50a64f4f227a6c560afe3621d31fafcf7287f769df Homepage: https://cran.r-project.org/package=rise Description: CRAN Package 'rise' (Conduct RISE Analysis) Implements techniques for educational resource inspection, selection, and evaluation (RISE) described in Bodily, Nyland, and Wiley (2017) . Automates the process of identifying learning materials that are not effectively supporting student learning in technology-mediated courses by synthesizing information about access to course content and performance on assessments. Package: r-cran-risk Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-risk_1.0-1.ca2004.1_all.deb Size: 83888 MD5sum: 10ca25c08eceaeb8bf137b72ed07f08c SHA1: 470b137def7c10f134e1265595e7867b34e0c32e SHA256: ebdef58d87fe77a57a84530b6d743caed4e7d265b83a95a2b3e16690624f2418 SHA512: 6963b8f2976baaeeb969e44f93a78af2cec9f3d66efc9a1fcbcf822ec9057778d5560f6c3af91b49dc889c0bedf28c465d73c6b3a4dbe734842ed877b726de97 Homepage: https://cran.r-project.org/package=Risk Description: CRAN Package 'Risk' (Computes 26 Financial Risk Measures for Any ContinuousDistribution) Computes 26 financial risk measures for any continuous distribution. The 26 financial risk measures include value at risk, expected shortfall due to Artzner et al. (1999) , tail conditional median due to Kou et al. (2013) , expectiles due to Newey and Powell (1987) , beyond value at risk due to Longin (2001) , expected proportional shortfall due to Belzunce et al. (2012) , elementary risk measure due to Ahmadi-Javid (2012) , omega due to Shadwick and Keating (2002), sortino ratio due to Rollinger and Hoffman (2013), kappa due to Kaplan and Knowles (2004), Wang (1998)'s risk measures, Stone (1973)'s risk measures, Luce (1980)'s risk measures, Sarin (1987)'s risk measures, Bronshtein and Kurelenkova (2009)'s risk measures. Package: r-cran-riskclustr Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 522 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mlogit, r-cran-stringr, r-cran-matrix Suggests: r-cran-testthat, r-cran-covr, r-cran-rmarkdown, r-cran-dplyr, r-cran-knitr, r-cran-usethis, r-cran-spelling Filename: pool/dists/focal/main/r-cran-riskclustr_0.4.1-1.ca2004.1_all.deb Size: 385520 MD5sum: 93c4aea967aa44b6b5bd2066f9655d6a SHA1: b3d64617bd04d3a4e7949152ac9a57ac17bcf7c3 SHA256: 984dc8935b151f57c672680bd5f684fae2358365477e49aa9d2dc35de458e1fe SHA512: 1a9e9381d63064aa50ea5436544df9ba825066ecfde0d0d03fa6ee60b956b02e2d0e4913c2fbd3165849c9ed6a6097fc68f97b94ba5fa065e53196e7b94ee964 Homepage: https://cran.r-project.org/package=riskclustr Description: CRAN Package 'riskclustr' (Functions to Study Etiologic Heterogeneity) A collection of functions related to the study of etiologic heterogeneity both across disease subtypes and across individual disease markers. The included functions allow one to quantify the extent of etiologic heterogeneity in the context of a case-control study, and provide p-values to test for etiologic heterogeneity across individual risk factors. Begg CB, Zabor EC, Bernstein JL, Bernstein L, Press MF, Seshan VE (2013) . Package: r-cran-riskcommunicator Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1540 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-boot, r-cran-dplyr, r-cran-ggplot2, r-cran-ggpubr, r-cran-magrittr, r-cran-mass, r-cran-purrr, r-cran-rlang, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyverse, r-cran-printr, r-cran-stringr, r-cran-formatr, r-cran-sandwich Filename: pool/dists/focal/main/r-cran-riskcommunicator_1.0.1-1.ca2004.1_all.deb Size: 1100932 MD5sum: 435d725d0b3e23deb0fe42f2016c5cba SHA1: a871ffdaca6a74ad6bb01cc685c71b02527e1b36 SHA256: 21b87e4651835953dc81b07e2afcb4f14382dcfd9f53d6c80efd4aa62841b146 SHA512: 4c58b02db86c3e2cb5c7e34c443ffb0fe57d8b0d23375459bcde33162d280280eba90292991e13f59eb5ec3948e2ec3ea3ffde3f71ead2b1606e5931326538d3 Homepage: https://cran.r-project.org/package=riskCommunicator Description: CRAN Package 'riskCommunicator' (G-Computation to Estimate Interpretable Epidemiological Effects) Estimates flexible epidemiological effect measures including both differences and ratios using the parametric G-formula developed as an alternative to inverse probability weighting. It is useful for estimating the impact of interventions in the presence of treatment-confounder-feedback. G-computation was originally described by Robbins (1986) and has been described in detail by Ahern, Hubbard, and Galea (2009) ; Snowden, Rose, and Mortimer (2011) ; and Westreich et al. (2012) . Package: r-cran-riskdiff Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 679 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-tibble, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-ggplot2 Suggests: r-cran-kableextra, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-riskdiff_0.2.1-1.ca2004.1_all.deb Size: 379204 MD5sum: 4deb2af4228f4ac8cbadc84190085b76 SHA1: 029c24967af7260a790bb140f3568f1d8d44675e SHA256: a20495966cc25285d960be9f6afb7badf146267fa5d1c30ce052e0a6536d6993 SHA512: b6c8f357af3633d2fcb68789eb9ea8357f60959ac838d9cef783795ee4ec7a88c4e3038349973ca17c04b42e91eeee9c2d539b86c54147b349498809b7e75dc7 Homepage: https://cran.r-project.org/package=riskdiff Description: CRAN Package 'riskdiff' (Risk Difference Estimation with Multiple Link Functions andInverse Probability of Treatment Weighting) Calculates risk differences (or prevalence differences for cross-sectional data) using generalized linear models with automatic link function selection. Provides robust model fitting with fallback methods, support for stratification and adjustment variables, inverse probability of treatment weighting (IPTW) for causal inference, and publication-ready output formatting. Handles model convergence issues gracefully and provides confidence intervals using multiple approaches. Methods are based on approaches described in Mark W. Donoghoe and Ian C. Marschner (2018) "logbin: An R Package for Relative Risk Regression Using the Log-Binomial Model" for robust GLM fitting, Peter C. Austin (2011) "An Introduction to Propensity Score Methods for Reducing the Effects of Confounding in Observational Studies" for IPTW methods, and standard epidemiological methods for risk difference estimation as described in Kenneth J. Rothman, Sander Greenland and Timothy L. Lash (2008, ISBN:9780781755641) "Modern Epidemiology". Package: r-cran-riskmap Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 501 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-ggplot2, r-cran-matrix, r-cran-maxlik, r-cran-terra, r-cran-xtable Filename: pool/dists/focal/main/r-cran-riskmap_0.1.0-1.ca2004.1_all.deb Size: 467712 MD5sum: 349365686cc20c3ba6417c8a801224af SHA1: ae8bc6636a5840cbc579d266c8ff42c58298af08 SHA256: ca1d5b216d3af5ba05d9bf597b7eec575809606b39bc953aafada59fa7af2ba0 SHA512: 041657e13ddf2448728fbff0f6564234c6f8ce4aabbbfe59450b668eb3f9e96a33a884021d768d6cfe2b9584418f638cc3882e69c00219680f2a49f90067d4d4 Homepage: https://cran.r-project.org/package=RiskMap Description: CRAN Package 'RiskMap' (Geo-Statistical Modeling of Spatially Referenced Data) Provides functions for geo-statistical analysis of both continuous and count data using maximum likelihood methods. The models implemented in the package use stationary Gaussian processes with Matern correlation function to carry out spatial prediction in a geographical area of interest. The underpinning theory of the methods implemented in the package are found in Diggle and Giorgi (2019, ISBN: 978-1-138-06102-7). Package: r-cran-riskmetric Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1552 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-backports, r-cran-xml2, r-cran-httr, r-cran-curl, r-cran-urltools, r-cran-memoise, r-cran-biocmanager, r-cran-cranlogs, r-cran-covr, r-cran-vctrs, r-cran-pillar, r-cran-tibble, r-cran-pkgload, r-cran-devtools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-withr, r-cran-magrittr, r-cran-dplyr, r-cran-testthat, r-cran-webmockr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-riskmetric_0.2.5-1.ca2004.1_all.deb Size: 808752 MD5sum: 8ac19131c001ae6b2b0ac20e91cf4496 SHA1: adf0360f25580bbb0974bd22c40c1edbc0605dbd SHA256: 6378a1f0196f9f09e06eb0c70cca70905b65f57c361c684976d9b2f8f317f733 SHA512: 64a11357a0d8eee07f385bd0c7a43d158f4f119fda6e2b9976db2ae5dfa7c22d47bafde9a4be7c3a8c0d685a0cf3ba491587466f934066d5c1b9ccccef3c9fa8 Homepage: https://cran.r-project.org/package=riskmetric Description: CRAN Package 'riskmetric' (Risk Metrics to Evaluating R Packages) Facilities for assessing R packages against a number of metrics to help quantify their robustness. Package: r-cran-riskportfolios Architecture: all Version: 2.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-quadprog, r-cran-nloptr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-riskportfolios_2.1.7-1.ca2004.1_all.deb Size: 97736 MD5sum: 39c4dd31763a1cdc0c3c05ca0c924c2f SHA1: 0099a952d2cad954cfe14a452ec406969c2bf1c3 SHA256: 3a07d49511b8c3a0fb7f2e6aff0829455ea268c9469837e3344411970c7f7b15 SHA512: 086ea38e92514f76aa3879a17d517290905f64c57125ee0843f7a70e5ddadf12b50230b52aa584f73a153d4323dd1b2ade05b602a4c189c6bb0fc48600f5f2c7 Homepage: https://cran.r-project.org/package=RiskPortfolios Description: CRAN Package 'RiskPortfolios' (Computation of Risk-Based Portfolios) Collection of functions designed to compute risk-based portfolios as described in Ardia et al. (2017) and Ardia et al. (2017) . Package: r-cran-riskpredictclustdata Architecture: all Version: 0.2.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-gee, r-cran-hmisc, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-riskpredictclustdata_0.2.6-1.ca2004.1_all.deb Size: 86884 MD5sum: c46ff5d2fab982116c58c8757ad9f508 SHA1: 92431e158effac47dbf4ce4ad078efb36f9ee1a3 SHA256: af6a2454287d93dd43431733a6df271c9bb91b65210d7ac1527d0e59ad6a0ef3 SHA512: 33ef7b1ec1318b9dc42cc1a12c0fb74c799ed670d564375707abeed36970686161807ca7132ce463507ce58e0f4ddca6a72ee9245f663c8ad7638b1f98a13d15 Homepage: https://cran.r-project.org/package=riskPredictClustData Description: CRAN Package 'riskPredictClustData' (Assessing Risk Predictions for Clustered Data) Assessing and comparing risk prediction rules for clustered data. The method is based on the paper: Rosner B, Qiu W, and Lee MLT.(2013) . Package: r-cran-riskr Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-riskr_1.1-1.ca2004.1_all.deb Size: 58068 MD5sum: 54481fd5a05fbf4642ed7f1c4c009cb4 SHA1: 6bf35096bcc35ac26a3856be363fb49ed74bddad SHA256: 97af04112cd2c2de1eec308a2dcbdbff3d199fedb720d6ff3c678345e60b516c SHA512: 830e372553467d7ceff2070794f97c9f0118238af8ebca80877ce223b02f2690a0581eb7b847725b7d091b145aebe38c3464ad61042813639edd9bdbe499432e Homepage: https://cran.r-project.org/package=riskR Description: CRAN Package 'riskR' (Risk Management) Computes risk measures from data, as well as performs risk management procedures. Package: r-cran-risks Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1495 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-boot, r-cran-bcaboot, r-cran-broom, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-sandwich, r-cran-tibble, r-cran-tidyr Suggests: r-cran-addreg, r-cran-covr, r-cran-knitr, r-cran-logbin, r-cran-mass, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-risks_0.4.3-1.ca2004.1_all.deb Size: 1387272 MD5sum: 259257395df965f234cfbe18cd3bde35 SHA1: a9c8b608f235e06d21cc9e9626546bf8676403ba SHA256: a7ef28da5f1793a6ca3bf7b96ecadc3d81d19320431e09e7f87caa9df57ce0e8 SHA512: 45735e0452d5f2788e1c542e6492a1fcf6cbb2c6eea07a36a8ce66f99e88f513d9034c2b05226e601f856510b839ca49c3789eb0b6d11364a45b4187d1dede32 Homepage: https://cran.r-project.org/package=risks Description: CRAN Package 'risks' (Estimate Risk Ratios and Risk Differences using Regression) Risk ratios and risk differences are estimated using regression models that allow for binary, categorical, and continuous exposures and confounders. Implemented are marginal standardization after fitting logistic models (g-computation) with delta-method and bootstrap standard errors, Miettinen's case-duplication approach (Schouten et al. 1993, ), log-binomial (Poisson) models with empirical variance (Zou 2004, ), binomial models with starting values from Poisson models (Spiegelman and Hertzmark 2005, ), and others. Package: r-cran-riskscores Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 268 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-foreach, r-cran-ggplot2, r-cran-magrittr, r-cran-proc Suggests: r-cran-knitr, r-cran-kableextra, r-cran-rmarkdown, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-riskscores_1.2.1-1.ca2004.1_all.deb Size: 166444 MD5sum: 72269374e497993330ec962992dc999a SHA1: c472d266b17a63dbbafb1ed5411bc824e1db0789 SHA256: 0b71960eae1d405d087397d198a36e75f3a9923f0c3cad9976809aefd88d51bd SHA512: 9b64f805e820163c45d65d4989418337d8978bd0a202f3015beec5a5b193c7ad9d51c64b174c2c0b6683f73aff66b866bdd50fe6aa11e02a6655d506f3a6eb7d Homepage: https://cran.r-project.org/package=riskscores Description: CRAN Package 'riskscores' (Optimized Integer Risk Score Models) Implements an optimized approach to learning risk score models, where sparsity and integer constraints are integrated into the model-fitting process. Package: r-cran-riskscorescvd Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 282 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-pooledcohort Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tibble, r-cran-purrr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-riskscorescvd_0.2.0-1.ca2004.1_all.deb Size: 227928 MD5sum: fc1d4ed19e036f6d6f9097e5aa1d8e21 SHA1: cecec6c0cd87a6cd03e3bf4a891103fd025fdd2f SHA256: c030e6f7ec33d471c98dd3f39ae83c2480163625425709adfac188564939f67d SHA512: 9e40b0dec4c9e41c3be8dd26b85494b0a179282d190c3777e6e88d766dd27bcc1852bc581007b0e2ecaf8ca64895f87a4095f299ea497ead90ab69ca7c43274e Homepage: https://cran.r-project.org/package=RiskScorescvd Description: CRAN Package 'RiskScorescvd' (Cardiovascular Risk Scores Calculator) A tool to calculate Cardiovascular Risk Scores in large data frames. Cardiovascular risk scores are statistical tools used to assess an individual's likelihood of developing a cardiovascular disease based on various risk factors, such as age, gender, blood pressure, cholesterol levels, and smoking. Here we bring together the six most commonly used in the emergency department. Using 'RiskScorescvd', you can calculate all the risk scores in an extended dataset in seconds. PCE (ASCVD) described in Goff, et al (2013) . EDACS described in Mark DG, et al (2016) . GRACE described in Fox KA, et al (2006) . HEART is described in Mahler SA, et al (2017) . SCORE2/OP described in SCORE2 working group and ESC Cardiovascular risk collaboration (2021) . TIMI described in Antman EM, et al (2000) . SCORE2-Diabetes described in SCORE2-Diabetes working group and ESC Cardiovascular risk collaboration (2023) . SCORE2/OP with CKD add-on described in Kunihiro M et al (2022) . Package: r-cran-risksetroc Architecture: all Version: 1.0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival, r-cran-mass Filename: pool/dists/focal/main/r-cran-risksetroc_1.0.4.1-1.ca2004.1_all.deb Size: 86536 MD5sum: 7fc7ba4557a5afdb93c0187e2f2c6d5e SHA1: d18f1169c27ed1dc3836ae69451b4de20ead5d9d SHA256: 3b82a6637b220d90ac04ef9caf426edabdf74ba1f39b56d09adc08aea9e535a3 SHA512: efac76bb589a547ded386085728a5e662dc2db216dbffc5548bfd603c6a5be7fb242763914de46e70248564873f03f67043b02c03d2836b43565042ee7880295 Homepage: https://cran.r-project.org/package=risksetROC Description: CRAN Package 'risksetROC' (Riskset ROC Curve Estimation from Censored Survival Data) Compute time-dependent Incident/dynamic accuracy measures (ROC curve, AUC, integrated AUC )from censored survival data under proportional or non-proportional hazard assumption of Heagerty & Zheng (Biometrics, Vol 61 No 1, 2005, PP 92-105). Package: r-cran-risksimul Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-runuran Filename: pool/dists/focal/main/r-cran-risksimul_0.1.2-1.ca2004.1_all.deb Size: 64948 MD5sum: a0a79c201cec8761072a6f3eabd5b537 SHA1: 5bb2a3d02893690a1997143f5ddceb75fa713fac SHA256: 0e4958d5894052da1056f70d264b0a80358a56c1319545f83df695d0deae663e SHA512: 504b35a2bc28d9a9804021d80b509b3494d4e3f943b99e946670a275ebbe50b986bb78f4435997c69f48dbf0c808e3494e22e74d07522f5b54ffdd0f53aa7101 Homepage: https://cran.r-project.org/package=riskSimul Description: CRAN Package 'riskSimul' (Risk Quantification for Stock Portfolios under the T-CopulaModel) Implements efficient simulation procedures to estimate tail loss probabilities and conditional excess for a stock portfolio. The log-returns are assumed to follow a t-copula model with generalized hyperbolic or t marginals. Package: r-cran-riskyr Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4219 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-riskyr_0.4.0-1.ca2004.1_all.deb Size: 2618260 MD5sum: c347b0c6620ede0a0905df8435856480 SHA1: 753e4ae7d4fac57bfdb08c7681b063f972e249e0 SHA256: 894781907392952ac9a7c536e84b91bffee142280f8a06283b3ad2ccb6d2080b SHA512: 8ac32093e5f51924754946b2aff36907dad92986350a36430833a09d042f15778d5b9727739ef25aa8b7c3aaf25da4c25eab5dd735f2ee913d6de498bbce1c2a Homepage: https://cran.r-project.org/package=riskyr Description: CRAN Package 'riskyr' (Rendering Risk Literacy more Transparent) Risk-related information (like the prevalence of conditions, the sensitivity and specificity of diagnostic tests, or the effectiveness of interventions or treatments) can be expressed in terms of frequencies or probabilities. By providing a toolbox of corresponding metrics and representations, 'riskyr' computes, translates, and visualizes risk-related information in a variety of ways. Adopting multiple complementary perspectives provides insights into the interplay between key parameters and renders teaching and training programs on risk literacy more transparent. Package: r-cran-rismed Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 716 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-rismed_2.3.0-1.ca2004.1_all.deb Size: 479988 MD5sum: ae6ccae51df46a74d584f7d9b932b5b4 SHA1: 92bf18e9c18521ffc0837433f28992f49dc19308 SHA256: a9f554252dd2a0c816ed961b4a8775926d1f1e9ad52dbdae73a6d5e08bd90ce3 SHA512: 0c61283d0b6fffce527c1de479203f6f4c5bbc176405a3d6e5f3479b07cda1633eca61b8fcb331c332631477cd85ee01a5ee4ec868e0272ea183841afaaab7a9 Homepage: https://cran.r-project.org/package=RISmed Description: CRAN Package 'RISmed' (Download Content from NCBI Databases) A set of tools to extract bibliographic content from the National Center for Biotechnology Information (NCBI) databases, including PubMed. The name RISmed is a portmanteau of RIS (for Research Information Systems, a common tag format for bibliographic data) and PubMed. 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Output for various normality tests (Thode, 2002) corresponding to the best performing method and a descriptive statistical report of the input data in its original units (5-number summary and mathematical moments) are also presented. Lastly, the Rankit, an empirical normal quantile transformation (ENQT) (Soloman & Sawilowsky, 2009), is provided to accommodate non-standard use cases and facilitate adoption. . . 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Streamline your data analysis workflows by importing datasets effortlessly and focusing on insights rather than manual data handling. Perfect for data enthusiasts and professionals looking to integrate Kaggle datasets into their R projects with minimal hassle. 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This package takes the advantages of 'KEEL' and R, allowing to use 'KEEL' algorithms in simple R code. The implemented R code layer between R and 'KEEL' makes easy both using 'KEEL' algorithms in R as implementing new algorithms for 'RKEEL' in a very simple way. It includes more than 100 algorithms for classification, regression, preprocess, association rules and imbalance learning, which allows a more complete experimentation process. For more information about 'KEEL', see . 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It combines a tiled reduction scheme with an automatic differentiation engine. It is perfectly suited to the efficient computation of Kernel dot products and the associated gradients, even when the full kernel matrix does not fit into the GPU memory. Package: r-cran-rkin Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ks, r-cran-sf, r-cran-ggplot2, r-cran-mass, r-cran-rcolorbrewer, r-cran-randomcolor, r-cran-shades, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rkin_1.0.4-1.ca2004.1_all.deb Size: 101560 MD5sum: 96632c595e5df0f8188d01e85002d1a7 SHA1: bd39349b84535549d19c29e9a9ad39b489f271be SHA256: 31b88a6fe01b197da56a7c20cc6673b4b953ae3dd1b2fd6e3adb8b5c26a8545e SHA512: 980f36d2fee21396d7dd36af41f650dc006687edb469d6d022aa24dadc8dac1a711d9f29367bb5288dab47888d8b2322cba2e6da81f11fcf59922c6d8a95343f Homepage: https://cran.r-project.org/package=rKIN Description: CRAN Package 'rKIN' ((Kernel) Isotope Niche Estimation) Applies methods used to estimate animal homerange, but instead of geospatial coordinates, we use isotopic coordinates. The estimation methods include: 1) 2-dimensional bivariate normal kernel utilization density estimator, 2) bivariate normal ellipse estimator, and 3) minimum convex polygon estimator, all applied to stable isotope data. Additionally, functions to determine niche area, polygon overlap between groups and levels (confidence contours) and plotting capabilities. Package: r-cran-rkmetrics Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 170 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rkmetrics_1.3-1.ca2004.1_all.deb Size: 99912 MD5sum: 4972a3b6fb1b35a98a76acd6ca5814d5 SHA1: 2b574040ef4f9375eb9e94cfc579c166b8cff883 SHA256: 2d47a8fd49a72dd75c1fef8546324e7a0be7ea1eaa8816d52bf89d464cc7930f SHA512: 310cc960e07a990c5286602bb5db43aa7c5720669c3a2a340d2d902af977d49843a21e38c923c04cd46611b5a4229810896bfab4b51b275ab54b33f1880b3d8c Homepage: https://cran.r-project.org/package=RkMetrics Description: CRAN Package 'RkMetrics' (Hybrid Mortality Estimation) Hybrid Mortality Modelling (HMM) provides a framework in which mortality around "the accident hump" and at very old ages can be modelled under a single model. The graphics' codes necessary for visualization of the models' output are included here. Specifically, the graphics are based on the assumption that, the mortality rates can be expressed as a function of the area under the curve between the crude mortality rates plots and the tangential transform of the force of mortality. Package: r-cran-rkolada Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 908 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble, r-cran-dplyr, r-cran-glue, r-cran-stringr, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-tidyr, r-cran-purrr, r-cran-rlang, r-cran-urltools Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-stringi, r-cran-ggplot2, r-cran-scales, r-cran-progress Filename: pool/dists/focal/main/r-cran-rkolada_0.2.3-1.ca2004.1_all.deb Size: 764756 MD5sum: 133722ce4668388b52c4f24e7e1ca587 SHA1: 9b34838195b75eb887dc107311608715c4db174a SHA256: 19fce6842c914e53c5c0794fc8db6a37bc5bf7658dd1d937710d0e8922a3652b SHA512: 673f9fa7dba3badf9a58ffbcbbf93d4fec208028f11a4567d08c76e64e6fb1b34c7d4186ded418f8f1dbffebb092e4c6d9115be58157c596e9058a0337fe9669 Homepage: https://cran.r-project.org/package=rKolada Description: CRAN Package 'rKolada' (Access Data from the 'Kolada' Database) Methods for downloading and processing data and metadata from 'Kolada', the official Swedish regions and municipalities database . Package: r-cran-rkomics Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 24867 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-ape, r-cran-circlize, r-bioc-complexheatmap, r-cran-reshape2, r-cran-dplyr, r-cran-factoextra, r-cran-factominer, r-cran-ggpubr, r-cran-magrittr, r-cran-stringr Suggests: r-cran-viridis Filename: pool/dists/focal/main/r-cran-rkomics_1.3-1.ca2004.1_all.deb Size: 1773388 MD5sum: a29f0e944e555978065c11e3825485c1 SHA1: 25c6e5cf07b5c2c84333c1b0975f47583a224de5 SHA256: aaa30248a9cab0c1c9e8bd4d999f1ca3d121083c381c65c6f9c9adfa52664037 SHA512: 51b3c55812e4d7b5a61aa1fdaadb85350393b2199eb0b8d69177b689299f51e4bf485d661058d1ff43a8e42d06fd7f78665a2d074fa0375be04add3650e1322e Homepage: https://cran.r-project.org/package=rKOMICS Description: CRAN Package 'rKOMICS' (Minicircle Sequence Classes (MSC) Analyses) This is a analysis toolkit to streamline the analyses of minicircle sequence diversity in population-scale genome projects. rKOMICS is a user-friendly R package that has simple installation requirements and that is applicable to all 27 trypanosomatid genera. Once minicircle sequence alignments are generated, rKOMICS allows to examine, summarize and visualize minicircle sequence diversity within and between samples through the analyses of minicircle sequence clusters. We showcase the functionalities of the (r)KOMICS tool suite using a whole-genome sequencing dataset from a recently published study on the history of diversification of the Leishmania braziliensis species complex in Peru. Analyses of population diversity and structure highlighted differences in minicircle sequence richness and composition between Leishmania subspecies, and between subpopulations within subspecies. The rKOMICS package establishes a critical framework to manipulate, explore and extract biologically relevant information from mitochondrial minicircle assemblies in tens to hundreds of samples simultaneously and efficiently. This should facilitate research that aims to develop new molecular markers for identifying species-specific minicircles, or to study the ancestry of parasites for complementary insights into their evolutionary history. ***** !! WARNING: this package relies on dependencies from Bioconductor. For Mac users, this can generate errors when installing rKOMICS. Install Bioconductor and ComplexHeatmap at advance: install.packages("BiocManager"); BiocManager::install("ComplexHeatmap") *****. Package: r-cran-rkorapclient Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 754 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-r.cache, r-cran-broom, r-cran-ggplot2, r-cran-tibble, r-cran-magrittr, r-cran-tidyr, r-cran-dplyr, r-cran-lubridate, r-cran-highcharter, r-cran-jsonlite, r-cran-keyring, r-cran-httr2, r-cran-curl, r-cran-ptxqc, r-cran-purrr, r-cran-stringr, r-cran-urltools Suggests: r-cran-lifecycle, r-cran-testthat, r-cran-htmlwidgets, r-cran-rmarkdown, r-cran-shiny, r-cran-vcd, r-cran-kableextra, r-cran-knitr, r-cran-purrrlyr, r-cran-raster, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-rkorapclient_1.1.0-1.ca2004.1_all.deb Size: 598120 MD5sum: 7370306f6d3ea0220ee9f8719107db4f SHA1: 13f4b0a7979bd38d9dd6acc56c36302393d8571e SHA256: 0b14a0a19cc21036b8bc7c7021544158f54d21c0756d11d173e011c6df0c7366 SHA512: 43d12f47a41cc365d9ca70a0d8605a231f7d890091a2099f386cc36490c8defb2bf3ec99098650cbd27dff51f4058120b43626f6cedb19ef38e8ac436a378efb Homepage: https://cran.r-project.org/package=RKorAPClient Description: CRAN Package 'RKorAPClient' ('KorAP' Web Service Client Package) A client package that makes the 'KorAP' web service API accessible from R. The corpus analysis platform 'KorAP' has been developed as a scientific tool to make potentially large, stratified and multiply annotated corpora, such as the 'German Reference Corpus DeReKo' or the 'Corpus of the Contemporary Romanian Language CoRoLa', accessible for linguists to let them verify hypotheses and to find interesting patterns in real language use. The 'RKorAPClient' package provides access to 'KorAP' and the corpora behind it for user-created R code, as a programmatic alternative to the 'KorAP' web user-interface. You can learn more about 'KorAP' and use it directly on 'DeReKo' at . 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See for more information. The original Mapzen has gone out of business, but 'rmapzen' can be set up to work with any provider who implements the Mapzen API. 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Gibbons, Christine Waternaux (1999) . Package: r-cran-rmat Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-rmat_0.2.0-1.ca2004.1_all.deb Size: 51504 MD5sum: 16f0e08aeb3bca6d1ffedd29343b0ac9 SHA1: 668de48e0b6d00a0a1f36afe0739886204ab7c88 SHA256: 63c35ad5d28a135d5d954ff51e7cdfc1fce83072d02062a8d526b716ab1eaa55 SHA512: 511fb602da0562ded9ac28fca916719e9ebae9e91872533031f07026c037186d0cc83e739b513759ac7953a206194c391d2283f16df6c6be4ecee31f656f312b Homepage: https://cran.r-project.org/package=RMAT Description: CRAN Package 'RMAT' (Random Matrix Analysis Toolkit) Simulate random matrices and ensembles and compute their eigenvalue spectra and dispersions. 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Package: r-cran-rmbc Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ktaucenters, r-cran-mvtnorm, r-cran-mass Suggests: r-cran-tclust, r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rmbc_0.1.0-1.ca2004.1_all.deb Size: 54828 MD5sum: 841920a2a6e1ea6644c5d45bb6d378bb SHA1: 299fe2e996a72a3b8ddb57e995e54713b18601ea SHA256: 20c92d8225671972446262e105d5fbfa52e95bad86e3b9db33dce9ef17d55d8f SHA512: 634fb410c03fb0b4e97daa2bde9da453337ca56d6f27500ce23e28f101b5ffe59956519bbd8eb065dc9a1ba23a3e11eb73b7ffd93bfe91fcbddf03c95af981dd Homepage: https://cran.r-project.org/package=RMBC Description: CRAN Package 'RMBC' (Robust Model Based Clustering) A robust clustering algorithm (Model-Based) similar to Expectation Maximization for finite mixture normal distributions is implemented, its main advantage is that the estimator is resistant to outliers, that means that results of parameter estimation are still correct when there are atypical values in the sample (see Gonzalez, Maronna, Yohai and Zamar (2021) ). Package: r-cran-rmcda Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 315 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-igraph, r-cran-fmsb, r-cran-lpsolve, r-cran-matlib, r-cran-nloptr, r-cran-matrixstats, r-cran-pracma Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rmcda_0.3-1.ca2004.1_all.deb Size: 241996 MD5sum: 15d9a01f021113b3bdd9c0dbb311e3e9 SHA1: 035d011ec499039b28843ab50f175b2935070d1d SHA256: 319814550cabbecfbffe016ee85925899c1ac9a6e0b028306a7142fa56ec8571 SHA512: 5868f66a8bda875cef07f36cfa7d2de56f378fbbcb926b5d008a5369c6a391c73764e2e917e19c6a62d3d64720ac517bf89be0400c57d4b4292e16cbf1acb54a Homepage: https://cran.r-project.org/package=RMCDA Description: CRAN Package 'RMCDA' (Multi-Criteria Decision Analysis) Supporting decision making involving multiple criteria. Annice Najafi, Shokoufeh Mirzaei (2025) RMCDA: The Comprehensive R Library for applying multi-criteria decision analysis methods, Volume 24, e100762 . 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It also allows for the discovery of interdependencies between the relevant features. MCFS-ID is particularly suitable for the analysis of high-dimensional, 'small n large p' transactional and biological data. M. Draminski, J. Koronacki (2018) . Package: r-cran-rmcmc Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 620 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-rlang, r-cran-withr Suggests: r-cran-knitr, r-cran-posterior, r-cran-progress, r-cran-ramcmc, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rmcmc_0.1.1-1.ca2004.1_all.deb Size: 401636 MD5sum: c83af2b51ec070d83b0230f8be02dbd9 SHA1: 7feaf8d1d1b7cac7c7c87af50153d0c2b1fc4868 SHA256: 7330e5d13260e169c606c3ec3002219863cab16be88def21329025d8a3ce5270 SHA512: 4101e4fd770a3186d94eae6e10bb81377e0d2ad6bd3bd2886932b22e46b9ac0527f3a1e16d3e0fcf716079783aa3fdd36c3b0b8f7f369284229588ba70915c48 Homepage: https://cran.r-project.org/package=rmcmc Description: CRAN Package 'rmcmc' (Robust Markov Chain Monte Carlo Methods) Functions for simulating Markov chains using the Barker proposal to compute Markov chain Monte Carlo (MCMC) estimates of expectations with respect to a target distribution on a real-valued vector space. The Barker proposal, described in Livingstone and Zanella (2022) , is a gradient-based MCMC algorithm inspired by the Barker accept-reject rule. It combines the robustness of simpler MCMC schemes, such as random-walk Metropolis, with the efficiency of gradient-based methods, such as the Metropolis adjusted Langevin algorithm. The key function provided by the package is sample_chain(), which allows sampling a Markov chain with a specified target distribution as its stationary distribution. The chain is sampled by generating proposals and accepting or rejecting them using a Metropolis-Hasting acceptance rule. During an initial warm-up stage, the parameters of the proposal distribution can be adapted, with adapters available to both: tune the scale of the proposals by coercing the average acceptance rate to a target value; tune the shape of the proposals to match covariance estimates under the target distribution. As well as the default Barker proposal, the package also provides implementations of alternative proposal distributions, such as (Gaussian) random walk and Langevin proposals. Optionally, if 'BridgeStan's R interface , available on GitHub , is installed, then 'BridgeStan' can be used to specify the target distribution to sample from. Package: r-cran-rmcorr Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2494 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-psych, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-plotrix, r-cran-lme4, r-cran-mertools, r-cran-pwr, r-cran-aiccmodavg, r-cran-pals, r-cran-testthat, r-cran-vdiffr, r-cran-corrplot, r-cran-cocor, r-cran-covr, r-cran-ggextra, r-cran-gglm, r-cran-dplyr, r-cran-esc, r-cran-patchwork Filename: pool/dists/focal/main/r-cran-rmcorr_0.7.0-1.ca2004.1_all.deb Size: 1456652 MD5sum: 453c07481443041fb43721307b8af9a9 SHA1: 394449197ce5f17e3dcf780ebe46ee7e37ccb4d2 SHA256: b4c36bad33e441e3653f0088b3c36aa6aca2000e886e0d2e63fecdf84d75d1f2 SHA512: 272f1bb0303efb86cb2d6ecf8162d5f9e58a08d85340bf77d8d2c3d3e16926afb2576ed7108068af33e5d4a8ab7002ad6b1eb174fad99af69f00a03eaadb9ac2 Homepage: https://cran.r-project.org/package=rmcorr Description: CRAN Package 'rmcorr' (Repeated Measures Correlation) Compute the repeated measures correlation, a statistical technique for determining the overall within-individual relationship among paired measures assessed on two or more occasions, first introduced by Bland and Altman (1995). 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Given one or more risk prediction instruments (risk models) that estimate the probability of a binary outcome, rmda provides functions to estimate and display decision curves and other figures that help assess the population impact of using a risk model for clinical decision making. Here, "population" refers to the relevant patient population. Decision curves display estimates of the (standardized) net benefit over a range of probability thresholds used to categorize observations as 'high risk'. The curves help evaluate a treatment policy that recommends treatment for patients who are estimated to be 'high risk' by comparing the population impact of a risk-based policy to "treat all" and "treat none" intervention policies. Curves can be estimated using data from a prospective cohort. In addition, rmda can estimate decision curves using data from a case-control study if an estimate of the population outcome prevalence is available. Version 1.4 of the package provides an alternative framing of the decision problem for situations where treatment is the standard-of-care and a risk model might be used to recommend that low-risk patients (i.e., patients below some risk threshold) opt out of treatment. Confidence intervals calculated using the bootstrap can be computed and displayed. A wrapper function to calculate cross-validated curves using k-fold cross-validation is also provided. 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Surrogate data generation allows an estimation of pseudosynchrony that helps to estimate the effect size of the observed synchronization. Kleinbub, J. R., & Ramseyer, F. T. (2020). rMEA: An R package to assess nonverbal synchronization in motion energy analysis time-series. Psychotherapy research, 1-14. . Package: r-cran-rmediation Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lavaan, r-cran-e1071, r-cran-openmx, r-cran-mass, r-cran-modelr, r-cran-doparallel, r-cran-foreach, r-cran-iterators, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rmediation_1.2.2-1.ca2004.1_all.deb Size: 110584 MD5sum: 4b45b7d8a2f9730579eab0281401d0c3 SHA1: 922ecaab27ec06ffe6840330a5accaacee154a6a SHA256: 6a71bf90bbd1727a94f9d7b05fed8887728dd45a359ca7f0c3c2361006ecd082 SHA512: 2f2212f7975b970d6f75d08dcc28181328380bdb41c109741389b0751b17a54210fbdf265dc4658088a83293083f85d63cdefa80fd2e97dd3acb2ea0c80dad9a Homepage: https://cran.r-project.org/package=RMediation Description: CRAN Package 'RMediation' (Mediation Analysis Confidence Intervals) We provide functions to compute confidence intervals for a well-defined nonlinear function of the model parameters (e.g., product of k coefficients) in single--level and multilevel structural equation models. It also computes a chi-square test statistic for a function of indirect effects. 'Tofighi', D. and 'MacKinnon', D. P. (2011). 'RMediation' An R package for mediation analysis confidence intervals. Behavior Research Methods, 43, 692--700. . 'Tofighi', D. (2020). Bootstrap Model-Based Constrained Optimization Tests of Indirect Effects. Frontiers in Psychology, 10, 2989. . Package: r-cran-rmerec Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rmerec_0.1.1-1.ca2004.1_all.deb Size: 13708 MD5sum: 207984cab344e70d1ce4a5118fd4a690 SHA1: 2e28c85f082e4cd955a8c994c005979a364fac7e SHA256: 842ba51a854272fc8c4ec3ac07edaeef2356968b076ebb18ccff1272a4ccdaa5 SHA512: 948c8564ec7fbd1ad334dfa2746a5b4e601088e4cdfdd4fe5f5c3110462f238a1213359377aabb3666f9eb28d4e92e702a89b125757f7c015763904053222d9f Homepage: https://cran.r-project.org/package=rmerec Description: CRAN Package 'rmerec' (MEREC - Method Based on the Removal Effects of Criteria) Implementation of the MEthod based on the Removal Effects of Criteria - MEREC- a new objective weighting method for determining criteria weights for Multiple Criteria Decision Making problems, created by Mehdi Keshavarz-Ghorabaee (2021) . Given a decision matrix, the function return the Merec´s weight vector and all intermediate matrix/vectors used to calculate it. Package: r-cran-rmeta Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rmeta_3.0-1.ca2004.1_all.deb Size: 109964 MD5sum: 824411b6019d0d6f90978316fc314478 SHA1: 089c2873d2db5739f4dc26ba84f293f9512e4477 SHA256: 2eb3997beb601b5ed456c5cb3ea8f54d3c401e0ab19bfa21496fa58003a1fb40 SHA512: 0e3fdaa41d5a5f1af284f50cbde5c9d0b98059a5e9b294bb859148c64736c4aaa6c2b9e5f1690a8cfd9530838473c1e4636e4f5aa9962d84e69963399e4b8605 Homepage: https://cran.r-project.org/package=rmeta Description: CRAN Package 'rmeta' (Meta-Analysis) Functions for simple fixed and random effects meta-analysis for two-sample comparisons and cumulative meta-analyses. 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This algorithm offers significant accuracy and efficiency advantages over other multiple imputation strategies, particularly when applied to large datasets with complex features. Alongside interfacing with 'Python' to run the core algorithm, this package contains functions for processing data before and after model training, running imputation model diagnostics, generating multiple completed datasets, and estimating regression models on these datasets. For more information see Lall and Robinson (2023) . Package: r-cran-rminer Architecture: all Version: 1.4.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1048 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-plotrix, r-cran-lattice, r-cran-nnet, r-cran-kknn, r-cran-pls, r-cran-mass, r-cran-mda, r-cran-rpart, r-cran-randomforest, r-cran-adabag, r-cran-party, r-cran-cubist, r-cran-kernlab, r-cran-e1071, r-cran-glmnet, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-rminer_1.4.9-1.ca2004.1_all.deb Size: 926520 MD5sum: 303abcbf7a497c1819d3a4122a6a9882 SHA1: 0d5f14e2e0971acfde64c2aad96b8b948fabb193 SHA256: 39b9510ef2c45b3d771cdaab43e57e7aefbdc53e63f4ee13c0c071b94e52b60e SHA512: 9e674641dbe3684570d861b21ba027923f7673e99c3d0f624e4edc321270dbc7c26f56f5d08497a3e7a0c8fad6134850f8c7ba2e6360b7c49ad3cf7b8527a6e4 Homepage: https://cran.r-project.org/package=rminer Description: CRAN Package 'rminer' (Data Mining Classification and Regression Methods) Facilitates the use of data mining algorithms in classification and regression (including time series forecasting) tasks by presenting a short and coherent set of functions. Versions: 1.4.9 / 1.4.8 improved help, several warning and error code fixes (more stable version, all examples run correctly); 1.4.7 - improved Importance function and examples, minor error fixes; 1.4.6 / 1.4.5 / 1.4.4 new automated machine learning (AutoML) and ensembles, via improved fit(), mining() and mparheuristic() functions, and new categorical preprocessing, via improved delevels() function; 1.4.3 new metrics (e.g., macro precision, explained variance), new "lssvm" model and improved mparheuristic() function; 1.4.2 new "NMAE" metric, "xgboost" and "cv.glmnet" models (16 classification and 18 regression models); 1.4.1 new tutorial and more robust version; 1.4 - new classification and regression models, with a total of 14 classification and 15 regression methods, including: Decision Trees, Neural Networks, Support Vector Machines, Random Forests, Bagging and Boosting; 1.3 and 1.3.1 - new classification and regression metrics; 1.2 - new input importance methods via improved Importance() function; 1.0 - first version. Package: r-cran-rmio Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bigassertr, r-cran-ff Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rmio_0.4.0-1.ca2004.1_all.deb Size: 21848 MD5sum: 43e80b3808f44caf093ece87a5b825f8 SHA1: 3a4714781774c7a4b52b82078fc0950e76887025 SHA256: 7b3c1c8b4733c691c583a6d9800418182dc2aa65c6491bb8cca584d0678d3da5 SHA512: 9256bf43601c6659f3dc0b0b84ea222b85a6b66d80af002a07a0329784e2380ff5591187b98bf365d90c236d914d7fa667bbfb655347350bbb7e3c5f29a2d911 Homepage: https://cran.r-project.org/package=rmio Description: CRAN Package 'rmio' (Provides 'mio' C++11 Header Files) Provides header files of 'mio', a cross-platform C++11 header-only library for memory mapped file IO . Package: r-cran-rmisbeta Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-roc Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-rmisbeta_1.0-1.ca2004.1_all.deb Size: 41908 MD5sum: b5b1b0cf90eb9a9673a1db76a44b406f SHA1: 3caeef9f3a2eef54b66f1887280743f0a77db104 SHA256: 34d33dd51ee4ace8c9f33e52bddc5f53358d13ac42d9f69da66d4761de698edd SHA512: 54a6b32fe3f0007d02293a2f26594b2a280a188709c3416b22d9980cf1b06d61078a58b61f65cb686b98e0531896027911067708e6ba9e43336568b9469fecbe Homepage: https://cran.r-project.org/package=rMisbeta Description: CRAN Package 'rMisbeta' (A Robust Missing Imputation Method for Gene Expression Data) It was developed especially for gene expression and metabolomics data analysis when the datasets are corrupted by outliers and missing values. The beta-divergence method was used to impute the missing values and modify the outliers. Package: r-cran-rmisc Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice, r-cran-plyr Suggests: r-cran-latticeextra, r-cran-hmisc Filename: pool/dists/focal/main/r-cran-rmisc_1.5.1-1.ca2004.1_all.deb Size: 49736 MD5sum: 44d2c40ad89282305bcdc963385f6590 SHA1: 78c9a7cd7a07ff0da34cf5fbd1c739c5389d65af SHA256: e49590f9acf9dd01c4e53ab85cb7ad8e6b6d5bbb4bf4dde5b94bbe14e5d90f66 SHA512: 49d4c71c125be1944ea95a2a0ca4f01f0e00658cb50bab1146b9d022e46f783b5dc095d9185cf2a4615e6b3ce84bdba6ce0982cf1eb5228e8454edc74df63cee Homepage: https://cran.r-project.org/package=Rmisc Description: CRAN Package 'Rmisc' (Ryan Miscellaneous) Contains many functions useful for data analysis and utility operations. Package: r-cran-rmixmodcombi Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 547 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rmixmod, r-cran-rcpp Filename: pool/dists/focal/main/r-cran-rmixmodcombi_1.0-1.ca2004.1_all.deb Size: 457052 MD5sum: a6c48799e934752b481e92f0c299507f SHA1: 4dbdb34172d5ddb14788855a55b25480161affe3 SHA256: 295fd45c37101c4fcf3a31c502795a5769c5247b3b8e92e84e47a82fc2d71fc5 SHA512: 85fb5358fcee8d4a49678964e823b50804e7ec59c4914ca64e417cc2ab31da5173ea20a74ea48642dbacc848a67f9c0726d694a701f172214bdf769151021f78 Homepage: https://cran.r-project.org/package=RmixmodCombi Description: CRAN Package 'RmixmodCombi' (Combining Mixture Components for Clustering) The Rmixmod package provides model-based clustering by fitting a mixture model (e.g. Gaussian components for quantitative continuous data) to the data and identifying each cluster with one of its components. The number of components can be determined from the data, typically using the BIC criterion. In practice, however, individual clusters can be poorly fitted by Gaussian distributions, and in that case model-based clustering tends to represent one non-Gaussian cluster by a mixture of two or more Gaussian components. If the number of mixture components is interpreted as the number of clusters, this can lead to overestimation of the number of clusters. This is because BIC selects the number of mixture components needed to provide a good approximation to the density. This package, RmixmodCombi, according to \emph{Combining Mixture Components for Clustering} by J.P. Baudry, A.E. Raftery, G. Celeux, K. Lo, R. Gottardo, combines the components of the EM/BIC solution (provided by Rmixmod) hierarchically according to an entropy criterion. This yields a clustering for each number of clusters less than or equal to K. These clusterings can be compared on substantive grounds, and we also provide a way of selecting the number of clusters via a piecewise linear regression fit to the (possibly rescaled) entropy plot. Package: r-cran-rmixpanel Architecture: all Version: 0.7-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-uuid, r-cran-rcurl, r-cran-base64enc Filename: pool/dists/focal/main/r-cran-rmixpanel_0.7-1-1.ca2004.1_all.deb Size: 101384 MD5sum: 50cb9e4ad5e395abd70bf2f751b1ad41 SHA1: 1d284f66a6a0d67a34b97f8e9af2afc5dcab6c87 SHA256: 8faffc05a7261e37ad8e719ee5b424ff9af26d2a332ed7c5cf6efccc48a9ebce SHA512: ef79b6b8174db50f5acba3a3bccd626238586aea6f11d7e91c9969eef02a606593e7217a2c3cf0aab322d26ab8e77991a4cfe0c0f4dd2046338c519e4f94e2c6 Homepage: https://cran.r-project.org/package=RMixpanel Description: CRAN Package 'RMixpanel' (API for Mixpanel) Provides an interface to many endpoints of Mixpanel's Data Export, Engage and JQL API. The R functions allow for event and profile data export as well as for segmentation, retention, funnel and addiction analysis. Results are always parsed into convenient R objects. Furthermore it is possible to load and update profiles. 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Mixture models are fitted using a SEM algorithm. It includes 8 models for real, categorical, counting, functional and ranking data. 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Package: r-cran-rmolt Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rmolt_1.0.0-1.ca2004.1_all.deb Size: 54904 MD5sum: 50b95072373c782ed753bb18b63cbb67 SHA1: b75af06d60cc65c3f179f9b45691361fe465608a SHA256: aa2f6ccc9d113c9a4e49e1126dc20cf6a1907cada0255bbbcdd9a400cb53b32d SHA512: 5f50ea780d99bb30e8b7061710216f35f40e98d8bc9493a9c56e1b18b75f39f21afefa3571f22d26632e36515de9685a97dcd6010efce46a337526e61f0c5192 Homepage: https://cran.r-project.org/package=Rmolt Description: CRAN Package 'Rmolt' (Graphic Visualization of the Birds' Molt) Graphical visualization of the birds' molt to facilitate the creation of molting graph for passerines having 9 (Rmolt(data,9)) or 10 primaries (Rmolt(data,10)), and also only for the 10 first primaries (Rmolt(data,"10_0")). 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All operations -- and the errors, warnings and messages they emit -- are merged into a directed graph. Infix binary operators mediate when values are stored, how exceptions are handled, and where pipelines branch and merge. The resulting structure may be queried for debugging or report generation. 'rmonad' complements, rather than competes with, non-monadic pipeline packages like 'magrittr' or 'pipeR'. This work is funded by the NSF (award number 1546858). Package: r-cran-rmonize Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2102 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-crayon, r-cran-haven, r-cran-fs, r-cran-fabr, r-cran-madshapr Suggests: r-cran-janitor, r-cran-car, r-cran-lubridate, r-cran-knitr Filename: pool/dists/focal/main/r-cran-rmonize_2.0.0-1.ca2004.1_all.deb Size: 1632728 MD5sum: 09c6b08e2378c89f673f5ab8f360d171 SHA1: a85adb535734bedf21dc87cde1c7e3882b654df1 SHA256: f02b164a079445bbf040891e577634ae62724c5212512dca007322c6c2844149 SHA512: 79e2951d877118131f87e7de7dcc9bea53c4b15dccfafe036e47e3a4706522f8b4f4da5e0acc024bcd64053614d2c0febcd4db831a309b25f7be11d885eed4f3 Homepage: https://cran.r-project.org/package=Rmonize Description: CRAN Package 'Rmonize' (Tools for Data Harmonization) Integrated tools to support rigorous and well documented data harmonization based on Maelstrom Research guidelines. The package includes functions to assess and prepare input elements, apply specified processing rules to generate harmonized datasets, validate data processing and identify processing errors, and document and summarize harmonized outputs. The harmonization process is defined and structured by two key user-generated documents: the DataSchema (specifying the list of harmonized variables to generate across datasets) and the Data Processing Elements (specifying the input elements and processing algorithms to generate harmonized variables in DataSchema formats). The package was developed to address key challenges of retrospective data harmonization in epidemiology (as described in Fortier I and al. (2017) ) but can be used for any data harmonization initiative. 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The 'rmoo' package was built as a fork of the 'GA' package by Luca Scrucca(2017) and implementing the Non-Dominated Sorting Genetic Algorithms proposed by K. Deb's. 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Moreover, it contains functions which perform the COS Method, an option pricing method based on the Fourier-cosine series (Fang, F. (2008) ). 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The interface supports large-scale optimization of many kinds: Mixed-integer and continuous linear, second-order cone, exponential cone and power cone optimization, as well as continuous semidefinite optimization. Rmosek and the R-language are open-source projects. MOSEK is a proprietary product, but unrestricted trial and academic licenses are available. 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Takes predictor intercorrelations and predictor-objective relations as input and generates a series of solutions containing predictor weights as output. Accepts between 3 and 10 selection predictors. Maximum 2 objectives could be adverse impact objectives. Partially modeled after De Corte (2006) TROFSS Fortran program and updated from 'ParetoR' package described in Song et al. (2017) . For details, see Study 3 of Zhang et al. (2023). 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This strategy conveniently relaxes the assumption of no treatment-by-mediator interaction while greatly simplifying the outcome model specification without invoking strong distributional assumptions. We also implement a sensitivity analysis by extending the RMPW method to assess potential bias in the presence of omitted pretreatment or posttreatment covariates. The sensitivity analysis strategy was proposed by Hong, Qin, and Yang (2018) . 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Package: r-cran-rmsd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rmsd_0.1.0-1.ca2004.1_all.deb Size: 16804 MD5sum: 2c0a87c438da0d0c33c3f2d6dafa1986 SHA1: 04b45b725a30d678f27a3e40a42deb952495a93f SHA256: fa0fc91797095ddba8743ef3f94239764c59afb9c5ecb8211515590d19fc0e76 SHA512: eca5c959336f1014fdab668ee60611b15d96381d3da3054e02943530b6876ee90b3e3c447eda883ef220c1f84ebf6a2f2f411d8ef54649e828f9366b32fe126a Homepage: https://cran.r-project.org/package=RMSD Description: CRAN Package 'RMSD' (Refined Modified Stahel-Donoho Estimators for Outlier Detection) A function for multivariate outlier detection named Modified Stahel-Donoho (MSD) estimators is contained. The function is for elliptically distributed datasets and recognizes outliers based on Mahalanobis distance. The function is called the single core version in Wada & Tsubaki (2013) and evaluated with other methods in Wada, Kawano & Tsubaki (2020) . 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The function RMSDp() is for elliptically distributed datasets and recognizes outliers based on Mahalanobis distance. This function is for higher dimensional datasets that cannot be handled by a single core function RMSD() included in 'RMSD' package. See Wada and Tsubaki (2013) for the detail of the algorithm. 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The 'modelsummary_rms()' function produces concise summaries for linear, logistic, and Cox regression models, including automatic handling of models containing restricted cubic spline (RCS) terms. The resulting summary dataframe can be easily converted into publication-ready documents using the 'flextable' and 'officer' packages. The 'ggrmsMD()' function creates clear and customizable plots ('ggplot2' objects) to visualise RCS terms. 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Reference: Luo and Kim (2018) . 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We compute limits and distributions of eigenvalues and generalized components of spiked covariance matrices. We give estimation of all population eigenvalues of spiked covariance matrix model. We give tests of population covariance matrix. We also perform matrix denoising for signal-plus-noise model. 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The package makes use of the results of Random Matrix Theory (RMT). The algorithm increments a suppositional threshold monotonically, thereby recording the eigenvalue spacing distribution of the matrix. According to RMT, that distribution undergoes a characteristic change when the threshold properly separates signal from noise. By using the algorithm, the modular structure of a matrix - or of the corresponding network - can be unraveled. 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The tables for computing the Tracy-Widom densities and distribution functions were computed by functions were computed by Momar Dieng's MATLAB package "RMLab". This package is part of a collaboration between Iain Johnstone, Zongming Ma, Patrick Perry, and Morteza Shahram. 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The reference paper can be found from the URL mentioned below. Ting Li, Zhongyuan Lyu, Chenyu Ren, Dong Xia (2023) . 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Convenience functions facilitate building queries based on available parameters and valid parameter values. This product uses the NASS API but is not endorsed or certified by NASS. 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Package: r-cran-rnmamod Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1874 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cluster, r-cran-coda, r-cran-dendextend, r-cran-gemtc, r-cran-ggfittext, r-cran-ggplot2, r-cran-ggpubr, r-cran-ggrepel, r-cran-heatmaply, r-cran-igraph, r-cran-knitr, r-cran-mass, r-cran-matrix, r-cran-r2jags, r-cran-reshape2, r-cran-scales, r-cran-stringr, r-cran-writexl Suggests: r-cran-metafor, r-cran-netmeta, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rnmamod_0.5.0-1.ca2004.1_all.deb Size: 1702396 MD5sum: 12f41d7c2e32a6eab8dd4fdfbcb0e4bb SHA1: ef758a3cf861864e618d0221486564f2b0f63aad SHA256: 61b04058b193bcd8b453ff40513af96eead9b9ccf0feaff6d68bc0cbad1c60b3 SHA512: f9a0109883088214e880dc28fb840a0b6d0bd935ef483a7bec40421bb4a3b84a1a241bc481caae0bc1a774227450e4429b5eeec2c61c589837dc6739997ab339 Homepage: https://cran.r-project.org/package=rnmamod Description: CRAN Package 'rnmamod' (Bayesian Network Meta-Analysis with Missing Participants) A comprehensive suite of functions to perform and visualise pairwise and network meta-analysis with aggregate binary or continuous missing participant outcome data. The package covers core Bayesian one-stage models implemented in a systematic review with multiple interventions, including fixed-effect and random-effects network meta-analysis, meta-regression, evaluation of the consistency assumption via the node-splitting approach and the unrelated mean effects model (original and revised model proposed by Spineli, (2022) ), and sensitivity analysis (see Spineli et al., (2021) ). Missing participant outcome data are addressed in all models of the package (see Spineli, (2019) , Spineli et al., (2019) , Spineli, (2019) , and Spineli et al., (2021) ). The robustness to primary analysis results can also be investigated using a novel intuitive index (see Spineli et al., (2021) ). Methods to evaluate the transitivity assumption using trial dissimilarities and hierarchical clustering are provided (see Spineli, (2024) , and Spineli et al., (2025) ). A novel index to facilitate interpretation of local inconsistency is also available (see Spineli, (2024) ) The package also offers a rich, user-friendly visualisation toolkit that aids in appraising and interpreting the results thoroughly and preparing the manuscript for journal submission. The visualisation tools comprise the network plot, forest plots, panel of diagnostic plots, heatmaps on the extent of missing participant outcome data in the network, league heatmaps on estimation and prediction, rankograms, Bland-Altman plot, leverage plot, deviance scatterplot, heatmap of robustness, barplot of Kullback-Leibler divergence, heatmap of comparison dissimilarities and dendrogram of comparison clustering. The package also allows the user to export the results to an Excel file at the working directory. Package: r-cran-rnmf Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3307 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnls, r-cran-knitr Filename: pool/dists/focal/main/r-cran-rnmf_0.5.0-1.ca2004.1_all.deb Size: 3076344 MD5sum: e8b103ecd38692c685f2fcc51402f528 SHA1: c6736c1362a68003a738a216db0acbb7c317b2fd SHA256: 998aced11a21e77d52062df77662a2c0d551ebee88219a4e25429042f98cf1d6 SHA512: 7eae0aa3db226e528b7bb41efe0bfee761aec1d6efb1c75aaba6846f8e3ea23b845dc5b00b3ea8651fd0bb8b68d03febdbb7bdfea92d9ae8292bdffe70974a0e Homepage: https://cran.r-project.org/package=rNMF Description: CRAN Package 'rNMF' (Robust Nonnegative Matrix Factorization) An implementation of robust nonnegative matrix factorization (rNMF). The rNMF algorithm decomposes a nonnegative high dimension data matrix into the product of two low rank nonnegative matrices, while detecting and trimming outliers. The main function is rnmf(). The package also includes a visualization tool, see(), that arranges and prints vectorized images. Package: r-cran-rnn Architecture: all Version: 1.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 891 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-attention, r-cran-sigmoid Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rnn_1.9.0-1.ca2004.1_all.deb Size: 538912 MD5sum: 7f56197df5c907f62a3e5a2381b12537 SHA1: 49d39e5bc0d0b9b9903a154431afe2a88136e424 SHA256: f292d95ff63bec517ddcbee62d54b17071ee0710f939f7e5e51f8c9f5a2fdd15 SHA512: 51fff83e0b5f20106aac4a273c2bcafe8544f63f54a326a288b04f819e752ace5f87d55cd4ff408e8b6996cc1fba59e967920d0c78e3190fb24cd14c64c694b1 Homepage: https://cran.r-project.org/package=rnn Description: CRAN Package 'rnn' (Recurrent Neural Network) Implementation of a Recurrent Neural Network architectures in native R, including Long Short-Term Memory (Hochreiter and Schmidhuber, ), Gated Recurrent Unit (Chung et al., ) and vanilla RNN. Package: r-cran-rnnmf Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 668 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix Suggests: r-cran-testthat, r-cran-dplyr, r-cran-ggplot2, r-cran-scales, r-cran-viridis, r-cran-knitr Filename: pool/dists/focal/main/r-cran-rnnmf_0.3.0-1.ca2004.1_all.deb Size: 558552 MD5sum: bc50f6e855ae6ab87cc6c13fc351bdc8 SHA1: fe1faeca18cf5484a348f87139db53891ef5ed74 SHA256: 09955297198117a523a2f6465cbcc5dc03f69855b884872bbaf0be0bff6668c0 SHA512: f8d98c17d983a610a8f0ea3b9cd3d0cdcfabce3ed7c889bfc5a02bb0f91f476353dd0a3204ce760e9be0246bec0ff729292870a7c3b2bd6473677b58ec22e87a Homepage: https://cran.r-project.org/package=rnnmf Description: CRAN Package 'rnnmf' (Regularized Non-Negative Matrix Factorization) A proof of concept implementation of regularized non-negative matrix factorization optimization. A non-negative matrix factorization factors non-negative matrix Y approximately as L R, for non-negative matrices L and R of reduced rank. This package supports such factorizations with weighted objective and regularization penalties. Allowable regularization penalties include L1 and L2 penalties on L and R, as well as non-orthogonality penalties. This package provides multiplicative update algorithms, which are a modification of the algorithm of Lee and Seung (2001) , as well as an additive update derived from that multiplicative update. See also Pav (2004) . Package: r-cran-rnoaa Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2476 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-crul, r-cran-lubridate, r-cran-dplyr, r-cran-tidyr, r-cran-tidyselect, r-cran-ggplot2, r-cran-scales, r-cran-xml, r-cran-xml2, r-cran-jsonlite, r-cran-gridextra, r-cran-tibble, r-cran-isdparser, r-cran-geonames, r-cran-hoardr, r-cran-data.table Suggests: r-cran-roxygen2, r-cran-testthat, r-cran-taxize, r-cran-ncdf4, r-cran-raster, r-cran-leaflet, r-cran-rgdal, r-cran-purrr, r-cran-vcr, r-cran-webmockr Filename: pool/dists/focal/main/r-cran-rnoaa_1.4.0-1.ca2004.1_all.deb Size: 1156788 MD5sum: b967a3bfa8c7f6887e08882a65ef3128 SHA1: 311a38c1d4e29f0f95476764bd5e965a5f392e7e SHA256: a7115a30a91a01fb79d31eb277e06d6308d08637f2f1019341b889f66c383edd SHA512: df51b72c56676b4da524f5e1d5cc1568cfe9db0fef9cbb5275497951c1605945406519a3ec5090961274535ca146f99d48c455824bf63232c29d07cf063eeb14 Homepage: https://cran.r-project.org/package=rnoaa Description: CRAN Package 'rnoaa' ('NOAA' Weather Data from R) Client for many 'NOAA' data sources including the 'NCDC' climate 'API' at , with functions for each of the 'API' 'endpoints': data, data categories, data sets, data types, locations, location categories, and stations. 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Package: r-cran-rnomads Architecture: all Version: 2.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 201 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rvest, r-cran-stringr, r-cran-fields, r-cran-geomap, r-cran-mba, r-cran-httr, r-cran-xml, r-cran-uuid Filename: pool/dists/focal/main/r-cran-rnomads_2.5.3-1.ca2004.1_all.deb Size: 166460 MD5sum: ea51a8645b7e8f5df7041465b444b30b SHA1: d52c104c9f3ae3ab6f399ac3a3d98f808a593670 SHA256: 7d0bc5c59c5dbf4d9b2fbb4eeeda038fa93286442e95ad4a843776585c2b70b6 SHA512: 3b437985ccce62e64e19c457502c119518a516e28cc4044f0486e055eb39185ec0c10a1f5a4beb59f27d3248f2cd8269d727862453765e3a9840e977712d0ac2 Homepage: https://cran.r-project.org/package=rNOMADS Description: CRAN Package 'rNOMADS' (An R Interface to the NOAA Operational Model Archive andDistribution System) An interface to the National Oceanic and Atmospheric Administration's Operational Model Archive and Distribution System (NOMADS, see for more information) that allows R users to quickly and efficiently download global and regional weather model data for processing. rNOMADS currently supports a variety of models ranging from global weather data to an altitude of over 40 km, to high resolution regional weather models, to wave and sea ice models. rNOMADS can retrieve binary data in grib format as well as import ascii data directly into R by interfacing with the GrADS-DODS system. Package: r-cran-rnpn Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 813 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httr2, r-cran-jsonlite, r-cran-lifecycle, r-cran-magrittr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-xml2 Suggests: r-cran-covr, r-cran-ggplot2, r-cran-knitr, r-cran-markdown, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-sf, r-cran-terra, r-cran-testthat, r-cran-vcr, r-cran-withr Filename: pool/dists/focal/main/r-cran-rnpn_1.4.0-1.ca2004.1_all.deb Size: 514596 MD5sum: c30482083a3476ca164d70b786cca7aa SHA1: a4e9477d46b50f06ad6a1e945259935bc3a565f4 SHA256: 91340dc515643e3b688b20b9d0bf6b6d1d7993b675b1a88b4bb43b80d0972598 SHA512: af68ba61ec5db853f8cc7d11edcaf0b70bc6d045c635654c837d1558788382254d122b57654e373b9511cffd83687ce224d2d0dd8021fa6a1f44f9eb806df74c Homepage: https://cran.r-project.org/package=rnpn Description: CRAN Package 'rnpn' (Interface to the National 'Phenology' Network 'API') Programmatic interface to the Web Service methods provided by the National 'Phenology' Network (), which includes data on various life history events that occur at specific times. 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Package: r-cran-rnrfa Architecture: all Version: 2.1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1354 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-ggmap, r-cran-ggplot2, r-cran-httr, r-cran-jsonlite, r-cran-lubridate, r-cran-sf, r-cran-tibble, r-cran-zoo Suggests: r-cran-dt, r-cran-dygraphs, r-cran-knitr, r-cran-leaflet, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rnrfa_2.1.0.6-1.ca2004.1_all.deb Size: 366876 MD5sum: d08d1710a4dca6d9acf0c01251b63d4a SHA1: 707f1de2e9bfcdbf1024e87a1456a97faa1b23f4 SHA256: 44889d43b2974df2dc16e9faf8edd503443579a323a2ba2e470b89d884d68b11 SHA512: 23a7bc0af8a4384998d65951b133a19ce66988278701c7965c815b1b6bca4239c96eb1b87c1392f7879d372b5d4204073551402c826fc3407454d3f6e4341c42 Homepage: https://cran.r-project.org/package=rnrfa Description: CRAN Package 'rnrfa' (UK National River Flow Archive Data from R) Utility functions to retrieve data from the UK National River Flow Archive (, terms and conditions: ). The package contains R wrappers to the UK NRFA data temporary-API. There are functions to retrieve stations falling in a bounding box, to generate a map and extracting time series and general information. The package is fully described in Vitolo et al (2016) "rnrfa: An R package to Retrieve, Filter and Visualize Data from the UK National River Flow Archive" . Package: r-cran-rnumerai Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-httr, r-cran-lubridate, r-cran-jsonlite, r-cran-ghql Filename: pool/dists/focal/main/r-cran-rnumerai_3.0.1-1.ca2004.1_all.deb Size: 88552 MD5sum: 98de93ac32004e195d912c41c488667e SHA1: 1e1bc96b3990b271e6ec1584e0a7724db3293124 SHA256: a3f89bdf965aa729ffc7769885f95ed23b9ad138edd9e172ab0545bd4aca68b0 SHA512: cd120dc57cfbe3e006b510ef9b4070b7a5f195fa23dc53b36166fd44eacb21c81905715f1c98ac69f2f4be683ff3a731a6f80e32452f83b557af4fe7a5a2efb8 Homepage: https://cran.r-project.org/package=Rnumerai Description: CRAN Package 'Rnumerai' (Interface to the Numerai Machine Learning Tournament API) Routines to interact with the Numerai Machine Learning Tournament API . 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Package: r-cran-rnvd3 Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 569 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lubridate, r-cran-data.table, r-cran-htmlwidgets, r-cran-lazyeval, r-cran-viridislite, r-cran-htmltools, r-cran-jsonlite Suggests: r-cran-reshape2, r-cran-shiny Filename: pool/dists/focal/main/r-cran-rnvd3_1.0.0-1.ca2004.1_all.deb Size: 171504 MD5sum: 18eaa2727ec667753e13861aabe8350c SHA1: 30bd3783465c946f699b777202eae44413eeaf77 SHA256: 73f8b52d3795cf93bebe2e6eebf4a69848bc072fdcc5758cef6a6402c246ce66 SHA512: 8fe9acbfe1029398f6039383f8a70c26aecfbc99fb0d04c18812006aca06a2e6e7cf6ef1b52e81948c65e5d37629a24aa527d99913ee02f2d9ec433f1b5a3879 Homepage: https://cran.r-project.org/package=Rnvd3 Description: CRAN Package 'Rnvd3' (An Incomplete Wrapper of the 'nvd3' JavaScript Library) Creates JavaScript charts with the 'nvd3' library. 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Package: r-cran-roadoi Architecture: all Version: 0.7.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 815 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-dplyr, r-cran-plyr, r-cran-purrr, r-cran-tibble, r-cran-miniui, r-cran-shiny, r-cran-tidyr, r-cran-rlang Suggests: r-cran-roxygen2, r-cran-testthat, r-cran-knitr, r-cran-covr, r-cran-rmarkdown, r-cran-lintr Filename: pool/dists/focal/main/r-cran-roadoi_0.7.3-1.ca2004.1_all.deb Size: 246380 MD5sum: 932194845eea49d43b62252cf41fb15e SHA1: 218df8b31106e7f1ca47b25c87634ff0f9fce509 SHA256: 4c12b34f5d91dd4a1b20dd8e818bdb1d65234f24bf0fb171dc162d4eb9448ae1 SHA512: 281f5914320b82de930a9fef133117d46194a563118faa2e2262ac002cbb3ba820f87f0d8bba03d77553613529008063bbbc1809dc8418523badeb01c3652b00 Homepage: https://cran.r-project.org/package=roadoi Description: CRAN Package 'roadoi' (Find Free Versions of Scholarly Publications via Unpaywall) This web client interfaces Unpaywall , formerly oaDOI, a service finding free full-texts of academic papers by linking DOIs with open access journals and repositories. 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Package: r-cran-roads Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1947 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-igraph, r-cran-data.table, r-cran-sf, r-cran-units, r-cran-rlang, r-cran-tidyselect, r-cran-terra Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-viridis, r-cran-tmap, r-cran-bench, r-cran-gdistance Filename: pool/dists/focal/main/r-cran-roads_1.2.0-1.ca2004.1_all.deb Size: 1596448 MD5sum: 3b8ea848328c8f606739530d1128a9f5 SHA1: 1235934ff5b74bfef6b3f8f40e39e29489eb6c2e SHA256: dfaadd34fff237f11ebf9a1cf404418ca9385123de6a8ae263c6b1b9d113604f SHA512: edcd35b71478ab0ba5ba805dc7e9d647319265d2630fbeaa4f22cc02e58879dca98a092e273d25304514b717ac73c62e6fd478a46010bb4afc6cedb9d538a754 Homepage: https://cran.r-project.org/package=roads Description: CRAN Package 'roads' (Road Network Projection) Iterative least cost path and minimum spanning tree methods for projecting forest road networks. 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Ting Ye, Jun Shao, Yanyao Yi, Qinyuan Zhao (2023) . Ting Ye, Marlena Bannick, Yanyao Yi, Jun Shao (2023) . Ting Ye, Jun Shao, Yanyao Yi (2023) . Marlena Bannick, Jun Shao, Jingyi Liu, Yu Du, Yanyao Yi, Ting Ye (2024) . Xiaoyu Qiu, Yuhan Qian, Jaehwan Yi, Jinqiu Wang, Yu Du, Yanyao Yi, Ting Ye (2025) . 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Heagerty, Ting Ye (2025) . Package: r-cran-robinhood Architecture: all Version: 1.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-jsonlite, r-cran-lubridate, r-cran-profvis, r-cran-magrittr, r-cran-dplyr, r-cran-httr, r-cran-uuid Filename: pool/dists/focal/main/r-cran-robinhood_1.7.0-1.ca2004.1_all.deb Size: 215076 MD5sum: 59dcda598f7086a526c108796dc8df53 SHA1: ae98f5f98293432ca5c1f561f86ca906bf9a6a77 SHA256: c31ac311065881c79d273c76c293c0ede8f11e8e2504ac186ef6a976e03c6a2d SHA512: 6c9f757137e7fac4bd7c38bf4ccded828aee21aa06eb020a93099d43be58a6656e4d5083e373c6cd5c5f2c4477fda5c835f61ea2e8b46fbcd16b4f304adddbc1 Homepage: https://cran.r-project.org/package=RobinHood Description: CRAN Package 'RobinHood' (Interface for the RobinHood.com No Commission Investing Platform) Execute API calls to the RobinHood investing platform. 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Package: r-cran-robmed Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1098 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-robustbase, r-cran-boot, r-cran-quantreg, r-cran-sn Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-robmed_1.2.1-1.ca2004.1_all.deb Size: 963920 MD5sum: 5ae06c962be634ab8306b8f75707a3f9 SHA1: 8df73c0701f92b3ee8f67a2936126e58ef79e7d8 SHA256: 12bbda53f653a39c5ff068069a0c2b4a70b1ad0912236c7395586081d249464a SHA512: 19aa7cc4c81048ed484531e3d73e4895a428ad86f1b1dd9d146813dc732da67f89c9f2ad21ef2cc083ccfecb728ce48125de2b8393d50f9b6b3e6e115177176b Homepage: https://cran.r-project.org/package=robmed Description: CRAN Package 'robmed' ((Robust) Mediation Analysis) Perform mediation analysis via the fast-and-robust bootstrap test ROBMED (Alfons, Ates & Groenen, 2022a; ), as well as various other methods. Details on the implementation and code examples can be found in Alfons, Ates, and Groenen (2022b) . Further discussion on robust mediation analysis can be found in Alfons & Schley (2024) . 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Package: r-cran-robmixreg Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2127 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-flexmix, r-cran-robustbase, r-cran-gtools, r-cran-mass, r-cran-robust, r-cran-lars, r-cran-dplyr, r-cran-rlang, r-cran-scales, r-cran-gplots, r-cran-rcolorbrewer, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-robmixreg_1.1.0-1.ca2004.1_all.deb Size: 2080200 MD5sum: f9476b58e9d43a18b43a47048e5ffadf SHA1: 0fb0d42aa5420bde1fe98de18af3a46c0fd34871 SHA256: 9f6f0977f556d8075f0f540709eb13523cd01a42d14f69b6c76a63f6ed031913 SHA512: 7f6f5699dced19ab46f29b89bdefa4df9a47acddaa89841302b9e9866d1c59aaab1673c9d63ecd107e2a06a18df2bb3c3301ab369a42d778758bead6831948d9 Homepage: https://cran.r-project.org/package=RobMixReg Description: CRAN Package 'RobMixReg' (Robust Mixture Regression) Finite mixture models are a popular technique for modelling unobserved heterogeneity or to approximate general distribution functions in a semi-parametric way. They are used in a lot of different areas such as astronomy, biology, economics, marketing or medicine. This package is the implementation of popular robust mixture regression methods based on different algorithms including: fleximix, finite mixture models and latent class regression; CTLERob, component-wise adaptive trimming likelihood estimation; mixbi, bi-square estimation; mixL, Laplacian distribution; mixt, t-distribution; TLE, trimmed likelihood estimation. The implemented algorithms includes: CTLERob stands for Component-wise adaptive Trimming Likelihood Estimation based mixture regression; mixbi stands for mixture regression based on bi-square estimation; mixLstands for mixture regression based on Laplacian distribution; TLE stands for Trimmed Likelihood Estimation based mixture regression. For more detail of the algorithms, please refer to below references. Reference: Chun Yu, Weixin Yao, Kun Chen (2017) . NeyKov N, Filzmoser P, Dimova R et al. (2007) . Bai X, Yao W. Boyer JE (2012) . Wennan Chang, Xinyu Zhou, Yong Zang, Chi Zhang, Sha Cao (2020) . 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Package: r-cran-robrsvd Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-robrsvd_1.0-1.ca2004.1_all.deb Size: 34316 MD5sum: 00a487c8c9df0924c3427f4093d82512 SHA1: abbaceb48dabdd07a42307e36793a033e135328e SHA256: 567cf6477ac2668c4d3d7a158e99b903709456b816b1e1ae681c4b7efc16ce53 SHA512: 264e5cb4aa0dfb999086c4d31f1334ac22e8b06858630e773c130674f45d334e383c0400e3de71f80e8fa23560b2714fe416b16696ef88035ba2f2e8f530d3c8 Homepage: https://cran.r-project.org/package=RobRSVD Description: CRAN Package 'RobRSVD' (Robust Regularized Singular Value Decomposition) This package provides the function to calculate SVD, regularized SVD, robust SVD and robust regularized SVD method. The robust SVD methods use alternating iteratively reweighted least squares methods. The regularized SVD uses generalized cross validation to choose the optimal smoothing parameters. 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Package: r-cran-robumeta Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 566 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-clubsandwich, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-robumeta_2.1-1.ca2004.1_all.deb Size: 520104 MD5sum: 5339f24e829e5e02050958be898075c8 SHA1: f9d34fb5bc7301090b5febf54a05fe1517ebf39d SHA256: e41bfc1f97649ce1b3157fb368ba11bf64b4bd44176288a91978e59f8bbc2d21 SHA512: 80ee9e0fd34df7334dc9e1a9224121e11e3d9280cdb8ba4075e7046b1d210c2a90e46a85ede5479b936ded5088871dea68faa59ae73a716a6aeea0c65f5603d8 Homepage: https://cran.r-project.org/package=robumeta Description: CRAN Package 'robumeta' (Robust Variance Meta-Regression) Functions for conducting robust variance estimation (RVE) meta-regression using both large and small sample RVE estimators under various weighting schemes. These methods are distribution free and provide valid point estimates, standard errors and hypothesis tests even when the degree and structure of dependence between effect sizes is unknown. Also included are functions for conducting sensitivity analyses under correlated effects weighting and producing RVE-based forest plots. 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The user specifies a reference distribution against which observations are classified as outliers or not. After removing the outliers, adjusted standard errors are automatically provided. Furthermore, several statistical tests for the false outlier detection rate can be calculated. The outlier removing algorithm can be iterated a fixed number of times or until the procedure converges. The algorithms and robust inference are described in more detail in Jiao (2019) . Package: r-cran-robustanova Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-peip, r-cran-optimbase Filename: pool/dists/focal/main/r-cran-robustanova_0.3.0-1.ca2004.1_all.deb Size: 36176 MD5sum: 3f4d59660e74dbc11e996d2dae40b365 SHA1: 98af4fdcd2da1ce381e7cd2bda5542bcf05e3bf4 SHA256: 8d50cc0d663f5dbb38b0a4415cf1c95eeb630470a291a8ddc4ccc79c5c78f9d2 SHA512: 64f1e535cab3c0d92e7bdaf6730a733af9179ddc722c68be6ad451600d6d38c04984cba8ac431c85a365d1e9f65265b3515b99710ebd628828706d201323aeab Homepage: https://cran.r-project.org/package=RobustANOVA Description: CRAN Package 'RobustANOVA' (Robust One-Way ANOVA Tests under Heteroscedasticity andNonnormality) Robust tests (RW, RPB and RGF) are provided for testing the equality of several long-tailed symmetric (LTS) means when the variances are unknown and arbitrary. RW, RPB and RGF tests are robust versions of Welch's F test proposed by Welch (1951) , parametric bootstrap test proposed by Krishnamoorthy et. al (2007) ; and generalized F test proposed by Weerahandi (1995) ;, respectively. These tests are based on the modified maximum likelihood (MML) estimators proposed by Tiku(1967, 1968) , . Package: r-cran-robustbetareg Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 259 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-betareg, r-cran-rmpfr, r-cran-rstudioapi, r-cran-crayon, r-cran-pracma, r-cran-numderiv, r-cran-formula, r-cran-robustbase, r-cran-zoo, r-cran-bbmisc, r-cran-mass, r-cran-misctools, r-cran-matrix Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-robustbetareg_0.3.0-1.ca2004.1_all.deb Size: 227860 MD5sum: c4b6f91992884e2ea503ee655bf25f26 SHA1: 333e2b718c74e67aef461c480a69371ee988dcdc SHA256: 59f03cf902351d425888b97bdbd4af3395047fa397eb5c543e2e47c232fa5fac SHA512: aac738c9a58a1e7b20c6c2425183c100d4345346f6d224669ac449f0d38ef811c95984dd21592d32d26a88ad637ef2ba620ad761e7fa91743ddc66c11690ccf0 Homepage: https://cran.r-project.org/package=robustbetareg Description: CRAN Package 'robustbetareg' (Robust Beta Regression) Robust estimators for the beta regression, useful for modeling bounded continuous data. Currently, four types of robust estimators are supported. They depend on a tuning constant which may be fixed or selected by a data-driven algorithm also implemented in the package. Diagnostic tools associated with the fitted model, such as the residuals and goodness-of-fit statistics, are implemented. Robust Wald-type tests are available. More details about robust beta regression are described in Maluf et al. (2022) . Package: r-cran-robustbf Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-robustbf_0.2.0-1.ca2004.1_all.deb Size: 24360 MD5sum: 71c34f53a01e8a869cf9c8840560d4ed SHA1: 3f7614cbf16a2efd3b4c61ddab8b9bf8596b705e SHA256: bc4ba07407057516a050167121e0d3f0f73d3e5801a25ec9d3e724ccb4424031 SHA512: e10f433c56dd44008522e34f0cb9b85db185a95a1939f3a35de6f29a28699a091555272f6944aa4f2414769a8b1ce2cf5b89e7138da8d033054066cf94ec45ad Homepage: https://cran.r-project.org/package=RobustBF Description: CRAN Package 'RobustBF' (Robust Solution to the Behrens-Fisher Problem) Robust tests (RW and RF) are provided for testing the equality of two long-tailed symmetric (LTS) means when the variances are unknown and arbitrary. RW test is a robust version of Welch's two sample t test and the RF is a robust fiducial based test. The RW and RF tests are proposed using the adaptive modified maximum likelihood (AMML) estimators derived by Tiku and Surucu (2009) and Donmez (2010) . Package: r-cran-robustda Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-mclust, r-cran-rsolnp Filename: pool/dists/focal/main/r-cran-robustda_1.2-1.ca2004.1_all.deb Size: 23496 MD5sum: af74c73d4faedab9d78abdb414e668aa SHA1: f7b2ada9bcfd49fc0e5fe647f78cb063fbfe9dcc SHA256: 5777c174688a5f69fc218c10de25b7fbf4c6cd5d2406344e1fcda6b02c6c3c89 SHA512: 4ed256d449e9652b5df73459bb87508db5d9864ea4114599606fe11735591ee3dd65008dc521bbf1c7d32534c8b59ea018959905af463001c5c676f28730f496 Homepage: https://cran.r-project.org/package=robustDA Description: CRAN Package 'robustDA' (Robust Mixture Discriminant Analysis) Robust mixture discriminant analysis (RMDA), proposed in Bouveyron & Girard, 2009 , allows to build a robust supervised classifier from learning data with label noise. The idea of the proposed method is to confront an unsupervised modeling of the data with the supervised information carried by the labels of the learning data in order to detect inconsistencies. The method is able afterward to build a robust classifier taking into account the detected inconsistencies into the labels. Package: r-cran-robustfa Architecture: all Version: 1.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1741 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rrcov Suggests: r-cran-lattice, r-cran-cluster, r-cran-mclust, r-cran-mass, r-cran-ellipse, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-robustfa_1.1-0-1.ca2004.1_all.deb Size: 1366420 MD5sum: 0f8610655e0d90eb984d2ddaa8028751 SHA1: fec2c9770de2f9d7beb8cb03484e174191f357cc SHA256: d250a598cde34bd34e74dd7fc474f9149fe021429c52b370ca0492f19a448b2f SHA512: 1f3df07b5ffe7ee48afd52c07705dd1d6d2da930786af319d959f863a8284db87e375b5401286e12d635ab521b70222f9ee9b89c88564ee27366a795d44b18cc Homepage: https://cran.r-project.org/package=robustfa Description: CRAN Package 'robustfa' (Object Oriented Solution for Robust Factor Analysis) Outliers virtually exist in any datasets of any application field. To avoid the impact of outliers, we need to use robust estimators. Classical estimators of multivariate mean and covariance matrix are the sample mean and the sample covariance matrix. Outliers will affect the sample mean and the sample covariance matrix, and thus they will affect the classical factor analysis which depends on the classical estimators (Pison, G., Rousseeuw, P.J., Filzmoser, P. and Croux, C. (2003) ). So it is necessary to use the robust estimators of the sample mean and the sample covariance matrix. There are several robust estimators in the literature: Minimum Covariance Determinant estimator, Orthogonalized Gnanadesikan-Kettenring, Minimum Volume Ellipsoid, M, S, and Stahel-Donoho. The most direct way to make multivariate analysis more robust is to replace the sample mean and the sample covariance matrix of the classical estimators to robust estimators (Maronna, R.A., Martin, D. and Yohai, V. (2006) ) (Todorov, V. and Filzmoser, P. (2009) ), which is our choice of robust factor analysis. We created an object oriented solution for robust factor analysis based on new S4 classes. Package: r-cran-robustgarch Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rsolnp, r-cran-nloptr, r-cran-rugarch, r-cran-zoo, r-cran-xts Suggests: r-cran-rmarkdown, r-cran-testthat, r-cran-pcra Filename: pool/dists/focal/main/r-cran-robustgarch_0.4.2-1.ca2004.1_all.deb Size: 78432 MD5sum: db1b4bc552840444f8043859f1b0cc12 SHA1: a89a46254c85ed9f36adf8da52eed956af18d46c SHA256: dd195109bc3b6dc8f9e5178a86604b15fde198a95ea525a7b820adcf187c0711 SHA512: aa560397c7f648eef07bd5aa3cd33e655976019e555d29d252a6395dc0656b08ce11ab2636ced4cb10090d25e5115a1ecc1deccb34036e1a67654e746cbabe59 Homepage: https://cran.r-project.org/package=robustGarch Description: CRAN Package 'robustGarch' (Robust Garch(1,1) Model) A method for modeling robust generalized autoregressive conditional heteroskedasticity (Garch) (1,1) processes, providing robustness toward additive outliers instead of innovation outliers. 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(2016) ) and SearchingSampling('Guo' (2021) ), which are effective for both low- and high-dimensional covariates and instrumental variables; test of endogeneity in high dimensions ('Guo et al.' (2016) ). Package: r-cran-robustlinearreg Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-robustlinearreg_1.2.0-1.ca2004.1_all.deb Size: 17760 MD5sum: 8e2c442679ead0c5f0e7bbb33cf985c3 SHA1: 9af9cba9328eb3ded62e4877b5037c750c38781d SHA256: 2f1b917e7e320155ae680dd76d3aeedb2c63f6b262a5fa5360a1903a8d7a0b01 SHA512: 9ea5d9736c40deb1759653070e97d830da0468c89eac4ac15ae3b47f42d3dfff1811e1eb1b56f1ccb862bd92565fced2907a18506f69945fd4df39b4e0af55f0 Homepage: https://cran.r-project.org/package=RobustLinearReg Description: CRAN Package 'RobustLinearReg' (Robust Linear Regressions) Provides an easy way to compute the Theil Sehn Regression method and also the Siegel Regression Method which are both robust methods base on the median of slopes between all pairs of data. In contrast with the least squared linear regression, these methods are not sensitive to outliers. Theil, H. (1992) , Sen, P. K. (1968) . Package: r-cran-robustlm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 349 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrixstats Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-robustlm_0.1.0-1.ca2004.1_all.deb Size: 157432 MD5sum: 48f67a238dccd6d1f29aa1d0ee942637 SHA1: d871d1f3ed96e45832c28b7c4a1e4b1f77f28275 SHA256: b3036a15c055e8f44d0808a201655cf68eaf097ee42e90536f0e1f805e844320 SHA512: 19863214cd9b98009e57f27e76ebdc99cdf4c52167e4077c0ecace7a54b783e16f692f0cf447e02df122f8ce076055a9bc487a59f7f107064ab569451c97e57d Homepage: https://cran.r-project.org/package=robustlm Description: CRAN Package 'robustlm' (Robust Variable Selection with Exponential Squared Loss) Computationally efficient tool for performing variable selection and obtaining robust estimates, which implements robust variable selection procedure proposed by Wang, X., Jiang, Y., Wang, S., Zhang, H. (2013) . Users can enjoy the near optimal, consistent, and oracle properties of the procedures. Package: r-cran-robustmeta Architecture: all Version: 1.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-metafor Filename: pool/dists/focal/main/r-cran-robustmeta_1.2-1-1.ca2004.1_all.deb Size: 34044 MD5sum: bab6660a8569388c958edddcb7a83cb6 SHA1: 735693d86660ffa82036f8dcb26e55f15f11f828 SHA256: dbc44968c92f442bcd0f6efd8f8df35bcad8c42c8ad2af5d623e5cf845d1c57b SHA512: 107c38c544895d1728008d1f2e82372a2bc48a85895f40f065c27337139a3eb93aa154448ef87a531d05f43c38b426ea43aab48d24ec482d0f027ba53d9034f1 Homepage: https://cran.r-project.org/package=robustmeta Description: CRAN Package 'robustmeta' (Robust Inference for Meta-Analysis with Influential OutlyingStudies) Robust inference methods for fixed-effect and random-effects models of meta-analysis are implementable. The robust methods are developed using the density power divergence that is a robust estimating criterion developed in machine learning theory, and can effectively circumvent biases and misleading results caused by influential outliers. The density power divergence is originally introduced by Basu et al. (1998) , and the meta-analysis methods are developed by Noma et al. (2022) . Package: r-cran-robustprediction Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 332 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-mboost, r-cran-mlr, r-cran-ranger, r-cran-e1071, r-cran-proc Filename: pool/dists/focal/main/r-cran-robustprediction_0.1.7-1.ca2004.1_all.deb Size: 300152 MD5sum: 780e2bc809a5d7f899a9395b733bdb66 SHA1: 8b752c8e7c637e76e5830207ab7941dff6833b44 SHA256: 3b16e64a2fda5dd10a0b3988ef2a61ca50e3ff0684290b9b3e065ce5c930f549 SHA512: d6b62c4675c1dc7fc872379d101ea6d9ba592ed74e38f6810ee4ebdba239dbe80a65e5cac273956eb1e643c36adfc2fc0689cb1819252e62dea38b272cf16ec3 Homepage: https://cran.r-project.org/package=RobustPrediction Description: CRAN Package 'RobustPrediction' (Robust Tuning and Training for Cross-Source Prediction) Provides robust parameter tuning and model training for predictive models applied across data sources where the data distribution varies slightly from source to source. This package implements three primary tuning methods: cross-validation-based internal tuning, external tuning, and the 'RobustTuneC' method. External tuning includes a conservative option where parameters are tuned internally on the training data and validating on an external dataset, providing a slightly pessimistic estimate. It supports Lasso, Ridge, Random Forest, Boosting, and Support Vector Machine classifiers. Currently, only binary classification is supported. The response variable must be the first column of the dataset and a factor with exactly two levels. The tuning methods are based on the paper by Nicole Ellenbach, Anne-Laure Boulesteix, Bernd Bischl, Kristian Unger, and Roman Hornung (2021) "Improved Outcome Prediction Across Data Sources Through Robust Parameter Tuning" . Package: r-cran-robustrankaggreg Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-robustrankaggreg_1.2.1-1.ca2004.1_all.deb Size: 49628 MD5sum: 3191165caee659b5b2bfac0dd20ce0f1 SHA1: 8022c9ef871162c66aa712ff7ea220c784a9bd6f SHA256: 1bc72480cb23bb2930f743f587f537ed1639257aed0f6f4db87f030cc78deecc SHA512: 438bd532250c1cc38b109e61913d6e316c3da3f54b7ac7e6f9e7818b5b99c9b500523e1f978ad2cd6a542a26316a2b573dcc016bfc73bbfc4bf577500c21d7e3 Homepage: https://cran.r-project.org/package=RobustRankAggreg Description: CRAN Package 'RobustRankAggreg' (Methods for Robust Rank Aggregation) Methods for aggregating ranked lists, especially lists of genes. It implements the Robust Rank Aggregation Kolde et al (2012) and some other simple algorithms for the task. RRA method uses a probabilistic model for aggregation that is robust to noise and also facilitates the calculation of significance probabilities for all the elements in the final ranking. Package: r-cran-robustrao Architecture: all Version: 1.0-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-gmp, r-cran-iterpc, r-cran-quadprog, r-cran-igraph, r-cran-foreach Filename: pool/dists/focal/main/r-cran-robustrao_1.0-5-1.ca2004.1_all.deb Size: 193184 MD5sum: eacb91e812dca6993b50185daf0d4e66 SHA1: d86418b0aab6d948ffdec2941a8f9d6385129dbc SHA256: 22f607b5bc67455b9202e4eb8aa1dae1adf37f89b379f2df84540e2fcf41c1ef SHA512: f2b9bce211e77e821b4d2dcefa104058263d587797bbcd6f313de1b94c17163343261917ebf413bd31d132ebe0c1ab9053ed89053316e7fa9999e8b90437c4b9 Homepage: https://cran.r-project.org/package=robustrao Description: CRAN Package 'robustrao' (An Extended Rao-Stirling Diversity Index to Handle Missing Data) A collection of functions to compute the Rao-Stirling diversity index (Porter and Rafols, 2009) and its extension to acknowledge missing data (i.e., uncategorized references) by calculating its interval of uncertainty using mathematical optimization as proposed in Calatrava et al. (2016) . The Rao-Stirling diversity index is a well-established bibliometric indicator to measure the interdisciplinarity of scientific publications. Apart from the obligatory dataset of publications with their respective references and a taxonomy of disciplines that categorizes references as well as a measure of similarity between the disciplines, the Rao-Stirling diversity index requires a complete categorization of all references of a publication into disciplines. Thus, it fails for a incomplete categorization; in this case, the robust extension has to be used, which encodes the uncertainty caused by missing bibliographic data as an uncertainty interval. Classification / ACM - 2012: Information systems ~ Similarity measures, Theory of computation ~ Quadratic programming, Applied computing ~ Digital libraries and archives. Package: r-cran-robustsur Architecture: all Version: 0.0-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-robustbase, r-cran-robreg3s, r-cran-matrix, r-cran-gse Suggests: r-cran-systemfit Filename: pool/dists/focal/main/r-cran-robustsur_0.0-8-1.ca2004.1_all.deb Size: 46528 MD5sum: 284cca2b8be1e8e00a24cf07709e431e SHA1: 9fd18a28bb686291e5a21984762f77925d41f6ae SHA256: d2bd8da850f69813dca5fb3c94e337fd50fb88edeb7801b3efde0030f1b4be15 SHA512: 213780cf5ce21eccdbe4ac76802d56968b54f322d9f12cc8b1b2d2c78b6c0625f6ae56dd2d183a44521007d3d2b196e0a0c890a1781f2a6e03eea81dd6f84e02 Homepage: https://cran.r-project.org/package=robustsur Description: CRAN Package 'robustsur' (Robust Estimation for Seemingly Unrelated Regression Models) Data sets are often corrupted by outliers. When data are multivariate outliers can be classified as case-wise or cell-wise. The latters are particularly challenge to handle. We implement a robust estimation procedure for Seemingly Unrelated Regression Models which is able to cope well with both type of outliers. Giovanni Saraceno, Fatemah Alqallaf, Claudio Agostinelli (2021) . Package: r-cran-robustx Architecture: all Version: 1.2-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-robustbase Suggests: r-cran-mass, r-cran-lattice, r-cran-pcapp Filename: pool/dists/focal/main/r-cran-robustx_1.2-7-1.ca2004.1_all.deb Size: 121516 MD5sum: b6e3710b107eae0a39471f6688434c74 SHA1: a6ffb43d18ae3ffb7b22fd7d46bc888d47c9fcb8 SHA256: 1230d9b70ec8c7110b02ba73e1aab2eb19fdeea8464c76f602557407e26438c1 SHA512: 609dfb2f0bf5bf13bb50653e4f3ce1ca37c77b67c5c0b518cffe785d6a3a847262980b1c54812e24905b4abfa2fdc60ecc3cb5d6fbfd299b979b8b4466e8888b Homepage: https://cran.r-project.org/package=robustX Description: CRAN Package 'robustX' ('eXtra' / 'eXperimental' Functionality for Robust Statistics) Robustness -- 'eXperimental', 'eXtraneous', or 'eXtraordinary' Functionality for Robust Statistics. Hence methods which are not well established, often related to methods in package 'robustbase'. Amazingly, 'BACON()', originally by Billor, Hadi, and Velleman (2000) has become established in places. The "barrow wheel" `rbwheel()` is from Stahel and Mächler (2009) . Package: r-cran-robvis Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2097 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-tidyr, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-robvis_0.3.0-1.ca2004.1_all.deb Size: 1220436 MD5sum: a3e4416e9ffec5eda03d29a3d3286823 SHA1: 5ed89cdf62518cf2604a71cd6cdbf03fec37bacc SHA256: f0da68c792195415fe4a94721d40ff0980e13f89c6a0a830d82576aaa070df03 SHA512: 5dfb75cba43984408c764702ee5dd50b261ab148313a3a0258c62a7e94613dfba7b34a0b7a023381b3b43f0152cc4b1d796d08800e1cf62377944cb2c3b377b8 Homepage: https://cran.r-project.org/package=robvis Description: CRAN Package 'robvis' (Visualize the Results of Risk-of-Bias (ROB) Assessments) Helps users in quickly visualizing risk-of-bias assessments performed as part of a systematic review. It allows users to create weighted bar-plots of the distribution of risk-of-bias judgments within each bias domain, in addition to traffic-light plots of the specific domain-level judgments for each study. The resulting figures are of publication quality and are formatted according the risk-of-bias assessment tool use to perform the assessments. Currently, the supported tools are ROB2.0 (for randomized controlled trials; Sterne et al (2019) ), ROBINS-I (for non-randomised studies of interventions; Sterne et al (2016) ), and QUADAS-2 (for diagnostic accuracy studies; Whiting et al (2011) ). Package: r-cran-robyn Architecture: all Version: 3.11.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1691 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-doparallel, r-cran-dorng, r-cran-dplyr, r-cran-foreach, r-cran-ggplot2, r-cran-ggridges, r-cran-glmnet, r-cran-jsonlite, r-cran-lares, r-cran-lubridate, r-cran-minpack.lm, r-cran-nloptr, r-cran-patchwork, r-cran-prophet, r-cran-reticulate, r-cran-stringr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-robyn_3.11.1-1.ca2004.1_all.deb Size: 1547228 MD5sum: 54935fe0809bb9a63ece58955f899785 SHA1: 958d93ad5a8f9701196f43c64b018971efbb019a SHA256: 370a79ca43320daeda90d2b3ec9dec23b82cd1f025ca388fb388992febf76ee2 SHA512: 2672b10201ab8a1e77d5cc6310c792342f290f7776f673a4996426f76bcc4d1407e3924382fb3734ee5babbbd5c856a72ddf1ef13800888b1583357ade55abd3 Homepage: https://cran.r-project.org/package=Robyn Description: CRAN Package 'Robyn' (Semi-Automated Marketing Mix Modeling (MMM) from Meta MarketingScience) Semi-Automated Marketing Mix Modeling (MMM) aiming to reduce human bias by means of ridge regression and evolutionary algorithms, enables actionable decision making providing a budget allocation and diminishing returns curves and allows ground-truth calibration to account for causation. Package: r-cran-rocaggregator Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr Suggests: r-cran-testthat, r-cran-mockery, r-cran-mockr, r-cran-knitr, r-cran-rmarkdown, r-cran-rocr, r-cran-proc, r-cran-pracma Filename: pool/dists/focal/main/r-cran-rocaggregator_1.0.1-1.ca2004.1_all.deb Size: 43176 MD5sum: d3a2636e3ef9f7f03861c47670672f5b SHA1: 2880272ac003707cb7287bce84f38652e8ff9b79 SHA256: 2eeec356436d80aeb58ef8c49033baaa99dfa6a576af2cb3b3156298432dbbc4 SHA512: 14778258b0541a0ebd00469d34f23ae314570c42da0284304fd88984237d98e4c71bf05aceb0bef6d7a0a7f9e0f0bb462c559cf23dc602327fd5cf259d400c82 Homepage: https://cran.r-project.org/package=ROCaggregator Description: CRAN Package 'ROCaggregator' (Aggregate Multiple ROC Curves into One Global ROC) Aggregates multiple Receiver Operating Characteristic (ROC) curves obtained from different sources into one global ROC. Additionally, it’s also possible to calculate the aggregated precision-recall (PR) curve. Package: r-cran-rocbc Architecture: all Version: 3.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1786 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pracma, r-cran-clinfun, r-cran-splancs, r-cran-mvtnorm, r-cran-formattable, r-cran-mrmcaov, r-cran-proc Suggests: r-cran-knitr, r-cran-markdown, r-cran-matlab Filename: pool/dists/focal/main/r-cran-rocbc_3.1.0-1.ca2004.1_all.deb Size: 1005792 MD5sum: e68ad1c191230fd88b268e8e90b7b602 SHA1: cb2acb14db1340dd904c35734a7c97e847d9279f SHA256: b383953a9f8a766114b0b83bfd1b4d5f0e3b06f7a37c91f029b27f38eb8ba686 SHA512: 6e8b9b65ec9485215a4e1fe85096410717ab915133ad943f019d33ce5aa470cae85ba1568b4393a09cc68b1f08b1a94deaab9e6afed3459d361a0283cab894c2 Homepage: https://cran.r-project.org/package=rocbc Description: CRAN Package 'rocbc' (Statistical Inference for Box-Cox Based Receiver OperatingCharacteristic Curves) Generation of Box-Cox based ROC curves and several aspects of inferences and hypothesis testing. Can be used when inferences for one biomarker (Bantis LE, Nakas CT, Reiser B. (2018)) are of interest or when comparisons of two correlated biomarkers (Bantis LE, Nakas CT, Reiser B. (2021)) are of interest. Provides inferences and comparisons around the AUC, the Youden index, the sensitivity at a given specificity level (and vice versa), the optimal operating point of the ROC curve (in the Youden sense), and the Youden based cutoff. Package: r-cran-rocc Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rocr Filename: pool/dists/focal/main/r-cran-rocc_1.3-1.ca2004.1_all.deb Size: 37604 MD5sum: 672416543483bb7d3dd65f4ded9a1603 SHA1: 5d1818dcbc33ff37e3f09fdef65234705cfcad44 SHA256: b2417be7baa849f1c5500478ac1818ca9adf25ada72408c637aadab615636d48 SHA512: 3cbb37aa090963aea55b453365adeeae7203cd1875ad2f312c906578b168a1e55b1abcb4c81f29895b8ea7d51d65a5ad8413bbb826737e943d3a1db150b73d50 Homepage: https://cran.r-project.org/package=rocc Description: CRAN Package 'rocc' (ROC Based Classification) Functions for a classification method based on receiver operating characteristics (ROC). Briefly, features are selected according to their ranked AUC value in the training set. The selected features are merged by the mean value to form a meta-gene. The samples are ranked by their meta-gene value and the meta-gene threshold that has the highest accuracy in splitting the training samples is determined. A new sample is classified by its meta-gene value relative to the threshold. In the first place, the package is aimed at two class problems in gene expression data, but might also apply to other problems. Package: r-cran-roccv Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-proc Filename: pool/dists/focal/main/r-cran-roccv_1.2-1.ca2004.1_all.deb Size: 23668 MD5sum: 1c69a8fa9daa8ad3bea18a7324dc2325 SHA1: bd10c2f11e8bfe5f81474940a7facad8ab660866 SHA256: d4f92b9fa8e18a4d689844f01df58c119b616cebab755bf1e9aedfdc5ec3fb23 SHA512: 6b75be4c67b8ac6befa4c1507e166a66de9ed84d64c694d8f8551b84f4cf893b087f4a182270d4f53ba6e1e5cf465fa2158e44180a4e86f8323676f3c4577a00 Homepage: https://cran.r-project.org/package=roccv Description: CRAN Package 'roccv' (ROC for Cross Validation Results) Cross validate large genetic data while specifying clinical variables that should always be in the model using the function cv(). An ROC plot from the cross validation data with AUC can be obtained using rocplot(), which also can be used to compare different models. Framework was built to handle genetic data, but works for any data. Package: r-cran-rocean Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ff Filename: pool/dists/focal/main/r-cran-rocean_1.0-1.ca2004.1_all.deb Size: 44048 MD5sum: 78ec7188e64d0fbe31ca03b1e004fa92 SHA1: 6ca34968a5505f3fd806ee9e421f5b505bf0e70c SHA256: 7af839ae2415c3ab1c9dd796336ca1e9fa36ea36fa626dfe8264b03e9203d903 SHA512: bb83604650b899722c4cf69d5fe89f159917edfd4d83624eb9a92360c76dcb175292d358fc2970b1bf42c3c765a23303de3bab6dffda8907e9df025cf3931c48 Homepage: https://cran.r-project.org/package=rOCEAN Description: CRAN Package 'rOCEAN' (Two-Way Feature Set Testing for Multi-Omics) For any two way feature-set from a pair of pre-processed omics data, 3 different true discovery proportions (TDP), namely pairwise-TDP, column-TDP and row-TDP are calculated. Due to embedded closed testing procedure, the choice of feature-sets can be changed infinite times and even after seeing the data without any change in type I error rate. For more details refer to Ebrahimpoor et al., (2024) . Package: r-cran-rocftp.mms Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vctrs Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rocftp.mms_1.0.0-1.ca2004.1_all.deb Size: 20072 MD5sum: ced2fa656f7162e1df61f6c5bb3da41c SHA1: 22dc21921d4f3677cf0e9226d1c373b45f83c1e1 SHA256: 6fe25fd33adfd3ae942fa1b6220e0c55ce7e689b439afaf2c8309122b754106d SHA512: b74e4d441abb900336943760cba8e4d916d5677bc492aabd5b91df5432ebe2aba465f294e30c2f6d8840fd3d99f5558d3b7bd016c79560cfedc96a99cbefd4fe Homepage: https://cran.r-project.org/package=ROCFTP.MMS Description: CRAN Package 'ROCFTP.MMS' (Perfect Sampling) The algorithm provided in this package generates perfect sample for unimodal or multimodal posteriors. Read Once Coupling From The Past, with Metropolis-Multishift is used to generate a perfect sample for a given posterior density based on the two extreme starting paths, minimum and maximum of the most interest range of the posterior. It uses the monotone random operation of multishift coupler which allows to sandwich all of the state space in one point. It means both Markov Chains starting from the maximum and minimum will be coalesced. The generated sample is independent from the starting points. It is useful for mixture distributions too. The output of this function is a real value as an exact draw from the posterior distribution. Package: r-cran-rocit Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 443 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rocit_2.1.2-1.ca2004.1_all.deb Size: 276196 MD5sum: e72ac59f37d7dde154600ce553e4df36 SHA1: de61696596a824a19822dcc1f6e0fb43f28fe312 SHA256: 90774454d8870a9d19e57411d3f7a37cd8c71d71a36ec4db2e40361f546598c8 SHA512: 7c28cccf6245bb6c157d26411c49cfa71a02436c1df0ac4520a411168e675cb1a4a58f513acbc65feada8806ac31cf25b394947e530192eb445640ac3c524651 Homepage: https://cran.r-project.org/package=ROCit Description: CRAN Package 'ROCit' (Performance Assessment of Binary Classifier with Visualization) Sensitivity (or recall or true positive rate), false positive rate, specificity, precision (or positive predictive value), negative predictive value, misclassification rate, accuracy, F-score- these are popular metrics for assessing performance of binary classifier for certain threshold. These metrics are calculated at certain threshold values. Receiver operating characteristic (ROC) curve is a common tool for assessing overall diagnostic ability of the binary classifier. Unlike depending on a certain threshold, area under ROC curve (also known as AUC), is a summary statistic about how well a binary classifier performs overall for the classification task. ROCit package provides flexibility to easily evaluate threshold-bound metrics. Also, ROC curve, along with AUC, can be obtained using different methods, such as empirical, binormal and non-parametric. ROCit encompasses a wide variety of methods for constructing confidence interval of ROC curve and AUC. ROCit also features the option of constructing empirical gains table, which is a handy tool for direct marketing. The package offers options for commonly used visualization, such as, ROC curve, KS plot, lift plot. Along with in-built default graphics setting, there are rooms for manual tweak by providing the necessary values as function arguments. ROCit is a powerful tool offering a range of things, yet it is very easy to use. Package: r-cran-rock Architecture: all Version: 0.9.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1683 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.tree, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-ggplot2, r-cran-glue, r-cran-htmltools, r-cran-markdown, r-cran-purrr, r-cran-squids, r-cran-yaml, r-cran-yum Suggests: r-cran-covr, r-cran-googlesheets4, r-cran-haven, r-cran-justifier, r-cran-knitr, r-cran-limonaid, r-cran-openxlsx, r-cran-pdftools, r-cran-pkgdown, r-cran-preregr, r-cran-readxl, r-cran-rmarkdown, r-cran-rvest, r-cran-rsvg, r-cran-rstudioapi, r-cran-striprtf, r-cran-testthat, r-cran-writexl, r-cran-xlconnect, r-cran-xml2, r-cran-zip Filename: pool/dists/focal/main/r-cran-rock_0.9.6-1.ca2004.1_all.deb Size: 1207596 MD5sum: 4e02ca5898e32773fff6dcfbc938d1b8 SHA1: 2036a821a6bbdd686c46c31442e2d543c2e28a3e SHA256: 4aaeb79af31a9506714121e4ecb8b2d5550d0db903a832385a1e197fe4db95c9 SHA512: 8c97dbf8920443472dcac80c2f0176283d069c69635e90009ce2952fedb23b91b75932cfa7cd2b1bae7f6596a8a27c6c5847b6c42290f16d510cc873958feeb0 Homepage: https://cran.r-project.org/package=rock Description: CRAN Package 'rock' (Reproducible Open Coding Kit) The Reproducible Open Coding Kit ('ROCK', and this package, 'rock') was developed to facilitate reproducible and open coding, specifically geared towards qualitative research methods. It was developed to be both human- and machine-readable, in the spirit of MarkDown and 'YAML'. The idea is that this makes it relatively easy to write other functions and packages to process 'ROCK' files. The 'rock' package contains functions for basic coding and analysis, such as collecting and showing coded fragments and prettifying sources, as well as a number of advanced analyses such as the Qualitative Network Approach and Qualitative/Unified Exploration of State Transitions. The 'ROCK' and this 'rock' package are described in the ROCK book (Zörgő & Peters, 2022; ), in Zörgő & Peters (2024) and Peters, Zörgő and van der Maas (2022) , and more information and tutorials are available at . 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Package: r-cran-rocnp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rocnp_0.1.0-1.ca2004.1_all.deb Size: 36560 MD5sum: cf725f47ba7fbd403876e3b62ff24929 SHA1: e68d62056141237c53f2e5ee6faa0c40c7e4d5cd SHA256: b87a882eb5e0a22817793da48273534139be47e172e136180b29d57af276f482 SHA512: dce98e617f046e50a5547b565c1626b8af0974331255bc7c2c036597fbd95b43e088a54bee5e347d1bffb8f8910604b167144857ae32b0f86f7a1f4ebf1923fc Homepage: https://cran.r-project.org/package=rocnp Description: CRAN Package 'rocnp' (Work with Romanian Personal Numeric Codes PNC / CNP) A set of tools for working with Romanian personal numeric codes. 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Package: r-cran-rollup Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 792 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-rlang, r-cran-magrittr, r-cran-sparklyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rollup_0.1.0-1.ca2004.1_all.deb Size: 307720 MD5sum: b570c88784e99098e80687d793698d02 SHA1: 8a9a8f5eb1b702fba18c2d003f66651d4f256f56 SHA256: 11b536fb2b528d768c8312794511bc869ce73a9d92e5b82f90dbdbb14a5872b5 SHA512: 49c8a1f0ee615ad7e0d958a4c6df07e0bb15d0ef8c4e3a1fc9fb8dabccfccb1ca2fc0e162dbe92671a8488009612c47fbf5a69d243ef78447a4ccb08257666f9 Homepage: https://cran.r-project.org/package=rollup Description: CRAN Package 'rollup' (A Tidy Grouping Set Aggregation) A Tidy implementation of 'grouping sets', 'rollup' and 'cube' - extensions of the 'group_by' clause that allow for computing multiple 'group_by' clauses in a single statement. For more detailed information on these functions, please refer to "Enhanced Aggregation, Cube, Grouping and Rollup" . Package: r-cran-rolluptree Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 453 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rolluptree_0.3.2-1.ca2004.1_all.deb Size: 257908 MD5sum: 9a09aee545163d0c26b42e852c375d70 SHA1: 4d57e9c62f3de730609edfb989798431298ca82f SHA256: 41b115f7e6db418006dbaa1ba8a1f289eb8d8cf8c6c78615ac9d3086bc11244c SHA512: f51cf569957de868607764b04e68ed4aa3bedeaaa4660ae30b0c1aefc014aceb7c244d81f43fa3d4d72a3219bf108d7f10d78f804530c72e0e82d6b9fb26a710 Homepage: https://cran.r-project.org/package=rollupTree Description: CRAN Package 'rollupTree' (Perform Recursive Computations) Mass rollup for a Bill of Materials is an example of a class of computations in which elements are arranged in a tree structure and some property of each element is a computed function of the corresponding values of its child elements. Leaf elements, i.e., those with no children, have values assigned. In many cases, the combining function is simple arithmetic sum; in other cases (e.g., mass properties), the combiner may involve other information such as the geometric relationship between parent and child, or statistical relations such as root-sum-of-squares (RSS). This package implements a general function for such problems. It is adapted to specific recursive computations by functional programming techniques; the caller passes a function as the update parameter to rollup() (or, at a lower level, passes functions as the get, set, combine, and override parameters to update_prop()) at runtime to specify the desired operations. The implementation relies on graph-theoretic algorithms from the 'igraph' package of Csárdi, et al. (2006 ). Package: r-cran-roloc Architecture: all Version: 0.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 232 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-colorspace Suggests: r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-roloc_0.1-2-1.ca2004.1_all.deb Size: 114752 MD5sum: 109fb0a80f95e09c642df11a8471ea76 SHA1: dfc33908dc42df2e82720a10ade15223ba10ba6b SHA256: 54da8dd0a8b446652d5e5f2aa251ae0ca61a80b7adca25af2e0650749d3deba8 SHA512: 88bdfd3e3048d965f7d97c6167e4f3a903015e0ce90f07dab9586a1220687c38844e87d5131cffdc041ea99748bc985a80a854d864a2788400f44f85696ecc5f Homepage: https://cran.r-project.org/package=roloc Description: CRAN Package 'roloc' (Convert Colour Specification to Colour Name) Functions to convert an R colour specification to a colour name. The user can select and create different lists of colour names and different colour metrics for the conversion. Package: r-cran-rolocisccnbs Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5574 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-roloc, r-cran-colorspace Filename: pool/dists/focal/main/r-cran-rolocisccnbs_0.1-1.ca2004.1_all.deb Size: 4283856 MD5sum: cd0f448edcfb6136d438d5a7a22dd880 SHA1: 602f12c710cb47c40a3d224f35c3d94a48bc6402 SHA256: 228ef0df42a367132db57a8e6dabaa51c5c115568601716f914f6fc49acb05ac SHA512: 28846089d3ba13dc4fbb422a105bd80f96b683a4791320b95a2b1731f62c911ce3e2ae7dc58ef44de5de2109569fa08922cc8a9dcc8b712462525827eb742e94 Homepage: https://cran.r-project.org/package=rolocISCCNBS Description: CRAN Package 'rolocISCCNBS' (A Colour List and Colour Metric Based on the ISCC-NBS System ofColor Designation) A colour list and colour metric based on the ISCC-NBS System of Color Designation for use with the 'roloc' package for converting colour specifications to colour names. Package: r-cran-rologit Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 169 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-evd Filename: pool/dists/focal/main/r-cran-rologit_0.1.3-1.ca2004.1_all.deb Size: 126560 MD5sum: c4ecffc5a3786c0ead54199641f0c019 SHA1: d4621142e3c70d821a2b4f1d1d926086aaafe966 SHA256: 1b53dfa9dc4c8e76bd528268583847fc8b7e22426e851f08843bed6eba062358 SHA512: 9e8bbda258099865ce8042cdb32d51ecc022bb69f93553c5eda93a1db0e4ed41918364b591751543b5254ab67ce6566ce1dca33b32235c14fcf1f5468126ff3f Homepage: https://cran.r-project.org/package=ROlogit Description: CRAN Package 'ROlogit' (Fit Rank-Ordered Logit (RO-Logit) Model) Implements the rank-ordered logit (RO-logit) model for stratified analysis of continuous outcomes introduced by Tan et al. (2017) . Model diagnostics based on the heuristic residuals and estimates in linear scales are available from the package, and outcomes with ties are supported. Package: r-cran-rolr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rolr_1.0.0-1.ca2004.1_all.deb Size: 46060 MD5sum: b152108f5154a07967562f955914fd2e SHA1: 3d22e48a5ca803ddd9f4c1a30309178836388b34 SHA256: 186d388e027dd2c1f74525c864bd6b0e8c063b2c0a7dea7036143d978ac7a851 SHA512: 254decf8e95c1eaacc80cb9e5dddc27129c517f4c79ea36ff5f7db51ffed8d7d48a080e951d09176eea936615e6ce3182660a436c30f0d86b668843d709c966c Homepage: https://cran.r-project.org/package=rolr Description: CRAN Package 'rolr' (Finding Optimal Three-Group Splits Based on a Survival Outcome) Provides fast procedures for exploring all pairs of cutpoints of a single covariate with respect to survival and determining optimal cutpoints using a hierarchical method and various ordered logrank tests. Package: r-cran-rolwinmulcor Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtools, r-cran-zoo, r-cran-pracma, r-cran-colorspace, r-cran-scales Filename: pool/dists/focal/main/r-cran-rolwinmulcor_1.2.0-1.ca2004.1_all.deb Size: 125364 MD5sum: d28fd7bf9a256fd1fe4fd82cf9dbdc05 SHA1: 2ba9a4b0d924d7a66e336c8a67468772c8e18220 SHA256: 40dd8d07062f153c635b7261a0e0848503f60e994255330c8d6aa7dbb3ac5e06 SHA512: 4e78348f885af46ba3f55b62aa40ba384a64e14bc169cd22f813a90bef7a40058c4da8005c83d5b6fd8ce63f91654dd74df64377cabba60455965feb77b3376f Homepage: https://cran.r-project.org/package=RolWinMulCor Description: CRAN Package 'RolWinMulCor' (Subroutines to Estimate Rolling Window Multiple Correlation) Rolling Window Multiple Correlation ('RolWinMulCor') estimates the rolling (running) window correlation for the bi- and multi-variate cases between regular (sampled on identical time points) time series, with especial emphasis to ecological data although this can be applied to other kinds of data sets. 'RolWinMulCor' is based on the concept of rolling, running or sliding window and is useful to evaluate the evolution of correlation through time and time-scales. 'RolWinMulCor' contains six functions. The first two focus on the bi-variate case: (1) rolwincor_1win() and (2) rolwincor_heatmap(), which estimate the correlation coefficients and the their respective p-values for only one window-length (time-scale) and considering all possible window-lengths or a band of window-lengths, respectively. The second two functions: (3) rolwinmulcor_1win() and (4) rolwinmulcor_heatmap() are designed to analyze the multi-variate case, following the bi-variate case to visually display the results, but these two approaches are methodologically different. That is, the multi-variate case estimates the adjusted coefficients of determination instead of the correlation coefficients. The last two functions: (5) plot_1win() and (6) plot_heatmap() are used to represent graphically the outputs of the four aforementioned functions as simple plots or as heat maps. The functions contained in 'RolWinMulCor' are highly flexible since these contains several parameters to control the estimation of correlation and the features of the plot output, e.g. to remove the (linear) trend contained in the time series under analysis, to choose different p-value correction methods (which are used to address the multiple comparison problem) or to personalise the plot outputs. The 'RolWinMulCor' package also provides examples with synthetic and real-life ecological time series to exemplify its use. Methods derived from H. Abdi. (2007) , R. Telford (2013) , and J. M. Polanco-Martinez (2020) . Package: r-cran-rolwinwavcor Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-waveslim Filename: pool/dists/focal/main/r-cran-rolwinwavcor_0.4.0-1.ca2004.1_all.deb Size: 94988 MD5sum: 3826dc804f949695f383b9b1dbc73924 SHA1: c21f826a65799278718438d7364414f56b8fede2 SHA256: f1ea4934218297e5b2dc35aaf22d98b92300db3a8d0d39dc28511d5daf530b29 SHA512: ce11adfa8832c830429adcf8f6f35f6dd08cc9e3deb9b26f1de8adeaebe10ed017344c44d06e20b1d8af454903e0c4a2ad397e339aa0493ebc0d08bc5a1eedd8 Homepage: https://cran.r-project.org/package=RolWinWavCor Description: CRAN Package 'RolWinWavCor' (Estimate Rolling Window Wavelet Correlation Between Two TimeSeries) Estimates and plots as a heat map the rolling window wavelet correlation (RWWC) coefficients statistically significant (within the 95% CI) between two regular (evenly spaced) time series. 'RolWinWavCor' also plots at the same graphic the time series under study. The 'RolWinWavCor' was designed for financial time series, but this software can be used with other kinds of data (e.g., climatic, ecological, geological, etc). The functions contained in 'RolWinWavCor' are highly flexible since these contains some parameters to personalize the time series under analysis and the heat maps of the rolling window wavelet correlation coefficients. Moreover, we have also included a data set (named EU_stock_markets) that contains nine European stock market indices to exemplify the use of the functions contained in 'RolWinWavCor'. Methods derived from Polanco-Martínez et al (2018) ). Package: r-cran-romdb Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-httr, r-cran-stringr, r-cran-rodbc, r-cran-magick Filename: pool/dists/focal/main/r-cran-romdb_0.1.0-1.ca2004.1_all.deb Size: 129680 MD5sum: ecebd4bc236bc2859a566fe0247c8321 SHA1: 9ad726bb7465c216dfa1e61bfbb98c8cd1755fed SHA256: 615de3831131e1696e03192fa0dbc1da58cb24762b1a1fa251288110cc0f49ba SHA512: 7fa610bf7de3fb71324f8f441e8c53ce194831dde88b306d40387fa05e5cf7cdce8c7918a4ff31576477d039ca723fe14f7840f28e49df256bbf15a60ebe3d61 Homepage: https://cran.r-project.org/package=ROMDB Description: CRAN Package 'ROMDB' (Get 'OMDB' API Multiple Information) Load multiple movies, series, actors, directors etc from 'OMDB' API. More information in: . Package: r-cran-romic Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1725 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-glue, r-cran-purrr, r-cran-readr, r-cran-reshape2, r-cran-rlang, r-cran-shiny, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-bioc-impute, r-cran-lazyeval, r-cran-plotly, r-cran-rmarkdown, r-cran-usethis, r-cran-testthat Filename: pool/dists/focal/main/r-cran-romic_1.1.3-1.ca2004.1_all.deb Size: 844616 MD5sum: bf76a3349f17f3690d296f07b1475ffa SHA1: 28a9d7ad3b19b8fc0ffd0130e748a0889cfaa2cb SHA256: f26a8c56b73243c16ee51f768368c94e18afdcc17a4bb61ad00ebb68f518124f SHA512: fb093eb2c2669964e795b1a2fed1e92377873af8f70fc386690465a9d5ad8b40fb1c8122e4347be9524e805486614f93a5de10a82b24ab3a7ac9aa0ab6d84701 Homepage: https://cran.r-project.org/package=romic Description: CRAN Package 'romic' (R for High-Dimensional Omic Data) Represents high-dimensional data as tables of features, samples and measurements, and a design list for tracking the meaning of individual variables. Using this format, filtering, normalization, and other transformations of a dataset can be carried out in a flexible manner. 'romic' takes advantage of these transformations to create interactive 'shiny' apps for exploratory data analysis such as an interactive heatmap. Package: r-cran-ronfhir Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 175 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-httr, r-cran-jsonlite, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ronfhir_0.4.0-1.ca2004.1_all.deb Size: 144464 MD5sum: 1cd2ab51aa1e329b945c9997bc969038 SHA1: 8dcbfc882d7eeba60bd02094d70bd27eb0a62239 SHA256: 1b842146ac8e26c5d9c9128b5a1cac8a33bca626b304f083cee728196b6af8a7 SHA512: 7f59939dd6608f28b9610c747a15e858d12810345099417a176e1546fc50fc3e645af9624d5b266728377be1fef476b075df0f0248fc6cb6d921d6a45bfa8b01 Homepage: https://cran.r-project.org/package=RonFHIR Description: CRAN Package 'RonFHIR' (Read and Search Interface to the 'HL7 FHIR' REST API) R on FHIR is an easy to use wrapper around the 'HL7 FHIR' REST API (STU 3 and R4). It provides tools to easily read and search resources on a FHIR server and brings the results into the R environment. R on FHIR is based on the FhirClient of the official 'HL7 FHIR .NET API', also made by Firely. Package: r-cran-roopsd Architecture: all Version: 0.3.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 486 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-r6, r-cran-lmoments, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-roopsd_0.3.9-1.ca2004.1_all.deb Size: 418924 MD5sum: 109676c3a46f2e6aa6de1be5fd850635 SHA1: e4239e2aba7cb5b5d89596a38abfe1507416b8f3 SHA256: 77992e609cc957c8dfb5a6423c6c74c8c823eb77f3ed4bf5d879687972985425 SHA512: 6a94d29bb394033c4d9fac2dc703af6a0ac1371f7bfee5002253e126cab60a19222d92af922580734312c8f04029352b750c85aceb22a4b2cf8a0d3c939fc32b Homepage: https://cran.r-project.org/package=ROOPSD Description: CRAN Package 'ROOPSD' (R Object Oriented Programming for Statistical Distribution) Statistical distribution in OOP (Object Oriented Programming) way. This package proposes a R6 class interface to classic statistical distribution, and new distributions can be easily added with the class AbstractDist. A useful point is the generic fit() method for each class, which uses a maximum likelihood estimation to find the parameters of a dataset, see, e.g. Hastie, T. and al (2009) . Furthermore, the rv_histogram class gives a non-parametric fit, with the same accessors that for the classic distribution. Finally, three random generators useful to build synthetic data are given: a multivariate normal generator, an orthogonal matrix generator, and a symmetric positive definite matrix generator, see Mezzadri, F. (2007) . Package: r-cran-roots Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-animation, r-cran-rarpack, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-roots_1.0-1.ca2004.1_all.deb Size: 120364 MD5sum: cc73e710b62b111131ffb35874b4df25 SHA1: a53123728f76ebe3525bcb3d1bc3219614f57fbc SHA256: 9f66277a67c2d234e8f203bd8b2f169164b9fa4a6fda2a870a57d230d403d27e SHA512: f185e646eebce66c1ff6b0fe816a6e5a819a51630ad437f9752b707d0623fe1a955957098cf17f3d603e3be6675cc1fe7e7877f8ea67d3dc2d3da9c903a76ed1 Homepage: https://cran.r-project.org/package=roots Description: CRAN Package 'roots' (Reconstructing Ordered Ontogenic Trajectories) A set of tools to reconstruct ordered ontogenic trajectories from single cell RNAseq data. Package: r-cran-rootsextremainflections Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 207 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-iterators, r-cran-foreach, r-cran-doparallel, r-cran-inflection Filename: pool/dists/focal/main/r-cran-rootsextremainflections_1.2.1-1.ca2004.1_all.deb Size: 175192 MD5sum: 1e2473dea2ea1c27f1f0a4a254126885 SHA1: 4e76c1cc3077b9db5af2ae1ece829226f40a3ce0 SHA256: 00e33f616a7333685575ea712b4fad42621afc30153551bef97a55215f16bc3d SHA512: 0838e461a6aa44e495cecd4ccd9631ba8c56dd7826588bd4a3cd26431f7c556178f0963d13d4b52a49378988c3cac08a14d3cc4d9c8c232766855e72ca3f21d6 Homepage: https://cran.r-project.org/package=RootsExtremaInflections Description: CRAN Package 'RootsExtremaInflections' (Finds Roots, Extrema and Inflection Points of a Curve) Implementation of Taylor Regression Estimator (TRE), Tulip Extreme Finding Estimator (TEFE), Bell Extreme Finding Estimator (BEFE), Integration Extreme Finding Estimator (IEFE) and Integration Root Finding Estimator (IRFE) for roots, extrema and inflections of a curve . Christopoulos, DT (2019) . Christopoulos, DT (2016) . Christopoulos, DT (2016) . Christopoulos, DT (2014) . Package: r-cran-rop Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rocr Filename: pool/dists/focal/main/r-cran-rop_1.0-1.ca2004.1_all.deb Size: 49024 MD5sum: ce3d8fca9fea1c18fa957453c39f0374 SHA1: 837633669ca9b2459cd701c164d3145634d2402d SHA256: 6e2e0aa0d45d9a0e986d4fa504795fbccb6d9a81a71f1d475c576706ae1257e6 SHA512: e98cc3baf88a943ff081f1d87955f344107bacceb36fa62a50e0b767bdb610fbd51173c432316f41364a0fdd008aa6759d2a24114b7b29260a04f7efd75eb4d7 Homepage: https://cran.r-project.org/package=ROP Description: CRAN Package 'ROP' (Regression Optimized: Numerical Approach for MultivariateClassification and Regression Trees) Trees Classification and Regression using multivariate nodes calculated by an exhaustive numerical approach. We propose a new concept of decision tree, including multivariate knots and non hierarchical pathway. This package's model uses a multivariate nodes tree that calculates directly a risk score for each observation for the state Y observed. Nguyen JM, Gaultier A, Antonioli D (2015) Castillo JM, Knol AC, Nguyen JM, Khammari A, Saint Jean M, Dreno B (2016) Vildy S, Nguyen JM, Gaultier A, Khammari A, Dreno B (2017) Nguyen JM, Gaultier A, Antonioli D (2018) . Package: r-cran-rope Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1008 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-matrix, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rope_1.0-1.ca2004.1_all.deb Size: 960696 MD5sum: 2572891bc59b1c7a299385ac9d400d4a SHA1: 44f856e7e07d3173094646cf92f7ede4096a620d SHA256: fb78ac8429c3498f450ffe0d62292bbc5b1c4a3bad1b75b4f036a19fab159f5c SHA512: 88ac39a69741fa515dc97e4463f24ba6bc354f6b86a73dcf2a160b3eb95471709b2462e435c33c5c21435d6a4d0244721aedc16d5e8792f3c458edc334aef9b4 Homepage: https://cran.r-project.org/package=rope Description: CRAN Package 'rope' (Model Selection with FDR Control of Selected Variables) Selects one model with variable selection FDR controlled at a specified level. A q-value for each potential variable is also returned. The input, variable selection counts over many bootstraps for several levels of penalization, is modeled as coming from a beta-binomial mixture distribution. 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Package: r-cran-ropenfigi Architecture: all Version: 0.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-ropenfigi_0.2.8-1.ca2004.1_all.deb Size: 21752 MD5sum: 250c931eb6d68d1236a954439b449ead SHA1: de08788a7d854da1169a7118cd043b4240ecbe50 SHA256: 6a4442dee292f63053cb42fcf617abceac85a94c2d69b5c06d050e5da980a9aa SHA512: 9d146d315792e108339c3faf2626b5207d4155234a41f57edddf1cf1087ea81bfa19cf619bc4630fc54239824d58df2d0971e25176939b1076c5db27ff37c284 Homepage: https://cran.r-project.org/package=ROpenFIGI Description: CRAN Package 'ROpenFIGI' (R Interface to OpenFIGI) Provide a simple interface to Bloomberg's OpenFIGI API. Please see for API details and registration. You may be eligible to have an API key to accelerate your loading process. Package: r-cran-ropenmeteo Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4904 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-lubridate, r-cran-glue, r-cran-imputets, r-cran-httr2, r-cran-jsonlite Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-readr, r-cran-tibble, r-cran-spelling Filename: pool/dists/focal/main/r-cran-ropenmeteo_0.1.1-1.ca2004.1_all.deb Size: 532000 MD5sum: cfa4b667d549b5f3b4904095f5c7598b SHA1: 392e4d09f79629ed33f02c0a4701419f1ae6c3b0 SHA256: 6f6e704da24158e88c1f7290c5ef143122ce06732ba0f343449df072e657ec83 SHA512: f31a19961b01ba5bc582459ba7d96b064217102c118856169b17f10ee42bd9d043fcaa8db4a48518448ffd40961cd7bd60c496572eb3eadf199d84a046960d38 Homepage: https://cran.r-project.org/package=ropenmeteo Description: CRAN Package 'ropenmeteo' (Wrappers for 'Open-Meteo' API) Wrappers for the Application Programming Interface from the project along with helper functions. 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Package: r-cran-ropenweathermap Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-rcurl, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-ropenweathermap_1.1-1.ca2004.1_all.deb Size: 18800 MD5sum: 49c3f132b420962ec61a0d665b44ea43 SHA1: fe36bdd7aa6841bb57a0507641d8688af04a0837 SHA256: 34acaf4344e7ddefc197866e9ba876e10cf89b7e6e89c8e3725d72a0bbe7ae20 SHA512: da74f76f0d66c054432fcf77daa15917bbdb818e503ca235e9da44ab82f3cff7c5b38ceb4d772c4cdf0f3673e8bda616fa87e3c3ff54c5621770bfbacfa564ff Homepage: https://cran.r-project.org/package=ROpenWeatherMap Description: CRAN Package 'ROpenWeatherMap' (R Interface to OpenWeatherMap API) OpenWeatherMap (OWM) is a service providing weather related data. This package can be used to access current weather data for one location or several locations. 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Package: r-cran-ropercenter Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1518 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rselenium, r-cran-dplyr, r-cran-foreign, r-cran-haven, r-cran-magrittr, r-cran-netstat, r-cran-purrr, r-cran-readr, r-cran-rio, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ropercenter_0.3.2-1.ca2004.1_all.deb Size: 1007388 MD5sum: f0d544f0780aff66b5a3d14af99edcdb SHA1: 296d4cd9e3f06e972a03e98371fbd6162016c950 SHA256: 9306086d523e7f16713dc57876a5887c998996a16b6ae8ce5f2999f63571446e SHA512: cf337ca0b4ae71c6bc5cbd09482cad597caf6493aa2b8ec1a90711b5554d9385a00c171439a8137a19ea56bd03d1516f2a616d19498794ca63ccb86b96b73a9a Homepage: https://cran.r-project.org/package=ropercenter Description: CRAN Package 'ropercenter' (Reproducible Data Retrieval from the Roper Center Data Archive) Reproducible, programmatic retrieval of datasets from the Roper Center data archive. 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Package: r-cran-roprov Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fastdigest, r-cran-codedepends, r-cran-igraph Filename: pool/dists/focal/main/r-cran-roprov_0.1.2-1.ca2004.1_all.deb Size: 101024 MD5sum: cbe729fbb6584b458113208ddaf88a57 SHA1: ef26f20282dc59129d1e75e04d4aacdb399c19af SHA256: c08c3215248fd1b6a1df603495928e876ff056ef682b0d4db15d40d1e0a7c832 SHA512: 845c29d3cc3c0e168bd8637b6172e3e21b98c05909f14b940d6dc6bcb80335b33480954ab7632e23e926c9f71d5f53797fe2ff6e94364ec6a731ff487f1272b6 Homepage: https://cran.r-project.org/package=roprov Description: CRAN Package 'roprov' (Low-Level Support for Provenance Capture Between in-Memory RObjects) A suite of classes and methods which provide low-level support for modeling provenance between in-memory R objects. This is an infrastructure package and is not intended to be used directly by end-users. Package: r-cran-roptest Architecture: all Version: 1.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1906 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-distr, r-cran-distrex, r-cran-distrmod, r-cran-randvar, r-cran-robastbase, r-cran-startupmsg, r-cran-mass Suggests: r-cran-roblox Filename: pool/dists/focal/main/r-cran-roptest_1.3.5-1.ca2004.1_all.deb Size: 1175524 MD5sum: ab0a0937087c296b8805226905f2c898 SHA1: 40e2e812f1e973036800827d39f8ef87270acb01 SHA256: 25949b516a257912b255ae10a7fd65f5ab60b03a2ff5bed9df2fffaaca6ce0fe SHA512: e0a79627b66d82462b399a8f685c535167cd6c0c1253d35dc45e3c692df808593833f3f6fb6aa65074a0ae8e5debe97d552ce90467c184d449954403d06f8f6f Homepage: https://cran.r-project.org/package=ROptEst Description: CRAN Package 'ROptEst' (Optimally Robust Estimation) R infrastructure for optimally robust estimation in general smoothly parameterized models using S4 classes and methods as described Kohl, M., Ruckdeschel, P., and Rieder, H. 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Package: r-cran-roptimus Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3635 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-iterators Filename: pool/dists/focal/main/r-cran-roptimus_3.0.0-1.ca2004.1_all.deb Size: 1103880 MD5sum: ec6d1da178264fb369970e12e44c90aa SHA1: 1f44fc95ae07d9037ee787ccd68f6b7aa990f4f9 SHA256: 3b23455969108e8ae9e4c0d994b6225780254be8acc9467e88fca2d86832398e SHA512: 9dacff8f2af0b58ba2183eed6b6bf68fe73b23ba77e4c99efb99eaa04e007913f2ceaf55eff63434fc142ef8e3eee2ae366143082a7cf46cda728eae852fd977 Homepage: https://cran.r-project.org/package=ROptimus Description: CRAN Package 'ROptimus' (A Parallel General-Purpose Adaptive Optimisation Engine) A general-purpose optimisation engine that supports i) Monte Carlo optimisation with Metropolis criterion [Metropolis et al. (1953) , Hastings (1970) ] and Acceptance Ratio Simulated Annealing [Kirkpatrick et al. 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Package: r-cran-roptions Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-ggplot2, r-cran-plotly Filename: pool/dists/focal/main/r-cran-roptions_1.0.3-1.ca2004.1_all.deb Size: 102360 MD5sum: 18dcdaad25527589b8ae062a9b98bba9 SHA1: 55c873b9c578cf4a6591e55ef3f7d1811b39e7e5 SHA256: 3f013a3a109b67b11ea03f258da8f0206ba0ab9fdc69187d40e56a89fb6647e4 SHA512: 80a8cf9126ef4f4d4e8c880f1b3fbefec705cd967ded5210c7438b6b5ac7e6f62d56feed6f8a004312cc0b287db75f7acdc36745ca1805f94a8d3800e1ea64bf Homepage: https://cran.r-project.org/package=roptions Description: CRAN Package 'roptions' (Option Strategies and Valuation) Collection of tools to develop options strategies, value option contracts using the Black-Scholes-Merten option pricing model and calculate the option Greeks. Hull, John C. "Options, Futures, and Other Derivatives" (1997, ISBN:0-13-601589-1). Fischer Black, Myron Scholes (1973) "The Pricing of Options and Corporate Liabilities" . Package: r-cran-roptregts Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1218 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-roptregts_1.2.0-1.ca2004.1_all.deb Size: 813084 MD5sum: 6b1d6930926ad678f84c5808e7fe0ad5 SHA1: 4f13e7f6cbf0d3768b67f1e3c13060acebed8497 SHA256: 5b802b4e5a89fe9bfc042f53554e7b5b2e2e47ae13f6e6221aa933327dd917cd SHA512: 4efcc534ac16cc2844cf7461278edb40ec11d00f6b6c02cd77b007ce46a2df014edd85c8265ef35500b4cf541f8cf03ce1ce8bf659da172999df74866c974202 Homepage: https://cran.r-project.org/package=ROptRegTS Description: CRAN Package 'ROptRegTS' (Optimally Robust Estimation for Regression-Type Models) Optimally robust estimation for regression-type models using S4 classes and methods. 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Functions included for searching for people, searching by 'DOI', and searching by 'Orcid' 'ID'. 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This package performs analyses of corneal data obtained from a Placido disk corneal topographer, with the calculation of the Placido irregularity indices and the posterior analysis. The package is intended to be easy to use by a practitioner, providing a simple interface and yielding easily interpretable results. A corneal topographer is an ophthalmic clinical device that obtains measurements in the cornea (the anterior part of the eye). A Placido disk corneal topographer makes use of the Placido disk [Rowsey et al. (1981)], which produce a circular pattern of measurement nodes. The raw information measured by such a topographer is used by practitioners to analyze curvatures, to study optical aberrations, or to diagnose specific conditions of the eye (e.g. keratoconus, an important corneal disease). The rPACI package allows the calculation of the corneal irregularity indices described in [Castro-Luna et al. (2020)], [Ramos-Lopez et al. (2013)], and [Ramos-Lopez et al. (2011)]. It provides a simple interface to read corneal topography data files as exported by a typical Placido disk topographer, to compute the irregularity indices mentioned before, and to display summary plots that are easy to interpret for a clinician. 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'Rpadrino' is an R interface to this database. For more information on Integral Projection Models, see Easterling et al. (2000) , Merow et al. (2013) , Rees et al. (2014) , and Metcalf et al. (2015) . See Levin et al. (2021) for more information on 'ipmr', the engine that powers model reconstruction . 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In this package non-linear fitting using a modified Gaussian model with a parabolic variance (PVMG) has been implemented to obtain the retention time and height at the peak maximum. This package also includes the traditional Van Deemter approach and two alternatives approaches to characterize chromatographic column. 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We developed a PlEC for the 2024 Placental Clock DREAM Challenge (). Our PlEC achieved the top performance based on an independent test set. PlEC can be used to identify accelerated/decelerated aging of placenta for understanding placental dysfunction-related conditions, e.g., great obstetrical syndromes including preeclampsia, fetal growth restriction, preterm labor, preterm premature rupture of the membranes, late spontaneous abortion, and placental abruption. Detailed methodologies and examples are documented in our vignette, available at . 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The package's primary purpose is to input a set of quantification files representing dilution series of samples and control points taken from scanned RPPA slides and determine a relative log concentration value for each valid dilution series present in each slide and provide graphical visualization of the input and output data and their relationships. Other optional features include generation of quality control scores for judging the quality of the input data, spatial adjustment of sample points based on controls added to the slides, and various types of normalization of calculated values across a set of slides. The package was derived from a previous package named SuperCurve. For a detailed description of data inputs and outputs, usage information, and a list of related papers describing methods used in the package please review the vignette 'Guide_to_RPPASPACE'. 'RPPA SPACE: an R package for normalization and quantitation of Reverse-Phase Protein Array data'. 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Package: r-cran-rrepast Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 364 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lhs, r-cran-sensitivity, r-cran-ggplot2, r-cran-digest, r-cran-xlsx, r-cran-dosnow, r-cran-rjava, r-cran-gridextra, r-cran-foreach Filename: pool/dists/focal/main/r-cran-rrepast_0.8.0-1.ca2004.1_all.deb Size: 287512 MD5sum: e690a20d19116d4784d2ffa726cbc78c SHA1: ba47327e39eef83c3cbc3ff3ec3c3ec80d70914e SHA256: 1c1abd504e28388e9aec74d1316e82c065904cd6362608bf87b2f3340c4f479c SHA512: 8b06e979fde90422a4effba13f96ef81a5273760bb22fcc7f5786427493ad57f6d18bbe9e670ce622b9635f4a95838a608340511a47cca9e2c51653c947b69c7 Homepage: https://cran.r-project.org/package=rrepast Description: CRAN Package 'rrepast' (Invoke 'Repast Simphony' Simulation Models) An R and Repast integration tool for running individual-based (IbM) simulation models developed using 'Repast Simphony' Agent-Based framework directly from R code supporting multicore execution. 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Package: r-cran-rrepest Architecture: all Version: 1.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2040 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-doparallel, r-cran-dplyr, r-cran-flextable, r-cran-foreach, r-cran-labelled, r-cran-magrittr, r-cran-officer, r-cran-purrr, r-cran-stringr, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-rrepest_1.5.4-1.ca2004.1_all.deb Size: 2002604 MD5sum: 7039093e2f49bf765f2878d180b0bd99 SHA1: f29de13dbc15993477e075fc1def02df8911ba75 SHA256: a10d9114c2b234fd1108ed70d97e7ba0035215d52875f343e11d3f85e2de69ac SHA512: c0ece78d489c49bcb360b0602be743c3cf4836b5fc3c41542630e9a922e4e726b363e7abc2e72a1e3e8254887b5fc2af09c5af76174025e4b7841f4c64257c72 Homepage: https://cran.r-project.org/package=Rrepest Description: CRAN Package 'Rrepest' (An Analyzer of International Large Scale Assessments inEducation) An easy way to analyze international large-scale assessments and surveys in education or any other dataset that includes replicated weights (Balanced Repeated Replication (BRR) weights, Jackknife replicate weights,...) while also allowing for analysis with multiply imputed variables (plausible values). It supports the estimation of univariate statistics (e.g. mean, variance, standard deviation, quantiles), frequencies, correlation, linear regression and any other model already implemented in R that takes a data frame and weights as parameters. It also includes options to prepare the results for publication, following the table formatting standards of the Organization for Economic Cooperation and Development (OECD). Package: r-cran-rrgeo Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2906 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-pbapply, r-cran-rphylopars, r-cran-rrphylo, r-cran-dismo, r-cran-gtools, r-cran-terra, r-cran-adehabitatma, r-cran-ecospat, r-cran-foreach, r-cran-doparallel, r-cran-presenceabsence, r-cran-ade4, r-cran-sp, r-cran-sf, r-cran-scales, r-cran-ks, r-cran-leastcostpath, r-cran-dosnow, r-cran-biomod2 Suggests: r-cran-ggplot2, r-cran-cowplot, r-cran-openxlsx, r-cran-curl, r-cran-rnaturalearth, r-cran-spatstat.geom, r-cran-spatstat.explore, r-cran-knitr, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-rrgeo_0.0.3-1.ca2004.1_all.deb Size: 2361108 MD5sum: bd0297da1a6ee38e8cf364ec80382945 SHA1: 0d879d24cda1a575c7924875df819f625027e192 SHA256: bebd14c16bbf670f4f2c28f730eee62a5915051fb64df31cc13ecdb248cdac71 SHA512: ca1c8814bf53647753075f46882362047d337eadf7c723fb38959d4b032f8b4cf720842689738862f0170ee03f1f901f9bfbc7f5b82aef5e1e67be8572570c9e Homepage: https://cran.r-project.org/package=RRgeo Description: CRAN Package 'RRgeo' (Species Distribution Modelling for Rare Species) Performs species distribution modeling for rare species with unprecedented accuracy (Mondanaro et al., 2023 ) and finds the area of origin of species and past contact between them taking climatic variability in full consideration (Mondanaro et al., 2025 ). 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Two main functions fit.perc() and fit.cont() provide users a GUI that allows to choose a most appropriate distribution without any knowledge of the R syntax. Note, this package is a part of the 'rrisk' project. Package: r-cran-rrmlrfmc Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nnet Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-rrmlrfmc_0.4.0-1.ca2004.1_all.deb Size: 70480 MD5sum: cebc7a89147150f77feffb3505eefe31 SHA1: a5e173dddb0eee2f98f3af7f1d541a18ba575776 SHA256: 37e2a683203c9b7ffecd2c2868cceb9e1b2f9c572a52c1bfd391ec606a9ca76e SHA512: de06c174d532b16df51fdef8c68e434f79112860ebb809e784fe6f075b22c16658f7f2e1b5d9aa6a43c68fb80cebd88a0ce067bad3ffed9ac60375423b603430 Homepage: https://cran.r-project.org/package=RRMLRfMC Description: CRAN Package 'RRMLRfMC' (Reduced-Rank Multinomial Logistic Regression for Markov Chains) Fit the reduced-rank multinomial logistic regression model for Markov chains developed by Wang, Abner, Fardo, Schmitt, Jicha, Eldik and Kryscio (2021) in R. 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Package: r-cran-rrmorph Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3363 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-morpho, r-cran-rgl, r-cran-rvcg, r-cran-rrphylo Suggests: r-cran-inflection, r-cran-ddpcr, r-cran-ape, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rrmorph_0.0.1-1.ca2004.1_all.deb Size: 1708884 MD5sum: 6ec521e8762c7f8e24233404d16acce0 SHA1: c3b2389f0fb3c0bc83ddd335b386c6ae08b6c631 SHA256: 0cd3006df4a7803e4301c8109bae524f375b12b2c04461f63a4c3c59d26ac338 SHA512: b5f49f049076f2126fda6a8a43c3d7c3980cfe992fe9f1d1809fae0c085cd7a360d949ea80e1272173f79f5725d13e4f5197b2c5920bd67ad46f622ca7a0e8d0 Homepage: https://cran.r-project.org/package=RRmorph Description: CRAN Package 'RRmorph' (3D Morphological Analyses with 'RRphylo') Combined with 'RRphylo', this package provides a powerful tool to analyse and visualise 3d models (surfaces and meshes) in a phylogenetically explicit context (Melchionna et al., 2024 ). Package: r-cran-rrna Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rrna_1.2-1.ca2004.1_all.deb Size: 118544 MD5sum: 959933a527591f4932801db0c8975543 SHA1: f8749ebbee32b478714c1d03f5c5c699183d6db2 SHA256: 51d433749ccaec1bc37c3337e46368ee3e2d5a1dd1daa76065ac8b91ce3d04af SHA512: f28e4d96814f9f63e1efe666dd6b822cd91c4194b468ee3469fb1f890228ee088906ea9f8c162a6f9869464ca26434d07ed7ab13071ba4cf4d9e882178594727 Homepage: https://cran.r-project.org/package=RRNA Description: CRAN Package 'RRNA' (Secondary Structure Plotting for RNA) Functions for creating and manipulating RNA secondary structure plots. Package: r-cran-rroad Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 536 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-zoo, r-cran-biwavelet Filename: pool/dists/focal/main/r-cran-rroad_0.0.5-1.ca2004.1_all.deb Size: 379832 MD5sum: a6d74d56addd9830b142404301579651 SHA1: d70afd4cf3c2a94e4a9653c0fc796e5f0da78be1 SHA256: 7ac49ba4c6351a6c42e85028333d15c13777c3fa99f19a02c775e0208aac076c SHA512: 4d84dae40b2dcd03713f3a7008f00b78c25dafef274776e387b71392b2ef27510cee655640234c6c1b0d59bab924922bdf421912e7d5f738cbde494b054d9fba Homepage: https://cran.r-project.org/package=rroad Description: CRAN Package 'rroad' (Road Condition Analysis) Computation of the International Roughness Index (IRI) given a longitudinal road profile. The IRI can be calculated for a single road segment or for a sequence of segments with a fixed length (e. g. 100m). For the latter, an overlap of the segments can be selected. The IRI and likewise the algorithms for its determination are defined in Sayers, Michael W; Gillespie, Thomas D; Queiroz, Cesar A.V. 1986. The International Road Roughness Experiment (IRRE) : establishing correlation and a calibration standard for measurements. World Bank technical paper; no. WTP 45. Washington, DC : The World Bank. (ISBN 0-8213-0589-1) available from . 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Package: r-cran-rromeo Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 714 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vcr, r-cran-isocodes, r-cran-mockery Filename: pool/dists/focal/main/r-cran-rromeo_0.1.1-1.ca2004.1_all.deb Size: 167948 MD5sum: 25f4be097bd82ca60d220d42a6c3cd21 SHA1: 5ec4063f098048446fb94776007008e5b1dfe8f0 SHA256: 3a7673d34ecb8af836a13ebbf6d0a38ab3fb2b91d5e4940d4a07b860741879dd SHA512: f130998e4ac7d01b3e17aa576f8c88c632863b4906c81562869e8f80990ee83e1630b1ef13ba7ea9360b14370907cd380ad9c15c1933042b6ee4ae59ea6b2d3f Homepage: https://cran.r-project.org/package=rromeo Description: CRAN Package 'rromeo' (Access Publisher Copyright & Self-Archiving Policies via the'SHERPA/RoMEO' API) Fetches information from the 'SHERPA/RoMEO' API which indexes policies of journal regarding the archival of scientific manuscripts before and/or after peer-review as well as formatted manuscripts. 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The functions perform the estimation of phenotypic evolutionary rates, identification of phenotypic evolutionary rate shifts, quantification of direction and size of evolutionary change in multivariate traits, the computation of ontogenetic shape vectors and test for morphological convergence. Package: r-cran-rrpp Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1827 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-ggplot2, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-dplyr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-rrpp_2.1.2-1.ca2004.1_all.deb Size: 1534688 MD5sum: 55740f7d5b36bff1da9b3a7cd8430e44 SHA1: 8418a6accde9d7f68768b060675cee5c337f9576 SHA256: 2f40fe3233e03dbd28b7084a141c0967b8a9e8c5651bdd1fb3d703cf35d67b08 SHA512: a9592ee452b95c012753be0ce42f6442449b4b8fa4133ea8773619baf7652b0d3a651c042dd3ed888415a44e00e8c1fc8a05a4c162bcf451c61fe63c39a82db3 Homepage: https://cran.r-project.org/package=RRPP Description: CRAN Package 'RRPP' (Linear Model Evaluation with Randomized Residuals in aPermutation Procedure) Linear model calculations are made for many random versions of data. Using residual randomization in a permutation procedure, sums of squares are calculated over many permutations to generate empirical probability distributions for evaluating model effects. Additionally, coefficients, statistics, fitted values, and residuals generated over many permutations can be used for various procedures including pairwise tests, prediction, classification, and model comparison. This package should provide most tools one could need for the analysis of high-dimensional data, especially in ecology and evolutionary biology, but certainly other fields, as well. Package: r-cran-rrr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2298 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcpp, r-cran-mass, r-cran-magrittr, r-cran-dplyr, r-cran-ggplot2, r-cran-plotly, r-cran-ggally Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-readr Filename: pool/dists/focal/main/r-cran-rrr_1.0.0-1.ca2004.1_all.deb Size: 1970280 MD5sum: 15dbfcc552a0617b7d95e01ca41aaf4f SHA1: e3b2300d30923b90b2a26499356e196f6b7b8bc6 SHA256: fb9d29ca732ae5c154088f5a190cadef5d2983a61731a2d31d6e466a70a1ebd0 SHA512: 38bb6eeb0f7b294e960c9ddd05ab3e8c2c70f93599fc59947a3ad84c39cdfb140dc3f57bb631ab307325e486754414710474d8470530ac7f72247a7d5bbb0b7e Homepage: https://cran.r-project.org/package=rrr Description: CRAN Package 'rrr' (Reduced-Rank Regression) Reduced-rank regression, diagnostics and graphics. Package: r-cran-rrreg Architecture: all Version: 0.7.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1149 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-lme4 Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-rrreg_0.7.5-1.ca2004.1_all.deb Size: 877160 MD5sum: a59bf2e5b64c4d97c26c22569b5ca473 SHA1: 3d3a7550ed5cdc34b43bc6211cfd439ce034119e SHA256: 3e294b236906c6dde28fda74f135478d26642a0128badabea124e4e659b52094 SHA512: 99ed2decae213837ec9ffd7cd46a66e6fb11e8daac48c689c09c93d331d941c790dde34cf922f677c2620e90b6e2f4d3bc60f38824814f4b2526f91c4badb1a8 Homepage: https://cran.r-project.org/package=RRreg Description: CRAN Package 'RRreg' (Correlation and Regression Analyses for Randomized Response Data) Univariate and multivariate methods to analyze randomized response (RR) survey designs (e.g., Warner, S. L. (1965). Randomized response: A survey technique for eliminating evasive answer bias. Journal of the American Statistical Association, 60, 63–69, ). Besides univariate estimates of true proportions, RR variables can be used for correlations, as dependent variable in a logistic regression (with or without random effects), or as predictors in a linear regression (Heck, D. W., & Moshagen, M. (2018). RRreg: An R package for correlation and regression analyses of randomized response data. Journal of Statistical Software, 85(2), 1–29, ). For simulations and the estimation of statistical power, RR data can be generated according to several models. The implemented methods also allow to test the link between continuous covariates and dishonesty in cheating paradigms such as the coin-toss or dice-roll task (Moshagen, M., & Hilbig, B. E. (2017). The statistical analysis of cheating paradigms. Behavior Research Methods, 49, 724–732, ). Package: r-cran-rrrr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 268 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrixcalc, r-cran-expm, r-cran-ggplot2, r-cran-magrittr, r-cran-mvtnorm Suggests: r-cran-lazybar, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rrrr_1.1.1-1.ca2004.1_all.deb Size: 177156 MD5sum: 730b5f338f3985a680a3f223693a2a1b SHA1: 9309364fbce3abba9b377b7f8cbeea19bdcfd3c4 SHA256: badc1d829c96a99a21802d3da045e4b7ed157dceaf46ce2b55806057a5ad27ad SHA512: da453d4c5a9da30a039b1fb172dd0f8affdf6ea6a3540fde3659d7a6eb5df659b0cb073586e83ffce0b01d08576884c6d6a0b2f3292be8525cf725f4785f694f Homepage: https://cran.r-project.org/package=RRRR Description: CRAN Package 'RRRR' (Online Robust Reduced-Rank Regression Estimation) Methods for estimating online robust reduced-rank regression. The Gaussian maximum likelihood estimation method is described in Johansen, S. (1991) . The majorisation-minimisation estimation method is partly described in Zhao, Z., & Palomar, D. P. (2017) . The description of the generic stochastic successive upper-bound minimisation method and the sample average approximation can be found in Razaviyayn, M., Sanjabi, M., & Luo, Z. Q. (2016) . Package: r-cran-rrscale Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 343 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-deoptim, r-cran-nloptr, r-cran-abind Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-rrscale_1.0-1.ca2004.1_all.deb Size: 205208 MD5sum: b352a0507a80ce736b7b3cd8a0851808 SHA1: e589a29f749e7c4576fd425cb349b6a885b7198c SHA256: 1fe7fa750fd778fd1a36253696c69d2e7c3a897f841037140bbbe4877e994b31 SHA512: b6e36987df8929ceeaf44c93849419a1c4271ed98b8f98d14f6c90a39110d111698fca90f71c5e54e3e068e4674200efdc096a13ba8238a27faae0a8d9f45ab2 Homepage: https://cran.r-project.org/package=rrscale Description: CRAN Package 'rrscale' (Robust Re-Scaling to Better Recover Latent Effects in Data) Non-linear transformations of data to better discover latent effects. 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The workflow is (1) to define a statistic of interest that can be calculated from a data table, (2) to randomize rows ad/or columns of a data table to simulate a null hypothesis and (3) and to score the value of the statistic from many randomizations. The relative frequency distribution of the statistic in the simulations is then used to infer the probability of the observed value be generated by the null process (probability of Type I error). This package intends to translate this logic for R for teaching purposes. Keeping the original workflow is favored over performance. 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Package: r-cran-rsca Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rsca_3.1-1.ca2004.1_all.deb Size: 83268 MD5sum: 78076d96a6c638e8dc051855244f936d SHA1: 3b2a8ec93216703fd3a7607fb45617ecf1352332 SHA256: 44ef147ad58346687acdcdefa4b8264791f52acefdb3a15bc1674640ce01491f SHA512: f6e51eb040c449cc218fbc2aa71ec141bda064f6eee755f85a0a3ae9e422bbf548d20bcdafc9b072dd55dcf3ca4dc6d7e2be56214a7dad6bba0730358a099323 Homepage: https://cran.r-project.org/package=rSCA Description: CRAN Package 'rSCA' (An R Package for Stepwise Cluster Analysis) A statistical tool for multivariate modeling and clustering using stepwise cluster analysis. The modeling output of rSCA is constructed as a cluster tree to represent the complicated relationships between multiple dependent and independent variables. 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Package: r-cran-rshape Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 389 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-abind, r-cran-sn, r-cran-vgam, r-cran-evd, r-cran-rsqlite, r-cran-dbi, r-cran-foreach, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-rshape_0.3.2-1.ca2004.1_all.deb Size: 330628 MD5sum: 8090140fbc9f730b8e74a6f8011e1223 SHA1: c72a4bed36b8f13f8991600b22ea0ccc7c78eeba SHA256: 5e1768ff69bece6921749a7c143f68c2f7dd9c7d0ee7668ba91933492887200f SHA512: c367bf95c6a241cfbc0013a6bd7991e61644eebecf1a435ecb2bed7b393b5787c04b56713dc7b9887a6a03fe408ee26ec15c012a74f70408de2cd2b910c80b50 Homepage: https://cran.r-project.org/package=rSHAPE Description: CRAN Package 'rSHAPE' (Simulated Haploid Asexual Population Evolution) In silico experimental evolution offers a cost-and-time effective means to test evolutionary hypotheses. Existing evolutionary simulation tools focus on simulations in a limited experimental framework, and tend to report on only the results presumed of interest by the tools designer. The R-package for Simulated Haploid Asexual Population Evolution ('rSHAPE') addresses these concerns by implementing a robust simulation framework that outputs complete population demographic and genomic information for in silico evolving communities. Allowing more than 60 parameters to be specified, 'rSHAPE' simulates evolution across discrete time-steps for an evolving community of haploid asexual populations with binary state genomes. These settings are for the current state of 'rSHAPE' and future steps will be to increase the breadth of evolutionary conditions permitted. At present, most effort was placed into permitting varied growth models to be simulated (such as constant size, exponential growth, and logistic growth) as well as various fitness landscape models to reflect the evolutionary landscape (e.g.: Additive, House of Cards - Stuart Kauffman and Simon Levin (1987) , NK - Stuart A. Kauffman and Edward D. Weinberger (1989) , Rough Mount Fuji - Neidhart, Johannes and Szendro, Ivan G and Krug, Joachim (2014) ). This package includes numerous functions though users will only need defineSHAPE(), runSHAPE(), shapeExperiment() and summariseExperiment(). All other functions are called by these main functions and are likely only to be on interest for someone wishing to develop 'rSHAPE'. Simulation results will be stored in files which are exported to the directory referenced by the shape_workDir option (defaults to tempdir() but do change this by passing a folderpath argument for workDir when calling defineSHAPE() if you plan to make use of your results beyond your current session). 'rSHAPE' will generate numerous replicate simulations for your defined range of experimental parameters. The experiment will be built under the experimental working directory (i.e.: referenced by the option shape_workDir set using defineSHAPE() ) where individual replicate simulation results will be stored as well as processed results which I have made in an effort to facilitate analyses by automating collection and processing of the potentially thousands of files which will be created. On that note, 'rSHAPE' implements a robust and flexible framework with highly detailed output at the cost of computational efficiency and potentially requiring significant disk space (generally gigabytes but up to tera-bytes for very large simulation efforts). So, while 'rSHAPE' offers a single framework in which we can simulate evolution and directly compare the impacts of a wide range of parameters, it is not as quick to run as other in silico simulation tools which focus on a single scenario with limited output. There you have it, 'rSHAPE' offers you a less restrictive in silico evolutionary playground than other tools and I hope you enjoy testing your hypotheses. Package: r-cran-rsi Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1414 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-future.apply, r-cran-glue, r-cran-httr, r-cran-jsonlite, r-cran-lifecycle, r-cran-proceduralnames, r-cran-rlang, r-cran-rstac, r-cran-sf, r-cran-terra, r-cran-tibble Suggests: r-cran-curl, r-cran-knitr, r-cran-progressr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-rsi_0.3.2-1.ca2004.1_all.deb Size: 1331940 MD5sum: 17e9fcb14c48bee68982829c51fba0a6 SHA1: d9724def8adb496904225fdfbbfebf60a8f4b188 SHA256: dbd61562080c9de2e782222f069836f8bdc9f673ec43e5ea81457e2727530298 SHA512: 0588d6e5d04f10b66007f98e0c281f15082ffd32d2ab22f2bf1016848057630815997c2356b52029366092ddaa7e3adf00f6aece250fb7c8a4cd08fe753e34f1 Homepage: https://cran.r-project.org/package=rsi Description: CRAN Package 'rsi' (Efficiently Retrieve and Process Satellite Imagery) Downloads spatial data from spatiotemporal asset catalogs ('STAC'), computes standard spectral indices from the Awesome Spectral Indices project (Montero et al. (2023) ) against raster data, and glues the outputs together into predictor bricks. Methods focus on interoperability with the broader spatial ecosystem; function arguments and outputs use classes from 'sf' and 'terra', and data downloading functions support complex 'CQL2' queries using 'rstac'. 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This package is modelled on the 'simsum' user-written command in 'Stata' (White I.R., 2010 ), further extending it with additional performance measures and functionality. Package: r-cran-rsinaica Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 188 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-lubridate, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-rsinaica_1.1.0-1.ca2004.1_all.deb Size: 152280 MD5sum: d947084678e5494cb3eefd7bdf277507 SHA1: 475bfb0c12982faf0a253881058910af1e488273 SHA256: 5c2df39e65444da4be6d62e0d3e6b45521240a6909a8f0da7c6df165575b4d3a SHA512: 78f612bbafc964d6ca4b17825d04a142ca8b4de3f309c52032c11f9ab26f6628edb50366a6a4c019d4e815634308071c3816a91ea1069245e7997b7f8a7c2758 Homepage: https://cran.r-project.org/package=rsinaica Description: CRAN Package 'rsinaica' (Download Data from Mexico's Air Quality Information System) Easy-to-use functions for downloading air quality data from the Mexican National Air Quality Information System (SINAICA). 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Makes data processing of remote sensing of climatic variables distributed in the space (maps 2D) and the time (time series). Package: r-cran-rsitecatalyst Architecture: all Version: 1.4.16-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 355 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-httr, r-cran-plyr, r-cran-base64enc, r-cran-digest, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rsitecatalyst_1.4.16-1.ca2004.1_all.deb Size: 301632 MD5sum: 6c03b04f386a89b5c9b618ecec58c8a9 SHA1: 9028b7335ce62273a9e119b946d8802d5e1469e9 SHA256: e35f181f55cfb020d85ad16292f6cd7b890f843e98b5aff3ce647b0768e2d042 SHA512: d124a9adca5786dfa049739d67eea36da7c4e1f5c569f1db5c3431c33c8a5bc71dc907961294d3121a7c2398cd567e5987292d008fa9a58601d634a82c91dc2b Homepage: https://cran.r-project.org/package=RSiteCatalyst Description: CRAN Package 'RSiteCatalyst' (R Client for Adobe Analytics API V1.4) Functions for interacting with the Adobe Analytics API V1.4 (). Package: r-cran-rsizebiased Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-rsizebiased_0.1.0-1.ca2004.1_all.deb Size: 60184 MD5sum: 8fade446ff745e5011d8d54f8e9df275 SHA1: 031b51136e15f12b070959a68d10065d8a8ad819 SHA256: ea5ebca7c5b4d6395275a421bb85f2ebc692aab303279d898b2d3a5f927d95cc SHA512: 4b10e984d3708a1d4cf93b35afb92a6d3fc8d26ebbe294f10f77b987861e4ad457077019bf7fd89929706c35b6d5e63df82f18b35d8dc784a7b8f5ea0e467313 Homepage: https://cran.r-project.org/package=RSizeBiased Description: CRAN Package 'RSizeBiased' (Hypothesis Testing Based on R-Size Biased Samples) Provides functions and examples for testing hypothesis about the population mean and variance on samples drawn by r-size biased sampling schemes. Package: r-cran-rskey Architecture: all Version: 0.4.19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rstudioapi, r-cran-berryfunctions Suggests: r-cran-knitr, r-cran-pillar Filename: pool/dists/focal/main/r-cran-rskey_0.4.19-1.ca2004.1_all.deb Size: 50764 MD5sum: 3a643a2392136ef1201f0c72070367bf SHA1: 97eb9aa5458326fec777ec0c4e957c216e4bc235 SHA256: c4519c5da2b90bdf3ff21d62ab39bd78855e5f41b2da9eab80f0b4b83b24c121 SHA512: 00860a5b4f78847583e099eb17c2aa8c18f78ca6fef2ba928306e1767f0ad90397aa1331941b700de10a27b14c641cc2044f4294e96e0c3f6ab3a9a805de8fff Homepage: https://cran.r-project.org/package=rskey Description: CRAN Package 'rskey' (Create Custom 'Rstudio' Keyboard Shortcuts) Create custom keyboard shortcuts to examine code selected in the 'Rstudio' editor. F3 can for example yield 'str(selection)' and F7 open the source code of CRAN and base package functions on 'github'. 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Package: r-cran-rsm Architecture: all Version: 2.10.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1287 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-estimability Suggests: r-cran-emmeans, r-cran-vdg, r-cran-conf.design, r-cran-doe.base, r-cran-frf2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rsm_2.10.6-1.ca2004.1_all.deb Size: 849244 MD5sum: b1732dd505640eb671745dd011b20837 SHA1: 8de93b0af26601e9f88a2d6488ef5c2f3b5e0d93 SHA256: 4f7431418eb839db89a30c25d18979b8e0a1a128a11a2de48a4940466a0e70e1 SHA512: 0ee1166de2f771ca9ed0d1c27f378eb595d993d12e51446b74bb6076b6936c613c8f74e3a9d580ed6e216592e767c1fd2ec3014b48b1eefc1d21e21de22346ad Homepage: https://cran.r-project.org/package=rsm Description: CRAN Package 'rsm' (Response-Surface Analysis) Provides functions to generate response-surface designs, fit first- and second-order response-surface models, make surface plots, obtain the path of steepest ascent, and do canonical analysis. A good reference on these methods is Chapter 10 of Wu, C-F J and Hamada, M (2009) "Experiments: Planning, Analysis, and Parameter Design Optimization" ISBN 978-0-471-69946-0. An early version of the package is documented in Journal of Statistical Software . 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For more information on small telescopes analysis see Uri Simonsohn (2015) . Package: r-cran-rsmartlyio Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-rsmartlyio_0.1.3-1.ca2004.1_all.deb Size: 14920 MD5sum: 48384faf40337b064710cf51d46b2ca7 SHA1: 14d63276400ffdc58149f062f3d7abadb8e1b306 SHA256: a415f74745a4dea058908d968e781a25675746bdb6a55180b52cf80d95d6e6c6 SHA512: a92a55704edaf458ee87c655b2894268a2f834affd458f61d2df60ec8719bd2b59c19941553d98ec8bf12fab1b9a6da22ff28f2c71c699293a42759346ca3e82 Homepage: https://cran.r-project.org/package=RSmartlyIO Description: CRAN Package 'RSmartlyIO' (Loading Facebook and Instagram Advertising Data from'Smartly.io') Aims at loading Facebook and Instagram advertising data from 'Smartly.io' into R. 'Smartly.io' is an online advertising service that enables advertisers to display commercial ads on social media networks (see for more information). The package offers an interface to query the 'Smartly.io' API and loads data directly into R for further data processing and data analysis. 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Package: r-cran-rspiro Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 346 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rspiro_0.5-1.ca2004.1_all.deb Size: 308744 MD5sum: 4e36752d6e1c0b94c10f0b57ffc103b0 SHA1: 821bb88de4e097689f97a878a9c5f498687d19b8 SHA256: 4e2a520d58aadbf0bc76033b2776e47591be644a0e9871b0dd8d90bdcdead25a SHA512: 5fa499328bc31270f99cdf7592fb37fd02cf6bff9f6260e16106c9508163f7980874951b79c4ecacf14f82a49a1c895fa198cd00949b908b162732d2969d4479 Homepage: https://cran.r-project.org/package=rspiro Description: CRAN Package 'rspiro' (Implementation of Spirometry Equations) Implementation of various spirometry equations in R, currently the GLI-2012 (Global Lung Initiative; Quanjer et al. 2012 ), the race-neutral GLI global 2022 (Global Lung Initiative; Bowerman et al. 2023 ), the NHANES3 (National Health and Nutrition Examination Survey; Hankinson et al. 1999 ) and the JRS 2014 (Japanese Respiratory Society; Kubota et al. 2014 ) equations. 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(2016) . Package: r-cran-rsqmed Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sis, r-cran-gmmat Filename: pool/dists/focal/main/r-cran-rsqmed_1.1-1.ca2004.1_all.deb Size: 123520 MD5sum: 28cee3ac52a5394fa4ab9fb314a868b6 SHA1: 2b89ffce14fe5fb603c2a19ccd39259632aba21d SHA256: a30f5fd07a380f92cf48ddec297f3d5c9c5155e76a3f4bc609dfc8409d71ab70 SHA512: 650ca335af8056c8daa378c3b193acfeb50efa0a30234c2a3760371144223c82f3b582566eb45e3a462f255c9feb1f2aa5668778277307c37fa99b40f91014e8 Homepage: https://cran.r-project.org/package=RsqMed Description: CRAN Package 'RsqMed' (Total Mediation Effect Size Measure for High-DimensionalMediators) An implementation of calculating the R-squared measure as a total mediation effect size measure and its confidence interval for moderate- or high-dimensional mediator models. It gives an option to filter out non-mediators using variable selection methods. The original R package is directly related to the paper Yang et al (2021) "Estimation of mediation effect for high-dimensional omics mediators with application to the Framingham Heart Study" . The new version contains a choice of using cross-fitting, which is computationally faster. The details of the cross-fitting method are available in the paper Xu et al (2023) "Speeding up interval estimation for R2-based mediation effect of high-dimensional mediators via cross-fitting" . 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Confidence intervals, zero-order correlations, and alternative adjusted R-squared estimates are also available. The methods are described in Van Ginkel and Karch (2024) and in Van Ginkel (2020) . 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Package: r-cran-rssimulx Architecture: all Version: 2024.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 442 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rssimulx_2024.1-1.ca2004.1_all.deb Size: 369996 MD5sum: 3431eefe96d71ee91ebd4f3535b2a057 SHA1: ee9dcabc71b699cbc431a773e0ddb0bc429bcd4e SHA256: b5bc1fd5cf405850f322428e2f4e1bb46e81eee5d3e0ea8ae0486e66ad278cb4 SHA512: 178b4437e3639016333ed16655afa34b8cd01a63e03998b481f1da5179babf829d700ad781bf97c248ab1f00a181344c0b66110ee8e9f58d853a805ab9cc3c8c Homepage: https://cran.r-project.org/package=RsSimulx Description: CRAN Package 'RsSimulx' (Extension of 'lixoftConnectors' for 'Simulx') Provides useful tools which supplement the use of 'Simulx' software and 'R' connectors ('Monolix Suite'). 'Simulx' is an easy, efficient and flexible application for clinical trial simulations. 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(2012) design_ccd(), and analyzes CCD data with response surface methodology ccd_analysis(). A rotatable CCD provides values of the variance of the predicted response that are concentrically distributed around the average treatment combination used in the experimentation, which with uniform precision (implied by the use of several replicates at the average treatment combination) improves greatly the search and finding of an optimum response. These properties of a rotatable CCD represent undeniable advantages over the classical factorial design, as discussed by Panneton et al. (1999) and Mead et al. (2012) among others. Package: r-cran-rsurfer Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 271 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-gdata Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-rsurfer_0.2-1.ca2004.1_all.deb Size: 204236 MD5sum: e7df911dfc27880423c68c956e7ab132 SHA1: 46f218af316a780043966fcf494045a114bccbf6 SHA256: a6656a61dbffc06bf083fc4919bd1e1f2985005257514e6ca9e1acb4674422a3 SHA512: f63842c6c38e3f6f00148747d528d4ea2a62cb0a2fb408664e6385d7c08c5cb1034b5b6ae1f9e0e1ef584252b057512e54ad679a2c9b766806984c23cebaf2b9 Homepage: https://cran.r-project.org/package=rsurfer Description: CRAN Package 'rsurfer' (Manipulating 'Freesurfer' Generated Data) The software suite, 'Freesurfer', is a open-source software suite involving the segmentation of brain MRIs (see for more information). This package provides functionality to import the data generated by 'Freesurfer'; functions to easily manipulate the data; and provides brain specific normalisation commonly used when studying structural brain MRIs. This package has been designed using an installation of and data generated from 'Freesurfer' version 5.3. 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The package 'rsurv' also stands out by its ability to generate survival data from an unlimited number of baseline distributions provided that an implementation of the quantile function of the chosen baseline distribution is available in R. Another nice feature of the package 'rsurv' lies in the fact that linear predictors are specified via a formula-based approach, facilitating the inclusion of categorical variables and interaction terms. The functions implemented in the package 'rsurv' can also be employed to simulate survival data with more complex structures, such as survival data with different types of censoring mechanisms, survival data with cure fraction, survival data with random effects (frailties), multivariate survival data, and competing risks survival data. Details about the R package 'rsurv' can be found in Demarqui (2024) . 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These functions were originally developed for animal health surveillance activities but can be equally applied to aquatic animal, wildlife, plant and human health surveillance activities. Utilities are included for sample size calculation and analysis of representative surveys for disease freedom, risk-based studies for disease freedom and for prevalence estimation. This package is based on Cameron A., Conraths F., Frohlich A., Schauer B., Schulz K., Sergeant E., Sonnenburg J., Staubach C. (2015). R package of functions for risk-based surveillance. Deliverable 6.24, WP 6 - Decision making tools for implementing risk-based surveillance, Grant Number no. 310806, RISKSUR (). Many of the 'RSurveillance' functions are incorporated into the 'epitools' website: Sergeant, ESG, 2019. Epitools epidemiological calculators. Ausvet Pty Ltd. Available at: . 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Package: r-cran-rtabulator Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 957 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glue, r-cran-htmltools, r-cran-htmlwidgets, r-cran-purrr, r-cran-readr, r-cran-shiny Filename: pool/dists/focal/main/r-cran-rtabulator_0.1.2-1.ca2004.1_all.deb Size: 214340 MD5sum: 34e639985e2d8e9c4757a039010c9345 SHA1: 96f967c9ba45212b5715c390131e0ad8025ce990 SHA256: a2e079f91146a15eea51765b0fcf2e32f78a0310b1c11406efe652115708f760 SHA512: c2d4ebbe9705580efbaa0e53716bf449439925256cc278a4024e5834e77700e74306022cc46f3307bf3edecd4c18eca741176df21e64c70a1cf9971cb8e8ab50 Homepage: https://cran.r-project.org/package=rtabulator Description: CRAN Package 'rtabulator' (R Bindings for 'Tabulator JS') Provides R bindings for 'Tabulator JS' . Makes it a breeze to create highly customizable interactive tables in 'rmarkdown' documents and 'shiny' applications. 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Package: r-cran-rtapas Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1617 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-phytools, r-cran-ape, r-cran-distory, r-cran-paco, r-cran-parallelly, r-cran-stringr, r-cran-vegan Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-rtapas_1.2-1.ca2004.1_all.deb Size: 1609668 MD5sum: 83176339ec62b08718a15e0906f3c32a SHA1: 4811a5fdecfaebf23d0a5ffcfa9dcd7793ab7fd7 SHA256: 00d587075f5f198c027d17ebd5684293dff4628e56b31250a0c427f5a734b0d7 SHA512: 311d049a9e03512873a34efe30fbda01ac7108aa4dda04717d88a0543e5e244fc8ede16e77b6afccbfd5ef296f5bb6b96581a6188080e3fa6a02af5ba9854b3d Homepage: https://cran.r-project.org/package=Rtapas Description: CRAN Package 'Rtapas' (Random Tanglegram Partitions) Applies a given global-fit method to random partial tanglegrams of a fixed size to identify the associations, terminals, and nodes that maximize phylogenetic (in)congruence. 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Package: r-cran-rtape Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rtape_2.2-1.ca2004.1_all.deb Size: 33512 MD5sum: 71ef8d7d5b47ad28be6423c76bf962ef SHA1: 12399c771035f9844a487c75dbb83979dfedc1a4 SHA256: c428782af61017161fb2dbf33e17415a030c05cb27797e8a2ff2fb14756d38bf SHA512: 0d6790f1ec1819d7ed58fbca8447a87d7e03e1324b9b7967d3bf2655ca037f7b9563635fc338862fe31340309bdb80659e839250686b4caa1448d985543afc0f Homepage: https://cran.r-project.org/package=rtape Description: CRAN Package 'rtape' (Manage and manipulate large collections of R objects stored astape-like files) Storing huge data in RData format causes problems because of the necessity to load the whole file to the memory in order to access and manipulate objects inside such file; rtape is a simple solution to this problem. The package contains several wrappers of R built-in serialize/unserialize mechanism allowing user to quickly append objects to a tape-like file and later iterate over them requiring only one copy of each stored object to reside in memory a time. Package: r-cran-rtauchen Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rtauchen_1.0-1.ca2004.1_all.deb Size: 13768 MD5sum: 12f5e21fbf0eefab312c483b1070a3a7 SHA1: d910e7a98cfc177d549ebc2f096eafbcd2b5d409 SHA256: b2acff058c377f4021c77b52d428ed75596bf08c8abfaed66cf06745d6229347 SHA512: 797b6b7988ed4c7ff1a204431ffbf78bd455c458a60e17f7645c8bf3e8d9b055c133faa271e86d714ebf62fb247ddf99c56df860cc604703203dcaaae048ec20 Homepage: https://cran.r-project.org/package=Rtauchen Description: CRAN Package 'Rtauchen' (Discretization of AR(1) Processes) Discretize AR(1) process following Tauchen (1986) . A discrete Markov chain that approximates in the sense of weak convergence a continuous-valued univariate Autoregressive process of first order is generated. It is a popular method used in economics and in finance. Package: r-cran-rtaxometrics Architecture: all Version: 3.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-rtaxometrics_3.2.1-1.ca2004.1_all.deb Size: 181644 MD5sum: 5737b954b378bc3047afee78f583a58f SHA1: e269eaeeac1dc880213bf22aa610227f3f139ea7 SHA256: 37a6e7623e4ed0e1a9fd80e078ef4e15e2b671b2e4a0d60208a3ec5865598ca3 SHA512: c40d172442f87839985db0ab8470750a0ef0b6152d6bed93a0a92f367e23d88ca249d966a6bf8166e681f2186e0b0fdf69e86b10cf8919970b14102e4292778d Homepage: https://cran.r-project.org/package=RTaxometrics Description: CRAN Package 'RTaxometrics' (Taxometric Analysis) We provide functions to perform taxometric analyses. This package contains 46 functions, but only 5 should be called directly by users. CheckData() should be run prior to any taxometric analysis to ensure that the data are appropriate for taxometric analysis. RunTaxometrics() performs taxometric analyses for a sample of data. RunCCFIProfile() performs a series of taxometric analyses to generate a CCFI profile. CreateData() generates a sample of categorical or dimensional data. ClassifyCases() assigns cases to groups using the base-rate classification method. 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This package is based on two papers by the authors:'Robust and bias-corrected estimation of the coefficient of tail dependence' and 'Robust and bias-corrected estimation of probabilities of extreme failure sets'. This work was supported by a research grant (VKR023480) from VILLUM FONDEN and an international project for scientific cooperation (PICS-6416). Package: r-cran-rtematres Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-rcurl, r-cran-plyr, r-cran-gdata Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-rtematres_0.2-1.ca2004.1_all.deb Size: 35100 MD5sum: c0c74ed66b285cee5ddca7be5fc41b36 SHA1: 571bd539dceeccc23e70fc4d95107a0d6df98024 SHA256: e958ecd7a43aa7816a2c3439e3b174a7b29b05bcc3520ac08e0e18a345708d6d SHA512: 5b8db458d634efd306551797ba7960d644c9a72637af7dfe3d18bf7e58a602e6a75590fa370fb5353f9a5e74f0465f3902aa2395ab50ac8124007d9c7f0f1c4b Homepage: https://cran.r-project.org/package=rtematres Description: CRAN Package 'rtematres' (The rtematres API package) Exploit controlled vocabularies organized on tematres servers. 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The function 'run_examples()' within the 'devtools' package allows batch execution of all of the examples within a given package. This is much more convenient than testing each example manually. However, a major inconvenience is that if an error is encountered, the program stops and does not complete testing the remaining examples. Also, there is not a systematic record of the results, namely which package functions had no examples, which had examples that failed, and which had examples that succeeded. The current package provides the missing functionality. Package: r-cran-runexp Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-foreach Suggests: r-cran-xml2, r-cran-rvest Filename: pool/dists/focal/main/r-cran-runexp_0.2.1-1.ca2004.1_all.deb Size: 90264 MD5sum: fade5eee9f2f71020e8b326f5fc1c3f6 SHA1: 01dfb5d34b2c9bfdce0c0afde85b0baaee518e76 SHA256: d93ee540f9aec2fdfdc274cb9a868ffe5c90a3d5a92a52ca522a90b35adbded2 SHA512: b03eb4511be983671e41dbd143500737eff7b4325652046ed3ac6e0f838611ad089545125b50009ac2b07d768d12a39019414e5212ea844f63f1402b1e0c8eff Homepage: https://cran.r-project.org/package=runexp Description: CRAN Package 'runexp' (Softball Run Expectancy using Markov Chains and Simulation) Implements two methods of estimating runs scored in a softball scenario: (1) theoretical expectation using discrete Markov chains and (2) empirical distribution using multinomial random simulation. Scores are based on player-specific input probabilities (out, single, double, triple, walk, and homerun). Optional inputs include probability of attempting a steal, probability of succeeding in an attempted steal, and an indicator of whether a player is "fast" (e.g. the player could stretch home). These probabilities may be calculated from common player statistics that are publicly available on team's webpages. Scores are evaluated based on a nine-player lineup and may be used to compare lineups, evaluate base scenarios, and compare the offensive potential of individual players. Manuscript forthcoming. See Bukiet & Harold (1997) for implementation of discrete Markov chains. 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Calling R externally and handling the Java or XML output is an other way to call R from other languages without native interfaces. 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Package: r-cran-runonce Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bigassertr, r-cran-urltools Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-runonce_0.2.3-1.ca2004.1_all.deb Size: 20744 MD5sum: 2ff68fe431a4499b7885c872e0b6726f SHA1: 333049bccf2b399045f04aafc959adde468b29f3 SHA256: 193bb0eeabbf884dbc9f46f32788de135f98fcd999023cf26858cd6991950e51 SHA512: df55c62c5aae8bdd3036ab81e512e39b05be684bfc454ea3fbc4265f7f575437c01e99198501d100db520b1a347998ffe291c3bf4c1feda5107880797867d25c Homepage: https://cran.r-project.org/package=runonce Description: CRAN Package 'runonce' (Run Once and Save Result) Package 'runonce' helps automating the saving of long-running code to help running the same code multiple times. If you run some long-running code once, it saves the result in a file on disk. Then, if the result already exists, i.e. if the code has already been run and its output has already been saved, it just reads the result from the stored file instead of running the code again. 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These include: (1) mean, (2) standard deviation, and (3) variance over a fixed-length window of time-series, (4) correlation, (5) covariance, and (6) Euclidean distance (L2 norm) between short-time pattern and time-series. Implemented methods utilize Convolution Theorem to compute convolutions via Fast Fourier Transform (FFT). Package: r-cran-rusda Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-httr, r-cran-plyr, r-cran-foreach, r-cran-stringr, r-cran-testthat, r-cran-taxize, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-rusda_1.0.8-1.ca2004.1_all.deb Size: 62236 MD5sum: 7c8bf7b181e81ffd31240ef6eeffd7cb SHA1: 32bf4ae860b6b1d564f48d11ca8878b34ec99c3f SHA256: 4f93b7bf2b4b2dfc78f4a4c5ab46191f27ded28a4509c2c1b7156a69fb0d55c1 SHA512: 253d355852170877e503ec89cccad883a18af3f98700dff603534a7f4c99bed21772456609b3fda94833840ce66c717fdb818489505cad7fe92099829e482bde Homepage: https://cran.r-project.org/package=rusda Description: CRAN Package 'rusda' (Interface to USDA Databases) An interface to the web service methods provided by the United States Department of Agriculture (USDA). The Agricultural Research Service (ARS) provides a large set of databases. 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Package: r-cran-rusk Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggforce, r-cran-ggplot2, r-cran-reshape2, r-cran-shiny, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-rusk_0.1.1-1.ca2004.1_all.deb Size: 22720 MD5sum: 9dca0fa9f5c91939565999ecbc14cf62 SHA1: 4553b7f7623dd5e7c040bb0ecfd57fd2084d3cc0 SHA256: d4ade9aed8d9ee3608a599b3f91a04cda36dd2bb8013ea76e14932bd0c7210d3 SHA512: eedc4dfc8c96f28d4b876f7df2c57c479a6df7c24652fd72f19c7fb7cba4bc3001beebf14d4e0583e5f566ee924c941b0686bf42674f8a2795586b500baeb520 Homepage: https://cran.r-project.org/package=rusk Description: CRAN Package 'rusk' (Beautiful Graphical Representation of Multiplication Tables on aModular Circle) By placing on a circle 10 points numbered from 1 to 10, and connecting them by a straight line to the point corresponding to its multiplication by 2. (1 must be connected to 1 * 2 = 2, point 2 must be set to 2 * 2 = 4, point 3 to 3 * 2 = 6 and so on). You will obtain an amazing geometric figure that complicates and beautifies itself by varying the number of points and the multiplication table you use. Package: r-cran-rusquant Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 233 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quantmod, r-cran-data.table, r-cran-jsonlite, r-cran-httr, r-cran-xts, r-cran-xml, r-cran-stringr, r-cran-jose, r-cran-rvest, r-cran-base64enc Filename: pool/dists/focal/main/r-cran-rusquant_1.1.4-1.ca2004.1_all.deb Size: 201304 MD5sum: a8d5943a1de4cdb1ce54df79b28ddb86 SHA1: bc3ab37c03886f9c175628922c8d6aa7fbdf2e37 SHA256: 4461951d5201c51923b6acaee8dc1e001cad791fddf7bf391ad5d3b837a4b712 SHA512: 1c7744db4f5982b845eb24b13aa2c2066d8e8ac0ecd8a6dbeeaaf0bca35a4a61cb3d32e04f4d7022471497da4d4cdfa5a1b3f37c00bba6ecbef21defb696a9c5 Homepage: https://cran.r-project.org/package=rusquant Description: CRAN Package 'rusquant' (Quantitative Trading Framework) Collection of functions to retrieve financial data from various sources, including brokerage and exchange platforms, financial websites, and data providers. 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Package: r-cran-ruta Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 397 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-keras, r-cran-tensorflow, r-cran-purrr, r-cran-r.utils Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ruta_1.2.0-1.ca2004.1_all.deb Size: 266108 MD5sum: 75c11ce492e499297f0e028cd890933c SHA1: cd12f6afd3a3e0aaf96ba304c0c96e677e6d0118 SHA256: b94796a5f93c9750265f48aa8325f50edcc8e9efa8cad6f32f6bfa01062903d4 SHA512: 6a1d5a5c09aea372f652b3b7e66db12272a52e9dc5d39297882d9d042b06272cf16d6f3f9ea5af3cafbb96769588a3bc9436cbf4ebb65fcad9c37bb820564cc3 Homepage: https://cran.r-project.org/package=ruta Description: CRAN Package 'ruta' (Implementation of Unsupervised Neural Architectures) Implementation of several unsupervised neural networks, from building their architecture to their training and evaluation. Available networks are auto-encoders including their main variants: sparse, contractive, denoising, robust and variational, as described in Charte et al. (2018) . 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Package: r-cran-rutledge Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3784 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble Filename: pool/dists/focal/main/r-cran-rutledge_0.1.1-1.ca2004.1_all.deb Size: 2406200 MD5sum: c155f8e90615d16209b8960ea4779aab SHA1: 25f476c4917b6227e0b5e2564d0bef8a660da395 SHA256: f5bb3ec9ed26b9f79ebf95b1690bf9160f19c02d54c25f7f6cb300bd777feda4 SHA512: 40a2e7c861fc8199e07d7cf355d6306c353e372b1b9599a9aacb08cf36192f47f4ac8aa18df61851458ee4e34d8a9fc82a9f589d41119f62ddcf51a73face0d2 Homepage: https://cran.r-project.org/package=rutledge Description: CRAN Package 'rutledge' (Real-Time PCR Data Sets by Rutledge et al. (2004)) Real-time quantitative polymerase chain reaction (qPCR) data by Rutledge et al. (2004) in tidy format. The data comprises a six-point, ten-fold dilution series, repeated in five independent runs, for two different amplicons. In each run, each standard concentration is replicated four times. For the original raw data file see the Supplementary Data section: . 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The objective of this package is to detect it using the variance inflation factor redefined and the scatterplot between the variance inflation factor and the coefficient of variation. For more details see Salmerón R., García C.B. and García J. (2018) , Salmerón, R., Rodríguez, A. and García C. (2020) , Salmerón, R., García, C.B, Rodríguez, A. and García, C. (2022) , Salmerón, R., García, C.B. and García, J. (2024) and Salmerón, R., García, C.B, García J. (2023, working paper) . 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While all methods focus on Maximum Likelihood estimation of unknown true effects under normal distribution-theory, some estimates are modified to be Unbiased or to have "Correct Range" when estimating either [1] the noncentrality of the F-ratio for testing that true Beta coefficients are Zeros or [2] the "relative" MSE Risk (i.e. MSE divided by true sigma-square, where the "relative" variance of OLS is known.) The eff.ridge() function implements the "Efficient Shrinkage Path" introduced in Obenchain (2022) . This "p-Parameter" Shrinkage-Path always passes through the vector of regression coefficient estimates Most-Likely to achieve the overall Optimal Variance-Bias Trade-Off and is the shortest Path with this property. Functions eff.aug() and eff.biv() augment the calculations made by eff.ridge() to provide plots of the bivariate confidence ellipses corresponding to any of the p*(p-1) possible ordered pairs of shrunken regression coefficients. 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Package: r-cran-rytstat Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 476 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-gargle, r-cran-snakecase, r-cran-stringr, r-cran-tidyr, r-cran-pbapply, r-cran-httr, r-cran-withr, r-cran-rlang Filename: pool/dists/focal/main/r-cran-rytstat_0.3.2-1.ca2004.1_all.deb Size: 437684 MD5sum: 468f227e1b951d31a38572b69b6e9c76 SHA1: 2631b5c19ab2039affb08608740e909e59055e14 SHA256: 0ead178f0a9500e49e8a6f8b73a22785d14a9d80475b6dbfe69b36f4ccb5882e SHA512: a4f544f130b86b60c2babcdb89f44aba258159ba0080daf8455d84b63d99724bb100a46847bd1da8a1bd5872dca7e5f97ee079f300cb267fa046b8d6213bff15 Homepage: https://cran.r-project.org/package=rytstat Description: CRAN Package 'rytstat' (Work with 'YouTube API') Provide function for get data from 'YouTube Data API' , 'YouTube Analytics API' and 'YouTube Reporting API' . Package: r-cran-rywaasb Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 883 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-factoextra, r-cran-factominer, r-cran-lifecycle, r-cran-mathjaxr Suggests: r-cran-car, r-cran-metan, r-cran-devtools, r-cran-usethis, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-spelling Filename: pool/dists/focal/main/r-cran-rywaasb_0.3-1.ca2004.1_all.deb Size: 275368 MD5sum: b08a34802b794cc22ad71eb85455c9f6 SHA1: 8714073166db0631d2597ed0afb524a1c9311071 SHA256: 82bfffcd8ef9610e4272c72a45ad51ef89cba2355be86e5ee0c7e2e8381f4f7b SHA512: 95f4638963969af8ac40c2e2fec12fdfd4aa2e0efafcb4e1c185be2784b9e798ce24a1123574929b18c9ecd4876d7856f83e55ccba64e6653375f989dce294e8 Homepage: https://cran.r-project.org/package=rYWAASB Description: CRAN Package 'rYWAASB' (Simultaneous Selection by Trait and WAASB Index) This tool proposes a new ranking algorithm that utilizes a "Y*WAASB" biplot generated by the 'metan'. The aim of the current package is to effectively distinguish the top-ranked genotypes in MET (Multi-Environmental Trials). For a detailed explanation of the process of obtaining "WAASB", "WAASBY" indices, and a "Y*WAASB" biplot, refer to the manual included in this package as well as the study by Olivoto & Lúcio (2020) . In this context, "WAASB" refers to the "Weighted Average of Absolute Scores" provided by Olivoto et al. (2019) , which quantifies the stability of genotypes across different environments using linear mixed-effect models. To run the package, you need to extract the "WAASB" and "WAASBY" coefficients using the 'metan' and apply them. This tool utilizes PCA (Principal Component Analysis) and differentiates the entries which may be genotypes, hybrids, varieties, etc using "WAASB", "WAASBY", and a combination of the specified trait and WAASB index. Package: r-cran-rzabbix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-rzabbix_0.1.0-1.ca2004.1_all.deb Size: 16140 MD5sum: 311625cffe8895188dfa9e83f54819f1 SHA1: e151be4e8d48753df0b46d5090d656b58225845f SHA256: 325889d068fc557514df31fdee9bf5ac27b172cf89e414b3386652a1b8dc36e6 SHA512: 139081b0ab32e20d566f98b40202e877c99fcc0abb50f292c9d53bae1b23053db0e0f21e5d68c9e6951ca763dff4067c8e0149d8523e7df0b41668238025d40a Homepage: https://cran.r-project.org/package=RZabbix Description: CRAN Package 'RZabbix' (R Module for Working with the 'Zabbix API') R interface to the 'Zabbix API' data . Enables easy and direct communication with 'Zabbix API' from 'R'. Package: r-cran-rzentra Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-dplyr, r-cran-lubridate, r-cran-purrr, r-cran-data.table Suggests: r-cran-testthat, r-cran-spelling Filename: pool/dists/focal/main/r-cran-rzentra_0.1.0-1.ca2004.1_all.deb Size: 26960 MD5sum: addc408c54a982e34e6edaeddc6979f4 SHA1: cef88d4eecd341000e50edd917567d7d2a8c6d4b SHA256: 3a030889e7ab0931e6a99722313fc6285286e4ff2ed8caf70fec1ddc6d22a7bf SHA512: 4708703c16ac1d9190efae49177adcab062f0ea53f6d91e4015d68540aaa9a3034eedeafb855eee24ef03ed2164a1732b00502960898aec15e8d13ee311cbf6b Homepage: https://cran.r-project.org/package=rzentra Description: CRAN Package 'rzentra' (Client for the 'ZENTRA Cloud' API) Provides functionality to read settings, statuses and readings of weather stations from the 'ZENTRA Cloud' API . Package: r-cran-s20x Architecture: all Version: 3.1-40-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 480 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-emmeans Filename: pool/dists/focal/main/r-cran-s20x_3.1-40-1.ca2004.1_all.deb Size: 356260 MD5sum: d3d3bbf3a745578ef925857d998ee47c SHA1: 2dd7aa8b9c680f6684ca6aeaac2b13b9cb455d7b SHA256: 8ccb51d869352035db2237714e61664c4146cd2cc646b5f0f537121c6a3385b9 SHA512: 94974a111b10de607f89bbfe0b6423fb0b40df4817801d3fb9f1e91a50a765a18d2984b8ab512f0861221904b0ee793ccd4ffbb7195134f3a328bbbbcd807f5f Homepage: https://cran.r-project.org/package=s20x Description: CRAN Package 's20x' (Functions for University of Auckland Course STATS 201/208 DataAnalysis) A set of functions used in teaching STATS 201/208 Data Analysis at the University of Auckland. The functions are designed to make parts of R more accessible to a large undergraduate population who are mostly not statistics majors. Package: r-cran-s2dv Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2311 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-abind, r-cran-bigmemory, r-cran-maps, r-cran-mapproj, r-cran-climprojdiags, r-cran-plyr, r-cran-ncdf4, r-cran-nbclust, r-cran-multiapply, r-cran-specsverification, r-cran-easyncdf, r-cran-easyverification Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-s2dv_2.1.0-1.ca2004.1_all.deb Size: 2275884 MD5sum: 1c6112c411f13964b8b7226f2329a5c9 SHA1: f195006f78af63c8cf4cb5a2e5781ac68eb0afc2 SHA256: fd8ffcc661cdad54375121707574629c7e3707a7903754a2696426d600b634c1 SHA512: ee7098c9b49a3a8a0cc297c51631794a789325eacc7a30a9d2ac1f5fedb6b84b77f964947d47a0ccea3ed8b423bb95b11e23d85f3e51b428a0fe002460bb85a8 Homepage: https://cran.r-project.org/package=s2dv Description: CRAN Package 's2dv' (A Set of Common Tools for Seasonal to Decadal Verification) The advanced version of package 's2dverification'. It is intended for 'seasonal to decadal' (s2d) climate forecast verification, but it can also be used in other kinds of forecasts or general climate analysis. This package is specially designed for the comparison between the experimental and observational datasets. The functionality of the included functions covers from data retrieval, data post-processing, skill scores against observation, to visualization. Compared to 's2dverification', 's2dv' is more compatible with the package 'startR', able to use multiple cores for computation and handle multi-dimensional arrays with a higher flexibility. The CDO version used in development is 1.9.8. Package: r-cran-s2dverification Architecture: all Version: 2.10.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2477 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maps, r-cran-abind, r-cran-bigmemory, r-cran-geomap, r-cran-geomapdata, r-cran-mapproj, r-cran-nbclust, r-cran-ncdf4, r-cran-plyr, r-cran-specsverification Suggests: r-cran-easyverification, r-cran-testthat Filename: pool/dists/focal/main/r-cran-s2dverification_2.10.3-1.ca2004.1_all.deb Size: 1964316 MD5sum: 5546a116e2ab362de7644e80cc24da42 SHA1: 30d7af2c930d808f8c9d6357d24a343fc5dc5505 SHA256: 1fcfa140a5800649bcaae28f0543b85a50b1d1edcda85d5670e1d26855c50888 SHA512: f08c11c19a58dcb721ccbd3216af412dbbab732bf2462a87b4332d56514e01ecbd61baddbcd4a7b90b423c87ec7b5bfaee2c96d4e0d27e2bc5eea9c659a61628 Homepage: https://cran.r-project.org/package=s2dverification Description: CRAN Package 's2dverification' (Set of Common Tools for Forecast Verification) Set of tools to verify forecasts through the computation of typical prediction scores against one or more observational datasets or reanalyses (a reanalysis being a physical extrapolation of observations that relies on the equations from a model, not a pure observational dataset). Intended for seasonal to decadal climate forecasts although can be useful to verify other kinds of forecasts. The package can be helpful in climate sciences for other purposes than forecasting. To find more details, see the review paper Manubens, N.et al. (2018) . Package: r-cran-s2sls Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-spanel Filename: pool/dists/focal/main/r-cran-s2sls_0.1-1.ca2004.1_all.deb Size: 18412 MD5sum: 8f81cac63299d354c54219fc20240671 SHA1: 114c244f50a83d3f598f677083bf828b2cf3e86e SHA256: 36add96280d63a92c979c85be8267a36c1461872231e5d3bf43971de44168b6d SHA512: 5583131b95a426699b6bfd9211ec1e240b5f1cfa8e0eafa3621229c42fc2f4a68632ff86c80115566d4b2a1ffd2a97c84b9118efa05cf11fd382758d75f544e3 Homepage: https://cran.r-project.org/package=S2sls Description: CRAN Package 'S2sls' (Spatial Two Stage Least Squares Estimation) Fit a spatial instrumental-variable regression by two-stage least squares. 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Package: r-cran-s4dm Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 380 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-corpcor, r-cran-densratio, r-cran-flexclust, r-cran-geometry, r-cran-kernlab, r-cran-maxnet, r-cran-mvtnorm, r-cran-np, r-cran-proc, r-cran-robust, r-cran-rvinecopulib, r-cran-sf, r-cran-terra, r-cran-dplyr, r-cran-rdpack Suggests: r-cran-geodata, r-cran-bien, r-cran-ggplot2, r-cran-tidyterra, r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-s4dm_0.0.1-1.ca2004.1_all.deb Size: 232612 MD5sum: 209561a591887a3320f5969718f7ccbe SHA1: 36286865ce5649df0a85bfa6ee0fed0497233e47 SHA256: 7b789fabc080972e34817a414387c0055b160e222ecb200ffc6cfa68be637917 SHA512: c0aa1db73d54ca944e5f1008e7aa82d9c8b9e10916b95a27d7e6a522d0adc6098a809aebad3c59ae44f4cdb49a01b9fbe0c934afc241da8e9bbf35d42d164f4e Homepage: https://cran.r-project.org/package=S4DM Description: CRAN Package 'S4DM' (Small Sample Size Species Distribution Modeling) Implements a set of distribution modeling methods that are suited to species with small sample sizes (e.g., poorly sampled species or rare species). While these methods can also be used on well-sampled taxa, they are united by the fact that they can be utilized with relatively few data points. More details on the currently implemented methodologies can be found in Drake and Richards (2018) , Drake (2015) , and Drake (2014) . 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Package: r-cran-sabarsi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1069 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sabarsi_0.1.0-1.ca2004.1_all.deb Size: 993496 MD5sum: 128918e686c806b61032df26f9d7a9de SHA1: a0097c89800598cc805800e6ed70ca78036254f3 SHA256: f2a13f520ed1365369bd349ec3ee2f6decf6ee7d0dc6887d306d2a8bb82462e4 SHA512: d70f52a985fc7a5aa12af13529115cdb14375edb9d748c10f38a0a4c1800a4f04e0d7f21a9b7100f2e3aa043da5f1cca05c83483080b63ee564d3071cdd73215 Homepage: https://cran.r-project.org/package=sabarsi Description: CRAN Package 'sabarsi' (Background Removal and Spectrum Identification for SERS Data) Implements a new approach 'SABARSI' described in Wang et al., "A Statistical Approach of Background Removal and Spectrum Identification for SERS Data" (Unpublished). Sabarsi forms a pipeline for SERS (surface-enhanced Raman scattering) data analysis including background removal, signal detection, signal integration, and cross-experiment comparison. The background removal algorithm, the very first step of SERS data analysis, takes into account the change of background shape. 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Package: r-cran-saccr Architecture: all Version: 3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.tree, r-cran-jsonlite, r-cran-trading Filename: pool/dists/focal/main/r-cran-saccr_3.3-1.ca2004.1_all.deb Size: 108904 MD5sum: b9e3dc9a882493abcbc4e615408e5ca2 SHA1: f59d9168b7a2e14a1aa4b5f756dd1a7dffe561ee SHA256: 62650a77752b28816d2b9c47bf30c029ea8c511675037c7585e5d776aa8e9f20 SHA512: d930c3257bccdf0010f6ecc0479c6bcf765d4054476128e0b83b4448b37053db267af9762cd9d68a61edf6bca5b06ac2907bb8fcfc76af522c15459ae7a82b96 Homepage: https://cran.r-project.org/package=SACCR Description: CRAN Package 'SACCR' (SA Counterparty Credit Risk under CRR2) Computes the Exposure-At-Default based on the standardized approach of CRR2 (SA-CCR). The simplified version of SA-CCR has been included, as well as the OEM methodology. 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Package: r-cran-sadeg Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sadeg_1.0.0-1.ca2004.1_all.deb Size: 47984 MD5sum: f960358082d502e762361851c55401c7 SHA1: 580e8fb11b40bead9dad42d1b48a93213092f740 SHA256: 0752df92b0fc3630ceee6b4c0663c57fd44e7c47126d00e92c158bd6a31ba3e1 SHA512: 491dcdbf2142848ab74fd122d6b760b52f0052fca8e4d0877550aebd2e0e56854d58a8979d705a9b3e8e6826da90fed1b66c7f14d80f0936529af57ea14164b5 Homepage: https://cran.r-project.org/package=SADEG Description: CRAN Package 'SADEG' (Stability Analysis in Differentially Expressed Genes) We analyzed the nucleotide composition of genes with a special emphasis on stability of DNA sequences. Besides, in a variety of different organisms unequal use of synonymous codons, or codon usage bias, occurs which also show variation among genes in the same genome. Seemingly, codon usage bias is affected by both selective constraints and mutation bias which allows and enables us to examine and detect changes in these two evolutionary forces between genomes or along one genome. Therefore, we determined the codon adaptation index (CAI), effective number of codons (ENC) and codon usage analysis with calculation of the relative synonymous codon usage (RSCU), and subsequently predicted the translation efficiency and accuracy through GC-rich codon usages. Furthermore, we estimated the relative stability of the DNA sequence following calculation of the average free energy (Delta G) and Dimer base-stacking energy level. Package: r-cran-sadisa Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-ddd Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sadisa_1.2-1.ca2004.1_all.deb Size: 128848 MD5sum: 6a26a5496fea569e46cd0ab31a673cbf SHA1: 3452b866976ec57d78c4a61af7bae5732907407f SHA256: 304fd3ac3c71ae409e569bf3682dfb4b216f0a0bc06a93dc91f18b5e04624d64 SHA512: 5bdc2d2630efe3e7ed56a378c39684c13a50f5d25b71b71454268b0e7900caa59f107fea2951668a0990a03ed8bf413694ca96b80b653c2f4799d134cfa73597 Homepage: https://cran.r-project.org/package=SADISA Description: CRAN Package 'SADISA' (Species Abundance Distributions with Independent-SpeciesAssumption) Computes the probability of a set of species abundances of a single or multiple samples of individuals with one or more guilds under a mainland-island model. One must specify the mainland (metacommunity) model and the island (local) community model. It assumes that species fluctuate independently. The package also contains functions to simulate under this model. See Haegeman, B. & R.S. Etienne (2017). A general sampling formula for community structure data. Methods in Ecology & Evolution 8: 1506-1519 . Package: r-cran-sadists Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 599 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pdqutils, r-cran-hypergeo, r-cran-orthopolynom Suggests: r-cran-sharper, r-cran-shiny, r-cran-testthat, r-cran-ggplot2, r-cran-xtable, r-cran-formatr, r-cran-knitr Filename: pool/dists/focal/main/r-cran-sadists_0.2.5-1.ca2004.1_all.deb Size: 472268 MD5sum: 52e688bb5f2b0a3c25a4814cca7fcf51 SHA1: 450a9e60bb4a7e8b9eb9872173ecef97d648a216 SHA256: a5f2e3205d78decfc110a37e1cd8dab3fb54c03ed2c905316b1b16c52eb65cd6 SHA512: 5458444ea0a438b38a070e3671d0f57c4b584c432f5d6b3d121df08039ad2fea0259332d3f9a2e097fd53de7d7a63f015e4c35e3ece48ffffda64e3662f67a5f Homepage: https://cran.r-project.org/package=sadists Description: CRAN Package 'sadists' (Some Additional Distributions) Provides the density, distribution, quantile and generation functions of some obscure probability distributions, including the doubly non-central t, F, Beta, and Eta distributions; the lambda-prime and K-prime; the upsilon distribution; the (weighted) sum of non-central chi-squares to a power; the (weighted) sum of log non-central chi-squares; the product of non-central chi-squares to powers; the product of doubly non-central F variables; the product of independent normals. Package: r-cran-sae.projection Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4616 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tidymodels, r-cran-fselector, r-cran-glmnet, r-cran-xgboost, r-cran-survey, r-cran-cli, r-cran-doparallel, r-cran-dplyr, r-cran-parsnip, r-cran-recipes, r-cran-rlang, r-cran-rsample, r-cran-tune, r-cran-workflows, r-cran-yardstick, r-cran-bonsai, r-cran-ranger, r-cran-randomforest, r-cran-themis, r-cran-lightgbm, r-cran-caret Filename: pool/dists/focal/main/r-cran-sae.projection_0.1.3-1.ca2004.1_all.deb Size: 4652940 MD5sum: 4b8281bdf4c5294d81d57d6df341b589 SHA1: 80fed6577a77706f5ad7e234991dae05e146efe7 SHA256: a42dfdeba2568c2d587bab9d35ebc30c6a9d7a7790f352ba9ff493676ba15d07 SHA512: e6390cebc681134b7f442eb3bdcaaf0b1a6e2c379ec89b51b5a91fb235e1c2294054b095e32908d7316043de49e645a7da834f1468d9533e3620fb68016da65b Homepage: https://cran.r-project.org/package=sae.projection Description: CRAN Package 'sae.projection' (Small Area Estimation Using Model-Assisted Projection Method) Combines information from two independent surveys using a model-assisted projection method. Designed for survey sampling scenarios where a large sample collects only auxiliary information (Survey 1) and a smaller sample provides data on both variables of interest and auxiliary variables (Survey 2). Implements a working model to generate synthetic values of the variable of interest by fitting the model to Survey 2 data and predicting values for Survey 1 based on its auxiliary variables (Kim & Rao, 2012) . Package: r-cran-sae.prop Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 427 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magic, r-cran-mass, r-cran-corpcor, r-cran-progress, r-cran-fpc Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sae.prop_0.1.2-1.ca2004.1_all.deb Size: 347584 MD5sum: a3d7b0fd823ff08fc578c74792228f2c SHA1: 897c6756bde5d4d1f82114b90695359bf5e8dcb7 SHA256: 4e1ce9b1e9baa4dcf48c6497c4aade95bf8db567d2d193d20e123db7964543f5 SHA512: 013636a5315cbd32142e6302c44fcb1721b297eb108ba8e52a3a2726d6bbdb0e70f08f9dcfacde79406b772fe1e9353fa75cb71d137b97824811d3d7777f3007 Homepage: https://cran.r-project.org/package=sae.prop Description: CRAN Package 'sae.prop' (Small Area Estimation using Fay-Herriot Models with AdditiveLogistic Transformation) Implements Additive Logistic Transformation (alr) for Small Area Estimation under Fay Herriot Model. Small Area Estimation is used to borrow strength from auxiliary variables to improve the effectiveness of a domain sample size. This package uses Empirical Best Linear Unbiased Prediction (EBLUP). The Additive Logistic Transformation (alr) are based on transformation by Aitchison J (1986). The covariance matrix for multivariate application is based on covariance matrix used by Esteban M, Lombardía M, López-Vizcaíno E, Morales D, and Pérez A . The non-sampled models are modified area-level models based on models proposed by Anisa R, Kurnia A, and Indahwati I , with univariate model using model-3, and multivariate model using model-1. The MSE are estimated using Parametric Bootstrap approach. For non-sampled cases, MSE are estimated using modified approach proposed by Haris F and Ubaidillah A . Package: r-cran-sae2 Architecture: all Version: 1.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 167 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-survey Suggests: r-cran-sae Filename: pool/dists/focal/main/r-cran-sae2_1.2-1-1.ca2004.1_all.deb Size: 139640 MD5sum: 1225b2110a872a318ba8759f2ec9b607 SHA1: e11e83739d4145d5fd0a5c624e9f69705c868acf SHA256: b487584a16e830cab65c5915b332505f51b9a889a273952f8f7929c4f4c541e2 SHA512: 524861e09477dbc0af4590c9c59de822a620a7f0f5cda5bea65640d59002cf86e22baeac21510fa33da3ef39cd3a24b0ff135653ad600b48e0d66080d3b38f98 Homepage: https://cran.r-project.org/package=sae2 Description: CRAN Package 'sae2' (Small Area Estimation: Time-Series Models) Time series area-level models for small area estimation. The package supplements the functionality of the sae package. Specifically, it includes EBLUP fitting of the original Rao-Yu model, which in the original form did not have a spatial component. The package also offers a modified ('dynamic') version of the Rao-Yu model, replacing the assumption of stationarity. Both univariate and multivariate applications are supported. Of particular note is the allowance for covariance of the area-level sample estimates over time, as encountered in rotating panel designs such as the U.S. National Crime Victimization Survey or present in a time-series of 5-year estimates from the American Community Survey. Key references to the methods include J.N.K. Rao and I. Molina (2015, ISBN:9781118735787), J.N.K. Rao and M. Yu (1994) , and R.E. Fay and R.A. Herriot (1979) . Package: r-cran-sae4health Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1152 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-config, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-golem, r-cran-gridextra, r-cran-htmltools, r-cran-htmlwidgets, r-cran-leaflet, r-cran-r6, r-cran-sf, r-cran-sp, r-cran-shiny, r-cran-shinybs, r-cran-shinydashboard, r-cran-shinyfeedback, r-cran-shinyjs, r-cran-shinywidgets, r-cran-summer, r-cran-surveyprev, r-cran-survey, r-cran-geodata, r-cran-bookdown, r-cran-markdown, r-cran-haven, r-cran-ggridges, r-cran-ggthemes, r-cran-rcolorbrewer, r-cran-viridislite, r-cran-scales, r-cran-patchwork, r-cran-leaflegend, r-cran-leafsync, r-cran-plotly, r-cran-readr, r-cran-sn Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sae4health_1.2.3-1.ca2004.1_all.deb Size: 1089924 MD5sum: 31a409d1a2a0a819cea66cdc52d8f235 SHA1: c820c1f301622caf2f016f6529970a7529450db9 SHA256: 99b4435eeb00711908b3929fd75043c6aacecc19c053353f0f20b9ae829c7889 SHA512: 75c470bb47d8a44265ea6b03ede406992bd8e7a3b55962e3ee8463390df35fb03848914ce39635b6ea644086e51d24131b51319633922042f2fa30f4938bdef2 Homepage: https://cran.r-project.org/package=sae4health Description: CRAN Package 'sae4health' (Small Area Estimation for Key Health and Demographic Indicatorsfrom Household Surveys) Enables small area estimation (SAE) of health and demographic indicators in low- and middle-income countries (LMICs). It powers an R 'shiny' application for generating subnational estimates and prevalence maps of 150+ binary indicators from Demographic and Health Surveys (DHS). It builds on the SAE analysis workflow from the 'surveyPrev' package. For documentation, visit . Methodological details can be found at Wu et al. (2025) . Package: r-cran-sae Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1365 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-sae_1.3-1.ca2004.1_all.deb Size: 1172592 MD5sum: da2304905c19599266d1d5a4b667733e SHA1: e63efea7762bfe455f13ba5bca23ed2ce3e37955 SHA256: b0118023cb2e78551d5fb4799a732e866dd8eae7ca61d6736ab149dfbe7b34fa SHA512: af6a4f3e46b511ffd0ce9826e94fdb9d8abecbff6efee3d97dc76b5e1d2c9fd25d45ceaebd0c35a081a4ed7c4e233ae5f51295dbbaee032e70cef896ba8e93ea Homepage: https://cran.r-project.org/package=sae Description: CRAN Package 'sae' (Small Area Estimation) Functions for small area estimation. Package: r-cran-saebest Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sae Filename: pool/dists/focal/main/r-cran-saebest_0.1.0-1.ca2004.1_all.deb Size: 18740 MD5sum: a5e43649d61e76f757ad2bd290353e9a SHA1: 0665bd66b70155bf8f91d749ab08ec9df186da0d SHA256: 1d6b98bd4bef5712b2ac24642cf34c7acdcbcea32b642a3fe4aded6a8f11f184 SHA512: 3d56abef69442c4757095a1fcc2d72fbd7f28df2581ee7c9cca0591c42cc20189583c09afe84c331d2e130dc377e705ea956ee46a1255c4a2934d674f46ec9d6 Homepage: https://cran.r-project.org/package=saeBest Description: CRAN Package 'saeBest' (Selecting Auxiliary Variables in Small Area Estimation (SAE)Model) Select best combination of auxiliary variables with certain criterion. Package: r-cran-saebnocov Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-descr, r-cran-dplyr, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-saebnocov_0.1.0-1.ca2004.1_all.deb Size: 79724 MD5sum: 222f3fda472296868260aa9366e7131e SHA1: dd40d9be6b65087c575190e9bd039e8d59078675 SHA256: 779effa68baa7bcbb2d4282abc6a22dab10c6980e6ac12aa5eca0b49e52137d6 SHA512: e4dac1e56701bdd1288e0a1caca4c62dd2c99e089e4d124923a71e1c51dcf47a713e235ee979dc02dc24314aef48d0c0d866cf8836bed309c8ddef03ceda1232 Homepage: https://cran.r-project.org/package=saebnocov Description: CRAN Package 'saebnocov' (Small Area Estimation using Empirical Bayes without AuxiliaryVariable) Estimates the parameter of small area in binary data without auxiliary variable using Empirical Bayes technique, mainly from Rao and Molina (2015,ISBN:9781118735787) with book entitled "Small Area Estimation Second Edition". This package provides another option of direct estimation using weight. This package also features alpha and beta parameter estimation on calculating process of small area. Those methods are Newton-Raphson and Moment which based on Wilcox (1979) and Kleinman (1973) . Package: r-cran-saeeb Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-count, r-cran-mass Filename: pool/dists/focal/main/r-cran-saeeb_0.1.0-1.ca2004.1_all.deb Size: 32204 MD5sum: 40a6d96eb4a62ca78ce9bed65dc2e8cb SHA1: 9d3a7a3e82d706bd14ef080a471a0f6d1e3440bf SHA256: 4cf0406d2ae28f7a4db4163dee1e9c45a613059ef8288fc6c01dbae75ad528e3 SHA512: 2b720a6f0cdc80303ffd772bb327e917e76c4eaa47e86954f36510f59456b22a43742d1ec0921e760e588b2175e5800165bcf19d4145e7015d5c3bfa64d6a3cc Homepage: https://cran.r-project.org/package=saeeb Description: CRAN Package 'saeeb' (Small Area Estimation for Count Data) Provides small area estimation for count data type and gives option whether to use covariates in the estimation or not. By implementing Empirical Bayes (EB) Poisson-Gamma model, each function returns EB estimators and mean squared error (MSE) estimators for each area. The EB estimators without covariates are obtained using the model proposed by Clayton & Kaldor (1987) , the EB estimators with covariates are obtained using the model proposed by Wakefield (2006) and the MSE estimators are obtained using Jackknife method by Jiang et. al. (2002) . Package: r-cran-saeforest Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2924 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-caret, r-cran-dplyr, r-cran-ggplot2, r-cran-haven, r-cran-ineq, r-cran-lme4, r-cran-maptools, r-cran-pbapply, r-cran-pdp, r-cran-ranger, r-cran-reshape2, r-cran-vip Suggests: r-cran-r.rsp, r-cran-sp, r-cran-rgeos, r-cran-testthat Filename: pool/dists/focal/main/r-cran-saeforest_1.0.0-1.ca2004.1_all.deb Size: 2916796 MD5sum: f6271944044a48fbfb03dfa5cd1e5ff1 SHA1: 005b0b816bb357d1522f9b91ee3fb88dd6352fc3 SHA256: d26a3c1844746796cfca34757ea9559851d7a22e03bf28d3d554a71487f24610 SHA512: 8a1c121282cc53b331c318d3c45de328b3210765f0bbade099b257dd37439c2d7b980ed86d408c799fc660d33569b55d1019155108d7f6b4526beb846e20699e Homepage: https://cran.r-project.org/package=SAEforest Description: CRAN Package 'SAEforest' (Mixed Effect Random Forests for Small Area Estimation) Mixed Effects Random Forests (MERFs) are a data-driven, nonparametric alternative to current methods of Small Area Estimation (SAE). 'SAEforest' provides functions for the estimation of regionally disaggregated linear and nonlinear indicators using survey sample data. Included procedures facilitate the estimation of domain-level economic and inequality metrics and assess associated uncertainty. Emphasis lies on straightforward interpretation and visualization of results. From a methodological perspective, the package builds on approaches discussed in Krennmair and Schmid (2022) and Krennmair et al. (2022) . Package: r-cran-saehb.gpois Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-stringr, r-cran-coda, r-cran-rjags Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-saehb.gpois_0.1.1-1.ca2004.1_all.deb Size: 39808 MD5sum: 713e5d476553de72df26b9b8c2ccebc3 SHA1: 7f806559ec7583bda3251a6862f31005eec97c45 SHA256: 091a3d04335fe3348558a07d55e71cff56ab678b9e3097a6c5081ccfbc95ec25 SHA512: 260eb4f1d86bceba1cc803216f5c100f3e7b43cedf4c5f81cc659f658a8d3c4eed75753c742c5d0099e9f203e82b3ca8dabd6e8fe5c6378adfea3f98d01fe23c Homepage: https://cran.r-project.org/package=saeHB.gpois Description: CRAN Package 'saeHB.gpois' (SAE using HB Method under Generalized Poisson Distribution) We designed this package to provide function for area level of Small Area Estimation using Hierarchical Bayesian (HB) method under Generalized Poisson Distribution. This package provides model using Univariate Generalized Poisson Distribution for variable of interest. Some datasets simulated by a data generation are also provided. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involves the HB estimators which include the mean and the variation of mean. For the reference, see Rao and Molina (2015) , Wang (2021) and Ntzoufras (2009) . Package: r-cran-saehb.hnb Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-stringr, r-cran-coda, r-cran-rjags Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-saehb.hnb_0.1.2-1.ca2004.1_all.deb Size: 41620 MD5sum: dfe6317101772cd9caed97afa6fddf66 SHA1: 25236b87309b9197649cbac12b228843e19b1d9c SHA256: 3c6d0100bafe43c4bca8c29c8f12b6cf8b347863f669cae5c4951333ac8bd463 SHA512: 8ae4307b0260450f406ca86475caa57362a2a7a3043ebcea3d9010ba0ee1b7907e369e614e10a2fae80f716e8e3b20a18c1fee71e1c6f942229e46c81130adde Homepage: https://cran.r-project.org/package=saeHB.hnb Description: CRAN Package 'saeHB.hnb' (Small Area Estimation under Hurdle Negative BinomialDistribution using Hierarchical Bayesian Method) We design this package to provide a function for area level of small area estimation using Hierarchical Bayesian (HB) method under Hurdle Negative Binomial Distribution. This package provides model using Univariate Hurdle Negative Binomial Distribution for variable of interest. This package also provides a dataset produced by a data generation. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involves the Hierarchical Bayes estimators which include the mean and the variation of mean. For references, see Hilbe (2011) and Rao (2015) . Package: r-cran-saehb.me.beta Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-coda, r-cran-rjags, r-cran-stringr Suggests: r-cran-covr, r-cran-knitr, r-cran-r.rsp, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-saehb.me.beta_1.1.0-1.ca2004.1_all.deb Size: 46960 MD5sum: 3a444058de9ddc12f4a91164c81ed187 SHA1: 08674eeea1caf742ea77ade99f74099c913995a0 SHA256: 1e162f539cc2d6d921ebacd995f55e7af21ce626e45c6de51db3463364595f34 SHA512: 3b23b24295dc46dc648fe7c2e8f4287af8fd5aa7d2c2fad54e4756de3aa84e1f95869fce347966ec8c1cdc111afc7e3395eebb54bbf04cdcf1c4a12c1b288308 Homepage: https://cran.r-project.org/package=saeHB.ME.beta Description: CRAN Package 'saeHB.ME.beta' (SAE with Measurement Error using HB under Beta Distribution) Implementation of Small Area Estimation (SAE) using Hierarchical Bayesian (HB) Method when auxiliary variable measured with error under Beta Distribution. The 'rjags' package is employed to obtain parameter estimates. For the references, see J.N.K & Molina (2015) , Ybarra and Sharon (2008) , and Ntzoufras (2009, ISBN-10: 1118210352). Package: r-cran-saehb.me Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-coda, r-cran-rjags, r-cran-stringr Filename: pool/dists/focal/main/r-cran-saehb.me_1.0.1-1.ca2004.1_all.deb Size: 57272 MD5sum: ce6715c30924c9f6dcfe2075a8b71273 SHA1: c727f25d05e08ac4f4ebc8ad7988fa77c581eef3 SHA256: 996a912d7693e3677434ef5af36c7f91c2849e2c54520776a6126ec1a737f234 SHA512: 88d6c36fcee18d141e8d0fc30dbe17605f21b713031c586d559eb7284038ef95a7cabe6b3f39e9a83e7b0488a21b8c58f238658537e5ffbe2b352ddfbd38aede Homepage: https://cran.r-project.org/package=saeHB.ME Description: CRAN Package 'saeHB.ME' (Small Area Estimation with Measurement Error using HierarchicalBayesian Method) Implementation of small area estimation using Hierarchical Bayesian (HB) Method when auxiliary variable measured with error. The 'rjags' package is employed to obtain parameter estimates. For the references, see Rao and Molina (2015) , Ybarra and Lohr (2008) , and Ntzoufras (2009, ISBN-10: 1118210352). Package: r-cran-saehb.panel.beta Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda, r-cran-dplyr, r-cran-rjags, r-cran-stringr Suggests: r-cran-knitr, r-cran-r.rsp, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-saehb.panel.beta_0.1.5-1.ca2004.1_all.deb Size: 79540 MD5sum: ecd0b8818805a4a2c1a1dc64446a69e8 SHA1: 2ca3a952aec6aead1c060e1185d7f36e4d53cb19 SHA256: ce6b1b3bfec96de097164146aba8c6f0f1235f06b8a482bb3a097e1a1ace293f SHA512: c7ca5851a6f6acff3fc3522274a9fba2cefc0a6d7348c433252b9fde7f0b47c9ea3177fbd69212706f3911324d9979f327884f40ee86e206b3aefd493cdf9853 Homepage: https://cran.r-project.org/package=saeHB.panel.beta Description: CRAN Package 'saeHB.panel.beta' (Small Area Estimation using HB for Rao Yu Model under BetaDistribution) Several functions are provided for small area estimation at the area level using the hierarchical bayesian (HB) method with panel data under beta distribution for variable interest. This package also provides a dataset produced by data generation. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involve the HB estimators, which include the mean and the variation of the mean. For the reference, see Rao and Molina (2015, ISBN: 978-1-118-73578-7). Package: r-cran-saehb.panel Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-stringr, r-cran-coda, r-cran-rjags Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-saehb.panel_0.1.1-1.ca2004.1_all.deb Size: 87904 MD5sum: d72cd9266d8341eb2cea142892f1e15f SHA1: 80efa2bcd90a2e6a3dc78f3a4f30cb34dae7ba7c SHA256: b7f200354180ef07849e7537de01553dd3cc79ff1117ad4608e4844124657dc7 SHA512: 6468840cd1045b8d2a6c24aa98c36e87544d60c6e7fbafa3f165b6f5faed4a915083a1b185bf917a5bec56b49ee905a79209cc9deb707e294ef0ffdc3f80ecce Homepage: https://cran.r-project.org/package=saeHB.panel Description: CRAN Package 'saeHB.panel' (Small Area Estimation using Hierarchical Bayesian Method for RaoYu Model) We designed this package to provide several functions for area level of small area estimation using hierarchical Bayesian (HB) method. This package provides model using panel data for variable interest.This package also provides a dataset produced by a data generation. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involves the HB estimators which include the mean and the variation of mean. For the reference, see Rao and Molina (2015). Package: r-cran-saehb.spatial Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-coda, r-cran-rjags Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-saehb.spatial_0.1.1-1.ca2004.1_all.deb Size: 43284 MD5sum: dec313e972d786b9971cbf3e9f10ba85 SHA1: a250adb3750df5484172f59738ae0b836bfdf847 SHA256: d259291a9a4a76c94c3dade88c28b7cc2940f4b9e782e2f0dd8c8f1e07fbed96 SHA512: 3b105d6b4684d93e8bee7cbd41daaa65e6d10f6e5c82c4805b0c03819bea7fb99fa324c547c6019badbcadc64eb5887a3fcf955c4b718b93bd10519981487c4a Homepage: https://cran.r-project.org/package=saeHB.spatial Description: CRAN Package 'saeHB.spatial' (Small Area Estimation Hierarchical Bayes For Spatial Model) Provides several functions and datasets for area level of Small Area Estimation under Spatial Model using Hierarchical Bayesian (HB) Method. Model-based estimators include the HB estimators based on a Spatial Fay-Herriot model with univariate normal distribution for variable of interest.The 'rjags' package is employed to obtain parameter estimates. For the reference, see Rao and Molina (2015) . Package: r-cran-saehb.twofold Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 423 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rjags, r-cran-coda, r-cran-stringr, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-saehb.twofold_0.1.2-1.ca2004.1_all.deb Size: 96108 MD5sum: 171682cb379e708e1ef6b98bf211aad4 SHA1: 3a87ebe28f58d9a6929909c7f8b07455f9ffe9d3 SHA256: 1f4e9d17ed97465c62bcb1d4ace654b1ae3c7f1287ba6be75cf4142d2be20069 SHA512: 30e0008400e60bbd30e257155ace506e59e54bc68174e0c8ada606a389ba276de70a6fa5069f6cd21feb8ab9c1dbc02ff95a83521590f3f582831c9cd3f77211 Homepage: https://cran.r-project.org/package=saeHB.twofold Description: CRAN Package 'saeHB.twofold' (Hierarchical Bayes Twofold Subarea Level Model SAE) We designed this package to provides several functions for area and subarea level of small area estimation under Twofold Subarea Level Model using hierarchical Bayesian (HB) method with Univariate Normal distribution for variables of interest. Some dataset simulated by a data generation are also provided. The 'rjags' package is employed to obtain parameter estimates using Gibbs Sampling algorithm. Model-based estimators involves the HB estimators which include the mean, the variation of mean, and the quantile. For the reference, see Rao and Molina (2015) , Torabi and Rao (2014) , Leyla Mohadjer et al.(2007) , and Erciulescu et al.(2019) . Package: r-cran-saehb.unit Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 523 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-coda, r-cran-dplyr, r-cran-rjags Filename: pool/dists/focal/main/r-cran-saehb.unit_0.1.0-1.ca2004.1_all.deb Size: 347924 MD5sum: 537d54cd149e63ce1eee4ca7811b0857 SHA1: bccc01c69c7f0fed8f6a938daf6b8f67a02f2e27 SHA256: 134a1b98a42e92b91bd91bf58da4ec14cfe9c63e112b4d1dce78661b0a91f51d SHA512: 6438149832da2b3cdc80c2b274bcfb154c8a61b27cae0a26ab2f86903cedab93a02b166f5e77f4a59d93b86dcc190ac7f4f544dfe7368e2a899c409321dcd923 Homepage: https://cran.r-project.org/package=saeHB.unit Description: CRAN Package 'saeHB.unit' (Basic Unit Level Model using Hierarchical Bayesian Approach) Small area estimation unit level models (Battese-Harter-Fuller model) with a Bayesian Hierarchical approach. See also Rao & Molina (2015, ISBN:978-1-118-73578-7) and Battese et al. (1988) . Package: r-cran-saehb.zib Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-stringr, r-cran-coda, r-cran-rjags Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-saehb.zib_0.1.1-1.ca2004.1_all.deb Size: 36212 MD5sum: 6385d59e9bbb014bc0788fd0151223d1 SHA1: ab8513a68b81d7c9cf6488383b5046da2be066fb SHA256: 042156b26df4a7f9b5020704c7d27670962db69d1238e61e8f3defb595314d9d SHA512: 75274ea6a245c0bfe04c3f1bfcdcedfecb0926fb8be24dff316d7a609da22a424e5407252fa05e0c29a4305911f70fa306b8166f5ef1aaf5410790429dc268f4 Homepage: https://cran.r-project.org/package=saeHB.ZIB Description: CRAN Package 'saeHB.ZIB' (Small Area Estimation using Hierarchical Bayesian under ZeroInflated Binomial Distribution) Provides function for area level of small area estimation using hierarchical Bayesian (HB) method with Zero-Inflated Binomial distribution for variables of interest. Some dataset produced by a data generation are also provided. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involves the HB estimators which include the mean and the variation of mean. Package: r-cran-saehb.zinb Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-stringr, r-cran-coda, r-cran-rjags Suggests: r-cran-saehb, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-saehb.zinb_0.1.1-1.ca2004.1_all.deb Size: 48276 MD5sum: da8385fbbcf711a3527ecd786cf11338 SHA1: 634bb531e91d07ec7edccf03c874f6acb63be73a SHA256: 9487fb8e3db6076cac3f36c6f0082885832602740db4594c79c9269e8fe457c9 SHA512: 0a06e948bbc88eb5d02a0ba574f2a9b345a534ddb1cb241dc01dc089d72f0671296fc1cdae5374ef4879416d66c7740311b03600630a282e9bb9439a3f95748a Homepage: https://cran.r-project.org/package=saeHB.zinb Description: CRAN Package 'saeHB.zinb' (Small Area Estimation using Hierarchical Bayesian under ZeroInflated Negative Binomial Distribution) We designed this package to provide a function for area level of small area estimation using Hierarchical Bayesian (HB) method under Zero Inflated Negative Binomial Distribution. This package provides model using Univariate Zero Inflated Negative Binomial Distribution for variable of interest. This package also provides a dataset produced by a data generation. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involves the HB estimators which include the mean and the variation of mean, and the quantile. For the reference, see Rao,J.N.K & Molina (2015) . Package: r-cran-saehb Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 256 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stringr, r-cran-coda, r-cran-rjags, r-cran-nimble, r-cran-carbayesdata, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-saehb_0.2.2-1.ca2004.1_all.deb Size: 210036 MD5sum: 5002d6b30eace46e7325f02d704f0b0d SHA1: ad22b8fa55ae5ac80a2e49956193b04918d76610 SHA256: aeb3f4d5fdf70058ec11f7c450357e3ab62ed7283014958768d81fbd9fb4ca7e SHA512: dbc01c716d98844738385f9a4287b8304c778764312a5303f1b7917d526c7f2d2538f1097ac81c3600d7fbe6aa59540f3aedd17cb73ff1281a29cd322361e0a2 Homepage: https://cran.r-project.org/package=saeHB Description: CRAN Package 'saeHB' (Small Area Estimation using Hierarchical Bayesian Method) Provides several functions for area level of small area estimation using hierarchical Bayesian (HB) methods with several univariate distributions for variables of interest. The dataset that is used in every function is generated accordingly in the Example. The 'rjags' package is employed to obtain parameter estimates. Model-based estimators involve the HB estimators which include the mean and the variation of mean. For the reference, see Rao and Molina (2015) . Package: r-cran-saekernel Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-saekernel_0.1.1-1.ca2004.1_all.deb Size: 24644 MD5sum: 167a9b1965674d0f409c2bda428c3d91 SHA1: 98b3a0ce99919fc4dd7b8d07f44ff95f574d6645 SHA256: 7218ed372e253453fb6569dda23251fc5a4c3cc1654856d5e6daeb25603aab2c SHA512: d5270c69999f10916f3027b1cfa5628cfa2eadb065e35035ad01c39300f5586c09fdfb4d5f5c1e92c0282f8b102141e6b0c388777971e3bdb6fd51c759f00ee0 Homepage: https://cran.r-project.org/package=saekernel Description: CRAN Package 'saekernel' (Small Area Estimation Non-Parametric Based Nadaraya-WatsonKernel) Propose an area-level, non-parametric regression estimator based on Nadaraya-Watson kernel on small area mean. Adopt a two-stage estimation approach proposed by Prasad and Rao (1990). Mean Squared Error (MSE) estimators are not readily available, so resampling method that called bootstrap is applied. This package are based on the model proposed in Two stage non-parametric approach for small area estimation by Pushpal Mukhopadhyay and Tapabrata Maiti(2004) . Package: r-cran-saeme Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-saeme_1.3.1-1.ca2004.1_all.deb Size: 54296 MD5sum: 37d9203ee7159dd7d013b61c927042ac SHA1: 6397c15385783c370d5736f403e53cb290847b08 SHA256: 1482c5fe53eb04c7e14c58009c8dcb40c2520f772d6eb633d784cb1949f18231 SHA512: 4461febb17672cd2695761a322e0c4fd8dc5683c6c2f38e73e08022fca4bfcdd5a0980d2e6bbb36185408140806b4f01928755bd70ce3ec93c64f17571397c87 Homepage: https://cran.r-project.org/package=saeME Description: CRAN Package 'saeME' (Small Area Estimation with Measurement Error) A set of functions and datasets implementation of small area estimation when auxiliary variable is measured with error. These functions provide a empirical best linear unbiased prediction (EBLUP) estimator and mean squared error (MSE) estimator of the EBLUP. These models were developed by Ybarra and Lohr (2008) . Package: r-cran-saemix Architecture: all Version: 3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4164 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-npde, r-cran-gridextra, r-cran-ggplot2, r-cran-rlang, r-cran-mclust, r-cran-scales, r-cran-mass Suggests: r-cran-testthat, r-cran-survival Filename: pool/dists/focal/main/r-cran-saemix_3.3-1.ca2004.1_all.deb Size: 3259624 MD5sum: e599a2b323e94c4feaaddf55c85bb3d4 SHA1: 5a7778bfddbad1e61e3ab76afd74f95c24db73c6 SHA256: bcf866e7120830f280c8ed167033b68d29b72778916bb1f0044635e2696c74a2 SHA512: 8b29282447b93882bd3520ec709a7b5ca6b8b7405b07ebd940fe397cd662b4f73cedf7e045a5dfe79e00aff8c3f59b932ae04fe237e41689ecd4ab4a5862d655 Homepage: https://cran.r-project.org/package=saemix Description: CRAN Package 'saemix' (Stochastic Approximation Expectation Maximization (SAEM)Algorithm) The 'saemix' package implements the Stochastic Approximation EM algorithm for parameter estimation in (non)linear mixed effects models. The SAEM algorithm (i) computes the maximum likelihood estimator of the population parameters, without any approximation of the model (linearisation, quadrature approximation,...), using the Stochastic Approximation Expectation Maximization (SAEM) algorithm, (ii) provides standard errors for the maximum likelihood estimator (iii) estimates the conditional modes, the conditional means and the conditional standard deviations of the individual parameters, using the Hastings-Metropolis algorithm (see Comets et al. (2017) ). Many applications of SAEM in agronomy, animal breeding and PKPD analysis have been published by members of the Monolix group. The full PDF documentation for the package including references about the algorithm and examples can be downloaded on the github of the IAME research institute for 'saemix': . Package: r-cran-saens Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 384 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-ggplot2, r-cran-rlang, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-saens_0.1.2-1.ca2004.1_all.deb Size: 281304 MD5sum: e81021e4c10754df106d30838cadc8d6 SHA1: 0034cb22a5575f7b6b59854c2fa5f54c99427165 SHA256: 7ddc87987ac6138865eb8760e6be9251b89a5f2037dcd76ca32bda8c66befa22 SHA512: 9f648da4df370f28d53936007abefe4b64274358305f42a08a2529eaadcaf5b2f7e6c6cf96b439347255644e1c3de149864c741c92230680aa52f77ee0131bd1 Homepage: https://cran.r-project.org/package=saens Description: CRAN Package 'saens' (Small Area Estimation with Cluster Information for Estimation ofNon-Sampled Areas) Implementation of small area estimation (Fay-Herriot model) with EBLUP (Empirical Best Linear Unbiased Prediction) Approach for non-sampled area estimation by adding cluster information and assuming that there are similarities among particular areas. See also Rao & Molina (2015, ISBN:978-1-118-73578-7) and Anisa et al. (2013) . Package: r-cran-saepseudo Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-sae Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-saepseudo_0.1.0-1.ca2004.1_all.deb Size: 27548 MD5sum: a3b04013707a3cfb2665289b13904bc7 SHA1: e858212237d42a30750f8beb2e24ac4a4f20c179 SHA256: 5c42a9c99e7f031e452b134a68376248b464b2c8cbda5c94117d378d5ceec417 SHA512: 270771acb712cf698a381ac269ad36a4f5e115db2a7d44100a171bdad800a1e129fc4cea36feba4a5de44013838e10a1cf6fa25831443b16be45878e98c6bb93 Homepage: https://cran.r-project.org/package=saePseudo Description: CRAN Package 'saePseudo' (Small Area Estimation using Averaging Pseudo Area Level Model) Provides function for small area estimation at area level using averaging pseudo area level model for variables of interest. A dataset produced by data generation is also provided. This package estimates small areas at the village level and then aggregates them to the sub-district, region, and provincial levels. Package: r-cran-saery Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-saery_2.0-1.ca2004.1_all.deb Size: 167552 MD5sum: 3d2d9612e053d6f0b6e71dd2dd8dc240 SHA1: 78558a86e17e3859624767e23152e93672816c7f SHA256: 79539b52d1bf703e6601236ff6a0bd73bb633639e320fb7e19c5eec547041f2e SHA512: bc92bdd1675e02af3991058ac177b4eecf104eca6469b7a16b9d56a7aa97d43911a97e946fe71b74a9bf4ff826b07097e3466393bfd0748b37c7b73f8d4a5462 Homepage: https://cran.r-project.org/package=saery Description: CRAN Package 'saery' (Small Area Estimation for Rao and Yu Model) Functions to calculate EBLUPs (Empirical Best Linear Unbiased Predictor) estimators and their MSEs (Mean Squared Errors). Estimators are based on an area-level linear mixed model introduced by Rao and Yu (1994) . The REML (Residual Maximum Likelihood) method is used for fitting the model. Package: r-cran-saesim Architecture: all Version: 0.11.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 452 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-functional, r-cran-ggplot2, r-cran-mass, r-cran-spdep, r-cran-parallelmap, r-cran-tibble Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-saesim_0.11.0-1.ca2004.1_all.deb Size: 298268 MD5sum: 716431238480a47559505f8168a7862b SHA1: 0b851d8cb5114887f1c9f4a71c15112a1e57f8c7 SHA256: 6c0f072614a50c44fa8b2d0c7a85c4f0c1ed9d570f53ad30b686787d8923163c SHA512: 39eb43ebeef2e4d0f51c9570a19dbae701ed9f54b6f699bf4fa0cfd56ce6a08b271b356f05aefa48bf6ce243488c3adffe10d6e4f011331e528cb1b5c467f985 Homepage: https://cran.r-project.org/package=saeSim Description: CRAN Package 'saeSim' (Simulation Tools for Small Area Estimation) Tools for the simulation of data in the context of small area estimation. Combine all steps of your simulation - from data generation over drawing samples to model fitting - in one object. This enables easy modification and combination of different scenarios. You can store your results in a folder or start the simulation in parallel. Package: r-cran-saetrafo Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2007 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlme, r-cran-emdi, r-cran-sfsmisc, r-cran-parallelmap, r-cran-ggplot2, r-cran-moments, r-cran-openxlsx, r-cran-reshape2, r-cran-hlmdiag, r-cran-gridextra, r-cran-stringr, r-cran-readods, r-cran-rlang Suggests: r-cran-simframe, r-cran-sf, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-saetrafo_1.0.4-1.ca2004.1_all.deb Size: 1974924 MD5sum: 8d7432a54a32d23de7e2a1dfbcc65cc4 SHA1: e57f8c5cf83e0b7d01b48b943b94a91d6ae8dd37 SHA256: c6fb94d9f38664e977079db9fb633a33b385e7790916abc91d002aea2b9bfef9 SHA512: eaa07914d47e1dd775d1f320b271044d0a23a394649eafe419a138d5f87a17d7701886908b6ca2f14505dac95a6c3b2795981877a11b8e70b11bbcc87524f8c0 Homepage: https://cran.r-project.org/package=saeTrafo Description: CRAN Package 'saeTrafo' (Transformations for Unit-Level Small Area Models) The aim of this package is to offer new methodology for unit-level small area models under transformations and limited population auxiliary information. In addition to this new methodology, the widely used nested error regression model without transformations (see "An Error-Components Model for Prediction of County Crop Areas Using Survey and Satellite Data" by Battese, Harter and Fuller (1988) ) and its well-known uncertainty estimate (see "The estimation of the mean squared error of small-area estimators" by Prasad and Rao (1990) ) are provided. In this package, the log transformation and the data-driven log-shift transformation are provided. If a transformation is selected, an appropriate method is chosen depending on the respective input of the population data: Individual population data (see "Empirical best prediction under a nested error model with log transformation" by Molina and Martín (2018) ) but also aggregated population data (see "Estimating regional income indicators under transformations and access to limited population auxiliary information" by Würz, Schmid and Tzavidis ) can be entered. Especially under limited data access, new methodologies are provided in saeTrafo. Several options are available to assess the used model and to judge, present and export its results. For a detailed description of the package and the methods used see the corresponding vignette. Package: r-cran-saeval Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1040 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-car, r-cran-ggplot2, r-cran-ggspatial Filename: pool/dists/focal/main/r-cran-saeval_1.0.0-1.ca2004.1_all.deb Size: 1031716 MD5sum: a00b9650f7772c7c61c1894770599224 SHA1: c216ee759fe49776fefaaab0fb9df488d119f863 SHA256: 4310ac241e415cc912809675f5160ca7ff27b0a305f329e75dde0a7cb25d823a SHA512: 81b58f597abae01e0d9b74456a37798f022ef067f5072337baf965e2656049f1a0455eaa177f8170e7788bf96628a0cf92e9598e520510a9c1d7d12128c32604 Homepage: https://cran.r-project.org/package=SAEval Description: CRAN Package 'SAEval' (Small Area Estimation Evaluation) Allows users to produce diagnostic procedures and graphic tools for the evaluation of Small Area estimators. 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Specifically, offers tools to segment regions of interest and to extract quantitative shape descriptors for applications in signal processing, statistical analysis and modeling, and machine learning. 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Package: r-cran-safejoin Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-lifecycle Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-safejoin_0.2.0-1.ca2004.1_all.deb Size: 19748 MD5sum: a71bdc192fc8ea5b9f9055e5d0fbe617 SHA1: 11644ff1ef44e97efee5e0daabb58991a801652d SHA256: 8855af689259932d4416f4e2afb35e3006fb1f287ef26d839cd7caf84bdd6ca4 SHA512: 5777377adaf109b072d1b98592730af94665b15c779a29f753b237ca40e15f17b7cd87f313c4497715a3b66962d7883bbde5556d1c11a962325de4ceeb375a8c Homepage: https://cran.r-project.org/package=safejoin Description: CRAN Package 'safejoin' (Perform "Safe" Table Joins) The goal of 'safejoin' is to guarantee that when performing joins extra rows are not added to your data. 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Package: r-cran-safestats Architecture: all Version: 0.8.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2065 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-hypergeo, r-cran-survival, r-cran-biasedurn, r-cran-boot, r-cran-dplyr, r-cran-purrr, r-cran-rlang Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-safestats_0.8.7-1.ca2004.1_all.deb Size: 1355520 MD5sum: b71d4e1862c5ae199a0a56df7444c251 SHA1: 31286b2333b07293ff3ab61b0771401f58330f4a SHA256: 8203fe84a010ee644717578a7133ce668be71d3230b0cdb2328d5f173834523d SHA512: 2d85fb67a9178efbbafff7a634efafaa930bc53da7bbaaa22ed8498f33886512ccd851a05faf5b298dad415f83d1a6de62021f3cb8774488a9fd46de95b638a0 Homepage: https://cran.r-project.org/package=safestats Description: CRAN Package 'safestats' (Safe Anytime-Valid Inference) Functions to design and apply tests that are anytime valid. The functions can be used to design hypothesis tests in the prospective/randomised control trial setting or in the observational/retrospective setting. The resulting tests remain valid under both optional stopping and optional continuation. The current version includes safe t-tests and safe tests of two proportions. For details on the theory of safe tests, see Grunwald, de Heide and Koolen (2019) "Safe Testing" , for details on safe logrank tests see ter Schure, Perez-Ortiz, Ly and Grunwald (2020) "The Safe Logrank Test: Error Control under Continuous Monitoring with Unlimited Horizon" and Turner, Ly and Grunwald (2021) "Safe Tests and Always-Valid Confidence Intervals for contingency tables and beyond" for details on safe contingency table tests. 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Package: r-cran-safetycharts Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2380 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-dt, r-cran-forcats, r-cran-ggplot2, r-cran-htmlwidgets, r-cran-huxtable, r-cran-jsonlite, r-cran-pharmartf, r-cran-plotly, r-cran-purrr, r-cran-rcolorbrewer, r-cran-rlang, r-cran-shiny, r-cran-stringr, r-cran-tendril, r-cran-tplyr Suggests: r-cran-testthat, r-cran-shinytest, r-cran-safetydata, r-cran-safetygraphics, r-cran-yaml Filename: pool/dists/focal/main/r-cran-safetycharts_0.3.0-1.ca2004.1_all.deb Size: 490528 MD5sum: 570706989b41ead7c14bc2055020bc62 SHA1: 39f09df42d1d2387c2b1da51773e1131b8705467 SHA256: ccba9e5e6c04c8dedad72e4b02e29e9e57c3e80b7c0448c555f683a4b627a8e4 SHA512: 753254774819ee0ed23cbfba3275219deda15ab7e1bf440ad208d5792e8c895f4c855b7561ec37a4dbbe62b5bf0f6e1282a369e4d4923d7d36fa0350f7c8777a Homepage: https://cran.r-project.org/package=safetyCharts Description: CRAN Package 'safetyCharts' (Charts for Monitoring Clinical Trial Safety) Contains chart code for monitoring clinical trial safety. 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Package: r-cran-sager Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 624 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-markdown, r-cran-prettydoc, r-cran-rmarkdown, r-cran-testthat, r-cran-covr, r-cran-learnr, r-cran-spelling, r-cran-lattice, r-cran-spatstat.data, r-cran-matrix, r-cran-mgcv, r-cran-pmcmrplus, r-cran-devtools, r-cran-extrafont, r-cran-desctools, r-cran-ggally, r-cran-vgam, r-cran-car, r-cran-dplyr, r-cran-tibble, r-cran-ggiraphextra, r-cran-scales, r-cran-spatstat, r-cran-vcd, r-cran-factominer, r-cran-cluster, r-cran-caret, r-cran-corrplot, r-cran-actuar Filename: pool/dists/focal/main/r-cran-sager_0.6.1-1.ca2004.1_all.deb Size: 488680 MD5sum: 053c3168b501c9286b475a5f7f4771bb SHA1: 423f137bd253be2dadbcaf684f0d20aeaac717cb SHA256: 94357f0352f34756a99703eb4b9a8ea2b97c5b529b8864121626743e81529782 SHA512: 0ca1e2d41d8c440032b7707e46ad78e4685d9acd649fa254b53e91e022af0390553e26c8a2dc7647c45031c9cc1365bf0e79544a8fa42d7c2903624f14452247 Homepage: https://cran.r-project.org/package=sageR Description: CRAN Package 'sageR' (Applied Statistics for Economics and Management with R) Datasets and functions for the book "Statistiques pour l’économie et la gestion", "Théorie et applications en entreprise", F. Bertrand, Ch. Derquenne, G. Dufrénot, F. Jawadi and M. Maumy, C. Borsenberger editor, (2021, ISBN:9782807319448, De Boeck Supérieur, Louvain-la-Neuve). The first chapter of the book is dedicated to an introduction to statistics and their world. The second chapter deals with univariate exploratory statistics and graphics. The third chapter deals with bivariate and multivariate exploratory statistics and graphics. The fourth chapter is dedicated to data exploration with Principal Component Analysis. The fifth chapter is dedicated to data exploration with Correspondance Analysis. The sixth chapter is dedicated to data exploration with Multiple Correspondance Analysis. The seventh chapter is dedicated to data exploration with automatic clustering. The eighth chapter is dedicated to an introduction to probability theory and classical probability distributions. The ninth chapter is dedicated to an estimation theory, one-sample and two-sample tests. The tenth chapter is dedicated to an Gaussian linear model. The eleventh chapter is dedicated to an introduction to time series. The twelfth chapter is dedicated to an introduction to probit and logit models. Various example datasets are shipped with the package as well as some new functions. Package: r-cran-sagm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fastmatrix, r-cran-gigrvg, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-sagm_1.0.0-1.ca2004.1_all.deb Size: 35996 MD5sum: 00f901a652cbfb32a248ea6e3d460beb SHA1: ac862c5c30cef9997ef32ea74933c008a26258d7 SHA256: 2c662c1f9dd1057244803f4f67ecfa2981d1993a3c2543843a1e2906c7cd44c3 SHA512: cff8eb92614f188b4428a5e7f40bcb83490dc9f2ccc256704fdff6c79eb743857727f53d2d0082d8cd2b0c369a32748825129457a508278402c0619cb619b4a0 Homepage: https://cran.r-project.org/package=SAGM Description: CRAN Package 'SAGM' (Spatial Autoregressive Graphical Model) Implements the methodological developments found in Hermes, van Heerwaarden, and Behrouzi (2023) , and allows for the statistical modeling of asymmetric between-location effects, as well as within-location effects using spatial autoregressive graphical models. 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Package: r-cran-sahpm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-sahpm_1.0.1-1.ca2004.1_all.deb Size: 23572 MD5sum: 1e08ed39597d9725ec97d072e67184a5 SHA1: 8b221bdd1364c9107b7375add19ea53bb0bdc3b6 SHA256: 40d1f86752c30596f9b0529a8caaca7ab12a93d6f2d24d7b8208d46c2c7fa2aa SHA512: a4d829bef6a56c573ca0d3b4f69a0e7df23bcd6a6b577289a08f653afef024d9552fd524542e8c7e6bd0c3746fd76ceed15776e048ab133633772b1b6e955e30 Homepage: https://cran.r-project.org/package=sahpm Description: CRAN Package 'sahpm' (Variable Selection using Simulated Annealing) Highest posterior model is widely accepted as a good model among available models. In terms of variable selection highest posterior model is often the true model. Our stochastic search process SAHPM based on simulated annealing maximization method tries to find the highest posterior model by maximizing the model space with respect to the posterior probabilities of the models. This package currently contains the SAHPM method only for linear models. The codes for GLM will be added in future. Package: r-cran-saic Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-mass, r-cran-glmnet, r-cran-glasso Filename: pool/dists/focal/main/r-cran-saic_1.0.1-1.ca2004.1_all.deb Size: 19228 MD5sum: 432320e1bcac9dd5509c3e93cb375b5f SHA1: 0eaf2b59161890a1fc1e7ac36b6e17a26b1f173c SHA256: 04e2d3725642346c5ce93aa222ddef5d6326020ec54c5d6b1d4b70617333ab04 SHA512: e5e09f1a643f90fdd9b593e857084a69863fcf0d601f786b346a4ebd1ed015078487666ec403894de4b2ddd1847dc11406417cd731d33188e221f53d2415db40 Homepage: https://cran.r-project.org/package=sAIC Description: CRAN Package 'sAIC' (Akaike Information Criterion for Sparse Estimation) Computes the Akaike information criterion for the generalized linear models (logistic regression, Poisson regression, and Gaussian graphical models) estimated by the lasso. 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Package: r-cran-sailor Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3622 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sailor_1.2-1.ca2004.1_all.deb Size: 3671788 MD5sum: cbf808c01bad555f47f5a8fdf3dc19ea SHA1: 33f3e5c020d87dbc4f1e07dafe62e5748236dd91 SHA256: d4610a62ca864745e4e1b6018ab19e3055f2579ad185ca130eede8a597f69521 SHA512: 056a0a27d894d7a6ba9a4ec9599d220b76916259ae878fdea8bbdb890e276648f7b4406c379ce3c639a36bd868fcbad64aef18c4f54c7ea0581c55c2c074d565 Homepage: https://cran.r-project.org/package=SailoR Description: CRAN Package 'SailoR' (An Extension of the Taylor Diagram to Two-Dimensional VectorData) A new diagram for the verification of vector variables (wind, current, etc) generated by multiple models against a set of observations is presented in this package. It has been designed as a generalization of the Taylor diagram to two dimensional quantities. 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Package: r-cran-saive Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1870 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-crayon, r-cran-doparallel, r-cran-proxy, r-cran-rlang, r-cran-terra, r-cran-vsurf Suggests: r-cran-ranger, r-cran-testthat, r-cran-vdiffr, r-cran-whitebox Filename: pool/dists/focal/main/r-cran-saive_1.0.6-1.ca2004.1_all.deb Size: 1314104 MD5sum: bf2fd73e8e8a3281033594cf04ef8841 SHA1: 3bac5d40737c1fef595ec880c74db945e36a108f SHA256: 7c135dbc96b43ad3c271d0068557ef5480e35a95ef1ca52b5a3137566ac1a572 SHA512: 16890f2cfeb77ac88c3dec9504aefb4586b64dbb57cf12c48e5cbc7033acc013d05d298d0fd6d7c8e7c41494a520dd24b9f2ec80b28e484001ba121a6b43bd03 Homepage: https://cran.r-project.org/package=SAiVE Description: CRAN Package 'SAiVE' (Functions Used for SAiVE Group Research, Collaborations, andPublications) Holds functions developed by the University of Ottawa's SAiVE (Spatio-temporal Analysis of isotope Variations in the Environment) research group with the intention of facilitating the re-use of code, foster good code writing practices, and to allow others to benefit from the work done by the SAiVE group. 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Package: r-cran-salesforcer Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3066 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-vctrs, r-cran-tibble, r-cran-readr, r-cran-lubridate, r-cran-anytime, r-cran-rlang, r-cran-httr, r-cran-curl, r-cran-data.table, r-cran-xml, r-cran-xml2, r-cran-jsonlite, r-cran-rlist, r-cran-zip, r-cran-base64enc, r-cran-mime, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-spelling, r-cran-here, r-cran-microbenchmark, r-cran-ggplot2, r-cran-sessioninfo Filename: pool/dists/focal/main/r-cran-salesforcer_1.0.2-1.ca2004.1_all.deb Size: 2371276 MD5sum: 4f3e280d1fdbd2a6c80f4d859691e754 SHA1: 438ca5e9845c2ad3cd1f7f148be49d297a5f9e5f SHA256: 23b24207558ae0a5a1ef1a104d8c13493fc43938bc1d17d1e8a4b2f51adabd7d SHA512: 2022e57d7c30f6d1d6ee99aaf3fecdb20721efb905d6aa215366d8e8ebcc980ce3e6e616646cc4c68adb2bb1da25187d85b38b12bae5da21e944e23fcecf1022 Homepage: https://cran.r-project.org/package=salesforcer Description: CRAN Package 'salesforcer' (An Implementation of 'Salesforce' APIs Using Tidy Principles) Functions connecting to the 'Salesforce' Platform APIs (REST, SOAP, Bulk 1.0, Bulk 2.0, Metadata, Reports and Dashboards) . "API" is an acronym for "application programming interface". Most all calls from these APIs are supported as they use CSV, XML or JSON data that can be parsed into R data structures. For more details please see the 'Salesforce' API documentation and this package's website for more information, documentation, and examples. Package: r-cran-saltsampler Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Suggests: r-cran-knitr, r-cran-coda Filename: pool/dists/focal/main/r-cran-saltsampler_1.1.0-1.ca2004.1_all.deb Size: 67452 MD5sum: 0141c291cd0421e0148e8ae13609ea68 SHA1: dd485a8d4b3805284dbb370f3295e92272228282 SHA256: b0d1271144c39bb12442038cbcc3edabfed88b60e44398bfba59898f6c1de35a SHA512: db963bb4c99dfc9e45ed0180cbe383785e952207ac231c1a0fba39cecffe687115ccf71ded2d0a7ac82e0dbee19ddedb2d2220192e22d07c9e8b5e09548d68f2 Homepage: https://cran.r-project.org/package=SALTSampler Description: CRAN Package 'SALTSampler' (Efficient Sampling on the Simplex) The SALTSampler package facilitates Monte Carlo Markov Chain (MCMC) sampling of random variables on a simplex. A Self-Adjusting Logit Transform (SALT) proposal is used so that sampling is still efficient even in difficult cases, such as those in high dimensions or with parameters that differ by orders of magnitude. Special care is also taken to maintain accuracy even when some coordinates approach 0 or 1 numerically. Diagnostic and graphic functions are included in the package, enabling easy assessment of the convergence and mixing of the chain within the constrained space. Package: r-cran-salty Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-purrr, r-cran-stringr Suggests: r-cran-charlatan, r-cran-testthat, r-cran-tibble, r-cran-covr Filename: pool/dists/focal/main/r-cran-salty_0.1.1-1.ca2004.1_all.deb Size: 88772 MD5sum: 212427f1cb7a0031cd20f404d82f53de SHA1: 54acd319b4667b532bfa474637c4357c49c880a1 SHA256: e1b0b4d809c677eb3a3105706d1a58a145edac1b24a9cd354bad2bf7b6334053 SHA512: a1ca9878aea3d14d0b4840eff2cad35b6e47bc16712e236bf1662da31e4400678cfad3e853e74721f9f410f1517221cdc23ed4e216226c89e18eb62bd2f0d1cb Homepage: https://cran.r-project.org/package=salty Description: CRAN Package 'salty' (Turn Clean Data into Messy Data) Take real or simulated data and salt it with errors commonly found in the wild, such as pseudo-OCR errors, Unicode problems, numeric fields with nonsensical punctuation, bad dates, etc. Package: r-cran-samadb Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dbi, r-cran-rmysql, r-cran-writexl, r-cran-data.table, r-cran-collapse Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-samadb_0.3.0-1.ca2004.1_all.deb Size: 67776 MD5sum: c3399e5f08bd2fe01124baf786926361 SHA1: 8593939a9b9ecc33b2bfa3944d66b63e7f59ce7c SHA256: c017ce2b92fc71ff85a3ef9767dc61160d083c8edb1c70dfeade05c7d1384288 SHA512: ea276d407644d5a652aee42c5142537e8767106dbede601840f5b2e1c4b871522bd3eaf5f1a1488f991d8f047dd6fe9a2cc03f653c0cbdfed761a725755a57b2 Homepage: https://cran.r-project.org/package=samadb Description: CRAN Package 'samadb' (South Africa Macroeconomic Database API) An R API providing access to a relational database with macroeconomic time series data for South Africa, obtained from the South African Reserve Bank (SARB) and Statistics South Africa (STATSSA), and updated on a weekly basis via the EconData platform and automated scraping of the SARB and STATSSA websites. The database is maintained at the Department of Economics at Stellenbosch University. Package: r-cran-samba Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 342 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-optimx, r-cran-survey Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-scales, r-cran-mass Filename: pool/dists/focal/main/r-cran-samba_0.9.0-1.ca2004.1_all.deb Size: 223120 MD5sum: a0b8e65473ac2108974fa70f32131d8b SHA1: 04fce3eb0ed6c9b82525a174e5b4720d560314c6 SHA256: 77659490cd2d15a35e561e5acf2151be62781f9713bc9bcd4d6f49b66e5fa779 SHA512: f9d4d7889656c5fe0b125a17f6c386c6525578b875a3347731ecf7abf0d812ff6f0c9262cb34ad77d06f27252d12e2afe3a6130612d5d0eaee73e6523b3c9138 Homepage: https://cran.r-project.org/package=SAMBA Description: CRAN Package 'SAMBA' (Selection and Misclassification Bias Adjustment for LogisticRegression Models) Health research using data from electronic health records (EHR) has gained popularity, but misclassification of EHR-derived disease status and lack of representativeness of the study sample can result in substantial bias in effect estimates and can impact power and type I error for association tests. Here, the assumed target of inference is the relationship between binary disease status and predictors modeled using a logistic regression model. 'SAMBA' implements several methods for obtaining bias-corrected point estimates along with valid standard errors as proposed in Beesley and Mukherjee (2020) , currently under review. Package: r-cran-sambia Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-dplyr, r-cran-smotefamily, r-cran-e1071, r-cran-ranger, r-cran-proc, r-cran-fnn Filename: pool/dists/focal/main/r-cran-sambia_0.1.0-1.ca2004.1_all.deb Size: 59172 MD5sum: 524a2b5a4c1d8c279126f2a910e73ffc SHA1: f9fa099d13059955d13182a03ad47081f9074afb SHA256: 3d2fc0de0375325095413dbfa3d1e461fbe95576634dea6a39766841a094c643 SHA512: 8f3bdaa93372720a7a8d280b90917bf649c55870faae776761d0d220eba2c9f358c52311bda7cb026687e1e75180f03cfacdba3dc152fc50f7f7557dea9c4f0c Homepage: https://cran.r-project.org/package=sambia Description: CRAN Package 'sambia' (A Collection of Techniques Correcting for Sample Selection Bias) A collection of various techniques correcting statistical models for sample selection bias is provided. In particular, the resampling-based methods "stochastic inverse-probability oversampling" and "parametric inverse-probability bagging" are placed at the disposal which generate synthetic observations for correcting classifiers for biased samples resulting from stratified random sampling. For further information, see the article Krautenbacher, Theis, and Fuchs (2017) . The methods may be used for further purposes where weighting and generation of new observations is needed. Package: r-cran-same Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-boot, r-cran-rjags, r-cran-coda, r-cran-extradistr, r-cran-survival, r-cran-ggplot2, r-cran-expint Suggests: r-cran-testthat, r-cran-mockery, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-same_0.1.0-1.ca2004.1_all.deb Size: 86264 MD5sum: 1ced9cd3245260e1265b6575c595b1d0 SHA1: aa1567670bbb3d5ddcbf794bb6bf157374f52bcb SHA256: 56a9dfc0a0db03b286aa08992fee3b10766f28c3ba58d0e49ae6abdd66283921 SHA512: 30611ac5d75bc6f1fcdc512b4f084a713410f8c69cc88dc25810ce1b6d48e714f1d720eb66ad2c38b9a295be548a091bb62f9cf625e970d40b41ca0f2dad358e Homepage: https://cran.r-project.org/package=SAME Description: CRAN Package 'SAME' (Seamless Adaptive Multi-Arm Multi-Stage Enrichment) Design a Bayesian seamless multi-arm biomarker-enriched phase II/III design with the survival endpoint with allowing sample size re-estimation. James M S Wason, Jean E Abraham, Richard D Baird, Ioannis Gournaris, Anne-Laure Vallier, James D Brenton, Helena M Earl, Adrian P Mander (2015) . Guosheng Yin, Nan Chen, J. Jack Lee (2018) . Ying Yuan, Beibei Guo, Mark Munsell, Karen Lu, Amir Jazaeri (2016) . Package: r-cran-samesies Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 450 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-ggbeeswarm, r-cran-ggplot2, r-cran-purrr, r-cran-scales, r-cran-stringdist Suggests: r-cran-testthat, r-cran-devtools Filename: pool/dists/focal/main/r-cran-samesies_0.1.0-1.ca2004.1_all.deb Size: 417900 MD5sum: 6961a44e39cde016da62a8904d1995e7 SHA1: f3bebd99cfe144aae2f3c6b6301b87e8f36dbdf8 SHA256: 63619270521c89a01815cd4088c5f7c245b049e0f7ee2ca14b9f5dd1b32623e2 SHA512: 8e3bc510263714241be0c4ffbc2ed35f5172d6832323c61c4a38b52a821cac81d7188d34dbc57534edc848cad749d411a7563c13c597c2958041263a306b9568 Homepage: https://cran.r-project.org/package=samesies Description: CRAN Package 'samesies' (Compare Similarity Across Text, Factors, or Numbers) Compare lists of texts, factors, or numerical values to measure their similarity. The motivating use case is evaluating the similarity of large language model responses across models, providers, or prompts. Approximate string matching is implemented using 'stringdist'. 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Enables also spatial visualization of sampling bias and includes a set of convenience functions for publication level plotting. Also available as 'shiny' app. The reference for the methodology is: Zizka et al. (2020) . Package: r-cran-sampcompr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 586 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot, r-cran-data.table, r-cran-dplyr, r-cran-forcats, r-cran-furrr, r-cran-future, r-cran-ggplot2, r-cran-hmisc, r-cran-lmtest, r-cran-magrittr, r-cran-psych, r-cran-purrr, r-cran-readr, r-cran-reshape2, r-cran-sandwich, r-cran-survey, r-cran-svrep, r-cran-tibble, r-cran-tidyr, r-cran-rlang Suggests: r-cran-testthat, r-cran-jtools, r-cran-stargazer Filename: pool/dists/focal/main/r-cran-sampcompr_0.3.0-1.ca2004.1_all.deb Size: 551400 MD5sum: 420dbc4c060ff6f0e7a533ddf7361278 SHA1: cdc8e78f56a5a6990889da08cc3782fecee1c81e SHA256: d5984eec6e5ce2a6a400f1c664f6229fe3fe41100260e3d87c39d995215f00f2 SHA512: 9d0f5a8df9f38b1da08fb18b1d3de6e65fd498e2fbbf9b05701c3c46f63f7028e2ab1961c2f0fe4b5a36e1ae736d2b0fb882fa76948a017873ea7fb2eb5023ef Homepage: https://cran.r-project.org/package=sampcompR Description: CRAN Package 'sampcompR' (Comparing and Visualizing Differences Between Surveys) Easily analyze and visualize differences between samples (e.g., benchmark comparisons, nonresponse comparisons in surveys) on three levels. The comparisons can be univariate, bivariate or multivariate. On univariate level the variables of interest of a survey and a comparison survey (i.e. benchmark) are compared, by calculating one of several difference measures (e.g., relative difference in mean), and an average difference between the surveys. On bivariate level a function can calculate significant differences in correlations for the surveys. And on multivariate levels a function can calculate significant differences in model coefficients between the surveys of comparison. All of those differences can be easily plotted and outputted as a table. For more detailed information on the methods and example use see Rohr, B., Silber, H., & Felderer, B. (2024). Comparing the Accuracy of Univariate, Bivariate, and Multivariate Estimates across Probability and Nonprobability Surveys with Population Benchmarks. Sociological Methodology . Package: r-cran-sample.size Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sample.size_1.0-1.ca2004.1_all.deb Size: 17720 MD5sum: c5dea59f1500fe5e38c835d5e96042fa SHA1: 659ca7fa5a85d7587c59a84c18fd34b4b8ac110e SHA256: c13605d18f773ee2dd10b839db382d20013c7597804686cb564e0822568ee7cc SHA512: e7a1204ffb998aa06517fe8158f450076b1ae2406c968945a99d5fb888671a1b981fe19b848952347b66bc1559e465137b8028e6573dba64dd898ef2b30b30f2 Homepage: https://cran.r-project.org/package=Sample.Size Description: CRAN Package 'Sample.Size' (Sample size calculation) Computes the required sample size using the optimal designs with multiple constraints proposed in Mayo et al.(2010). This optimal method is designed for two-arm, randomized phase II clinical trials, and the required sample size can be optimized either using fixed or flexible randomization allocation ratios. Package: r-cran-sampledatasets Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sampledatasets_0.1.0-1.ca2004.1_all.deb Size: 88340 MD5sum: 308cb30b6bca056e88b4566dba6487b9 SHA1: a0f5ad028e59b45ba12fc6eee3e19da0f52feb63 SHA256: 1073039a970d3b35ada104ab6a5149a14c41f9c9b277a78b5495e45307186e60 SHA512: 952fee92ff534469cbbb05d0950a37f1e186861fea8a1c5763f62c5b3c0d9815c4d0ee824537e258a7d2de37c3de03b4e3383331df660eb7abdd04561c2eb2e2 Homepage: https://cran.r-project.org/package=sampledatasets Description: CRAN Package 'sampledatasets' (A Collection of Sample Datasets) Provides a collection of sample datasets on various fields such as automotive performance and safety data to historical demographics and socioeconomic indicators, as well as recreational data. It serves as a resource for researchers and analysts seeking to perform analyses and derive insights from classic data sets in R. Package: r-cran-sampler Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 317 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-reshape, r-cran-purrr Filename: pool/dists/focal/main/r-cran-sampler_0.2.4-1.ca2004.1_all.deb Size: 275608 MD5sum: 57135d8b7925cd393e8b7a173118c426 SHA1: bc8f935e2edffb1a6d6cf4b7d35a9547909eea1b SHA256: 34a4e7b7ba7b190990acae775103b4fd01cfd0c8a3e6b14cb3db6ab4f8e5779e SHA512: e766542a559e8e32fd74b90b60cc7ec3089e130b0eec07e31d6bda4634fcb34179b736570cb672a8df8260b068fe00717a170ff88aff6b40ad09b01f54a138cb Homepage: https://cran.r-project.org/package=sampler Description: CRAN Package 'sampler' (Sample Design, Drawing & Data Analysis Using Data Frames) Determine sample sizes, draw samples, and conduct data analysis using data frames. It specifically enables you to determine simple random sample sizes, stratified sample sizes, and complex stratified sample sizes using a secondary variable such as population; draw simple random samples and stratified random samples from sampling data frames; determine which observations are missing from a random sample, missing by strata, duplicated within a dataset; and perform data analysis, including proportions, margins of error and upper and lower bounds for simple, stratified and cluster sample designs. Package: r-cran-sampleselection Architecture: all Version: 1.2-12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2208 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maxlik, r-cran-misctools, r-cran-systemfit, r-cran-formula, r-cran-vgam, r-cran-mvtnorm Suggests: r-cran-lmtest, r-cran-ecdat Filename: pool/dists/focal/main/r-cran-sampleselection_1.2-12-1.ca2004.1_all.deb Size: 2073336 MD5sum: f31295bfe1b197dc50d0ec30b4abb3a8 SHA1: db25191a6673619a526a902110352345b808b1a1 SHA256: 6e4c5d89edef6859a6df64c49d57166ef3f5ad68b26e549551a031de9f0a06d5 SHA512: 136d1c054b3403dfa608ebc1d933b75963f7d7c6fdae7a4191afd980db89b126eaa8484e0b6a44cf00f9ad1518f69bd7e77c3d070527673acbbbd22091c2aab8 Homepage: https://cran.r-project.org/package=sampleSelection Description: CRAN Package 'sampleSelection' (Sample Selection Models) Two-step and maximum likelihood estimation of Heckman-type sample selection models: standard sample selection models (Tobit-2), endogenous switching regression models (Tobit-5), sample selection models with binary dependent outcome variable, interval regression with sample selection (only ML estimation), and endogenous treatment effects models. These methods are described in the three vignettes that are included in this package and in econometric textbooks such as Greene (2011, Econometric Analysis, 7th edition, Pearson). Package: r-cran-samplesize4clinicaltrials Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-samplesize4clinicaltrials_0.2.3-1.ca2004.1_all.deb Size: 17536 MD5sum: af8db18b9c6294b043807d922861b326 SHA1: 7145789ca24a755db17172979b7e34c9bbfe01d0 SHA256: a494e27c5cf88aa687c3d87bc6f17362718254648b71f62d6cc1ca40e4f03195 SHA512: a9ae9a35825a629b64b98c34824c01c12ee6d34ac433ea066ba664eefdb7f25bb5f007d4acd092480d1754dd21a1dfcfb43c080b8b66ac717c21daf657c9788a Homepage: https://cran.r-project.org/package=SampleSize4ClinicalTrials Description: CRAN Package 'SampleSize4ClinicalTrials' (Sample Size Calculation for the Comparison of Means orProportions in Phase III Clinical Trials) There are four categories of Phase III clinical trials according to different research goals, including (1) Testing for equality, (2) Superiority trial, (3) Non-inferiority trial, and (4) Equivalence trial. This package aims to help researchers to calculate sample size when comparing means or proportions in Phase III clinical trials with different research goals. Package: r-cran-samplesize4surveys Architecture: all Version: 4.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2955 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-teachingsampling, r-cran-timedate, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-samplesize4surveys_4.1.1-1.ca2004.1_all.deb Size: 1799712 MD5sum: 92925b3d1e73c85243a07079d3831b09 SHA1: 317b5fd0aaccacec4ea3341326693229b45bcb0a SHA256: 0314c909d5d470dc1570328baf1dbbf40e5e84e869ba27e4259db29a4c0064a5 SHA512: cf0d87ec73dd2209a42f3da8bfc82b70bf43c7db53e3cb35fa057427d9f236d5f619381561c3e4b168024fc4ebfd731b49cf96e8fb863551a2e872f55549406e Homepage: https://cran.r-project.org/package=samplesize4surveys Description: CRAN Package 'samplesize4surveys' (Sample Size Calculations for Complex Surveys) Computes the required sample size for estimation of totals, means and proportions under complex sampling designs. Package: r-cran-samplesize Architecture: all Version: 0.2-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-samplesize_0.2-4-1.ca2004.1_all.deb Size: 23112 MD5sum: 8ce227e8bc374e043effd8e1e3f61e87 SHA1: 0ccd885093a49a3c05fb44981ea37d141642a761 SHA256: fcf86f1e8d649f01bfcb0909005f7df4ca495e9128bd2a3ba8426d0d6f044035 SHA512: 614ed87cb910e5aef89c3afc523ee8a230fa08a9e8bc6a9072c396b6aad000056574a8d12e3440e277bd27405041de4faf6205d85019b0e534d29bb75d2ce880 Homepage: https://cran.r-project.org/package=samplesize Description: CRAN Package 'samplesize' (Sample Size Calculation for Various t-Tests and Wilcoxon-Test) Computes sample size for Student's t-test and for the Wilcoxon-Mann-Whitney test for categorical data. The t-test function allows paired and unpaired (balanced / unbalanced) designs as well as homogeneous and heterogeneous variances. The Wilcoxon function allows for ties. Package: r-cran-samplesizecmh Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 207 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-desctools, r-cran-testthat Filename: pool/dists/focal/main/r-cran-samplesizecmh_0.0.3-1.ca2004.1_all.deb Size: 72192 MD5sum: e22f87809e30992bb4501cb617a3369e SHA1: 3ad1f9a883c656bed2834d87a5d74a0bc7c9f4d3 SHA256: 8983759e18ed2ddff613bd76c51149f9a9636aaaa2bc60c1453f281d7f265230 SHA512: 5cd24f59531b8b651dde464d902725b2e9b4ab812469a43723faed9e924472a0edd6d31c87bf756b659c395a7735eac5b4447b933f872fe404ce4cd7266cb7b9 Homepage: https://cran.r-project.org/package=samplesizeCMH Description: CRAN Package 'samplesizeCMH' (Power and Sample Size Calculation for theCochran-Mantel-Haenszel Test) Calculates the power and sample size for Cochran-Mantel-Haenszel tests. There are also several helper functions for working with probability, odds, relative risk, and odds ratio values. Package: r-cran-samplesizediagnostics Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-samplesizediagnostics_0.1.0-1.ca2004.1_all.deb Size: 15932 MD5sum: 564c6bd6f44666ff9342338d73657dd1 SHA1: 1f127308206b610b97eefd45e8e3c0f4264c018e SHA256: 2c2e766ec6057c8c7eea3223a17c6fde74636321c441cab6384131b26712bdcb SHA512: a16d22dfce792efa8812b74aebd56cdc287b5842d53ea43bc1f04c5d340094dc2863bc3ea63aaf33262f6bcda33f22509b21e21bf98d35407da64ddec06405e6 Homepage: https://cran.r-project.org/package=SampleSizeDiagnostics Description: CRAN Package 'SampleSizeDiagnostics' (Choosing Sample Size for Evaluating a Diagnostic Test) Calculates the sample size needed for evaluating a diagnostic test based on sensitivity, specificity, prevalence, and desired precision. Based on Buderer (1996) . Package: r-cran-samplesizeestimator Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stringi Filename: pool/dists/focal/main/r-cran-samplesizeestimator_1.0.0-1.ca2004.1_all.deb Size: 66304 MD5sum: 0e638bf17be0b2057a48e40406109e54 SHA1: 54fbd15fd520c8080545321b68a2b2671d762b03 SHA256: a4a67fe37d2b34dc8ac101254e2b9e6c04a8c5c11829bfbf1a7d41450a6eacef SHA512: 8feec5b26b65b3ff43c8063cd8d75a8f437f67ea6287febf5fcb2c3daa9aa1e9b0b0f4d5488fa1d61f1603be0b19007484a29c1fe2b67af19451abdd3bd02a83 Homepage: https://cran.r-project.org/package=samplesizeestimator Description: CRAN Package 'samplesizeestimator' (Calculate Sample Size for Various Scenarios) Calculates sample size for various scenarios, such as sample size to estimate population proportion with stated absolute or relative precision, testing a single proportion with a reference value, to estimate the population mean with stated absolute or relative precision, testing single mean with a reference value and sample size for comparing two unpaired or independent means, comparing two paired means, the sample size For case control studies, estimating the odds ratio with stated precision, testing the odds ratio with a reference value, estimating relative risk with stated precision, testing relative risk with a reference value, testing a correlation coefficient with a specified value, etc. . Package: r-cran-samplesizelogisticcasecontrol Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 551 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-samplesizelogisticcasecontrol_2.0.2-1.ca2004.1_all.deb Size: 512408 MD5sum: 86230f1d61539ffc13ea7a9792c8919e SHA1: 83be0e4d758150975055aa75c537fbf1faaca21b SHA256: 451bb177a689250d19139ec046f29f9372a2040003d01f74729188958564cf55 SHA512: a9cbb46e9e84599e3a20262d2e64a479ba0ef8bd1e112f0079b70dbb8974059e6e821c3ae5a88e5f3cf0c1d5033dbb8c0cf0a0a6d38a0ece865679817424dce2 Homepage: https://cran.r-project.org/package=samplesizelogisticcasecontrol Description: CRAN Package 'samplesizelogisticcasecontrol' (Sample Size and Power Calculations for Case-Control Studies) To determine sample size or power for case-control studies to be analyzed using logistic regression. Package: r-cran-samplesizemeans Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 226 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-samplesizemeans_1.2.3-1.ca2004.1_all.deb Size: 189400 MD5sum: 178874fece6c24b52eb84c54522338a9 SHA1: 3ae3e56f76efc9be1bc2baaac38529a58e2ec7f1 SHA256: f0c1d04dd3c0eeea424acca6d94699381bf97207223ad01dd45f9705e81b6198 SHA512: dd58a3d294aff4c6116451336c33c0043fc1ef96efc5f2d6b506065c1166f728e253e4e4aeef5bbcfbb35dd6f5b8e3dacba218364b895aa4c48ca54f70657036 Homepage: https://cran.r-project.org/package=SampleSizeMeans Description: CRAN Package 'SampleSizeMeans' (Sample Size Calculations for Normal Means) Sample size requirements calculation using three different Bayesian criteria in the context of designing an experiment to estimate a normal mean or the difference between two normal means. Functions for calculation of required sample sizes for the Average Length Criterion, the Average Coverage Criterion and the Worst Outcome Criterion in the context of normal means are provided. Functions for both the fully Bayesian and the mixed Bayesian/likelihood approaches are provided. For reference see Joseph L. and Bélisle P. (1997) . Package: r-cran-samplesizeproportions Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-samplesizeproportions_1.1.3-1.ca2004.1_all.deb Size: 89144 MD5sum: 4fc05a9615b8b9209967edaf6d54dbff SHA1: f708cd1bc2ffe338ad74b02a739c7e0d8e6a6bde SHA256: e62139ead8a22c76a4b491df0b6c923f9545e5d1c0f0e7e5e86e9562805459bd SHA512: dbd5d8c44e863e55378cb5310b8cdc0051e924f1263bd9ac91cfa85986eaf4168cf2962a32b6968aafd8e50c7c3bbaf6b525259f759e5380958fa8e0a795e9ad Homepage: https://cran.r-project.org/package=SampleSizeProportions Description: CRAN Package 'SampleSizeProportions' (Calculating Sample Size Requirements when Estimating theDifference Between Two Binomial Proportions) Sample size requirements calculation using three different Bayesian criteria in the context of designing an experiment to estimate the difference between two binomial proportions. Functions for calculation of required sample sizes for the Average Length Criterion, the Average Coverage Criterion and the Worst Outcome Criterion in the context of binomial observations are provided. In all cases, estimation of the difference between two binomial proportions is considered. Functions for both the fully Bayesian and the mixed Bayesian/likelihood approaches are provided. For reference see Joseph L., du Berger R. and Bélisle P. (1997) . Package: r-cran-samplesizesinglearmsurvival Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-samplesizesinglearmsurvival_0.1.0-1.ca2004.1_all.deb Size: 20544 MD5sum: 4548d05e828e77307355486cd3eab167 SHA1: a840d75ec74c3c6af4d0d3d3931b87a749d01a2b SHA256: 376467f86e5ecddb4a363ebe99ba44f07a6cd7407e5e2da895a96d500437a4bb SHA512: 62b2d6beae8e314d8493e939c40855b9ddaa6570e1098aab387234cdf12b0c6274ab602fa3573f82608739affa70b10c321e062e76cb8a13677b6cfaed861236 Homepage: https://cran.r-project.org/package=SampleSizeSingleArmSurvival Description: CRAN Package 'SampleSizeSingleArmSurvival' (Calculate Sample Size for Single-Arm Survival Studies) Provides methods to calculate sample size for single-arm survival studies using the arcsine transformation, incorporating uniform accrual and exponential survival assumptions. Includes functionality for detailed numerical integration and simulation. This method is based on Nagashima et al. (2021) . Package: r-cran-samplevadir Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2425 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lubridate, r-cran-splitstackshape Suggests: r-cran-haven, r-cran-rio Filename: pool/dists/focal/main/r-cran-samplevadir_1.0.0-1.ca2004.1_all.deb Size: 2448716 MD5sum: 5a1cd95a6fadaf67229098772026617d SHA1: b62a5eb59b8339859611062cb2d2022acc6e7fec SHA256: 4c43e5d558dcb13cace32dd96a82c3822421aa2ee17d11d56c38c0909539952f SHA512: 458f0c8e41d1b8f552a6c31f2f97544e89db32107bb7c4b83fd7b49eddb5c9e73db9eabc7d94cb326c7d7f053876736e0064117354012d842ca12cf1993e0e67 Homepage: https://cran.r-project.org/package=sampleVADIR Description: CRAN Package 'sampleVADIR' (Draw Stratified Samples from the VADIR Database) Affords researchers the ability to draw stratified samples from the U.S. Department of Veteran's Affairs/Department of Defense Identity Repository (VADIR) database according to a variety of population characteristics. The VADIR database contains information for all veterans who were separated from the military after 1980. The central utility of the present package is to integrate data cleaning and formatting for the VADIR database with the stratification methods described by Mahto (2019) . Data from VADIR are not provided as part of this package. Package: r-cran-samplezoo Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 318 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-samplezoo_1.2.1-1.ca2004.1_all.deb Size: 254560 MD5sum: 5e7547682aee4bf66b6ce6874d6a7a7d SHA1: 770bb905209c7a8ecaae9a81692c50dd618a2397 SHA256: ff67fb5f25fad54e94afa321ac4472c343fa005564b44520eceefecc3f8755d2 SHA512: be51c217e00f818cfa1553425d7436b762efab0b3e524c5f4233bd55335cd1ffc1341e84fb55bd7dfaaafeefb6af651454e84dbf324d14368205d80e10fd381a Homepage: https://cran.r-project.org/package=samplezoo Description: CRAN Package 'samplezoo' (Generate Samples with a Variety of Probability Distributions) Simplifies the process of generating samples from a variety of probability distributions, allowing users to quickly create data frames for demonstrations, troubleshooting, or teaching purposes. Data is available in multiple sizes—small, medium, and large. For more information, refer to the package documentation. Package: r-cran-samplingbook Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 338 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pps, r-cran-sampling, r-cran-survey Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-samplingbook_1.2.4-1.ca2004.1_all.deb Size: 260696 MD5sum: a4b60e6aa1bcb42fff1e9249fc772d2e SHA1: 38ca80f67ca845df0806bd3a5e7028e384c81405 SHA256: cf021eaaf3db2beaa8b1fe7078c4f2e0cebe2dacd8f55d8775091cae31e355ca SHA512: 4c1c077de287ee52588d9b8b0eb41e06451a3c8204b030e12573a3806fbb26ff277b61883a0b8b83f25aa87e49c06b9ba925c98463e762e7f0ae313ff2b76cce Homepage: https://cran.r-project.org/package=samplingbook Description: CRAN Package 'samplingbook' (Survey Sampling Procedures) Sampling procedures from the book 'Stichproben - Methoden und praktische Umsetzung mit R' by Goeran Kauermann and Helmut Kuechenhoff (2010). Package: r-cran-samplingdatacrt Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 450 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-samplingdatacrt_1.0-1.ca2004.1_all.deb Size: 348900 MD5sum: d5016c71e732401fef50d1ce5d831e1d SHA1: 22f84c84ea4865eca0787ebd2b3cfcdf150ccb0f SHA256: 791ed466b5fc6f8022a1978d2660df3f9a0b80d14fc4e456dd7c359c42119cee SHA512: 27f5b4e6572194df485d324f0438fd8451480fd1e1bfeb131f67bc0026d17d1c9137acf5a22dace89e720ff362752a9f600433863c72de0fb1a50621c2dac64b Homepage: https://cran.r-project.org/package=samplingDataCRT Description: CRAN Package 'samplingDataCRT' (Sampling Data Within Different Study Designs for ClusterRandomized Trials) Package provides the possibility to sampling complete datasets from a normal distribution to simulate cluster randomized trails for different study designs. Package: r-cran-samplingestimates Architecture: all Version: 0.1-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-samplingvarest Filename: pool/dists/focal/main/r-cran-samplingestimates_0.1-3-1.ca2004.1_all.deb Size: 40180 MD5sum: b356d9cceded5f1f6610067ca221abe8 SHA1: f4ce47f110b480f3893f2a0550226eec8b8a4e45 SHA256: dc36719716c9953c267fee4eb028bf26715c73fc93f7f6143ca4af7d0e627610 SHA512: b7552a72709deff306278c9e9048b652b7df7723d0979ab1f2c57879e66fe0fa0d5fa4be8b8c378aa01e629925c315b9ba2b87c18c95cf86df06bdf4f18bb5a9 Homepage: https://cran.r-project.org/package=samplingEstimates Description: CRAN Package 'samplingEstimates' (Sampling Estimates) Functions to estimate from survey data. This package is a user-friendly wrapper of the samplingVarEst package. It considers that the user is more familiar with practical survey data rather than with research on survey sampling (variance estimation). More functionalities are on the way. Package: r-cran-samplingin Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 512 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-dplyr, r-cran-magrittr, r-cran-rlang, r-cran-sampling Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-samplingin_1.1.1-1.ca2004.1_all.deb Size: 276684 MD5sum: 2daec5b8c014e5e3f0f61a7ad68bb858 SHA1: e7639c72ec67c9bef4a925a723ee993f66f6cea7 SHA256: 8fde4b88f7898c2e50ff0561b0b37e05f13bfadf9244bc5ccfdee5f42066ae92 SHA512: c34a76e729bee09470cdbe6c743574f04e60e0e868a0506ed753f27f4275c4f05416866c0ab1de38a1820f79905f61a6cb104ae164c602f253ec89e733905054 Homepage: https://cran.r-project.org/package=samplingin Description: CRAN Package 'samplingin' (Dynamic Survey Sampling Solutions) A robust solution employing the SRS (Simple Random Sampling), systematic and PPS (Probability Proportional to Size) sampling methods, ensuring a methodical and representative selection of data. Seamlessly allocate predetermined allocations to smaller levels. Package: r-cran-samplingr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-samplingr_1.0.1-1.ca2004.1_all.deb Size: 105672 MD5sum: 1f3a3d0ae90311d27895a81abe7cc885 SHA1: 344b93bb61047ae99e61fbea4d0e4eea59dcee09 SHA256: 3375e9bf83f1f5fef531179b84efce0cde039238659722200d28701ccd59bb97 SHA512: afdff6567bbf5f4b9e98bb4c7b43b5c9699474f441659366b5439c89b403e16b5749f8c0fda5e5fec180eb06907afb2e82efa046586ca4e4b37d465a124b2a9b Homepage: https://cran.r-project.org/package=samplingR Description: CRAN Package 'samplingR' (Sampling and Estimation Methods) Functions to take samples of data, sample size estimation and getting useful estimators such as total, mean, proportion about its population using simple random, stratified, systematic and cluster sampling. Package: r-cran-samplingstrata Architecture: all Version: 1.5-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1916 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-memoise, r-cran-doparallel, r-cran-pbapply, r-cran-samplingbigdata, r-cran-glue Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-formattable Filename: pool/dists/focal/main/r-cran-samplingstrata_1.5-4-1.ca2004.1_all.deb Size: 1368592 MD5sum: 01bb02e1816d996e7def670d296553c3 SHA1: 295186cca2c446fc8fa5c99097ba50a44b855235 SHA256: e7a83001e48d78f2f74ddfca3a609b55e6db45212aabe0c18e38fa8db6a551cc SHA512: b812f1e7dd23b5e3fbf839ac658b3ce0ec3f5e283d254d1ca8d8fca8532ea73b506aea21d082408e9f126d81715485a7ee60cab6b60ee0812df32d8432ccd0c1 Homepage: https://cran.r-project.org/package=SamplingStrata Description: CRAN Package 'SamplingStrata' (Optimal Stratification of Sampling Frames for MultipurposeSampling Surveys) In the field of stratified sampling design, this package offers an approach for the determination of the best stratification of a sampling frame, the one that ensures the minimum sample cost under the condition to satisfy precision constraints in a multivariate and multidomain case. This approach is based on the use of the genetic algorithm: each solution (i.e. a particular partition in strata of the sampling frame) is considered as an individual in a population; the fitness of all individuals is evaluated applying the Bethel-Chromy algorithm to calculate the sampling size satisfying precision constraints on the target estimates. Functions in the package allows to: (a) analyse the obtained results of the optimisation step; (b) assign the new strata labels to the sampling frame; (c) select a sample from the new frame accordingly to the best allocation. Functions for the execution of the genetic algorithm are a modified version of the functions in the 'genalg' package. M.Ballin, G.Barcaroli (2020) "R package SamplingStrata: new developments and extension to Spatial Sampling". Package: r-cran-samplrdata Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2820 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rdpack Filename: pool/dists/focal/main/r-cran-samplrdata_1.0.0-1.ca2004.1_all.deb Size: 2780440 MD5sum: e2721ed519bd5318db8814fa2283c5a7 SHA1: d5ce841f662b3767ac2c5c2b59f5f1725cb2616f SHA256: 24e7d486c1e9ff061ccbe7ccea51442f4216efc62e7c78afb9b6f4c6b9001c69 SHA512: 1d8e55d67bcdffe7fba7db5b3831c95467fa24286b3f2bd549014b98ee4bbb2ddc2b360f66811b893b19a76ec6dd609cf1e0386511eca3fded3354554d26097d Homepage: https://cran.r-project.org/package=samplrData Description: CRAN Package 'samplrData' (Datasets from the SAMPLING Project) Contains human behaviour datasets collected by the SAMPLING project (). 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This approach derives the general bias formula and provides adjusted causal effect estimates in response to various assumptions about the degree of unmeasured confounding. Nested multiple imputation is embedded within the Bayesian framework to integrate uncertainty about the sensitivity parameters and sampling variability. Bayesian Additive Regression Model (BART) is used for outcome modeling. The causal estimands are the conditional average treatment effects (CATE) based on the risk difference. For more details, see paper: Hu L et al. (2020) A flexible sensitivity analysis approach for unmeasured confounding with multiple treatments and a binary outcome with application to SEER-Medicare lung cancer data . 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With support for both Hindi and English, this package provides a way to convert text between Hindi and English dataset. Whether you're working with multilingual data or need to convert dataset for analysis or presentation purposes, it offers a simple and efficient solution and harness the power of phonetic transliteration in your projects with this versatile package. 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Package: r-cran-sanon Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sanon_1.6-1.ca2004.1_all.deb Size: 89140 MD5sum: 6af3ea786790913101f7b2fd5639977a SHA1: ce0188a40348a0ecf0092e94e53a28504b814646 SHA256: 3fbf3c95be93a3b01d1f6c5f7060457e8193eb0487c8d2f12e3685df30615675 SHA512: 5b43464dc21b39d128b94a9517715ead87b3a54686636e0ece5287e59acd247b98fd580c925bf3cb949d5df692a5a9e998f47e859625ed20b2ca52817eb6d966 Homepage: https://cran.r-project.org/package=sanon Description: CRAN Package 'sanon' (Stratified Analysis with Nonparametric Covariable Adjustment) There are several functions to implement the method for analysis in a randomized clinical trial with strata with following key features. A stratified Mann-Whitney estimator addresses the comparison between two randomized groups for a strictly ordinal response variable. The multivariate vector of such stratified Mann-Whitney estimators for multivariate response variables can be considered for one or more response variables such as in repeated measurements and these can have missing completely at random (MCAR) data. Non-parametric covariance adjustment is also considered with the minimal assumption of randomization. The p-value for hypothesis test and confidence interval are provided. Package: r-cran-sansa Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-data.table, r-cran-fnn, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-sansa_0.0.1-1.ca2004.1_all.deb Size: 36812 MD5sum: 0bd6dd482f65493d8f1186f0588100f9 SHA1: e755fbe397b2d33773cc519f9e1951122bed0cf9 SHA256: 113d65804313af1832bf6e21ea650ac05c299216d50a277557ab162b39f27875 SHA512: d07a88b754438e202ca7ad562ec8f873fa5813601817152ba3f1085442819c67757f1e12023e82263ef7216495d91c49db8b9946955543701603099e9026cf35 Homepage: https://cran.r-project.org/package=sansa Description: CRAN Package 'sansa' (Synthetic Data Generation for Imbalanced Learning in 'R') Machine learning is widely used in information-systems design. Yet, training algorithms on imbalanced datasets may severely affect performance on unseen data. For example, in some cases in healthcare, financial, or internet-security contexts, certain sub-classes are difficult to learn because they are underrepresented in training data. This 'R' package offers a flexible and efficient solution based on a new synthetic average neighborhood sampling algorithm ('SANSA'), which, in contrast to other solutions, introduces a novel “placement” parameter that can be tuned to adapt to each datasets unique manifestation of the imbalance. More information about the algorithm's parameters can be found at Nasir et al. (2022) . 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Researchers often need to determine if two spatial processes, represented by these polygons, are independent of each other. For instance, they might want to test if the home range of a particular animal species is influenced by the presence of a certain type of vegetation. To address this, Godoy et al. (2022) () developed conditional Monte Carlo tests. These tests are designed to assess spatial independence while taking into account the shape and size of the polygons. Package: r-cran-saqgetr Architecture: all Version: 0.2.21-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-lubridate, r-cran-dplyr, r-cran-purrr, r-cran-readr, r-cran-tidyr, r-cran-magrittr, r-cran-httr Suggests: r-cran-openair Filename: pool/dists/focal/main/r-cran-saqgetr_0.2.21-1.ca2004.1_all.deb Size: 76892 MD5sum: 2d93dbbd842bb7613df2834b8d41ba43 SHA1: 4747b03445fd4f07c7cea30eca19894006ca9a8c SHA256: 08db1b1192f5dcd6d9e93a5a0ae90eade29c62951404dadb2335345e8ba0f428 SHA512: 2f5a2fb8da37153640c86215df2f29695075310ea2e41d274be7a042c5d2974a214c4f1ed29ddbadd708fe4d2c2eb88451a1b2f9b28353659bed84dd28ccb81d Homepage: https://cran.r-project.org/package=saqgetr Description: CRAN Package 'saqgetr' (Import Air Quality Monitoring Data in a Fast and Easy Way) A collection of tools to access prepared air quality monitoring data files from web servers with ease and speed. 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Package: r-cran-sara4r Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2554 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tcltk2, r-cran-terra Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sara4r_0.1.0-1.ca2004.1_all.deb Size: 1976408 MD5sum: 0ba59b6fa6e2232a1a1b0a4136d6c359 SHA1: 0b30c442c01e633d91fd6e89e82861dc728bbee3 SHA256: eed7e3c5c7b3d5cfd4f31c1c3624e65bd1c5d2c39b51f82ddaa9b1ac2317cbfc SHA512: 4e16d8b899713391b65c0a6b4edac1aebbeb703903028977ccfbd0536e9ea5909aa1051931b2ac43f74054d0b9694cac8605c5463049af3281a18f7bbc5bbdbf Homepage: https://cran.r-project.org/package=sara4r Description: CRAN Package 'sara4r' (An R-GUI for Spatial Analysis of Surface Runoff using theNRCS-CN Method) A Graphical user interface to calculate the rainfall-runoff relation using the Natural Resources Conservation Service - Curve Number method (NRCS-CN method) but include modifications by Hawkins et al., (2002) about the Initial Abstraction. This GUI follows the programming logic of a previously published software (Hernandez-Guzman et al., 2011). It is a raster-based GIS tool that outputs runoff estimates from Land use/land cover and hydrologic soil group maps. This package has already been published in Journal of Hydroinformatics (Hernandez-Guzman et al., 2021) but it is under constant development at the Institute about Natural Resources Research (INIRENA) from the Universidad Michoacana de San Nicolas de Hidalgo and represents a collaborative effort between the Hydro-Geomatic Lab (INIRENA) with the Environmental Management Lab (CIAD, A.C.). Package: r-cran-saros.base Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 877 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-vctrs, r-cran-rlang, r-cran-cli, r-cran-tidyselect, r-cran-dplyr, r-cran-tidyr, r-cran-glue, r-cran-stringi, r-cran-forcats, r-cran-fs, r-cran-yaml, r-cran-zip, r-cran-rstudioapi, r-cran-bcrypt Suggests: r-cran-covr, r-cran-haven, r-cran-srvyr, r-cran-readr, r-cran-qs, r-cran-purrr, r-cran-writexl, r-cran-webshot, r-cran-usethis, r-cran-quarto, r-cran-labelled, r-cran-testthat, r-cran-tibble, r-cran-withr, r-cran-spelling Filename: pool/dists/focal/main/r-cran-saros.base_1.1.0-1.ca2004.1_all.deb Size: 453556 MD5sum: 68f52cb59afc024d066d52f9a2164cf6 SHA1: 33ac853ae85b97557df406e635f8720db39f7d73 SHA256: cf2774aac838d97b33fbe3248d62176f0afe8bc49b2d9b76da195d3f3406909f SHA512: 433cb0a882d54dad4fbe16a2ef0c0ef9c1b798160607c7e5424c58da30de2139a7995ae5976598d105664a3eb0d4ceb79bb99b476c96aff1c7f4663b03b1fe9e Homepage: https://cran.r-project.org/package=saros.base Description: CRAN Package 'saros.base' (Base Tools for Semi-Automatic Reporting of Ordinary Surveys) Scaffold an entire web-based report using template chunks, based on a small chapter overview and a dataset. Highly adaptable with prefixes, suffixes, translations, etc. Also contains tools for password-protecting, e.g. for each organization's report on a website. Developed for the common case of a survey across multiple organizations/sites where each organization wants to obtain results for their organization compared with everyone else. See 'saros' () for tools used for authors in the drafted reports. Package: r-cran-saros Architecture: all Version: 1.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 471 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-forcats, r-cran-fs, r-cran-ggiraph, r-cran-ggplot2, r-cran-glue, r-cran-lifecycle, r-cran-mschart, r-cran-officer, r-cran-rlang, r-cran-stringi, r-cran-tidyr, r-cran-tidyselect, r-cran-vctrs Suggests: r-cran-covr, r-cran-haven, r-cran-labelled, r-cran-quarto, r-cran-knitr, r-cran-readr, r-cran-scales, r-cran-spelling, r-cran-srvyr, r-cran-testthat, r-cran-tibble, r-cran-vdiffr, r-cran-withr, r-cran-writexl Filename: pool/dists/focal/main/r-cran-saros_1.5.4-1.ca2004.1_all.deb Size: 331536 MD5sum: f12347910ebd3dfd7dc949c5190ca095 SHA1: bcd7d8f947a36b044633e3b486cfff162ab394d5 SHA256: cc306b3863d30ce364eba9608ef32e107e2d0095b1012b982487668469181bfe SHA512: 428ec9889fc79b8f169053cb0907b2d95745530d2c6087606aa9182b969534eef00307d8128775ae5f5210871185bfb5d07dd6ecbab27dbfc567cb530816068f Homepage: https://cran.r-project.org/package=saros Description: CRAN Package 'saros' (Semi-Automatic Reporting of Ordinary Surveys) Offers a systematic way for conditional reporting of figures and tables for many (and bivariate combinations of) variables, typically from survey data. Contains interactive 'ggiraph'-based () plotting functions and data frame-based summary tables (bivariate significance tests, frequencies/proportions, unique open ended responses, etc) with many arguments for customization, and extensions possible. Uses a global options() system for neatly reducing redundant code. Also contains tools for immediate saving of objects and returning a hashed link to the object, useful for creating download links to high resolution images upon rendering in 'Quarto'. Suitable for highly customized reports, primarily intended for survey research. Package: r-cran-sarp.compo Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 278 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-igraph, r-cran-car Suggests: r-cran-lme4 Filename: pool/dists/focal/main/r-cran-sarp.compo_0.1.8-1.ca2004.1_all.deb Size: 244364 MD5sum: 70dcaee2a82435745e4671d5b4dce0c3 SHA1: 5e62491df7eb2d9bcc8fc2876b6b443db63efaac SHA256: f74eae80d9a4dc2fa25507ca9d6b5955bd4e1bfd9d26a6ff24e53585af8d8e32 SHA512: e34ce5ad1b94c5e0c0536a7b19ee82c752653d25fee31389e03799dc44063aa619f939aa1532751fad0a172d8383e1bd428b5a4f08069767b1a251d1d357ef36 Homepage: https://cran.r-project.org/package=SARP.compo Description: CRAN Package 'SARP.compo' (Network-Based Interpretation of Changes in Compositional Data) Provides a set of functions to interpret changes in compositional data based on a network representation of all pairwise ratio comparisons: computation of all pairwise ratio, construction of a p-value matrix of all pairwise tests of these ratios between conditions, conversion of this matrix to a network. Package: r-cran-sarp.moodle Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 416 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-base64enc, r-cran-magick Suggests: r-cran-readods, r-cran-openxlsx Filename: pool/dists/focal/main/r-cran-sarp.moodle_1.2.3-1.ca2004.1_all.deb Size: 388504 MD5sum: 0e43efdfbb28f563879a0b9524b6c259 SHA1: bfaccba97db22f1dc0a339851a55301a7c5baab3 SHA256: 2014b8afad2223de78e0bf0d1cf0e6ca58cf9be6a78ff721051e36fef863f596 SHA512: b68821c71529225b181ae844144874fb7e1d97764d3ad6f319e4f885b4085db7255226b6680e3523c83a586655def8398c80764618841cc30d61d7cf517fc587 Homepage: https://cran.r-project.org/package=SARP.moodle Description: CRAN Package 'SARP.moodle' (XML Output Functions for Easy Creation of Moodle Questions) Provides a set of basic functions for creating Moodle XML output files suited for importing questions in Moodle (a learning management system, see for more information). Package: r-cran-sarp.snowprofile.alignment Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3848 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sarp.snowprofile, r-cran-cluster, r-cran-dtw, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-shiny, r-cran-dendextend, r-cran-smacof, r-cran-testthat, r-cran-progress Filename: pool/dists/focal/main/r-cran-sarp.snowprofile.alignment_2.0.2-1.ca2004.1_all.deb Size: 2802856 MD5sum: 7e3c1f23782b35d67b7c0822501d9786 SHA1: 0faac5f3b5f42634d628d7b608517904986d94de SHA256: 9d17598784996e9af9971d9dcf7fdc0172e9580ee828db8d6f469a55ed280fe4 SHA512: 188e8669c1c1c2133a0f218c9b3c4241de8cab7f0414df687b0382488908e4aecf3cdece9a059693ce3e5c94e5d7ba6ccd92a41120aad64899ce2d1043ecaac2 Homepage: https://cran.r-project.org/package=sarp.snowprofile.alignment Description: CRAN Package 'sarp.snowprofile.alignment' (Snow Profile Alignment, Aggregation, and Clustering) Snow profiles describe the vertical (1D) stratigraphy of layered snow with different layer characteristics, such as grain type, hardness, deposition date, and many more. Hence, they represent a data format similar to multivariate time series containing categorical, ordinal, and numerical data types. Use this package to align snow profiles by matching their individual layers based on Dynamic Time Warping (DTW). The aligned profiles can then be assessed with an independent, global similarity measure that is geared towards avalanche hazard assessment. Finally, through exploiting data aggregation and clustering methods, the similarity measure provides the foundation for grouping and summarizing snow profiles according to similar hazard conditions. In particular, this package allows for averaging large numbers of snow profiles with DTW Barycenter Averaging and thereby facilitates the computation of individual layer distributions and summary statistics that are relevant for avalanche forecasting purposes. For more background information refer to Herla, Horton, Mair, and Haegeli (2021) , Herla, Mair, and Haegeli (2022) , and Horton, Herla, and Haegeli (2024) . Package: r-cran-sarp.snowprofile.pyface Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1827 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-sarp.snowprofile, r-cran-reticulate, r-cran-data.table Filename: pool/dists/focal/main/r-cran-sarp.snowprofile.pyface_0.1.3-1.ca2004.1_all.deb Size: 349124 MD5sum: 550cf7d3aab3f57bb193816c51acb3ef SHA1: d77e6cdf59bc40363a23ab77d5d5a6f4e38a5e82 SHA256: aeedd86924627715713e84ec122939c2bd9724693cb68cac6105a58eee97122c SHA512: 627c648abb5ae628173b362841407c933e2fa577ecec2f31b395ed9fb2af94b1028312d0871826bebbe6672f9fc0b840b9549c8c4766e20ec53e63731d3cc832 Homepage: https://cran.r-project.org/package=sarp.snowprofile.pyface Description: CRAN Package 'sarp.snowprofile.pyface' ('python' Modules from Snowpack and Avalanche Research) The development of post-processing functionality for simulated snow profiles by the snow and avalanche community is often done in 'python'. This package aims to make these tools accessible to 'R' users. Currently integrated modules contain functions to calculate dry snow layer instabilities in support of avalache hazard assessments following the publications of Richter, Schweizer, Rotach, and Van Herwijnen (2019) , and Mayer, Van Herwijnen, Techel, and Schweizer (2022) . Package: r-cran-sarp.snowprofile Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 735 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-sarp.snowprofile.alignment Filename: pool/dists/focal/main/r-cran-sarp.snowprofile_1.3.2-1.ca2004.1_all.deb Size: 439552 MD5sum: 270451f09de869f77c78304aff019c0a SHA1: 21e367f51635156c317b7995b1c5b3fb05ca9839 SHA256: 71470203e8ae13571e56696a1d2dc5cb2e18c663515a8e00b2100b048c3e3d3f SHA512: b8e77386508320ba1d24f22b68adab0939ceba14647fcc27a71bea6d74456da7eca3095274b60549a7b39473d72953d3845bd2d39b3f0f276321a609d2e686af Homepage: https://cran.r-project.org/package=sarp.snowprofile Description: CRAN Package 'sarp.snowprofile' (Snow Profile Analysis for Snowpack and Avalanche Research) Analysis and plotting tools for snow profile data produced from manual snowpack observations and physical snowpack models. The functions in this package support snowpack and avalanche research by reading various formats of data (including CAAML, SMET, generic csv, and outputs from the snow cover model SNOWPACK), manipulate the data, and produce graphics such as stratigraphy and time series profiles. Package developed by the Simon Fraser University Avalanche Research Program . Graphics apply visualization concepts from Horton, Nowak, and Haegeli (2020, ). Package: r-cran-sars Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 966 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nortest, r-cran-crayon, r-cran-cli, r-cran-numderiv, r-cran-doparallel, r-cran-foreach, r-cran-aiccmodavg, r-cran-minpack.lm Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-sars_2.0.0-1.ca2004.1_all.deb Size: 674424 MD5sum: 7cf731b1873f90d2d2fe874186cc57fc SHA1: 75f72fb237df1a7bdf9f4721b141c3d9d1c1571e SHA256: 814ea4dae7273a532b7daed5fc50ce25dea918ec4d90f92344252a6c0a15f424 SHA512: 304092ab62e95478e4e9acc603cb90e8691ac58fa9652d6ffcba61a7c3ba2a3f89e705895aa5524aba238112ced730c44aae3da5e04f06badd7e7b7cb725062d Homepage: https://cran.r-project.org/package=sars Description: CRAN Package 'sars' (Fit and Compare Species-Area Relationship Models UsingMultimodel Inference) Implements the basic elements of the multi-model inference paradigm for up to twenty species-area relationship models (SAR), using simple R list-objects and functions, as in Triantis et al. 2012 . The package is scalable and users can easily create their own model and data objects. Additional SAR related functions are provided. Package: r-cran-sas7bdat Architecture: all Version: 0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 291 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sas7bdat_0.8-1.ca2004.1_all.deb Size: 203344 MD5sum: 11d5719263eaf02357d85cfa712a6c07 SHA1: fb1cd4393228606bc1f277b1f040837f18546038 SHA256: b14790422c60307b0e4ce874484b9cbe67e52a0c53b44a04e3962a782265d6aa SHA512: 8f413dc991a16b7f614167a28f3eb8708ed4b68cb8e1caa5e7b09f94caf28163bb647c67637105fdb79fef1da0facb1dea52903a7bb0161e7f5b9a8b3f54d70c Homepage: https://cran.r-project.org/package=sas7bdat Description: CRAN Package 'sas7bdat' (sas7bdat Reverse Engineering Documentation) Documentation and prototypes for the earliest (circa 2010) open-source effort to reverse engineer the sas7bdat file format. The package includes a prototype reader for sas7bdat files. However, newer packages may contain more robust readers for sas7bdat files. Package: r-cran-sascii Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sascii_1.0.2-1.ca2004.1_all.deb Size: 42860 MD5sum: 137f35e8d8cef38ead50f38ce69c26e6 SHA1: efcc0d7a274d3115b737fa4f02a141a967724f8f SHA256: c46f59ab2c44e26d2a7b316032537d9e7a11dbff84bb2a805711d80a957d1426 SHA512: 49082359c758a322c676af5e685fca392041059c08c0c119b7788881d057b6c2f669c351581b1cf37a0e8109147a5651e6c36ef1cb2559d43baad53d3c2380ac Homepage: https://cran.r-project.org/package=SAScii Description: CRAN Package 'SAScii' (Import ASCII Files Directly into R using Only a 'SAS' InputScript) Using any importation code designed for 'SAS' users to read ASCII files into 'sas7bdat' files, this package parses through the INPUT block of a '.sas' syntax file to design the parameters needed for a 'read.fwf()' function call. This allows the user to specify the location of the ASCII (often a '.dat') file and the location of the 'SAS' syntax file, and then load the data frame directly into R in just one step. Package: r-cran-sasdates Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sasdates_0.1.0-1.ca2004.1_all.deb Size: 18912 MD5sum: 63bbe65e6892d5278ad1a09f1b8b90a5 SHA1: 7deddf28c4435b402202d39cd81143503d47f620 SHA256: e906c7376732bb9b4fd330bd661c7439597a4309e377a6b3eb11a76d8a3be798 SHA512: b582303640e34a473c7673d7e4442fde9ba83047d62b2cfc20b79375ff606145f9b20bb8da3b2ba71c3c71da810ba5c5c7ea8b108aee68b516cbf326552a8e9e Homepage: https://cran.r-project.org/package=SASdates Description: CRAN Package 'SASdates' (Convert the Dates to 'SAS' Formats) Converts the dates to different 'SAS' date formats. In 'SAS' dates are a special case of numeric values. Each day is assigned a specific numeric value, starting from January 1, 1960. This date is assigned the date value 0, and the next date has a date value of 1 and so on. The previous days to this date are represented by -1 , -2 and so on. With this approach, 'SAS' can represent any date in the future or any date in the past. There are many date formats used in 'SAS' to represent date-time. Here, we try to develop functions which will convert the date to different 'SAS' date formats. Package: r-cran-saslm Architecture: all Version: 0.10.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1318 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-saslm_0.10.5-1.ca2004.1_all.deb Size: 1179928 MD5sum: 5d4be6337a2f6375be3138d81d2d1dff SHA1: b25d2c258a947b61c21ce6f717eca3a74e7160f5 SHA256: a56d7e7182e935371bfae6d8f2dea2f93c326144d1631950a97cc780cba2cdad SHA512: 9ec55f1da4a550629b1af406e923af203a5c06653f7d4ecc309032461983d9bfcaeb52f313b95eae58cba3a79a45401f2f6c540935d3bb4e8e0eaec1119a31ae Homepage: https://cran.r-project.org/package=sasLM Description: CRAN Package 'sasLM' ('SAS' Linear Model) This is a core implementation of 'SAS' procedures for linear models - GLM, REG, ANOVA, TTEST, FREQ, and UNIVARIATE. Some R packages provide type II and type III SS. However, the results of nested and complex designs are often different from those of 'SAS.' Different results does not necessarily mean incorrectness. However, many wants the same results to SAS. This package aims to achieve that. Reference: Littell RC, Stroup WW, Freund RJ (2002, ISBN:0-471-22174-0). Package: r-cran-sasmap Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 227 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-readr, r-cran-stringr, r-cran-stringi Suggests: r-cran-testthat, r-cran-markdown Filename: pool/dists/focal/main/r-cran-sasmap_1.0.0-1.ca2004.1_all.deb Size: 165520 MD5sum: 081d6835f178865ade5ef8ca939b6b68 SHA1: f2ef2f510a319bea6ccde7b39ebaca4121420d3a SHA256: 333d76d1e694face01eaaef8ddf4a4a83c0d1642e87d05d4e6a2f8e7ce587fa5 SHA512: 49d5c3aaf0923efbb409978d32a09830c6ab94b28aacd64c7ebe8065fbf674106c4ae316a3da616da16d54084652a095b4267bffeb40530cb88d5d83f8c0f9fc Homepage: https://cran.r-project.org/package=sasMap Description: CRAN Package 'sasMap' (Static 'SAS' Code Analysis) A static code analysis tool for 'SAS' scripts. It is designed to load, count, extract, remove, and summarise components of 'SAS' code. 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Package: r-cran-sasmixed Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 478 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-lme4, r-cran-lattice Filename: pool/dists/focal/main/r-cran-sasmixed_1.0-4-1.ca2004.1_all.deb Size: 323652 MD5sum: fdd2de2396aa92137bc520f157957381 SHA1: 5ecdbe6778f4242051a84f8efdee972c85ef811f SHA256: 8c762e7d9a07afd6fd163c5f4378a8c04527923f3871cbc8eb2656f868d709f1 SHA512: 755ca649f813c39ddb8a4168762926260532f34b1ccd7be9e9890f9ab673b0c9eaece6f4118a710f56e2e45a0cd5ea8e2849d4b298004f22721fdc60ec101f05 Homepage: https://cran.r-project.org/package=SASmixed Description: CRAN Package 'SASmixed' (Data sets from "SAS System for Mixed Models") Data sets and sample lmer analyses corresponding to the examples in Littell, Milliken, Stroup and Wolfinger (1996), "SAS System for Mixed Models", SAS Institute. Package: r-cran-sasr Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1106 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-lifecycle, r-cran-reticulate Suggests: r-cran-knitr, r-cran-mockery, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sasr_0.1.5-1.ca2004.1_all.deb Size: 346036 MD5sum: c609a75ef903a0ee9ec34702c43dc882 SHA1: c1c6eef22b60b31b0c19fe7332bd2a3c0dbfb240 SHA256: 6157f4be2a5ceb68565a93f7a932d3e6f4fbd1334f364e3368f757d34933efd7 SHA512: 594d8b2f0ddc625cc26d4c5b3f500f704af76d162b2eb661c1bd54287f1538474b75032fe8919d3e1d446c5433cb54513546710c6a4db3a9f32598ee53095adb Homepage: https://cran.r-project.org/package=sasr Description: CRAN Package 'sasr' ('SAS' Interface) Provides a 'SAS' interface, through 'SASPy'() and 'reticulate'(). This package helps you create 'SAS' sessions, execute 'SAS' code in remote 'SAS' servers, retrieve execution results and log, and exchange datasets between 'SAS' and 'R'. It also helps you to install 'SASPy' and create a configuration file for the connection. Please review the 'SASPy' license file as instructed so that you comply with its separate and independent license. Package: r-cran-sassy Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6335 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fmtr, r-cran-common, r-cran-logr, r-cran-libr, r-cran-reporter, r-cran-procs Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-tidylog, r-cran-magrittr, r-cran-covr Filename: pool/dists/focal/main/r-cran-sassy_1.2.5-1.ca2004.1_all.deb Size: 1802320 MD5sum: 7044d3a2296501329bef9dea65850f9b SHA1: 7c3113b9e9663968d840fedce9ef703a574fdacf SHA256: 13c92e1af054dffc17f040822b59a5855f86882f99d44648b96c80274341a6c1 SHA512: 30f466deafa35cf4e2411fb7fdf2c6d93790569569fd7852aa8315a2eb2ca56da1eec4bb5196383086850d8619810592bb8d8d5b70b96b312e50d8ba7dfc4abe Homepage: https://cran.r-project.org/package=sassy Description: CRAN Package 'sassy' (Makes 'R' Easier for Everyone) A meta-package that aims to make 'R' easier for everyone, especially programmers who have a background in 'SAS®' software. This set of packages brings many useful concepts to 'R', including data libraries, data dictionaries, formats and format catalogs, a data step, and a traceable log. The 'flagship' package is a reporting package that can output in text, rich text, 'PDF', 'HTML', and 'DOCX' file formats. Package: r-cran-sate Architecture: all Version: 2.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ellipse, r-cran-mass, r-cran-survey Filename: pool/dists/focal/main/r-cran-sate_2.4.0-1.ca2004.1_all.deb Size: 111676 MD5sum: c78575ff7a557795e5deaa4d2beb71f0 SHA1: cb39d56d77a743681a978b4f6f61c54c7755fd79 SHA256: de8d783778d760154512783d7ea842cae6299312c867aacba8f3ed6d1485a0be SHA512: 272627a5f8d61cc6260314a0cdd09d66c76a41913c219324b7f25f8620261334aba257036ebdbe61d2d79effbc64e87eea60951766b6d6ebcfabb34f73de13e8 Homepage: https://cran.r-project.org/package=sate Description: CRAN Package 'sate' (Scientific Analysis of Trial Errors (SATE)) Bundles functions used to analyze the harmfulness of trial errors in criminal trials. Functions in the Scientific Analysis of Trial Errors ('SATE') package help users estimate the probability that a jury will find a defendant guilty given jurors' preferences for a guilty verdict and the uncertainty of that estimate. Users can also compare actual and hypothetical trial conditions to conduct harmful error analysis. The relationship between individual jurors' verdict preferences and the probability that a jury returns a guilty verdict has been studied by Davis (1973) ; MacCoun & Kerr (1988) , and Devine et el. (2001) , among others. Package: r-cran-satin Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1049 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ncdf4, r-cran-maps, r-cran-pbsmapping, r-cran-splancs, r-cran-sp, r-cran-geosphere Filename: pool/dists/focal/main/r-cran-satin_1.1.0-1.ca2004.1_all.deb Size: 1017424 MD5sum: 1f9ab404a77439c0e956ed3b33b0ab25 SHA1: 93a84d1b880f64e41338f17b7044071ed63b2a74 SHA256: cc586d0623a156c27479a8d001c5aa7878f71d03b30b82df42f2e52f8ce3c509 SHA512: c66d3c1555939db91a0223d9d2403e96fe542446e0f11a3d32dfe240d57a519b8f455fcca67aded0d9cff0325fb3d6d37ebfe2fbc85a84da1d518e93443e5d6a Homepage: https://cran.r-project.org/package=satin Description: CRAN Package 'satin' (Visualisation and Analysis of Ocean Data Derived from Satellites) With 'satin' functions, visualisation, data extraction and further analysis like producing climatologies from several images, and anomalies of satellite derived ocean data can be easily done. Reading functions can import a user defined geographical extent of data stored in netCDF files. Currently supported ocean data sources include NASA's Oceancolor web page , sensors VIIRS-SNPP; MODIS-Terra; MODIS-Aqua; and SeaWiFS. Available variables from this source includes chlorophyll concentration, sea surface temperature (SST), and several others. Data sources specific for SST that can be imported too includes Pathfinder AVHRR and GHRSST . In addition, ocean productivity data produced by Oregon State University can also be handled previous conversion from HDF4 to HDF5 format. Many other ocean variables can be processed by importing netCDF data files from two European Union's Copernicus Marine Service databases , namely Global Ocean Physical Reanalysis and Global Ocean Biogeochemistry Hindcast. Package: r-cran-satres Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2428 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-snakecase, r-cran-terra Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-satres_1.1.1-1.ca2004.1_all.deb Size: 1759120 MD5sum: 4058494d39f130decf4aa6fe8bb99a4c SHA1: 51a1afbc899756990fe871cca9596a05d04c6b14 SHA256: 47e921b1d38c4b1c44f812dce200e6c72c756a94214379b5a7bbd54b4c238c3f SHA512: 17fd58234cd9f523d8738f3ddc1403de2cd69e62543b88cbbfc7d97b45ea37d2cdbe0bbf368babb4c7543866d0ca96d8c796cbf8d168b92b1aee0e9656194d39 Homepage: https://cran.r-project.org/package=satres Description: CRAN Package 'satres' (Grouping Satellite Bands by Spectral and Spatial Resolution) Given raster files directly downloaded from various websites, it generates a raster structure where it merges them if they are tiles of the same scene and classifies them according to their spectral and spatial resolution for easy access by name. Package: r-cran-satscanmapper Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2043 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-foreign, r-cran-stringr, r-cran-rcolorbrewer, r-cran-sp, r-cran-seermapper Filename: pool/dists/focal/main/r-cran-satscanmapper_1.0.2-1.ca2004.1_all.deb Size: 1377404 MD5sum: 2dde94c178c018101ae7ddfcf1f13539 SHA1: efca771b7c99a810f2777495caf53fc04679f295 SHA256: 1fd79a56fe24edc87c5e87d4f7ad318d0e52e172572bdbda15af14658b405521 SHA512: bfc09e6c0b8202368c551c9c7f96021f174c307adf4321ad36b478acf09a31f6ad36f0a68111cbb5837f5b8672db882f9b846202ded5ca9074c2322b5527abbe Homepage: https://cran.r-project.org/package=satscanMapper Description: CRAN Package 'satscanMapper' ('SaTScan' (TM) Results Mapper) Supports the generation of maps based on the results from 'SaTScan' (TM) cluster analysis. The package handles mapping of Spatial and Spatial-Time analysis using the discrete Poisson, Bernoulli, and exponential models of case data generating cluster and location ('GIS') records containing observed, expected and observed/expected ratio for U. S. states (and DC), counties or census tracts of individual states based on the U. S. 'FIPS' codes for state, county and census tracts (locations) using 2000 or 2010 Census areas, 'FIPS' codes, and boundary data. 'satscanMapper' uses the 'SeerMapper' package for the boundary data and mapping of locations. Not all of the 'SaTScan' (TM) analysis and models generate the observed, expected and observed/expected ratio values for the clusters and locations. The user can map the observed/expected ratios for locations (states, counties, or census tracts) for each cluster with a p-value less than 0.05 or a user specified p-value. The locations are categorized and colored based on either the cluster's Observed/Expected ratio or the locations' Observed/Expected ratio. The place names are provided for each census tract using data from 'NCI', the 'HUD' crossover tables (Tract to Zip code) as of December, 2013, the USPS Zip code 5 database for 1999, and manual look ups on the USPS.gov web site. Package: r-cran-saturncoefficient Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrixcorrelation, r-cran-projectionbasedclustering, r-cran-umap Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-saturncoefficient_1.4-1.ca2004.1_all.deb Size: 28332 MD5sum: 0eb4fa78b5aafc2bfced0c0125df8788 SHA1: 1e49e882fd08d78d7ff5b46e3d9835fb2a583c16 SHA256: 02bb3ab5e95ba0238564eead135ee4510de152b71f88862e23725746a1618514 SHA512: 6e1578774375d297acae4b6f916cdfe145b5d6add26a84280b7513df74763897b13bf90ab63f5ff9fba199be38e22fd6044a0bf7e3be6a24905844099ff7906b Homepage: https://cran.r-project.org/package=SaturnCoefficient Description: CRAN Package 'SaturnCoefficient' (Statistical Evaluation of UMAP Dimensionality Reductions) A metric expressing the quality of a UMAP layout. This is a package that contains the Saturn_coefficient() function that reads an input matrix, its dimensionality reduction produced by UMAP, and evaluates the quality of this dimensionality reduction by producing a real value in the [0; 1] interval. We call this real value Saturn coefficient. A higher value means better dimensionality reduction; a lower value means worse dimensionality reduction. Reference: Davide Chicco et al. "The Saturn coefficient for evaluating the quality of UMAP dimensionality reduction results" (2025, in preparation). Package: r-cran-sautomata Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sautomata_0.1.0-1.ca2004.1_all.deb Size: 39300 MD5sum: a0fdb352d01c291e74b09f9be26132c7 SHA1: a5ca27a95aff9dfbe8fc39271d98219ab5a56102 SHA256: 438a0b7a7ae580974da4437260a6750d4d04a0ae011340055c97a48b9957f86a SHA512: f8cab06d90d90a75098929898d9d27024530887f3045a61b8e36e358015093963c769d1f145b261a85d951ebe6a4148caf51ecabf1148c3d8f17e9740fa58bf6 Homepage: https://cran.r-project.org/package=SAutomata Description: CRAN Package 'SAutomata' (Inference and Learning in Stochastic Automata) Machine learning provides algorithms that can learn from data and make inferences or predictions. Stochastic automata is a class of input/output devices which can model components. This work provides implementation an inference algorithm for stochastic automata which is similar to the Viterbi algorithm. Moreover, we specify a learning algorithm using the expectation-maximization technique and provide a more efficient implementation of the Baum-Welch algorithm for stochastic automata. This work is based on Inference and learning in stochastic automata was by Karl-Heinz Zimmermann(2017) . Package: r-cran-saver Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4248 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-foreach, r-cran-iterators, r-cran-doparallel, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-saver_1.1.2-1.ca2004.1_all.deb Size: 4204424 MD5sum: 2e5e0b2fea0ac3178ee364e55aeb5930 SHA1: 789859dc4909b3e6e0464be50787c7c334eaa7d3 SHA256: 1664e60653e67eac4f7e380d68f1d2e85753af054e6c63da2d4fec58dbc283fc SHA512: 1ac71222bbbfa764336dfd5aed233f67eb79234c58d4e156444417753ac541529d0814c5d7ae4daa998326320330a756190330281337b8befd6e2618027769dc Homepage: https://cran.r-project.org/package=SAVER Description: CRAN Package 'SAVER' (Single-Cell RNA-Seq Gene Expression Recovery) An implementation of a regularized regression prediction and empirical Bayes method to recover the true gene expression profile in noisy and sparse single-cell RNA-seq data. See Huang M, et al (2018) for more details. Package: r-cran-saves Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 241 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-saves_0.5-1.ca2004.1_all.deb Size: 195604 MD5sum: d0377062aaa5f0012962b743e2eae7fa SHA1: c52019fb0417c05140ef8496c1f323fc63451cc3 SHA256: 9511926338aba5ac513862e839edec779f8cc436d5c2a79900f4bb77e9bb2bdd SHA512: 5874635e5fbe41df2d44136f2836608ba8d698f2c5bc075acf8562c9a91acd12a9b578fefb302e3b97cc4bc5d83fec1574634dd86ef197b254290b90cf712d56 Homepage: https://cran.r-project.org/package=saves Description: CRAN Package 'saves' (Fast load variables) The purpose of this package is to be able to save and load only the needed variables/columns of a dataframe in special binary files (tar archives) - which seems to be a lot faster method than loading the whole binary object (RData files) via load() function, or than loading columns from SQLite/MySQL databases via SQL commands (see vignettes). Performance gain on SSD drives is a lot more sensible compared to basic load() function. The performance improvement gained by loading only the chosen variables in binary format can be useful in some special cases (e.g. where merging data tables is not an option and very different datasets are needed for reporting), but be sure if using this package that you really need this, as non-standard file formats are used! Package: r-cran-savonliquide Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glue, r-cran-htmltools, r-cran-httr, r-cran-crayon Suggests: r-cran-testthat, r-cran-spelling Filename: pool/dists/focal/main/r-cran-savonliquide_0.2.0-1.ca2004.1_all.deb Size: 36984 MD5sum: e6c9910ba549e1bbd351f566b1114c5c SHA1: caed3c7a29fb8aa54af900a03d52326d6dea8f51 SHA256: 5589157697ca616634a48caea29c80e5fae2b2a01e4d1207e64dd08d14994a4e SHA512: b7fb7296befcac616fbe5020375c899f3aefd2faab35f50a5255ff0db15213c843d37a377e7a491d38548a419daadc7147c0b48aa3754eea1cef62afa9f3495a Homepage: https://cran.r-project.org/package=savonliquide Description: CRAN Package 'savonliquide' (Accessibility Toolbox for 'R' Users) Provides a toolbox that allows the user to implement accessibility related concepts. Package: r-cran-savvyr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 807 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-etm, r-cran-rdpack Suggests: r-cran-kableextra, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-savvyr_0.1.2-1.ca2004.1_all.deb Size: 653368 MD5sum: 61a4e634bde481be8a0a5dad37e28c7e SHA1: 51600caa1db75d26a4ed7ec53809fa9c1729d64d SHA256: 6fff0ad419e447487535abc41748f9611783473d352a568805c55a5173b39920 SHA512: eff1cb94fe02a8a28fcfbbc3733938c75e3853b4e9fdda5be7ff1ac8801746d0e7113a1271c939ae1ac16f8d2a5d5d9f3d39ef240f18d227b5e8443f3305499b Homepage: https://cran.r-project.org/package=savvyr Description: CRAN Package 'savvyr' (Survival Analysis for AdVerse Events with VarYing Follow-UpTimes) The SAVVY (Survival Analysis for AdVerse Events with VarYing Follow-Up Times) project is a consortium of academic and pharmaceutical industry partners that aims to improve the analyses of adverse event (AE) data in clinical trials through the use of survival techniques appropriately dealing with varying follow-up times and competing events, see Stegherr, Schmoor, Beyersmann, et al. (2021) . Although statistical methodologies have advanced, in AE analyses often the incidence proportion, the incidence density or a non-parametric Kaplan-Meier estimator are used, which either ignore censoring or competing events. This package contains functions to easily conduct the proposed improved AE analyses. Package: r-cran-sawnuti Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sawnuti_0.1.1-1.ca2004.1_all.deb Size: 30416 MD5sum: 102790cce929a6274f59b7a38797acd7 SHA1: 37e93b95f17973cdd92f2acc1c5876c1dafc2e68 SHA256: 4803135ec28c5258354fe44f666016e7c08cf2312d8725d45adcef859b719d92 SHA512: 2476a5e04e03d9fa86d356f9ab2bc47cac0c82addc09b03a18afe5e3cf656e58a2ce3328aae91bc2c112914e9977ca6adde44b27ba47033c60758bbe9303c61e Homepage: https://cran.r-project.org/package=sawnuti Description: CRAN Package 'sawnuti' (Comparing Sequences with Non-Uniform Time Intervals) The SAWNUTI algorithm performs sequence comparison for finite sequences of discrete events with non-uniform time intervals. Further description of the algorithm can be found in the paper: A. Murph, A. Flynt, B. R. King (2021). Comparing finite sequences of discrete events with non-uniform time intervals, Sequential Analysis, 40(3), 291-313. . Package: r-cran-saws Architecture: all Version: 0.9-7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 396 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gee Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-saws_0.9-7.0-1.ca2004.1_all.deb Size: 340836 MD5sum: f4769134e17751db3b951f06fe29fc1e SHA1: 9e4248ce76ffd86ad7d29421bb78b7c850a2ac81 SHA256: 571096754d131bfdc9d27f545b153e22546af93b4eb9a5b40c603278f1f9c35d SHA512: 56f33b034d94883b7c5a2bb6c63f3a23f8249d1ec65fad935ff43cdaa6b8a83336b81653360f18e562ae5b47a2033e4c7c1013c6d9330556aa1d940fd66a2e3a Homepage: https://cran.r-project.org/package=saws Description: CRAN Package 'saws' (Small-Sample Adjustments for Wald Tests Using SandwichEstimators) Tests coefficients with sandwich estimator of variance and with small samples. Regression types supported are gee, linear regression, and conditional logistic regression. Package: r-cran-sazedr Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bspec, r-cran-dplyr, r-cran-fftwtools, r-cran-pracma, r-cran-zoo Filename: pool/dists/focal/main/r-cran-sazedr_2.0.2-1.ca2004.1_all.deb Size: 42108 MD5sum: 7a6908e4cb90c7d3dc8eb55c63f6dea9 SHA1: cdd05aab051e1d9647ad0e738c29ad93a864d11b SHA256: 71ab84578f077472fb0f3eb3484c4096b0a96943faf387809f8945b560362617 SHA512: c56a2d11ba693f2983dfea0dbc5e2f7956093f61690360224867416cd8a3ebc0d76048bcda84b693cbd1609d044c560edbdb8c2b66a29c47e4d5fdf861d6c1a4 Homepage: https://cran.r-project.org/package=sazedR Description: CRAN Package 'sazedR' (Parameter-Free Domain-Agnostic Season Length Detection in TimeSeries) Spectral and Average Autocorrelation Zero Distance Density ('sazed') is a method for estimating the season length of a seasonal time series. 'sazed' is aimed at practitioners, as it employs only domain-agnostic preprocessing and does not depend on parameter tuning or empirical constants. The computation of 'sazed' relies on the efficient autocorrelation computation methods suggested by Thibauld Nion (2012, URL: ) and by Bob Carpenter (2012, URL: ). Package: r-cran-sbagm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-msgarch, r-cran-forecast, r-cran-rugarch Filename: pool/dists/focal/main/r-cran-sbagm_0.1.0-1.ca2004.1_all.deb Size: 27832 MD5sum: e3eeb42f539474eccd434f5128243358 SHA1: f3bb0f03334fc682a253f117f9c5d2105cc0d488 SHA256: 1326260303cf2bab753116147deee6020686b087ec37d97598150ccd20a8178a SHA512: 2fd80114472ecfcf3597e5e9ca7912c34157f54de5a2d0e3eafd51cd0a1cc05d39e1bf9cfe045389c86d7053295bf656f38990c69dc93fc6f7c144f2c80a6e82 Homepage: https://cran.r-project.org/package=SBAGM Description: CRAN Package 'SBAGM' (Search Best ARIMA, GARCH, and MS-GARCH Model) Get the most appropriate autoregressive integrated moving average, generalized auto-regressive conditional heteroscedasticity and Markov switching GARCH model. For method details see Haas M, Mittnik S, Paolella MS (2004). , Bollerslev T (1986). . Package: r-cran-sbd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bbmle, r-cran-mass, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-sbd_0.1.0-1.ca2004.1_all.deb Size: 64452 MD5sum: b85db75aa3da1650387914139f6edb49 SHA1: 63384d814ebddb22054a429235cdafa009fda58f SHA256: e2fe1859cd16d2dc03c5d94ecf790cba838a135037ba24263680133ecb2f8ff9 SHA512: 6d643c3cc41abdd2eec94cbeb3daaed0035be2783412fb4e65ec0f366da42991a72ecfc8a11ad88a2a49cf009ceed4e9ca3c2cd5576d65c2f7681a7c83da0bb4 Homepage: https://cran.r-project.org/package=sbd Description: CRAN Package 'sbd' (Size Biased Distributions) Fitting and plotting parametric or non-parametric size-biased non-negative distributions, with optional covariates if parametric. Rowcliffe, M. et al. (2016) . 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"Quantifying the Bias due to Observed Individual Confounders in Causal Treatment Effect Estimates". Statistics in Medicine, 39(18): 2447- 2476 . 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Package: r-cran-scales Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1042 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-farver, r-cran-glue, r-cran-labeling, r-cran-lifecycle, r-cran-r6, r-cran-rcolorbrewer, r-cran-rlang, r-cran-viridislite Suggests: r-cran-bit64, r-cran-covr, r-cran-dichromat, r-cran-ggplot2, r-cran-hms, r-cran-stringi, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scales_1.4.0-1.ca2004.1_all.deb Size: 750484 MD5sum: 48416da43d262ea7d8f5228ad15f360e SHA1: 8efbb275e190f974f887760172cace11c79bae36 SHA256: d0788d7c49b2fa11c9b6095dfeb0535111deea4b4f42ea9c4b817941c34967d8 SHA512: 201dd3ad87ec8f395f51912a791edaf0d8e8e0d28ce0c5a569f9fb73d81ee7d86dcabb879c32a30b04d5f078eb4373ea11a4b90b009654fa671600bb94e89d45 Homepage: https://cran.r-project.org/package=scales Description: CRAN Package 'scales' (Scale Functions for Visualization) Graphical scales map data to aesthetics, and provide methods for automatically determining breaks and labels for axes and legends. 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Package: r-cran-scape Architecture: all Version: 2.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4481 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-coda, r-cran-hmisc, r-cran-lattice Suggests: r-cran-gdata Filename: pool/dists/focal/main/r-cran-scape_2.3.5-1.ca2004.1_all.deb Size: 2724204 MD5sum: 9ca6497d68a1049507200c3b91c51b53 SHA1: 7ab64a8501d8fe154c57aac15e8f3455f0e9c03a SHA256: 36c2ebd46bcef37a9618ee861db870bfac92b854d8378bd3625a08ed8b9d5325 SHA512: 1d39d5b59278a1f96d9debeb729c483f2ce2538f4840a62f94c973d8b51ea5d7b0478e002292c808fdc1668e17a130c136c329b849de877ad87f8ead7dd27a5d Homepage: https://cran.r-project.org/package=scape Description: CRAN Package 'scape' (Statistical Catch-at-Age Plotting Environment) Import, plot, and diagnose results from statistical catch-at-age models, used in fisheries stock assessment. 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Package: r-cran-scapgnn Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4957 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-activepathways, r-cran-adaptgauss, r-cran-coop, r-cran-igraph, r-cran-mixtools, r-cran-reticulate Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-scapgnn_0.1.4-1.ca2004.1_all.deb Size: 3063924 MD5sum: 8857fa64ba91e594e2fde104d41f4181 SHA1: 2e0d11aa0248658b78cf2d787e078bc1c9f88ecf SHA256: a55788e48e51f0f282b4f2d3752c1b12d9bbb70e4d11e851b36af6d06a619cf7 SHA512: 18a0ea896d9f828e1dd843d1dc716444ffda0f1ea621e2e10f532434509a78e4bb305e665b05917f9f42536247eb61c66db0b49a6a0c22baa5e810e1b7d35aca Homepage: https://cran.r-project.org/package=scapGNN Description: CRAN Package 'scapGNN' (Graph Neural Network-Based Framework for Single Cell ActivePathways and Gene Modules Analysis) It is a single cell active pathway analysis tool based on the graph neural network (F. 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Package: r-cran-scarabee Architecture: all Version: 1.1-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2170 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-neldermead, r-cran-optimsimplex, r-cran-optimbase, r-cran-lattice, r-cran-desolve Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-scarabee_1.1-4-1.ca2004.1_all.deb Size: 995092 MD5sum: 36a9ae223a9ebff743a759c9373cfa32 SHA1: 1086d537f4e5bb36bfa6abdc43bfc3439adc0861 SHA256: d24847e5227ec941923d08bba87de9ef045c0cac0c60075502040804768d67d0 SHA512: 979b8aa220a72d6155da91bd92ec2436766108269b451e9dcc115ba03919b008ae394527b91791a0c525a58248de06014da157e3ae0d098c1cf7c22c91711fd6 Homepage: https://cran.r-project.org/package=scaRabee Description: CRAN Package 'scaRabee' (Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models) A port of the Scarabee toolkit originally written as a Matlab-based application. scaRabee provides a framework for simulation and optimization of pharmacokinetic-pharmacodynamic models at the individual and population level. 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In the version 2.0 the function creating the probability matrix from double-censored data is added. 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Detailed information on the self-controlled case series method and its extensions with more examples can be found in Farrington, P., Whitaker, H., and Ghebremichael Weldeselassie, Y. (2018, ISBN: 978-1-4987-8159-6. Self-controlled Case Series studies: A modelling Guide with R. Boca Raton: Chapman & Hall/CRC Press) and . Package: r-cran-sccustomize Architecture: all Version: 3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1475 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-seurat, r-cran-circlize, r-cran-cli, r-cran-cowplot, r-cran-data.table, r-cran-dplyr, r-cran-forcats, r-cran-ggbeeswarm, r-cran-ggplot2, r-cran-ggprism, r-cran-ggrastr, r-cran-ggrepel, r-cran-glue, r-cran-janitor, r-cran-lifecycle, r-cran-magrittr, r-cran-matrix, r-cran-paletteer, r-cran-patchwork, r-cran-pbapply, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-scattermore, r-cran-seuratobject, r-cran-stringi, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-bioc-biocfilecache, r-bioc-complexheatmap, r-bioc-dittoseq, r-bioc-dropletutils, r-cran-ggpubr, r-cran-hdf5r, r-cran-knitr, r-bioc-nebulosa, r-cran-remotes, r-cran-reticulate, r-cran-rliger, r-cran-rmarkdown, r-bioc-scuttle, r-cran-tidyselect, r-cran-qs, r-cran-viridis Filename: pool/dists/focal/main/r-cran-sccustomize_3.0.1-1.ca2004.1_all.deb Size: 1233676 MD5sum: caf2d824f83644ab7e9c29efda350e8e SHA1: 3262ad33b2fdf7f0b1c8c791f94b838d03fad009 SHA256: d2ccf155c36ba4ddfbee5d12bc131da25a54641627b678d94984af0e324873c5 SHA512: 574693ecee2a1f37540aedca7ca643278c2cf5b3eaa3321434deec5108c5f5ee13a0646a409a02ae8608081d7da95705537f230c7a6f48ae9a4f8ef40f773595 Homepage: https://cran.r-project.org/package=scCustomize Description: CRAN Package 'scCustomize' (Custom Visualizations & Functions for Streamlined Analyses ofSingle Cell Sequencing) Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using 'R'. 'scCustomize' aims to provide 1) Customized visualizations for aid in ease of use and to create more aesthetic and functional visuals. 2) Improve speed/reproducibility of common tasks/pieces of code in scRNA-seq analysis with a single or group of functions. For citation please use: Marsh SE (2021) "Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing" RRID:SCR_024675. Package: r-cran-scda Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 983 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spatialreg, r-cran-sp, r-cran-spdep, r-cran-rlang, r-cran-performance, r-cran-dplyr, r-cran-sf, r-cran-nbclust, r-cran-ggplot2, r-cran-ggspatial Suggests: r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-scda_0.0.2-1.ca2004.1_all.deb Size: 925272 MD5sum: c0cb76f44d384db0e40f95b9fa6a998d SHA1: c559a30892d559d38294169d5c95bccf08a41df1 SHA256: 156e4113b36e53c20037c61a81f341bfe3b10cc18b8a2e58eea3ef3fc58588fa SHA512: cda5bc46406a4166fff4eead997e79d90d1e4fcb4487a6919e4f2e1b925bd5ee224fd3cfdbbe7a9ca50240261cb78dea5cdea89d342de9c56a788e717a826330 Homepage: https://cran.r-project.org/package=SCDA Description: CRAN Package 'SCDA' (Spatially-Clustered Data Analysis) Contains functions for statistical data analysis based on spatially-clustered techniques. The package allows estimating the spatially-clustered spatial regression models presented in Cerqueti, Maranzano \& Mattera (2024), "Spatially-clustered spatial autoregressive models with application to agricultural market concentration in Europe", arXiv preprint 2407.15874 . Specifically, the current release allows the estimation of the spatially-clustered linear regression model (SCLM), the spatially-clustered spatial autoregressive model (SCSAR), the spatially-clustered spatial Durbin model (SCSEM), and the spatially-clustered linear regression model with spatially-lagged exogenous covariates (SCSLX). From release 0.0.2, the library contains functions to estimate spatial clustering based on Adiajacent Matrix K-Means (AMKM) as described in Zhou, Liu \& Zhu (2019), "Weighted adjacent matrix for K-means clustering", Multimedia Tools and Applications, 78 (23) . Package: r-cran-scdb Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 558 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-dbi, r-cran-dbplyr, r-cran-dplyr, r-cran-glue, r-cran-openssl, r-cran-parallelly, r-cran-purrr, r-cran-rlang, r-cran-r6, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect, r-cran-magrittr Suggests: r-cran-callr, r-cran-conflicted, r-cran-devtools, r-cran-duckdb, r-cran-ggplot2, r-cran-here, r-cran-jsonlite, r-cran-knitr, r-cran-lintr, r-cran-microbenchmark, r-cran-odbc, r-cran-pak, r-cran-rmarkdown, r-cran-roxygen2, r-cran-pkgdown, r-cran-rpostgres, r-cran-rsqlite, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-tidyverse, r-cran-withr Filename: pool/dists/focal/main/r-cran-scdb_0.5.1-1.ca2004.1_all.deb Size: 347964 MD5sum: ea1801b4ada974459a9450ad21c9127b SHA1: e3c5899c7c99f7ed56b0d65da13d224c46a2e39d SHA256: fbc10e4abc7adc53eaa80e7c03858fdd91b8c616b521d3444eed2378a0346b18 SHA512: 15b2eb865cc2b71f837e950475d8090d80961da02c9701576ca67fe0759531683bcb12166e19e46a74217cee84ab8af668dcdd0f9d4581b7f65aac3582726429 Homepage: https://cran.r-project.org/package=SCDB Description: CRAN Package 'SCDB' (Easily Access and Maintain Time-Based Versioned Data(Slowly-Changing-Dimension)) A collection of functions that enable easy access and updating of a database of data over time. More specifically, the package facilitates type-2 history for data-warehouses and provides a number of Quality of life improvements for working on SQL databases with R. For reference see Ralph Kimball and Margy Ross (2013, ISBN 9781118530801). Package: r-cran-scdeco Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-rjags, r-cran-msm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-scdeco_0.1.1-1.ca2004.1_all.deb Size: 83932 MD5sum: f8313ab4b7c34ac324caa9eb72fdafea SHA1: 7e1d076e4b626dbec5ba2ffbe881ffab9acce28b SHA256: 0fee411a8d2d84cb45b8b40bef72bf1ee0aa95683d2f84d870b223c75b808ff3 SHA512: 57e2b36384773a145c7ef55b639e81626ac1564df8cd0f42674f9c21b85f375e2ab88da9b032daf08f96eed150113a8486799877735e89a422800a31c947bf37 Homepage: https://cran.r-project.org/package=scDECO Description: CRAN Package 'scDECO' (Estimating Dynamic Correlation) Implementations for two different Bayesian models of differential co-expression. scdeco.cop() fits the bivariate Gaussian copula model from Zichen Ma, Shannon W. Davis, Yen-Yi Ho (2023) , while scdeco.pg() fits the bivariate Poisson-Gamma model from Zhen Yang, Yen-Yi Ho (2022) . Package: r-cran-scdeconr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2479 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-bioc-edger, r-cran-foreach, r-cran-ggplot2, r-cran-seurat, r-cran-data.table, r-cran-gtools, r-cran-harmony, r-cran-mass, r-cran-matrix, r-cran-nmf, r-cran-reshape2, r-bioc-biobase, r-cran-mgcv, r-bioc-glmgampoi Suggests: r-cran-fardeep, r-cran-reticulate, r-cran-plotly, r-bioc-deseq2, r-cran-knitr, r-bioc-limma, r-cran-nnls, r-bioc-preprocesscore, r-cran-rmarkdown, r-bioc-scater, r-bioc-scran, r-bioc-singlecellexperiment, r-cran-dofuture, r-cran-future, r-cran-sctransform, r-bioc-linnorm Filename: pool/dists/focal/main/r-cran-scdeconr_1.0.0-1.ca2004.1_all.deb Size: 1406088 MD5sum: 2caf2cff117b346fa22d9414bf4ac8b3 SHA1: 698a6188116deb98481c52750529ed080af23b5f SHA256: dc1ca408b314d9b47eb085417595fa84e8c5eadd122c46e29afb11cf84dc1199 SHA512: 10489f1bdb0786a7b49bbbfbd4113ad9296631cb9a286b426bd377858050a7c366c2b1290903a6e04b790c15d27ae2939c88b394213011bc523e1f8fea817229 Homepage: https://cran.r-project.org/package=SCdeconR Description: CRAN Package 'SCdeconR' (Deconvolution of Bulk RNA-Seq Data using Single-Cell RNA-SeqData as Reference) Streamlined workflow from deconvolution of bulk RNA-seq data to downstream differential expression and gene-set enrichment analysis. Provide various visualization functions. Package: r-cran-scdensity Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2883 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quadprog, r-cran-lpsolve Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-scdensity_1.0.3-1.ca2004.1_all.deb Size: 1057224 MD5sum: cb52eefbff2bf9e5d89ce83b24c30081 SHA1: 8ac38322f65bf1dfcca753eca9e6e61114b1cb66 SHA256: da5e5019b1f63b8877167641f520140b1ab837a7a4e056df9544496960c6e57b SHA512: ea9740c3f60d5c355e945bb359967138c7a4c46062d28fd197571e0e26937f9b7c158ffa2807e85a785aeebc5e48f67a7ab90d5fc7cb94ef6090417629af56d4 Homepage: https://cran.r-project.org/package=scdensity Description: CRAN Package 'scdensity' (Shape-Constrained Kernel Density Estimation) Implements methods for obtaining kernel density estimates subject to a variety of shape constraints (unimodality, bimodality, symmetry, tail monotonicity, bounds, and constraints on the number of inflection points). Enforcing constraints can eliminate unwanted waves or kinks in the estimate, which improves its subjective appearance and can also improve statistical performance. The main function scdensity() is very similar to the density() function in 'stats', allowing shape-restricted estimates to be obtained with little effort. The methods implemented in this package are described in Wolters and Braun (2017) , Wolters (2012) , and Hall and Huang (2002) . See the scdensity() help for for full citations. Package: r-cran-scdhlm Architecture: all Version: 0.7.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1149 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nlme, r-cran-readxl, r-cran-rlang, r-cran-dplyr, r-cran-tidyselect, r-cran-magrittr, r-cran-lmeinfo Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-ggplot2, r-cran-plyr, r-cran-boot, r-cran-shiny, r-cran-shinytest, r-cran-glue, r-cran-janitor, r-cran-rclipboard, r-cran-rvest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scdhlm_0.7.3-1.ca2004.1_all.deb Size: 852248 MD5sum: c175d1d2a2280c09949cf064226886b5 SHA1: b5191ce6e611bfe4a617f9bc59338283acc00add SHA256: 3bce253fd617bd1db44fd99d0d9f8ce9fb4cac79937fe1c76e8f81206cf6753d SHA512: c9c78ab13b7393d34139ceb5d3441662f2b655b90e8e57f15936f385d95dd2ff11c10f5f7b4fa08ec1b212dd3bfb13879a394d3037ef2923bc76e35c7967e13c Homepage: https://cran.r-project.org/package=scdhlm Description: CRAN Package 'scdhlm' (Estimating Hierarchical Linear Models for Single-Case Designs) Provides a set of tools for estimating hierarchical linear models and effect sizes based on data from single-case designs. Functions are provided for calculating standardized mean difference effect sizes that are directly comparable to standardized mean differences estimated from between-subjects randomized experiments, as described in Hedges, Pustejovsky, and Shadish (2012) ; Hedges, Pustejovsky, and Shadish (2013) ; Pustejovsky, Hedges, and Shadish (2014) ; and Chen, Pustejovsky, Klingbeil, and Van Norman (2023) . Includes an interactive web interface. Package: r-cran-scdiffcom Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3491 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-bioc-delayedarray, r-cran-future, r-cran-future.apply, r-cran-magrittr, r-cran-seurat Suggests: r-bioc-biomart, r-cran-covr, r-cran-dt, r-cran-ggplot2, r-bioc-gosemsim, r-cran-igraph, r-cran-kableextra, r-bioc-keggrest, r-cran-knitr, r-cran-ontologyindex, r-bioc-ontoproc, r-cran-pkgdown, r-cran-plotly, r-cran-rcolorbrewer, r-cran-rmarkdown, r-bioc-rrvgo, r-cran-spelling, r-cran-shiny, r-cran-shinythemes, r-cran-shinywidgets, r-bioc-singlecellsignalr, r-cran-testthat, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-scdiffcom_1.0.0-1.ca2004.1_all.deb Size: 3315276 MD5sum: d10a33a02976541f9af67ab9a2888db3 SHA1: d4fc8f6e565333bcef0664f7021c41c989420875 SHA256: 4307a039ad74fad4b4d2f935fa9d91b1d75514cab6cb24a0f8f3f76f0e7822ff SHA512: 8088aab1d5039f190d020c66246755f2370c523d5f7194305520b61649d2b80f3fda0873c4454488d193c82acadf1c6649b9972f08c83593caafcc3bd5293a80 Homepage: https://cran.r-project.org/package=scDiffCom Description: CRAN Package 'scDiffCom' (Differential Analysis of Intercellular Communication fromscRNA-Seq Data) Analysis tools to investigate changes in intercellular communication from scRNA-seq data. Using a Seurat object as input, the package infers which cell-cell interactions are present in the dataset and how these interactions change between two conditions of interest (e.g. young vs old). It relies on an internal database of ligand-receptor interactions (available for human, mouse and rat) that have been gathered from several published studies. Detection and differential analyses rely on permutation tests. The package also contains several tools to perform over-representation analysis and visualize the results. See Lagger, C. et al. (2023) for a full description of the methodology. Package: r-cran-scdiftest Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sandwich, r-cran-strucchange, r-cran-mirt, r-cran-zoo Suggests: r-cran-mvtnorm, r-cran-psychotree, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scdiftest_0.1.1-1.ca2004.1_all.deb Size: 42292 MD5sum: fcf775e138c1a49cda98334c00933071 SHA1: 6ab34e662da7f2d2eff30b7bfc3a75c2def54ae6 SHA256: 5db9a2156a24e5f007728768d8fb8373baac414e78eb63493a3b90a65029e9e4 SHA512: 8fef1cf169422d9352ad30e4792955503d00462d5b1069e256ae7357a3750e78e98329e54565c2432c9355e15d8dd721703e47eea22a0de53c24121be904a2d0 Homepage: https://cran.r-project.org/package=scDIFtest Description: CRAN Package 'scDIFtest' (Item-Wise Score-Based DIF Detection) Detection of item-wise Differential Item Functioning (DIF) in fitted 'mirt', 'multipleGroup' or 'bfactor' models using score-based structural change tests. Under the hood the sctest() function from the 'strucchange' package is used. Package: r-cran-scdtb Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2119 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom.mixed, r-cran-dt, r-cran-ggplot2, r-cran-mass, r-cran-mmcards, r-cran-mmints, r-cran-nlme, r-cran-shiny, r-cran-shinythemes, r-cran-sn Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-scdtb_0.2.0-1.ca2004.1_all.deb Size: 1867160 MD5sum: 27b718da92bb3284df71c15da5564afa SHA1: 496d84590cf8f2fcea995c45cafb1d444109289b SHA256: ff9cc59bfc5569e4f32947e48bb8da81358410fa9fd34c36d43f675a294179e6 SHA512: 8788fcfae0ceb597af252a66811cad740a193ff07a1fb90aaa18ea141ffc8788a3c39bad1c40dd37dcd4171508025694efecf9396744da29978323906c761d6c Homepage: https://cran.r-project.org/package=scdtb Description: CRAN Package 'scdtb' (Single Case Design Tools) In some situations where researchers would like to demonstrate causal effects, it is hard to obtain a sample size that would allow for a well-powered randomized controlled trial. Single case designs are experimental designs that can be used to demonstrate causal effects with only one participant or with only a few participants. The 'scdtb' package provides a suite of tools for analyzing data from studies that use single case designs. The nap() function can be used to compute the nonoverlap of all pairs as outlined by the What Works Clearinghouse (2022) . The package also offers the mixed_model_analysis() and cross_lagged() functions which implement mixed effects models and cross lagged analyses as described in Maric & van der Werff (2020) . The randomization_test() function implements randomization tests based on methods presented in Onghena (2020) . The scdtb() 'shiny' application can be used to upload single case design data and access various 'scdtb' tools for plotting and analysis. Package: r-cran-sce Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 273 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sce_1.0.0-1.ca2004.1_all.deb Size: 240056 MD5sum: fa39ccad5ba214ae932b800d3fc6fb29 SHA1: 3e29353fef079ab404d05a5eeba0faa14e28311f SHA256: fae2436be237a195bce72e727ec736f8cccc4d9565372a67dbbaecc408dfe917 SHA512: e16c65529b239becf196d91b15213f696824a1cdeaf63501e84f74f45bbddac700dc09d9fa09e891add0828cd5473fb691bd84512bd2de9b1485efd02ba03e2d Homepage: https://cran.r-project.org/package=SCE Description: CRAN Package 'SCE' (Stepwise Clustered Ensemble) Implementation of Stepwise Clustered Ensemble (SCE) and Stepwise Cluster Analysis (SCA) for multivariate data analysis. The package provides comprehensive tools for feature selection, model training, prediction, and evaluation in hydrological and environmental modeling applications. Key functionalities include recursive feature elimination (RFE), Wilks feature importance analysis, model validation through out-of-bag (OOB) validation, and ensemble prediction capabilities. The package supports both single and multivariate response variables, making it suitable for complex environmental modeling scenarios. For more details see Li et al. (2021) . Package: r-cran-scem Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-devtools, r-cran-mathjaxr Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scem_1.1.0-1.ca2004.1_all.deb Size: 186576 MD5sum: 1e0902ccd34cc80829ab79ca5e3e0478 SHA1: d2bdcc9f5f230bf3dacdd5bf5e1afc33a4d2278e SHA256: 3e5ea9ff103364fd9263ed38b6ea9b00616b4b64eabbe33132829cf046ae391f SHA512: b174c1ef85f6e24472276b07e09f0896d6111550537e1ee4ba820573d6ce185d58cb7acbc9399aff1a4fff8d722b59a22c50297fb4500bee18a1c35fa7e7394d Homepage: https://cran.r-project.org/package=SCEM Description: CRAN Package 'SCEM' (Splitting-Coalescence-Estimation Method) We introduce improved methods for statistically assessing birth seasonality and intra-annual variation. The first method we propose is a new idea that uses a nonparametric clustering procedure to group individuals with similar time series data and estimate birth seasonality based on the clusters. One can use the function SCEM() to implement this method. The second method estimates input parameters for use with a previously-developed parametric approach (Tornero et al., 2013). The relevant code for this approach is makeFits_OLS(), while makeFits_initial() is the code to implement the same method but with given initial conditions for two parameters. The latter can be used to show the disadvantage of the existing approach. One can use the function makeFits() to generate parametric birth seasonality estimates using either initialization. Detailed description can be found here: Chazin Hannah, Soudeep Deb, Joshua Falk, and Arun Srinivasan. (2019) "New Statistical Approaches to Intra-Individual Isotopic Analysis and Modeling Birth Seasonality in Studies of Herd Animals." . Package: r-cran-scenario Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-scenario_1.0-1.ca2004.1_all.deb Size: 73768 MD5sum: effec0606e74690485f0c3dd28574f5b SHA1: ce1062f572c2a40de9f00f4c6de307e5b3adae00 SHA256: e0486997122f9b743cded3451ccc4019167347771c26a20ec3773f3776f767cc SHA512: 39685da6fc2e3c82a17960073c04ff3bbe318c07014ad36c82d133ae9fba3103a3e48de146beea30dad590d23b0fd0d0a885265c69c011fb77e15f8cfb863a8b Homepage: https://cran.r-project.org/package=scenario Description: CRAN Package 'scenario' (Construct Reduced Trees with Predefined Nodal Structures) Uses the neural gas algorithm to construct a scenario tree for use in multi-stage stochastic programming. The primary input is a set of initial scenarios or realizations of a disturbance. The scenario tree nodal structure must be predefined using a scenario tree nodal partition matrix. Package: r-cran-scenes Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 378 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cli, r-cran-cookies, r-cran-glue, r-cran-purrr, r-cran-rlang, r-cran-shiny Suggests: r-cran-covr, r-cran-knitr, r-cran-pkgload, r-cran-rmarkdown, r-cran-stringr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scenes_0.1.0-1.ca2004.1_all.deb Size: 250172 MD5sum: 03748cc5dd39f6d95b0ed708482a48b1 SHA1: 871ba4b95f0aa8ae033e9cf5c4b49826989c6594 SHA256: dd02255c98262ef2fa998bd66e20a96deb147438e3c1e2925b00d55986f7f291 SHA512: 1aef54754208a20e0e035c71498e850e792e42024b4a9f9af40e0eb276535bfda6e60318784d91cb6292f131532d29201738b1f5994d961e6909eb9d3e58f80f Homepage: https://cran.r-project.org/package=scenes Description: CRAN Package 'scenes' (Switch Between Alternative 'shiny' UIs) Sometimes it is useful to serve up alternative 'shiny' UIs depending on information passed in the request object, such as the value of a cookie or a query parameter. This packages facilitates such switches. Package: r-cran-scent Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-entropy, r-cran-tibble Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scent_0.0.1-1.ca2004.1_all.deb Size: 30664 MD5sum: 6327d3ee8f5c013ccf89e0da68fe90f2 SHA1: 71bc80f1feb52fcf34708af84b1bc6b6540802dd SHA256: a134a0cf3e6d1ac8608d25bdcca16c2d6b27f5f566e6dd371bc2d540e9e7c2b5 SHA512: 97c01b8c411d9ab671026603c3888f8c983a3aefa198bb43f8bbc7171215264ff50f694a5a7cd9e81f39e41a378bf2621807f5587c0b0e7e410f158fd592f99d Homepage: https://cran.r-project.org/package=SCEnt Description: CRAN Package 'SCEnt' (Single Cell Entropy Analysis of Gene Heterogeneity in CellPopulations) Analyse single cell RNA sequencing data using entropy to calculate heterogeneity and homogeneity of genes amongst the cell population. From the work of Michael J. Casey, Ruben J. Sanchez-Garcia and Ben D. MacArthur. Package: r-cran-scfetch Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5407 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-biobase, r-cran-curl, r-cran-data.table, r-cran-dplyr, r-bioc-geoquery, r-cran-jsonlite, r-cran-magrittr, r-cran-matrix, r-cran-openxlsx, r-cran-pbapply, r-cran-purrr, r-cran-rpanglaodb, r-cran-reticulate, r-cran-seurat, r-cran-tibble, r-bioc-singlecellexperiment, r-bioc-summarizedexperiment, r-bioc-scater, r-bioc-loomexperiment, r-cran-httr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-bioc-scrnaseq, r-bioc-biocstyle, r-cran-htmltools, r-bioc-zellkonverter, r-bioc-geofastq Filename: pool/dists/focal/main/r-cran-scfetch_0.5.0-1.ca2004.1_all.deb Size: 1717268 MD5sum: cd61d4f37a4479f0367849b947a8414e SHA1: c406d0975d3be4a320c131d4201ed808f8955011 SHA256: dc1adf1fd9744bb6149b7a98061a9ae84a9b777d9a63dc88944d7a2dbb2d2e22 SHA512: d142ffa7bc5e5ced6c8c30f47833b9a1bd47cebb2745ed26833e6b5414299264c1a6866b47fe159ee3568cee62fe856b76e5a75bd2e5e4563a8a414552c0a1b7 Homepage: https://cran.r-project.org/package=scfetch Description: CRAN Package 'scfetch' (Access and Format Single-Cell RNA-Seq Datasets from PublicResources) The goal of 'scfetch' is to access and format single-cell RNA-seq datasets. 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Package: r-cran-scfmonitor Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1386 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readr, r-cran-stringr, r-cran-tidyselect, r-cran-dplyr, r-cran-tibble, r-cran-ggplot2, r-cran-tidyr, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-scfmonitor_0.3.5-1.ca2004.1_all.deb Size: 390980 MD5sum: 95478b3fa521809fd128c21934eed987 SHA1: ce5dcdbb8db32f9a99601aa521a5f65a7de0f699 SHA256: f708b24a6a55cb5a2a5ca08d783db52380b619391f6f0ce2ab5f54cb9018c17f SHA512: 03158dac0a3c695f90fbc45a868186ce71c9b869d6c555a07ccb7d833b725a17047174a12fd4911155a30243c92f62a4a0ee6f0ba6b11c845997fa81b8715579 Homepage: https://cran.r-project.org/package=SCFMonitor Description: CRAN Package 'SCFMonitor' (Clear Monitor and Graphing Software Processing Gaussian .logFile) Self-Consistent Field(SCF) calculation method is one of the most important steps in the calculation methods of quantum chemistry. Ehrenreich, H., & Cohen, M. H. (1959). However, the most prevailing software in this area, 'Gaussian''s SCF convergence process is hard to monitor, especially while the job is still running, causing researchers difficulty in knowing whether the oscillation has started or not, wasting time and energy on useless configurations or abandoning the jobs that can actually work. M.J. Frisch, G.W. Trucks, H.B. Schlegel et al. (2016). 'SCFMonitor' enables 'Gaussian' quantum chemistry calculation software users to easily read the 'Gaussian' .log files and monitor the SCF convergence and geometry optimization process with little effort and clear, beautiful, and clean outputs. It can generate graphs using 'tidyverse' to let users check SCF convergence and geometry optimization processes in real-time. The software supports processing .log files remotely using with rbase::url(). This software is a suitcase for saving time and energy for the researchers, supporting multiple versions of 'Gaussian'. 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'scGate' automatizes marker-based purification of specific cell populations, without requiring training data or reference gene expression profiles. Briefly, 'scGate' takes as input: i) a gene expression matrix stored in a 'Seurat' object and ii) a “gating model” (GM), consisting of a set of marker genes that define the cell population of interest. The GM can be as simple as a single marker gene, or a combination of positive and negative markers. More complex GMs can be constructed in a hierarchical fashion, akin to gating strategies employed in flow cytometry. 'scGate' evaluates the strength of signature marker expression in each cell using the rank-based method 'UCell', and then performs k-nearest neighbor (kNN) smoothing by calculating the mean 'UCell' score across neighboring cells. kNN-smoothing aims at compensating for the large degree of sparsity in scRNA-seq data. Finally, a universal threshold over kNN-smoothed signature scores is applied in binary decision trees generated from the user-provided gating model, to annotate cells as either “pure” or “impure”, with respect to the cell population of interest. See the related publication Andreatta et al. (2022) . 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Covariates can also be grouped in themes. 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It includes several functions to format output from other R functions according to the style guidelines of the APA (American Psychological Association). This formatted output can be copied directly into manuscripts to facilitate data reporting. These features are backed up by a toolkit of several small helper functions, e.g., offering out-of-the-box outlier removal. The package lends its name to Georg "Schorsch" Schuessler, ingenious technician at the Department of Psychology III, University of Wuerzburg. For details on the implemented methods, see Roland Pfister and Markus Janczyk (2016) . 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The function "scMappR_and_pathway_analysis" reranks DEGs to generate cell-type specificity scores called cell-weighted fold-changes. Users input a list of DEGs, normalized counts, and a signature matrix into this function. scMappR then re-weights bulk DEGs by cell-type specific expression from the signature matrix, cell-type proportions from RNA-seq deconvolution and the ratio of cell-type proportions between the two conditions to account for changes in cell-type proportion. With cwFold-changes calculated, scMappR uses two approaches to utilize cwFold-changes to complete cell-type specific pathway analysis. The "process_dgTMatrix_lists" function in the scMappR package contains an automated scRNA-seq processing pipeline where users input scRNA-seq count data, which is made compatible for scMappR and other R packages that analyze scRNA-seq data. We further used this to store hundreds up regularly updating signature matrices. The functions "tissue_by_celltype_enrichment", "tissue_scMappR_internal", and "tissue_scMappR_custom" combine these consistently processed scRNAseq count data with gene-set enrichment tools to allow for cell-type marker enrichment of a generic gene list (e.g. GWAS hits). Reference: Sokolowski,D.J., Faykoo-Martinez,M., Erdman,L., Hou,H., Chan,C., Zhu,H., Holmes,M.M., Goldenberg,A. and Wilson,M.D. (2021) Single-cell mapper (scMappR): using scRNA-seq to infer cell-type specificities of differentially expressed genes. NAR Genomics and Bioinformatics. 3(1). Iqab011. . 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Ethoscopes () are an open source/open hardware framework made of interconnected raspberry pis () designed to quantify the behaviour of multiple small animals in a distributed and real-time fashion. The default tracking algorithm records primary variables such as xy coordinates, dimensions and speed. This package is part of the rethomics framework . 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These functions can also used in the development of machine learning models. The references including: 1. Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard: Development and Implementation Using SAS. 2. Siddiqi, N. (2006, ISBN: 9780471754510). Credit risk scorecards. Developing and Implementing Intelligent Credit Scoring. Package: r-cran-scorecardmodelutils Architecture: all Version: 0.0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 173 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-car, r-cran-e1071, r-cran-gbm, r-cran-partykit, r-cran-randomforest, r-cran-reshape2, r-cran-sqldf, r-cran-stringr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-scorecardmodelutils_0.0.1.0-1.ca2004.1_all.deb Size: 141104 MD5sum: dfcfe4d1db87433c532a164cfc044801 SHA1: d63be5284ef2125bf0ba987b9d543aac945531d4 SHA256: 965aeae331446632c6552c2a775c6b10d09778c49d035eafaa7876986206ae9e SHA512: eaf83584011e1039e42480ace35af83cad5cb7bae8fa87c8740b62ac4d72c9637779c474bf459c51f43b23fb9b3dcc0de193032d3947951e0c6b2730573a5bf7 Homepage: https://cran.r-project.org/package=scorecardModelUtils Description: CRAN Package 'scorecardModelUtils' (Credit Scorecard Modelling Utils) Provides infrastructure functionalities such as missing value treatment, information value calculation, GINI calculation etc. which are used for developing a traditional credit scorecard as well as a machine learning based model. The functionalities defined are standard steps for any credit underwriting scorecard development, extensively used in financial domain. 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Package: r-cran-scrnastat Architecture: all Version: 0.1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3835 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-seurat, r-cran-ggplot2, r-cran-stringr, r-cran-clustree, r-cran-magrittr, r-cran-matrix, r-cran-dplyr, r-cran-patchwork Suggests: r-cran-dbi Filename: pool/dists/focal/main/r-cran-scrnastat_0.1.1.1-1.ca2004.1_all.deb Size: 3746312 MD5sum: 1dd631e6c483b58e6ed2678c2d2ec773 SHA1: d5b238d1a2bf81b087a2f53d2e440db83a9ade79 SHA256: 3d954f3af9484749611a0727ad5610d5e99a39b6824fb25b2bea01e0c1f8e218 SHA512: 4757d00a9c7270d305e6739ae956e7a5cb75849a0da3a994e2b66fca8ac44413a8ea77e5639c9d3c9baec1c7b05eba27dc109ac1ecda7fc05549ee18c2a5c8ef Homepage: https://cran.r-project.org/package=scRNAstat Description: CRAN Package 'scRNAstat' (A Pipeline to Process Single Cell RNAseq Data) A pipeline that can process single or multiple Single Cell RNAseq samples primarily specializes in Clustering and Dimensionality Reduction. 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See for more information. Package: r-cran-scroshi Architecture: all Version: 1.0.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 778 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-bioc-limma, r-bioc-s4vectors, r-bioc-singlecellexperiment, r-bioc-summarizedexperiment, r-cran-uwot Filename: pool/dists/focal/main/r-cran-scroshi_1.0.0.0-1.ca2004.1_all.deb Size: 761072 MD5sum: af38ff7001a6d7a4206a0376bc18f0b9 SHA1: 09b959b3767c227902c2ee13cefc376652b28fdd SHA256: f1ca7b0e55dc68dc6a8b80268e1c76229be03ac6b825be68226d40a6bf7ed547 SHA512: c6470ef7c152b7bbeed9f6f8f9919a9a0bfc084c1400d7400498f6dc0434638a8fdf348f47435f5c9e9c7144ec0c7e27dbf1516d3b5a02d12b137dfd9c3dd57d Homepage: https://cran.r-project.org/package=scROSHI Description: CRAN Package 'scROSHI' (Robust Supervised Hierarchical Identification of Single Cells) Identifying cell types based on expression profiles is a pillar of single cell analysis. 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The package also provides infrastructure for implementing new error detection techniques. Package: r-cran-scryr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 644 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-purrr, r-cran-tibble Suggests: r-cran-covr, r-cran-httptest, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scryr_1.0.0-1.ca2004.1_all.deb Size: 188788 MD5sum: 729bf1fcda56b3fe5be3995368769f82 SHA1: 4d1fbfd69e6dcbb33dfcdcac21302b6acec4ff81 SHA256: dc02d306234d5837a165d0044c9986f9148eb1502769f740830f4f8c74a56300 SHA512: 95b8728a03e37265293ce0c23c511869a564cac4418dd60a6df8ea5f011febb8da717e4a62998baa0cc48b15532d98ad437122d2260c050301e4ce050da78872 Homepage: https://cran.r-project.org/package=scryr Description: CRAN Package 'scryr' (An Interface to the 'Scryfall' API) A simple, light, and robust interface between R and the 'Scryfall' card data API . Package: r-cran-scsorter Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 394 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-scsorter_0.0.2-1.ca2004.1_all.deb Size: 336056 MD5sum: 82271cf8683a61145146473fe06c1d7b SHA1: 93bbe32d06bb21f4848fcc7822d39907064c7781 SHA256: 564fc4be30bd607353c4d68a221cc736d7fbe4ef61b28c4eeda8e8c081548cd6 SHA512: 22bdc1c85fd8edb5ea48e0692385839f6e678f1ed3906d5d8ec5bb7b1dccac006ca2120be7670010b99ed16191431bf34626b90a31df0673191344e159260f73 Homepage: https://cran.r-project.org/package=scSorter Description: CRAN Package 'scSorter' (Implementation of 'scSorter' Algorithm) Implements the algorithm described in Guo, H., and Li, J., "scSorter: assigning cells to known cell types according to known marker genes". Cluster cells to known cell types based on marker genes specified for each cell type. Package: r-cran-scspatialsim Architecture: all Version: 0.1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2048 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-spatstat.geom, r-cran-crayon, r-cran-ggpubr, r-cran-pbmcapply, r-cran-spatstat.random, r-cran-tidyr, r-cran-proxy Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-spatialtime Filename: pool/dists/focal/main/r-cran-scspatialsim_0.1.3.4-1.ca2004.1_all.deb Size: 1501344 MD5sum: b7cbababd7780d8f8a6940e0ad8e47a8 SHA1: 0f60c0b0eb94ac641732e2c08823b0e906594590 SHA256: 4f301f4734181d929a55988b2c4798af8f1a6c6b89c7585aac411e562d50d588 SHA512: 7ce927c3302b4fae6cb512f1f4730993a4c999a9b39c59303989c33998ac84369082727811bc5c4a6b478af9319971522cd712f47e22275666de3b1db75e5749 Homepage: https://cran.r-project.org/package=scSpatialSIM Description: CRAN Package 'scSpatialSIM' (A Point Pattern Simulator for Spatial Cellular Data) Single cell resolution data has been valuable in learning about tissue microenvironments and interactions between cells or spots. This package allows for the simulation of this level of data, be it single cell or ‘spots’, in both a univariate (single metric or cell type) and bivariate (2 or more metrics or cell types) ways. As more technologies come to marker, more methods will be developed to derive spatial metrics from the data which will require a way to benchmark methods against each other. Additionally, as the field currently stands, there is not a gold standard method to be compared against. We set out to develop an R package that will allow users to simulate point patterns that can be biologically informed from different tissue domains, holes, and varying degrees of clustering/colocalization. The data can be exported as spatial files and a summary file (like 'HALO'). . Package: r-cran-scstability Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 297 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-aricode, r-cran-future, r-cran-future.apply, r-cran-ggplot2, r-cran-magrittr, r-cran-pcapp, r-cran-rlang, r-cran-rtsne, r-cran-seurat, r-cran-uwot, r-cran-vegan Suggests: r-cran-spelling, r-cran-knitr, r-cran-rmarkdown, r-bioc-scrnaseq, r-bioc-summarizedexperiment, r-cran-biocmanager, r-cran-testthat Filename: pool/dists/focal/main/r-cran-scstability_1.0.3-1.ca2004.1_all.deb Size: 137540 MD5sum: d6b5235a2ac30dab9d009a8f59375623 SHA1: 41133240f3628a98db2a48e5bfd4b1151ef47953 SHA256: 6c18996f54c66fd5dcf46eff0f8e9ab9cc59eee13852c4549e701c4a01ad012c SHA512: ebaa8248e71831249a2116066decde9d882e893d7ffd94555b574c7a8ae769cb42019ac0fa9792b3f44855ae88559226ab69703cc8bddaaee2a782377189c443 Homepage: https://cran.r-project.org/package=scStability Description: CRAN Package 'scStability' (Measuring the Stability of Dimension Reduction and ClusterAssignment in scRNA-Seq Experiments) Provides functions for evaluating the stability of low-dimensional embeddings and cluster assignments in single‑cell RNA sequencing (scRNA‑seq) datasets. Starting from a principal component analysis (PCA) object, users can generate multiple replicates of t‑Distributed Stochastic Neighbor Embedding (t‑SNE) or Uniform Manifold Approximation and Projection (UMAP) embeddings. Embedding stability is quantified by computing pairwise Kendall’s Tau correlations across replicates and summarizing the distribution of correlation coefficients. In addition to dimensionality reduction, 'scStability' assesses clustering consistency using either Louvain or Leiden algorithms and calculating the Normalized Mutual Information (NMI) between all pairs of cluster assignments. For background on UMAP and t-SNE algorithms, see McInnes et al. (2020, ) and van der Maaten & Hinton (2008, ), respectively. Package: r-cran-sctenifoldknk Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 664 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pbapply, r-cran-rspectra, r-cran-matrix, r-cran-mass, r-cran-sctenifoldnet Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sctenifoldknk_1.0.1-1.ca2004.1_all.deb Size: 90656 MD5sum: fd65c0414af3d912767a0290654ad310 SHA1: 51b1335e4e561b079edb1936b306632b0afc533d SHA256: 57923365e22850e4fa103799255ae9772abbc2249b4b51ba99e7015988e9ae26 SHA512: afdc05d781665020a01e55a4c43d0205de12ada00d884617548e417316466b8b7df2ba572e075804d3a1dc64fba7c9ae677adb91edd45a4d507259e4897f4b61 Homepage: https://cran.r-project.org/package=scTenifoldKnk Description: CRAN Package 'scTenifoldKnk' (In-Silico Knockout Experiments from Single-Cell Gene RegulatoryNetworks) A workflow based on 'scTenifoldNet' to perform in-silico knockout experiments using single-cell RNA sequencing (scRNA-seq) data from wild-type (WT) control samples as input. First, the package constructs a single-cell gene regulatory network (scGRN) and knocks out a target gene from the adjacency matrix of the WT scGRN by setting the gene’s outdegree edges to zero. Then, it compares the knocked out scGRN with the WT scGRN to identify differentially regulated genes, called virtual-knockout perturbed genes, which are used to assess the impact of the gene knockout and reveal the gene’s function in the analyzed cells. Package: r-cran-sctenifoldnet Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pbapply, r-cran-rspectra, r-cran-matrix, r-cran-mass, r-cran-rhpcblasctl Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sctenifoldnet_1.3-1.ca2004.1_all.deb Size: 82928 MD5sum: 994b8caff1ad5ec06ac4b0da93aa1493 SHA1: e6fb0ae4ca607a5ed36be339b9821947c44808c9 SHA256: 893c67ec6b45e4ccd46eef48fcaa6597d35f905c57d39b724cb4118ba9657ce2 SHA512: 4be2131c6e29cb470d28d870998a89f2bc3186f22a4c8cfae7174d2c6f30c93576058a906b44011f6fa665eb3f603a045baf163704d53a55715c91412c036cb3 Homepage: https://cran.r-project.org/package=scTenifoldNet Description: CRAN Package 'scTenifoldNet' (Construct and Compare scGRN from Single-Cell Transcriptomic Data) A workflow based on machine learning methods to construct and compare single-cell gene regulatory networks (scGRN) using single-cell RNA-seq (scRNA-seq) data collected from different conditions. Uses principal component regression, tensor decomposition, and manifold alignment, to accurately identify even subtly shifted gene expression programs. See for more details. Package: r-cran-sctep Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2759 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-igraph, r-cran-scdha, r-cran-foreach, r-bioc-biocgenerics, r-cran-matrix, r-bioc-summarizedexperiment, r-cran-doparallel, r-cran-ggsci, r-cran-psych, r-cran-tibble, r-cran-rlang, r-bioc-singlecellexperiment Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sctep_0.1.0-1.ca2004.1_all.deb Size: 2695960 MD5sum: 7779dbdb445a92411adcbe3b7d941dd3 SHA1: 88e8706629557da48d54aae95a2eb21eed393672 SHA256: 13263d2d5076ee864148204bf8ee3e9e3017787d76019d574be66b1c583ca6b5 SHA512: 3a5a2fb572c66d2e1822ad226ec6392caca5f18a1ddcf5b235139a41b3a0744b789e688216f4ea45ed623c866ba53c1bfc0f6d51d4d35b69891692289d80fe9b Homepage: https://cran.r-project.org/package=scTEP Description: CRAN Package 'scTEP' (Single-Cell Trajectory Inference using Ensemble Pseudotimes) A single-cell trajectory inference method using 'Autoencoder' and Minimum Spanning Tree (MST) from high dimensional 'scRNA-Seq' data. The software run clustering methods six times using 'scDHA' with the number of clusters set from 6 to 10. Then, the 'scTEP' calculates pseudotime based on multiple clustering results. Lastly, the 'scTEP' generates trajectory using MST algorithm and fine-tunes it according to the pseudotime of clusters. Package: r-cran-sctools Architecture: all Version: 0.3.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2305 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-future, r-cran-ggplot2, r-cran-synth, r-cran-stringr, r-cran-cvtools, r-cran-furrr, r-cran-dplyr, r-cran-purrr, r-cran-tidyr, r-cran-magrittr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sctools_0.3.3.1-1.ca2004.1_all.deb Size: 1342128 MD5sum: 2f40062502013e278c19d4a1442b9f46 SHA1: 4bcd70587b7940f599fc6501bad9ec81c146d42c SHA256: 56011d0d202fd576f73e548109d20413c5447406673fd8cb3c31a6259a8e8a67 SHA512: b7b79389a4f9b304d51ff8ac2fa127f03c3a9c73cdd0a21c5f54675a4ed540951662edb97965ce337d8e009f6a17bd5334754b20b307aaf25dfd131094414810 Homepage: https://cran.r-project.org/package=SCtools Description: CRAN Package 'SCtools' (Extensions for Synthetic Controls Analysis) Extends the functionality of the package 'Synth' as detailed in Abadie, Diamond, and Hainmueller (2011) . Includes generating and plotting placebos, post/pre-MSPE (Mean Squared Prediction Error) significance tests and plots, and calculating average treatment effects for multiple treated units. Package: r-cran-scutils Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-matrix, r-cran-scales, r-cran-assertthat, r-cran-dplyr, r-cran-viridis, r-cran-viridislite Suggests: r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-scutils_0.1.0-1.ca2004.1_all.deb Size: 88440 MD5sum: f6ceb69156b947b260982516cd4ad827 SHA1: 31a87fc6ecc4ab683f27fa5195622637efe4cb3e SHA256: 6b4cff34768e3edaccf7e7d1fa9bdf185a40c0dae73dce98c201ef9a6b6329f9 SHA512: 2c14bc1b80de1ba6a33083a7f79ef19ca13a71e04191b4d4eddf667c349653775353c7b617662349860e167f914ad63d84f9494444b84deba53d325ed1079074 Homepage: https://cran.r-project.org/package=scUtils Description: CRAN Package 'scUtils' (Utility Functions for Single-Cell RNA Sequencing Data) Analysis of single-cell RNA sequencing data can be simple and clear with the right utility functions. This package collects such functions, aiming to fulfill the following criteria: code clarity over performance (i.e. plain R code instead of C code), most important analysis steps over completeness (analysis 'by hand', not automated integration etc.), emphasis on quantitative visualization (intensity-coded color scale, etc.). 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This package implements the SCUT (SMOTE and Cluster-based Undersampling Technique) algorithm as described in Agrawal et. al. (2015) . Their paper uses model-based clustering and synthetic oversampling to balance multiclass training datasets, although other resampling methods are provided in this package. Package: r-cran-scva Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 264 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggextra, r-cran-ggplot2, r-cran-plotly, r-cran-scales Filename: pool/dists/focal/main/r-cran-scva_1.3.1-1.ca2004.1_all.deb Size: 234468 MD5sum: ea00b5d05a611bc20126f1215363dac0 SHA1: 4cba1b77d9bc6d1e65ab44de3c5bc45117c24d51 SHA256: 40ba35161954f2eb902ca901f864f945a517c939277f7e9b8890aa45aea95ebc SHA512: 4852c88d345600ec739e92a2fd76f18a5c0722b187a16d05526f490b6379d7a4808bdec6798dcf8aa4e7830508e1fecd471b4dbb0e826731f6b792cfaa002902 Homepage: https://cran.r-project.org/package=SCVA Description: CRAN Package 'SCVA' (Single-Case Visual Analysis) Make graphical representations of single case data and transform graphical displays back to raw data, as discussed in Bulte and Onghena (2013) . The package also includes tools for visually analyzing single-case data, by displaying central location, variability and trend. 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The classifier is trained using James-Stein-type shrinkage estimators and predictor variables are ranked using correlation-adjusted t-scores (CAT scores). Variable selection error is controlled using false non-discovery rates or higher criticism. Package: r-cran-sdaa Architecture: all Version: 0.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 694 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-survey, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-sdaa_0.1-5-1.ca2004.1_all.deb Size: 567140 MD5sum: 5cdaba54e2ef170ca858d8ae752416c5 SHA1: 102bbba39d9861a0f6dadfc538c2a84550b80a53 SHA256: b5324551d3aabb6424e1d0b45ac6c1cc32b7441f705aa4b7b298678ba8c8e1e8 SHA512: 18ab173c26c58149a13005017f83681fa49acc23b37824068197eb8dcf09179a1f62c45b2105e64c836a7a947da8d1aaec06afac375fe70fabea53f7ffa6f234 Homepage: https://cran.r-project.org/package=SDaA Description: CRAN Package 'SDaA' (Sampling: Design and Analysis) Functions and Datasets from Lohr, S. (1999), Sampling: Design and Analysis, Duxbury. Package: r-cran-sdafilter Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-glasso, r-cran-huge, r-cran-poet Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sdafilter_1.0.0-1.ca2004.1_all.deb Size: 20792 MD5sum: 04c219fe468f3fad201ecb3026a9e4b7 SHA1: 1519978ba43c9a44ef00010e937978bc1b92a460 SHA256: c54ee742f5bd9bd2a7074e0ad90f3ed7a967385748e36730d3114e0db13545b0 SHA512: 86f85dc14b98a9a1048930168caaac54b6f8a5d1f21d753ff10fff69ee673ef6e7669dd998e104d43deedadcdcfcbd59ef8a84b0e4ec75179448aa75e769e8c0 Homepage: https://cran.r-project.org/package=sdafilter Description: CRAN Package 'sdafilter' (Symmetrized Data Aggregation) We develop a new class of distribution free multiple testing rules for false discovery rate (FDR) control under general dependence. A key element in our proposal is a symmetrized data aggregation (SDA) approach to incorporating the dependence structure via sample splitting, data screening and information pooling. The proposed SDA filter first constructs a sequence of ranking statistics that fulfill global symmetry properties, and then chooses a data driven threshold along the ranking to control the FDR. For more information, see the website below and the accompanying paper: Du et al. (2020), "False Discovery Rate Control Under General Dependence By Symmetrized Data Aggregation", . 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It uses Monte Carlo Maximum Likelihood for model parameter estimation as proposed by Christensen (2004) and delivers prediction of spatially discrete and continuous relative risk. It performs inference for static spatial and spatio-temporal dataset. The details of the methods are provided in Johnson et al (2019) . 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All datasets analysed in these books are provided in this package. In addition, the package provides functions to compute sample statistics (variance, standard deviation, mode), create raincloud and enhanced Q-Q plots, and expand Anova results into omnibus tests and tests of individual contrasts. 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Package: r-cran-sdmodels Architecture: all Version: 1.0.13-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 556 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.tree, r-cran-diagrammer, r-cran-doparallel, r-cran-future.apply, r-cran-future, r-cran-ggplot2, r-cran-gpumatrix, r-cran-gridextra, r-cran-locatexec, r-cran-pbapply, r-cran-rdpack, r-cran-tidyr, r-cran-fda, r-cran-grplasso, r-cran-rlang Suggests: r-cran-plotly, r-cran-rpart, r-cran-knitr, r-cran-rmarkdown, r-cran-ranger, r-cran-hdclassif, r-cran-qpdf, r-cran-igraph, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sdmodels_1.0.13-1.ca2004.1_all.deb Size: 478840 MD5sum: 53a1196017af9b8df3ed6ca7d3e54bef SHA1: 8b5df037e3ae268aea63b61b167b3c4337ee2f8c SHA256: 6114a923543ebdb8ec8bdddecde661565348119b67f540ff954d8ebc872c18eb SHA512: c74f939c074c102b9c1c9c3d109717b40867d4acdfc0d472c590c817d92f2390d19d627249517d2391d0fe34b843bae55afdf48724d5d0bab67c5d8a5f449a7c Homepage: https://cran.r-project.org/package=SDModels Description: CRAN Package 'SDModels' (Spectrally Deconfounded Models) Screen for and analyze non-linear sparse direct effects in the presence of unobserved confounding using the spectral deconfounding techniques (Ćevid, Bühlmann, and Meinshausen (2020), Guo, Ćevid, and Bühlmann (2022) ). These methods have been shown to be a good estimate for the true direct effect if we observe many covariates, e.g., high-dimensional settings, and we have fairly dense confounding. Even if the assumptions are violated, it seems like there is not much to lose, and the deconfounded models will, in general, estimate a function closer to the true one than classical least squares optimization. 'SDModels' provides functions SDAM() for Spectrally Deconfounded Additive Models (Scheidegger, Guo, and Bühlmann (2025) ) and SDForest() for Spectrally Deconfounded Random Forests (Ulmer, Scheidegger, and Bühlmann (2025) ). Package: r-cran-sdmplay Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2235 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-dismo Suggests: r-cran-maptools, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-ncdf4, r-cran-rgdal, r-cran-sp, r-cran-rjava, r-cran-gbm Filename: pool/dists/focal/main/r-cran-sdmplay_2.0-1.ca2004.1_all.deb Size: 2188356 MD5sum: 9db15f0f6feed95c3a3b5153bda9d8aa SHA1: a76e2b744effa37dadbed555fd8da1496ec6eef2 SHA256: 9f4aa3188b4a6ba31701671a469b961006f7482d826c5624748fcbe5b1386f10 SHA512: e420b1aef677c3d24ec2d266fd6f6d8f5bbca445d7d2aac11d988793eec4542f99d82d3ca3bf63405ee9b3cf708b93d0bdfa7522d64e4c2e9b6732810cf966ea Homepage: https://cran.r-project.org/package=SDMPlay Description: CRAN Package 'SDMPlay' (Species Distribution Modelling Playground) Species distribution modelling (SDM) has been developed for several years to address conservation issues, assess the direct impact of human activities on ecosystems and predict the potential distribution shifts of invasive species (see Elith et al. 2006, Pearson 2007, Elith and Leathwick 2009). SDM relates species occurrences with environmental information and can predict species distribution on their entire occupied space. This approach has been increasingly applied to Southern Ocean case studies, but requires corrections in such a context, due to the broad scale area, the limited number of presence records available and the spatial and temporal aggregations of these datasets. SDMPlay is a pedagogic package that will allow you to compute SDMs, to understand the overall method, and to produce model outputs. The package, along with its associated vignettes, highlights the different steps of model calibration and describes how to choose the best methods to generate accurate and relevant outputs. SDMPlay proposes codes to apply a popular machine learning approach, BRT (Boosted Regression Trees) and introduces MaxEnt (Maximum Entropy). It contains occurrences of marine species and environmental descriptors datasets as examples associated to several vignette tutorials available at . Package: r-cran-sdmpredictors Architecture: all Version: 0.2.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1467 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-r.utils, r-cran-raster, r-cran-terra Suggests: r-cran-ggplot2, r-cran-reshape2, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-httr, r-cran-httr2 Filename: pool/dists/focal/main/r-cran-sdmpredictors_0.2.15-1.ca2004.1_all.deb Size: 1420340 MD5sum: 42317e52837d1672150929ccd6b15400 SHA1: aa599fb30fd7854e1a8d1db357b6f8021bfeeb28 SHA256: f470cb79f5c103d9264430ea0acb48e9d41b0ede192e6521fcb9c2e65930a1c3 SHA512: 5f5a8fb7ce00773bbf506062ce9b3278f4dc00a3073b7cfd35d416a5b4166c69b7d089a3bff6f791e33374c3c3a148cacb123833725c7c95a33efd5a5c91caa5 Homepage: https://cran.r-project.org/package=sdmpredictors Description: CRAN Package 'sdmpredictors' (Species Distribution Modelling Predictor Datasets) Terrestrial and marine predictors for species distribution modelling from multiple sources, including WorldClim ,, ENVIREM , Bio-ORACLE and MARSPEC . Package: r-cran-sdmvspecies Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1702 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-raster, r-cran-psych Suggests: r-cran-ggplot2, r-cran-testthat, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-sdmvspecies_0.3.2-1.ca2004.1_all.deb Size: 553000 MD5sum: e27321183eeb03b575ffddd2b36f3c30 SHA1: 23e62576df393f510b342163b71b082307e8959a SHA256: 944217c0ca634c06599ffe996250e9f328913d588080abae78468e27ae85a9be SHA512: c7ed02c0e59fcccdcdf72605d56bd490192a170919b879eab0225ecbba7c2bab311f3d3e3167ee9d20fa826655d92ce7698c3ed3a9d151476422c709852a1ff5 Homepage: https://cran.r-project.org/package=sdmvspecies Description: CRAN Package 'sdmvspecies' (Create Virtual Species for Species Distribution Modelling) A software package help user to create virtual species for species distribution modelling. It includes several methods to help user to create virtual species distribution map. Those maps can be used for Species Distribution Modelling (SDM) study. SDM use environmental data for sites of occurrence of a species to predict all the sites where the environmental conditions are suitable for the species to persist, and may be expected to occur. Package: r-cran-sdpdmod Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2396 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-plm, r-cran-rspectra, r-cran-sf, r-cran-sp, r-cran-spdep Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-splm Filename: pool/dists/focal/main/r-cran-sdpdmod_0.0.6-1.ca2004.1_all.deb Size: 1597940 MD5sum: 73dcc326175b6367894a1cd3471646f4 SHA1: 19917ef6d477b48637d5992853060b17c8e84a66 SHA256: 9477cceecbfbe74ff1fb14392819a18b2d8c125c877866e91f79859c0a82eb25 SHA512: 4e5b40f4bbad3aba10a49825e92dfd7afd863d12c5331ce8e90d61b7ae387000cc2a0a5b642dafe708c450de9c08b77eef4a77059a0dd163e03ec5f94efffbfd Homepage: https://cran.r-project.org/package=SDPDmod Description: CRAN Package 'SDPDmod' (Spatial Dynamic Panel Data Modeling) Spatial model calculation for static and dynamic panel data models, weights matrix creation and Bayesian model comparison. Bayesian model comparison methods were described by 'LeSage' (2014) . The 'Lee'-'Yu' transformation approach is described in 'Yu', 'De Jong' and 'Lee' (2008) , 'Lee' and 'Yu' (2010) and 'Lee' and 'Yu' (2010) . Package: r-cran-sdprior Architecture: all Version: 1.0-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 357 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gb2, r-cran-mass, r-cran-pscl, r-cran-mvtnorm, r-cran-mgcv, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-sdprior_1.0-0-1.ca2004.1_all.deb Size: 175512 MD5sum: d812351c8aacbbbeaa8c538a48f1bccc SHA1: 22cf68f2c9608bfa0571043443a0c85a7b2dd5fb SHA256: a214984d42e2d0db4eb3a5c268f76ab49854e7dc41a6f757f416b7aa16a68ff7 SHA512: 2144315d3f928829eca0b80a9fc8e0b82c259a85e2f0a7939d04889cb9e9e83b8e5248b700b46d7c4acc4381ceba30a1a13ced7d53d362d6638807f23314293b Homepage: https://cran.r-project.org/package=sdPrior Description: CRAN Package 'sdPrior' (Scale-Dependent Hyperpriors in Structured AdditiveDistributional Regression) Utility functions for scale-dependent and alternative hyperpriors. The distribution parameters may capture location, scale, shape, etc. and every parameter may depend on complex additive terms (fixed, random, smooth, spatial, etc.) similar to a generalized additive model. Hyperpriors for all effects can be elicitated within the package. Including complex tensor product interaction terms and variable selection priors. The basic model is explained in in Klein and Kneib (2016) . 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See package?SDT for an overview. Package: r-cran-sdtm.oak Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3062 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-admiraldev, r-cran-dplyr, r-cran-purrr, r-cran-tidyr, r-cran-rlang, r-cran-tibble, r-cran-vctrs, r-cran-stringr, r-cran-assertthat, r-cran-pillar, r-cran-cli Suggests: r-cran-knitr, r-cran-htmltools, r-cran-lifecycle, r-cran-magrittr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-dt, r-cran-readr Filename: pool/dists/focal/main/r-cran-sdtm.oak_0.2.0-1.ca2004.1_all.deb Size: 1673824 MD5sum: 335c5434ecbd4664fb353697064b6fb1 SHA1: b4d7246d8454da08003885b0244db134d9306ba8 SHA256: b9f2818b2263c4edbb8d097f39bde6e0a76b1a8aee3edd9f821122f73c405345 SHA512: 08fd2e2b365a67b288cf9e7a7964928230f658e05b1cc2f02e9e267c36a7a617ee885c557f8319b4de042fc9430cf64b5daa8ad3a859d8b134facb7549919308 Homepage: https://cran.r-project.org/package=sdtm.oak Description: CRAN Package 'sdtm.oak' (SDTM Data Transformation Engine) An Electronic Data Capture system (EDC) and Data Standard agnostic solution that enables the pharmaceutical programming community to develop Clinical Data Interchange Standards Consortium (CDISC) Study Data Tabulation Model (SDTM) datasets in R. The reusable algorithms concept in 'sdtm.oak' provides a framework for modular programming and can potentially automate the conversion of raw clinical data to SDTM through standardized SDTM specifications. SDTM is one of the required standards for data submission to the Food and Drug Administration (FDA) in the United States and Pharmaceuticals and Medical Devices Agency (PMDA) in Japan. SDTM standards are implemented following the SDTM Implementation Guide as defined by CDISC . Package: r-cran-sdtm.terminology Architecture: all Version: 2025-3-25-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2066 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-sdtm.terminology_2025-3-25-1.ca2004.1_all.deb Size: 1149128 MD5sum: 5bcc8022155ea6dea9ca7360a799cd8d SHA1: 4dbebe506bf2f11c6d99718ceeef06b933e937e6 SHA256: a51d072ae8b4c1c252a568f0f9edfa3bb47098ff4ffcf3b99535a0bd65742fae SHA512: e04ce4c00423644d19294edf8de690803520a9746e97ae52d36ce6bff7d6717292bd2735c542c31bb320cefa2b9c6b8d49bf8095d7ddd14caa2a5644a403f010 Homepage: https://cran.r-project.org/package=sdtm.terminology Description: CRAN Package 'sdtm.terminology' (CDISC SDTM Controlled Terminology) Clinical Data Interchange Standards Consortium (CDISC) Standard Data Tabulation Model (SDTM) controlled terminology, 2025-03-25. Source: . Package: r-cran-sdtmchecks Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1327 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyselect, r-cran-openxlsx Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-dt Filename: pool/dists/focal/main/r-cran-sdtmchecks_1.0.0-1.ca2004.1_all.deb Size: 750640 MD5sum: 20c1bc1d7ea55f806dfeaa1cdebb4067 SHA1: 988afe03a6d9e30046d1ecafb809dbc6ebcd4a37 SHA256: 7c58621eee40014854c91dd768cc087e1304b057d1c05b165454160906faf3ff SHA512: c6c5e0d610b909d17bc5ffe044b7a36248e3a6914c15f947213348967b5693a2e11adc63f7f036228c319cfd23d2c0bb2c747781531b421afa658b52cc11fda3 Homepage: https://cran.r-project.org/package=sdtmchecks Description: CRAN Package 'sdtmchecks' (Data Quality Checks for Study Data Tabulation Model (SDTM)Datasets) A series of checks to identify common issues in Study Data Tabulation Model (SDTM) datasets. 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Package: r-cran-sdtmval Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-haven, r-cran-knitr, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-readxl, r-cran-rlang, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sdtmval_0.4.1-1.ca2004.1_all.deb Size: 140156 MD5sum: 78a83cf969cceee8e4c6bb5fc42a0ced SHA1: bbe3a36c8100a2c8c9670fbbbe9bc4b6cd6cd204 SHA256: f0f873f8bf09f265ab55b5be1287934f95cbee9dbb2b2eb4346db7691baba9de SHA512: 1f7c6ca635e024f8457f78ae87a6ed50a9320e9f21a88e63e226a0df4e55717ef604ba9c08c1d8cc27c7d804c9a1e2a6bd9d083d10e08f9426a339cceb02065e Homepage: https://cran.r-project.org/package=sdtmval Description: CRAN Package 'sdtmval' (Validate SDTM Domains) Provides a set of tools to assist statistical programmers in validating Study Data Tabulation Model (SDTM) domain data sets. Statistical programmers are required to validate that a SDTM data set domain has been programmed correctly, per the SDTM Implementation Guide (SDTMIG) by 'CDISC' (), study specification, and study protocol using a process called double programming. Double programming involves two different programmers independently converting the raw electronic data cut (EDC) data into a SDTM domain data table and comparing their results to ensure accurate standardization of the data. One of these attempts is termed 'production' and the other 'validation'. Generally, production runs are the official programs for submittals and these are written in 'SAS'. Validation runs can be programmed in another language, in this case 'R'. Package: r-cran-se.eq Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-se.eq_1.0-1.ca2004.1_all.deb Size: 39376 MD5sum: 4b909e5411792088274c4cb7cbd24662 SHA1: 88f55b10281bea27fad331717cd824a784f173da SHA256: 4f4354eb947aac4cf7c6c45730356d66adf0e8524c4060659789f234b1078dbc SHA512: def5a0f7d74244bf7add6b72adeef651a8a4f51006e9f73370858b1d9b0a623c10dcbee590c4bda36450cc60f00b38acef4a00c9a2b96e6e7dfc222a5b3d90e5 Homepage: https://cran.r-project.org/package=SE.EQ Description: CRAN Package 'SE.EQ' (SE-Test for Equivalence) Implements the SE-test for equivalence according to Hoffelder et al. (2015) . The SE-test for equivalence is a multivariate two-sample equivalence test. Distance measure of the test is the sum of standardized differences between the expected values or in other words: the sum of effect sizes (SE) of all components of the two multivariate samples. The test is an asymptotically valid test for normally distributed data (see Hoffelder et al.,2015). The function SE.EQ() implements the SE-test for equivalence according to Hoffelder et al. (2015). The function SE.EQ.dissolution.profiles() implements a variant of the SE-test for equivalence for similarity analyses of dissolution profiles as mentioned in Suarez-Sharp et al.(2020) ). The equivalence margin used in SE.EQ.dissolution.profiles() is analogically defined as for the T2EQ approach according to Hoffelder (2019) ) by means of a systematic shift in location of 10 [\% of label claim] of both dissolution profile populations. SE.EQ.dissolution.profiles() checks whether the weighted mean of the differences of the expected values of both dissolution profile populations is statistically significantly smaller than 10 [\% of label claim]. The weights are built up by the inverse variances. Package: r-cran-sea Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7942 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-mass, r-cran-doparallel, r-cran-foreach, r-cran-kscorrect, r-cran-data.table Filename: pool/dists/focal/main/r-cran-sea_2.0.1-1.ca2004.1_all.deb Size: 7505684 MD5sum: 61ad1afe55461f4ab0177ef80d6815fe SHA1: 69b4f1282c8c3fb93c826a0eac5d339855b4f9b7 SHA256: 379576af2ef0570fce572612819d332de1ad9a7394b7372457599bf4a01230cb SHA512: cf98a7470a796720db97fe922d52e21f60be6e36fbc575b842c5f29df756c5d5d62d57fd844474b1fd73236a9823ef068a32c92a3b1a68c5ef394267aad676df Homepage: https://cran.r-project.org/package=SEA Description: CRAN Package 'SEA' (Segregation Analysis) A few major genes and a series of polygene are responsive for each quantitative trait. Major genes are individually identified while polygene is collectively detected. This is mixed major genes plus polygene inheritance analysis or segregation analysis (SEA). In the SEA, phenotypes from a single or multiple bi-parental segregation populations along with their parents are used to fit all the possible models and the best model of the trait for population phenotypic distributions is viewed as the model of the trait. There are fourteen types of population combinations available. Zhang Yuan-Ming, Gai Jun-Yi, Yang Yong-Hua (2003, ). Package: r-cran-seacarb Architecture: all Version: 3.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 737 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-oce, r-cran-gsw, r-cran-solvesaphe Filename: pool/dists/focal/main/r-cran-seacarb_3.3.3-1.ca2004.1_all.deb Size: 691568 MD5sum: bac58bf384b3dcbd242395faa614beaf SHA1: a1383c69452d7b809aca395b4bd7c2d1f5c9ce93 SHA256: 1c7c64768cdb062828c47645b625d20370fe558fa6449f408865078e953fab85 SHA512: 3b5eae94c03507dc3b2370b2be13a14be24533631dc9a1b9e30dde727b6b79dffbb6f32dda9579f606ab0789f78ea267512b720de88b6bdc82f12c679d82ac4e Homepage: https://cran.r-project.org/package=seacarb Description: CRAN Package 'seacarb' (Seawater Carbonate Chemistry) Calculates parameters of the seawater carbonate system and assists the design of ocean acidification perturbation experiments. Package: r-cran-seagle Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3094 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-compquadform Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-seagle_1.0.1-1.ca2004.1_all.deb Size: 480624 MD5sum: afb87347e802c59bb547ea921274ba96 SHA1: 8d923967d99da2345bf261534107fc1417e0c8c9 SHA256: 4c21e1409391db4d628bb9a3bee724b59f691e3824b998e653fcc95a564b940d SHA512: 40bf3d8a524d0af2824b38c2f3ad19116145ec10ae75d8bf78cd35186194ce260bc9c90fd4f0053d9c716d93cc60ed83ca4854ee3c3b7f71c8f4dfb4cb8bcb0a Homepage: https://cran.r-project.org/package=SEAGLE Description: CRAN Package 'SEAGLE' (Scalable Exact Algorithm for Large-Scale Set-BasedGene-Environment Interaction Tests) The explosion of biobank data offers immediate opportunities for gene-environment (GxE) interaction studies of complex diseases because of the large sample sizes and rich collection in genetic and non-genetic information. However, the extremely large sample size also introduces new computational challenges in GxE assessment, especially for set-based GxE variance component (VC) tests, a widely used strategy to boost overall GxE signals and to evaluate the joint GxE effect of multiple variants from a biologically meaningful unit (e.g., gene). We present 'SEAGLE', a Scalable Exact AlGorithm for Large-scale Set-based GxE tests, to permit GxE VC test scalable to biobank data. 'SEAGLE' employs modern matrix computations to achieve the same “exact” results as the original GxE VC tests, and does not impose additional assumptions nor relies on approximations. 'SEAGLE' can easily accommodate sample sizes in the order of 10^5, is implementable on standard laptops, and does not require specialized equipment. The accompanying manuscript for this package can be found at Chi, Ipsen, Hsiao, Lin, Wang, Lee, Lu, and Tzeng. (2021+) . 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Two files of horizontal and vertical currents flows are transformed into connectivity data in the form of sfnetwork, shapefile, edge list and adjacency matrix. An application example is shown at Nagkoulis et al. (2025) . 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Documentation about 'SEAHORS' is provided by the vignette included in this package and by the companion scientific paper: Royer, Discamps, Plutniak, Thomas (2023, PCI Archaeology, ). 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This new weight assignment strategy is especially useful when the collinearity of the design matrix is a concern. Package: r-cran-seamless Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3138 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-biobase, r-cran-ggplot2, r-cran-optparse, r-cran-data.table Suggests: r-cran-ggtern, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-seamless_0.1.1-1.ca2004.1_all.deb Size: 3161184 MD5sum: 532d64f3d1946f7059467a98e822190c SHA1: 87da01fba32cfee033f87d66bb11de4cf626a6e2 SHA256: 030cd195a3bc4da397b280a81d17532175e19f22ce7dca629c44dfcd62562da0 SHA512: 3e4b7e1f064d8a8a84b43465419f68ab11952d3eade71ebb664d854a01d9d82f6cce167d35ca134159665bbd0193c76bddd1f1748390bf79ee1fadd4ad7f8dcb Homepage: https://cran.r-project.org/package=seAMLess Description: CRAN Package 'seAMLess' (A Single Cell Transcriptomics Based Deconvolution Pipeline forLeukemia) Given a bulk transcriptomic (RNA-seq) sample of an Myeloid Leukemia patient calculates immune composition and drug resistance for different small-molecule inhibitors. Published in . Package: r-cran-searchconsoler Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-googleauthr, r-cran-stringr Suggests: r-cran-shiny, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-searchconsoler_0.4.0-1.ca2004.1_all.deb Size: 95504 MD5sum: d9af3b4e9dd7e71f01863b494139e436 SHA1: 23df4e9e19b1bac44050a0010af346b0eef1a93d SHA256: 187d2c646aa2e79aa0d4af12afd661716052a8f6be2c70631f8843d9909c0522 SHA512: a3a2bbfde99f0bb84589f297dd5fe93aa3bcd9d590286d9cd641de839f5ca6ffae211cff05f027c61e795358e606dd996fb6a29a153504a8accbc9fb611dd414 Homepage: https://cran.r-project.org/package=searchConsoleR Description: CRAN Package 'searchConsoleR' (Google Search Console R Client) Provides an interface with the Google Search Console, formally called Google Webmaster Tools. 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Upon searching, a browser window will open with the aforementioned search results. 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Package: r-cran-seasepi Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-mvtnorm, r-cran-ngspatial Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-seasepi_0.0.1-1.ca2004.1_all.deb Size: 137944 MD5sum: d986431bf6471a9700ebcede7b52e0df SHA1: 1470ff24fbe6a2e4093ebe56a50dffc0ae8404bc SHA256: b19fe6815b93295c5e13b2e7769fcc3c1ce0fbe441c43a13031e230c9b8e7d93 SHA512: b5b1204e81817d487212e63efd0c55004a94cedf91060d32278df61211a67e75fee7d555a55661d33ec705a63c13c3174b0583ff9af1182848050c1c4d34e44d Homepage: https://cran.r-project.org/package=SeasEpi Description: CRAN Package 'SeasEpi' (Spatiotemporal Modeling of Seasonal Infectious Disease) Spatiotemporal individual-level model of seasonal infectious disease transmission within the Susceptible-Exposed-Infectious-Recovered-Susceptible (SEIRS) framework are applied to model seasonal infectious disease transmission. This package employs a likelihood based Monte Carlo Expectation Conditional Maximization (MCECM) algorithm for estimating model parameters. In addition to model fitting and parameter estimation, the package offers functions for calculating AIC using real pandemic data and conducting simulation studies customized to user-specified model configurations. Package: r-cran-seasic Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seasic_0.1-1.ca2004.1_all.deb Size: 73396 MD5sum: db36f068503043aea780b47f591a4369 SHA1: 2ad4fb3d85d5eb659c4d3811ebdd0a2c8bed3c8e SHA256: 14495fd74d7aa54a42d991200033ccc4a56967cea2dd085488b0c13be777b113 SHA512: 4b1e0e8d1989267d5faf5e41ebd4c238f5713ad14b62086c67376a6c954398724d44598fdefb4679ac999a5bf1883ef5ab47966116150e418e03d7ca29fd4fb2 Homepage: https://cran.r-project.org/package=SEAsic Description: CRAN Package 'SEAsic' (Score Equity Assessment- summary index computation) This package conducts Score Equity Assessment (SEA; Dorans, 2004) by calculating and plotting multiple SEA indices as introduced by a variety of authors and summarized by Huggins and Penfield (2012). Package: r-cran-season Architecture: all Version: 0.3.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 650 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-mass, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-mgcv, r-cran-dlnm, r-cran-coda, r-cran-testthat Filename: pool/dists/focal/main/r-cran-season_0.3.15-1.ca2004.1_all.deb Size: 517200 MD5sum: 6715b5d9543932a4f09d883a4ff5bc2f SHA1: fe060fa3736521b2ab18a7f544bec4b0db6f97b7 SHA256: 70d1ade9f3ff98f526cdb452d54ed14941a548089c665f244c1d22015d841d7c SHA512: 5cbb3343d0671f74922e6f388d9e64bcd918649d9f7b4535c8b12d22112492f9464107f951d7bb6c2642661033fd2c36ac836749f916f940c0b67c90eb5a7727 Homepage: https://cran.r-project.org/package=season Description: CRAN Package 'season' (Seasonal Analysis of Health Data) Routines for the seasonal analysis of health data, including regression models, time-stratified case-crossover, plotting functions and residual checks, see Barnett and Dobson (2010) ISBN 978-3-642-10748-1. Thanks to Yuming Guo for checking the case-crossover code. Package: r-cran-seasonal Architecture: all Version: 1.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 701 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-x13binary Suggests: r-cran-seasonalview, r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-seasonal_1.10.0-1.ca2004.1_all.deb Size: 548652 MD5sum: 417be38eb94f856dab0cd5ac399eadaa SHA1: 754e397c612932fc6255526f805ef7f9b317d897 SHA256: 4e99c6338ae4f571a7a5ba39a0fd3f0260183e93123e3138147e384c257b47b8 SHA512: dec2e6357fb82a4190289224f174c71dc58edd619561baedd79dedb742a137ed74faa7a8b6766a43019ab1acabd703fea4d57b27b9ba95fc50f98716540a6180 Homepage: https://cran.r-project.org/package=seasonal Description: CRAN Package 'seasonal' (R Interface to X-13-ARIMA-SEATS) Easy-to-use interface to X-13-ARIMA-SEATS, the seasonal adjustment software by the US Census Bureau. It offers full access to almost all options and outputs of X-13, including X-11 and SEATS, automatic ARIMA model search, outlier detection and support for user defined holiday variables, such as Chinese New Year or Indian Diwali. A graphical user interface can be used through the 'seasonalview' package. Uses the X-13-binaries from the 'x13binary' package. Package: r-cran-seasonalclumped Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4548 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-gridextra, r-cran-ttr, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-seasonalclumped_0.3.2-1.ca2004.1_all.deb Size: 3619620 MD5sum: 2c781b54746303025642663829fb4e77 SHA1: 4980df5689ce1f4d4e02b15d6a0ee3c10cd57459 SHA256: ed98a5e03a829ae89ccd5e632d4b063e991eed46f47f34b6b6510fe36cb60b11 SHA512: 853fe6e3c104b9b4887f7ceef255df8032d8b4b1f91c54e48afdb3e7c8166dcdd46591d1467829e32a556802e883d3e0560e36e097cf9ee892acb3a03b4fe094 Homepage: https://cran.r-project.org/package=seasonalclumped Description: CRAN Package 'seasonalclumped' (Toolbox for Clumped Isotope Seasonality Reconstructions) Compiles a set of functions and dummy data that simplify reconstructions of seasonal temperature variability in the geological past from stable isotope and clumped isotope records in sub–annually resolved carbonate archives (e.g. mollusk shells, corals and speleothems). For more information, see de Winter et al., 2020 (Climate of the Past Discussions, ). Package: r-cran-seasonalityplot Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1028 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-quantmod, r-cran-dygraphs, r-cran-plotrix, r-cran-htmltools, r-cran-zoo, r-cran-lubridate, r-cran-crypto2, r-cran-ttr, r-cran-assertthat Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-seasonalityplot_1.3.1-1.ca2004.1_all.deb Size: 940076 MD5sum: c7b2745de048b3310941809563691900 SHA1: ac82223db5f19632da392d1f5940bab854427a3c SHA256: 0e908de07f43b9b570c562fb7d6e16cd11eff820ae10636b446f1110982e56c5 SHA512: 9963e83ae9cafddbcb896126ad6072e998d0dbcf415c71a88d7e662df14f7a34ad438e4a1bd5ef27d5e5c875cae3c122e659b113bda742582ac273437307e23d Homepage: https://cran.r-project.org/package=seasonalityPlot Description: CRAN Package 'seasonalityPlot' (Seasonality Variation Plots of Stock Prices and Cryptocurrencies) The price action at any given time is determined by investor sentiment and market conditions. Although there is no established principle, over a long period of time, things often move with a certain periodicity. This is sometimes referred to as anomaly. The seasonPlot() function in this package calculates and visualizes the average value of price movements over a year for any given period. In addition, the monthly increase or decrease in price movement is represented with a colored background. This seasonPlot() function can use the same symbols as the 'quantmod' package (e.g. ^IXIC, ^DJI, SPY, BTC-USD, and ETH-USD etc). Package: r-cran-seasonalview Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-seasonal, r-cran-shinydashboard, r-cran-shiny, r-cran-dygraphs, r-cran-htmlwidgets, r-cran-openxlsx, r-cran-xtable, r-cran-xts, r-cran-zoo Filename: pool/dists/focal/main/r-cran-seasonalview_1.0.0-1.ca2004.1_all.deb Size: 88328 MD5sum: 7c461d8ecfc8713189fcebce0fd9dd1d SHA1: 5b8ea58987ee192cd0098f1c40375c80ee11f5cb SHA256: 3b1983cc11ff96b14a4715ff3035faa63b78c23f286d6fd9c114f291a6e12062 SHA512: 5019fd365a1a664970ba218070752cad481e40ba32a5b0ad65f4ea7144f8fc1500c58f7a37bc0e3c67965e20bda8215a2d42193f8e4be1ac90214e31f12fc31a Homepage: https://cran.r-project.org/package=seasonalview Description: CRAN Package 'seasonalview' (Graphical User Interface for Seasonal Adjustment) A graphical user interface to the 'seasonal' package and 'X-13ARIMA-SEATS', the U.S. Census Bureau's seasonal adjustment software. 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Implementation is based in technical manuals, publications and patents, please refer to the following documents for more information: Barrick and Lipa (1999) ; CODAR Ocean Sensors (2002) ; Lipa et al. (2006) ; Paolo et al. (2007) ; CODAR Ocean Sensors (2009a) ; CODAR Ocean Sensors (2009b) ; CODAR Ocean Sensors (2016a) ; CODAR Ocean Sensors (2016b) ; CODAR Ocean Sensors (2016c) ; Bushnell and Worthington (2022) . 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Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2015 (available at ) and BRITO, C. C. R. Method Distributions generator and Probability Distributions Classes. 241 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2014 (available upon request). 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The primary data export the package works with is a standard non-rectangular export. Package: r-cran-sedproxy Architecture: all Version: 0.7.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3048 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mvtnorm, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sedproxy_0.7.6-1.ca2004.1_all.deb Size: 2411436 MD5sum: 07f992bcca77f1bebd2e3a1c03424b7a SHA1: 144ade9b8adff24cede852773add47ce754355c4 SHA256: 3b17b01e3b73087ee32f147a934f26610186e814734b9069aeeb30c4a1e79337 SHA512: 9e288f4cdc3eab473e38613e71b4d4e965c679949d2969f9500756f36e93e55c613d6da7a37e827634fe6197db6298bdd6d8e3402b5687d491d78ac60ab8965b Homepage: https://cran.r-project.org/package=sedproxy Description: CRAN Package 'sedproxy' (Simulation of Sediment Archived Climate Proxy Records) Proxy forward modelling for sediment archived climate proxies such as Mg/Ca, d18O or Alkenones. The user provides a hypothesised "true" past climate, such as output from a climate model, and details of the sedimentation rate and sampling scheme of a sediment core. Sedproxy returns simulated proxy records. Implements the methods described in Dolman and Laepple (2018) . Package: r-cran-see Architecture: all Version: 0.11.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 768 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayestestr, r-cran-correlation, r-cran-datawizard, r-cran-effectsize, r-cran-ggplot2, r-cran-insight, r-cran-modelbased, r-cran-patchwork, r-cran-parameters, r-cran-performance Suggests: r-cran-bh, r-cran-brms, r-cran-collapse, r-cran-curl, r-cran-dharma, r-cran-emmeans, r-cran-factoextra, r-cran-formula, r-cran-ggdag, r-cran-ggdist, r-cran-ggraph, r-cran-ggrepel, r-cran-ggridges, r-cran-ggside, r-cran-glmmtmb, r-cran-httr2, r-cran-lavaan, r-cran-lme4, r-cran-logspline, r-cran-marginaleffects, r-cran-mass, r-cran-mclogit, r-cran-mclust, r-cran-merderiv, r-cran-mgcv, r-cran-metafor, r-cran-nbclust, r-cran-nfactors, r-cran-psych, r-cran-qqplotr, r-cran-randomforest, r-cran-rcppeigen, r-cran-rlang, r-cran-rmarkdown, r-cran-rstanarm, r-cran-scales, r-cran-testthat, r-cran-tidygraph, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-see_0.11.0-1.ca2004.1_all.deb Size: 649568 MD5sum: 4e6ca229ff518b9e61361df4d69f9528 SHA1: 98589eac3c39ebb890d1e2a7ee3ad0ba26d88c25 SHA256: 46e17f978be47988a7b596dd6e73331d0408c894e13adfb4c8fa15f3744e6202 SHA512: afbb2ebc8132703321fb201256a28fd5cc4c8013a9631187dfcfb3995177dce17c0f00d016c86904dd26e114df51ae83943aec2e2ce28cb3cbe387bdf682f8eb Homepage: https://cran.r-project.org/package=see Description: CRAN Package 'see' (Model Visualisation Toolbox for 'easystats' and 'ggplot2') Provides plotting utilities supporting packages in the 'easystats' ecosystem () and some extra themes, geoms, and scales for 'ggplot2'. Color scales are based on . References: Lüdecke et al. (2021) . Package: r-cran-seeclickfixr Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-seeclickfixr_1.1.0-1.ca2004.1_all.deb Size: 49876 MD5sum: c7ccdf147dedf99aa72a69a45c983e02 SHA1: 658cd9ca1371ee560b1761f9a293bbf8d89d591f SHA256: d7abe9b881ee58144323599355eca4bfcd13f1e3004e6ca5ff71bb3dda09886c SHA512: d9157941319cde27655b49bf574575cd4c3509d749838c3fb0df2606f1d1bbfb630ea6511f5060756573fc077840f20d288f6bd2f798fb6fd773c8ff57528078 Homepage: https://cran.r-project.org/package=seeclickfixr Description: CRAN Package 'seeclickfixr' (Access Data from the SeeClickFix Web API) Provides a wrapper to access data from the SeeClickFix web API for R. SeeClickFix is a central platform employed by many cities that allows citizens to request their city's services. This package creates several functions to work with all the built-in calls to the SeeClickFix API. Allows users to download service request data from numerous locations in easy-to-use dataframe format manipulable in standard R functions. Package: r-cran-seecolor Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1677 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-crayon, r-cran-purrr, r-cran-stringr, r-cran-rstudioapi, r-cran-magrittr, r-cran-ggplot2, r-cran-fansi Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-seecolor_0.2.0-1.ca2004.1_all.deb Size: 1134316 MD5sum: aa346ee18c6c7d9215fa54eb0ca1f691 SHA1: 88f4a0901b5cc70e084afdab241e0c35b6edd777 SHA256: 29f9555989ce2588b92ca480594cd02dc7f246acdaa7b1efe1d7787e44049017 SHA512: 9d6ba4733e9ccfb485065e533853030fe51dc1fafa21d9cd84fe03ec18381b5c43816362789c30cc96d2cd97746d5e1d27325cbb9364cbd3c71c64d65988f971 Homepage: https://cran.r-project.org/package=seecolor Description: CRAN Package 'seecolor' (View Colors Used in R Objects in the Console) Output colors used in literal vectors, palettes and plot objects (ggplot). Package: r-cran-seedcalc Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seedcalc_1.0.0-1.ca2004.1_all.deb Size: 71712 MD5sum: 6d29f32f4abc3f890d7192e9ffe65acc SHA1: 86b8a5bf8d0615e5c688439e0472fd963a46caf5 SHA256: 9444c06b494195eb49e9ecdeeb0e5174069acddc82ce48bb37f79f2d203505d9 SHA512: 61dfe0bd1d173f1d9bbe49d9b88121fa141602034290892ecb0af641c4909dd675ef095b4141fbcbe6def19a73e11e99fed7ac31cc670a7dcb811cc791297fc7 Homepage: https://cran.r-project.org/package=SeedCalc Description: CRAN Package 'SeedCalc' (Seed Germination and Seedling Growth Indexes) Functions to calculate seed germination and seedling emergence and growth indexes. The main indexes for germination and seedling emergence, considering the time for seed germinate are: T10, T50 and T90, in Farooq et al. (2005) <10.1111/j.1744-7909.2005.00031.x>; and MGT, in Labouriau (1983). Considering the germination speed are: Germination Speed Index, in Maguire (1962), Mean Germination Rate, in Labouriau (1983); considering the homogeneity of germination are: Coefficient of Variation of the Germination Time, in Carvalho et al. (2005) <10.1590/S0100-84042005000300018>, and Variance of Germination, in Labouriau (1983); Uncertainty, in Labouriau and Valadares (1976) ; and Synchrony, in Primack (1980). The main seedling indexes are Growth, in Sako (2001), Uniformity, in Sako (2001) and Castan et al. (2018) ; and Vigour, in Medeiros and Pereira (2018) . Package: r-cran-seedcca Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 383 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-cca, r-cran-corpcor Filename: pool/dists/focal/main/r-cran-seedcca_3.1-1.ca2004.1_all.deb Size: 355036 MD5sum: bcedba0882bfc11296665005d5436abe SHA1: c14918a8f654db8a30589b3b49bb84d72ce71338 SHA256: 2289faf340aa3d589f49aa08e99d832aca44b2015bf95867b7d8939e155e365a SHA512: 33ca2007f1ebb6bb24945ff3163c48ca47828e266ca60f45c546a7b0ad06e35def558ebde0f041e47034abc4ecf994ce3f74528ce823f1ad9e062f04fc169b56 Homepage: https://cran.r-project.org/package=seedCCA Description: CRAN Package 'seedCCA' (Seeded Canonical Correlation Analysis) Functions for dimension reduction through the seeded canonical correlation analysis are provided. A classical canonical correlation analysis (CCA) is one of useful statistical methods in multivariate data analysis, but it is limited in use due to the matrix inversion for large p small n data. To overcome this, a seeded CCA has been proposed in Im, Gang and Yoo (2015) \doi{10.1002/cem.2691}. The seeded CCA is a two-step procedure. The sets of variables are initially reduced by successively projecting cov(X,Y) or cov(Y,X) onto cov(X) and cov(Y), respectively, without loss of information on canonical correlation analysis, following Cook, Li and Chiaromonte (2007) \doi{10.1093/biomet/asm038} and Lee and Yoo (2014) \doi{10.1111/anzs.12057}. Then, the canonical correlation is finalized with the initially-reduced two sets of variables. Package: r-cran-seedimbibition Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 40 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seedimbibition_0.1.0-1.ca2004.1_all.deb Size: 9828 MD5sum: 00ca1ed488cb2389ad2f331e111235c9 SHA1: 899ad725dab671876282a984a3cc2f44ce4d6db6 SHA256: 66162ce9f8dd122ef050a31739d797c04719ed3a0b12a513a16f73e235da4a72 SHA512: 2c128076fc6bb14151bfb0ebacf58d76d840469955ebaa3e42b5922380b925e50b9ac26c5a77df18c09d5559b8c6d9feb685b1e22da3125eb92d7971dc781e62 Homepage: https://cran.r-project.org/package=SeedImbibition Description: CRAN Package 'SeedImbibition' (Seed Imbibition Percentage) Imbibition causes seeds to expand, which results in the seed coat or testa being broken. Seed germination begins with imbibition. Imbibition aids in the transport of water into the developing ovules. Imbibition is required during the first stages of root water absorption. Package: r-cran-seedmaker Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 163 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-dplyr, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-devtools, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-usethis Filename: pool/dists/focal/main/r-cran-seedmaker_1.0.0-1.ca2004.1_all.deb Size: 43448 MD5sum: badb2a0aea1f80acc4e60e482571376d SHA1: f2e3089dbde9903119a546949c07ebe0ea36f4b5 SHA256: cde9ee5d13cee0803f819147708e093a203f177b15f3275ba38ad6e86cc9ef75 SHA512: 8de8aa9eb3a7351b15c4a5d6777f3acc2df93e94b93766e262e58ddb886a25d5891f82f6aa5c7c3d5df21422c506e9f77867bf1da8b933fae9490cecdf6b8ef0 Homepage: https://cran.r-project.org/package=SeedMaker Description: CRAN Package 'SeedMaker' (Generate a Collection of Seeds from a Single Seed) A mechanism for easily generating and organizing a collection of seeds from a single seed, which may be subsequently used to ensure reproducibility in processes/pipelines that utilize multiple random components (e.g., trial simulation). Package: r-cran-seedmatchr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1151 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-bioc-biostrings, r-bioc-ggmsa, r-bioc-msa, r-cran-ggplot2, r-bioc-annotationhub, r-bioc-genomeinfodb, r-bioc-genomicfeatures, r-cran-cowplot, r-cran-testit, r-cran-lifecycle, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-bioc-org.rn.eg.db Filename: pool/dists/focal/main/r-cran-seedmatchr_1.1.1-1.ca2004.1_all.deb Size: 575604 MD5sum: bf32593536aea6d44bbc56c9275f11f6 SHA1: a367822dda231bf6341d5ecc6e110c3cef9d8f7d SHA256: 520ff172705829840086bdc9a606bb52fb25d8fe7f9d7f0fbcbb1719d66da6ee SHA512: fc2fd72eb9e3d3cb371788541856e548d92642516b588b17f10de923993c11397de630451676683919941158f8773b1d7bc0d35819444ca53b7c067b5368fe54 Homepage: https://cran.r-project.org/package=SeedMatchR Description: CRAN Package 'SeedMatchR' (Find Matches to Canonical SiRNA Seeds in Genomic Features) On-target gene knockdown using siRNA ideally results from binding fully complementary regions in mRNA transcripts to induce cleavage. Off-target siRNA gene knockdown can occur through several modes, one being a seed-mediated mechanism mimicking miRNA gene regulation. Seed-mediated off-target effects occur when the ~8 nucleotides at the 5’ end of the guide strand, called a seed region, bind the 3’ untranslated regions of mRNA, causing reduced translation. Experiments using siRNA knockdown paired with RNA-seq can be used to detect siRNA sequences with potential off-target effects driven by the seed region. 'SeedMatchR' provides tools for exploring and detecting potential seed-mediated off-target effects of siRNA in RNA-seq experiments. 'SeedMatchR' is designed to extend current differential expression analysis tools, such as 'DESeq2', by annotating results with predicted seed matches. Using publicly available data, we demonstrate the ability of 'SeedMatchR' to detect cumulative changes in differential gene expression attributed to siRNA seed regions. Package: r-cran-seedr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-binom Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-seedr_0.3.0-1.ca2004.1_all.deb Size: 142680 MD5sum: 10ec21ffe1547b4460600366f5aca153 SHA1: 5a98a96ccb7c79bfaa79f51913c2212ace8e08dc SHA256: 018b668fed750c98c53ed8466f1594fdaa25ced07ac31e7de25135c20b43e154 SHA512: 03d8b8deabe515bbd9d9d172398541567c7099e4dad598ef11509c47ab184991e84bd4845901b74b0125314b98c797b98e8c8b26ec9f9cec84a121073a6c61d1 Homepage: https://cran.r-project.org/package=seedr Description: CRAN Package 'seedr' (Hydro and Thermal Time Seed Germination Models in R) Analysis of seed germination data using the physiological time modelling approach. Includes functions to fit hydrotime and thermal-time models with the traditional approaches of Bradford (1990) and Garcia-Huidobro (1982) . Allows to fit models to grouped datasets, i.e. datasets containing multiple species, seedlots or experiments. Package: r-cran-seedreg Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 416 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-drc, r-cran-ggplot2, r-cran-car, r-cran-crayon, r-cran-emmeans, r-cran-multcomp, r-cran-hnp, r-cran-boot, r-cran-multcompview, r-cran-stringr, r-cran-sf, r-cran-gridextra, r-cran-dplyr Suggests: r-cran-dt, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-seedreg_1.0.3-1.ca2004.1_all.deb Size: 286908 MD5sum: 9312a7271f8e1e2c5f674f7a19b87ef0 SHA1: e3f46011190bc6d4559b8b791ca0348df1d31f51 SHA256: 06b6361b49e4c5d0b5536527310b8384f75d7ef8b29620646400997de0820720 SHA512: e62910e3eefd9bc411828153b6279d68bdae6274677c98a9af9ce8edd5cd25d24d6a88078279eb56737b599c973a48213904c573d7fafa5b0134a7e9111b1e9a Homepage: https://cran.r-project.org/package=seedreg Description: CRAN Package 'seedreg' (Regression Analysis for Seed Germination as a Function ofTemperature) Regression analysis using common models in seed temperature studies, such as the Gaussian model (Martins, JF, Barroso, AAM, & Alves, PLCA (2017) ), quadratic (Nunes, AL, Sossmeier, S, Gotz, AP, & Bispo, NB (2018) ) and others with potential for use, such as those implemented in the 'drc' package (Ritz, C, Baty, F, Streibig, JC, & Gerhard, D (2015). ), in the estimation of the ideal and cardinal temperature for the occurrence of plant seed germination. The functions return graphs with the equations automatically. Package: r-cran-seeds Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 625 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-desolve, r-cran-pracma, r-cran-deriv, r-cran-ryacas, r-cran-mvtnorm, r-cran-matrixstats, r-cran-statmod, r-cran-coda, r-cran-mass, r-cran-ggplot2, r-cran-tidyr, r-cran-dplyr, r-cran-hmisc, r-cran-r.utils, r-cran-callr Suggests: r-cran-knitr, r-cran-rmarkdown, r-bioc-rsbml Filename: pool/dists/focal/main/r-cran-seeds_0.9.1-1.ca2004.1_all.deb Size: 429044 MD5sum: 778d5e8c7aa87b3a78a493b8a2dd848b SHA1: c5529ec19efd9a1364f95a4f95918809c7f7eba9 SHA256: f0ace46aca3695eec2d8e52284d0ddbc79da97c6222e3a228561b33e86876aad SHA512: c60f6ad62345bcd873711e14308a1cec4ebd4b12822926df9a45c3feea500d34137f691096878f5f31c5dcf495a8e053b549904b7916ef2780f6222a28b645c8 Homepage: https://cran.r-project.org/package=seeds Description: CRAN Package 'seeds' (Estimate Hidden Inputs using the Dynamic Elastic Net) Algorithms to calculate the hidden inputs of systems of differential equations. These hidden inputs can be interpreted as a control that tries to minimize the discrepancies between a given model and taken measurements. The idea is also called the Dynamic Elastic Net, as proposed in the paper "Learning (from) the errors of a systems biology model" (Engelhardt, Froelich, Kschischo 2016) . To use the experimental SBML import function, the 'rsbml' package is required. For installation I refer to the official 'rsbml' page: . Package: r-cran-seedvigorindex Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 40 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seedvigorindex_0.1.0-1.ca2004.1_all.deb Size: 9868 MD5sum: 1ea42be83980fa8286d6d7aa9fbb8c31 SHA1: be096102ae942a20e6406a8dfd95d839858c2897 SHA256: 9038f2fd2d1c2bb0d05083171dc6b4ce7bb1aeae468d1c4a6c750dbb6bbc86c5 SHA512: cf843e3e5721cad48335d57ab11584b6cddf50f5d52917af8eb3022ee3a8a036eb5d99063a6f750dd35aa571af38a443e6bdc2018a13a2ebd1f8d88175612336 Homepage: https://cran.r-project.org/package=SeedVigorIndex Description: CRAN Package 'SeedVigorIndex' (Seed Vigor Index) Seed vigor is defined as the sum total of those properties of the seed which determine the level of activity and performance of the seed or seed lot during germination and seedling emergence. Testing for vigor becomes more important for carryover seeds, especially if seeds were stored under unknown conditions or under unfavorable storage conditions. Seed vigor testing is also used as indicator of the storage potential of a seed lot and in ranking various seed lots with different qualities. The vigour index is calculated using the equation given by (Ling et al. 2014) . Package: r-cran-seeker Architecture: all Version: 1.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 259 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-affy, r-bioc-annotationdbi, r-cran-biocmanager, r-bioc-biomart, r-cran-checkmate, r-cran-curl, r-cran-data.table, r-cran-foreach, r-bioc-geoquery, r-cran-glue, r-cran-jsonlite, r-cran-qs, r-cran-r.utils, r-cran-rcurl, r-cran-readr, r-cran-sessioninfo, r-bioc-tximport, r-cran-withr, r-cran-yaml Suggests: r-bioc-arrayexpress, r-bioc-biobase, r-cran-doparallel, r-cran-knitr, r-bioc-org.mm.eg.db, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-seeker_1.1.6-1.ca2004.1_all.deb Size: 161168 MD5sum: 46ddb194e67ee6c247c8e186a0eb7787 SHA1: 93651c237fcb8330b85877f3092f2d3285950f0a SHA256: 3f51281579f2260822e073ec8793abe40d86f80fd0bb27f2471b156451f6dd15 SHA512: 5ea1724beeab72720f4eed21880c76f463a5bc4ebc3f2e4f947975a0dcc1279089c301c07f04b7f8671bb6c81855be25fc7b5088ba3199cf2f4ea3237d4a31f9 Homepage: https://cran.r-project.org/package=seeker Description: CRAN Package 'seeker' (Simplified Fetching and Processing of Microarray and RNA-SeqData) Wrapper around various existing tools and command-line interfaces, providing a standard interface, simple parallelization, and detailed logging. For microarray data, maps probe sets to standard gene IDs, building on 'GEOquery' Davis and Meltzer (2007) , 'ArrayExpress' Kauffmann et al. (2009) , Robust multi-array average 'RMA' Irizarry et al. (2003) , and 'BrainArray' Dai et al. (2005) . For RNA-seq data, fetches metadata and raw reads from National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA), performs standard adapter and quality trimming using 'TrimGalore' Krueger , performs quality control checks using 'FastQC' Andrews , quantifies transcript abundances using 'salmon' Patro et al. (2017) and potentially 'refgenie' Stolarczyk et al. (2020) , aggregates the results using 'MultiQC' Ewels et al. (2016) , maps transcripts to genes using 'biomaRt' Durinkck et al. (2009) , and summarizes transcript-level quantifications for gene-level analyses using 'tximport' Soneson et al. (2015) . Package: r-cran-seekr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-cli, r-cran-fs, r-cran-lifecycle, r-cran-purrr, r-cran-readr, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-seekr_0.1.3-1.ca2004.1_all.deb Size: 95116 MD5sum: 6c20b754981441a0aa0bf1b483bd46e2 SHA1: 4d2a8363e5c4e861cb41c78f1e3deba6ca0776f7 SHA256: f56038f0d06f9824e106de081e17adff55c31943d4a25ad843ced37079a12f92 SHA512: ed627db1ff16c41949a71f8da69992fc093f61862ac578663ef51da657b26fd2dc41daeb557dd926712a845b49f4889020cfb2fd2e35604cbc73d00ca9933686 Homepage: https://cran.r-project.org/package=seekr Description: CRAN Package 'seekr' (Extract Matching Lines from Matching Files) Provides a simple interface to recursively list files from a directory, filter them using a regular expression, read their contents, and extract lines that match a user-defined pattern. The package returns a dataframe containing the matched lines, their line numbers, file paths, and the corresponding matched substrings. Designed for quick code base exploration, log inspection, or any use case involving pattern-based file and line filtering. Package: r-cran-seer Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-urca, r-cran-forecast, r-cran-dplyr, r-cran-magrittr, r-cran-randomforest, r-cran-forectheta, r-cran-stringr, r-cran-tibble, r-cran-purrr, r-cran-future, r-cran-furrr, r-cran-tsfeatures Suggests: r-cran-testthat, r-cran-covr, r-cran-repmis, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tidyr, r-cran-mcomp, r-cran-ggally Filename: pool/dists/focal/main/r-cran-seer_1.1.8-1.ca2004.1_all.deb Size: 130940 MD5sum: 9408120fa670d180faf8d1c9155e4bb3 SHA1: 9c669cf6ebafb869cfff41b47e9fe1d3b0b708b7 SHA256: 7ce219b1845c2fc013643e9c44c49592753bdf85e8c3e3e67b01ebcc88c4d015 SHA512: eee57d58265fd3831826abd82cba301c7a182b3e3381f25075bb7e055538642ec9150e6a55f03d4b596ee20af7104229d40c9ed1dda93e001808cf096fa64246 Homepage: https://cran.r-project.org/package=seer Description: CRAN Package 'seer' (Feature-Based Forecast Model Selection) A novel meta-learning framework for forecast model selection using time series features. Many applications require a large number of time series to be forecast. Providing better forecasts for these time series is important in decision and policy making. We propose a classification framework which selects forecast models based on features calculated from the time series. We call this framework FFORMS (Feature-based FORecast Model Selection). FFORMS builds a mapping that relates the features of time series to the best forecast model using a random forest. 'seer' package is the implementation of the FFORMS algorithm. For more details see our paper at . Package: r-cran-seermapper2010east Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3482 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-seermapper2010east_1.2.5-1.ca2004.1_all.deb Size: 3534280 MD5sum: 5ca947ec39fb301a2ea6806d5ae32349 SHA1: fe32d46f6f43bf08e2c1dfc6466a333a0946b089 SHA256: f7e8e4a39f8a8eab59c888e1ed9a94d830625858ada2098a520c16ca3b29c1fc SHA512: c657849da156fb18db26dd59225fb76b477c42eba4862de2b37b234b477f935cb516e0515282f4f870c25db73f920e13ae8b7d01d319c1c5448be80622d33fae Homepage: https://cran.r-project.org/package=SeerMapper2010East Description: CRAN Package 'SeerMapper2010East' (Supplemental U.S. 2010 Census Tract Boundaries for 20 EasternStates (including DC and PR) without Registries for'SeerMapper') Provides supplemental 2010 census tract boundary package for 20 states without Seer Registries that are east of the Mississippi river for use with the 'SeerMapper' package. The data contained in this package is derived from U.S. Census data and is in public domain. Package: r-cran-seermapper2010regs Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3938 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-seermapper2010regs_1.2.5-1.ca2004.1_all.deb Size: 4002428 MD5sum: 2c15bfb7ced7e97df448b678a0badb0a SHA1: d410cbf9da0b9880af9b49b2d56bf6f53abc5890 SHA256: 296dd9b240113906e47703ebdd51475fe3fcd06dff2b5b14398665c8bfefc86c SHA512: be016e9aa752724800e720d1579090a15f567fea3975b60bc950bb1f1211b192a64c77cfa32f8689a3077fb57e59f24c98ba1d1dbe76fcb1c19d99a4875dff67 Homepage: https://cran.r-project.org/package=SeerMapper2010Regs Description: CRAN Package 'SeerMapper2010Regs' (Supplemental U.S. 2010 Census Tract Boundaries for 19 Stateswith Seer Registries for 'SeerMapper') Provides supplemental 2010 census tract boundaries of the 19 states containing Seer Registries for use with the 'SeerMapper' package. The data contained in this package is derived from U.S. 2010 Census data and is in public domain. Package: r-cran-seermapper2010west Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1927 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-seermapper2010west_1.2.5-1.ca2004.1_all.deb Size: 1944012 MD5sum: eb04ac7b993cee84e8ebbc31f475f4f8 SHA1: d9baafa378d15ebf4df8158f642265eec13802bd SHA256: c381f97028a24a5411f3b4dce7f749e0a9c9642d1f151661292e988b6549f65b SHA512: 685d57320199e74b3744bb355a32a5374657242691a48b8b41316d0c2de95147e7dd88ccd25fef8a53a278be7c5dc48b86f322b41e5564f4a6f47a971d620b18 Homepage: https://cran.r-project.org/package=SeerMapper2010West Description: CRAN Package 'SeerMapper2010West' (Supplemental U.S. 2010 Census Tract Boundaries for 13 WesternStates without Seer Registries for 'SeerMapper') Provides supplemental 2010 census tract boundaries for the 13 states without Seer Registries that are west of the Mississippi river for use with the 'SeerMapper' package. The data contained in this package is derived from U.S. 2010 Census data and is in public domain. Package: r-cran-seermapper Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4363 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maptools, r-cran-rcolorbrewer, r-cran-rgdal, r-cran-sp, r-cran-stringr, r-cran-seermapperregs, r-cran-seermappereast, r-cran-seermapperwest, r-cran-seermapper2010regs, r-cran-seermapper2010east, r-cran-seermapper2010west Filename: pool/dists/focal/main/r-cran-seermapper_1.2.5-1.ca2004.1_all.deb Size: 4368160 MD5sum: d3a28c251cf5a7dc74979c6620183eab SHA1: 45ab113e5227d44beb95d102f72823bd1d06a359 SHA256: 7937330eadfaa871dd3794b2c4c4c1078c4ce64b038af1c1385ba48f700f1777 SHA512: 8ec8ccb7c100871c496aa34dbd335a44500fc4a34159b993cb89da13519e5126c4847be5f02bb27a6d62b5ec9efbd5af1057050c264e4253ba00e4a9b8dd6a3e Homepage: https://cran.r-project.org/package=SeerMapper Description: CRAN Package 'SeerMapper' (A Quick Way to Map U.S. Rates and Data of U.S. States, Counties,Census Tracts, or Seer Registries using 2000 and 2010 U.S.Census Boundaries) Provides an easy way to map seer registry area rate data on a U.S. map. The U.S. data may be mapped at the state or state/county. U.S. Seer registry data may be mapped at the Seer registry area, Seer Registry area/county or Seer Registry area/county/census tract level. The function uses a calculated default categorization breakpoint list for 5 categories, when not breakpoint list is provided or the number of categories is specified by the user. A user provided break point list is limited to containing 5 values. The number of calculated categories may be from 3 to 11. The user provide the p-value for each area and request hatching over any areas with a p-value > 0.05. Other types of comparisons can be specified. If states or state/counties are used, the area identifier is the U.S. FIPS codes for states and counties, 2 digits and 5 digits respectfully. If the data is for U.S. Seer Registry areas, the Seer Registry area identifier used to link the data to the geographical area is a Seer Registry area abbreviation. See documentation for the list of acceptable Seer Registry area names and abbreviations. The state boundaries are overlaid all rate maps. The package contains the boundary data for state, county, Seer Registry areas, and census tracts for counties within a Seer registry area. The package support boundary data from the 2000 and 2010 U.S. Census. The SeerMapper package version contains the U.S. Census 2000 and 2010 boundary data for the regional, state, Seer Registry, and county levels. Six supplement packages contain the census tract boundary data. Copyrighted 2014, 2015, 2016, 2017, 2018 and 2019 by Pearson and Pickle. Package: r-cran-seermappereast Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3225 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-seermappereast_1.2.5-1.ca2004.1_all.deb Size: 3269372 MD5sum: 4704810b87c54b45b96e32990e1a56f3 SHA1: 0884e3b7eb9eb3554b03362acb869fe9021a448c SHA256: 33bf212087e9b05a19c70464fbe5dd21034d87013a47e41e01008f8030900b4e SHA512: ebe32b488825b60a70967f002f40486022c9f7c7c22611a2f98a6292c1f04938219e182d197dfc01c874c7355eef649730a1ff82f160e8182ea491c718a0ec1e Homepage: https://cran.r-project.org/package=SeerMapperEast Description: CRAN Package 'SeerMapperEast' (Supplemental U.S. 2000 Census Tract Boundaries for 20 States,District and Territory without Seer Registries that are East ofthe Mississippi River for Use with 'SeerMapper' Package) Provides supplemental 2000 census tract boundaries for the 20 states, district and territory without Seer Registries that are east of the Mississippi river for use with the 'SeerMapper' package. The data contained in this package is derived from U.S. Census data and is in the public domain. Package: r-cran-seermapperregs Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3768 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-seermapperregs_1.2.5-1.ca2004.1_all.deb Size: 3828892 MD5sum: a21826b72f2e238cd6ee94ced40b5494 SHA1: 385a38ff7148819f0e7bf1b485f3feb6f8577d92 SHA256: 9f9018a0d10c66c37cc618170560af6f9c9a552a0e1cca068d9951c4ea65c8bb SHA512: 9a289c6c013f4f6972c41cfcfe9e4f1bafe9d8ec8d9c06ee3443a6d93e317b0876cea23fd5a8be340826ab888c1fb4702a42a074abcb62e7724cac07c6dca363 Homepage: https://cran.r-project.org/package=SeerMapperRegs Description: CRAN Package 'SeerMapperRegs' (Supplemental U.S. 2000 Census Tract Boundaries for 19 Stateswith Seer Registries for 'SeerMapper') Provides supplemental 2000 census tract boundaries for the 19 states containing Seer Registries for use with the 'SeerMapper' package. The data contained in this package is derived from U.S. Census data and is in the public domain. Package: r-cran-seermapperwest Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1879 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-seermapperwest_1.2.5-1.ca2004.1_all.deb Size: 1894788 MD5sum: 8a00b03ef364dda24ddce51bf6c64c9d SHA1: cbb038adbf4bcfe515b0b10b2bedece9278543ff SHA256: 4269322d9d868a010b89d4f026edddebd06d6f1cbb06a3a020ce6f908760e3d6 SHA512: 56777a4901185dae0da0de64ed25cb1022b1cea5e8ea808eddf292d7d63acca0728df20b1810579fd36bc6d6100927130c7cc74fee145d66e7cd224be9310d2a Homepage: https://cran.r-project.org/package=SeerMapperWest Description: CRAN Package 'SeerMapperWest' (Supplemental U.S. 2000 Census Tract Boundaries for 13 WesternStates without Seer Registries for 'SeerMapper') Provides supplemental 2000 census tract boundaries for the 13 states without Seer Registries that are west of the Mississippi river for use with the 'SeerMapper' package. The data contained in this package is derived from U.S. 2000 Census data and is in the public domain. Updated to Alber Equal Area projection. Package: r-cran-seewave Architecture: all Version: 2.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3510 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tuner Suggests: r-cran-audio, r-cran-circlize, r-cran-factominer, r-cran-fftw, r-cran-ggplot2, r-cran-rgl, r-cran-rpanel, r-cran-phontools, r-cran-signal Filename: pool/dists/focal/main/r-cran-seewave_2.2.3-1.ca2004.1_all.deb Size: 3148500 MD5sum: 52d0a696a64cc2b1cc9a799a252a0d6d SHA1: ec89dc6982c03aceb3ae1f3119af944df8c8e2d6 SHA256: 05374b527833fcc23ff662a121c142c050abaaeeef6e784bd28fb3fccd360869 SHA512: 60c0ff75d8bbc233e360854390127670b8c0d30bb3c6f35ea03ef066a1bc578411146604d9ded4e1abce49d706522079a1eb205883739b258734d1b040b88b8a Homepage: https://cran.r-project.org/package=seewave Description: CRAN Package 'seewave' (Sound Analysis and Synthesis) Functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, entropy, cross correlation and autocorrelation, zero-crossing, dominant frequency, analytic signal, frequency coherence, 2D and 3D spectrograms and many other analyses. See Sueur et al. (2008) and Sueur (2018) . Package: r-cran-segcorr Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 625 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jointseg Filename: pool/dists/focal/main/r-cran-segcorr_1.2-1.ca2004.1_all.deb Size: 287452 MD5sum: 4010e2cb2322c3d8cfbe10435fad4851 SHA1: 0f84216d0896393a84f64f81109394f1be93aee3 SHA256: 9e17ba4a0ddd60e091016e10e953415092dce042e3ebc6a82a5e82d681c581d7 SHA512: 6d8bf93983a0d2fe9e633f9198a1deb86689104732ecb92d30d746b403ae96fe800bde553f0339b1528e993874257e3750803836e54723faf646ba883ac98ead Homepage: https://cran.r-project.org/package=SegCorr Description: CRAN Package 'SegCorr' (Detecting Correlated Genomic Regions) Performs correlation matrix segmentation and applies a test procedure to detect highly correlated regions in gene expression. Package: r-cran-segen Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-purrr, r-cran-ggplot2, r-cran-readr, r-cran-lubridate, r-cran-imputets, r-cran-fancova, r-cran-scales, r-cran-tictoc, r-cran-modeest, r-cran-moments, r-cran-greybox, r-cran-philentropy, r-cran-entropy, r-cran-rfast, r-cran-narray, r-cran-fastdummies Filename: pool/dists/focal/main/r-cran-segen_1.1.0-1.ca2004.1_all.deb Size: 60508 MD5sum: c92e5ac7cf8a07f477b664b2a5540ceb SHA1: 0d7b0c14c632c1eb95acb967e24733f1f37d4b5b SHA256: 6a867b4c5c614d111eb13d266bbb0924cb163b3fc521e6667102a8f6466febff SHA512: 9aa342f6c596bd0a7f41d750395ebb662697b997d5cd32c8b1cb449c3397e3f35a4b3ad6529c3a07ef24c581502e28770aeb4672b95be97585526ccc22fe5a3d Homepage: https://cran.r-project.org/package=segen Description: CRAN Package 'segen' (Sequence Generalization Through Similarity Network) Proposes an application for sequence prediction generalizing the similarity within the network of previous sequences. Package: r-cran-segenvineq Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-spdep, r-cran-oasisr, r-cran-outliers Filename: pool/dists/focal/main/r-cran-segenvineq_1.2-1.ca2004.1_all.deb Size: 52636 MD5sum: 1ce459b869112961749ac749c5a7b10d SHA1: 19ef9e55663971f40ec4541dfcb2fd7e70f83a85 SHA256: 1e1763ead61ad0175055441240333be1c5bdf3569b6695ddd29c74cf75d9f590 SHA512: bb7f36133e72f320ba070d2835960e3a3b2012249e9cccda6ead28f3e4e70cc079e3ad213d15d2672cfce3b87cb910bf5575b4c0b83c98f8665a76734da9f710 Homepage: https://cran.r-project.org/package=SegEnvIneq Description: CRAN Package 'SegEnvIneq' (Environmental Inequality Indices Based on Segregation Measures) A set of segregation-based indices and randomization methods to make robust environmental inequality assessments, as described in Schaeffer and Tivadar (2019) "Measuring Environmental Inequalities: Insights from the Residential Segregation Literature" . Package: r-cran-segmented Architecture: all Version: 2.1-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1427 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-nlme Filename: pool/dists/focal/main/r-cran-segmented_2.1-4-1.ca2004.1_all.deb Size: 1384204 MD5sum: cf1a81397607b74604f16066db109143 SHA1: d085efb583580748dbbb44d5a31dd6804abeae39 SHA256: 2f6e04451bc12da269500b910eac760a571afe7e3d001d8961471849d097c75c SHA512: 0a188229b29031c80af98935e87f1770a9a8915f3daaefc69ba0fd8b66ec47381beee6f5b562f73ecc16177ca1722e4fa380edf5aca8772789c0de3386fe7cce Homepage: https://cran.r-project.org/package=segmented Description: CRAN Package 'segmented' (Regression Models with Break-Points / Change-Points Estimation(with Possibly Random Effects)) Fitting regression models where, in addition to possible linear terms, one or more covariates have segmented (i.e., broken-line or piece-wise linear) or stepmented (i.e. piece-wise constant) effects. Multiple breakpoints for the same variable are allowed. The estimation method is discussed in Muggeo (2003, ) and illustrated in Muggeo (2008, ). An approach for hypothesis testing is presented in Muggeo (2016, ), and interval estimation for the breakpoint is discussed in Muggeo (2017, ). Segmented mixed models, i.e. random effects in the change point, are discussed in Muggeo (2014, ). Estimation of piecewise-constant relationships and changepoints (mean-shift models) is discussed in Fasola et al. (2018, ). Package: r-cran-segmetric Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1457 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sf, r-cran-magrittr, r-cran-units Suggests: r-cran-classint, r-cran-dplyr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-segmetric_0.3.0-1.ca2004.1_all.deb Size: 1435016 MD5sum: 90a9e64b450b085d93f1b35d82519504 SHA1: 8e4e7cb8d193e2131fb878a1fb4bd95eb8f89f90 SHA256: 0e363be2a8652ca2ad7eda62cec589a4784e8c4adffc39e8de9da9420e267ed7 SHA512: 139c2c2970dd8985d6330377ca02f0c1b4d158a8fc51d77edec3dcfc001ced7f2ad46233a39c70a59795383a52e3e074ea26dcb70ae6b5ccd965275d5e1389e1 Homepage: https://cran.r-project.org/package=segmetric Description: CRAN Package 'segmetric' (Metrics for Assessing Segmentation Accuracy for Geospatial Data) A system that computes metrics to assess the segmentation accuracy of geospatial data. These metrics calculate the discrepancy between segmented and reference objects, and indicate the segmentation accuracy. For more details on choosing evaluation metrics, we suggest seeing Costa et al. (2018) and Jozdani et al. (2020) . 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The package is straightforward through three steps: (1) data ordering (function OrdData()), (2) split-moving-window analysis (function SMW()) and (3) piecewise redundancy analysis (function pwRDA()). Relevant references include Cornelius and Reynolds (1991) and Legendre and Legendre (2012, ISBN: 9780444538697). 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This implementation supports custom penetrance values and liability classes, and allows visualisations and robustness analysis as presented in Ratajska et al. (2023) . See also the online app 'shinyseg', , which offers interactive segregation analysis with many additional features (Carrizosa et al. (2024) ). 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Package: r-cran-sehrnett Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 348 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dbi, r-cran-rsqlite, r-cran-magrittr, r-cran-tibble, r-cran-purrr, r-cran-dplyr Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sehrnett_0.1.0-1.ca2004.1_all.deb Size: 77136 MD5sum: 1b8ac2900791a218aa0b5cd982a01774 SHA1: 1596b944015f33760201084d6969308a9dcbb12c SHA256: 8511aaf66957023779ae0f42418eb4cd8473d35dd9910348ff4fc77c3e17b3df SHA512: 59e5677b779b94293f6490d468447d7bc4a3fa481e3a923451c6fc496becd15837b2d61c424bdec97f5dc03450b296209a7ec40e252086c234387ed197f28f5f Homepage: https://cran.r-project.org/package=sehrnett Description: CRAN Package 'sehrnett' (A Very Nice Interface to 'WordNet') A very nice interface to Princeton's 'WordNet' without 'rJava' dependency. 'WordNet' data is not included. 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Package: r-cran-seismic Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seismic_1.1-1.ca2004.1_all.deb Size: 91924 MD5sum: 3f483054f3a376c04560a3ed6b478394 SHA1: 034e78e74c83314fc678c132222a37b4dd788e9a SHA256: 80219808b27f672b31d3506a6d8b82cf8a7d2e605a04d1e93ba05d3066152dcd SHA512: 161794c50683a875822d922df9bf84795b2e453ecffdba37a387249986a623e36a41b89429031485a980604ced835eb62b08f0e13abb23005740ada33fce353b Homepage: https://cran.r-project.org/package=seismic Description: CRAN Package 'seismic' (Predict Information Cascade by Self-Exciting Point Process) An implementation of self-exciting point process model for information cascades, which occurs when many people engage in the same acts after observing the actions of others (e.g. post resharings on Facebook or Twitter). 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The package was developed as a result of an internship in MI2 Group - , Faculty of Mathematics and Information Science, Warsaw University of Technology. Package: r-cran-sejong Architecture: all Version: 0.01-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1612 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sejong_0.01-1.ca2004.1_all.deb Size: 1618712 MD5sum: 583018956005198a6b208f10d4b3b2dd SHA1: 9ae0bfca7f94aca16213562be3fcc4dde1e0761b SHA256: 6f1ab5d4bb4f6e79e5cddad2abca995f4e95a8a3ba73197607c73c5748bd7c10 SHA512: 7b18e6b6ad58549dbcd7f636db6de7634de3a143b085944c0135e85065f8dbf9c5c5bfd2b8cb8ad5d15ba871668fc3d750f102b074849ca02951c25b59c1b9c0 Homepage: https://cran.r-project.org/package=Sejong Description: CRAN Package 'Sejong' (KoNLP static dictionaries and Sejong project resources) Sejong(http://www.sejong.or.kr/) corpus and Hannanum(http://semanticweb.kaist.ac.kr/home/index.php/HanNanum) dictionaries for KoNLP Package: r-cran-selcorr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-selcorr_1.0-1.ca2004.1_all.deb Size: 20168 MD5sum: 29e38daaec01f30b53b2dafb2095db97 SHA1: 52d067acab04800f302c2b6c70259f32b7e74f67 SHA256: 5c3ae08ba1b3e50a739947bb026d0b9809e1bf85010c3f33b03ea49166e9eb34 SHA512: a0abf9c5a437976f649fe18e42e5cec9cc106fd01145712d7a6acd9fdf381c9487bc9e09a5f36396b6125fb4e7ae9bae5a9411a5ec6f879f708aca6e8ad2ed43 Homepage: https://cran.r-project.org/package=selcorr Description: CRAN Package 'selcorr' (Post-Selection Inference for Generalized Linear Models) Calculates (unconditional) post-selection confidence intervals and p-values for the coefficients of (generalized) linear models. Package: r-cran-select Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 305 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rsolnp, r-cran-latticeextra, r-cran-lattice, r-cran-ade4, r-cran-fd Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-select_1.4-1.ca2004.1_all.deb Size: 167680 MD5sum: 0f7c17be1050feb92d8581f2ee42ace6 SHA1: f303ea6d9505e33f8323fc445ebc27e939238b7f SHA256: dc0cfa2142fd70cb5758bbbbfcef8f2a3caaffd072ef01cc740d9a2e6bffdb73 SHA512: 88c51dc405d871f845871ca5750ae21e0a17c9d9312c1bf8b919dddced9e506bfbde0c8c4a9dbcf4bba6853c2a2a6d77170fa5e5f1b5072adfafd5d76fde5cdd Homepage: https://cran.r-project.org/package=Select Description: CRAN Package 'Select' (Determines Species Probabilities Based on Functional Traits) The objective of these functions is to derive a species assemblage that satisfies a functional trait profile. Restoring resilient ecosystems requires a flexible framework for selecting assemblages that are based on the functional traits of species. However, current trait-based models have been limited to algorithms that can only select species by optimising specific trait values, and could not elegantly accommodate the common desire among restoration ecologists to produce functionally diverse assemblages. We have solved this problem by applying a non-linear optimisation algorithm that optimises Rao Q, a closed-form functional trait diversity index that incorporates species abundances, subject to other linear constraints. This framework generalises previous models that only optimised the entropy of the community, and can optimise both functional diversity and entropy simultaneously. This package can also be used to generate experimental assemblages to test the effects of community-level traits on community dynamics and ecosystem function. The method is based on theory discussed in Laughlin (2014, Ecology Letters) . Package: r-cran-selectapref Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-selectapref_0.1.2-1.ca2004.1_all.deb Size: 14956 MD5sum: 0ad13d0b44915f35472758369ec832ef SHA1: 1142434cdac38400de90e0c97b9b7a30c4c17a46 SHA256: a79debc44234d2c951d2db28797e60b05515fd175bdddb7de456009746193fd9 SHA512: ea1500ff9a380c022ba86f47b94674c1cd65ff825997ccc192619b765fd4e7cd0a699b4e5f9e8c32d4c2a4fb0f7c8e709a3bfac83f8c03534f7283cf06a73043 Homepage: https://cran.r-project.org/package=selectapref Description: CRAN Package 'selectapref' (Analysis of Field and Laboratory Foraging) Provides indices such as Manly's alpha, foraging ratio, and Ivlev's selectivity to allow for analysis of dietary selectivity and preference. Can accommodate multiple experimental designs such as constant prey number of prey depletion. Please contact the package maintainer with any publications making use of this package in an effort to maintain a repository of dietary selections studies. 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This algorithm is based on highly intensive simulations and takes into account the correlation structure of the data. It can either produce a confidence index for variable selection or it can be used in an experimental design planning perspective. Package: r-cran-selection.index Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-markdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-selection.index_1.2.0-1.ca2004.1_all.deb Size: 49552 MD5sum: 3dc63ce1778f53cbc9aed6c89cd6701b SHA1: 96713704b122a08a9ce23a867218d3569ee3ce86 SHA256: 9831af45ec2764bcae25dfde58df86a91333e26cb4c7b87b20d0825a841521dc SHA512: 02c7e65fc49a6f3c56f4b9d0e1a75eea0b4446a7b3e6cf04f0d894ea26ebce3b4181a235b8647e4bd5c63b081ce8b870cf287d049a4b0eb17abb9bb46752a57e Homepage: https://cran.r-project.org/package=selection.index Description: CRAN Package 'selection.index' (Analysis of Selection Index in Plant Breeding) The aim of most plant breeding programmes is simultaneous improvement of several characters. An objective method involving simultaneous selection for several attributes then becomes necessary. It has been recognised that most rapid improvements in the economic value is expected from selection applied simultaneously to all the characters which determine the economic value of a plant, and appropriate assigned weights to each character according to their economic importance, heritability and correlations between characters. So the selection for economic value is a complex matter. If the component characters are combined together into an index in such a way that when selection is applied to the index, as if index is the character to be improved, most rapid improvement of economic value is expected. Such an index was first proposed by Smith (1937 ) based on the Fisher's (1936 ) "discriminant function" Dabholkar (1999 ). In this package selection index is calculated based on the Smith (1937) selection index method. Package: r-cran-selectionbias Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 382 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-arm, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-table1, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-selectionbias_2.0.0-1.ca2004.1_all.deb Size: 215624 MD5sum: a08510f7c12970eb6a7a84ec17eb7541 SHA1: 37b048fdcc85acbe65c0f5f81c9edfb67dc36b64 SHA256: c04ad62fc5069fe0ad084615c33aeeb9094ab147207bc427a03524fd5cadec5d SHA512: 06a0918bc827c3557586a31478ec045a0fa89c9230c2bb47881db5d333c3809d4b49bcf9aa289e09057c8ad087607b4f98f2c7fa8a8e6697653646b072c04552 Homepage: https://cran.r-project.org/package=SelectionBias Description: CRAN Package 'SelectionBias' (Calculates Bounds for the Selection Bias for Binary Treatmentand Outcome Variables) Computes bounds and sensitivity parameters as part of sensitivity analysis for selection bias. Different bounds are provided: the SV (Smith and VanderWeele), AF (assumption-free) bound, GAF (generalized AF), and CAF (counterfactual AF) bounds. The calculation of the sensitivity parameters for the SV and GAF bounds assume an additional dependence structure in form of a generalized M-structure. The bounds can be calculated for any structure as long as the necessary assumptions hold. See Smith and VanderWeele (2019) , Zetterstrom and Waernbaum (2022) and Zetterstrom (2024) . Package: r-cran-selectiongain Architecture: all Version: 2.0.710-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-selectiongain_2.0.710-1.ca2004.1_all.deb Size: 229384 MD5sum: c55e8ecf69514f70d321200950ed26bf SHA1: a4b08746227cdcda5a6eee87fc8e195d061a461a SHA256: bf4a149caf9eb1c675a1c258d14076c4fa24edb4be6defccefabeaa9cafafd47 SHA512: 0de03269c72361dba8de0dc3ef6a4b9c9f9b5fbc3d063e3a1c6b3b52a7a97743f52148074bb37cbce914e0ac0adffb23ca09286c79a66466d82b3d3a7090e560 Homepage: https://cran.r-project.org/package=selectiongain Description: CRAN Package 'selectiongain' (A Tool for Calculation and Optimization of the Expected Gainfrom Multi-Stage Selection) Multi-stage selection is practiced in numerous fields of life and social sciences and particularly in breeding. A special characteristic of multi-stage selection is that candidates are evaluated in successive stages with increasing intensity and effort, and only a fraction of the superior candidates is selected and promoted to the next stage. For the optimum design of such selection programs, the selection gain plays a crucial role. It can be calculated by integration of a truncated multivariate normal (MVN) distribution. While mathematical formulas for calculating the selection gain and the variance among selected candidates were developed long time ago, solutions for numerical calculation were not available. This package can also be used for optimizing multi-stage selection programs for a given total budget and different costs of evaluating the candidates in each stage. Package: r-cran-selectmeta Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-deoptim Filename: pool/dists/focal/main/r-cran-selectmeta_1.0.9-1.ca2004.1_all.deb Size: 88480 MD5sum: 837613ca7b5d765dc9d3a3db079eae14 SHA1: c45cd3414b2b9a3ad510d70aa94d2627f4b6ea26 SHA256: 46a9b8925926edc6952a6c3df51cfef37cd47f4f0df1779e88dd77e897f4172e SHA512: ea68bbb37b949516e2de08d88260244da03fb83ff1257da084860859f9f7f2338ffe4d5855af45d6a70d7171423dcfc1e8060fc2f7cb1541bc50e7e321e67e96 Homepage: https://cran.r-project.org/package=selectMeta Description: CRAN Package 'selectMeta' (Estimation of Weight Functions in Meta Analysis) Publication bias, the fact that studies identified for inclusion in a meta analysis do not represent all studies on the topic of interest, is commonly recognized as a threat to the validity of the results of a meta analysis. One way to explicitly model publication bias is via selection models or weighted probability distributions. In this package we provide implementations of several parametric and nonparametric weight functions. The novelty in Rufibach (2011) is the proposal of a non-increasing variant of the nonparametric weight function of Dear & Begg (1992). The new approach potentially offers more insight in the selection process than other methods, but is more flexible than parametric approaches. To maximize the log-likelihood function proposed by Dear & Begg (1992) under a monotonicity constraint we use a differential evolution algorithm proposed by Ardia et al (2010a, b) and implemented in Mullen et al (2009). In addition, we offer a method to compute a confidence interval for the overall effect size theta, adjusted for selection bias as well as a function that computes the simulation-based p-value to assess the null hypothesis of no selection as described in Rufibach (2011, Section 6). Package: r-cran-selectr Architecture: all Version: 0.4-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 544 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-r6 Suggests: r-cran-testthat, r-cran-xml, r-cran-xml2 Filename: pool/dists/focal/main/r-cran-selectr_0.4-2-1.ca2004.1_all.deb Size: 400088 MD5sum: 4fc908461ca58b59ab19bf74a496c0cb SHA1: bd2fb84f412d41304b94cb9f4cbf53d67ea73588 SHA256: 71adfd016f22282323c33cfe5e79a0682b69d8403bcd195f1e5fbddb656719bd SHA512: 9b0f1b46522454346aceac93b177ac9f7ab862343e63164a49b5687d988c4d425dcd5032c2c58e050d9e8240d5a4ce21aa5a44e3949679dfe9537e7286a6916f Homepage: https://cran.r-project.org/package=selectr Description: CRAN Package 'selectr' (Translate CSS Selectors to XPath Expressions) Translates a CSS3 selector into an equivalent XPath expression. This allows us to use CSS selectors when working with the XML package as it can only evaluate XPath expressions. 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It is detailed at . This package provides an R client implementing the W3C specification. Package: r-cran-selfea Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pwr, r-cran-mass, r-cran-plyr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-selfea_1.0.1-1.ca2004.1_all.deb Size: 87448 MD5sum: b68d9dd2a1aa345e1900c0ec3ee32232 SHA1: ccd378515152a104795c951c9f2c33c7cc277813 SHA256: cb70c39c7b19278332151c05ee2c5fd7c1281c88cc6c2d57228ce4c7c614b3b9 SHA512: 98cc2aeb3372d725ec585535eb265285c9abc1f673b074ba983826f9a937f2a837a67c6b7ca7741c016880d35cfe4bf49910df3da073fadd307224f3f7a8b846 Homepage: https://cran.r-project.org/package=selfea Description: CRAN Package 'selfea' (Select Features Reliably with Cohen's Effect Sizes) Functions using Cohen's effect sizes (Cohen, Jacob. Statistical power analysis for the behavioral sciences. Academic press, 2013) are provided for reliable feature selection in biology data analysis. In addition to Cohen's effect sizes, p-values are calculated and adjusted from quasi-Poisson GLM, negative binomial GLM and Normal distribution ANOVA. Significant features (genes, RNAs or proteins) are selected by adjusted p-value and minimum Cohen's effect sizes, calculated to keep certain level of statistical power of biology data analysis given p-value threshold and sample size. Package: r-cran-selfingtree Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1166 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach Filename: pool/dists/focal/main/r-cran-selfingtree_0.2-1.ca2004.1_all.deb Size: 1147012 MD5sum: dfb84ac085a24550bee2f4c978d6de70 SHA1: fa1e716d79fde0a521ef992bdf5308fa41da6354 SHA256: 853b0bd37b5445935b6cef18bfcb1ffd567ebdd3ef36348460c07a19f1c86045 SHA512: 814f88b6d2991cd2f2f7aa408d796f0b72f478c429189ec3ff2141351db8660b06c179b677e3e5909f9f4de39d87d38d9b8003d493d0ed4635ac3be8c367d535 Homepage: https://cran.r-project.org/package=selfingTree Description: CRAN Package 'selfingTree' (Genotype Probabilities in Intermediate Generations of InbreedingThrough Selfing) A probability tree allows to compute probabilities of complex events, such as genotype probabilities in intermediate generations of inbreeding through recurrent self-fertilization (selfing). This package implements functionality to compute probability trees for two- and three-marker genotypes in the F2 to F7 selfing generations. The conditional probabilities are derived automatically and in symbolic form. The package also provides functionality to extract and evaluate the relevant probabilities. Package: r-cran-selindrix Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-psych Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-selindrix_0.1.2-1.ca2004.1_all.deb Size: 68292 MD5sum: 97b09eee177696fd9f4f415847abd6f8 SHA1: 9750d2aa144f231e1f40b72d5a869a1b32effba4 SHA256: c56bbb55df45181935c178b57e71499f9e009960106d45236719c145a7d3036c SHA512: a1e9a76087767b301d7726903049d6f4f2dd933dc4555eee242eed840f3c070e5cdc76f69df1692e7483cf063884b498497ef56e98a64db96068e3c4b2ed1531 Homepage: https://cran.r-project.org/package=seliNDRIx Description: CRAN Package 'seliNDRIx' (Construction of Selection Index) Selection index is one of the efficient and acurrate method for selection of animals. This package is useful for construction of selection indices. It uses mixed and random model least squares analysis to estimate the heritability of traits and genetic correlation between traits. The package uses the sire model as it is considered as random effect. The genetic and phenotypic (co)variances along with the relative economic values are used to construct the selection index for any number of traits. It also estimates the accuracy of the index and the genetic gain expected for different traits. Fisher (1936) . Package: r-cran-semantic.assets Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 35187 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-htmlwidgets Suggests: r-cran-shiny, r-cran-shiny.semantic Filename: pool/dists/focal/main/r-cran-semantic.assets_1.1.0-1.ca2004.1_all.deb Size: 2311768 MD5sum: f5aabf293c952c1c62aaef8b9a00f326 SHA1: de344457861b0c7450175e21dedc7c89e1970647 SHA256: 3aac1e6b223133d971e14a5e0352f27fd3677b4b8e275c8ac3e56425f8705de0 SHA512: b87703954d88bc22cc94205155b0bf06dd8e60a95c611937b3b43d481e941f91a6522547f7485b78ad3b926f5ce682de655f5131b5679488ca497fbb4ac1a78f Homepage: https://cran.r-project.org/package=semantic.assets Description: CRAN Package 'semantic.assets' (Assets for 'shiny.semantic') Style sheets and JavaScript assets for 'shiny.semantic' package. 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Package: r-cran-semblance Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fields, r-cran-performanceanalytics, r-cran-desctools, r-cran-msos Suggests: r-cran-kernlab Filename: pool/dists/focal/main/r-cran-semblance_1.1.0-1.ca2004.1_all.deb Size: 33208 MD5sum: 5062a43f7f77f290790c8952d789e398 SHA1: c166fc724200f04c652cb0139fbbd00bc9279e8d SHA256: f4d4be71df4bfbf5e318d235ce236aa502a8ddba8ec6b8f1f2ccb7ad7e9e1335 SHA512: bce021349804f114240052413d8b64f1b9b9bd70fb617a062a2a070f4ea128ead90ebc116be7b5d6f6c855539eee4ed0706421c40979660af753228fb10c28f9 Homepage: https://cran.r-project.org/package=Semblance Description: CRAN Package 'Semblance' (A Data-Driven Similarity Kernel on Probability Spaces) We present a rank-based Mercer kernel to compute a pair-wise similarity metric corresponding to informative representation of data. We tailor the development of a kernel to encode our prior knowledge about the data distribution over a probability space. The philosophical concept behind our construction is that objects whose feature values fall on the extreme of that feature’s probability mass distribution are more similar to each other, than objects whose feature values lie closer to the mean. Semblance emphasizes features whose values lie far away from the mean of their probability distribution. The kernel relies on properties empirically determined from the data and does not assume an underlying distribution. The use of feature ranks on a probability space ensures that Semblance is computational efficacious, robust to outliers, and statistically stable, thus making it widely applicable algorithm for pattern analysis. The output from the kernel is a square, symmetric matrix that gives proximity values between pairs of observations. 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Currently supports models fitted by the 'lavaan' package by Rosseel (2012) . 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This package also includes functions for importing, weight, manipulate, and fit biological network models within the Structural Equation Modeling framework as outlined in the Supplementary Material of Grassi M, Palluzzi F, Tarantino B (2022) . 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Most of them are time-saving functions for common tasks in doing structural equation modeling and reading the output. This package is not for functions that implement advanced statistical procedures. It is a light-weight package for simple functions that do simple tasks conveniently, with as few dependencies as possible. 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Package: r-cran-semicmprskcoxmsm Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-survival, r-cran-twang, r-cran-fastghquad, r-cran-rcpp Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-semicmprskcoxmsm_0.2.0-1.ca2004.1_all.deb Size: 115264 MD5sum: c449b9b4f316f454b8af7ab392fee438 SHA1: 5aec6e395bdcf5a92aba5cd5c53b475c9d649bb7 SHA256: 14186c953eaedd7ccb36d8b31c4ac93f51c1091399d9eb1b2ef9725547436885 SHA512: 46e26648722301226212ab6dc2d4c165941ab52707784ecb7945c39cbbcb4f452667e35136c7063efb528ba2f75f4fa0e32a404368b86e253ee466f4dc42fa3e Homepage: https://cran.r-project.org/package=semicmprskcoxmsm Description: CRAN Package 'semicmprskcoxmsm' (Use Inverse Probability Weighting to Estimate Treatment Effectfor Semi Competing Risks Data) Use inverse probability weighting methods to estimate treatment effect under marginal structure model (MSM) for the transition hazard of semi competing risk data, i.e. illness death model. We implement two specific such models, the usual Markov illness death structural model and the general Markov illness death structural model. We also provide the predicted three risks functions from the marginal structure models. Zhang, Y. and Xu, R. (2022) . 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Package: r-cran-semid Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 405 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-r.oo, r-cran-r.methodss3, r-cran-igraph, r-cran-r.utils Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-semid_0.4.1-1.ca2004.1_all.deb Size: 334524 MD5sum: c83fa14b4871f2b413744509c9cdc63d SHA1: 028154e95e3ab1e231146b3694de969e2089d2da SHA256: faa5ef3b0674fc8c355c6f0b3040555b73ef95cb893df471c10a03f30710e2c2 SHA512: ab3923a2cd8afafe1a8f103816a2a74d915a094ae3b549499ffe64b569d9f7097858da840690618b8d78383ae9d3aad9c8b41c8beb5f3300409b38c0d4065d9d Homepage: https://cran.r-project.org/package=SEMID Description: CRAN Package 'SEMID' (Identifiability of Linear Structural Equation Models) Provides routines to check identifiability or non-identifiability of linear structural equation models as described in Drton, Foygel, and Sullivant (2011) , Foygel, Draisma, and Drton (2012) , and other works. 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Models can be estimated using Partial Least Squares Path Modeling or Covariance-Based Structural Equation Modeling or covariance based Confirmatory Factor Analysis. Methods described in Ray, Danks, and Valdez (2021). 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This approach does not assume that the parameter defining the copula is known. The dependency parameter is estimated with other finite model parameters by maximizing a Pseudo likelihood function. The cumulative hazard function is estimated via estimating equations derived based on martingale ideas. Available copula functions include Frank, Gumbel and Normal copulas. Only Weibull and lognormal models are allowed for the censoring model, even though any parametric model that satisfies certain identifiability conditions could be used. Implemented methods are described in the article "Copula based Cox proportional hazards models for dependent censoring" by Deresa and Van Keilegom (2024) . Package: r-cran-semipar Architecture: all Version: 1.0-4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 352 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-cluster, r-cran-nlme Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-semipar_1.0-4.2-1.ca2004.1_all.deb Size: 316752 MD5sum: 5b8f3d2260012a275209c6e5bbbf1811 SHA1: 9b7eefc721a833ac5c947cddc4e88c4ec01527f6 SHA256: 3da8f8ba2d7618f0b868927859e98693b95c011b287bef91a513dab5e459ca53 SHA512: 0729027d65ae41eacc84f144879d405241da7f5c232cef99eb93de6a7917511f610651446c7b5701e251f9d91f76de79cdd3d51d0059f1bcc82841af7b5fd234 Homepage: https://cran.r-project.org/package=SemiPar Description: CRAN Package 'SemiPar' (Semiparametic Regression) Functions for semiparametric regression analysis, to complement the book: Ruppert, D., Wand, M.P. and Carroll, R.J. (2003). Semiparametric Regression. Cambridge University Press. Package: r-cran-semlbci Architecture: all Version: 0.11.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 975 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lavaan, r-cran-nloptr, r-cran-mass, r-cran-ggplot2, r-cran-ggrepel, r-cran-rlang, r-cran-pbapply, r-cran-callr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-semlbci_0.11.3-1.ca2004.1_all.deb Size: 775664 MD5sum: 81551ce4a2c45de9e9b21edce92a9d90 SHA1: b78366de39a430ac0623ce8243ae974e7f8c3a27 SHA256: 9c7ce8a4a507d513898d505cea0ae3805bae375ab5b2ae5488a034fa18319ff5 SHA512: 2df2b67cbe47c375192b5f66dfe02a604161fe722041c6af6bb5a26355a19116175410d8f8d30cec8a8a9ae546588ae7576e0b9f6a567367536e54f0b6d4ef0e Homepage: https://cran.r-project.org/package=semlbci Description: CRAN Package 'semlbci' (Likelihood-Based Confidence Interval in Structural EquationModels) Forms likelihood-based confidence intervals (LBCIs) for parameters in structural equation modeling, introduced in Cheung and Pesigan (2023) . Currently implements the algorithm illustrated by Pek and Wu (2018) , and supports the robust LBCI proposed by Falk (2018) . Package: r-cran-semlrtp Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 602 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lavaan, r-cran-pbapply Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-semlrtp_0.1.1-1.ca2004.1_all.deb Size: 537044 MD5sum: 2bfeeec8b7d6e02faf216398f92b3f7a SHA1: 0bd94daa2aa0ba06351f1638b195cb6f3ac738d3 SHA256: 33ccd28cb7d2942711a8ac38997bca4265d3f713324ef6ca6fc75e4350c4125a SHA512: f229b8bcc2177286866ca44fcc9c4b84f91da33c792f53cfdd757d94ef19c124982bf0a177bf939078e5ede6a31c5c65d2cf227b7a3e2a10e90246608581fde3 Homepage: https://cran.r-project.org/package=semlrtp Description: CRAN Package 'semlrtp' (Likelihood Ratio Test P-Values for Structural Equation Models) Computes likelihood ratio test (LRT) p-values for free parameters in a structural equation model. Currently supports models fitted by the 'lavaan' package by Rosseel (2012) . Package: r-cran-semmcci Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lavaan, r-cran-mice Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-mass, r-cran-psych, r-cran-amelia, r-cran-bmemlavaan Filename: pool/dists/focal/main/r-cran-semmcci_1.1.4-1.ca2004.1_all.deb Size: 102744 MD5sum: 13d88498f1b23ff5d69867d9c347e954 SHA1: f1081f95a723fa9d972f7312f948354d2ba85fc9 SHA256: aef1221e506ed2e833d01ef5832b08a8418152c6ccf62faa390d164e8a1eeb28 SHA512: 76469601a454f906c0c46f751b921ca0010f9677bb402bb91923328bbf9aa5b19ff69a5c4caf1aa03dbef145d24101fd83369a7a7b511b643cd9c01f710f2291 Homepage: https://cran.r-project.org/package=semmcci Description: CRAN Package 'semmcci' (Monte Carlo Confidence Intervals in Structural Equation Modeling) Monte Carlo confidence intervals for free and defined parameters in models fitted in the structural equation modeling package 'lavaan' can be generated using the 'semmcci' package. 'semmcci' has three main functions, namely, MC(), MCMI(), and MCStd(). The output of 'lavaan' is passed as the first argument to the MC() function or the MCMI() function to generate Monte Carlo confidence intervals. Monte Carlo confidence intervals for the standardized estimates can also be generated by passing the output of the MC() function or the MCMI() function to the MCStd() function. A description of the package and code examples are presented in Pesigan and Cheung (2023) . Package: r-cran-semmcmc Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-msm Filename: pool/dists/focal/main/r-cran-semmcmc_0.0.6-1.ca2004.1_all.deb Size: 26792 MD5sum: a179b7e46d07ac5fc61bf1216ef87771 SHA1: f240fe019e8a7177522b268b37e164002790cc28 SHA256: 48311fd37e905a2b61f39a3bf397949c21c0ab3e6f9722357732bfaa5d22b4a9 SHA512: 0f64e6ce9bac1d9289bab453127f152886ebc51beedce1d7ddffda209a4a0159ff1127f5903777a5aabdc32952a5ac3625d9e71767ce25fb3e4a1404e410bc7c Homepage: https://cran.r-project.org/package=semmcmc Description: CRAN Package 'semmcmc' (Bayesian Structural Equation Modeling in Multiple Omics DataIntegration) Provides Markov Chain Monte Carlo (MCMC) routine for the structural equation modelling described in Maity et. al. (2020) . This MCMC sampler is useful when one attempts to perform an integrative survival analysis for multiple platforms of the Omics data where the response is time to event and the predictors are different omics expressions for different platforms. Package: r-cran-semnar Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite, r-cran-lubridate, r-cran-parsedate, r-cran-leaflet, r-cran-urlshortener Suggests: r-cran-curl, r-cran-covr, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-semnar_0.8.2-1.ca2004.1_all.deb Size: 79420 MD5sum: e47d047e8082a30420778e5e24df8e78 SHA1: c496461b13eab670163b815179e4c8a6ba246967 SHA256: 116edcae889871bdd4f6d2be74109ee4ab777aa506c29e0b8a119061c2687034 SHA512: e83d1770001a3d9724c9cdd9c125ce69dab2d390613b8943b44c9d9c21e5b8e16aa98765233839031f055ceb2636d1a85bcdb3542bb369d8dbc0e03396ca8304 Homepage: https://cran.r-project.org/package=semnar Description: CRAN Package 'semnar' (Constructing and Interacting with Databases of Presentations) Provides methods for constructing and maintaining a database of presentations in R. The presentations are either ones that the user gives or gave or presentations at a particular event or event series. The package also provides a plot method for the interactive mapping of the presentations using 'leaflet' by grouping them according to country, city, year and other presentation attributes. The markers on the map come with popups providing presentation details (title, institution, event, links to materials and events, and so on). Package: r-cran-semnet Architecture: all Version: 1.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2923 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pbapply, r-cran-dplyr, r-cran-plyr, r-cran-magrittr, r-cran-ggplot2, r-cran-igraph, r-cran-qgraph, r-cran-scales, r-cran-car, r-cran-broom, r-cran-effects, r-cran-philentropy Suggests: r-cran-shiny, r-cran-shinyjs, r-cran-shinyalert, r-cran-shinymatrix, r-cran-shinybs, r-cran-spreadr, r-cran-animation, r-cran-r.matlab, r-cran-foreign, r-cran-readxl, r-cran-data.table, r-cran-networktoolbox, r-cran-semnetcleaner, r-cran-semnetdictionaries Filename: pool/dists/focal/main/r-cran-semnet_1.4.4-1.ca2004.1_all.deb Size: 2655676 MD5sum: d5c361d06801437e4f061a5fc7b7c7d5 SHA1: fc074d617418a35e52580129722cf9508e050d21 SHA256: 83e2678a878caa3aac5e824e0ce8cf2b098cfb89581ade5623bb49d33497e16d SHA512: 91e084c034f1879b7bd377d76d693f71e29b9e0f2449216dfcacb91f837c9a14d021f22d017ef2f7f6941686dc64bd1061c059a0f15f15ac633107dfeab39e9b Homepage: https://cran.r-project.org/package=SemNeT Description: CRAN Package 'SemNeT' (Methods and Measures for Semantic Network Analysis) Implements several functions for the analysis of semantic networks including different network estimation algorithms, partial node bootstrapping (Kenett, Anaki, & Faust, 2014 ), random walk simulation (Kenett & Austerweil, 2016 ), and a function to compute global network measures. Significance tests and plotting features are also implemented. 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This allows the functions to be chained by a pipe operator. Package: r-cran-semrushr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-semrushr_0.1.0-1.ca2004.1_all.deb Size: 26100 MD5sum: 6ee69a2d7a3a97a6f1b90a821525a567 SHA1: 17c84217d441aafb9fb1d8cf2881ce7a7267501b SHA256: f21a713f88726ec943c358f72f108dbb916ba491a026da153f3b459682d079a2 SHA512: 80897280feb7b88161b1cf0f1548a7cd187aab6be74adc857acc50cac0d6e55cbb682c11331c308d8201ed723783dcf88a6ca5f7c2a5e08be580e7b9661f02dc Homepage: https://cran.r-project.org/package=SEMrushR Description: CRAN Package 'SEMrushR' (R Interface to Access the 'SEMrush' API) Implements methods for querying SEO (Search Engine Optimization) and SEM (Search Engine Marketing) data from 'SEMrush' using its API (). 'SEMrush' API uses a basic authentication with an API key. Package: r-cran-semsens Architecture: all Version: 1.5.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 497 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-lavaan Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-semsens_1.5.5-1.ca2004.1_all.deb Size: 187416 MD5sum: 7cb0d3439dad04e5e8aba82c19d1a544 SHA1: e597d151eb179c3a470ca9c0b8cf862386967485 SHA256: 7a20fb30991991a92e978a2d37b2578dfddba83d5e69b80ed44525d5c04e51cd SHA512: 40bc2bda28b198d24b83d34022c1cf93ab0aee6f65903030e038e73fa97ab047924f581787cd3bc88ae932e503bf900f1dc144d7088ad92ab708fcf79cc8cf98 Homepage: https://cran.r-project.org/package=SEMsens Description: CRAN Package 'SEMsens' (A Tool for Sensitivity Analysis in Structural Equation Modeling) Perform sensitivity analysis in structural equation modeling using meta-heuristic optimization methods (e.g., ant colony optimization and others). The references for the proposed methods are: (1) Leite, W., & Shen, Z., Marcoulides, K., Fish, C., & Harring, J. (2022). (2) Harring, J. R., McNeish, D. M., & Hancock, G. R. (2017) ; (3) Fisk, C., Harring, J., Shen, Z., Leite, W., Suen, K., & Marcoulides, K. (2022). ; (4) Socha, K., & Dorigo, M. (2008) . We also thank Dr. Krzysztof Socha for sharing his research on ant colony optimization algorithm with continuous domains and associated R code, which provided the base for the development of this package. Package: r-cran-semsfa Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv, r-cran-np, r-cran-gamlss, r-cran-moments, r-cran-doparallel, r-cran-foreach, r-cran-iterators Filename: pool/dists/focal/main/r-cran-semsfa_1.2-1.ca2004.1_all.deb Size: 46812 MD5sum: 826a7841e0330de4a0e39191efc8ef82 SHA1: 7f892a43e1bddc0b750f5156a399fd17874ca085 SHA256: d2566d4f1993f6be2bc7dfa9d45873f2907c88208a014b140c37daa73184cdce SHA512: 66d49a81c626a7760d0da19f28ca7e2c67fd583977ea2524952ccad9848a9203c4480a8d9d301ff9c96fbee2ce3299ee7d38d0218ae458e98a45ef16e53317eb Homepage: https://cran.r-project.org/package=semsfa Description: CRAN Package 'semsfa' (Semiparametric Estimation of Stochastic Frontier Models) Semiparametric Estimation of Stochastic Frontier Models following a two step procedure: in the first step semiparametric or nonparametric regression techniques are used to relax parametric restrictions of the functional form representing technology and in the second step variance parameters are obtained by pseudolikelihood estimators or by method of moments. Package: r-cran-semtable Architecture: all Version: 1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 795 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kutils, r-cran-xtable, r-cran-lavaan, r-cran-plyr, r-cran-stationery Suggests: r-cran-rockchalk Filename: pool/dists/focal/main/r-cran-semtable_1.8-1.ca2004.1_all.deb Size: 717024 MD5sum: ca6a06eddb1446f0c380efdc61404e8e SHA1: 69720306f438ac08e1ea9892d04f05312b22a377 SHA256: 1101e75871271816da6389d05aea65c00bba27c8b161acbbfd0b6c8ac42aa3df SHA512: 20a5bca5d14148783004db8451f0f5aea6c9ca07b1f83a5b82c29a72846077d623d081229a7e2134096fcb35276925780c863392f5b631e7ff8803cd3502cc4b Homepage: https://cran.r-project.org/package=semTable Description: CRAN Package 'semTable' (Structural Equation Modeling Tables) For confirmatory factor analysis ('CFA') and structural equation models ('SEM') estimated with the 'lavaan' package, this package provides functions to create model summary tables and model comparison tables for hypothesis testing. 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The package is an umbrella of statistical and graphical methods that estimate and report different types of uncertainty in PCM: (i) Species Sampling uncertainty (sample size; influential species and clades). (ii) Phylogenetic uncertainty (different topologies and/or branch lengths). (iii) Data uncertainty (intraspecific variation and measurement error). Package: r-cran-sensitivity2x2xk Architecture: all Version: 1.01-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biasedurn, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-sensitivity2x2xk_1.01-1.ca2004.1_all.deb Size: 66060 MD5sum: 944daa006fa14750155bc039c43c334e SHA1: 136c825eeb6a973f2241e667c48e33bd402ba7a8 SHA256: a2919e2259ddd0c4c041f0ecc7ea6929731c07352f7df8d6e1c6d35ac65bb33f SHA512: d870b728389835a3b6dcc6d9127c1d86cca51e2a1984fcd4decf33682295f6b58fbddd9e6b41c6aa6155c022c7c382592b9ac7a06a6b70cd58c73e449280f8c4 Homepage: https://cran.r-project.org/package=sensitivity2x2xk Description: CRAN Package 'sensitivity2x2xk' (Sensitivity Analysis for 2x2xk Tables in Observational Studies) Performs exact or approximate adaptive or nonadaptive Cochran-Mantel-Haenszel-Birch tests and sensitivity analyses for one or two 2x2xk tables in observational studies. Package: r-cran-sensitivitycalibration Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 147 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-relaimpo, r-cran-splitstackshape, r-cran-ggrepel, r-cran-stringi, r-cran-plotly Filename: pool/dists/focal/main/r-cran-sensitivitycalibration_0.0.1-1.ca2004.1_all.deb Size: 114764 MD5sum: e92a176a69ebf6a41a2bbf22cac7c976 SHA1: 1c62d95d01380c76d6b4b558bdaa5ef8589f7ba2 SHA256: ad036fb636e72bb302c920a859586022b412ba45de9516cbe05a532898d0c37b SHA512: 68b97de242b444eb7abec0c8ab9844025938faea5b90a2b392fb81d9cc9f39b07865dbb23ced5d1cc8d0c9945d61ebd44d1ca15980306f3a05f91a9ad7c9ada5 Homepage: https://cran.r-project.org/package=sensitivityCalibration Description: CRAN Package 'sensitivityCalibration' (A Calibrated Sensitivity Analysis for Matched ObservationalStudies) Implements the calibrated sensitivity analysis approach for matched observational studies. Our sensitivity analysis framework views matched sets as drawn from a super-population. The unmeasured confounder is modeled as a random variable. We combine matching and model-based covariate-adjustment methods to estimate the treatment effect. The hypothesized unmeasured confounder enters the picture as a missing covariate. We adopt a state-of-art Expectation Maximization (EM) algorithm to handle this missing covariate problem in generalized linear models (GLMs). As our method also estimates the effect of each observed covariate on the outcome and treatment assignment, we are able to calibrate the unmeasured confounder to observed covariates. Zhang, B., Small, D. S. (2018). . Package: r-cran-sensitivitycasecontrol Architecture: all Version: 2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sensitivitycasecontrol_2.2-1.ca2004.1_all.deb Size: 50756 MD5sum: 9ddee52e9ea0c09634f559104a872fec SHA1: bd03e8cba85c824be0b4b19a1768178dc1cf6664 SHA256: e7fef1d0df00eeabecaa367a4ee1bbbaf61e4b9070ae50138cfeeb45fc40236d SHA512: d491d45f19cef7c2edb89f4a374686a6d8d5d578fba795866dc1135be9d029f35e29a06e4c0bba638ae3ab5ec66831f93953fb6cd47b26389ce6e56f2f8dfba7 Homepage: https://cran.r-project.org/package=SensitivityCaseControl Description: CRAN Package 'SensitivityCaseControl' (Sensitivity Analysis for Case-Control Studies) Sensitivity analysis for case-control studies in which some cases may meet a more narrow definition of being a case compared to other cases which only meet a broad definition. The sensitivity analyses are described in Small, Cheng, Halloran and Rosenbaum (2013, "Case Definition and Sensitivity Analysis", Journal of the American Statistical Association, 1457-1468). The functions sens.analysis.mh and sens.analysis.aberrant.rank provide sensitivity analyses based on the Mantel-Haenszel test statistic and aberrant rank test statistic as described in Rosenbaum (1991, "Sensitivity Analysis for Matched Case Control Studies", Biometrics); see also Section 1 of Small et al. The function adaptive.case.test provides adaptive inferences as described in Section 5 of Small et al. The function adaptive.noether.brown provides a sensitivity analysis for a matched cohort study based on an adaptive test. The other functions in the package are internal functions. Package: r-cran-sensitivityfull Architecture: all Version: 1.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sensitivityfull_1.5.6-1.ca2004.1_all.deb Size: 45628 MD5sum: fa50c587f7aea46bcefa684f886fed17 SHA1: a8950940a18fa3fdab62d2484de83714c5e0aed6 SHA256: f9896d4e88387ca05295f1f125232aea720791446b42b8a591205fda0467833f SHA512: e2ccc84947646c4a6387b250530bda97bfb505ead0f841f7298b63ae874189d23c70a46f1bb6767a8aeea35daee7d2f95622a5124c4363b22b7c7ae30141c5c8 Homepage: https://cran.r-project.org/package=sensitivityfull Description: CRAN Package 'sensitivityfull' (Sensitivity Analysis for Full Matching in Observational Studies) Sensitivity to unmeasured biases in an observational study that is a full match. Function senfm() performs tests and function senfmCI() creates confidence intervals. The method uses Huber's M-statistics, including least squares, and is described in Rosenbaum (2007, Biometrics) . Package: r-cran-sensitivitymult Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sensitivitymult_1.0.2-1.ca2004.1_all.deb Size: 125032 MD5sum: 60958291867ea767e27eecbabb3b0c40 SHA1: f7dffe31de05ef6eb3b11afc9eef03c25df370a4 SHA256: bba69436bc61d37dd0a97e0018faef0cf0f077772e8d2e5e00d1068331a6a8d4 SHA512: bb1a7c7936314c0e669433987dd50f9b2ee0077a664ffab1390880713ea5e5a32a51a81eea06ed9685210dc1be4627d33696560423207668bceb2ebdf5bf119b Homepage: https://cran.r-project.org/package=sensitivitymult Description: CRAN Package 'sensitivitymult' (Sensitivity Analysis for Observational Studies with MultipleOutcomes) Sensitivity analysis for multiple outcomes in observational studies. For instance, all linear combinations of several outcomes may be explored using Scheffe projections in the comparison() function; see Rosenbaum (2016, Annals of Applied Statistics) . Alternatively, attention may focus on a few principal components in the principal() function. The package includes parallel methods for individual outcomes, including tests in the senm() function and confidence intervals in the senmCI() function. Package: r-cran-sensitivitymv Architecture: all Version: 1.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sensitivitymv_1.4.4-1.ca2004.1_all.deb Size: 76040 MD5sum: ac312e6471848f1882defe3911dbb03f SHA1: 2cd33915057144d9098a49d261bae6e49442b3c2 SHA256: 4b2cf7bc68516bd97efca043a6ea37d037d3822e17deac72a2d958331227025c SHA512: c02b3ec551809c47f0d3ffd7a23a5b29aad36cb3edbcfa1bf2723a02a144572ca7508137033f951146485cc6fc6add2405d008b8a53f7ea917f2e3a7d988fc12 Homepage: https://cran.r-project.org/package=sensitivitymv Description: CRAN Package 'sensitivitymv' (Sensitivity Analysis in Observational Studies) The package performs a sensitivity analysis in an observational study using an M-statistic, for instance, the mean. The main function in the package is senmv(), but amplify() and truncatedP() are also useful. The method is developed in Rosenbaum Biometrics, 2007, 63, 456-464, . Package: r-cran-sensitivitymw Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sensitivitymw_2.1-1.ca2004.1_all.deb Size: 59472 MD5sum: 4b93f55b922121c723fa8cd30a16a463 SHA1: 16e19f4af1a5a897e7ff29c96899e6979e840469 SHA256: a5bb0e9e4c5830efadadc913db6eeb79a0bff17ecb06a0493e99a213bbfcead6 SHA512: 39026666aefeb270060c7651fbda537d15e4f432ea0815668c47183d5642c8dde5dc6f2f8a2150d47f306316a42287c44ace10974961f9d075dc4267bafd10f8 Homepage: https://cran.r-project.org/package=sensitivitymw Description: CRAN Package 'sensitivitymw' (Sensitivity Analysis for Observational Studies Using WeightedM-Statistics) Sensitivity analysis for tests, confidence intervals and estimates in matched observational studies with one or more controls using weighted or unweighted Huber-Maritz M-tests (including the permutational t-test). The method is from Rosenbaum (2014) Weighted M-statistics with superior design sensitivity in matched observational studies with multiple controls JASA, 109(507), 1145-1158 . Package: r-cran-sensmap Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 393 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-doby, r-cran-lattice, r-cran-factominer, r-cran-mcmcpack, r-cran-factoextra, r-cran-fields, r-cran-ggdendro, r-cran-glmulti, r-cran-mgcv, r-cran-plotly, r-cran-shiny, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sensmap_0.7-1.ca2004.1_all.deb Size: 119192 MD5sum: f1e9659bb33f85dce571e0e0ff74955a SHA1: 8b9fbed4a92b231cacfeaac853481e47a0b31eed SHA256: d604e5509c25299e6b15169d337b91c5cd457ceee42ff884e4f10ac2b9becb48 SHA512: f55e3797bfa58e216036e2e1e38f08345af50b79909a74e34550e6b284ff419224923e9699761e78f96f4823838c457274834e3e5c905624ef431a119f9a3993 Homepage: https://cran.r-project.org/package=SensMap Description: CRAN Package 'SensMap' (Sensory and Consumer Data Mapping) Provides Sensory and Consumer Data mapping and analysis . The mapping visualization is made available from several features : options in dimension reduction methods and prediction models ranging from linear to non linear regressions. A smoothed version of the map performed using locally weighted regression algorithm is available. A selection process of map stability is provided. A 'shiny' application is included. It presents an easy GUI for the implemented functions as well as a comparative tool of fit models using several criteria. Basic analysis such as characterization of products, panelists and sessions likewise consumer segmentation are also made available. Package: r-cran-sensmediation Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 271 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-maxlik, r-cran-mvtnorm Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sensmediation_0.3.1-1.ca2004.1_all.deb Size: 233864 MD5sum: a07d27039a0df10581da176c512dc1de SHA1: 45f4bdd890d3c67147c319b35f8ff7fb53d061cc SHA256: 75876b9a9e4d95618c4f3d50568c68bb0fea656e63f7d9d8bca4fcc1adb03c78 SHA512: 6ac2336191dcf9044aed035088df40523634c70bed16113562254f27a8bd875d751d4040697538a9ece86798f300fa247434c3386d4998c2196e787d06e5ca84 Homepage: https://cran.r-project.org/package=sensmediation Description: CRAN Package 'sensmediation' (Parametric Estimation and Sensitivity Analysis of Direct andIndirect Effects) We implement functions to estimate and perform sensitivity analysis to unobserved confounding of direct and indirect effects introduced in Lindmark, de Luna and Eriksson (2018) and Lindmark (2022) . The estimation and sensitivity analysis are parametric, based on probit and/or linear regression models. Sensitivity analysis is implemented for unobserved confounding of the exposure-mediator, mediator-outcome and exposure-outcome relationships. Package: r-cran-sensominer Architecture: all Version: 1.27-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1053 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cluster, r-cran-kernsmooth, r-cran-ggplot2, r-cran-reshape2, r-cran-algdesign, r-cran-gtools, r-cran-ggrepel Filename: pool/dists/focal/main/r-cran-sensominer_1.27-1.ca2004.1_all.deb Size: 996340 MD5sum: b5b379854ef5c1ddae943c901a7fc673 SHA1: 42295f5b6895936fcb553b969eb1ed11206fb9cd SHA256: 0866eb9c20a04148308e69d0beb63bff02f88274bbd06366a43dbf053f547373 SHA512: 4ab80fd1a26b5f7e85e48c52a5fc5d67c5e8f9f2d9b3e7a22c07be05c351918e243c2f431c8b4416930bcbe46806acd06fe4f2c0ba93d58cd5fb37bd66f95d24 Homepage: https://cran.r-project.org/package=SensoMineR Description: CRAN Package 'SensoMineR' (Sensory Data Analysis) Statistical Methods to Analyse Sensory Data. SensoMineR: A package for sensory data analysis. S. Le and F. Husson (2008). Package: r-cran-sensory Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-gtools, r-cran-mass Filename: pool/dists/focal/main/r-cran-sensory_1.1-1.ca2004.1_all.deb Size: 77700 MD5sum: e8f04dbb8736bc2c7be7a7c12004f1cd SHA1: aa21d8ec45637c425295f336225f16ce46c07b5d SHA256: 2c83e50e0e3c14ba816567ca0a5ca429e34bdcfc5562bd795b7b573e62f8b49c SHA512: 32b769b3173821ca65f52525fb10338f0fe101c97e2986c3a137fb046c68f2b35fa7ed3f9dcba18687c6232b4b6de9f301e93238683644aca877c65739396885 Homepage: https://cran.r-project.org/package=sensory Description: CRAN Package 'sensory' (Simultaneous Model-Based Clustering and Imputation via aProgressive Expectation-Maximization Algorithm) Contains the function CUUimpute() which performs model-based clustering and imputation simultaneously. Package: r-cran-sensr Architecture: all Version: 1.5-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1292 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-multcomp, r-cran-mass, r-cran-numderiv Suggests: r-cran-ordinal, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sensr_1.5-3-1.ca2004.1_all.deb Size: 992652 MD5sum: 64336144930a33a1512af367bef65d3d SHA1: da6b8de65a26ce02ae8328195ce815d35218c4b1 SHA256: 162fb852434330143b482dcd143d16a04582d6ed304b6f39536599270ebf61b2 SHA512: 92928474aa14b2ddd7d2181e0bf7f5ac832ff39f58ad66b6b471ed5d0648a976fcd8d17d467510fe15e09356f2aed705e99bde647d62205625e054220ae95919 Homepage: https://cran.r-project.org/package=sensR Description: CRAN Package 'sensR' (Thurstonian Models for Sensory Discrimination) Provides methods for sensory discrimination methods; duotrio, tetrad, triangle, 2-AFC, 3-AFC, A-not A, same-different, 2-AC and degree-of-difference. This enables the calculation of d-primes, standard errors of d-primes, sample size and power computations, and comparisons of different d-primes. Methods for profile likelihood confidence intervals and plotting are included. Most methods are described in Brockhoff, P.B. and Christensen, R.H.B. (2010) . Package: r-cran-sensrivastava Architecture: all Version: 2015.6.25.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-leaps, r-cran-car Filename: pool/dists/focal/main/r-cran-sensrivastava_2015.6.25.1-1.ca2004.1_all.deb Size: 145820 MD5sum: edd2319dac28134fd0a6e6535b01cd7b SHA1: 8114181852e98696498fa953872b642669ca7f91 SHA256: 938d9ee42ff02c650ce19e9fb3e6949dedb99d15ad1c24dcf11dee91672d1701 SHA512: a2042db5a3ee46323400f67e6b39c569a4afa531c041a98ba1e39e23a1b3cc5670fa8ce7278a61f09c6375b2294311adef0d42a491c6120411205aaf81b4310e Homepage: https://cran.r-project.org/package=SenSrivastava Description: CRAN Package 'SenSrivastava' (Datasets from Sen & Srivastava) Collection of datasets from Sen & Srivastava: "Regression Analysis, Theory, Methods and Applications", Springer. Sources for individual data files are more fully documented in the book. Package: r-cran-senstrat Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 128 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biasedurn, r-cran-mass Suggests: r-cran-sensitivitymw Filename: pool/dists/focal/main/r-cran-senstrat_1.0.3-1.ca2004.1_all.deb Size: 94960 MD5sum: 02a2c0f5dd6370ed24593e62d8dfd6ee SHA1: 9e034663a75e0bd5cb7680ddbceb9821a81f06c2 SHA256: fda338ec2c7fecf68902a46c3c11688b9752bd5e4cf4bb23dc01bedcbbade4be SHA512: f00920a732a6204b2a68b7566bd7476b6fc0a991a1254cc7618248b5b56ae549842eb173c131b05909f2e8595eb6cdf0b8228767f0adbd0a24c293e58c95f1e0 Homepage: https://cran.r-project.org/package=senstrat Description: CRAN Package 'senstrat' (Sensitivity Analysis for Stratified Observational Studies) Sensitivity analysis in unmatched observational studies, with or without strata. The main functions are sen2sample() and senstrat(). See Rosenbaum, P. R. and Krieger, A. M. (1990), JASA, 85, 493-498, and Gastwirth, Krieger and Rosenbaum (2000), JRSS-B, 62, 545–555 . Package: r-cran-sensusr Architecture: all Version: 2.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 757 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-lubridate, r-cran-plyr, r-cran-ggmap, r-cran-ggplot2, r-cran-r.utils, r-cran-openssl Filename: pool/dists/focal/main/r-cran-sensusr_2.3.1-1.ca2004.1_all.deb Size: 301888 MD5sum: a563e64df174782cd4c28880c24f5622 SHA1: 2f560142396871010153623eb19ee6f4d5348311 SHA256: 0e0c9415eec39d36744dac7e598a1e8b76c44017bf387c58232cd325982e18b8 SHA512: 18b5944e34bed6068ff31054ec78a2c681dd5a010721c2f8839cd8bd09146ead4e50a7bc753610b5809f7b166529ce7e53e9e1e09f80a1c93b22ac7422d436ad Homepage: https://cran.r-project.org/package=SensusR Description: CRAN Package 'SensusR' (Sensus Analytics) Provides access and analytic functions for Sensus data. Package: r-cran-sentiment.ai Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 968 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-jsonlite, r-cran-reticulate, r-cran-roperators, r-cran-tensorflow, r-cran-tfhub, r-cran-xgboost Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-magrittr, r-cran-microbenchmark, r-cran-prettydoc, r-cran-rappdirs, r-cran-rstudioapi, r-cran-text2vec Filename: pool/dists/focal/main/r-cran-sentiment.ai_0.1.1-1.ca2004.1_all.deb Size: 871752 MD5sum: 96224d0982a2c0a1b589d6309cf52e24 SHA1: 2dda2aa0032925d14ac3b78316d01352280d7b1a SHA256: 20fe02da1893fe382a624b3761b6a2a2d56d7ad18cdfd39b17b9f6f4265b4055 SHA512: 55c4d634b429093a6168d3f8e31cb1d4b9ee8024c88a59ed3b6a6e7ad65ae8119e393592303790fad43586946106d62fdc81021faed3d4cf84e0219e73025f55 Homepage: https://cran.r-project.org/package=sentiment.ai Description: CRAN Package 'sentiment.ai' (Simple Sentiment Analysis Using Deep Learning) Sentiment Analysis via deep learning and gradient boosting models with a lot of the underlying hassle taken care of to make the process as simple as possible. In addition to out-performing traditional, lexicon-based sentiment analysis (see ), it also allows the user to create embedding vectors for text which can be used in other analyses. GPU acceleration is supported on Windows and Linux. Package: r-cran-sentimentanalysis Architecture: all Version: 1.3-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 410 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-tm, r-cran-qdapdictionaries, r-cran-ngramrr, r-cran-moments, r-cran-stringdist, r-cran-glmnet, r-cran-spikeslab, r-cran-ggplot2 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-snowballc, r-cran-xml, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-sentimentanalysis_1.3-5-1.ca2004.1_all.deb Size: 251224 MD5sum: b16bd23b4448b202a01478625de8c273 SHA1: e9bcc628a9d98484fd37c254f8d2f094abeef273 SHA256: 8b3f4aa6c0e878b32c08b176d8cb4e69283be7f75885eb203b7b2aca3aea0438 SHA512: 53db42606a0345748674bcbde797995d9270637ace3e1f9bc77c72f8c5eb5874edc509d89522910e9ae74c30728432be6412d237252441029e4589df3d280e17 Homepage: https://cran.r-project.org/package=SentimentAnalysis Description: CRAN Package 'SentimentAnalysis' (Dictionary-Based Sentiment Analysis) Performs a sentiment analysis of textual contents in R. This implementation utilizes various existing dictionaries, such as Harvard IV, or finance-specific dictionaries. Furthermore, it can also create customized dictionaries. The latter uses LASSO regularization as a statistical approach to select relevant terms based on an exogenous response variable. Package: r-cran-sentimentr Architecture: all Version: 2.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3968 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-ggplot2, r-cran-lexicon, r-cran-stringi, r-cran-syuzhet, r-cran-textclean, r-cran-textshape Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sentimentr_2.9.0-1.ca2004.1_all.deb Size: 3979248 MD5sum: fcdd2a3aacfd8bee3fe9f9a0d7fef75c SHA1: c04569236a23959bb91f6f73aaad850aac31d832 SHA256: b332a4c683cf9edb50bd3a1f9f2f04c393ce72e2eb986ffa21a7706b74941505 SHA512: 34a364c7d2d533916a526997d2285500843ca2203ca29d2a9eb77206b42578ef18a7339cf0f28f17c0bd951a82eeb9c84c6f3f8669d5d2a37173a604a68a79c5 Homepage: https://cran.r-project.org/package=sentimentr Description: CRAN Package 'sentimentr' (Calculate Text Polarity Sentiment) Calculate text polarity sentiment at the sentence level and optionally aggregate by rows or grouping variable(s). Package: r-cran-sentinmixt Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dosnow, r-cran-foreach, r-cran-snow, r-cran-tsdist, r-cran-tidyr, r-cran-data.table, r-cran-expint, r-cran-zipfr, r-cran-mclust, r-cran-rlist, r-cran-withr Filename: pool/dists/focal/main/r-cran-sentinmixt_1.0.0-1.ca2004.1_all.deb Size: 127612 MD5sum: 0c7fefaa9ef5a51e830f08d960b3dca5 SHA1: c34f04c32f15fddd44a445b7245832851a2b242c SHA256: 62252b0d98132244ddbfd5ea1a4d997a67383477d7445f74d2c34a1f688946f2 SHA512: a9f6ed1512289079e33a3a78b5c726c9a55fd8314bc12b76f466936350cb1df2fae38208cdce4645f579738248293bdd60b3b13fb52817147ef07f6a603daddd Homepage: https://cran.r-project.org/package=SenTinMixt Description: CRAN Package 'SenTinMixt' (Parsimonious Mixtures of MSEN and MTIN Distributions) Implements parsimonious mixtures of MSEN and MTIN distributions via expectation- maximization based algorithms for model-based clustering. For each mixture component, parsimony is reached via the eigen-decomposition of the scale matrices and by imposing a constraint on the tailedness parameter. This produces a family of 28 parsimonious mixture models for each distribution. Package: r-cran-sentryr Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 389 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-stringr, r-cran-tibble, r-cran-uuid Suggests: r-cran-httptest, r-cran-mockery, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sentryr_1.1.2-1.ca2004.1_all.deb Size: 316412 MD5sum: ab4457d1da104d51e84138c61e47363a SHA1: 52709c4eda27510ea4c0acb790ef548cd17de278 SHA256: de55258a79be2e63b5d894b0cd02f34b727314a5949e72321354ac7e9d3c8853 SHA512: 2d551064a0f793aa42b730a762be5cbbfa2ad7bffd3ac0d82c4565e06848dd19942b4d74e5d853f489767b8cd8b78a673432a95b555d55a1c740eafaf397d865 Homepage: https://cran.r-project.org/package=sentryR Description: CRAN Package 'sentryR' (Send Errors and Messages to Sentry) Unofficial client for 'Sentry' , a self-hosted or cloud-based error-monitoring service. It will inform about errors in real-time, and includes integration with the 'Plumber' package. Package: r-cran-seofm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seofm_0.1.0-1.ca2004.1_all.deb Size: 12964 MD5sum: 60976d522c2e9ae2be92bb8b3b14972f SHA1: bcfcafa1d86e44f37c1bd24d575ad2440408f66e SHA256: 18a9e7b209c1e0899df951b2146749837db23040fac7138f52d5db0081f41b43 SHA512: d19b6e7e8e9ed30d8432c8c85641840ebf0b38fa822f39e867112b9c061778a0618b4b5fe3ae08d793570b63750f8dbe90b4d8ead06dc13d73e6504985741359 Homepage: https://cran.r-project.org/package=SEofM Description: CRAN Package 'SEofM' (Standard Error of Measurement) To calculate the standard error of measurement (SEM) to assess the observer variability (inter- and intra-observer variation). The methods used in this package are referenced from Zoran B. Popović (2017) . Package: r-cran-sepals Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 337 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sepals_0.1.0-1.ca2004.1_all.deb Size: 307228 MD5sum: 3cdc7dc68e3f66e5545bc109ac4028e2 SHA1: e4031182d6c0925971f822e165c2159628b5e97e SHA256: f50324712a0b2c6dea632ad7f01541282a3323ddd3b14f1aa603351144ebb572 SHA512: a70e47853be9b3d1b6e8f01b81f3f3be3f4e4e8a2fd5f0eb55b2737759a79cd5a43e3e39cd59eb1f768b14a38b1cedcfeed391511008243881b95a0303dd1a73 Homepage: https://cran.r-project.org/package=SEPaLS Description: CRAN Package 'SEPaLS' (Shrinkage for Extreme Partial Least-Squares (SEPaLS)) Regression context for the Partial Least Squares framework for Extreme values. Estimations of the Shrinkage for Extreme Partial Least-Squares (SEPaLS) estimators, an adaptation of the original Partial Least Squares (PLS) method tailored to the extreme-value framework. The SEPaLS project is a joint work by Stephane Girard, Hadrien Lorenzo and Julyan Arbel. R code to replicate the results of the paper is available at . Extremes within PLS was already studied by one of the authors, see M Bousebeta, G Enjolras, S Girard (2023) . Package: r-cran-separate Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-separate_0.3.2-1.ca2004.1_all.deb Size: 68040 MD5sum: 50502657b391cf35be54ed5755f82900 SHA1: e3aa61c7ff7a122a76ba5b15766e33cfb35167fc SHA256: 7b6fa5b9154da8e28e9415ecd333d60c7c0d3977a2c1e0faacd7c7047d0ff95d SHA512: f7514c3782cf950d498baa3898fa773828a5b1904f06fd7f822dd31f6c31cec63e03edf58dea273075ac36cb89c5ddf88b3c09de0c2de1904ec0ddbb7f44d814 Homepage: https://cran.r-project.org/package=sEparaTe Description: CRAN Package 'sEparaTe' (Maximum Likelihood Estimation and Likelihood Ratio TestFunctions for Separable Variance-Covariance Structures) Maximum likelihood estimation of the parameters of matrix and 3rd-order tensor normal distributions with unstructured factor variance covariance matrices, two procedures, and for unbiased modified likelihood ratio testing of simple and double separability for variance-covariance structures, two procedures. References: Dutilleul P. (1999) , Manceur AM, Dutilleul P. (2013) , and Manceur AM, Dutilleul P. (2013) . Package: r-cran-separationplot Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rcolorbrewer, r-cran-hmisc, r-cran-mass, r-cran-foreign Filename: pool/dists/focal/main/r-cran-separationplot_1.4-1.ca2004.1_all.deb Size: 34436 MD5sum: 9181513bb7bf8580927b97db53fd8a09 SHA1: 9b46e3ace8d94043eb0cb8d83c722a171295bcc0 SHA256: 2bfe3dd3d390a66e2ae07e46a4b127d23b4cd053cd792807f76ad42ea644edc6 SHA512: da2012c1fb9bd69d95f6e92d792504225353d37dccac714ff35b178d2133a4cb2914d6bc7e9c32d0eb4b455aefeacc6a963a3a70e6a061ad255eb61393a81efc Homepage: https://cran.r-project.org/package=separationplot Description: CRAN Package 'separationplot' (Separation Plots) Visual representations of model fit or predictive success in the form of "separation plots." See Greenhill, Brian, Michael D. Ward, and Audrey Sacks. "The separation plot: A new visual method for evaluating the fit of binary models." American Journal of Political Science 55.4 (2011): 991-1002. Package: r-cran-sephora Architecture: all Version: 0.1.31-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 467 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-geots, r-cran-ebsc, r-cran-rootsolve, r-cran-dtwclust, r-cran-foreach, r-cran-doparallel, r-cran-dplyr, r-cran-nlme, r-cran-mass, r-cran-ggnewscale, r-cran-spiralize Suggests: r-cran-tsclust, r-cran-bigmemory, r-cran-vcd Filename: pool/dists/focal/main/r-cran-sephora_0.1.31-1.ca2004.1_all.deb Size: 358344 MD5sum: 3a8fc1d8dff044c2f7ccbb9268ad8e0f SHA1: e8ebe2fc9fb02220d0728ea6f77afadd59e345ab SHA256: baedd675f4bcd4b54ee4509762cde37e71b857bf9c93201ceae1ba1d6cb15261 SHA512: 8ad9e85bc7d9f7e5dc5b7bc3e14c1dbad1e63584f7b20672f1dfd94ec21bd4600bd3a66f76c63c30207ba07b2517bb536b6faa1782acbdf1d16765c3d902c209 Homepage: https://cran.r-project.org/package=sephora Description: CRAN Package 'sephora' (Statistical Estimation of Phenological Parameters) Provides functions and methods for estimating phenological dates (green up, start of a season, maturity, senescence, end of a season and dormancy) from (nearly) periodic Earth Observation time series. These dates are critical points of some derivatives of an idealized curve which, in turn, is obtained through a functional principal component analysis-based regression model. Some of the methods implemented here are based on T. Krivobokova, P. Serra and F. Rosales (2022) . Methods for handling and plotting Earth observation time series are also provided. Package: r-cran-sepkoski Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1474 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-covr, r-cran-knitr, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-sepkoski_0.0.1-1.ca2004.1_all.deb Size: 1418036 MD5sum: 311da5ec1c67680cfd511a2b312b93f7 SHA1: 7b9cc429c0d535fdef0926e310d5a13ec50fc2b1 SHA256: 88358e1dc2f692af608f0c16f862f0bfe9f18f65b669fa9ea875bcdad59967e6 SHA512: 08ce8afe991988b2fe7992017422286b78397d3e2add975fef389c01be578d8c5bce44bd9f807ed6e7f84c5ca9e39dd29ce3371c0dee81ca726f79fae73435ec Homepage: https://cran.r-project.org/package=sepkoski Description: CRAN Package 'sepkoski' (Sepkoski's Fossil Marine Animal Genera Compendium) Stratigraphic ranges of fossil marine animal genera from Sepkoski's (2002) published compendium. No changes have been made to any taxonomic names. However, first and last appearance intervals have been updated to be consistent with stages of the International Geological Timescale. Functionality for generating a plot of Sepkoski's evolutionary fauna is also included. For specific details on the compendium see: Sepkoski, J. J. (2002). A compendium of fossil marine animal genera. Bulletins of American Paleontology, 363, pp. 1–560 (ISBN 0-87710-450-6). Access: . Package: r-cran-seplyr Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 361 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-wrapr, r-cran-dplyr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-seplyr_1.0.4-1.ca2004.1_all.deb Size: 160796 MD5sum: 00372ea5bea099f3947d8e63dd7aacb0 SHA1: 9401b914df1d6accbb8b431ef0cb500a1c8027f0 SHA256: 55d5a452be270feec8bcbae31ecc7ced854130d3b212c3c269cd26d6518a0378 SHA512: 71ab20199cea46d0f3ebc8ec96f0f7b67b3649aa9aefa230b85bf99c451532c1a89e782f782143e229ceffad3dd1d615152d162b882d8872667f77d7813329c2 Homepage: https://cran.r-project.org/package=seplyr Description: CRAN Package 'seplyr' (Improved Standard Evaluation Interfaces for Common DataManipulation Tasks) The 'seplyr' (standard evaluation plying) package supplies improved standard evaluation adapter methods for important common 'dplyr' data manipulation tasks. In addition the 'seplyr' package supplies several new "key operations bound together" methods. These include 'group_summarize()' (which combines grouping, arranging and calculation in an atomic unit), 'add_group_summaries()' (which joins grouped summaries into a 'data.frame' in a well documented manner), 'add_group_indices()' (which adds per-group identifiers to a 'data.frame' without depending on row-order), 'partition_mutate_qt()' (which optimizes mutate sequences), and 'if_else_device()' (which simulates per-row if-else blocks in expression sequences). Package: r-cran-seqalignr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-plot.matrix Filename: pool/dists/focal/main/r-cran-seqalignr_0.1.1-1.ca2004.1_all.deb Size: 35756 MD5sum: 1ba9bdbdcec54aa844dce2e89a74f4c8 SHA1: 9166be474dd628900dbd10e4da114eb3201218d7 SHA256: 465460233cb278c2995bef6f0cb661e31519508c7cc39a3e6161c2e99b4ff45d SHA512: ec698f59fbb8c68c8331fd2d25dd7115ad5f4db5587e64bf1674fa4c4afeeba842103175e4a3a411a44e668a4db4eaa933876d177dc36259045a95abf07dea7a Homepage: https://cran.r-project.org/package=SeqAlignR Description: CRAN Package 'SeqAlignR' (Sequence Alignment and Visualization Tool) Computes the optimal alignment of two character sequences. Visualizes the result of the alignment in a matrix plot. Needleman, Saul B.; Wunsch, Christian D. (1970) "A general method applicable to the search for similarities in the amino acid sequence of two proteins" . Package: r-cran-seqalloc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seqalloc_1.0-1.ca2004.1_all.deb Size: 57272 MD5sum: 3062ee69f691bfe81efdb3fd2d708583 SHA1: 1ba0cf844fcb9d93a0b0c170c81780a82a781b97 SHA256: 981d5bd1bee29e74481dbdeedf9a6013abd9af37b807d67a8ebb6b1b77823e6e SHA512: 04a86c5d837b360b4a8669e89992e9e593c9ec978051b8b2caa694578b5a3548a4dd950eff94f4a0621c44fa224ff0ca6d8e15eecbed630072c6dc4343504eab Homepage: https://cran.r-project.org/package=SeqAlloc Description: CRAN Package 'SeqAlloc' (Sequential Allocation for Prospective Experiments) Potential randomization schemes are prospectively evaluated when units are assigned to treatment arms upon entry into the experiment. The schemes are evaluated for balance on covariates and on predictability (i.e., how well could a site worker guess the treatment of the next unit enrolled). Package: r-cran-seqdesign Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 515 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Suggests: r-cran-knitr, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-seqdesign_1.2-1.ca2004.1_all.deb Size: 423420 MD5sum: d3ae5a9922019ca805b9462844f1d53e SHA1: ae84fc42750b1f1257ebb4e82f1aa6c84e04f5f3 SHA256: 27cddeebdae5d239895d2005af92337e848c3dd409c73c75f4a1bb23b9bb825f SHA512: 893d763a317e1e8d5970d9072cb2f6f1c00b121b0c134ee49905ae9563dd91ce89fb550ac208f3434913b8630abfb936ad0b3290f6d34a786229de591681d3e8 Homepage: https://cran.r-project.org/package=seqDesign Description: CRAN Package 'seqDesign' (Simulation and Group Sequential Monitoring of RandomizedTwo-Stage Treatment Efficacy Trials with Time-to-EventEndpoints) A modification of the preventive vaccine efficacy trial design of Gilbert, Grove et al. (2011, Statistical Communications in Infectious Diseases) is implemented, with application generally to individual-randomized clinical trials with multiple active treatment groups and a shared control group, and a study endpoint that is a time-to-event endpoint subject to right-censoring. The design accounts for the issues that the efficacy of the treatment/vaccine groups may take time to accrue while the multiple treatment administrations/vaccinations are given; there is interest in assessing the durability of treatment efficacy over time; and group sequential monitoring of each treatment group for potential harm, non-efficacy/efficacy futility, and high efficacy is warranted. The design divides the trial into two stages of time periods, where each treatment is first evaluated for efficacy in the first stage of follow-up, and, if and only if it shows significant treatment efficacy in stage one, it is evaluated for longer-term durability of efficacy in stage two. The package produces plots and tables describing operating characteristics of a specified design including an unconditional power for intention-to-treat and per-protocol/as-treated analyses; trial duration; probabilities of the different possible trial monitoring outcomes (e.g., stopping early for non-efficacy); unconditional power for comparing treatment efficacies; and distributions of numbers of endpoint events occurring after the treatments/vaccinations are given, useful as input parameters for the design of studies of the association of biomarkers with a clinical outcome (surrogate endpoint problem). The code can be used for a single active treatment versus control design and for a single-stage design. Package: r-cran-seqexpmatch Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-checkmate, r-cran-doparallel Filename: pool/dists/focal/main/r-cran-seqexpmatch_0.1.0-1.ca2004.1_all.deb Size: 132448 MD5sum: f60da8b5973a93cb68e776446fcbd0a8 SHA1: 25db8663ce14fd89d57e953a1fb2b3b788cae27b SHA256: 580b9f7c9d8c32e8af948cd251c53c501fc8646318141d410fb593de588c884f SHA512: aa89a3f496722b2c1dd77493cf41f77e9d17e50973a695f81eda61c4c6489e7d7f0073436edf7dfde7e43e3a87629ff5e6a9e83435f91f759e08e798991425f5 Homepage: https://cran.r-project.org/package=SeqExpMatch Description: CRAN Package 'SeqExpMatch' (Sequential Experimental Design via Matching on-the-Fly) Generates the following sequential two-arm experimental designs: (1) completely randomized (Bernoulli) (2) balanced completely randomized (3) Efron's (1971) Biased Coin (4) Atkinson's (1982) Covariate-Adjusted Biased Coin (5) Kapelner and Krieger's (2014) Covariate-Adjusted Matching on the Fly (6) Kapelner and Krieger's (2021) CARA Matching on the Fly with Differential Covariate Weights (Naive) (7) Kapelner and Krieger's (2021) CARA Matching on the Fly with Differential Covariate Weights (Stepwise) and also provides the following types of inference: (1) estimation (with both Z-style estimators and OLS estimators), (2) frequentist testing (via asymptotic distribution results and via employing the nonparametric randomization test) and (3) frequentist confidence intervals (only under the superpopulation sampling assumption currently). Details can be found in our publication: Kapelner and Krieger "A Matching Procedure for Sequential Experiments that Iteratively Learns which Covariates Improve Power" (2020) . Package: r-cran-seqfeatr Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1500 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tcltk2, r-bioc-biostrings, r-cran-plotrix, r-cran-plyr, r-cran-phangorn, r-bioc-qvalue, r-bioc-widgettools, r-cran-calibrate, r-cran-ggplot2, r-cran-r2jags, r-cran-coda, r-cran-scales, r-cran-ape Suggests: r-cran-xtable Filename: pool/dists/focal/main/r-cran-seqfeatr_0.3.1-1.ca2004.1_all.deb Size: 940460 MD5sum: 580dec7ebefd3307cb26966ae434553b SHA1: 2c2e9f8b322166644e9130b193c160807f831262 SHA256: 192ecd8972d605b835ac4d3b180eaae4cbaf973c65c12d23c629b0819866255e SHA512: 354395e657ae39c9d72d7115f30642a423360ce39a322f1512e763b0f60d54bc61ffc1d6a070ab54674155ddd7b225c87dfd76fac7339575720e970f8a9c6475 Homepage: https://cran.r-project.org/package=SeqFeatR Description: CRAN Package 'SeqFeatR' (A Tool to Associate FASTA Sequences and Features) Provides user friendly methods for the identification of sequence patterns that are statistically significantly associated with a property of the sequence. For instance, SeqFeatR allows to identify viral immune escape mutations for hosts of given HLA types. The underlying statistical method is Fisher's exact test, with appropriate corrections for multiple testing, or Bayes. Patterns may be point mutations or n-tuple of mutations. SeqFeatR offers several ways to visualize the results of the statistical analyses, see Budeus (2016) . Package: r-cran-seqgendiff Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 578 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-assertthat, r-cran-irlba, r-bioc-sva, r-cran-pdist, r-cran-matchingr, r-cran-clue Suggests: r-cran-covr, r-cran-testthat, r-bioc-summarizedexperiment, r-bioc-deseq2, r-cran-knitr, r-cran-rmarkdown, r-bioc-airway, r-bioc-limma, r-bioc-qvalue, r-bioc-edger Filename: pool/dists/focal/main/r-cran-seqgendiff_1.2.4-1.ca2004.1_all.deb Size: 389588 MD5sum: 062f825e53da089b92506b6ad55d338b SHA1: cf7973417425311c97843dbd331ececbb278d520 SHA256: 7e52925b9216cbdba3090d8c8d3fb6fb35826dbd197f721fbf257b4643bf9251 SHA512: adc61ef871ba24332142cbfbd17ff7af6412608fde0e61e265d28e5c2b282f5236d8801f76c0d7b07c8c210695481f6de6f8e7638ede91c4a2eae43e72178ba4 Homepage: https://cran.r-project.org/package=seqgendiff Description: CRAN Package 'seqgendiff' (RNA-Seq Generation/Modification for Simulation) Generates/modifies RNA-seq data for use in simulations. We provide a suite of functions that will add a known amount of signal to a real RNA-seq dataset. The advantage of using this approach over simulating under a theoretical distribution is that common/annoying aspects of the data are more preserved, giving a more realistic evaluation of your method. The main functions are select_counts(), thin_diff(), thin_lib(), thin_gene(), thin_2group(), thin_all(), and effective_cor(). See Gerard (2020) for details on the implemented methods. Package: r-cran-seqhandbook Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2841 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-traminer Suggests: r-cran-r.rsp, r-cran-knitr, r-cran-rmarkdown, r-cran-factominer, r-cran-descriptio, r-cran-rcolorbrewer, r-cran-traminerextras, r-cran-weightedcluster, r-cran-ade4, r-cran-cluster, r-cran-questionr, r-cran-rmdformats, r-cran-dplyr, r-cran-purrr, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-seqhandbook_0.1.1-1.ca2004.1_all.deb Size: 1636080 MD5sum: 327115d0f7fcfd0dadcafeeba88f065a SHA1: af57403f4a72dcd1c33564cc0616b3dcda116478 SHA256: baa434cb8111f79a87a6896f157b477f0c87954a8267e18afc6028a0ad7fdf43 SHA512: 7d0c1e2fe0690e2dc90ca0f1af597fb0fad57df33654b6c244d05e29b8428a8be185919cc45d1f7a2acf2673e83e682e21fd89bff5850a7eff500c2c99612492 Homepage: https://cran.r-project.org/package=seqhandbook Description: CRAN Package 'seqhandbook' (Miscellaneous Tools for Sequence Analysis) It provides miscellaneous sequence analysis functions for describing episodes in individual sequences, measuring association between domains in multidimensional sequence analysis (see Piccarreta (2017) ), heat maps of sequence data, Globally Interdependent Multidimensional Sequence Analysis (see Robette et al (2015) ), smoothing sequences for index plots (see Piccarreta (2012) ), coding sequences for Qualitative Harmonic Analysis (see Deville (1982)), measuring stress from multidimensional scaling factors (see Piccarreta and Lior (2010) ), symmetrical (or canonical) Partial Least Squares (see Bry (1996)). Package: r-cran-seqicp Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dhsic, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-seqicp_1.1-1.ca2004.1_all.deb Size: 97192 MD5sum: 16f583a158851704b077f60bcbbd9bf0 SHA1: d7dbbbebaf68c28388cf1f9f7af0667e6bf5982e SHA256: 81c64a01d0cca33a7fc8ad7014c6410bec8ca4ad75291c892a012e8b251dc4aa SHA512: 1bf8bf59ecd14607892b0cd79bfddcda9b17ff0b110c5b6be42db16669db72ee5f1558d030de631122d2ff3a0809204875ea7d99508ef538c6c3a74ad3d221ca Homepage: https://cran.r-project.org/package=seqICP Description: CRAN Package 'seqICP' (Sequential Invariant Causal Prediction) Contains an implementation of invariant causal prediction for sequential data. The main function in the package is 'seqICP', which performs linear sequential invariant causal prediction and has guaranteed type I error control. 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Package: r-cran-seqimpute Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1117 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-amelia, r-cran-cluster, r-cran-dfidx, r-cran-dorng, r-cran-dosnow, r-cran-dplyr, r-cran-foreach, r-cran-mlr, r-cran-nnet, r-cran-plyr, r-cran-ranger, r-cran-rms, r-cran-stringr, r-cran-traminer, r-cran-traminerextras, r-cran-mice, r-cran-parallelly Suggests: r-cran-r.rsp, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-seqimpute_2.2.0-1.ca2004.1_all.deb Size: 612972 MD5sum: 2557328dabc424e72024a9266ef682f6 SHA1: 02137f260517378e515f4e029c796b2a3c5cf225 SHA256: 73bfcefff8f78922393ee36ba993738b1a9f1ac8c706412e063f58cbb3bba794 SHA512: 7687c4733c91c7fff2218b5767b02a64d282aeb2675e0b95b6f14c5e166d86fa9f479c19772be3232fd1bfdf260fc25acc2cd23fafaf01fb1f858193fe9b8d8f Homepage: https://cran.r-project.org/package=seqimpute Description: CRAN Package 'seqimpute' (Imputation of Missing Data in Sequence Analysis) Multiple imputation of missing data in a dataset using MICT or MICT-timing methods. The core idea of the algorithms is to fill gaps of missing data, which is the typical form of missing data in a longitudinal setting, recursively from their edges. Prediction is based on either a multinomial or random forest regression model. Covariates and time-dependent covariates can be included in the model. Package: r-cran-seqmade Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-seqmade_1.0-1.ca2004.1_all.deb Size: 40368 MD5sum: 54187608a5ef4bad393ceadd91a0ea28 SHA1: cf6920285fbd58637b8793c768c9a80092cca15a SHA256: c143b8873a9956498a295cc5b8020eb717616d6ce1b62c99f1e0135e2990c7ee SHA512: 4769e77649bbe84eafde6f5c17c9da160e19af512570b69ac8231446beb34d208591eb262c684af024b2a7d280fb938a3e8000fdd579a88e9c48d55941691c2e Homepage: https://cran.r-project.org/package=SeqMADE Description: CRAN Package 'SeqMADE' (Network Module-Based Model in the Differential ExpressionAnalysis for RNA-Seq) A network module-based generalized linear model for differential expression analysis with the count-based sequence data from RNA-Seq. 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Package: r-cran-seqmon Architecture: all Version: 2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-seqmon_2.5-1.ca2004.1_all.deb Size: 98692 MD5sum: 780273010076687eea7a37056a409879 SHA1: 2561abee3939ef79221084b2d71fbe855a0bf8dd SHA256: 59bc398cc976dcc6dabf0be66f5b594fd08698ab9277c68ec2e66ffd63ca0d9a SHA512: 2a303cdb3f67762fee85f002278b7754635376ca0501f158d6239c267c8030d39dd0a4ca67dbd32880e3d8553fa79485f4e93e43ed5a9941c0745c142afd34e5 Homepage: https://cran.r-project.org/package=seqmon Description: CRAN Package 'seqmon' (Group Sequential Design Class for Clinical Trials) S4 class object for creating and managing group sequential designs. It calculates the efficacy and futility boundaries at each look. It allows modifying the design and tracking the design update history. Package: r-cran-seqrflp Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 444 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seqrflp_1.0.1-1.ca2004.1_all.deb Size: 129884 MD5sum: 301f70afd5ca215b140b2ee4df934bd8 SHA1: adfe47f64d4c4ed7dc6a1917e9c1ecdcbc9203d7 SHA256: 3339f774c260e1eb31a280d60ec6ee4ba91f83498d1ceeebd09c8f7b2afa439c SHA512: a0c59d3c809e3e95dc440219840cde04e5f6cc38366bb04c30c3feecd1f33ec4865db25ddcfdf28d4e3e9e1b6c9172395876ea32971485d4e0f7366a9d67940a Homepage: https://cran.r-project.org/package=seqRFLP Description: CRAN Package 'seqRFLP' (Simulation and visualization of restriction enzyme cuttingpattern from DNA sequences) This package includes functions for handling DNA sequences, especially simulated RFLP and TRFLP pattern based on selected restriction enzyme and DNA sequences. Package: r-cran-seqshp Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-haven, r-cran-dplyr Suggests: r-cran-traminer Filename: pool/dists/focal/main/r-cran-seqshp_0.1.1-1.ca2004.1_all.deb Size: 38840 MD5sum: da2ff5f7f2094572e630cb05ff2f9e28 SHA1: d46061fc3df6665fc55ea899d5d4ccac234ccc16 SHA256: 4626766306de1e7ff0f1ab3214d42f237fd75c60638ac31604c31199b8f57000 SHA512: d1d20a19b6e6fdc3a33aac393ebeb4e7643abbc73753a18e521a97f936d71012796abb1be1624161e95197122a07e198ea85fdc59c8f89fe86bd00c375dfd78e Homepage: https://cran.r-project.org/package=seqSHP Description: CRAN Package 'seqSHP' (Building Sequences from SHP Waves) Based on the structure of the SPSS version of the Swiss Household Panel (SHP) data, provides a function seqFromWaves() that seeks the data of variables specified by the user in each of the wave files and collects them as sequences. The function also matches the sequences with variables from other files such as the master files of persons (MP) and households (MH), and social origins (SO). It can also match with activity calendar data (CA). Package: r-cran-seqtest Architecture: all Version: 0.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 199 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-seqtest_0.1-0-1.ca2004.1_all.deb Size: 172488 MD5sum: c9176ae1fac1b9f189845ddcbcb37e4b SHA1: 17517a3f6ea808a8ded67bdbf210872787d703e6 SHA256: d6ec250acfa5e7b4420cab0088f6529e93ee200e734ad68b933ff34141dc12fa SHA512: c534e577fdf13c389c6f344bd33328e152829b177677b45d198d7037f5251df8840ca79a9c35f8e85a921f2ff1245b7b8bc6b00fda772fb1038c7f7cbf3ddc76 Homepage: https://cran.r-project.org/package=seqtest Description: CRAN Package 'seqtest' (Sequential Triangular Test) Sequential triangular test for the arithmetic mean in one- and two- samples, proportions in one- and two-samples, and the Pearson's correlation coefficient. 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The underlying motivation is to sonify data, as demonstrated in the blog , the presentation by Renard and Le Bescond (2022, ) or the poster by Renard et al. (2023, ). Package: r-cran-sequential.pops Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 671 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-emdbook, r-cran-truncdist, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sequential.pops_0.1.1-1.ca2004.1_all.deb Size: 372232 MD5sum: 1851b6aeb7cccfe36e1d0373bd106fd9 SHA1: 7b8f18108c7cf145ce9f16c2fca2d6fe8badf5dd SHA256: 5ab891df5a474a59e28086414e3a1fedf5530d6f0f87daeb941fd3b4479aaa85 SHA512: 6085f9cd035d3f4fed5b7aebbe55a61fd8e5d37dda4b3a8107f5b3ee2f3d04996020067b12c56052b7fbf9c1b7e71efdde8d3edd2c91863ac000423d37c75740 Homepage: https://cran.r-project.org/package=sequential.pops Description: CRAN Package 'sequential.pops' (Sequential Analysis of Biological Population Sizes) In population management, data come at more or less regular intervals over time in sampling batches (bouts) and decisions should be made with the minimum number of samples and as quickly as possible. This package provides tools to implement, produce charts with stop lines, summarize results and assess sequential analyses that test hypotheses about population sizes. Two approaches are included: the sequential test of Bayesian posterior probabilities (Rincon, D.F. et al. 2025 ), and the sequential probability ratio test (Wald, A. 1945 ). 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All these calculations can be done for either Poisson or binomial data, for continuous or group sequential analyses, and for different types of rejection boundaries. In case of group sequential analyses, the group sizes do not have to be specified in advance and the alpha spending can be arbitrarily settled. 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This package supports Poisson- and binomial-based data. The primary function, seq_wrapper(...), accepts parameters for simulation of a simple exposure pattern and for the 'Sequential' package setup and analysis functions. The exposure matrix is used to simulate the true and false positive and negative populations (Green (1983) , Brenner (1993) ). Functions are then run from the 'Sequential' package on these populations, which allows for the exploration of outcome misclassification in data. Package: r-cran-sequenza Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4977 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pbapply, r-cran-squash, r-cran-iotools, r-cran-readr, r-cran-seqminer, r-bioc-copynumber Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-rmdformats Filename: pool/dists/focal/main/r-cran-sequenza_3.0.0-1.ca2004.1_all.deb Size: 3454752 MD5sum: e49325d2b10036cd18d30178a0fe1258 SHA1: 4afe468dffb51f2d43fc2b0c6bcd3498b6284ddf SHA256: 6c723e42d268997a291bcfd1185b8285f8bd72e195287039f153959d0c656270 SHA512: 89333b3426e283598c5f70097860028a11016bb4f1dc82fc7be305ec605c30a880d80bf99fbb314ad1e9879c8901c36c5f63b4148b31db0662f0632f21bab86a Homepage: https://cran.r-project.org/package=sequenza Description: CRAN Package 'sequenza' (Copy Number Estimation from Tumor Genome Sequencing Data) Tools to analyze genomic sequencing data from paired normal-tumor samples, including cellularity and ploidy estimation; mutation and copy number (allele-specific and total copy number) detection, quantification and visualization. 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Package: r-cran-sfarrow Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 761 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sf, r-cran-arrow, r-cran-jsonlite, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sfarrow_0.4.1-1.ca2004.1_all.deb Size: 246360 MD5sum: 0349cc19e1378af08c1529be37dfb0cd SHA1: 4b95e52ed1021a3e894296c30161d1c5b4dd57b4 SHA256: c802d66443ee2403cca90f1cab4e1c1fcdbfa5d8c2dde826a0c699c0407d05ee SHA512: 4d594129e5bb0720d639ae1c20d95863cd4098e8f6102391495473bac693d043ce5bcfc34305b4cf8b9b08e3e6609b323c70f8648c94f0ad2a566d2aada2bf59 Homepage: https://cran.r-project.org/package=sfarrow Description: CRAN Package 'sfarrow' (Read/Write Simple Feature Objects ('sf') with 'Apache' 'Arrow') Support for reading/writing simple feature ('sf') spatial objects from/to 'Parquet' files. 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Package: r-cran-sfc Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-triangle, r-cran-zoo, r-cran-sna Filename: pool/dists/focal/main/r-cran-sfc_0.1.0-1.ca2004.1_all.deb Size: 40056 MD5sum: 372e4e2b2974a352855b8f476e1263bd SHA1: a3b11adecbd446c3ed70cb875eaf2aa68e1479c1 SHA256: eb92df3d5dd0aea929f1be914c65dc8f6d6fde7a651d2e20f4ed894962cc34b9 SHA512: 4c67c062bc417a8686045c7d4d57ccc1ccaf56c05ec4ca85843c498308e9f4007bdfbddbc3ef8bbc20887afd12a08e96ff1e63cd36a87f4ba0d179f1958d51b5 Homepage: https://cran.r-project.org/package=sfc Description: CRAN Package 'sfc' (Substance Flow Computation) Provides a function sfc() to compute the substance flow with the input files --- "data" and "model". If sample.size is set more than 1, uncertainty analysis will be executed while the distributions and parameters are supplied in the file "data". Package: r-cran-sfcentral Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-geodist, r-cran-hmisc, r-cran-lwgeom, r-cran-scales, r-cran-sf Suggests: r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sfcentral_0.1.0-1.ca2004.1_all.deb Size: 43876 MD5sum: 9fce526b02b90c812b52fd50423d9532 SHA1: 72a810795704317784f1a7070f5b8094ef039c06 SHA256: 0d07fd60c619fd391b1facc3df59bf0fb8fc0d234df2c8764ae4fa5b5b25be6f SHA512: 5809455aed3199f20fddcd1f7b6630b3de09cbd6fa8f34a4ec602e2a4502cb6a824051dc89b92bf7ca97a20c39306a648fbd3f10b4e1d51b87e969e8af3a02f3 Homepage: https://cran.r-project.org/package=sfcentral Description: CRAN Package 'sfcentral' (Spatial Centrality and Dispersion Statistics) Computing centrographic statistics (central points, standard distance, standard deviation ellipse, standard deviation box) for observations taken at point locations in 2D or 3D. 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Package: r-cran-sfclust Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4947 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cubelyr, r-cran-igraph, r-cran-sf, r-cran-sparsem, r-cran-stars, r-cran-dplyr, r-cran-matrix Suggests: r-cran-ggplot2, r-cran-ggraph, r-cran-class, r-cran-fda, r-cran-purrr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sfclust_1.0.1-1.ca2004.1_all.deb Size: 3745748 MD5sum: d43328d25a39c66f30a5faa7bec28329 SHA1: b89df8e5b4ea1ed792a08d9f53d1e05fd46d2ec0 SHA256: f7d1a2f84a0f342621467b35bdb4dddedff3d6865d77a69584226fd1afccffe3 SHA512: f88f4ee72ebbb6db689e2d202bd145591dd3279be5188e5c3a1e96fd74b5951647d029e233913746969297a32a694b7b37e5f9c5c3bc6045ddf490df610fe320 Homepage: https://cran.r-project.org/package=sfclust Description: CRAN Package 'sfclust' (Bayesian Spatial Functional Clustering) Bayesian clustering of spatial regions with similar functional shapes using spanning trees and latent Gaussian models. The method enforces spatial contiguity within clusters and supports a wide range of latent Gaussian models, including non-Gaussian likelihoods, via the R-INLA framework. The algorithm is based on Zhong, R., Chacón-Montalván, E. A., and Moraga, P. (2024) , extending the approach of Zhang, B., Sang, H., Luo, Z. T., and Huang, H. (2023) . The package includes tools for model fitting, convergence diagnostics, visualization, and summarization of clustering results. Package: r-cran-sfd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2673 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble, r-cran-cli, r-cran-rlang Suggests: r-cran-ggplot2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sfd_0.1.0-1.ca2004.1_all.deb Size: 2476164 MD5sum: 80ff56fab0af58402f049294fdc8274a SHA1: b7d9f2bc5a3046b40cd57b8ddec6058191009b25 SHA256: 69d896371d4d62749f6dd4c5b8a2df1882ee5789727defd6ba3a06d245d72d83 SHA512: dc0c7806ff415ca25457a1c581d6ffe4b4da0b12310636eec1b33db037c8db02733ce0302f9cdcd618787c6d65a9e9cba6dfe584b2896fe089266ac28b7554ab Homepage: https://cran.r-project.org/package=sfd Description: CRAN Package 'sfd' (Space-Filling Design Library) A collection of pre-optimized space-filling designs, for up to ten parameters, is contained here. Functions are provided to access designs described by Husslage et al (2011) and Wang and Fang (2005) . 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Package: r-cran-sfdct Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3940 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-rtriangle, r-cran-sf, r-cran-sp, r-cran-tibble Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-maps, r-cran-rmarkdown, r-cran-viridislite Filename: pool/dists/focal/main/r-cran-sfdct_0.3.0-1.ca2004.1_all.deb Size: 2882084 MD5sum: b25218df33143411186568d93fab8e5b SHA1: a84b37289159ae26ae59b16d24dce9442f78ad66 SHA256: ca6d18372cad61229c545f43714ecf16d592d9d0d6924e2912859b30345b6135 SHA512: e93cb81d79bd4ebe5bffb77a28fea0c21fcef934d031dcb66460035b0b91963ec667b77e3f1c5b8153b942ad0253b5cd8c4a36f3161ba8933623c7cde16026c7 Homepage: https://cran.r-project.org/package=sfdct Description: CRAN Package 'sfdct' (Constrained Triangulation for Simple Features) Build a constrained high quality Delaunay triangulation from simple features objects, applying constraints based on input line segments, and triangle properties including maximum area, minimum internal angle. The triangulation code in 'RTriangle' uses the method of Cheng, Dey and Shewchuk (2012, ISBN:9781584887300). For a low-dependency alternative with low-quality path-based constrained triangulation see and for high-quality configurable triangulation see . Also consider comparison with the 'GEOS' lib which since version 3.10.0 includes a low quality polygon triangulation method that starts with ear clipping and refines to Delaunay. Package: r-cran-sfdep Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1948 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-cli, r-cran-spdep, r-cran-rlang Suggests: r-cran-broom, r-cran-dbscan, r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-magrittr, r-cran-patchwork, r-cran-purrr, r-cran-pracma, r-cran-rmarkdown, r-cran-sfnetworks, r-cran-stringr, r-cran-testthat, r-cran-tibble, r-cran-tidyr, r-cran-vctrs, r-cran-yaml, r-cran-zoo, r-cran-kendall, r-cran-igraph, r-cran-tidygraph Filename: pool/dists/focal/main/r-cran-sfdep_0.2.5-1.ca2004.1_all.deb Size: 1050060 MD5sum: a7b7420c6d0c3dd765d36f3fc6c6a729 SHA1: bf311a61978399f396ded76694fe0690e1eab09c SHA256: 1fb8ec137e2bec3b20efbfec648140d8d3cda9beccd2bbdd37dc026fab4ac904 SHA512: 7da8c8f00f2353f5d5550f6a44b8258a11b9d0c64bb777396c375b0b8ece5ac3f767616cca512ad4276a4882daeeba43385c53f2bd269f6d8a07cacbdaa3b68a Homepage: https://cran.r-project.org/package=sfdep Description: CRAN Package 'sfdep' (Spatial Dependence for Simple Features) An interface to 'spdep' to integrate with 'sf' objects and the 'tidyverse'. Package: r-cran-sfflhd Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doe.base, r-cran-conf.design, r-cran-r6 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sfflhd_0.1.2-1.ca2004.1_all.deb Size: 189260 MD5sum: d5bf97fad927a976aa1d64100a76eca8 SHA1: 078614cad43e19f8261f0e688b79af0144835c36 SHA256: a178f378e46dac4744e128ba825728050a92e53ceddcaa3bb76ebf5863572d94 SHA512: 628fefe6cdea5cd913b1745de00bb4e0b75a0ac6c72bc104d60cd42c6ab5a73c7bc23631a28c4955f0a716a504f89f4bc062bcea4f0d091f7520836e3e06c1cb Homepage: https://cran.r-project.org/package=sFFLHD Description: CRAN Package 'sFFLHD' (Sequential Full Factorial-Based Latin Hypercube Design) Gives design points from a sequential full factorial-based Latin hypercube design, as described in Duan, Ankenman, Sanchez, and Sanchez (2015, Technometrics, ). Package: r-cran-sfhelper Architecture: all Version: 0.2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcurl, r-cran-rjson, r-cran-mapview, r-cran-sf, r-cran-stringr, r-cran-dplyr, r-cran-ggplot2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sfhelper_0.2.2.0-1.ca2004.1_all.deb Size: 35016 MD5sum: f0307fcc02c86b137b29bf8d890c0323 SHA1: 1dab0f74fcd05170b811fdb9c255a5845fec1f92 SHA256: d6124557075afc7a8eb2ae9740d2fa5e79e15246ec4e707f5074a1948bddf2f4 SHA512: 281b3f96805a74dbbe18a144e0b8ca6190c42ec27cdd5bb7ec59e073a77d75e83054c613f2b1eb0408dbf127c7e810000a09c305b4c9e6d3928276a10a152585 Homepage: https://cran.r-project.org/package=sfhelper Description: CRAN Package 'sfhelper' (Repair Functions for 'sf' Package Objects) A group of functions that support the 'sf' package, focused primarily on repairing polygons that break when re-projected. Package: r-cran-sfhotspot Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1215 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-ggplot2, r-cran-rlang, r-cran-sf, r-cran-spatialkde, r-cran-spdep, r-cran-tibble Suggests: r-cran-testthat, r-cran-lubridate, r-cran-knitr, r-cran-rmarkdown, r-cran-ggspatial Filename: pool/dists/focal/main/r-cran-sfhotspot_0.9.1-1.ca2004.1_all.deb Size: 1090208 MD5sum: 1ab96293e98625edbb107a07454cfbff SHA1: 2ed05749bc6f7b7c12c8b57328ffeb591ec92e4f SHA256: 94f5f3c9e1955cb5a287ff8fdc5709dc4e929cc4ce8ec12a0d387d20fa9f9f1d SHA512: 8689a50a5d27c89e9ce3e227ed361f801a8cd0ea33978013cc32d5651ed6ca0b392f527c5cef78ca9c966cb70d3be762cdfd3c8ea99c1713ab5aebf4d678444e Homepage: https://cran.r-project.org/package=sfhotspot Description: CRAN Package 'sfhotspot' (Hot-Spot Analysis with Simple Features) Identify and understand clusters of points (typically representing the locations of places or events) stored in simple-features (SF) objects. This is useful for analysing, for example, hot-spots of crime events. The package emphasises producing results from point SF data in a single step using reasonable default values for all other arguments, to aid rapid data analysis by users who are starting out. Functions available include kernel density estimation (for details, see Yip (2020) ), analysis of spatial association (Getis and Ord (1992) ) and hot-spot classification (Chainey (2020) ISBN:158948584X). 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Package: r-cran-sfislands Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4714 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-purrr, r-cran-sf, r-cran-spdep, r-cran-stringr, r-cran-tidyr, r-cran-broom.mixed, r-cran-lifecycle Suggests: r-cran-mgcv, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sfislands_1.1.2-1.ca2004.1_all.deb Size: 2846480 MD5sum: e70dd7e50e7f573283efbd08e42f9eb8 SHA1: b6599363ec4acc22be8f1be6e5fe077c9eea4d28 SHA256: 3dd42d245467ad388c68ccedb62381d9a3615ecf8a58208379db35a08414a067 SHA512: 89716793caeebd891de5589c7ac5d6679b366b399cfea3e69201b7e3c5fb534015265a10509270aa8c48f41f918b662039e687e206283e1414d97854f507836f Homepage: https://cran.r-project.org/package=sfislands Description: CRAN Package 'sfislands' (Streamlines the Process of Fitting Areal Spatial Models) Helpers for addressing the issue of disconnected spatial units. 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Package: r-cran-sfm Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1485 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-sopc, r-cran-matrixcalc, r-cran-sn, r-cran-psych Suggests: r-cran-testthat, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-sfm_0.2.1-1.ca2004.1_all.deb Size: 1483952 MD5sum: 65d4e86d5ef36d2166b7d673bed70c85 SHA1: b4e4df2e8d821a84f4a8feda7e8b4cb471dcb7a2 SHA256: 3ba5067fa9780f439a9b1536e96fa592d877fe4ff7276667e42fbc849528fb34 SHA512: 26bb4c7f9c94fdec274fd15fdbc93b722d6fa1cda7dbba50489d6cf20d321ae3b55966e4e34de0c4aa031ce745e36b601f6f9834c146716b77e464f5cbecacef Homepage: https://cran.r-project.org/package=SFM Description: CRAN Package 'SFM' (A Package for Analyzing Skew Factor Models) Generates Skew Factor Models data and applies Sparse Online Principal Component (SOPC), Incremental Principal Component (IPC), Projected Principal Component (PPC), Perturbation Principal Component (PPC), Stochastic Approximation Principal Component (SAPC), Sparse Principal Component (SPC) and other PC methods to estimate model parameters. It includes capabilities for calculating mean squared error, relative error, and sparsity of the loading matrix.The philosophy of the package is described in Guo G. (2023) . 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Under this setup, the localization parameter of the response variable distribution is modeled by using linear multiple regression or semi-parametric functions, whose non-parametric components may be approximated by natural cubic spline or P-splines. The supported distribution for the model error is a generalized log-gamma distribution which includes the generalized extreme value and standard normal distributions as important special cases. Inference is based on penalized likelihood and bootstrap methods. Also, some numerical and graphical devices for diagnostic of the fitted models are offered. 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Package: r-cran-sgmcmc Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tensorflow, r-cran-reticulate Suggests: r-cran-testthat, r-cran-mass, r-cran-knitr, r-cran-ggplot2, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sgmcmc_0.2.5-1.ca2004.1_all.deb Size: 148340 MD5sum: 4b8662af9ea7880b887a36dbbea80556 SHA1: 6e4198478880873ad3eb4149e725a84a636c85fc SHA256: 3270c4a459d1f7273d038706263d582198a33f5db1545662b9a15bafd6af2c87 SHA512: fb1aaa207845eec2d63deae10787f3d55a9a060709468f5b7770d776bd5a9d60f0d6946fa7abf383331ad8e8566bbb09adc5e2ac670926526abf1d6d148c0b25 Homepage: https://cran.r-project.org/package=sgmcmc Description: CRAN Package 'sgmcmc' (Stochastic Gradient Markov Chain Monte Carlo) Provides functions that performs popular stochastic gradient Markov chain Monte Carlo (SGMCMC) methods on user specified models. The required gradients are automatically calculated using 'TensorFlow' , an efficient library for numerical computation. This means only the log likelihood and log prior functions need to be specified. The methods implemented include stochastic gradient Langevin dynamics (SGLD), stochastic gradient Hamiltonian Monte Carlo (SGHMC), stochastic gradient Nose-Hoover thermostat (SGNHT) and their respective control variate versions for increased efficiency. References: M. Welling, Y. W. Teh (2011) ; T. Chen, E. B. Fox, C. E. Guestrin (2014) ; N. Ding, Y. Fang, R. Babbush, C. Chen, R. D. Skeel, H. Neven (2014) ; J. Baker, P. Fearnhead, E. B. Fox, C. Nemeth (2017) . For more details see . Package: r-cran-sgmodel Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-ramify, r-cran-rtauchen Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sgmodel_0.1.2-1.ca2004.1_all.deb Size: 48420 MD5sum: 1d263fb397a0d7cdbde59179d1a0a14c SHA1: bf00cfddaece2820306bde1a738416c681329024 SHA256: ea42a491a776b7fb948d4314c9e9a92b6e7d00c24f729b07e6978d54cae35fca SHA512: 24a7b351fcde71ea6f2ec4cee520336f1214dc804d3a3215dcf420a2b81ab0a1ff93fc94d7649b07d9f7974b11e9fefc56d048b7512a65db74072e7f69a275bd Homepage: https://cran.r-project.org/package=sgmodel Description: CRAN Package 'sgmodel' (Solves a Generic Stochastic Growth Model with a RepresentativeAgent) It computes the solutions to a generic stochastic growth model for a given set of user supplied parameters. It includes the solutions to the model, plots of the solution, a summary of the features of the model, a function that covers different types of consumption preferences, and a function that computes the moments of a Markov process. Merton, Robert C (1971) , Tauchen, George (1986) , Wickham, Hadley (2009, ISBN:978-0-387-98140-6 ). 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While several 'R' packages have been developed to interface 'sigma.js', all were developed for v1.x.x and none have migrated to v2.4.0 nor are they planning to. This package builds upon the 'sigmaNet' package, and users familiar with it will recognize the similar design approach. Two extensions have been added to the classic 'sigma.js' visualizations by overriding the underlying 'JavaScript' code, enabling to draw a frame around node labels, and to display labels on multiple lines by parsing line breaks. Other additional functionalities that did not require overriding 'sigma.js' code include toggling node visibility when clicked using a node attribute and highlighting specific edges. 'sigma.js' is currently preparing a stable release v3.0.0, and this package plans to update to it when it is available. 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Primary functions provide means to generate data-driven stratifications & methods for allocating samples. Intermediate functions for calculating and extracting important information about input covariates and samples are also included. Processing outcomes are intended to help forest and environmental management practitioners better optimize field sample placement as well as assess and augment existing sample networks in the context of data distributions and conditions. ALS data is the primary intended use case, however any rasterized remote sensing data can be used, enabling data-driven stratifications and sampling approaches. 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It performs statistical tests on the VIMPs and outputs whether the covariate is significant along with the p-values. Package: r-cran-shallot Architecture: all Version: 0.4.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1405 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rscala, r-cran-commonsmath Filename: pool/dists/focal/main/r-cran-shallot_0.4.10-1.ca2004.1_all.deb Size: 1245224 MD5sum: e60d331fcdfcd35ffe1058c0bca23599 SHA1: b4052b74a0220dd07aad6d2cce8c4aae934ed5f7 SHA256: f2bff5d2bc82fd9cfd8acf2ee31da764f6f57cdcab95821ed188cc1fa73a7f50 SHA512: a359a7ad734154bb1af343a1b176e7090b4009f0e9454bfcbcaab64fe1fbb1f0dcb2c6d08b69bd375ad5ff6573680c9cf1e7e20e02d9b9c56a70a051c21c9b06 Homepage: https://cran.r-project.org/package=shallot Description: CRAN Package 'shallot' (Random Partition Distribution Indexed by Pairwise Information) Implementations are provided for the models described in the paper D. B. Dahl, R. Day, J. Tsai (2017) . 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Package: r-cran-shannon Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 448 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-vares, r-cran-extradistr Suggests: r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-shannon_0.2.0-1.ca2004.1_all.deb Size: 359172 MD5sum: e958970f3e9edb849f8020b137df757b SHA1: 31bce6249c62a7139a7eb9203ab3be09af681b93 SHA256: 76711f781bd0b3239a8b7a0620195fc4b254b2ad448dadfdd0d3f1c4c3be14ec SHA512: 262ce98ac9b2fa4bcf5401f7d78484624b745513ebd8dc6ebac1d20c25b3526aa9ab0135ee3213aa853d64e1df6f459177df0af291899aaac06a5d4321877f75 Homepage: https://cran.r-project.org/package=shannon Description: CRAN Package 'shannon' (Computation of Entropy Measures and Relative Loss) The functions allow for the numerical evaluation of some commonly used entropy measures, such as Shannon entropy, Rényi entropy, Havrda and Charvat entropy, and Arimoto entropy, at selected parametric values from several well-known and widely used probability distributions. 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You provide the data and define the value function, it retures the estimated Shapley values based on sampling methods or experimental designs. Package: r-cran-shape Architecture: all Version: 1.4.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 807 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-shape_1.4.6.1-1.ca2004.1_all.deb Size: 745600 MD5sum: 3c90dbd42014926223300a71537dc153 SHA1: d0248b7528d82f6cfbbf3af3a390a5c6ea56f9a1 SHA256: 626c16b6a860ec9ab0cfdf37ede7c8fff477e38b2c6bcf26052712558f90a696 SHA512: 3dd466eb0e918f2a89499c1e05c8332586a5f18a64983f4c46a3437db441c24e49249edeaa373922bdb65c514bbb796b2fa2eb2bfb5da3947deebdae1fe18222 Homepage: https://cran.r-project.org/package=shape Description: CRAN Package 'shape' (Functions for Plotting Graphical Shapes, Colors) Functions for plotting graphical shapes such as ellipses, circles, cylinders, arrows, ... Package: r-cran-shapechange Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 230 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-coneproj, r-cran-quadprog Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-shapechange_1.5-1.ca2004.1_all.deb Size: 204908 MD5sum: a8ba92718b67ed157236da157221da3a SHA1: c8734337a557f756d42bea6a5ee6cb632750e6b6 SHA256: 5247bdf3dcebf87e699c18081bc295b53010f40a7cc272cc9f18535419c08da5 SHA512: d208fe65d38b538d3d9dcc13bf7e314b37375115e0b81f9d233bfe74e5235c850edbdf2de64b5e4aab27f3cc5f4ffdd7ce08042b98464002f7d9a75f724f8bba Homepage: https://cran.r-project.org/package=ShapeChange Description: CRAN Package 'ShapeChange' (Change-Point Estimation using Shape-Restricted Splines) In a scatterplot where the response variable is Gaussian, Poisson or binomial, we consider the case in which the mean function is smooth with a change-point, which is a mode, an inflection point or a jump point. 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Package: r-cran-shapena Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-mvtnorm, r-cran-mice Filename: pool/dists/focal/main/r-cran-shapena_0.0.2-1.ca2004.1_all.deb Size: 83128 MD5sum: 05a2c843d723ab94abff0fcb36a25ac0 SHA1: 91646dcc29b80d8fa46a9002a7143b22079ec743 SHA256: 8cbec31ac6b8eb32efc83ee90b797533dfd738be8dc4402b1b5ac79ba9f4266f SHA512: 347009e1929066518337b4ce7b31a97181b6e79bdcf561896e5e976b13dc92f5b50d20a89787f7e32a2829cb65e6d469b41a08d04cbf4627b59c3e86c579beb4 Homepage: https://cran.r-project.org/package=shapeNA Description: CRAN Package 'shapeNA' (M-Estimation of Shape for Data with Missing Values) M-estimators of location and shape following the power family (Frahm, Nordhausen, Oja (2020) ) are provided in the case of complete data and also when observations have missing values together with functions aiding their visualization. Package: r-cran-shapepattern Architecture: all Version: 3.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 228 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sp, r-cran-igraph, r-cran-terra, r-cran-landscapemetrics, r-cran-raster Filename: pool/dists/focal/main/r-cran-shapepattern_3.1.0-1.ca2004.1_all.deb Size: 196428 MD5sum: 5020baf262d9962538e7772ea318a1ae SHA1: babceb9483da1b2fc6170b117ffb9e0fa7dd5e46 SHA256: 69ee7d11b932c5294fca438612b141378e1cc32dc764e0ec96ea9076104cdeb7 SHA512: 441c8ddfe5649e8d04cc7d1f843108a9f880ae117d4d1ea09f03763687b176043ca0ee5bdb97c5785260caed5b4c394fe83f344f374a804a3f95ae48b36864ab Homepage: https://cran.r-project.org/package=ShapePattern Description: CRAN Package 'ShapePattern' (Tools for Analyzing Shapes and Patterns) This is an evolving and growing collection of tools for the quantification, assessment, and comparison of shape and pattern. This collection provides tools for: (1) the spatial decomposition of planar shapes using 'ShrinkShape' to incrementally shrink shapes to extinction while computing area, perimeter, and number of parts at each iteration of shrinking; the spectra of results are returned in graphic and tabular formats (Remmel 2015) , (2) simulating landscape patterns, (3) provision of tools for estimating composition and configuration parameters from a categorical (binary) landscape map (grid) and then simulates a selected number of statistically similar landscapes. Class-focused pattern metrics are computed for each simulated map to produce empirical distributions against which statistical comparisons can be made. The code permits the analysis of single maps or pairs of maps (Remmel and Fortin 2013) , (4) counting the number of each first-order pattern element and converting that information into both frequency and empirical probability vectors (Remmel 2020) , and (5) computing the porosity of raster patches . NOTE: This is a consolidation of existing packages ('PatternClass', 'ShapePattern') to begin warehousing all shape and pattern code in a common package. Additional utility tools for handling data are provided and this package will be added to as more tools are created, cleaned-up, and documented. Note that all future developments will appear in this package and that 'PatternClass' will eventually be archived. Package: r-cran-shaper Architecture: all Version: 1.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3593 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-plotrix, r-cran-jpeg, r-cran-pixmap, r-cran-wavethresh, r-cran-vegan, r-cran-mass Filename: pool/dists/focal/main/r-cran-shaper_1.0-1-1.ca2004.1_all.deb Size: 3606524 MD5sum: de8fadabcc7d16a560880aaf239fb150 SHA1: 41abba1b22d60d4bf2cf880bd1d48c06a5295369 SHA256: 74ce59177ea4acae0e22abc7c35412634c160ea7e993aae8a161fedf2caba25c SHA512: 36fd4d2502a10f7dc3623f74fd42bf5c0a42c513da8ab7411be3d4dd6493027fa431c2a00003a006f7ce7ed32b117a6f898650e5a373a90ca1d4987006c86bba Homepage: https://cran.r-project.org/package=shapeR Description: CRAN Package 'shapeR' (Collection and Analysis of Otolith Shape Data) Studies otolith shape variation among fish populations. Otoliths are calcified structures found in the inner ear of teleost fish and their shape has been known to vary among several fish populations and stocks, making them very useful in taxonomy, species identification and to study geographic variations. The package extends previously described software used for otolith shape analysis by allowing the user to automatically extract closed contour outlines from a large number of images, perform smoothing to eliminate pixel noise described in Haines and Crampton (2000) , choose from conducting either a Fourier or wavelet see Gençay et al (2001) transform to the outlines and visualize the mean shape. The output of the package are independent Fourier or wavelet coefficients which can be directly imported into a wide range of statistical packages in R. The package might prove useful in studies of any two dimensional objects. Package: r-cran-shaperotator Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plot3d Suggests: r-cran-geomorph Filename: pool/dists/focal/main/r-cran-shaperotator_0.1.0-1.ca2004.1_all.deb Size: 90408 MD5sum: ce8db85ff0ba508694c614f8536ea302 SHA1: 76bf65efa9259b18ffe425198612be26da111d5b SHA256: 7ea312f343be54a934eba279643cce556ada300d90e0dab7cecc28e2eca490dd SHA512: e901d06bd2eba560b6f71ffb8587f6198b5b8b17e78a042bf10a2ebc6bc20fa1955a2b1fce344fa27f220ec7234e9b62c44c67cac263b7b911e488eded608afc Homepage: https://cran.r-project.org/package=ShapeRotator Description: CRAN Package 'ShapeRotator' (Standardised Rigid Rotations of Articulated Three-DimensionalStructures) Here we describe a simple geometric rigid rotation approach that removes the effect of random translation and rotation, enabling the morphological analysis of 3D articulated structures. Our method is based on Cartesian coordinates in 3D space so it can be applied to any morphometric problem that also uses 3D coordinates. See Vidal-García, M., Bandara, L., Keogh, J.S. (2018) . 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See Dryden, I.L. and Mardia, K.V. (2016). Statistical shape analysis, with Applications in R (2nd Edition), John Wiley and Sons. Package: r-cran-shapeselectforest Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1495 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-coneproj, r-cran-raster Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-shapeselectforest_1.7-1.ca2004.1_all.deb Size: 176184 MD5sum: c2365e68ac0646bdd49cafd75b5baafe SHA1: 5880a37c83e0e739f4489af9ffd2d95551205497 SHA256: 6bc67c0c0bb8ae64ebafb415ab344e0401d05ae96f9b572d608cba1403d53ec2 SHA512: fb8fbfcaec82200b88dac65d99d118349eb250f1e71260c648113eaae8460c68d7163ab5f5f98eb2275123d98cd106b00d64c3889cf3b36a8536a2951641db73 Homepage: https://cran.r-project.org/package=ShapeSelectForest Description: CRAN Package 'ShapeSelectForest' (Shape Selection for Landsat Time Series of Forest Dynamics) Landsat satellites collect important data about global forest conditions. Documentation about Landsat's role in forest disturbance estimation is available at the site . By constrained quadratic B-splines, this package delivers an optimal shape-restricted trajectory to a time series of Landsat imagery for the purpose of modeling annual forest disturbance dynamics to behave in an ecologically sensible manner assuming one of seven possible "shapes", namely, flat, decreasing, one-jump (decreasing, jump up, decreasing), inverted vee (increasing then decreasing), vee (decreasing then increasing), linear increasing, and double-jump (decreasing, jump up, decreasing, jump up, decreasing). The main routine selects the best shape according to the minimum Bayes information criterion (BIC) or the cone information criterion (CIC), which is defined as the log of the estimated predictive squared error. The package also provides parameters summarizing the temporal pattern including year(s) of inflection, magnitude of change, pre- and post-inflection rates of growth or recovery. In addition, it contains routines for converting a flat map of disturbance agents to time-series disturbance maps and a graphical routine displaying the fitted trajectory of Landsat imagery. Package: r-cran-shapforxgboost Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 887 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-xgboost, r-cran-data.table, r-cran-ggforce, r-cran-ggextra, r-cran-rcolorbrewer, r-cran-ggpubr, r-cran-bbmisc Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-gridextra, r-cran-here, r-cran-lightgbm Filename: pool/dists/focal/main/r-cran-shapforxgboost_0.1.3-1.ca2004.1_all.deb Size: 816948 MD5sum: 1d5c2587f7d9a872ffe7d7de9072b2a6 SHA1: 50eb3502dec3b9891adb62404b1f0660746a2e76 SHA256: 2523b9c4d19ab580ef6f801ba542a9dd5ed31088118245ad29755ac3edf92513 SHA512: ff9df3cd372617ba1c91ae002d7f313944b3491a10ab6f85dd85ff5b805c3844496766a7bc19ddb35e4614b2923dce7cfceabde79af15c6f64cf6d7145202e57 Homepage: https://cran.r-project.org/package=SHAPforxgboost Description: CRAN Package 'SHAPforxgboost' (SHAP Plots for 'XGBoost') Aid in visual data investigations using SHAP (SHapley Additive exPlanation) visualization plots for 'XGBoost' and 'LightGBM'. It provides summary plot, dependence plot, interaction plot, and force plot and relies on the SHAP implementation provided by 'XGBoost' and 'LightGBM'. Please refer to 'slundberg/shap' for the original implementation of SHAP in 'Python'. Package: r-cran-shapley Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1023 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-h2o, r-cran-curl, r-cran-waffle, r-cran-pander Filename: pool/dists/focal/main/r-cran-shapley_0.5-1.ca2004.1_all.deb Size: 792372 MD5sum: 79ff161aa96a9d153b81acb352f49621 SHA1: 88f5adf08318598d33b6d31ed357143a63960fb0 SHA256: eadb0e16306945921d753ffd62b0c7b7b14aa0a256b350be368fad4dc9d725ae SHA512: c046f4e2cefa58acfa65c47cbd4b70c7dbeb751c73bb90917f090f5a7963639318be0713c7857fd8a49f361002766f6ef5bbd2781ec74c089827316e81168953 Homepage: https://cran.r-project.org/package=shapley Description: CRAN Package 'shapley' (Weighted Mean SHAP and CI for Robust Feature Assessment in MLGrid) This R package introduces Weighted Mean SHapley Additive exPlanations (WMSHAP), an innovative method for calculating SHAP values for a grid of fine-tuned base-learner machine learning models as well as stacked ensembles, a method not previously available due to the common reliance on single best-performing models. By integrating the weighted mean SHAP values from individual base-learners comprising the ensemble or individual base-learners in a tuning grid search, the package weights SHAP contributions according to each model's performance, assessed by multiple either R squared (for both regression and classification models). alternatively, this software also offers weighting SHAP values based on the area under the precision-recall curve (AUCPR), the area under the curve (AUC), and F2 measures for binary classifiers. It further extends this framework to implement weighted confidence intervals for weighted mean SHAP values, offering a more comprehensive and robust feature importance evaluation over a grid of machine learning models, instead of solely computing SHAP values for the best model. This methodology is particularly beneficial for addressing the severe class imbalance (class rarity) problem by providing a transparent, generalized measure of feature importance that mitigates the risk of reporting SHAP values for an overfitted or biased model and maintains robustness under severe class imbalance, where there is no universal criteria of identifying the absolute best model. Furthermore, the package implements hypothesis testing to ascertain the statistical significance of SHAP values for individual features, as well as comparative significance testing of SHAP contributions between features. Additionally, it tackles a critical gap in feature selection literature by presenting criteria for the automatic feature selection of the most important features across a grid of models or stacked ensembles, eliminating the need for arbitrary determination of the number of top features to be extracted. This utility is invaluable for researchers analyzing feature significance, particularly within severely imbalanced outcomes where conventional methods fall short. Moreover, it is also expected to report democratic feature importance across a grid of models, resulting in a more comprehensive and generalizable feature selection. The package further implements a novel method for visualizing SHAP values both at subject level and feature level as well as a plot for feature selection based on the weighted mean SHAP ratios. Package: r-cran-shapleyoutlier Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1115 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-rdpack, r-cran-tibble, r-cran-tidyr, r-cran-robustbase, r-cran-forcats, r-cran-egg, r-cran-ggplot2, r-cran-gridextra, r-cran-rcolorbrewer, r-cran-magrittr Suggests: r-cran-cellwise, r-cran-robusthd, r-cran-knitr, r-cran-mass, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-shapleyoutlier_0.1.2-1.ca2004.1_all.deb Size: 789156 MD5sum: 6b51e04bc1f2b469cf03d36c07aefb86 SHA1: a72a7f149ab1c2bf3e68db426b5f19784e136424 SHA256: 8877bd579ec9f0fee2c64cfe20e5c20c9a0c2b443f15954569f910046e87bd21 SHA512: a4d34f3db754d5c9a97bd5158bef23b867e79cd20ad19226f11f8877860910a74db42fd6cc34072e76198cf67e707a8fe078d6544b625177d392f207314f6367 Homepage: https://cran.r-project.org/package=ShapleyOutlier Description: CRAN Package 'ShapleyOutlier' (Multivariate Outlier Explanations using Shapley Values andMahalanobis Distances) Based on Shapley values to explain multivariate outlyingness and to detect and impute cellwise outliers. Includes implementations of methods described in Mayrhofer and Filzmoser (2023) . Package: r-cran-shapleyvalue Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tidyverse, r-cran-kableextra, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-shapleyvalue_0.2.0-1.ca2004.1_all.deb Size: 20484 MD5sum: e750ca1f2276ceec86a362ec2413af61 SHA1: e963b8535edda827f9a2ae48b4ad211370d0fecf SHA256: f54b88a1f77a5da8a2488618b937ad88652f6adedf3e670875e939fcbac093df SHA512: 4cada80d76b39dc0a85212aef281fd0bb8e8307b388b6e7f9dcd6bdd9a6267c8e20ba9085dcc051d6ca96575d8e350fc5a02e94aa388e175508132e147528a4f Homepage: https://cran.r-project.org/package=ShapleyValue Description: CRAN Package 'ShapleyValue' (Shapley Value Regression for Relative Importance of Attributes) Shapley Value Regression for calculating the relative importance of independent variables in linear regression with avoiding the collinearity. Package: r-cran-shapper Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reticulate, r-cran-dalex, r-cran-ggplot2 Suggests: r-cran-covr, r-cran-knitr, r-cran-randomforest, r-cran-rpart, r-cran-testthat, r-cran-markdown, r-cran-qpdf Filename: pool/dists/focal/main/r-cran-shapper_0.1.3-1.ca2004.1_all.deb Size: 66300 MD5sum: 10d82c445f5aa71eb045cd401780dc56 SHA1: 60d44727e68b874f69bde0b4815f797c38efc27d SHA256: 379e1e5247a663904a23997ab4ebb5bfc3c9178c827e8c99716f1198598d63e5 SHA512: 4fd4d0bbe9c35963864dea5a4d913787f71fb4e0e70df3790c224c488b9879370f4dfec6cb8fbdd99c4ebfb6b99a937469c9b0d0704764e83ceb50e0e31e4981 Homepage: https://cran.r-project.org/package=shapper Description: CRAN Package 'shapper' (Wrapper of Python Library 'shap') Provides SHAP explanations of machine learning models. In applied machine learning, there is a strong belief that we need to strike a balance between interpretability and accuracy. However, in field of the Interpretable Machine Learning, there are more and more new ideas for explaining black-box models. One of the best known method for local explanations is SHapley Additive exPlanations (SHAP) introduced by Lundberg, S., et al., (2016) The SHAP method is used to calculate influences of variables on the particular observation. This method is based on Shapley values, a technique used in game theory. The R package 'shapper' is a port of the Python library 'shap'. Package: r-cran-shapviz Architecture: all Version: 0.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3236 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggfittext, r-cran-gggenes, r-cran-ggplot2, r-cran-ggrepel, r-cran-patchwork, r-cran-rlang, r-cran-xgboost Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shapviz_0.10.1-1.ca2004.1_all.deb Size: 1923036 MD5sum: e55a050b8e9fcb3e1e4a4db7baf9f599 SHA1: ffe977f6aa4b432203bad6a004d702b302265aa0 SHA256: 6f5200f33c031b4ef5147d2ba2abfbe156538a1362c2e370e4d60500e1ceabac SHA512: 51e87888aa1aeb389e343fe227ab60b1be19d450f361ecd08da8d08850eaa0f372393ab46b248147ee0ae7be85bc967f5ae5d63857b962673b1e7ec22f7dd4dc Homepage: https://cran.r-project.org/package=shapviz Description: CRAN Package 'shapviz' (SHAP Visualizations) Visualizations for SHAP (SHapley Additive exPlanations), such as waterfall plots, force plots, various types of importance plots, dependence plots, and interaction plots. These plots act on a 'shapviz' object created from a matrix of SHAP values and a corresponding feature dataset. Wrappers for the R packages 'xgboost', 'lightgbm', 'fastshap', 'shapr', 'h2o', 'treeshap', 'DALEX', and 'kernelshap' are added for convenience. By separating visualization and computation, it is possible to display factor variables in graphs, even if the SHAP values are calculated by a model that requires numerical features. The plots are inspired by those provided by the 'shap' package in Python, but there is no dependency on it. Package: r-cran-shar Architecture: all Version: 2.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2154 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-classint, r-cran-spatstat.explore, r-cran-spatstat.geom, r-cran-spatstat.model, r-cran-spatstat.random, r-cran-terra Suggests: r-cran-covr, r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-spatstat, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shar_2.3.1-1.ca2004.1_all.deb Size: 1200444 MD5sum: d1395f51dc8db6c5aafb357edb6b7a1c SHA1: a9d2988a4be3d083043c8f2fd624a1feb8b53c01 SHA256: 6e9ef69a1251ed3a02053a1e9a6c4de4bc6665e992d713cb6b4e35ec99b43b95 SHA512: 4f0609be1bca6b0dbd854756bafe2f1fe78d63f77b0eb0cf9a63717ca2eb0ddb21e2f6ad01d1f3d94a302c4ef729fa39a1af82ecd8458a0e63fbb3e54eeaed22 Homepage: https://cran.r-project.org/package=shar Description: CRAN Package 'shar' (Species-Habitat Associations) Analyse species-habitat associations in R. Therefore, information about the location of the species (as a point pattern) is needed together with environmental conditions (as a categorical raster). To test for significance habitat associations, one of the two components is randomized. Methods are mainly based on Plotkin et al. (2000) and Harms et al. (2001) . Package: r-cran-sharkdemography Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-interp, r-cran-dplyr, r-cran-tidyr, r-cran-readr, r-cran-popbio, r-cran-iterators, r-cran-dofuture, r-cran-doparallel, r-cran-foreach, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sharkdemography_1.1.0-1.ca2004.1_all.deb Size: 117068 MD5sum: 4f3020d4d612efe24cc945d196b6fd51 SHA1: fd37565c2e00f09311b026f83bb0d6856fe172b9 SHA256: bd5c16268370c9898f202697f5bcd352b4ef6b7793eb09770d5d02f3bbbd8f55 SHA512: ace0f69a4a080c4db81cb23ecf78340d1ec0299006861c2dfd97048efffa317875ad052916470a2c0bf852521b6b21332497041c1a7dd12024f3dd5b46984896 Homepage: https://cran.r-project.org/package=SharkDemography Description: CRAN Package 'SharkDemography' (Shark Demographic Analyses Using Leslie Matrix Models) Run Leslie Matrix models using Monte Carlo simulations for any specified shark species. This package was developed during the publication of Smart, JJ, White, WT, Baje, L, et al. (2020) "Can multi-species shark longline fisheries be managed sustainably using size limits? Theoretically, yes. Realistically, no".J Appl Ecol. 2020; 57; 1847–1860. . Package: r-cran-sharp Architecture: all Version: 1.4.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1974 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-fake, r-cran-abind, r-cran-beepr, r-cran-future, r-cran-future.apply, r-cran-glassofast, r-cran-glmnet, r-cran-igraph, r-cran-mclust, r-cran-nloptr, r-cran-plotrix, r-cran-rdpack, r-cran-withr Suggests: r-cran-cluster, r-cran-corpcor, r-cran-dbscan, r-cran-elasticnet, r-cran-gglasso, r-bioc-mixomics, r-cran-nnet, r-cran-openmx, r-bioc-rcy3, r-cran-randomcolor, r-cran-rmarkdown, r-cran-rpart, r-cran-sgpls, r-cran-sparcl, r-cran-survival, r-cran-testthat, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-sharp_1.4.7-1.ca2004.1_all.deb Size: 1445960 MD5sum: 4d0987068b5f1d048ac218f9a6fed135 SHA1: f419105ce3aa02e00655e3bf0dc1f014ae552ddb SHA256: d3af6572d6b71d403992340dadd960f6b3dbc3f23b64d68621b10d1970186e3b SHA512: 743af7322d30447b4ad4a073f3e053f3fd1f7d2d750bb8d1c7cd919a7a45ca0f3e0025fac3f876bf699c48af2d461830a9409c3c21d6faa4772379c01d46c747 Homepage: https://cran.r-project.org/package=sharp Description: CRAN Package 'sharp' (Stability-enHanced Approaches using Resampling Procedures) In stability selection (N Meinshausen, P Bühlmann (2010) ) and consensus clustering (S Monti et al (2003) ), resampling techniques are used to enhance the reliability of the results. In this package (B Bodinier et al (2025) ), hyper-parameters are calibrated by maximising model stability, which is measured under the null hypothesis that all selection (or co-membership) probabilities are identical (B Bodinier et al (2023a) and B Bodinier et al (2023b) ). Functions are readily implemented for the use of LASSO regression, sparse PCA, sparse (group) PLS or graphical LASSO in stability selection, and hierarchical clustering, partitioning around medoids, K means or Gaussian mixture models in consensus clustering. Package: r-cran-sharper Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3087 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrixcalc, r-cran-zoo, r-cran-epsiwal Suggests: r-cran-xtable, r-cran-xts, r-cran-timeseries, r-cran-quantmod, r-cran-mass, r-cran-ttr, r-cran-testthat, r-cran-sandwich, r-cran-txtplot, r-cran-knitr Filename: pool/dists/focal/main/r-cran-sharper_1.4.0-1.ca2004.1_all.deb Size: 2653628 MD5sum: 0415c07fb727e20a5271b7c55aa5db90 SHA1: 790f82c7c0a1ed035178a9ffa584f6c7405fb32d SHA256: 1a7aa415105a983d2a931e0661ddf16418b3e1a7b5c8b586f8fc4bd49e17795c SHA512: 9699db403aa70fb784210a4ea7b5d9238aabab567f724dcb6ab2bee72d5b87c1b545f81f43c303b78ef83566a5bed9840cfc70d2929abcc9438fbe6ec00fc6d0 Homepage: https://cran.r-project.org/package=SharpeR Description: CRAN Package 'SharpeR' (Statistical Significance of the Sharpe Ratio) A collection of tools for analyzing significance of assets, funds, and trading strategies, based on the Sharpe ratio and overfit of the same. Provides density, distribution, quantile and random generation of the Sharpe ratio distribution based on normal returns, as well as the optimal Sharpe ratio over multiple assets. Computes confidence intervals on the Sharpe and provides a test of equality of Sharpe ratios based on the Delta method. The statistical foundations of the Sharpe can be found in the author's Short Sharpe Course . Package: r-cran-sharpr2 Architecture: all Version: 1.1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm, r-cran-matrix Filename: pool/dists/focal/main/r-cran-sharpr2_1.1.1.0-1.ca2004.1_all.deb Size: 196620 MD5sum: 5a4c6331b6b609a29e8ed6073d02736a SHA1: 294b10954f5868fc202a181f8ad465848cf65a23 SHA256: eab9dc8d19aa8630c898b621dc61400abf5a1864a1d283561d0b66a7af472380 SHA512: b8f621020b84b6fcb869f12538cd864109b992cccdd973628e145fb9ff13d27fe63fcf8c02a2c470e22c6c5f3c4da4e957ab7db80889e7a27df68229baf995cb Homepage: https://cran.r-project.org/package=sharpr2 Description: CRAN Package 'sharpr2' (Estimating Regulatory Scores and Identifying ATAC-STARR Data) An algorithm for identifying high-resolution driver elements for datasets from a high-definition reporter assay library. Xinchen Wang, Liang He, Sarah Goggin, Alham Saadat, Li Wang, Melina Claussnitzer, Manolis Kellis (2017) . Package: r-cran-sharpshootr Architecture: all Version: 2.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 572 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aqp, r-cran-ape, r-cran-soildb, r-cran-cluster, r-cran-lattice, r-cran-reshape2, r-cran-scales, r-cran-circular, r-cran-rcolorbrewer, r-cran-plyr, r-cran-digest, r-cran-e1071, r-cran-stringi, r-cran-curl Suggests: r-cran-mass, r-cran-spdep, r-cran-circlize, r-cran-rvest, r-cran-xml2, r-cran-terra, r-cran-raster, r-cran-exactextractr, r-cran-httr, r-cran-jsonlite, r-cran-igraph, r-cran-dendextend, r-cran-testthat, r-cran-latticeextra, r-cran-farver, r-cran-venn, r-cran-gower, r-cran-daymetr, r-cran-elevatr, r-cran-evapotranspiration, r-cran-zoo, r-cran-soiltaxonomy, r-cran-sf, r-cran-hmisc, r-cran-knitr, r-cran-rmarkdown, r-cran-vegan Filename: pool/dists/focal/main/r-cran-sharpshootr_2.3.3-1.ca2004.1_all.deb Size: 505676 MD5sum: e31ede9c5e5017c550fed59894bd11e4 SHA1: 9c5ef96a899874e9346df5a131d5be2a69d2512f SHA256: d20827dc430cae41b418e1f1788e3311c739c375c0ae9de5de4bfc2994bd76e8 SHA512: cf77abfeb3b8894ab9d8170964b35b8e34154eec5bcaf937cb8d18027435f3d091d7813e5ee1d3a01e171a55b2974cf3b1800843d3c1f7c92d84d74c61abf41e Homepage: https://cran.r-project.org/package=sharpshootR Description: CRAN Package 'sharpshootR' (A Soil Survey Toolkit) A collection of data processing, visualization, and export functions to support soil survey operations. Many of the functions build on the `SoilProfileCollection` S4 class provided by the aqp package, extending baseline visualization to more elaborate depictions in the context of spatial and taxonomic data. While this package is primarily developed by and for the USDA-NRCS, in support of the National Cooperative Soil Survey, the authors strive for generalization sufficient to support any soil survey operation. Many of the included functions are used by the SoilWeb suite of websites and movile applications. These functions are provided here, with additional documentation, to enable others to replicate high quality versions of these figures for their own purposes. Package: r-cran-sharx Architecture: all Version: 1.0-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 283 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-formula, r-cran-dcmle, r-cran-dclone Filename: pool/dists/focal/main/r-cran-sharx_1.0-6-1.ca2004.1_all.deb Size: 198300 MD5sum: 61777c95a489bb527539ad7eaf98ab06 SHA1: 216333ea359932ea88a9b08b8f72985c689a7201 SHA256: 484f535649049a115b666c79e33468bf9bcaba7087ebe9c977100939d36305c4 SHA512: 6070d2b220588640f27843d4f38b21b9dc4e98227ba83c5f14943da8dcab2f5b1181b258c5a5028351728dda86be352134728bc8f14d180c307b6c4b6304df5f Homepage: https://cran.r-project.org/package=sharx Description: CRAN Package 'sharx' (Models and Data Sets for the Study of Species-Area Relationships) Hierarchical models for the analysis of species-area relationships (SARs) by combining several data sets and covariates; with a global data set combining individual SAR studies; as described in Solymos and Lele (2012) . Package: r-cran-shattering Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fnn, r-cran-pdist, r-cran-slam, r-cran-ryacas, r-cran-rmarkdown, r-cran-pracma, r-cran-e1071, r-cran-nmf Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-shattering_1.0.7-1.ca2004.1_all.deb Size: 71660 MD5sum: 07f17a4289459286da7c4b8cb720cf90 SHA1: 6bf0e4b9d20f0c7d20dbeab6f928463b6d57a059 SHA256: 1b7e7ad11868a31882df689a02c554866ada4c5142dfd377102fc058b536cee5 SHA512: 96fdd3a772f9812cadca814336e310f48b55918b667aa9eb1422811906904549a0e7bd993843c56ccf1dbb29e8e506abdb4055b5b61190a3ac7fd41da3709bd6 Homepage: https://cran.r-project.org/package=shattering Description: CRAN Package 'shattering' (Estimate the Shattering Coefficient for a Particular Dataset) The Statistical Learning Theory (SLT) provides the theoretical background to ensure that a supervised algorithm generalizes the mapping f:X -> Y given f is selected from its search space bias F. This formal result depends on the Shattering coefficient function N(F,2n) to upper bound the empirical risk minimization principle, from which one can estimate the necessary training sample size to ensure the probabilistic learning convergence and, most importantly, the characterization of the capacity of F, including its under and overfitting abilities while addressing specific target problems. In this context, we propose a new approach to estimate the maximal number of hyperplanes required to shatter a given sample, i.e., to separate every pair of points from one another, based on the recent contributions by Har-Peled and Jones in the dataset partitioning scenario, and use such foundation to analytically compute the Shattering coefficient function for both binary and multi-class problems. As main contributions, one can use our approach to study the complexity of the search space bias F, estimate training sample sizes, and parametrize the number of hyperplanes a learning algorithm needs to address some supervised task, what is specially appealing to deep neural networks. Reference: de Mello, R.F. (2019) "On the Shattering Coefficient of Supervised Learning Algorithms" ; de Mello, R.F., Ponti, M.A. (2018, ISBN: 978-3319949888) "Machine Learning: A Practical Approach on the Statistical Learning Theory". Package: r-cran-shazam Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2654 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-alakazam, r-cran-ape, r-cran-diptest, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-igraph, r-cran-iterators, r-cran-kernsmooth, r-cran-lazyeval, r-cran-mass, r-cran-progress, r-cran-rlang, r-cran-scales, r-cran-seqinr, r-cran-stringi, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shazam_1.2.0-1.ca2004.1_all.deb Size: 2186696 MD5sum: cec5bef737644590a99e3d0a4aae60db SHA1: 982d16f4390136a1439dbcbf43d2d27a72e28796 SHA256: 564365b7204124bd39c1731085829ab40c3abecd8e8317d7976a734fcdce31a9 SHA512: a3aad61a4630a7d993c72d166d3aad53d67756a8a711ba6dc4e5a0a5570e6d42c7d662cbfd7f3b6cf8e0d154f47cd9b0e3a2f111610fccad8079003c5c92aa10 Homepage: https://cran.r-project.org/package=shazam Description: CRAN Package 'shazam' (Immunoglobulin Somatic Hypermutation Analysis) Provides a computational framework for analyzing mutations in immunoglobulin (Ig) sequences. Includes methods for Bayesian estimation of antigen-driven selection pressure, mutational load quantification, building of somatic hypermutation (SHM) models, and model-dependent distance calculations. Also includes empirically derived models of SHM for both mice and humans. Citations: Gupta and Vander Heiden, et al (2015) , Yaari, et al (2012) , Yaari, et al (2013) , Cui, et al (2016) . Package: r-cran-shelf Architecture: all Version: 1.12.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 840 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-flexsurv, r-cran-ggextra, r-cran-ggplot2, r-cran-ggridges, r-cran-hmisc, r-cran-rmarkdown, r-cran-scales, r-cran-shiny, r-cran-shinymatrix, r-cran-sn, r-cran-survival, r-cran-survminer, r-cran-tidyr Suggests: r-cran-ggally, r-cran-knitr, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-shelf_1.12.0-1.ca2004.1_all.deb Size: 643032 MD5sum: e58dbf6ed508a92466c0c0a9b2f51ef5 SHA1: 0852d2e2dce2357070ccc3c25d18aad98604ce70 SHA256: ebc6dc7dad0d3b8c8cf1029e90d3b34b962c8ee2c6f128483b40e6a7f154160b SHA512: 97c3663c3276acd593f9636f5ebd50dc86056c424f0e0392f8f61b85ffe17ef0c85ef2b377fc091b040d1691c05e0dab9472232d90d992fb260b4adb3a669b2d Homepage: https://cran.r-project.org/package=SHELF Description: CRAN Package 'SHELF' (Tools to Support the Sheffield Elicitation Framework) Implements various methods for eliciting a probability distribution for a single parameter from an expert or a group of experts. The expert provides a small number of probability judgements, corresponding to points on his or her cumulative distribution function. A range of parametric distributions can then be fitted and displayed, with feedback provided in the form of fitted probabilities and percentiles. For multiple experts, a weighted linear pool can be calculated. Also includes functions for eliciting beliefs about population distributions; eliciting multivariate distributions using a Gaussian copula; eliciting a Dirichlet distribution; eliciting distributions for variance parameters in a random effects meta-analysis model; survival extrapolation. R Shiny apps for most of the methods are included. Package: r-cran-shellchron Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 578 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rtop, r-cran-zoo, r-cran-ggplot2, r-cran-tidyr, r-cran-scales, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-shellchron_0.4.0-1.ca2004.1_all.deb Size: 521452 MD5sum: 42790e9ccfd3009f14114d67177628c4 SHA1: f65829febc81751fbc9c10a8816884e70a7a91c1 SHA256: f8ce636e3730f7dff4037f8a067377ea5103aee9e957534f60448af67ae0daa8 SHA512: eb33d1320504f959687fa069cd169c6e246fa1f15b8f9c34c25d91c2949f22253de7248677b80c8e2b8de49057fb2d75445350ebe2af791189a64ba7ad2266f9 Homepage: https://cran.r-project.org/package=ShellChron Description: CRAN Package 'ShellChron' (Builds Chronologies from Oxygen Isotope Profiles in Shells) Takes as input a stable oxygen isotope (d18O) profile measured in growth direction (D) through a shell + uncertainties in both variables (d18O_err & D_err). It then models the seasonality in the d18O record by fitting a combination of a growth and temperature sine wave to year-length chunks of the data (see Judd et al., (2018) ). This modeling is carried out along a sliding window through the data and yields estimates of the day of the year (Julian Day) and local growth rate for each data point. Uncertainties in both modeling routine and the data itself are propagated and pooled to obtain a confidence envelope around the age of each data point in the shell. The end result is a shell chronology consisting of estimated ages of shell formation relative to the annual cycle with their uncertainties. All formulae in the package serve this purpose, but the user can customize the model (e.g. number of days in a year and the mineralogy of the shell carbonate) through input parameters. Package: r-cran-shelltrace Architecture: all Version: 3.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2780 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xlsx, r-cran-bmp, r-cran-tiff Filename: pool/dists/focal/main/r-cran-shelltrace_3.5.1-1.ca2004.1_all.deb Size: 2436684 MD5sum: 1708c6cb9cb9d61ce4b70fe392e05096 SHA1: 6d16e996deb317ac9b86c0c499ac97dac3e298ee SHA256: 5a8b049172994ef381c8d0db62e037a4b8a089ae04c68d537b74c50a2bdcb79a SHA512: c42aeafb21e7c9725629b38b5490cb02c569d6b3ca631e601c11a226e7867ff0b3e27897ed0bcbf54b7ee05c128b8b8a9217bc6312c9a8fbdffa6e9d2ab03c82 Homepage: https://cran.r-project.org/package=shelltrace Description: CRAN Package 'shelltrace' (Bivalve Growth and Trace Element Accumulation Model) Contains all the formulae of the growth and trace element uptake model described in the equally-named Geoscientific Model Development paper (de Winter, 2017, ). The model takes as input a file with X- and Y-coordinates of digitized growth increments recognized on a longitudinal cross section through the bivalve shell, as well as a BMP file of an elemental map of the cross section surface with chemically distinct phases separated by phase analysis. It proceeds by a step-by-step process described in the paper, by which digitized growth increments are used to calculate changes in shell height, shell thickness, shell volume, shell mass and shell growth rate through the bivalve's life time. Then, results of this growth modelling are combined with the trace element mapping results to trace the incorporation of trace elements into the bivalve shell. Results of various modelling parameters can be exported in the form of XLSX files. Package: r-cran-shelter Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-checkmate, r-cran-getpass, r-cran-yaml, r-cran-filelock, r-cran-rappdirs, r-cran-sodium Suggests: r-cran-testthat, r-cran-rstudioapi, r-cran-mockery, r-cran-keyring Filename: pool/dists/focal/main/r-cran-shelter_0.2.1-1.ca2004.1_all.deb Size: 74756 MD5sum: f3def3d8d15664b76fad046dea5e9f19 SHA1: 298842fc500528299b3c6ffb9f216c290b8eb8bc SHA256: 345e5a60320be8cb97413df4ea83a9b1d1f9b780ea3659c49a130e746f689fa9 SHA512: 4093685724df537ecdd0dcc0d96349364f13586c3540d9623608e984738f130ffbd8a7d5693aafd5b1bc0130a87ac2af5e7e99918b2fd3dab5a8bbe5eb254af8 Homepage: https://cran.r-project.org/package=shelter Description: CRAN Package 'shelter' (Support for Secure API Key Management) Secure handling of API keys can be difficult. This package provides secure convenience functions for entering / handling API keys and opening connections via inversion of control on those keys. Works seamlessly between production and developer environments. Package: r-cran-sherlock Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 625 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr, r-cran-rlang, r-cran-forcats, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-cowplot, r-cran-scales, r-cran-ggh4x, r-cran-stringr, r-cran-plotly, r-cran-readr, r-cran-openxlsx, r-cran-purrr, r-cran-fs, r-cran-rstudioapi, r-cran-tidytext Suggests: r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-sherlock_0.7.0-1.ca2004.1_all.deb Size: 487596 MD5sum: f8f354b6a294cf6d00af0fa21710c8b9 SHA1: fea4c4c7a94522221716c2b1f2dfa3b516d11dbe SHA256: 08cfd0fd2b2fad11b28eb9e6427710c444ce8dc4f884afbf4c725975af6b800b SHA512: b95fb645ad5f3d226e2d551545342e421c0d1cef9e0960e62222c38a258e070181696bc39e6c44e1e601b32e78948ab8fd8c68c76c3a9e9df9992378c2738838 Homepage: https://cran.r-project.org/package=sherlock Description: CRAN Package 'sherlock' (Graphical Displays for Structured Problem Solving and Diagnosis) Powerful graphical displays and statistical tools for structured problem solving and diagnosis. The functions of the 'sherlock' package are especially useful for applying the process of elimination as a problem diagnosis technique. The 'sherlock' package was designed to seamlessly work with the 'tidyverse' set of packages and provides a collection of graphical displays built on top of the 'ggplot' and 'plotly' packages, such as different kinds of small multiple plots as well as helper functions such as adding reference lines, normalizing observations, reading in data or saving analysis results in an Excel file. References: David Hartshorne (2019, ISBN: 978-1-5272-5139-7). Stefan H. Steiner, R. Jock MacKay (2005, ISBN: 0873896467). Package: r-cran-sherlockholmes Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6463 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-qpdf, r-cran-stringr, r-cran-dpseg, r-cran-tablehtml, r-cran-plotrix, r-cran-zoo, r-cran-stargazer, r-cran-textboxplacement, r-cran-plot.matrix, r-cran-devtools Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sherlockholmes_1.0.1-1.ca2004.1_all.deb Size: 2309060 MD5sum: 503a4c62eece2ecf327d98c064c4037a SHA1: 4ff66b27695a367fd275b0d1515120c169e0612c SHA256: d25f5f615e224236970def94e853c811531b0eae9183f5e7b474463113ed9919 SHA512: 434b758cb90679cda750b24528f46ac86cee31acef442e5060b9753aca25463061ce2cbdd61baf6e3745c169601ae73e7c69396f38aa903d6150db06c764c670 Homepage: https://cran.r-project.org/package=SherlockHolmes Description: CRAN Package 'SherlockHolmes' (Building a Concordance of Terms in a Series of Texts) Compute the frequency distribution of a search term in a series of texts. For example, Arthur Conan Doyle wrote a total of 60 Sherlock Holmes stories, comprised of 54 short stories and 4 longer novels. I wanted to test my own subjective impression that, in many of the stories, Sherlock Holmes' popularity was used as bait to induce the reader to read a story that is essentially not primarily a Sherlock Holmes story. I used the term "Holmes" as a search pattern, since Watson would frequently address him by name, or use his name to describe something that he was doing. My hypothesis is that the frequency distribution of the search pattern "Holmes" is a good proxy for the degree to which a story is or is not truly a Sherlock Holmes story. The results are presented in a manuscript that is available as a vignette and online at . Package: r-cran-shidashi Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3264 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-digest, r-cran-fastmap, r-cran-formatr, r-cran-httr, r-cran-shiny, r-cran-yaml, r-cran-jsonlite Suggests: r-cran-htmltools, r-cran-logger, r-cran-rstudioapi, r-cran-ggplot2, r-cran-ggextra Filename: pool/dists/focal/main/r-cran-shidashi_0.1.6-1.ca2004.1_all.deb Size: 786912 MD5sum: 004434e134905b4729c1298bb535c92b SHA1: 963b4a42f12ed8a27ad82c0902af677ef856a899 SHA256: 9332a5422933d0743434b738408577b8bc7ef4a4e62e1942fd1055115d86f9e2 SHA512: bdd3e0149b920463d2c438f7ec609407d3d299ee173fb1c615559a98abe5e6b08fcc9f06003dac52b992e05491b78728568c15634f641e6ddacab290fd0b088c Homepage: https://cran.r-project.org/package=shidashi Description: CRAN Package 'shidashi' (A Shiny Dashboard Template System) A template system based on 'AdminLTE3' () theme. Comes with default theme that can be easily customized. Developers can upload modified templates on 'Github', and users can easily download templates with 'RStudio' project wizard. The key features of the default template include light and dark theme switcher, resizing graphs, synchronizing inputs across sessions, new notification system, fancy progress bars, and card-like flip panels with back sides, as well as various of 'HTML' tool widgets. Package: r-cran-shiftsharese Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1544 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-formula Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-aer, r-cran-spelling, r-cran-formatr Filename: pool/dists/focal/main/r-cran-shiftsharese_1.1.0-1.ca2004.1_all.deb Size: 1514052 MD5sum: 11903c60dc96220f190d33f06bd7cc9b SHA1: 851f92221b7bbb14ed746e08b052958afb701c66 SHA256: 2a196e3f4275a0c1fbbea41f150b1ef2d34d168ff19975ca071536697a02e35d SHA512: 9ef8f7d2bbe95383db51be9572d46776e4845d0906bcdcc67fa67bd746ff114aba8a6bd85012670de17b1fef3acf58343e5c119aaa5ee9b90ad71bb7968c6eb9 Homepage: https://cran.r-project.org/package=ShiftShareSE Description: CRAN Package 'ShiftShareSE' (Inference in Regressions with Shift-Share Structure) Provides confidence intervals in least-squares regressions when the variable of interest has a shift-share structure, and in instrumental variables regressions when the instrument has a shift-share structure. The confidence intervals implement the AKM and AKM0 methods developed in Adão, Kolesár, and Morales (2019) . Package: r-cran-shinipsum Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 407 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-attempt, r-cran-dt, r-cran-dygraphs, r-cran-ggplot2, r-cran-magrittr, r-cran-plotly Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-shinipsum_0.1.1-1.ca2004.1_all.deb Size: 356100 MD5sum: 73d54b56843895f85ea89f41be689a3f SHA1: b9f0f977a7e7fd0dbee048239a33fbfcf74b877d SHA256: c218c0574082b6ab38f6d6683f992ad44b3592371e97d0437e9e51a176dd5a8f SHA512: 65274ce78e45171c35ffaaa549b0652974b381819adbae6674077f3b11defd3faa555e688c0c7ce0bfae8c4ad813b67d138775d0f2aaecee3889318104c97df3 Homepage: https://cran.r-project.org/package=shinipsum Description: CRAN Package 'shinipsum' (Lorem-Ipsum-Like Helpers for Fast Shiny Prototyping) Prototype your shiny apps quickly with these Lorem-Ipsum-like Helpers. Package: r-cran-shiny.benchmark Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-glue, r-cran-jsonlite, r-cran-progress, r-cran-renv, r-cran-shinytest2, r-cran-stringr, r-cran-testthat, r-cran-fs Suggests: r-cran-covr, r-cran-knitr, r-cran-lintr, r-cran-rcmdcheck, r-cran-rmarkdown, r-cran-mockr, r-cran-spelling Filename: pool/dists/focal/main/r-cran-shiny.benchmark_0.1.1-1.ca2004.1_all.deb Size: 212360 MD5sum: 228ca8ee995c283254f2beb56cfad8a5 SHA1: c460f74551938a1bd8575b2a0f8c96e731cbd4b4 SHA256: a9f4c65485087b091c32acdbb4f68ec565393cf12bf2c1b57fef9611b834d58f SHA512: af566986b4d8511b3e9d599e76e2346557029e202215151e62933630eeded9416ee1c7f6341d7966b70e1fe27a707846ea7c57178cffb004794d1333373d2d08 Homepage: https://cran.r-project.org/package=shiny.benchmark Description: CRAN Package 'shiny.benchmark' (Benchmark the Performance of 'shiny' Applications) Compare performance between different versions of a 'shiny' application based on 'git' references. Package: r-cran-shiny.blueprint Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2147 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-htmltools, r-cran-shiny, r-cran-shiny.react Suggests: r-cran-covr, r-cran-knitr, r-cran-lintr, r-cran-purrr, r-cran-rcmdcheck, r-cran-rmarkdown, r-cran-shiny.router Filename: pool/dists/focal/main/r-cran-shiny.blueprint_0.3.0-1.ca2004.1_all.deb Size: 637760 MD5sum: c5cd28a9288badc3ba1a5218e22a022e SHA1: b47e9df76d6bc10dd0dabafaca6b660009e5132b SHA256: 8dd391d718ecffb0e3e0e24541fea185507a7b7ad4329e77ad707abfb9c0ccf2 SHA512: 4e3293b5bbc72303c2e659d18bf876a64e69399639b83d5b48c0751cd010b0591c77cf06e77ec21140ce41e3896c8c969c7d48e58957450657ebd902ef2c26bb Homepage: https://cran.r-project.org/package=shiny.blueprint Description: CRAN Package 'shiny.blueprint' (Palantir's 'Blueprint' for 'Shiny' Apps) Easily use 'Blueprint', the popular 'React' library from Palantir, in your 'Shiny' app. 'Blueprint' provides a rich set of UI components for creating visually appealing applications and is optimized for building complex, data-dense web interfaces. This package provides most components from the underlying library, as well as special wrappers for some components to make it easy to use them in 'R' without writing 'JavaScript' code. Package: r-cran-shiny.destroy Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 493 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-purrr, r-cran-rlang, r-cran-shiny Suggests: r-cran-bslib, r-cran-htmltools, r-cran-knitr, r-cran-rmarkdown, r-cran-shinytest2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shiny.destroy_0.1.0-1.ca2004.1_all.deb Size: 303336 MD5sum: 1b292178e4b01dba2c4fb4e7f6ab958b SHA1: 1eecbe544f8c6e766d61c57b00a839e2b5f01f3e SHA256: 28a6dde1aa5c5ca9df39dfc0764156a57bb2207e06291d8799c7e8cdb2af522e SHA512: b11495cfd7fc8d3dd5fc6d1a7a33fe353177ba922943ab4f2e1ae8df14ff63e57fb1cf333d7c8b76d8d25f422980285123c9f8fa3a74a91208bd2b0b90430974 Homepage: https://cran.r-project.org/package=shiny.destroy Description: CRAN Package 'shiny.destroy' (Create Destroyable Modules in 'Shiny') Enables the complete removal of various 'Shiny' components, such as inputs, outputs and modules. 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Package: r-cran-shiny.fluent Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3404 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-htmltools, r-cran-jsonlite, r-cran-purrr, r-cran-shiny, r-cran-shiny.react Suggests: r-cran-chromote, r-cran-covr, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-glue, r-cran-imola, r-cran-knitr, r-cran-leaflet, r-cran-mockery, r-cran-plotly, r-cran-rcmdcheck, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-sass, r-cran-shiny.i18n, r-cran-shiny.router, r-cran-shinyjs, r-cran-shinytest2, r-cran-sortable, r-cran-stringi, r-cran-testthat, r-cran-tibble, r-cran-withr Filename: pool/dists/focal/main/r-cran-shiny.fluent_0.4.0-1.ca2004.1_all.deb Size: 1203748 MD5sum: 4ec7c035ae89da515037ece701018d97 SHA1: 7da65d1f70c3fc29ba0d381ac0a9757afe12e748 SHA256: e78e97a885d32f64f1630c62843fbe165ef244d4b1fa735540b52d30d373d75a SHA512: 6e88a6bf20e28cd60cfe79d2a8a80a967ead3a014af64c3249de44d95da730613df8742416ae48036bfece0fa52d236f9736a4067e7e80a1473c7641defaf41a Homepage: https://cran.r-project.org/package=shiny.fluent Description: CRAN Package 'shiny.fluent' (Microsoft Fluent UI for Shiny Apps) A rich set of UI components for building Shiny applications, including inputs, containers, overlays, menus, and various utilities. 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Package: r-cran-shiny.react Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3349 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glue, r-cran-htmltools, r-cran-jsonlite, r-cran-logger, r-cran-purrr, r-cran-rlang, r-cran-shiny, r-cran-stringi Suggests: r-cran-chromote, r-cran-covr, r-cran-knitr, r-cran-leaflet, r-cran-lintr, r-cran-rcmdcheck, r-cran-rmarkdown, r-cran-shinytest2, r-cran-styler, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-shiny.react_0.4.0-1.ca2004.1_all.deb Size: 666988 MD5sum: df4d1856f56bc6bc8ea6d6f932964561 SHA1: 7a01eb86de41e294c621f24ee4cce564809fbd47 SHA256: 03bbbb81562aed92c8bc08ed26728c204fa7d15e899cf3270c67803f3ae945af SHA512: a6d80f60d051202547c1a4b3ce3b576fd85c7ecf59e3a1c50fa7c93bbc03dae01ebf627d8e3f0b8349bfa36beb6a491d034d06e51b6fedbcdd238364893c9838 Homepage: https://cran.r-project.org/package=shiny.react Description: CRAN Package 'shiny.react' (Tools for Using React in Shiny) A toolbox for defining React component wrappers which can be used seamlessly in Shiny apps. Package: r-cran-shiny.reglog Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 920 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-r6, r-cran-shiny, r-cran-dplyr, r-cran-lubridate, r-cran-lifecycle, r-cran-scrypt, r-cran-shinyjs, r-cran-stringi, r-cran-uuid Suggests: r-cran-covr, r-cran-dbi, r-cran-dt, r-cran-devtools, r-cran-emayili, r-cran-gmailr, r-cran-googledrive, r-cran-googlesheets4, r-cran-jsonlite, r-cran-knitr, r-cran-mongolite, r-cran-rmarkdown, r-cran-rsqlite, r-cran-shinytest2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shiny.reglog_0.5.2-1.ca2004.1_all.deb Size: 715584 MD5sum: 383d5f89e93b1cbad34ef0de0689c6b4 SHA1: 15ca08e25fd85f737d20066359458a42f04f01a6 SHA256: 791739ca2c2e34ba1570e74787a872cc67eacce334486bee9776cae4326c7d95 SHA512: 5cfe9a01f4bec70fedcaf72a1582a145626967991b298f16587a94506538592386ace9e7c8cf950ccc9a4bf6bf7e327f8ca76699a72ae910244336326b685e69 Homepage: https://cran.r-project.org/package=shiny.reglog Description: CRAN Package 'shiny.reglog' (Optional Login and Registration Module System for ShinyApps) RegLog system provides a set of shiny modules to handle register procedure for your users, alongside with login, edit credentials and password reset functionality. It provides support for popular SQL databases and optionally googlesheet-based database for easy setup. For email sending it provides support for 'emayili' and 'gmailr' backends. Architecture makes customizing usability pretty straightforward. The authentication system created with shiny.reglog is designed to be optional: user don't need to be logged-in to access your application, but when logged-in the user data can be used to read from and write to relational databases. Package: r-cran-shiny.router Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-htmltools, r-cran-glue, r-cran-rlang, r-cran-shiny Suggests: r-cran-covr, r-cran-lintr, r-cran-rcmdcheck, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shiny.router_0.3.1-1.ca2004.1_all.deb Size: 81680 MD5sum: 653cb56bdd2e8a0f80063183bfd37342 SHA1: 52ffeb3777d57d6616777a5c303dc2f7226bd14a SHA256: e6b6e587097b1f03ee8b0f7a44aecce0d2e04753d933cbb9d3754c1cac9894d3 SHA512: 58323cc547d44c01ed1a3b0aeb524cad5ec05fc09080283dc362f3bd612a6cc096be4e8e222e64163cdfd23c34b070059669a527f90b212a29deb09345d54016 Homepage: https://cran.r-project.org/package=shiny.router Description: CRAN Package 'shiny.router' (Basic Routing for Shiny Web Applications) It is a simple router for your Shiny apps. 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Package: r-cran-shiny.semantic Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3213 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-glue, r-cran-htmltools, r-cran-htmlwidgets, r-cran-jsonlite, r-cran-magrittr, r-cran-purrr, r-cran-r6, r-cran-semantic.assets, r-cran-shiny Suggests: r-cran-covr, r-cran-chromote, r-cran-dplyr, r-cran-dt, r-cran-gapminder, r-cran-knitr, r-cran-leaflet, r-cran-lintr, r-cran-markdown, r-cran-mockery, r-cran-plotly, r-cran-rcmdcheck, r-cran-rmarkdown, r-cran-testthat, r-cran-shinytest2, r-cran-tibble, r-cran-withr Filename: pool/dists/focal/main/r-cran-shiny.semantic_0.5.1-1.ca2004.1_all.deb Size: 2859196 MD5sum: 66d196b34aac4f20b50f7778b9464141 SHA1: 93f71b38dbc16fc2d4787ac35dc9037627e20b60 SHA256: 356b084d2083fbcf543d8a906460f3dea310ebc9a469c5719380aa206feeafd9 SHA512: 340dc8c5a40a5905459eb0e3d385a7284fe23b3d678f59cf2f20d4481cfcf5b7b72a6e591dee9ae29de532c09dc5f0402807d65a1a56dc6073bdd5a260592644 Homepage: https://cran.r-project.org/package=shiny.semantic Description: CRAN Package 'shiny.semantic' (Semantic UI Support for Shiny) Creating a great user interface for your Shiny apps can be a hassle, especially if you want to work purely in R and don't want to use, for instance HTML templates. 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Package: r-cran-shiny.tailwind Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 260 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-htmltools, r-cran-shiny Suggests: r-cran-fontawesome, r-cran-palmerpenguins, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-shiny.tailwind_0.2.2-1.ca2004.1_all.deb Size: 173048 MD5sum: 11867e0c820759ec099656f9522fb4d9 SHA1: 1a3b868234e4c5b6bc61d18fa070c6e0c3af0432 SHA256: 0bc7d4e41256206b072ad27f6de46d5276a47013c17ed20cfbe20cc885e964db SHA512: 44916419b94767c17105c1d1c9102e2d282d2ed3cd960bf964668a1b8c15640659648a501eb9f9863ff544ac86a7f6bf3b4fca271cd18b085b04f96b0a00b0b0 Homepage: https://cran.r-project.org/package=shiny.tailwind Description: CRAN Package 'shiny.tailwind' ('TailwindCSS' for Shiny Apps) Allows 'TailwindCSS' to be used in Shiny apps with just-in-time compiling, custom css with '@apply' directive, and custom tailwind configurations. Package: r-cran-shiny.telemetry Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2282 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-digest, r-cran-dplyr, r-cran-glue, r-cran-htmltools, r-cran-httr2, r-cran-jsonlite, r-cran-lifecycle, r-cran-logger, r-cran-lubridate, r-cran-odbc, r-cran-purrr, r-cran-r6, r-cran-rlang, r-cran-rsqlite, r-cran-shiny, r-cran-stringr, r-cran-tidyr Suggests: r-cran-box, r-cran-config, r-cran-dt, r-cran-knitr, r-cran-mongolite, r-cran-plotly, r-cran-plumber, r-cran-rcolorbrewer, r-cran-rmariadb, r-cran-rmarkdown, r-cran-rpostgres, r-cran-rpostgresql, r-cran-scales, r-cran-semantic.dashboard, r-cran-shiny.semantic, r-cran-shinyjs, r-cran-testthat, r-cran-timevis, r-cran-withr Filename: pool/dists/focal/main/r-cran-shiny.telemetry_0.3.1-1.ca2004.1_all.deb Size: 1519728 MD5sum: 134aeb697a4dc82a588157062e2d8175 SHA1: 3552d3b8acd738f27f5b843d5689d551b3288021 SHA256: e02894e95fb6a3786c989af1a60699720681476a025d59c7b225b6d4bd64ff5f SHA512: e24273a1717a9199f6001e9236f8cc26c9eb38ddf9df1d21fa6fed14e35742574c7f0bad55e29289418e241e2066a0944186236490b3581debbb1ac1e32b0f2d Homepage: https://cran.r-project.org/package=shiny.telemetry Description: CRAN Package 'shiny.telemetry' ('Shiny' App Usage Telemetry) Enables instrumentation of 'Shiny' apps for tracking user session events such as input changes, browser type, and session duration. 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Package: r-cran-shinychakraui Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 20895 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-reactr, r-cran-shiny, r-cran-jsonlite, r-cran-rlang, r-cran-stringr, r-cran-formatr, r-cran-fontawesome Suggests: r-cran-testthat, r-cran-v8 Filename: pool/dists/focal/main/r-cran-shinychakraui_1.1.1-1.ca2004.1_all.deb Size: 3674328 MD5sum: 78fd2b5bad57fc328f34d2133c8845d9 SHA1: d0f7079092a8924395ed108350780c5b57342076 SHA256: b328f4c8dae7734fa0e1e7a104307bafaa3b76b6c3aeef5ed2107e6e45be63e0 SHA512: 46fa90aaa433f0eff420ebae16465d48bd83e20f6154481593ab4a212b198ed41fc0cefabc8efa9a23a6d1867e64da9e6aca3955c9efb1671f0b4b95f2ab7ca7 Homepage: https://cran.r-project.org/package=shinyChakraUI Description: CRAN Package 'shinyChakraUI' (A Wrapper of the 'React' Library 'Chakra UI' for 'Shiny') Makes the 'React' library 'Chakra UI' usable in 'Shiny' apps. 'Chakra UI' components include alert dialogs, drawers (sliding panels), menus, modals, popovers, sliders, and more. Package: r-cran-shinychat Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1795 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bslib, r-cran-coro, r-cran-ellmer, r-cran-fastmap, r-cran-htmltools, r-cran-jsonlite, r-cran-promises, r-cran-rlang, r-cran-shiny Suggests: r-cran-later, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shinychat_0.2.0-1.ca2004.1_all.deb Size: 365756 MD5sum: c42adf454ea32dfeb2cb995e1beda611 SHA1: 436161c0bedcadf5ace865feeb6d7fe7e9b01a31 SHA256: c2a35a72116c7f6783e3674e4a8a35691ba84b659bcf16f195acf0e43b43ee27 SHA512: 9440b1c8d599a9b25955fc4afa7af598dd099fda6fff78e30bfc3f6d7e0d07eb3faebfbb9b8fddb167663da5ab6b21dc57b34aecc8e294467b3e9f801bfd12f1 Homepage: https://cran.r-project.org/package=shinychat Description: CRAN Package 'shinychat' (Chat UI Component for 'shiny') Provides a scrolling chat interface with multiline input, suitable for creating chatbot apps based on Large Language Models (LLMs). 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Package: r-cran-shinyclt Architecture: all Version: 0.9.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 182 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-testthat, r-cran-purrr, r-cran-shiny, r-cran-gamlss, r-cran-dplyr, r-cran-plotly, r-cran-future, r-cran-shinycssloaders, r-cran-waiter, r-cran-shinythemes, r-cran-shinywidgets, r-cran-cachem, r-cran-knitr Filename: pool/dists/focal/main/r-cran-shinyclt_0.9.4-1.ca2004.1_all.deb Size: 40408 MD5sum: 16837fb63ed498e38d7357a6fbb884b7 SHA1: 1c4eba7d20b436dc251dbf4f7f02276c72a7cc60 SHA256: 84900747c92bf1ba234256caba1d9fa7db0229a13e26ccc28aa50e35ccd7cd70 SHA512: 17c126696db7880ef345df741c8fa9492fc9e8e7d687ae7550bdbf7e68e5323308986e8e1c3cebcc7f531dd8748064243c95da6d612d5886d04e385e2eb71b31 Homepage: https://cran.r-project.org/package=shinyCLT Description: CRAN Package 'shinyCLT' (Central Limit Theorem 'shiny' Application) A 'shiny' application estimating the operating characteristics of the Student's t-test by Student (1908) , Welch's t-test by Welch (1947) , and Wilcoxon test by Wilcoxon (1945) in one-sample or two-sample cases, in settings defined by the user (conditional distribution, sample size per group, location parameter per group, nuisance parameter per group), using Monte Carlo simulations Malvin H. Kalos, Paula A. Whitlock (2008) . Package: r-cran-shinycohortbuilder Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2914 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-glue, r-cran-bslib, r-cran-jsonlite, r-cran-purrr, r-cran-ggplot2, r-cran-ggiraph, r-cran-htmltools, r-cran-shiny, r-cran-shinywidgets, r-cran-htmlwidgets, r-cran-dplyr, r-cran-cohortbuilder, r-cran-trycatchlog, r-cran-highr, r-cran-shinygizmo, r-cran-rlang, r-cran-tibble, r-cran-lifecycle Suggests: r-cran-querybuilder, r-cran-shinyquerybuilder, r-cran-pkgload, r-cran-packer, r-cran-sass, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shinycohortbuilder_0.3.1-1.ca2004.1_all.deb Size: 1815944 MD5sum: c08948bfa4cdea377b64878c0519e265 SHA1: 449c1214f8f43dce5b73d33d3ef27dd3f74c31ae SHA256: e395a560a283243da27a2911e29ff0e394cca42ba072f31b9b8d580ad61fd5a5 SHA512: f960787c1ff45cc23c116765544583d8a1a65f798c99eaf08f177e0b90066c213127c339f6fea3e200470cf845794a75b1518597456fa28b074df6bbcc1df37e Homepage: https://cran.r-project.org/package=shinyCohortBuilder Description: CRAN Package 'shinyCohortBuilder' (Modular Cohort-Building Framework for Analytical Dashboards) You can easily add advanced cohort-building component to your analytical dashboard or simple 'Shiny' app. Then you can instantly start building cohorts using multiple filters of different types, filtering datasets, and filtering steps. Filters can be complex and data-specific, and together with multiple filtering steps you can use complex filtering rules. The cohort-building sidebar panel allows you to easily work with filters, add and remove filtering steps. It helps you with handling missing values during filtering, and provides instant filtering feedback with filter feedback plots. The GUI panel is not only compatible with native shiny bookmarking, but also provides reproducible R code. Package: r-cran-shinycox Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-survival Suggests: r-cran-dt, r-cran-knitr, r-cran-rmarkdown, r-cran-shinydashboard Filename: pool/dists/focal/main/r-cran-shinycox_1.1.3-1.ca2004.1_all.deb Size: 112148 MD5sum: e44e73c01d17c37c814c111c21ab209d SHA1: 68521830734f262cfc055fcb2fe308516fd8ca73 SHA256: 908a4361aa4a0b11df57475e95245d35d06a339d643bfd132c0daf615de07bec SHA512: 3381f6828018cf6a171bc9454462ff4aa686a58107b120adc85ba2581c0a8716617f3cb70301cda9150fe5516e5e17f520aae6b4e105e3778cfe208c096a7a8b Homepage: https://cran.r-project.org/package=shinyCox Description: CRAN Package 'shinyCox' (Create 'shiny' Applications for Cox Proportional Hazards Models) Takes one or more fitted Cox proportional hazards models and writes a 'shiny' application to a directory specified by the user. 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Package: r-cran-shinycroneditor Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-htmltools, r-cran-htmlwidgets Suggests: r-cran-shiny Filename: pool/dists/focal/main/r-cran-shinycroneditor_1.0.0-1.ca2004.1_all.deb Size: 33904 MD5sum: 4a633a79b51581f3f47de5d4872c8052 SHA1: 3426e59ef42a7dd5e9363ec3a0357cf29b714f0f SHA256: 73650058d790a5028ad1702cc18f7b7e4631c930d4bc6b61059b88599bb4fda3 SHA512: 6b18738789abbf35496db723b72271a99a456d2b0b4c002785f2d23c02e8ad25d0d503e1cba76aa503031c368ddfa286135acdbd8fefdde5dd498f30db6ee53b Homepage: https://cran.r-project.org/package=shinycroneditor Description: CRAN Package 'shinycroneditor' ('shiny' Cron Expression Input Widget) A widget for 'shiny' apps to handle schedule expression input, using the 'cron-expression-input' JavaScript component. 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Package: r-cran-shinycssloaders Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 453 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-digest, r-cran-glue, r-cran-htmltools, r-cran-shiny Suggests: r-cran-knitr, r-cran-shinydisconnect, r-cran-shinyjs Filename: pool/dists/focal/main/r-cran-shinycssloaders_1.1.0-1.ca2004.1_all.deb Size: 332664 MD5sum: cfcd2cdf4688dc313605b5f3c4170ddc SHA1: fb169bba906c24ede5ef6737cb0527ad78f48e9d SHA256: eac39e7d090eea650392b09576a17de39b6aa794dc490a369c1f345b202f4d47 SHA512: 32f1dd924a6e7519e6acf406263fc6632c43e53f15f2d7002d51d783ea247071b5102aa25aa484e56b323eed4fa464fc2d08c80bc1fb9452755d402e6df4ebfe Homepage: https://cran.r-project.org/package=shinycssloaders Description: CRAN Package 'shinycssloaders' (Add Loading Animations to a 'shiny' Output While It'sRecalculating) When a 'Shiny' output (such as a plot, table, map, etc.) is recalculating, it remains visible but gets greyed out. 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Package: r-cran-shinycyjs Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2364 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-htmlwidgets Suggests: r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-shinycyjs_1.0.0-1.ca2004.1_all.deb Size: 485408 MD5sum: 9130c61d8ed2d6b5d396680b5798d846 SHA1: 92a9e1978b0ede9c60fdbe8719e475227a481a3e SHA256: 9487d8ab62cfac9d207728b2d9c4204c77501396034c7d897fd8e79348881913 SHA512: 25166cd5b3c731e82fe0788b7cfcabeb0a6dc660584db5a9d430adc9c79b4ecefb93de05d11699006832e7ac3beddb4a63b8178d036f684b4fb30febda1bdda6 Homepage: https://cran.r-project.org/package=shinyCyJS Description: CRAN Package 'shinyCyJS' (Create Interactive Network Visualizations in R and 'shiny') Create Interactive Graph (Network) Visualizations. 'shinyCyJS' can be used in 'Shiny' apps or viewed from 'Rstudio' Viewer. 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Package: r-cran-shinymgr Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5379 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-dbi, r-cran-reactable, r-cran-renv, r-cran-rsqlite, r-cran-shinyjs, r-cran-shinydashboard Suggests: r-cran-fs, r-cran-learnr, r-cran-shinytest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shinymgr_1.1.0-1.ca2004.1_all.deb Size: 2404576 MD5sum: faf42552152e283226afa40b17f5740a SHA1: a50d3f7d20f181b212265048582f285cb0e607b4 SHA256: b0d2d3826ae8e86a818555db117ea56845d6fd5e841a5bd3a01c2eb1828e669a SHA512: d295dac6e59a13fc1df2f4d728b6e3f41b23914b03525f00b2150b341fadac9a5609866890b0ed1a065e36ff5a3650e33684fcb304cb640acced61871361b9c6 Homepage: https://cran.r-project.org/package=shinymgr Description: CRAN Package 'shinymgr' (A Framework for Building, Managing, and Stitching 'shiny'Modules into Reproducible Workflows) A unifying framework for managing and deploying 'shiny' applications that consist of modules, where an "app" is a tab-based workflow that guides a user step-by-step through an analysis. 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Package: r-cran-shinymixr Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1197 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-ggplot2, r-cran-gridextra, r-cran-collapsibletree, r-cran-shinyace, r-cran-dt, r-cran-bs4dash, r-cran-shinywidgets, r-cran-stringi, r-cran-r3port, r-cran-whisker, r-cran-plotly, r-cran-patchwork, r-cran-shinyjs, r-cran-ps, r-cran-xfun, r-cran-fresh, r-cran-nlmixr2, r-cran-nlmixr2est, r-cran-magrittr, r-cran-cli Suggests: r-cran-xpose, r-cran-xpose.nlmixr2, r-cran-nlme, r-cran-testthat, r-cran-shinytest2, r-cran-knitr, r-cran-rmarkdown, r-cran-rlang, r-cran-miniui, r-cran-shinyfiles, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-shinymixr_0.5.0-1.ca2004.1_all.deb Size: 1067172 MD5sum: e788b0bfad0ceb8de9c433102a783a06 SHA1: 0a80f9d789e485822e0716b5e59bf50e64307a14 SHA256: 46c2834ec35cadd8c794e58e439325db1f4d5f5e24672999fbd06f1bdac4977f SHA512: f1b033f537b6955693974e462a0ca9459b4997db045148ef8df096bede5801093cbae979178ae299530f1d7338a6799c77caaf0fa3a4a4629285ae4e581f6e18 Homepage: https://cran.r-project.org/package=shinyMixR Description: CRAN Package 'shinyMixR' (Interactive 'shiny' Dashboard for 'nlmixr2') An R shiny user interface for the 'nlmixr2' (Fidler et al (2019) ) package, designed to simplify the modeling process for users. 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Package: r-cran-shinyscholar Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 498 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bslib, r-cran-gargoyle, r-cran-leaflet, r-cran-shiny, r-cran-curl, r-cran-devtools, r-cran-glue, r-cran-knitr, r-cran-zip Suggests: r-cran-dt, r-cran-dplyr, r-cran-httr2, r-cran-knitcitations, r-cran-leaflet.extras, r-cran-markdown, r-cran-mirai, r-cran-r6, r-cran-rcolorbrewer, r-cran-renv, r-cran-rintrojs, r-cran-rmarkdown, r-cran-shinyace, r-cran-shinyalert, r-cran-shinybusy, r-cran-shinyjs, r-cran-shinytest2, r-cran-shinywidgets, r-cran-terra, r-cran-testthat, r-cran-xml2, r-cran-withr Filename: pool/dists/focal/main/r-cran-shinyscholar_0.4.2-1.ca2004.1_all.deb Size: 254220 MD5sum: f5253e2a26592f076b95b5e9ebf98189 SHA1: 1836936e29402bc5f23518934f6fd6bcf72f2703 SHA256: bd529f8ea7678ac5d2afb3dfe015a8907b2a19c8077497cc36d3e669608f3175 SHA512: cf375375955d34bf160cdc8b20305301c20dfcd69f0a716148dfbcf1178cbce8d7c19a22614964d41a807807fac62a5a34e44253de1ac1acb288f46b05f5d67d Homepage: https://cran.r-project.org/package=shinyscholar Description: CRAN Package 'shinyscholar' (A Template for Creating Reproducible 'shiny' Applications) Create a skeleton 'shiny' application with create_template() that is reproducible, can be saved and meets academic standards for attribution. Forked from 'wallace'. Code is split into modules that are loaded and linked together automatically and each call one function. Guidance pages explain modules to users and flexible logging informs them of any errors. Options enable asynchronous operations, viewing of source code, interactive maps and data tables. Use to create complex analytical applications, following best practices in open science and software development. Includes functions for automating repetitive development tasks and an example application at run_shinyscholar() that requires install.packages("shinyscholar", dependencies = TRUE). A guide to developing applications can be found on the package website. 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Tested on both windows and unix machines. Inspired by and borrowing from . Package: r-cran-shinysir Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 854 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-shiny, r-cran-desolve Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shinysir_0.1.2-1.ca2004.1_all.deb Size: 572220 MD5sum: 34a3bc5d1c55b3bc78a41d16d3342e2c SHA1: a601324a6bee7523a36cb2dabeb7a2ff9ad8dfba SHA256: 740900dae940e4b150dd388cf2128cf59581667e038f7f8cfb12fb39ae0f2a03 SHA512: 3f7be78509f302eb5c772711598efd7d137731d7ecfa24c4c16e2e918293ef0d1a5a5fd7962f67246a52617120fc2fa4f3262c005fa34b03b921c3fd96c23159 Homepage: https://cran.r-project.org/package=shinySIR Description: CRAN Package 'shinySIR' (Interactive Plotting for Mathematical Models of InfectiousDisease Spread) Provides interactive plotting for mathematical models of infectious disease spread. 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Package: r-cran-shinysurveys Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 920 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-sass, r-cran-htmltools, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tibble Filename: pool/dists/focal/main/r-cran-shinysurveys_0.2.0-1.ca2004.1_all.deb Size: 530960 MD5sum: 3020f499af1f9b34bd309f36bf8a08e9 SHA1: 233f369be3db62c4c7f3ebed103e3beea642b5e8 SHA256: 2bf1e4f9666827e29502b9b3e8cbe81c07e1bac5414d0c5c58f15b32c6a4397c SHA512: 0b56c2005b58d9006861ef9bd51c468860704e4ec7ffa8ac41147295fac54d6ceb628f7d47caaa2f12fd067c5f6d4d9e1e913ac1f88111fbccd086480e976e63 Homepage: https://cran.r-project.org/package=shinysurveys Description: CRAN Package 'shinysurveys' (Create and Deploy Surveys in 'Shiny') Easily create and deploy surveys in 'Shiny'. This package includes a minimalistic framework similar to 'Google Forms' that allows for url-based user tracking, customizable submit actions, easy survey-theming, and more. 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This shiny application helps exploring temporal characteristics of the evolutionary trees through linear regression analysis and with the ability to identify and remove incorrect labels. The method was extended to support exploring other phylogenetic signals under strict and relaxed models. 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Package: r-cran-shinytester Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-readr, r-cran-stringr, r-cran-tidyr, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-shinytester_0.1.0-1.ca2004.1_all.deb Size: 24088 MD5sum: fb6ae3b3784d9328bb95ad07df3dab5d SHA1: 071eafe3a971ec8dc76ab04ca1824f2dee5ea106 SHA256: f9dba17fd2f16f165d57459c0997ae20c58b53eae364c5626b3ba2eac1bde5f2 SHA512: 45023b02ebb6e199f9e330a0d98e454bcb58c17a122fc637fe3ed16b5c878a0ae83b134ea59c7b4b894f57445210e90a749f4dde6a5d05d1140bfd86508febaf Homepage: https://cran.r-project.org/package=ShinyTester Description: CRAN Package 'ShinyTester' (Functions to Minimize Bonehead Moves While Working with 'shiny') It's my experience that working with 'shiny' is intuitive once you're into it, but can be quite daunting at first. 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Key features include countdown and count-up mode, multiple display formats (including simple seconds, minutes-seconds, hours-minutes-seconds, and minutes-seconds-centiseconds), ability to pause, resume, and reset the timer. 'shinytimer' widget can be particularly useful for creating interactive and time-sensitive applications, tracking session times, setting time limits for tasks or quizzes, and more. 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Package: r-cran-shinytree Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1696 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-htmlwidgets, r-cran-jsonlite, r-cran-stringr, r-cran-promises Suggests: r-cran-testthat, r-cran-shinytest, r-cran-data.tree Filename: pool/dists/focal/main/r-cran-shinytree_0.3.1-1.ca2004.1_all.deb Size: 503864 MD5sum: 6f3f304e8a4eeb7b6d4a5c28dd99a3df SHA1: f4782e8baaf8e958f40e1c81c96c587f1bc41b57 SHA256: f19c208823f1f081b6042998d337b92c81fa6c1c26bb8903e230edfe27bd71ce SHA512: 4d26280932ba3c8fb2233e131de6ac4f71850bc71968c44bd3557be6542179a7a2cdf17cdfa833af55c623b02c9f1b65485ac32feaaee74036131cac767bfc18 Homepage: https://cran.r-project.org/package=shinyTree Description: CRAN Package 'shinyTree' (jsTree Bindings for Shiny) Exposes bindings to jsTree -- a JavaScript library that supports interactive trees -- to enable a rich, editable trees in Shiny. 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Package: r-cran-shinywgd Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3015 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-shinyalert, r-cran-stringr, r-cran-vroom, r-cran-fs, r-cran-tidyr, r-cran-data.table, r-cran-dplyr, r-cran-ape, r-cran-ks, r-cran-mclust, r-cran-htmltools, r-cran-seqinr, r-cran-httr, r-cran-jsonlite Suggests: r-cran-tidyverse, r-cran-knitr, r-cran-rmarkdown, r-cran-dt, r-cran-argparse, r-cran-bslib, r-cran-bsplus, r-cran-english, r-cran-fontawesome, r-cran-igraph, r-cran-shinybs, r-cran-shinyfiles, r-cran-shinywidgets, r-cran-shinyjs, r-cran-stringi, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shinywgd_1.0.0-1.ca2004.1_all.deb Size: 882256 MD5sum: edca36e592ed09e8d1e3f41a2b79dc54 SHA1: 148587ebc35de0843540753d2a87c0faf161ca53 SHA256: 1537dca7e2acc05030b97120356c4877a4be486af3c4f90c9dd268964f3671b3 SHA512: 66c3cf13076968b9a36caf68d2ca808e87c541a4327f64522a05f9ef10efa630e556ce673843cef3a15bb505d8430dcf9fb191f1bec07799356b4e16ec284bfe Homepage: https://cran.r-project.org/package=shinyWGD Description: CRAN Package 'shinyWGD' ('Shiny' Application for Whole Genome Duplication Analysis) Provides a comprehensive 'Shiny' application for analyzing Whole Genome Duplication ('WGD') events. This package provides a user-friendly 'Shiny' web application for non-experienced researchers to prepare input data and execute command lines for several well-known 'WGD' analysis tools, including 'wgd', 'ksrates', 'i-ADHoRe', 'OrthoFinder', and 'Whale'. This package also provides the source code for experienced researchers to adjust and install the package to their own server. Key Features 1) Input Data Preparation This package allows users to conveniently upload and format their data, making it compatible with various 'WGD' analysis tools. 2) Command Line Generation This package automatically generates the necessary command lines for selected 'WGD' analysis tools, reducing manual errors and saving time. 3) Visualization This package offers interactive visualizations to explore and interpret 'WGD' results, facilitating in-depth 'WGD' analysis. 4) Comparative Genomics Users can study and compare 'WGD' events across different species, aiding in evolutionary and comparative genomics studies. 5) User-Friendly Interface This 'Shiny' web application provides an intuitive and accessible interface, making 'WGD' analysis accessible to researchers and 'bioinformaticians' of all levels. 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Give your applications a unique and colorful style ! 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Use R!": Shipunov (2020) . Dr Alexey Shipunov died in December 2022. Most useful functions: Bclust(), Jclust() and BootA() which bootstrap hierarchical clustering; Recode() which does multiple recoding in a fast, simple and flexible way; Misclass() which outputs confusion matrix even if classes are not concerted; Overlap() which measures group separation on any projection; Biarrows() which converts any scatterplot into biplot; and Pleiad() which is fast and flexible correlogram. 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Package: r-cran-shopifyadsr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-curl Filename: pool/dists/focal/main/r-cran-shopifyadsr_0.1.0-1.ca2004.1_all.deb Size: 22232 MD5sum: 0811e6210742d8cca20e5911bab42103 SHA1: 240596a8ebe18df806290f8343ab5f9943fb03fb SHA256: fde881150b4ca46c9302cfdc44f9ed1a57c12e918a244566260e4fb704f7d90a SHA512: a8dc6eecfc1681de7b6e285d9cf112dee1a89814eb9095b3d25bfe0056f31ef7421cff11bf2c9a4968281382fdcc0aa0584410c447bddd9303d6b665a0e0cfff Homepage: https://cran.r-project.org/package=shopifyadsR Description: CRAN Package 'shopifyadsR' (Get 'Shopify' Ads Data via the 'Windsor.ai' API) Collect your data on digital marketing campaigns from 'Shopify' Ads using the 'Windsor.ai' API . Package: r-cran-shopifyr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 399 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-r6, r-cran-curl, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-shopifyr_1.0.0-1.ca2004.1_all.deb Size: 317108 MD5sum: 0e3165502088aa36d7a39e3a1b4cf775 SHA1: c9c6c9c444060066d031f8bc838c25bae90ca95e SHA256: 60ce474da9cc562d3f0a086b634d479ca987e00fefc23bb8c7272812ac8813ac SHA512: 8bb1e91573ece66cd03e9d1fe60ce8368d17896eb2ec7a4dfd20ea699a6eb68a237a8b3b6bfabca5be91def03849490d005ba92f8db3cb83be10aa264a719bf0 Homepage: https://cran.r-project.org/package=shopifyr Description: CRAN Package 'shopifyr' (An R Interface to the Shopify API) An interface to the Admin API of the E-commerce service Shopify, (). Package: r-cran-shoredate Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2307 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-ggrepel, r-cran-ggridges, r-cran-ggspatial, r-cran-sf, r-cran-terra Suggests: r-cran-covr, r-cran-elevatr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-rnaturalearth Filename: pool/dists/focal/main/r-cran-shoredate_1.1.1-1.ca2004.1_all.deb Size: 1543452 MD5sum: 37b0e65aa8fcb90ccfe799d473a9d44e SHA1: e7c976c998f8d0e7786787fabec44e76e9b73ee8 SHA256: 24cc47ee97f5ea974d0b283ee750e38d06d390cfaf204de9edf60f195cbf1179 SHA512: 14e5fe0ebbbe80412cde761a3515c9e4acb5d1d1a87d9e0e51cccfdfa740c029cbcf04216b62043017f9c5a70789905bff0978863a620c24a40d0f2b8af62788 Homepage: https://cran.r-project.org/package=shoredate Description: CRAN Package 'shoredate' (Shoreline Dating Coastal Stone Age Sites) Provides tools for shoreline dating coastal Stone Age sites. The implemented method was developed in Roalkvam (2023) for the Norwegian Skagerrak coast. Although it can be extended to other areas, this also forms the core area for application of the package. Shoreline dating is based on the present-day elevation of a site, a reconstruction of past relative sea-level change, and empirically derived estimates of the likely elevation of the sites above the contemporaneous sea-level when they were in use. The geographical and temporal coverage of the method thus follows from the availability of local geological reconstructions of shoreline displacement and the degree to which the settlements to be dated have been located on or close to the shoreline when they were in use. Methods for numerical treatment and visualisation of the dates are provided, along with basic tools for visualising and evaluating the location of sites. Package: r-cran-shortcuts Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-shortcuts_1.4.0-1.ca2004.1_all.deb Size: 77672 MD5sum: 69bfcd6c706d72a090e59e876fca52ce SHA1: b2b4578544f208e0c96199d243063249c85fdcb2 SHA256: f1f4fa242dca226c0ce3918284ac7264d106cd2573bdb59fba73d8ffa0318442 SHA512: d3323a7294815e38882f598dcd5c6aa0e7d5b28d593681ba847a4167944b14d696bff5f50e275208f4c3596f2128015319c5cfa264cfb8df4aef30a061a1b866 Homepage: https://cran.r-project.org/package=shortcuts Description: CRAN Package 'shortcuts' (Useful Shortcuts to Interact with 'RStudio' Scripts) Integrates clipboard copied data in R Studio, loads and installs libraries within a R script and returns all valid arguments of a selected function. Package: r-cran-shortform Architecture: all Version: 0.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 474 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lavaan, r-cran-ggplot2, r-cran-ggrepel, r-cran-tidyr, r-cran-stringr, r-cran-dosnow, r-cran-foreach Suggests: r-cran-knitr, r-cran-mplusautomation, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-shortform_0.5.6-1.ca2004.1_all.deb Size: 388536 MD5sum: 8d24aa75839530d6d75e2ccdb1e6dd20 SHA1: 054051323d2223ef8b224634cadf32fc1bec3dc9 SHA256: 13c0a6a9a995af05dafb614041f9ca0534311ba790d211b6c9c2907133a72e4b SHA512: a4046fd444ed575800a9c9f483b68309d3882a6de5952252e29a5abbaf14638c747ab533a8eedc770a47a94b21a4eda2c19ff83125b37980ace26de295e70a6f Homepage: https://cran.r-project.org/package=ShortForm Description: CRAN Package 'ShortForm' (Automatic Short Form Creation) Performs automatic creation of short forms of scales with an ant colony optimization algorithm and a Tabu search. As implemented in the package, the ant colony algorithm randomly selects items to build a model of a specified length, then updates the probability of item selection according to the fit of the best model within each set of searches. The algorithm continues until the same items are selected by multiple ants a given number of times in a row. On the other hand, the Tabu search changes one parameter at a time to be either free, constrained, or fixed while keeping track of the changes made and putting changes that result in worse fit in a "tabu" list so that the algorithm does not revisit them for some number of searches. See Leite, Huang, & Marcoulides (2008) for an applied example of the ant colony algorithm, and Marcoulides & Falk (2018) for an applied example of the Tabu search. Package: r-cran-shortirt Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tam, r-cran-dplyr, r-cran-ggplot2 Suggests: r-cran-rmarkdown, r-cran-sirt, r-cran-testthat, r-cran-v8 Filename: pool/dists/focal/main/r-cran-shortirt_0.1.3-1.ca2004.1_all.deb Size: 86080 MD5sum: 7ecba7285b14530b57b8569f399b9666 SHA1: 6101a737a52ddb2f4c9c4888ec1dba4d3d808f96 SHA256: 5da3ab6ad82ef31c643c970762dc683c8bb0548ac3abaac12e2a81de6c1b8be6 SHA512: 0249ac37c424897902308f0e05d888908f3916f81ef211b3f0644e46b059b6a3f7a8bc6f1ce6870a28bc2c36cd81b616e1291339be8e960911b825a320e4c725 Homepage: https://cran.r-project.org/package=shortIRT Description: CRAN Package 'shortIRT' (Procedures Based on Item Response Theory Models for theDevelopment of Short Test Forms) Implement different Item Response Theory (IRT) based procedures for the development of static short test forms (STFs) from a test. Two main procedures are considered, specifically the typical IRT-based procedure for the development of STF, and a recently introduced procedure (Epifania, Anselmi & Robusto, 2022 ). The procedures differ in how the most informative items are selected for the inclusion in the STF, either by considering their item information functions without considering any specific level of the latent trait (typical procedure) or by considering their informativeness with respect to specific levels of the latent trait, denoted as theta targets (the newly introduced procedure). Regarding the latter procedure, three methods are implemented for the definition of the theta targets: (i) theta targets are defined by segmenting the latent trait in equal intervals and considering the midpoint of each interval (equal interval procedure, eip), (ii) by clustering the latent trait to obtain unequal intervals and considering the centroids of the clusters as the theta targets (unequal intervals procedure, uip), and (iii) by letting the user set the specific theta targets of interest (user-defined procedure, udp). For further details on the procedure, please refer to Epifania, Anselmi & Robusto (2022) . Package: r-cran-shortr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-shortr_1.0.1-1.ca2004.1_all.deb Size: 26548 MD5sum: ffa09591d8b865ee85af6fb7e2718c69 SHA1: 13c93fa381c56225c9c58174ce866ba218134f75 SHA256: fa006ca6d46b8b1445b6ddded5d703a5c89e4350cdbbdb0936df71cac5e79775 SHA512: bc0dd7f56892c55e91a6c5f0113aa5eff97c5ce99efb01b8ec27b13d28e4a343dd8958426a9154b8672a5ec4eca10fcafdfcca4b4b3ee6f358d8e526e7a38de6 Homepage: https://cran.r-project.org/package=shortr Description: CRAN Package 'shortr' (Optimal Subset Identification in Undirected Weighted NetworkModels) Identifies what optimal subset of a desired number of items should be retained in a short version of a psychometric instrument to assess the “broadest” proportion of the construct-level content of the set of items included in the original version of the said psychometric instrument. Expects a symmetric adjacency matrix as input (undirected weighted network model). Supports brute force and simulated annealing combinatorial search algorithms. Package: r-cran-shorts Architecture: all Version: 3.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4718 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lambertw, r-cran-tidyr, r-cran-ggplot2, r-cran-minpack.lm, r-cran-purrr Filename: pool/dists/focal/main/r-cran-shorts_3.2.0-1.ca2004.1_all.deb Size: 3781124 MD5sum: a5be956562fd28cbe0cc3db3af918bbb SHA1: ba1403d09101ea18b912b1b8844b39fceb03b316 SHA256: 7198a8409998462f715ef37f471bc2335f64950b6b0ff280069a03d185adadff SHA512: a65e725109b7fd46a9b3076399973b134abad778450484ef2119c45329594680034fd53af10492718722e5caa2a4f44ba6784d07fad5e1dd33f0e5df7946d0ef Homepage: https://cran.r-project.org/package=shorts Description: CRAN Package 'shorts' (Short Sprints) Create short sprint acceleration-velocity (AVP) and force-velocity (FVP) profiles and predict kinematic and kinetic variables using the timing-gate split times, laser or radar gun data, tether devices data, as well as the data provided by the GPS and LPS monitoring systems. The modeling method utilized in this package is based on the works of Furusawa K, Hill AV, Parkinson JL (1927) , Greene PR. (1986) , Chelly SM, Denis C. (2001) , Clark KP, Rieger RH, Bruno RF, Stearne DJ. (2017) , Samozino P. (2018) , Samozino P. and Peyrot N., et al (2022) , Clavel, P., et al (2023) , Jovanovic M. (2023) , and Jovanovic M., et al (2024) . 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Weights are calculated using the survival p-values of genes and are utilized to calculate expression values of the signature across the selected genes in all patients in a cohort. A Single or multiple univariate or multivariate Cox proportional hazard survival analyses of the patients in one cohort can be performed by using the gene-expression signature and visualized using our survival plots. 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Furkan Gursoy and Bertan Badur. "Extracting the signed backbone of intrinsically dense weighted networks." Journal of Complex Networks. . Package: r-cran-signibox Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 41 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-signibox_1.0-1.ca2004.1_all.deb Size: 9900 MD5sum: ba534e6ef68415cf492c3e9a0df07070 SHA1: 4727c0748fac2e90d86068fcf504309a784ae106 SHA256: dde3fa3433c3ce83b738d640aecc50349379dad8c187f7fc816de258a988c40b SHA512: 55335a10449ce71a573ff910a6bed4abf2d431ff7561a8a891030a96ea76dff3d5baa7dd39147331b525edf144ddb523e976dfb66d886eb9553a431967edb462 Homepage: https://cran.r-project.org/package=signibox Description: CRAN Package 'signibox' (Statistical Significance Marks on Boxplots) Add significance marks to any R Boxplot, including a given significance niveau. 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The algorithm selects a final model with only significant variables defined as those with significant p-values after multiple testing correction such as Bonferroni, False Discovery Rate, etc. See Zambom and Kim (2018) . 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Test the null hypothesis H0: median of X v = mu ( mu is the location parameter and is given in the test ) v.s. the alternative hypothesis H1: v > mu ( or v < mu or v != mu ) and calculate the p-value. When the sample size is large, perform the asymptotic sign test. In both ways, calculate the R-estimate of location of X and the distribution free confidence interval for mu. 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Traditionally, pathway analysis methods regard pathways as collections of single genes and treat all genes in a pathway as equally informative. However, this can lead to identifying spurious pathways as statistically significant since components are often shared amongst pathways. SIGORA seeks to avoid this pitfall by focusing on genes or gene pairs that are (as a combination) specific to a single pathway. In relying on such pathway gene-pair signatures (Pathway-GPS), SIGORA inherently uses the status of other genes in the experimental context to identify the most relevant pathways. The current version allows for pathway analysis of human and mouse datasets. In addition, it contains pre-computed Pathway-GPS data for pathways in the KEGG and Reactome pathway repositories and mechanisms for extracting GPS for user-supplied repositories. 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This package provides functions for two subgroup identification methods based on penalized functions, both of which utilize factor model structures to adapt to data with cross-sectional dependency. The first method is the Subgroup Identification with Latent Factor Structure Method (SILFSM) we proposed. By employing Center-Augmented Regularization and factor structures, the SILFSM effectively eliminates data dependencies while identifying subgroups within datasets. For this model, we offer optimization functions based on two different methods: Coordinate Descent and our newly developed Difference of Convex-Alternating Direction Method of Multipliers (DC-ADMM) algorithms; the latter can be applied to cases where the distance function in Center-Augmented Regularization takes L1 and L2 forms. The other method is the Factor-Adjusted Pairwise Fusion Penalty (FA-PFP) model, which incorporates factor augmentation into the Pairwise Fusion Penalty (PFP) developed by Ma, S. and Huang, J. (2017) . Additionally, we provide a function for the Standard CAR (S-CAR) method, which does not consider the dependency and is for comparative analysis with other approaches. Furthermore, functions based on the Bayesian Information Criterion (BIC) of the SILFSM and the FA-PFP method are also included in 'SILFS' for selecting tuning parameters. For more details of Subgroup Identification with Latent Factor Structure Method, please refer to He et al. (2024) . 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Paths are sequentially-linked records, primitives are basic atomic elements and both can model many forms and be grouped into hierarchical structures. The universal models 'SC0' (structural) and 'SC' (labelled, relational) are composed of edges and can represent any hierarchical form. Specialist models 'PATH', 'ARC' and 'TRI' provide the most common intermediate forms used for converting from one form to another. The methods are inspired by the simplicial complex and provide intermediate forms that relate spatial data structures to this mathematical construct. Package: r-cran-sillyputty Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1949 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cluster, r-cran-thresher, r-cran-oompabase, r-cran-polychrome Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-mercator, r-cran-umpire, r-cran-mclust Filename: pool/dists/focal/main/r-cran-sillyputty_0.4.2-1.ca2004.1_all.deb Size: 1161504 MD5sum: b29cce68de0a4de523b6c449908d46f1 SHA1: f1458e9bebc57a1a63c3398a838155b191cc0d19 SHA256: e7a826f6374a9c87e01f8ec3f3afd116d356b76c47146a2d45161d3955500b64 SHA512: 201e880958be6fe13df6a308efae00031e91dff0739825d746c905ba540e3973e3bf1e9492702c125584135d780032911a04d09f644a5c20da2bb0edab2ebf27 Homepage: https://cran.r-project.org/package=SillyPutty Description: CRAN Package 'SillyPutty' (Silly Putty Clustering) Implements a simple, novel clustering algorithm based on optimizing the silhouette width. See for details. Package: r-cran-silm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-scalreg, r-cran-glmnet, r-cran-hdi, r-cran-sis Filename: pool/dists/focal/main/r-cran-silm_1.0.0-1.ca2004.1_all.deb Size: 30276 MD5sum: de3ade3748aaa9c4c7c510146087fae5 SHA1: ee959c800c8575661a6968b1f8b8a7e3504fa6cc SHA256: 8f3a23634243ce710fbb846e8f7fdcf8eade1a3753561b55ffcc2fc33cc6e1a6 SHA512: 7a054bbbbd82fb959ba3a8a6ed728887934b1839933fab3e1d76efb979f02d0bba84beb93038b62d5c5960cbef0c32a1e33df09d1c597f3ab0877a427f97fa82 Homepage: https://cran.r-project.org/package=SILM Description: CRAN Package 'SILM' (Simultaneous Inference for Linear Models) Simultaneous inference procedures for high-dimensional linear models as described by Zhang, X., and Cheng, G. (2017) . Package: r-cran-silp Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-lavaan, r-cran-mass, r-cran-purrr, r-cran-semtools, r-cran-stringr Filename: pool/dists/focal/main/r-cran-silp_1.0.3-1.ca2004.1_all.deb Size: 82212 MD5sum: 343007a7669ae31fd22f9fd482fcb126 SHA1: 25ba081fe9ba0fca7a4c9615d7baee4f297fb6a8 SHA256: 2ec8e91887b652e2a84fae7317a9e4528b71b01400380c4d5743fe82ea14f3b9 SHA512: e7cf8353e9e91c3c0641cd029432ea7e3f115882c2dea6cc57ac4ef919f65ac0044004e33fd3613c3b49b0b76f9b27d98ff7a059e2ae16ce128c0102ae474696 Homepage: https://cran.r-project.org/package=silp Description: CRAN Package 'silp' (Conditional Process Analysis (CPA) via SEM Approach) Utilizes the Reliability-Adjusted Product Indicator (RAPI) method to estimate effects among latent variables, thus allowing for more precise definition and analysis of mediation and moderation models. Our simulation studies reveal that while 'silp' may exhibit instability with smaller sample sizes and lower reliability scores (e.g., N = 100, 'omega' = 0.7), implementing nearest positive definite matrix correction and bootstrap confidence interval estimation can significantly ameliorate this volatility. When these adjustments are applied, 'silp' achieves estimations akin in quality to those derived from LMS. In conclusion, the 'silp' package is a valuable tool for researchers seeking to explore complex relational structures between variables without resorting to commercial software. Cheung et al.(2021) Hsiao et al.(2018). Package: r-cran-silviculture Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 578 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-s7 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-silviculture_0.1.0-1.ca2004.1_all.deb Size: 555688 MD5sum: 9f8cf2d851a5316ae6eda7cdf0fd8950 SHA1: e6c730cc3bfa23ca3c4feaeff918510963ca1cf3 SHA256: d592f0891fb33d4a62c8915817b81f9b675b9dbcfc0fc3994db84a2422c90c50 SHA512: e310be93336d191ace69d446d3f2f48dd7ef2d84f76c19efffb449b946c2574e02aa5753474e9865178e600d572911e857ebdc103eebc78b4499a5fb3ba2a9a2 Homepage: https://cran.r-project.org/package=silviculture Description: CRAN Package 'silviculture' (Utility Functions for Forest Inventory and Silviculture) Perform common dendrometry operations such as inventory preparing, and inventory data analysis. Package: r-cran-sim.ba Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 331 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-chk, r-cran-cobalt, r-cran-ggplot2, r-cran-scales, r-cran-pbapply, r-cran-rlang, r-cran-survival Suggests: r-cran-matchit, r-cran-weightit, r-cran-openxlsx, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sim.ba_0.1.0-1.ca2004.1_all.deb Size: 224828 MD5sum: 8ffd82fb4965d7a9ed02bd57d612b2ae SHA1: 6e1ab9af0108d460d22a87a7422ed2b7e1e6d343 SHA256: 08ee61ff93482b880ec2ebdd72259384ac1f661554e4c2fd0380bd5d8c920fa5 SHA512: 94503e1408d3bfb0efa51ae2e96c9a56453c58d89d3e7c8d30abc4a65e624fff04680920a7ab5c8f227dcf58e511a6328dac7e33c13c89fa8983efb2316109d8 Homepage: https://cran.r-project.org/package=sim.BA Description: CRAN Package 'sim.BA' (Simulation-Based Bias Analysis for Observational Studies) Allows user to conduct a simulation based quantitative bias analysis using covariate structures generated with individual-level data to characterize the bias arising from unmeasured confounding. 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Package: r-cran-sim.plfn Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fuzzynumbers, r-cran-distrib Filename: pool/dists/focal/main/r-cran-sim.plfn_1.0-1.ca2004.1_all.deb Size: 49488 MD5sum: 00b3e4d0dc85e75c5cedcb0790aa3a17 SHA1: 5477d847b1d6e4dbb5d254eb0df3a4d5b2f1db2e SHA256: 25034ad7ee772211b48dc431670d1a86efc1d998b6865ec368bc248189ab973a SHA512: fa92007619d657c1088ebe55087119d0fa977f347bee4b0b02fd1d375e4ae63bb490bc7f14bb3de3b983633754ea2cb709b9682f948be2536ee98860b9d7afd3 Homepage: https://cran.r-project.org/package=Sim.PLFN Description: CRAN Package 'Sim.PLFN' (Simulation of Piecewise Linear Fuzzy Numbers) The definition of fuzzy random variable and the methods of simulation from fuzzy random variables are two challenging statistical problems in three recent decades. This package is organized based on a special definition of fuzzy random variable and simulate fuzzy random variable by Piecewise Linear Fuzzy Numbers (PLFNs); see Coroianua et al. (2013) for details about PLFNs. Some important statistical functions are considered for obtaining the membership function of main statistics, such as mean, variance, summation, standard deviation and coefficient of variance. Some of applied advantages of 'Sim.PLFN' package are: (1) Easily generating / simulation a random sample of PLFN, (2) drawing the membership functions of the simulated PLFNs or the membership function of the statistical result, and (3) Considering the simulated PLFNs for arithmetic operation or importing into some statistical computation. Finally, it must be mentioned that 'Sim.PLFN' package works on the basis of 'FuzzyNumbers' package. Package: r-cran-sim1000g Architecture: all Version: 1.40-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1733 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hapsim, r-cran-mass, r-cran-stringr, r-cran-readr Suggests: r-cran-knitr, r-cran-prettydoc, r-cran-testthat, r-cran-gplots, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sim1000g_1.40-1.ca2004.1_all.deb Size: 1143780 MD5sum: 680ac4b518ee19167759bc065d15f255 SHA1: 32668bba577ed4f79a90ccdb094ea80c38da1dba SHA256: f15f0a13b24c17d7797a708e755fbc0accc38d18ed984667055e56aa4a593c53 SHA512: 3aa4640f49b27aef6e2837030d19449fe025a7b0bd88ed4c6f7cdde5972ea4c21383fccb271690539316c6463272c30cdda29dfc69d6db3135925a7c9096c98c Homepage: https://cran.r-project.org/package=sim1000G Description: CRAN Package 'sim1000G' (Genotype Simulations for Rare or Common Variants UsingHaplotypes from 1000 Genomes) Generates realistic simulated genetic data in families or unrelated individuals. Package: r-cran-sim2dpredictr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-rdpack, r-cran-spam, r-cran-tibble, r-cran-dplyr, r-cran-matrixcalc Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-v8 Filename: pool/dists/focal/main/r-cran-sim2dpredictr_0.1.1-1.ca2004.1_all.deb Size: 193892 MD5sum: 2ac4f56ab2e1be32cd3ee060d36fc5bc SHA1: b8d9977a14990a0a1a6bbfd5ab11ddd58819653d SHA256: 716f86ac4931664023c0666d7659f4160aa8cf81e47ce5cf6f984159b7fda601 SHA512: 0ebb50f011433615830171b90e9130f2ce9e692df4e9f91ea01241f9063dc6636e04ccd95cbd2191266b2dd0b6f7eeaadeb1df6da971bd211979233346c2bee4 Homepage: https://cran.r-project.org/package=sim2Dpredictr Description: CRAN Package 'sim2Dpredictr' (Simulate Outcomes Using Spatially Dependent Design Matrices) Provides tools for simulating spatially dependent predictors (continuous or binary), which are used to generate scalar outcomes in a (generalized) linear model framework. Continuous predictors are generated using traditional multivariate normal distributions or Gauss Markov random fields with several correlation function approaches (e.g., see Rue (2001) and Furrer and Sain (2010) ), while binary predictors are generated using a Boolean model (see Cressie and Wikle (2011, ISBN: 978-0-471-69274-4)). Parameter vectors exhibiting spatial clustering can also be easily specified by the user. 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Sites that are under-reporting AEs can be detected using Bootstrap-based simulations that simulate overall AE reporting. Based on the simulation an AE under-reporting probability is assigned to each site in a given trial (Koneswarakantha 2021 ). Package: r-cran-simbarepro Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 442 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ddalpha, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simbarepro_0.1.0-1.ca2004.1_all.deb Size: 229432 MD5sum: bf0f59ddff39851b3d98ffa14813cf0e SHA1: 2b586e76c6f2f1a062772f4ed42ae913d6ec47be SHA256: f9e805f198cc33570a5baea18bd20bb804eb94d398f68bff583744413b89abd7 SHA512: 9f91cd4003d80c98fa1f080a4e7d4b8f0d724c997814313534141dc4182e6d5b766c7e755600da36c72b05e722d6ba14353d9fe20a2c1a5765fe6024c0f9bc9f Homepage: https://cran.r-project.org/package=SimBaRepro Description: CRAN Package 'SimBaRepro' (Simulation-Based, Finite-Sample Inference via Repro Samples) Functions for obtaining p-values (for hypothesis tests), confidence intervals, and multivariate confidence sets. In particular, the method is compatible with differentially private dataset, as long as the privacy mechanism is known. For more details, see Awan and Wang (2024), "Simulation-based, Finite-sample Inference for Privatized Data", . Package: r-cran-simbkmrdata Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1103 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass Suggests: r-cran-bkmr, r-cran-fields, r-cran-gt, r-cran-quarto, r-cran-testthat, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-simbkmrdata_0.2.1-1.ca2004.1_all.deb Size: 577616 MD5sum: 4e7b7a53c7f2bfa30cfb91f21c7cd09d SHA1: f88b15cf26ec8441904c643e16ef0ddd2604f780 SHA256: d91af7edf94e070a112104bc180da77353fa90c394296dbba2f13df58e49d9b4 SHA512: df98945e1050bce31969d8ede1ebc490ae2229bcd3e34f5c85cc33abc6809a74dca6656c1dea5d51d358b16304111290a9f6e1c5f2749b8c9171541147b39210 Homepage: https://cran.r-project.org/package=simBKMRdata Description: CRAN Package 'simBKMRdata' (Helper Functions for Bayesian Kernel Machine Regression) Provides a suite of helper functions to support Bayesian Kernel Machine Regression (BKMR) analyses in environmental health research. 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Package: r-cran-simboot Architecture: all Version: 0.2-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-boot, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-simboot_0.2-8-1.ca2004.1_all.deb Size: 118500 MD5sum: 23457c6678831af76bec6d9ef573f298 SHA1: 7f8dc3a1818ebe8e17e654f3aa1407edc92a96b5 SHA256: ae448d0e25af60f964430e5c3f1d3f87f70fd80965c424e468bd651a464750dc SHA512: 13d38320669704e2fea8c08cb2445a0d3e7ac78c14d121c88a949316b0f516175f05c9e6d25c2d9ca51f01a76428540851221333cbc5d516a5946f8c902e6f2e Homepage: https://cran.r-project.org/package=simboot Description: CRAN Package 'simboot' (Simultaneous Inference for Diversity Indices) Provides estimation of simultaneous bootstrap and asymptotic confidence intervals for diversity indices, namely the Shannon and the Simpson index. Several pre--specified multiple comparison types are available to choose. 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Package: r-cran-simcat Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-mirt, r-cran-mirtcat, r-cran-shiny, r-cran-shinycssloaders Filename: pool/dists/focal/main/r-cran-simcat_1.0.1-1.ca2004.1_all.deb Size: 79604 MD5sum: 24956721d48f5a518249b4c023420fa2 SHA1: a5238d095d6f54923d9ae2c1787118bd71df1f6d SHA256: 1222e04eeb4b622516c2aac64bf8aa99ce9c12b1776cc0bba51a7a808faa16d5 SHA512: dc1dda68ad49ad02d793ce8b6a6fe248e2fbdbf730ac17d99cfc8834586567fb8454123e187c722a804ce7091d1ed80e8d8b5e870bc4403ec56c53f3b9251321 Homepage: https://cran.r-project.org/package=simCAT Description: CRAN Package 'simCAT' (Implements Computerized Adaptive Testing Simulations) Computerized Adaptive Testing simulations with dichotomous and polytomous items. Selects items with Maximum Fisher Information method or randomly, with or without constraints (content balancing and item exposure control). Evaluates the simulation results in terms of precision, item exposure, and test length. Inspired on Magis & Barrada (2017) . 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Specify interventions and simulate from intervened data generating distributions. Define and evaluate treatment-specific means, the average treatment effects and coefficients from working marginal structural models. User interface designed to facilitate the conduct of transparent and reproducible simulation studies, and allows concise expression of complex functional dependencies for a large number of time-varying nodes. See the package vignette for more information, documentation and examples. Package: r-cran-simcomp Architecture: all Version: 3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 215 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm, r-cran-multcomp, r-cran-mratios Filename: pool/dists/focal/main/r-cran-simcomp_3.6-1.ca2004.1_all.deb Size: 183176 MD5sum: 153056f1cebfff0028f3dca8a61a710b SHA1: 49ca3fb17d7d16b6f439b03271a597fbe0ca0737 SHA256: 2600706c8bf69b2c672dd5eb2e2a20cfcb98a326fa30d1227835c11b0336a4f3 SHA512: cd50cf734a337a3188bd214279ee6c231b04147d04e8f3c57427ec8dc053741e5d765e6571f5d5b5d40841a868f5c20b4a2483bdec52d866883fefa6db9fd002 Homepage: https://cran.r-project.org/package=SimComp Description: CRAN Package 'SimComp' (Simultaneous Comparisons for Multiple Endpoints) Simultaneous tests and confidence intervals are provided for one-way experimental designs with one or many normally distributed, primary response variables (endpoints). Differences (Hasler and Hothorn, 2011 ) or ratios (Hasler and Hothorn, 2012 ) of means can be considered. Various contrasts can be chosen, unbalanced sample sizes are allowed as well as heterogeneous variances (Hasler and Hothorn, 2008 ) or covariance matrices (Hasler, 2014 ). Package: r-cran-simcop Architecture: all Version: 0.7.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 411 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quadprog, r-cran-rgl Filename: pool/dists/focal/main/r-cran-simcop_0.7.3-1.ca2004.1_all.deb Size: 375816 MD5sum: 3aef6a603ba9eb9a5884dc2bf8027cb4 SHA1: 1f6ead3a6c3af58f188168664b0d5b1bc9721471 SHA256: aa90fb6f55f86cd3b8325379e41f84a33abc133127ea78e697ea66295fb70174 SHA512: c80dd0896660c9a44a5eafb44639d37c95b3e2a13c4f73a902a382fc467f3be72193f6c011053be45a97d4edef547fc2703eff9c2d63eccad5de9dbc755e8723 Homepage: https://cran.r-project.org/package=SimCop Description: CRAN Package 'SimCop' (Simulate from Arbitrary Copulae) Provides a framework to generating random variates from arbitrary multivariate copulae, while concentrating on (bivariate) extreme value copulae. Particularly useful if the multivariate copulae are not available in closed form. Detailed discussion of the methodologies used can be found in Tajvidi and Turlach (2018) . Package: r-cran-simcormultres Architecture: all Version: 1.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1117 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-evd Suggests: r-cran-bookdown, r-cran-covr, r-cran-gee, r-cran-knitr, r-cran-multgee, r-cran-rmarkdown, r-cran-r.rsp, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simcormultres_1.9.0-1.ca2004.1_all.deb Size: 566060 MD5sum: 1199a2ad48a7f6c9b359bdab7d0bbdf1 SHA1: 43f773fbea5cb3f4b098ffa1f1198dc14480d910 SHA256: 4f547dced3528856a5306ba3d42a3b8bd5109811e84c02b92b0cd9f7ff0ebfe8 SHA512: 388c19eeb17e250400008698f6996a5acf9bea45d3ac70d85ab1fc9e5d4f9c43da5faeec452c5c41150648a5259a4bd17fe1c315352b830c4cbf2ea1598b00d6 Homepage: https://cran.r-project.org/package=SimCorMultRes Description: CRAN Package 'SimCorMultRes' (Simulates Correlated Multinomial Responses) Simulates correlated multinomial responses conditional on a marginal model specification. Package: r-cran-simcorrmix Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4610 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-simmulticorrdata, r-cran-bb, r-cran-nleqslv, r-cran-mass, r-cran-mvtnorm, r-cran-matrix, r-cran-vgam, r-cran-triangle, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-printr, r-cran-bookdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simcorrmix_0.1.1-1.ca2004.1_all.deb Size: 826140 MD5sum: 58a845641b6fe9e19de1ee4bc0d13d1b SHA1: b17afd1d0c1adb044191f8de0f6f3406bf506c45 SHA256: a347c363fab843a9753c748641f5b76aa15a839e17de985a24da2538212b2aa2 SHA512: 26a463924dd2897710196e33e5e33798f2ac1538f5aa0d8672b67efc324d05cacca34ef39c0ac1812e0f12e101b050dcc9e50ac95dd3df489020227abff14b72 Homepage: https://cran.r-project.org/package=SimCorrMix Description: CRAN Package 'SimCorrMix' (Simulation of Correlated Data with Multiple Variable TypesIncluding Continuous and Count Mixture Distributions) Generate continuous (normal, non-normal, or mixture distributions), binary, ordinal, and count (regular or zero-inflated, Poisson or Negative Binomial) variables with a specified correlation matrix, or one continuous variable with a mixture distribution. This package can be used to simulate data sets that mimic real-world clinical or genetic data sets (i.e., plasmodes, as in Vaughan et al., 2009 ). The methods extend those found in the 'SimMultiCorrData' R package. Standard normal variables with an imposed intermediate correlation matrix are transformed to generate the desired distributions. Continuous variables are simulated using either Fleishman (1978)'s third order or Headrick (2002)'s fifth order polynomial transformation method (the power method transformation, PMT). Non-mixture distributions require the user to specify mean, variance, skewness, standardized kurtosis, and standardized fifth and sixth cumulants. Mixture distributions require these inputs for the component distributions plus the mixing probabilities. Simulation occurs at the component level for continuous mixture distributions. The target correlation matrix is specified in terms of correlations with components of continuous mixture variables. These components are transformed into the desired mixture variables using random multinomial variables based on the mixing probabilities. However, the package provides functions to approximate expected correlations with continuous mixture variables given target correlations with the components. Binary and ordinal variables are simulated using a modification of ordsample() in package 'GenOrd'. Count variables are simulated using the inverse CDF method. There are two simulation pathways which calculate intermediate correlations involving count variables differently. Correlation Method 1 adapts Yahav and Shmueli's 2012 method and performs best with large count variable means and positive correlations or small means and negative correlations. Correlation Method 2 adapts Barbiero and Ferrari's 2015 modification of the 'GenOrd' package and performs best under the opposite scenarios. The optional error loop may be used to improve the accuracy of the final correlation matrix. The package also contains functions to calculate the standardized cumulants of continuous mixture distributions, check parameter inputs, calculate feasible correlation boundaries, and summarize and plot simulated variables. Package: r-cran-simdag Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1949 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-rfast, r-cran-rlang, r-cran-igraph Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-ggplot2, r-cran-ggforce, r-cran-mass, r-cran-covr, r-cran-foreach, r-cran-dosnow, r-cran-dorng, r-cran-simr, r-cran-rsurv, r-cran-survival Filename: pool/dists/focal/main/r-cran-simdag_0.3.2-1.ca2004.1_all.deb Size: 1098660 MD5sum: 3087a341873c18167cbbaa83aef514af SHA1: 2378be81cc66d46ead8e87e47298227b0bdac011 SHA256: ff981421b3d661526ca97d6fc579a1c24604089287b4696962a6651eb9341804 SHA512: c1f373696a8143b38a6bdb3407932a485ebdda80facf2f0b99c52cb947695dc6ae7b34fb56c8ca682fb605513188fecd1fd31302f198d57c237012ab054332b1 Homepage: https://cran.r-project.org/package=simDAG Description: CRAN Package 'simDAG' (Simulate Data from a DAG and Associated Node Information) Simulate complex data from a given directed acyclic graph and information about each individual node. Root nodes are simply sampled from the specified distribution. Child Nodes are simulated according to one of many implemented regressions, such as logistic regression, linear regression, poisson regression and more. Also includes a comprehensive framework for discrete-time simulation, which can generate even more complex longitudinal data. For more details, see Robin Denz, Nina Timmesfeld (2025) . Package: r-cran-simdata Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1228 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-matrix, r-cran-mvtnorm, r-cran-igraph Suggests: r-cran-doparallel, r-cran-dorng, r-cran-dplyr, r-cran-fitdistrplus, r-cran-forcats, r-cran-ggplot2, r-cran-ggally, r-cran-ggcorrplot, r-cran-knitr, r-cran-patchwork, r-cran-purrr, r-cran-reshape2, r-cran-rmarkdown, r-cran-nhanes, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simdata_0.4.1-1.ca2004.1_all.deb Size: 735424 MD5sum: cf09c68a04c0562a8ac9077ad7eae2c1 SHA1: 1e49a27d66730040fff75231e17d0d3ce21c25c4 SHA256: f7ab5cb717ba1296442c1bbeed18901d879e3d35bd57f87e510b9294782653c0 SHA512: c5b8da16c94b9ad87e846be92442b1546f599c5e81badc7dfd49cf25a781e06ab08371a50d45fe4c53b274ceb8dc5d762d7ad62198028c7fc777bda191b00217 Homepage: https://cran.r-project.org/package=simdata Description: CRAN Package 'simdata' (Generate Simulated Datasets) Generate simulated datasets from an initial underlying distribution and apply transformations to obtain realistic data. Implements the 'NORTA' (Normal-to-anything) approach from Cario and Nelson (1997) and other data generating mechanisms. Simple network visualization tools are provided to facilitate communicating the simulation setup. Package: r-cran-simdd Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-circstats, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simdd_1.1-2-1.ca2004.1_all.deb Size: 54820 MD5sum: 2dcf2ec338c6d58d092806eec18ab9cc SHA1: 0f03a85dc306e48fe77fd86b3dcaf9c23bae3286 SHA256: 5b5a239aa0b771c4b98e6cae384b8ababa0883507cb31b22fba74ac8a8de88c7 SHA512: a444b487041b0f6ccf51bc58b8c059dc69d46a688789c6a6493fb7cee4ea37ffd464a76fa8563bf9ffdfed0b98943f5ddef0f7f89c042a9fc5abe80ef1c24d01 Homepage: https://cran.r-project.org/package=simdd Description: CRAN Package 'simdd' (Simulation of Fisher Bingham and Related DirectionalDistributions) Simulation methods for the Fisher Bingham distribution on the unit sphere, the matrix Bingham distribution on a Grassmann manifold, the matrix Fisher distribution on SO(3), and the bivariate von Mises sine model on the torus. The methods use an acceptance/rejection simulation algorithm for the Bingham distribution and are described fully by Kent, Ganeiber and Mardia (2018) . These methods supersede earlier MCMC simulation methods and are more general than earlier simulation methods. The methods can be slower in specific situations where there are existing non-MCMC simulation methods (see Section 8 of Kent, Ganeiber and Mardia (2018) for further details). Package: r-cran-simdesign Architecture: all Version: 2.19.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7518 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-testthat, r-cran-parallelly, r-cran-dplyr, r-cran-sessioninfo, r-cran-beepr, r-cran-pbapply, r-cran-future, r-cran-future.apply, r-cran-progressr, r-cran-r.utils Suggests: r-cran-knitr, r-cran-ggplot2, r-cran-tidyr, r-cran-purrr, r-cran-shiny, r-cran-copula, r-cran-extradistr, r-cran-renv, r-cran-cli, r-cran-job, r-cran-future.batchtools, r-cran-frf2, r-cran-rmarkdown, r-cran-rpushbullet, r-cran-httr Filename: pool/dists/focal/main/r-cran-simdesign_2.19.2-1.ca2004.1_all.deb Size: 1145808 MD5sum: 288c793813a5d97616e5dde173f9180b SHA1: 23a038135ab657ce806945afe13e6bf88b37882c SHA256: 028f83dce493646cc1b3aeafe85d38bfd5400176430c58c7f5fc3bffbc45eff9 SHA512: ebf795410493c3259b5dda226b057f9d92f06f7cdb94ef63f17ff8f8317f2257749a731913346390cd73b4df9d5fe4d553e19c2dd18d873fbe741d026933960f Homepage: https://cran.r-project.org/package=SimDesign Description: CRAN Package 'SimDesign' (Structure for Organizing Monte Carlo Simulation Designs) Provides tools to safely and efficiently organize and execute Monte Carlo simulation experiments in R. The package controls the structure and back-end of Monte Carlo simulation experiments by utilizing a generate-analyse-summarise workflow. The workflow safeguards against common simulation coding issues, such as automatically re-simulating non-convergent results, prevents inadvertently overwriting simulation files, catches error and warning messages during execution, implicitly supports parallel processing with high-quality random number generation, and provides tools for managing high-performance computing (HPC) array jobs submitted to schedulers such as SLURM. For a pedagogical introduction to the package see Sigal and Chalmers (2016) . For a more in-depth overview of the package and its design philosophy see Chalmers and Adkins (2020) . Package: r-cran-simdissolution Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-alabama, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-simdissolution_0.1.0-1.ca2004.1_all.deb Size: 40128 MD5sum: 66f8e111a5965699f33dfee17a8944ce SHA1: 78c616b817d79bac32460a8dd462c45e98da662e SHA256: 526c26c1f9d0ba0277cee76ab996bcf8af3f41cd6324947641f4aa24011bf608 SHA512: 7a9bd8ff6dcfc7c3c87cfc425d37f8dd8a38f2397d5dfc4eacbd8cb3331de1c3204b63eda8825f1590b9b419edb7ad47aba5321d2cf67e1971aa40e69a46bc7a Homepage: https://cran.r-project.org/package=SimDissolution Description: CRAN Package 'SimDissolution' (Modeling and Assessing Similarity of Drug Dissolutions Profiles) Implementation of a model-based bootstrap approach for testing whether two formulations are similar. The package provides a function for fitting a pharmacokinetic model to time-concentration data and comparing the results for all five candidate models regarding the Residual Sum of Squares (RSS). The candidate set contains a First order, Hixson-Crowell, Higuchi, Weibull and a logistic model. The assessment of similarity implemented in this package is performed regarding the maximum deviation of the profiles. See Moellenhoff et al. (2018) for details. Package: r-cran-simdistr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-simdistr_1.0.1-1.ca2004.1_all.deb Size: 23248 MD5sum: af664549cda52fb9f3f8bc227e83198b SHA1: bbdfcc1d521087e08e30dd4d63230820060c9150 SHA256: c59a0e1055c1c4cf337e1fb00b1e693cbed839f817dd40f6eaa1447bbe6e6d31 SHA512: 45708df856f662ccad2495d7292dc78fb4dce80872d697f30f06c7f75829bd2612fe64e11055a529f2d7601556cd2706872c1b3be2cc0036522a22722519626c Homepage: https://cran.r-project.org/package=simdistr Description: CRAN Package 'simdistr' (Assessment of Data Trial Distributions According to theCarlisle-Stouffer Method) Assessment of the distributions of baseline continuous and categorical variables in randomised trials. This method is based on the Carlisle-Stouffer method with Monte Carlo simulations. It calculates p-values for each trial baseline variable, as well as combined p-values for each trial - these p-values measure how compatible are distributions of trials baseline variables with random sampling. This package also allows for graphically plotting the cumulative frequencies of computed p-values. Please note that code was partly adapted from Carlisle JB, Loadsman JA. (2017) . Package: r-cran-simdnamixtures Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3601 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-naturalsort, r-cran-pedprobr, r-cran-xml2 Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-pedtools, r-cran-testthat, r-cran-readr, r-cran-readxl, r-cran-withr Filename: pool/dists/focal/main/r-cran-simdnamixtures_1.1.2-1.ca2004.1_all.deb Size: 889660 MD5sum: 447aff44db3c52471d75160db7b28ee8 SHA1: 69efa14fe7e037c96e7e129b688bf848001b76f6 SHA256: 3a3646c9be7704f2fe46539e5b3f3bd4f375bc9fce1d7492d3f2d68cae3c0961 SHA512: bd688ed7d70b6a9674f4cc0607cf757e8dac39a6a75df9708bff386851f5b92ca8b06a9fac745dceba012b6f66cab31c2b7d86c55ac7efbcac9c807402548db0 Homepage: https://cran.r-project.org/package=simDNAmixtures Description: CRAN Package 'simDNAmixtures' (Simulate Forensic DNA Mixtures) Mixed DNA profiles can be sampled according to models for probabilistic genotyping. Peak height variability is modelled using a log normal distribution or a gamma distribution. Sample contributors may be related according to a pedigree. Package: r-cran-simed Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 830 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rstream, r-cran-shape Suggests: r-cran-magick Filename: pool/dists/focal/main/r-cran-simed_2.0.1-1.ca2004.1_all.deb Size: 788872 MD5sum: 0ba655b9851d1e4cb2bdef721d189a38 SHA1: 1fdc3f2f9ebd4d4cf6134f4eb84dfb487620b30a SHA256: 1ff7974c552a6e2a85366745c04847993d2903aa6e61516457702d174d238250 SHA512: 6bd8bc945f97c51d4b3560a09a4adcb32b6bd64611214301546b873576d70e4d34261f0f9804904931d8e28ba8e67da1db1b49ff867fe0d697393787dacfdde4 Homepage: https://cran.r-project.org/package=simEd Description: CRAN Package 'simEd' (Simulation Education) Contains various functions to be used for simulation education, including simple Monte Carlo simulation functions, queueing simulation functions, variate generation functions capable of producing independent streams and antithetic variates, functions for illustrating random variate generation for various discrete and continuous distributions, and functions to compute time-persistent statistics. Also contains functions for visualizing: event-driven details of a single-server queue model; a Lehmer random number generator; variate generation via acceptance-rejection; and of generating a non-homogeneous Poisson process via thinning. Also contains two queueing data sets (one fabricated, one real-world) to facilitate input modeling. More details on the use of these functions can be found in Lawson and Leemis (2015) , in Kudlay, Lawson, and Leemis (2020) , and in Lawson and Leemis (2021) . Package: r-cran-simengine Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 935 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-pbapply, r-cran-data.table, r-cran-rlang, r-cran-mass Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr, r-cran-ggplot2, r-cran-sandwich Filename: pool/dists/focal/main/r-cran-simengine_1.4.0-1.ca2004.1_all.deb Size: 651520 MD5sum: f82f982903756165cb2376b8d48081db SHA1: 984dd82ae57117c1251e5b349026954962dab249 SHA256: 78ffbe19d000b2b4f9ec10ac55958016df75ad1e4836f046af196b5a7a80a0e7 SHA512: fbad2a54789001c3fb9b2728aa61a527ce5776074e808c43b70d0f92127567edf8bc9579dfbd523c59a15667fefe69fa57e89c93b7c98cdfb21a754ba136e4af Homepage: https://cran.r-project.org/package=SimEngine Description: CRAN Package 'SimEngine' (A Modular Framework for Statistical Simulations in R) An open-source R package for structuring, maintaining, running, and debugging statistical simulations on both local and cluster-based computing environments.See full documentation at . Package: r-cran-simet Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 356 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggpmisc, r-cran-ggpubr, r-cran-lubridate, r-cran-magrittr, r-cran-plyr, r-cran-rlang, r-cran-stringr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-simet_1.0.3-1.ca2004.1_all.deb Size: 296288 MD5sum: 16cd4789a45ac0cb1057853c4551193d SHA1: 708f421f2601ba7a38029a2892295d45c2c2ed4d SHA256: 67d879a640e2b2688cfdc16467b7377e1063a0fae98d578c9906923a7bdd99d7 SHA512: ad1c97d0725265f0f0cb5163a32bbebfe49ace7757c0140c7835fa1370ad5f0f2bf077e8cce12abeaa98f28c524877d1866bd7c65fdd3009ea473602dae84788 Homepage: https://cran.r-project.org/package=simET Description: CRAN Package 'simET' (Tools for Simulation of Evapotranspiration of Field Crops andSoil Water Balance) Supports the calculation of meteorological characteristics in evapotranspiration research and reference crop evapotranspiration, and offers three models to simulate crop evapotranspiration and soil water balance in the field, including single crop coefficient and dual crop coefficient, as well as the Shuttleworth-Wallace model. These calculations main refer to Allen et al.(1998, ISBN:92-5-104219-5), Teh (2006, ISBN:1-58-112-998-X), and Liu et al.(2006) . 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Compute evolutionary equilibrium and Range of Neutral Variations of enzyme concentrations. This package is part of "Coton, C., Talbot, G., Le Louarn, M., Dillmann, C., de Vienne, D. (2021) ". Version 2.0.0 and more takes account of regulation groups, and is part of a second article "Coton, C., Dillmann, C., de Vienne, D. (in progress)". 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Package: r-cran-simits Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 474 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-rlang Suggests: r-cran-arm, r-cran-ggplot2, r-cran-knitr, r-cran-plyr, r-cran-purrr, r-cran-rmarkdown, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-simits_0.1.1-1.ca2004.1_all.deb Size: 326692 MD5sum: 6484e3b9610c89bbd4c6b8fb93e4a11a SHA1: b9ccd4f88e52aa05a14b9114533ac40d755504b7 SHA256: 86c59caf61b8bbd64cfa5d334c648b0db604a6ce7aa9ef5f79e1e31ca283d1e6 SHA512: 198c1999eaf2a012ac37bb5406c8123732b93335847e7d5b33d8022d89081c090045be36c5004ebd1aedc85b0d02ff9398ef24b2d34989c1d608b15bbb989e96 Homepage: https://cran.r-project.org/package=simITS Description: CRAN Package 'simITS' (Analysis via Simulation of Interrupted Time Series (ITS) Data) Uses simulation to create prediction intervals for post-policy outcomes in interrupted time series (ITS) designs, following Miratrix (2020) . This package provides methods for fitting ITS models with lagged outcomes and variables to account for temporal dependencies. It then conducts inference via simulation, simulating a set of plausible counterfactual post-policy series to compare to the observed post-policy series. This package also provides methods to visualize such data, and also to incorporate seasonality models and smoothing and aggregation/summarization. This work partially funded by Arnold Ventures in collaboration with MDRC. Package: r-cran-simlandr Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1630 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bigmemory, r-cran-coda, r-cran-digest, r-cran-dplyr, r-cran-forcats, r-cran-furrr, r-cran-gganimate, r-cran-ggplot2, r-cran-htmlwidgets, r-cran-ks, r-cran-lifecycle, r-cran-magrittr, r-cran-mass, r-cran-plotly, r-cran-progress, r-cran-purrr, r-cran-rlang, r-cran-sim.diffproc, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-webshot Filename: pool/dists/focal/main/r-cran-simlandr_0.4.0-1.ca2004.1_all.deb Size: 1152860 MD5sum: a0a1e0b53115afd043a323d592f044a8 SHA1: 5a2fb069a7add56d0d31ca87eb78278543ba732f SHA256: 7e5a2ad49a0399cfe408388586a8936186e63e23086585c7b91b3cac9b2a8fbd SHA512: 9fda855745d80585bcc02a63c5c3053d7b46d1fa9d1e207d614f29b267be70356ff14776250096334581a93f5af41607d777dca851ccd2654827937f266a2288 Homepage: https://cran.r-project.org/package=simlandr Description: CRAN Package 'simlandr' (Simulation-Based Landscape Construction for Dynamical Systems) A toolbox for constructing potential landscapes for dynamical systems using Monte Carlo simulation. The method is based on the potential landscape definition by Wang et al. (2008) (also see Zhou & Li, 2016 for further mathematical discussions) and can be used for a large variety of models. Package: r-cran-simle Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 271 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-matrix, r-cran-plotly, r-cran-stringr, r-cran-rcurl, r-cran-sie2nts Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-simle_0.1.0-1.ca2004.1_all.deb Size: 219856 MD5sum: dbc0a79158abf5503a5bfdb17d8c7154 SHA1: 215b23cb6d00f57f1ec8af4f73c4cc8a44917223 SHA256: 7f290e3ef9d0ce2dfb97bd9e511dadc41a0953654e5c08ef2d700667510f987e SHA512: 9ed9ecfcdafbb3567d382b66470415daed6cdd0a6cb84c6bf964a4053373491b9955111c85df2da17692246e4480bb5689e143b0627ed69c934bcfda70f1562b Homepage: https://cran.r-project.org/package=SIMle Description: CRAN Package 'SIMle' (Estimation and Inference for General Time Series Regression) We provide functions for estimation and inference of nonlinear and non-stationary time series regression using the sieve methods and bootstrapping procedure. Package: r-cran-simmer.bricks Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-simmer Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-simmer.bricks_0.2.2-1.ca2004.1_all.deb Size: 40804 MD5sum: dc8725e5ee7c078d6fe923417b2eb8a8 SHA1: d616e9711eb44785fbb48bb1ab617b1d88fd79d2 SHA256: 1d66f4edc488c6bb823b66c708b7fe43d55e38e8c11cc61594ef3b99a33dfe77 SHA512: 8103b65f77c8f144f05e3a10ed162ad559b21eb68477767a3b6e39b07618cc0dbf96f8e854586bfdb63bcc02f800c62d51d2f413645f131468544d5bfecb725c Homepage: https://cran.r-project.org/package=simmer.bricks Description: CRAN Package 'simmer.bricks' (Helper Methods for 'simmer' Trajectories) Provides wrappers for common activity patterns in 'simmer' trajectories. 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Package: r-cran-simmetric Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 419 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-assertthat, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-simmetric_0.1.1-1.ca2004.1_all.deb Size: 383344 MD5sum: 89b2f5c3fb5d0ab1bab3cc0029c52e5d SHA1: 713f2cd11953baf267cd37e761ac492348426a27 SHA256: e538a4b0430d222fba97e4146cbf481fa1f474e7b9ce64ce5431395085fba119 SHA512: cbd00b013b19b09ff1d3235a0b6911d29d5879662d0ab15d7f9d8eb34c16aec60f956139257e74c3aad2cf8461323a71368eed1dd681e8741534173875f5250f Homepage: https://cran.r-project.org/package=simMetric Description: CRAN Package 'simMetric' (Metrics (with Uncertainty) for Simulation Studies that EvaluateStatistical Methods) Allows users to quickly apply individual or multiple metrics to evaluate Monte Carlo simulation studies. Package: r-cran-simml Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-simml_0.3.0-1.ca2004.1_all.deb Size: 67540 MD5sum: 3f37bb29016a1e0d929211005eadc8af SHA1: 5c5eb9496e915e5ff2595a027ffdaf4af4d7e3b1 SHA256: 2b5783fc826d8383974b457ee57321506d974f02fd037eb603d53f287196005d SHA512: 7cb114e609c844c8cbb07ae90e92b66d955c1e24f0a99f8e0b6ed11276d1438ddadef026b719036a41f46a8992deacd08fe2cd35c22d641f1bcf2a6502141487 Homepage: https://cran.r-project.org/package=simml Description: CRAN Package 'simml' (Single-Index Models with Multiple-Links) A major challenge in estimating treatment decision rules from a randomized clinical trial dataset with covariates measured at baseline lies in detecting relatively small treatment effect modification-related variability (i.e., the treatment-by-covariates interaction effects on treatment outcomes) against a relatively large non-treatment-related variability (i.e., the main effects of covariates on treatment outcomes). The class of Single-Index Models with Multiple-Links is a novel single-index model specifically designed to estimate a single-index (a linear combination) of the covariates associated with the treatment effect modification-related variability, while allowing a nonlinear association with the treatment outcomes via flexible link functions. The models provide a flexible regression approach to developing treatment decision rules based on patients' data measured at baseline. We refer to Park, Petkova, Tarpey, and Ogden (2020) and Park, Petkova, Tarpey, and Ogden (2020) (that allows an unspecified X main effect) for detail of the method. The main function of this package is simml(). Package: r-cran-simmp Architecture: all Version: 0.17.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-bioc-biostrings, r-bioc-bsgenome, r-bioc-genomeinfodb, r-bioc-genomicranges, r-bioc-iranges, r-bioc-xvector Suggests: r-bioc-bsgenome.hsapiens.ucsc.hg38 Filename: pool/dists/focal/main/r-cran-simmp_0.17.3-1.ca2004.1_all.deb Size: 43144 MD5sum: 421c3f169115b6498adb04500c763652 SHA1: 3c7c28c6be3b895284def12b0fe4975e91d94598 SHA256: 0cb5afa21d54e3a3a5553ac54421a71a1c4d231eaed20111abaa25cb0da47eb8 SHA512: 57fb53489c3d87efa9ac41334f185e4982a28f4ce75504c87cf83bdf9015ca8cbb8ac5bcaee1145bfafeadccc913b334d13e1f35b41aebd369551de4ded3fe91 Homepage: https://cran.r-project.org/package=simMP Description: CRAN Package 'simMP' (Simulate Somatic Mutations in Cancer Genomes from MutationalProcesses) Simulates somatic single base substitutions carried in cancer genomes. By only providing a human reference genome, substitutions that result from mutational processes operative in every cancer genome can be generated. Package: r-cran-simms Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1416 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-mass, r-cran-doparallel, r-cran-foreach, r-cran-randomforestsrc Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-xtable Filename: pool/dists/focal/main/r-cran-simms_1.3.2-1.ca2004.1_all.deb Size: 335548 MD5sum: b7716b2207010efc67796daa113f616b SHA1: 71cb3519f3f51db638ea794104a7b4942495f4f8 SHA256: 3db3d2e8cb398da4b95df601153f95a82f8bcc443e90351ac9cf4732e3bac59e SHA512: a3f00964a8f5320be2fe7fb7c12f74bf274d86339d081997073f035b4f2e6e2415bf9b4f635ea70a2f40e5d2a1538e666acfb11ee3e6cee7203ea4a7549401d9 Homepage: https://cran.r-project.org/package=SIMMS Description: CRAN Package 'SIMMS' (Subnetwork Integration for Multi-Modal Signatures) Algorithms to create prognostic biomarkers using biological genesets or networks. Package: r-cran-simmsm Architecture: all Version: 1.1.42-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival, r-cran-mvna Filename: pool/dists/focal/main/r-cran-simmsm_1.1.42-1.ca2004.1_all.deb Size: 86272 MD5sum: 4492394d3e715a488f8a5c1258d33426 SHA1: 1c5a95c0c55b677fe35d079c5b6582f3fbbc992a SHA256: 953d3eba0162c4835df2228f07414510145b6e8cc6f7927210d2bed05f71eb06 SHA512: 0d54cd9b1309ee387170fc92fee66a544d7323f3f5a0589540828def20b7ad42208c4df3be50dc501dfacb1c57825ce8d63d1ba7f411e6cf38ec5dfe8ffb9edd Homepage: https://cran.r-project.org/package=simMSM Description: CRAN Package 'simMSM' (Simulation of Event Histories for Multi-State Models) Simulation of event histories with possibly non-linear baseline hazard rate functions, non-linear (time-varying) covariate effect functions, and dependencies on the past of the history. Random generation of event histories is performed using inversion sampling on the cumulative all-cause hazard rate functions. Package: r-cran-simmulticorrdata Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1584 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bb, r-cran-nleqslv, r-cran-genord, r-cran-psych, r-cran-matrix, r-cran-vgam, r-cran-triangle, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-printr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simmulticorrdata_0.2.2-1.ca2004.1_all.deb Size: 1024484 MD5sum: e7f537175d48b6a3638af190b9f3d758 SHA1: e3fb37d265e84ddf6c36215265e522d597bc78ea SHA256: 17f99d5c5788f83b84ca78a8479c83a5bc1012beca04124d94502c8a17d1d351 SHA512: 2970a7828c8d558417e54b62582da101f4dcdcc824c6b9648da1c11cb1e20cff063595e940d68420c08aab669ab0afdb54c8d05f844de52429742c9bc29e5a18 Homepage: https://cran.r-project.org/package=SimMultiCorrData Description: CRAN Package 'SimMultiCorrData' (Simulation of Correlated Data with Multiple Variable Types) Generate continuous (normal or non-normal), binary, ordinal, and count (Poisson or Negative Binomial) variables with a specified correlation matrix. It can also produce a single continuous variable. This package can be used to simulate data sets that mimic real-world situations (i.e. clinical or genetic data sets, plasmodes). All variables are generated from standard normal variables with an imposed intermediate correlation matrix. Continuous variables are simulated by specifying mean, variance, skewness, standardized kurtosis, and fifth and sixth standardized cumulants using either Fleishman's third-order () or Headrick's fifth-order () polynomial transformation. Binary and ordinal variables are simulated using a modification of the ordsample() function from 'GenOrd'. Count variables are simulated using the inverse cdf method. There are two simulation pathways which differ primarily according to the calculation of the intermediate correlation matrix. In Correlation Method 1, the intercorrelations involving count variables are determined using a simulation based, logarithmic correlation correction (adapting Yahav and Shmueli's 2012 method, ). In Correlation Method 2, the count variables are treated as ordinal (adapting Barbiero and Ferrari's 2015 modification of GenOrd, ). There is an optional error loop that corrects the final correlation matrix to be within a user-specified precision value of the target matrix. The package also includes functions to calculate standardized cumulants for theoretical distributions or from real data sets, check if a target correlation matrix is within the possible correlation bounds (given the distributions of the simulated variables), summarize results (numerically or graphically), to verify valid power method pdfs, and to calculate lower standardized kurtosis bounds. Package: r-cran-simnph Architecture: all Version: 0.5.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 408 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-simdesign, r-cran-survival, r-cran-minipch, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-nph, r-cran-nphrct, r-cran-car, r-cran-dplyr, r-cran-stringr, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr, r-cran-withr, r-cran-ldbounds, r-cran-ggplot2, r-cran-patchwork Filename: pool/dists/focal/main/r-cran-simnph_0.5.7-1.ca2004.1_all.deb Size: 292632 MD5sum: 03100f1d6e5fc0babd42580f4e7fbb1e SHA1: a16865155c337f263087347b36148207dae9ee03 SHA256: 31e47e7588f81ac35aeb80196ba0723f2301d834cdca70c243c4153b9fbd8b26 SHA512: 44ff34ef21aa157ac5289f6c2100ad34d81e9a159c2fb390067aee843b04fb0d981fc4914101fb0d0ef7bbdebaeb2c7f73ac10feafc78ba79b0917e99becf669 Homepage: https://cran.r-project.org/package=SimNPH Description: CRAN Package 'SimNPH' (Simulate Non-Proportional Hazards) A toolkit for simulation studies concerning time-to-event endpoints with non-proportional hazards. 'SimNPH' encompasses functions for simulating time-to-event data in various scenarios, simulating different trial designs like fixed-followup, event-driven, and group sequential designs. The package provides functions to calculate the true values of common summary statistics for the implemented scenarios and offers common analysis methods for time-to-event data. Helper functions for running simulations with the 'SimDesign' package and for aggregating and presenting the results are also included. Results of the conducted simulation study are available in the paper: "A Comparison of Statistical Methods for Time-To-Event Analyses in Randomized Controlled Trials Under Non-Proportional Hazards", Klinglmüller et al. (2025) . Package: r-cran-simode Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 507 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-desolve, r-cran-pracma, r-cran-quadprog, r-cran-glmnet, r-cran-ncvreg Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-simode_1.2.2-1.ca2004.1_all.deb Size: 353356 MD5sum: 20c11d0deefc0316e881df89704a7f00 SHA1: b3c5c115cb70b6137c6c6f1207fa305dd051f34e SHA256: b2898b3be027936cdbcbdd5754ae39006a3ec575794a8f1c332c013fbbdb4636 SHA512: 21953426ffc8cc9bf2290b7c90c3758a17616a4800ef7c311bff6f5ff3aca00fa6d8f6b4ba8476dd65e2467b50e7635f6cea7bbc63932d14589822a781d60ee9 Homepage: https://cran.r-project.org/package=simode Description: CRAN Package 'simode' (Statistical Inference for Systems of Ordinary DifferentialEquations using Separable Integral-Matching) Implements statistical inference for systems of ordinary differential equations, that uses the integral-matching criterion and takes advantage of the separability of parameters, in order to obtain initial parameter estimates for nonlinear least squares optimization. Dattner & Yaari (2018) . Dattner et al. (2017) . Dattner & Klaassen (2015) . 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Given a covariance matrix of a reference condition simulate plausible disregulations. See Salviato et al. (2017) . 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Package: r-cran-simrvpedigree Architecture: all Version: 0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1108 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-kinship2, r-cran-dplyr Suggests: r-cran-doparallel, r-cran-dorng, r-cran-knitr, r-cran-rmarkdown, r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simrvpedigree_0.4.4-1.ca2004.1_all.deb Size: 514672 MD5sum: 3d1b6cca31362bcd39c07be87d518b12 SHA1: 42297e4afc0ef1cd7755879e05ec411b6610a2c4 SHA256: 85ed483e698f8be40d89b6bc65110f3710db364d0400899e3b10753bfa782d12 SHA512: d53f419a6ea48a03aedec19bb25fdd403757efa6910cc4a327cae341f9a6d3c3f558ceb18229778c010540a6220889df19d93c42c68339ef28690f964c8a5e0a Homepage: https://cran.r-project.org/package=SimRVPedigree Description: CRAN Package 'SimRVPedigree' (Simulate Pedigrees Ascertained for a Rare Disease) Routines to simulate and manipulate pedigrees ascertained to contain multiple family members affected by a rare disease. Christina Nieuwoudt, Samantha J Jones, Angela Brooks-Wilson, and Jinko Graham (2018) . Package: r-cran-sims Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-chk, r-cran-future.apply, r-cran-nlist, r-cran-yesno Suggests: r-cran-covr, r-cran-future, r-cran-knitr, r-cran-progressr, r-cran-rjags, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-sims_0.0.4-1.ca2004.1_all.deb Size: 60844 MD5sum: 4201cf9bf31918e3443826e889853d33 SHA1: 3bc118758aeb6ffe38a5b7a9af04e74c9f9a2698 SHA256: 32585acf318dae20dea09383095be647d00ce14aafa5db2838f0c57f4a64b2fe SHA512: 2e05b6af36f6964077c0e2b96907add1b924a65cca727475c964e087337b89a6e2c41942dbd3f678bda8a73448a946aaba135d1d186f1999088cb8f257f8335b Homepage: https://cran.r-project.org/package=sims Description: CRAN Package 'sims' (Simulate Data from R or 'JAGS' Code) Generates data from R or 'JAGS' code for use in simulation studies. The data are returned as an 'nlist::nlists' object and/or saved to file as individual '.rds' files. Parallelization is implemented using the 'future' package. Progress is reported using the 'progressr' package. Package: r-cran-simsalapar Architecture: all Version: 1.0-12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 540 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sfsmisc, r-cran-gridbase, r-cran-colorspace Suggests: r-cran-lattice, r-cran-rmpi, r-cran-hmisc, r-cran-copula, r-cran-foreach, r-cran-doparallel, r-cran-fgarch, r-cran-robustbase Filename: pool/dists/focal/main/r-cran-simsalapar_1.0-12-1.ca2004.1_all.deb Size: 453048 MD5sum: 3a34acda594b853905a009774c2dd701 SHA1: 3327cb9eb553e6adf6ab9c2c86632d0046d68fa4 SHA256: 3fc8db45442b23c9dc6325d201c79d437bda95862eaebb55c7770e37c6b193e0 SHA512: ae77750459128e7457abc8de891741ae34764704047133a5dcce72f9beda1464f0b8756def35e15289cfc4a47259d2077bbe908832b461f8b19eb74d16402367 Homepage: https://cran.r-project.org/package=simsalapar Description: CRAN Package 'simsalapar' (Tools for Simulation Studies in Parallel) Tools for setting up ("design"), conducting, and evaluating large-scale simulation studies with graphics and tables, including parallel computations. Package: r-cran-simscrpiecewise Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-simscrpiecewise_0.1.1-1.ca2004.1_all.deb Size: 26368 MD5sum: 6996c9d6106f301a8a5ffdef2ea5c858 SHA1: ff58133c4c8ce558065503825e5f1529ee73feb5 SHA256: 948a814a07308518dc2cf7d7c81d8da78f151e2d512109dea11fc6f71f99443a SHA512: 546f67736ef11e8e1c03204105eb65ea975c6e6e2740b3bd9778b538ecd75488df2a950a4fdde7d6f89f45591828132c0c5cdaf4dbb3f60cb1077b6d47c2b304 Homepage: https://cran.r-project.org/package=SimSCRPiecewise Description: CRAN Package 'SimSCRPiecewise' ('Simulates Univariate and Semi-Competing Risks Data GivenCovariates and Piecewise Exponential Baseline Hazards') Contains two functions for simulating survival data from piecewise exponential hazards with a proportional hazards adjustment for covariates. The first function SimUNIVPiecewise simulates univariate survival data based on a piecewise exponential hazard, covariate matrix and true regression vector. The second function SimSCRPiecewise semi-competing risks data based on three piecewise exponential hazards, three true regression vectors and three matrices of patient covariates (which can be different or the same). This simulates from the Semi-Markov model of Lee et al (2015) given patient covariates, regression parameters, patient frailties and baseline hazard functions. Package: r-cran-simsem Architecture: all Version: 0.5-17-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1253 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lavaan Suggests: r-cran-quantreg, r-cran-kernsmooth, r-cran-semtools, r-cran-lavaan.mi, r-cran-openmx, r-cran-copula Filename: pool/dists/focal/main/r-cran-simsem_0.5-17-1.ca2004.1_all.deb Size: 1153524 MD5sum: 296f1033d3e6af5fa825c7e341cc9d2a SHA1: 367ee13d8ba44e938408ee0763de10d494da514c SHA256: 0b0b4ea7ba2a576ff9140600448b604adc5316ade80248ee7f895134a6eb6d7b SHA512: 9c5927be2f5583cb22760666374d6b772c2347db1790d97ce350c263508cb97ec651b5d6aa093363c9a118cfe25ca005b542639d44a50b5ff0f6556c5f023c95 Homepage: https://cran.r-project.org/package=simsem Description: CRAN Package 'simsem' (SIMulated Structural Equation Modeling) Provides an easy framework for Monte Carlo simulation in structural equation modeling, which can be used for various purposes, such as such as model fit evaluation, power analysis, or missing data handling and planning. Package: r-cran-simseq Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4382 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fdrtool Filename: pool/dists/focal/main/r-cran-simseq_1.4.0-1.ca2004.1_all.deb Size: 4443048 MD5sum: d5b9e14250e9a42706f637f486508ad3 SHA1: e1da94ccc5204ba916399484880df5b93aac9ac9 SHA256: cd08a624e10e165e25f05c7b495e5ecb8d0afd72901e49da73ebc9173ff8e8fa SHA512: 596e7ee92342b399c48bb73f336b873d507f53d34982fcbf28f0e0c9492253a0a9cc98bdc257a510db88fe662f4ddda71e681bf92cbd55d3c73365e5c62bb940 Homepage: https://cran.r-project.org/package=SimSeq Description: CRAN Package 'SimSeq' (Nonparametric Simulation of RNA-Seq Data) RNA sequencing analysis methods are often derived by relying on hypothetical parametric models for read counts that are not likely to be precisely satisfied in practice. Methods are often tested by analyzing data that have been simulated according to the assumed model. This testing strategy can result in an overly optimistic view of the performance of an RNA-seq analysis method. We develop a data-based simulation algorithm for RNA-seq data. The vector of read counts simulated for a given experimental unit has a joint distribution that closely matches the distribution of a source RNA-seq dataset provided by the user. Users control the proportion of genes simulated to be differentially expressed (DE) and can provide a vector of weights to control the distribution of effect sizes. The algorithm requires a matrix of RNA-seq read counts with large sample sizes in at least two treatment groups. Many datasets are available that fit this standard. Package: r-cran-simsl Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 271 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-simsl_0.2.1-1.ca2004.1_all.deb Size: 216908 MD5sum: 74dcd8e0a05def2cb19b24ab9966a0ab SHA1: e688c0c456efb1ba1553063cc0629c2a7d1de5e1 SHA256: dd29105363a7ae746832ea466b5b37e98d583a4a32733ba3196845c4ba80ffc1 SHA512: b31a246b869e185925b80bce687ac820a5fa85857e9a4ff10ebf7e998e2d3517575bfdaace3d5894c6d223801a404ab3069fad3358a9d36eee1e7d3a1840d192 Homepage: https://cran.r-project.org/package=simsl Description: CRAN Package 'simsl' (Single-Index Models with a Surface-Link) An implementation of a single-index regression for optimizing individualized dose rules from an observational study. To model interaction effects between baseline covariates and a treatment variable defined on a continuum, we employ two-dimensional penalized spline regression on an index-treatment domain, where the index is defined as a linear combination of the covariates (a single-index). An unspecified main effect for the covariates is allowed, which can also be modeled through a parametric model. A unique contribution of this work is in the parsimonious single-index parametrization specifically defined for the interaction effect term. We refer to Park, Petkova, Tarpey, and Ogden (2020) (for the case of a discrete treatment) and Park, Petkova, Tarpey, and Ogden (2021) "A single-index model with a surface-link for optimizing individualized dose rules" for detail of the method. The model can take a member of the exponential family as a response variable and can also take an ordinal categorical response. The main function of this package is simsl(). Package: r-cran-simsst Architecture: all Version: 0.0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-gamlss.dist, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-simsst_0.0.5.2-1.ca2004.1_all.deb Size: 54944 MD5sum: 5e0c74191bafb97368b834546a979f18 SHA1: 3c4719f5fb3ad3b7ece0151876a322859c1014e8 SHA256: a3d1c8dd3cb6772c7fc7b189d8b1fcf25ec91b7b175cc5c479422607dd9454db SHA512: 2c8a0b2b362acb418c715b37b01ff022013bb556eb5ec3cc3f37c61b4aebb21733b15eee33700ae789ec614cb904ab7fec973db6614accb3260f889772708dbe Homepage: https://cran.r-project.org/package=SimSST Description: CRAN Package 'SimSST' (Simulated Stop Signal Task Data) Stop signal task data of go and stop trials is generated per participant. The simulation process is based on the generally non-independent horse race model and fixed stop signal delay or tracking method. Each of go and stop process is assumed having exponentially modified Gaussian(ExG) or Shifted Wald (SW) distributions. The output data can be converted to 'BEESTS' software input data enabling researchers to test and evaluate various brain stopping processes manifested by ExG or SW distributional parameters of interest. Methods are described in: Soltanifar M (2020) , Matzke D, Love J, Wiecki TV, Brown SD, Logan GD and Wagenmakers E-J (2013) , Logan GD, Van Zandt T, Verbruggen F, Wagenmakers EJ. (2014) . Package: r-cran-simstandard Architecture: all Version: 0.6.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1259 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lavaan, r-cran-mvtnorm, r-cran-tibble, r-cran-magrittr, r-cran-rlang, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-forcats, r-cran-stringr, r-cran-testthat, r-cran-covr, r-cran-badger Filename: pool/dists/focal/main/r-cran-simstandard_0.6.3-1.ca2004.1_all.deb Size: 926828 MD5sum: 427eaae0c3aebff1475ccb87a7667b66 SHA1: 0312d2767a7abc05367e6af8670df74d936fa140 SHA256: f835335a0bfb882b48df7b084fa5144594b8ac4a3f7e384376a2314fa7cd59f2 SHA512: 8fdddd1eca276b5fbe2361ed901f4bdd6e96ac536fd64826a7ad4e6a344608be75d1d11eaccea26c7c5c91c9ccc0f3370c6a0870fd16178a3428028776a623cf Homepage: https://cran.r-project.org/package=simstandard Description: CRAN Package 'simstandard' (Generate Standardized Data) Creates simulated data from structural equation models with standardized loading. Data generation methods are described in Schneider (2013) . Package: r-cran-simsurv Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 294 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-bb, r-cran-eha, r-cran-flexsurv, r-cran-mass, r-cran-rmarkdown, r-cran-rstpm2, r-cran-survival, r-cran-testthat Filename: pool/dists/focal/main/r-cran-simsurv_1.0.0-1.ca2004.1_all.deb Size: 114124 MD5sum: 694245f3827ecd2815585fc17a6d6111 SHA1: b34d4c13ea3a1ff1057e47f630a4802a86290e34 SHA256: e417eaf911c10dafc3922f53218a04679edca7c4bffca4fac8a65981f65bbcbf SHA512: 4836bf3c4e0ea03101e947c640d821368270a394f1ed27fcf9919b3ec6c7c04fd88d78e4611cd7ca443e01c768eaabd58c904f7e38aec5b57f078f81e8214421 Homepage: https://cran.r-project.org/package=simsurv Description: CRAN Package 'simsurv' (Simulate Survival Data) Simulate survival times from standard parametric survival distributions (exponential, Weibull, Gompertz), 2-component mixture distributions, or a user-defined hazard, log hazard, cumulative hazard, or log cumulative hazard function. Baseline covariates can be included under a proportional hazards assumption. Time dependent effects (i.e. non-proportional hazards) can be included by interacting covariates with linear time or a user-defined function of time. Clustered event times are also accommodated. The 2-component mixture distributions can allow for a variety of flexible baseline hazard functions reflecting those seen in practice. If the user wishes to provide a user-defined hazard or log hazard function then this is possible, and the resulting cumulative hazard function does not need to have a closed-form solution. For details see the supporting paper . Note that this package is modelled on the 'survsim' package available in the 'Stata' software (see Crowther and Lambert (2012) or Crowther and Lambert (2013) ). Package: r-cran-simsurvey Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3645 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-stars, r-cran-data.table, r-cran-magrittr, r-cran-progress, r-cran-doparallel, r-cran-foreach, r-cran-plotly, r-cran-rlang, r-cran-lifecycle Suggests: r-cran-fields, r-cran-rmarkdown, r-cran-flexdashboard, r-cran-shiny, r-cran-crosstalk, r-cran-htmltools, r-cran-viridis, r-cran-lme4, r-cran-ggplot2, r-cran-inlaspacetime, r-cran-knitr, r-cran-bezier Filename: pool/dists/focal/main/r-cran-simsurvey_0.1.6-1.ca2004.1_all.deb Size: 3638568 MD5sum: c17867a913161d570c97f363a480e491 SHA1: d066c40cf5dc0084abc7a3e4023df1c6702ddcfc SHA256: 1039c5f52cfebdc0af4abbc4edcb44435c79e5b4160dc01f5363c0324f87f020 SHA512: 92b5d671b24816a526ddee1c772f89dad2a535ca77a98a64af9c4941debbd1775bd7ed1bc2ac2a8fda9e79b3fbf379017e3bd61aaf2a257a02a98ed65a2774e1 Homepage: https://cran.r-project.org/package=SimSurvey Description: CRAN Package 'SimSurvey' (Test Surveys by Simulating Spatially-Correlated Populations) Simulate age-structured populations that vary in space and time and explore the efficacy of a range of built-in or user-defined sampling protocols to reproduce the population parameters of the known population. (See Regular et al. (2020) for more details). Package: r-cran-simtargetcov Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-simtargetcov_1.0.1-1.ca2004.1_all.deb Size: 15208 MD5sum: 7c528fa96287b5144d018295f276c0e2 SHA1: 1cbc6557eac7949a84ab88d57492ccbf0e4484f8 SHA256: c01376feabaa985b98cd0f5a4447ddbf24b6ee3fb36830c266f36ab46bba7af9 SHA512: c416332947e57531b61e5d5d86da815d7e6573618d114cf43f56d7b5e0693d4bbeaeb8e03f1d4e7ef2d61e36d9dd31720cbbdb90656f2a34a1c8280093531330 Homepage: https://cran.r-project.org/package=simTargetCov Description: CRAN Package 'simTargetCov' (Data Transformation or Simulation with Empirical CovarianceMatrix) Transforms or simulates data with a target empirical covariance matrix supplied by the user. The method to obtain the data with the target empirical covariance matrix is described in Section 5.1 of Christidis, Van Aelst and Zamar (2019) . Package: r-cran-simtimer Architecture: all Version: 4.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 349 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-microbenchmark Filename: pool/dists/focal/main/r-cran-simtimer_4.0.0-1.ca2004.1_all.deb Size: 205620 MD5sum: 1d961f92059de21619ba4d3fc4106500 SHA1: 2bc34db5d9db8f9cba42ea411e9d10441ce06bf3 SHA256: 9c09b22cbc59210b194337e326dba5d758504428ca6a043eee98fd77791a38ba SHA512: 7828c1ac71e540dcdca45f40c23b58c05663d2e62a20cc7b8d45bb5f789bc6cdbff9d20b536a45d814c085c52096288e5e81fdcbca2f737c9e07a086c93a7f68 Homepage: https://cran.r-project.org/package=simtimer Description: CRAN Package 'simtimer' (Datetimes as Integers for Discrete-Event Simulations) Handles datetimes as integers for the usage inside Discrete-Event Simulations (DES). The conversion is made using the internally generic function as.numeric() of the base package. DES is described in Simulation Modeling and Analysis by Averill Law and David Kelton (1999) . Package: r-cran-simtimevar Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-metafor, r-cran-mvtnorm, r-cran-icc, r-cran-misctools, r-cran-car, r-cran-plyr, r-cran-corpcor, r-cran-psych Filename: pool/dists/focal/main/r-cran-simtimevar_1.0.0-1.ca2004.1_all.deb Size: 76984 MD5sum: e1fd48f2d3af2f255dd2571cbcd4c890 SHA1: fb86aa32e33acf700a3b245cb926794356ff55b5 SHA256: 507455e7bb9a5a4a480dc503943b2b49ed0f5b76861a7a3bb88d322b646ea147 SHA512: 1495ad6116f4996e78299ca998f1666a6788427c1805a57ecf80ba0659ffee4b32fc204f7d9277c059477ca16101ab63de2cb973ce9efa4be351cf322e6bcc21 Homepage: https://cran.r-project.org/package=SimTimeVar Description: CRAN Package 'SimTimeVar' (Simulate Longitudinal Dataset with Time-Varying CorrelatedCovariates) Flexibly simulates a dataset with time-varying covariates with user-specified exchangeable correlation structures across and within clusters. Covariates can be normal or binary and can be static within a cluster or time-varying. Time-varying normal variables can optionally have linear trajectories within each cluster. See ?make_one_dataset for the main wrapper function. See Montez-Rath et al. for methodological details. Package: r-cran-simtool Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1423 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-tidyr, r-cran-tibble, r-cran-vctrs Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-boot, r-cran-broom, r-cran-rmarkdown, r-cran-tinytest, r-cran-lintr, r-cran-roxygen2, r-cran-covr Filename: pool/dists/focal/main/r-cran-simtool_1.1.8-1.ca2004.1_all.deb Size: 559028 MD5sum: bf9967e7cfba7b0d906dc5a66df22a49 SHA1: 93dfe5e2ca36b02508c81bd6c6de36bdbc0d9165 SHA256: 8755e1cfed8ede35ea49b03e5242523b6062271f74de0f552fb5c2f6271bfea5 SHA512: 1e259397705aac5ec7ac4848d9622859882a3080d2542c10fc2bbe17c969cb34caa2aef3dc824c72a57b51d73afc07ad8d1f11278bdeeeda561960d5e5f82783 Homepage: https://cran.r-project.org/package=simTool Description: CRAN Package 'simTool' (Conduct Simulation Studies with a Minimal Amount of Source Code) Tool for statistical simulations that have two components. One component generates the data and the other one analyzes the data. The main aims of the package are the reduction of the administrative source code (mainly loops and management code for the results) and a simple applicability of the package that allows the user to quickly learn how to work with it. Parallel computing is also supported. Finally, convenient functions are provided to summarize the simulation results. Package: r-cran-simtrait Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 589 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-prroc Suggests: r-cran-popkin, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-bnpsd, r-cran-bedmatrix Filename: pool/dists/focal/main/r-cran-simtrait_1.1.3-1.ca2004.1_all.deb Size: 339756 MD5sum: b2da8fabe3974e61f2953459590a9a60 SHA1: c2bbc276bff4d7abd9f39b45dd39e59b9bd49605 SHA256: 9264da2d486bcd3febfd0a3f04eef5f10ecff2eafd4f6c0f1f03ecb1911e4db1 SHA512: 9c3c222497e869fc478581c3dc424f6381dafe92fa446e3ddd56d7ec2cfa9aabfbc8069c84a1943d0ebd6c63a1c02c12f0950bec09cf9304b5800f947b8ed029 Homepage: https://cran.r-project.org/package=simtrait Description: CRAN Package 'simtrait' (Simulate Complex Traits from Genotypes) Simulate complex traits given a SNP genotype matrix and model parameters (the desired heritability, number of causal loci, and either the true ancestral allele frequencies used to generate the genotypes or the mean kinship for a real dataset). Emphasis on avoiding common biases due to the use of estimated allele frequencies. The code selects random loci to be causal, constructs coefficients for these loci and random independent non-genetic effects, and can optionally generate random group effects. Traits can follow three models: random coefficients, fixed effect sizes, and infinitesimal (multivariate normal). GWAS method benchmarking functions are also provided. Described in Yao and Ochoa (2022) . Package: r-cran-simuclustfactor Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 241 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rdpack Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-simuclustfactor_0.0.3-1.ca2004.1_all.deb Size: 147404 MD5sum: 2b31eb993a8bd7cebc0683b10e396e00 SHA1: 0f97db0b12bf0b2e31df687ea65a569582812268 SHA256: 145914a2dc1fbe6a600c508d6e3db0b48d67d413aaddfea98e5edf93a6e10cfb SHA512: 70a7d13514972c63d0390ce69c9212a43235a71a93f0c2b1422cf84c2dfd8defc166c15339cfc1b0e1fa91b579a0467b83a38bc86bcd222269377472516c6788 Homepage: https://cran.r-project.org/package=simuclustfactor Description: CRAN Package 'simuclustfactor' (Simultaneous Clustering and Factorial Decomposition of Three-WayDatasets) Implements two iterative techniques called T3Clus and 3Fkmeans, aimed at simultaneously clustering objects and a factorial dimensionality reduction of variables and occasions on three-mode datasets developed by Vichi et al. (2007) . Also, we provide a convex combination of these two simultaneous procedures called CT3Clus and based on a hyperparameter alpha (alpha in [0,1], with 3FKMeans for alpha=0 and T3Clus for alpha= 1) also developed by Vichi et al. (2007) . Furthermore, we implemented the traditional tandem procedures of T3Clus (TWCFTA) and 3FKMeans (TWFCTA) for sequential clustering-factorial decomposition (TWCFTA), and vice-versa (TWFCTA) proposed by P. Arabie and L. Hubert (1996) . Package: r-cran-simukde Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ks, r-cran-mvtnorm, r-cran-mass Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-simukde_1.3.0-1.ca2004.1_all.deb Size: 46176 MD5sum: 4e0aa4c1906e7ca9314e2a99887e96a3 SHA1: 835a7e69297e5930f1758821d69065954ae4b6a2 SHA256: 346931d56b8e1fce3201c6665ca1e2ed80e59c03a198d7f4338f8c0c2209c0f9 SHA512: d7f8fec5951b4a901cdc80a1ad2e5f63217862c6df63897bdcf5dc8945f14fc17c67827444c4ae8df959a20b1ba14d686258df615512c92b289933713686a1c8 Homepage: https://cran.r-project.org/package=simukde Description: CRAN Package 'simukde' (Simulation with Kernel Density Estimation) Generates random values from a univariate and multivariate continuous distribution by using kernel density estimation based on a sample. Duong (2017) , Christian P. Robert and George Casella (2010 ISBN:978-1-4419-1575-7) . Package: r-cran-simulariatools Architecture: all Version: 2.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1513 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-lubridate, r-cran-reshape2, r-cran-reticulate, r-cran-scales, r-cran-terra Suggests: r-cran-magick, r-cran-contourer, r-cran-testthat, r-cran-raster, r-cran-openair Filename: pool/dists/focal/main/r-cran-simulariatools_2.5.1-1.ca2004.1_all.deb Size: 858668 MD5sum: ab94d4d9ae1e09cf432fb51053f3389d SHA1: d219524a7e69e821a027967371f3da8917a63bae SHA256: a8e1c5941fee57fe9a4712bd3e055c04ec1037bfbe24efbc1ec8749a3b9621ab SHA512: e4157ee0359593e3478bf17f800d2a936ec9ab0e7b4af6d3f028473136779b47137fc349d6525034e7b1f6b82b34e435b447761b166f75702ee04effa2488af8 Homepage: https://cran.r-project.org/package=simulariatools Description: CRAN Package 'simulariatools' (Simularia Tools for the Analysis of Air Pollution Data) A set of tools developed at Simularia for Simularia, to help preprocessing and post-processing of meteorological and air quality data. Package: r-cran-simulator Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1993 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr Suggests: r-cran-digest, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-glmnet, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-simulator_0.2.5-1.ca2004.1_all.deb Size: 1339172 MD5sum: 2b4e0746c08b067c8e76f24664518bf4 SHA1: 1d9e3a4f948aceb07ecb23c9085d4c33e9d1bd9a SHA256: fd1646c680656b35ee6f4dcc558babc8e223b35777c73805c31ea6ce933a5d49 SHA512: 03d940d9a6e736bd2430684bc151e030781f2eb4b056f8c5fc137d009aec30fbbe52a7115310fc281f204671e8bc481b0e8ba699319b8c8dee4b77cb709d10f1 Homepage: https://cran.r-project.org/package=simulator Description: CRAN Package 'simulator' (An Engine for Running Simulations) A framework for performing simulations such as those common in methodological statistics papers. The design principles of this package are described in greater depth in Bien, J. (2016) "The simulator: An Engine to Streamline Simulations," which is available at . Package: r-cran-simule Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 416 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve, r-cran-pcapp, r-cran-igraph Filename: pool/dists/focal/main/r-cran-simule_1.3.0-1.ca2004.1_all.deb Size: 377524 MD5sum: 635980e9615612b9c791ea2d1d648d50 SHA1: aaefd16a568a19411f4b918f4f10e7a5ff262bc8 SHA256: 4b45de4fa80bd18a907b33f47e50c844c32ed7c27a113e6bfbba32f84a5db146 SHA512: 24ad5bd8573cb83cef70c5ff8491022f0f9b7ac6cbc652ecb2bda6865a2d7c60fe68ed73755b92838c3824addbe8de644fa75d3b4c981695f51dde4d68c5b567 Homepage: https://cran.r-project.org/package=simule Description: CRAN Package 'simule' (A Constrained L1 Minimization Approach for Estimating MultipleSparse Gaussian or Nonparanormal Graphical Models) This is an R implementation of a constrained l1 minimization approach for estimating multiple Sparse Gaussian or Nonparanormal Graphical Models (SIMULE). The SIMULE algorithm can be used to estimate multiple related precision matrices. For instance, it can identify context-specific gene networks from multi-context gene expression datasets. By performing data-driven network inference from high-dimensional and heterogenous data sets, this tool can help users effectively translate aggregated data into knowledge that take the form of graphs among entities. Please run demo(simuleDemo) to learn the basic functions provided by this package. For further details, please read the original paper: Beilun Wang, Ritambhara Singh, Yanjun Qi (2017) . Package: r-cran-simulist Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4718 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-english, r-cran-epiparameter, r-cran-randomnames, r-cran-rlang Suggests: r-cran-dplyr, r-cran-epicontacts, r-cran-ggplot2, r-cran-incidence2, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-simulist_0.5.0-1.ca2004.1_all.deb Size: 1140548 MD5sum: 88a6965fbab02639366d7853aa6ef2d3 SHA1: d174472fe1d772aea7cf006a7a5fdeebe859855c SHA256: b999b61a0e517036adb577ebef2d8aaa41c69e0faac07838b50606cbc1aa91a3 SHA512: 5d1c8b4a5bd0c292f08cc65d0be1333c5cebabaa7ef9abe54250ffd24e5c8b8c6e265769cd7c3e3bbdd5df9e1b0e581525641e656d2d8929947cc274999e532a Homepage: https://cran.r-project.org/package=simulist Description: CRAN Package 'simulist' (Simulate Disease Outbreak Line List and Contacts Data) Tools to simulate realistic raw case data for an epidemic in the form of line lists and contacts using a branching process. Simulated outbreaks are parameterised with epidemiological parameters and can have age-structured populations, age-stratified hospitalisation and death risk and time-varying case fatality risk. Package: r-cran-simulmgf Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-simulmgf_0.1.1-1.ca2004.1_all.deb Size: 31208 MD5sum: 42e8d4c1215adc2277e10d466357ab4f SHA1: aa91c5bf108b5f75c32ba23f69a8e00550cd90a6 SHA256: da17b9dd2550f266c8274787c163be111f267380f2d5c4f889b2db686f58954d SHA512: 9290080b7e73c833f3933771f700ff4374e14ad39407d8a9566dbb0ff8becb3dfe3cd79751f0c2747f02f09f1080180888d97847e880dcc9de171d5fbb6e31f2 Homepage: https://cran.r-project.org/package=simulMGF Description: CRAN Package 'simulMGF' (Simulate SNP Matrix, Phenotype and Genotypic Effects) Simulate genotypes in SNP (single nucleotide polymorphisms) Matrix as random numbers from an uniform distribution, for diploid organisms (coded by 0, 1, 2), Sikorska et al., (2013) , or half-sib/full-sib SNP matrix from real or simulated parents SNP data, assuming mendelian segregation. Simulate phenotypic traits for real or simulated SNP data, controlled by a specific number of quantitative trait loci and their effects, sampled from a Normal or an Uniform distributions, assuming a pure additive model. This is useful for testing association and genomic prediction models or for educational purposes. Package: r-cran-simvitd Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 668 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-simpleboot Filename: pool/dists/focal/main/r-cran-simvitd_1.0.3-1.ca2004.1_all.deb Size: 586232 MD5sum: 8a91b731f0e48a944174182e7be1f535 SHA1: 7114cb337aea8a2b9ecb14c04b623a56b3677879 SHA256: c99ae671c9adffe43c0775aaf38f68df08185c2f1f018194906247500caffb78 SHA512: aadfcc99aa17875eabfa5e02952bf296b6c92b3c54699a062fb51b6dca143212b9831f06e1254ec00f40a08791d607cb1c09ee384bf33db2028f2887e3a54932 Homepage: https://cran.r-project.org/package=SimVitD Description: CRAN Package 'SimVitD' (Simulation Tools for Planning Vitamin D Studies) Simulation tools for planning Vitamin D studies. Individual vitamin D status profiles are simulated, modelling population heterogeneity in trial arms. Exposures to infectious agents are generated, with infection depending on vitamin D status. Package: r-cran-sin Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 171 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sin_0.6-1.ca2004.1_all.deb Size: 120832 MD5sum: c4f09cce3ad1cbb432e1d4664c81a296 SHA1: 66b0abaa8a75494f01d4e7a2164e60a4eb08201e SHA256: 6a705793c884409044a6e89613c503e03b536843b3ec36d4bbf1d6a99244509c SHA512: 8db837ea5f79722cd26be2dc804eb5acd15e57f34b5d42e406dd1c687f6e9377f8f9db81c39b69cfcc4f23e43be8a8a161a888c83680312b72ab4300cbc9b102 Homepage: https://cran.r-project.org/package=SIN Description: CRAN Package 'SIN' (A SINful Approach to Selection of Gaussian Graphical MarkovModels) This package provides routines to perform SIN model selection as described in Drton & Perlman (2004, 2008). The selected models are represented in the format of the 'ggm' package, which allows in particular parameter estimation in the selected model. Package: r-cran-sinaplot Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1536 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-sinaplot_1.1.0-1.ca2004.1_all.deb Size: 1150552 MD5sum: 92970deea09199b7536e34e464cdaaa2 SHA1: 4a00d318d3e0dfcc92d3539d3bff12e0cc562919 SHA256: ae6a18ada0351165b9e439dc40bec0e529698d992ffa7f4239d81f9ed20761d8 SHA512: 99eed60f02d9093a59058f91f5e54981e690be0a667b30a8f9da01ae4f12ef3634843332a8fbe4a1a13193c953c5b6e1617b1f47802dbeddf4b70057ec7711ac Homepage: https://cran.r-project.org/package=sinaplot Description: CRAN Package 'sinaplot' (An Enhanced Chart for Simple and Truthful Representation ofSingle Observations over Multiple Classes) The sinaplot is a data visualization chart suitable for plotting any single variable in a multiclass data set. It is an enhanced jitter strip chart, where the width of the jitter is controlled by the density distribution of the data within each class. Package: r-cran-sinar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-sinar_0.1.0-1.ca2004.1_all.deb Size: 38028 MD5sum: 785e863d8376d227fa80152a7e5d55b5 SHA1: 80787d6562a2a15b1e28c97e489fe0080e4329ed SHA256: 8f6c947423cbbdffd0feb3b1c45fbd4ec3b4cab908f817704f2a16743624beb4 SHA512: 59e173ae51509e7929e195dcc556f1e9c0f6f284fec32f01dd0c89089db3d1517f176e0538218d0260bcf124bf23ed79e7fbc1ce8a734bf055cd4711d546806b Homepage: https://cran.r-project.org/package=sinar Description: CRAN Package 'sinar' (Conditional Least Squared (CLS) Method for the Model SINAR(1,1)) Implementation of the Conditional Least Square (CLS) estimates and its covariance matrix for the first-order spatial integer-valued autoregressive model (SINAR(1,1)) proposed by Ghodsi (2012) . 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The package includes a set of additional tools for working with raw data, with an emphasis on cognitive science applications (Dale and Bhat, 2018 ). See for examples and updates. Package: r-cran-sinew Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 522 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rstudioapi, r-cran-sos, r-cran-stringi, r-cran-yaml, r-cran-crayon, r-cran-cli, r-cran-rematch2 Suggests: r-cran-rcmdcheck, r-cran-git2r, r-cran-shiny, r-cran-miniui, r-cran-withr, r-cran-usethis, r-cran-fs, r-cran-details, r-cran-roxygen2, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sinew_0.4.0-1.ca2004.1_all.deb Size: 243244 MD5sum: 3a27ee25065118518b54bac4d98f4226 SHA1: 4acdfdb7217fed03492eeb6afcb5c4eb7704f914 SHA256: 57ca656d964dabc458a841a64d2cbc035b0e9ee17240bac869a8f6192701477e SHA512: e63807a8425752737030252148786c3b013e41a286f093f33fde037eb1e7f5db2d3b86f330d4fbdeebd0cf173c5e723ec7c69e6af6a8577cbbfa48a15894adb0 Homepage: https://cran.r-project.org/package=sinew Description: CRAN Package 'sinew' (Package Development Documentation and Namespace Management) Manage package documentation and namespaces from the command line. Programmatically attach namespaces in R and Rmd script, populates 'Roxygen2' skeletons with information scraped from within functions and populate the Imports field of the DESCRIPTION file. Package: r-cran-singcar Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 516 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cholwishart, r-cran-mass, r-cran-withr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bookdown, r-cran-lme4, r-cran-lmertest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-singcar_0.1.5-1.ca2004.1_all.deb Size: 227056 MD5sum: 3853cd4650794feae451484137b65107 SHA1: fa78d9f210f3cbfc66c108e6d8f779901a67b890 SHA256: 50f22b8093dff9e807e499a29f5f0b61ae3a4e4876929ac029ee9d6726439280 SHA512: 393290d6aab654d78e1d84a10d6ed97711b178079f72987e3572054828c9d855cc64cb2f4019f596da1fadd9ccaaf85df675f0911c90089558bc9ae9bde64aea Homepage: https://cran.r-project.org/package=singcar Description: CRAN Package 'singcar' (Comparing Single Cases to Small Samples) When comparing single cases to control populations and no parameters are known researchers and clinicians must estimate these with a control sample. This is often done when testing a case's abnormality on some variable or testing abnormality of the discrepancy between two variables. Appropriate frequentist and Bayesian methods for doing this are here implemented, including tests allowing for the inclusion of covariates. These have been developed first and foremost by John Crawford and Paul Garthwaite, e.g. in Crawford and Howell (1998) , Crawford and Garthwaite (2005) , Crawford and Garthwaite (2007) and Crawford, Garthwaite and Ryan (2011) . The package is also equipped with power calculators for each method. Package: r-cran-singlecasees Architecture: all Version: 0.7.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 833 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-purrr, r-cran-dplyr, r-cran-tidyr, r-cran-rlang, r-cran-tidyselect Suggests: r-cran-spelling, r-cran-shiny, r-cran-stringr, r-cran-rvest, r-cran-xml2, r-cran-ggplot2, r-cran-purrrlyr, r-cran-testthat, r-cran-markdown, r-cran-knitr, r-cran-rmarkdown, r-cran-cleanrmd, r-cran-kendall, r-cran-kableextra, r-cran-covr, r-cran-readxl, r-cran-glue, r-cran-janitor, r-cran-rclipboard Filename: pool/dists/focal/main/r-cran-singlecasees_0.7.3-1.ca2004.1_all.deb Size: 291240 MD5sum: 2c4f6d7eb29932295459dbbd89d5bffd SHA1: fcd64a82c248762b255fa73bfbf372f02a9f2b6e SHA256: 10dd33d1752972321454acc9996612c2673886064cb12bb14738be3b02d954d6 SHA512: 53fae7e5deec4418bcb2fadfc2c37160911fdc6c8ebd5cdfccb426b333ad09aa54946b7126747d7d4cfb91e76b66017714936c5a553297a3820cbc1399f06a42 Homepage: https://cran.r-project.org/package=SingleCaseES Description: CRAN Package 'SingleCaseES' (A Calculator for Single-Case Effect Sizes) Provides R functions for calculating basic effect size indices for single-case designs, including several non-overlap measures and parametric effect size measures, and for estimating the gradual effects model developed by Swan and Pustejovsky (2018) . Standard errors and confidence intervals (based on the assumption that the outcome measurements are mutually independent) are provided for the subset of effect sizes indices with known sampling distributions. Package: r-cran-singlecellcomplexheatmap Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1157 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-complexheatmap, r-cran-seurat, r-cran-dplyr, r-cran-tidyr, r-cran-rcolorbrewer, r-cran-circlize, r-cran-magrittr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-viridis, r-cran-devtools, r-cran-biocmanager, r-cran-ggsci, r-cran-seuratobject Filename: pool/dists/focal/main/r-cran-singlecellcomplexheatmap_0.1.2-1.ca2004.1_all.deb Size: 645872 MD5sum: 030c7f210ad7198bdabfec979cdd23c9 SHA1: 4adaad2b3b8cafbd3b498883632b3b20340f89c1 SHA256: 7b73783413c04cdc85aed10518c855e0a98db361e1324cad8cfada0b67312c2e SHA512: 60ad3e89159227dbc8abcbc736c4ae5619646a272a8725e1f3e75a940c4a3fb24ee29cd07f64282068ef36d8d9586ac81d6fbfbefd412f1cddd35a6b91ad9110 Homepage: https://cran.r-project.org/package=SingleCellComplexHeatMap Description: CRAN Package 'SingleCellComplexHeatMap' (Complex Heatmaps for Single Cell Expression Data with DualInformation Display) Creates complex heatmaps for single cell RNA-seq data that simultaneously display gene expression levels (as color intensity) and expression percentages (as circle sizes). 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For example, we want to predict differentially expressed genes (DEGs) in single-cell RNA-seq data, spatial DEGs in spatial transcriptomics data, or differentially accessible regions (DARs) in single-cell ATAC-seq data. 'singleCellHaystack' predicts differentially active features in single cell omics datasets without relying on the clustering of cells into arbitrary clusters. 'singleCellHaystack' uses Kullback-Leibler divergence to find features (e.g., genes, genomic regions, etc) that are active in subsets of cells that are non-randomly positioned inside an input space (such as 1D trajectories, 2D tissue sections, multi-dimensional embeddings, etc). For the theoretical background of 'singleCellHaystack' we refer to our original paper Vandenbon and Diez (Nature Communications, 2020) and our update Vandenbon and Diez (Scientific Reports, 2023) . 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Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2015 (available at ) and BRITO, C. C. R. Method Distributions generator and Probability Distributions Classes. 241 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2014 (available upon request). 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For theoretical reference see Faliva (1992) and Faliva and Zoia (1994) . 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Through this publicly available package, we provide a unified environment to carry out variable selection using iterative sure independence screening (SIS) (Fan and Lv (2008)) and all of its variants in generalized linear models (Fan and Song (2009)) and the Cox proportional hazards model (Fan, Feng and Wu (2010)). Package: r-cran-sisal Architecture: all Version: 0.49-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 668 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot, r-cran-lattice, r-cran-mgcv, r-cran-digest, r-cran-r.matlab, r-cran-r.methodss3 Suggests: r-bioc-graph, r-bioc-rgraphviz, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sisal_0.49-1.ca2004.1_all.deb Size: 639152 MD5sum: a1694d4ea34e485b8e653f9abf08e63f SHA1: 97eca7c32a3684d866cd1be8e55bf7c6327b5d45 SHA256: 087b2e16c15cda2638e6a0598e3626d6eeef49c1e4125879e937f8874698d8fe SHA512: 1cdae575b6d14d314131d0e8c057e09013de338a1168eaa4397a907c0501f2e250b322e0c2f651549b1d475c404a982bc10764d862c996e8650fd92ea2b4baaf Homepage: https://cran.r-project.org/package=sisal Description: CRAN Package 'sisal' (Sequential Input Selection Algorithm) Implements the SISAL algorithm by Tikka and Hollmén. It is a sequential backward selection algorithm which uses a linear model in a cross-validation setting. Starting from the full model, one variable at a time is removed based on the regression coefficients. From this set of models, a parsimonious (sparse) model is found by choosing the model with the smallest number of variables among those models where the validation error is smaller than a threshold. Also implements extensions which explore larger parts of the search space and/or use ridge regression instead of ordinary least squares. 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Methods include a semiparametric approach based on Sliced Inverse Regression (SIR), as described in (standard ridge and sparse SIR are also included in the package) and a random forest based approach, as described in . Package: r-cran-sistec Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 943 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-openxlsx, r-cran-rlang, r-cran-shiny, r-cran-stringi, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sistec_0.2.0-1.ca2004.1_all.deb Size: 355440 MD5sum: e3e84b8a140d3a88f7fcac964973ef0e SHA1: 6de3f0c75b5cded43620570166721d6f3151fdb3 SHA256: fdb65fe5c6770c9ad8ee1c9f70593b8c265bef8de908b193b851bf2339ade437 SHA512: 68304fd7f346eff4b75a9dcb54bcae6bd25d7c5bc09e537bb9dbf3253f11507685abcfd793b4bb462eb9df5a0b10f458280a1af20b41fd87cfe4987473971675 Homepage: https://cran.r-project.org/package=sistec Description: CRAN Package 'sistec' (Tools to Analyze 'Sistec' Datasets) The Brazilian system for diploma registration and validation on technical and superior courses are managing by 'Sistec' platform, see . This package provides tools for Brazilian institutions to update the student's registration and make data analysis about their situation, retention and drop out. Package: r-cran-sisti Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4786 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble Filename: pool/dists/focal/main/r-cran-sisti_0.0.1-1.ca2004.1_all.deb Size: 2988804 MD5sum: b5455a4382bb99d33716cf141dbc826b SHA1: bb58640a4f6f7e83be0b9e12cd62f17a47d9b177 SHA256: 6c6a868e95e6a116d6f41d2fad9de7b602869edcffd1c8d524fccf64128c010d SHA512: c25546860244a615caafbd86fa65b72e031f9b6c2a325b043aa84d71f9c33a7f4231570423bfd9316e16c97506aad516869c343acbd5308589c96788e6d93745 Homepage: https://cran.r-project.org/package=sisti Description: CRAN Package 'sisti' (Real-Time PCR Data Sets by Sisti et al. (2010)) This data package contains four datasets of quantitative PCR (qPCR) amplification curves that were used as supplementary data in the research article by Sisti et al. (2010), . The primary dataset comprises a ten-fold dilution series spanning copy numbers from 3.14 × 10^7 to 3.14 × 10^2, with twelve replicates per concentration. These samples are based on a pGEM-T Promega plasmid containing a 104 bp fragment of the mitochondrial gene NADH dehydrogenase 1 (MT-ND1), amplified using the ND1/ND2 primer pair. The remaining three datasets contain qPCR results in the presence of specific PCR inhibitors: tannic acid, immunoglobulin G (IgG), and quercetin, respectively, to assess their effects on the amplification process. These datasets are useful for researchers interested in PCR kinetics. The original raw data file is available as Additional File 1: . Package: r-cran-sistmr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-blandaltmanleh, r-cran-dplyr, r-cran-ggbeeswarm, r-cran-ggplot2, r-cran-ggrepel, r-cran-rlang, r-cran-scales Filename: pool/dists/focal/main/r-cran-sistmr_0.1.1-1.ca2004.1_all.deb Size: 35372 MD5sum: 57b23a9400ba649592aea4cb2444ffed SHA1: 44cb0dc103303b57119e451827920e0644be9263 SHA256: 77361e3ef3250a71955976c70eef32640e7c76a5baf89682fd0287150053f65c SHA512: 3c75b2994340fe9012cf3159c6e81be9282aec229f32a775e763cf71e1bab8a797ffb5402a64a440c769811eaad55b5a25d2f8bff12efe269554476cb2d67bac Homepage: https://cran.r-project.org/package=sistmr Description: CRAN Package 'sistmr' (A Collection of Utility Function from the Inserm/Inria SISTMTeam) Functions common to members of the SISTM team. Package: r-cran-sisvive Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lars Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-sisvive_1.4-1.ca2004.1_all.deb Size: 32604 MD5sum: f0cad2d7b1de148005f2a84ce70ed19b SHA1: 772b39b413a151e3afa4f3f3227bb1ff48fdd5a3 SHA256: 993bc21ba306c772e3b4d4ab80b0ca8407730424e46e44229c58e5bd536a5598 SHA512: 1fc60dd7e835f4ec975fcd62829eca45419e61a088e807876fcb4aa06d907660b75462c24c51dbdb1da334298aec55bf01203e5c55b77c4d5bf18ec41b84c27f Homepage: https://cran.r-project.org/package=sisVIVE Description: CRAN Package 'sisVIVE' (Some Invalid Some Valid Instrumental Variables Estimator) Selects invalid instruments amongst a candidate of potentially bad instruments. The algorithm selects potentially invalid instruments and provides an estimate of the causal effect between exposure and outcome. 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SITAR is a shape-invariant model with a regression B-spline mean curve and subject-specific random effects on both the measurement and age scales. The model was first described by Lindstrom (1995) and developed as the SITAR method by Cole et al (2010) . Package: r-cran-siteadapt Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 626 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmulti, r-cran-solar, r-cran-hyfo, r-cran-hydrogof, r-cran-rcolorbrewer, r-cran-ggplot2, r-cran-ggpubr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-siteadapt_1.1.0-1.ca2004.1_all.deb Size: 594612 MD5sum: 7f91c8b88c82504dc2f589c69c2ec386 SHA1: b91203a4430a529e59d361d809bf8e138fa598d7 SHA256: a7fecc085d595d71dc71ac37645aea6f1dab61cbd116eb26ceb3ac4e3bf9e0b8 SHA512: 7471297c9c48ca9f5001ae0e788e0a5196132ebd3744ffd3e534285350ca91f6a1d9fb0314e6efa0ac09a923a785f89537f266a844f7f7752f69a07b80ca8bea Homepage: https://cran.r-project.org/package=SiteAdapt Description: CRAN Package 'SiteAdapt' (Site Adaptation of Solar Irradiance Modeled Series) The SiteAdapt procedure improves the accuracy of modeled solar irradiance series through site-adaptation with coincident ground-based measurements relying on the use of a regression preprocessing followed by an empirical quantile mapping (eQM) correction. Fernandez-Peruchena et al (2020) . 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The procedure aims to reduce bias (and/or loss of external validity) with respect to the target population. In selecting units and sub-units, 'sitepickR' uses the cube method developed by 'Deville & Tillé', (2004) and described in Tillé (2011) . The cube method is a probability sampling method that is designed to satisfy criteria for balance between the sample and the population. Recent research has shown that this method performs well in simulations for studies of educational programs (see Fay & Olsen (2021, under review). To implement the cube method, 'sitepickR' uses the sampling R package . To implement statistical matching, 'sitepickR' uses the 'MatchIt' R package . Package: r-cran-sitesinterest Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 656 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plotrix Filename: pool/dists/focal/main/r-cran-sitesinterest_1.0-1.ca2004.1_all.deb Size: 575124 MD5sum: 716b015ab5a53ae9d7ba5f39b45dc47b SHA1: b11bda38f99ed77b0a133eee57adc16ad3272c69 SHA256: 3ff6b1277ecf8bb3adb365b1335609b67783b52c564ea1e8d14fb39d68ed0418 SHA512: 4c6ae4e45aa3d96f2f3e228686d449749b9d478bb17bddbc3f8179b612af427547e58ea288dad1c891a2bbf16fa30ceaddfa121eb0ca2b221dfcf6abe650b0a3 Homepage: https://cran.r-project.org/package=SitesInterest Description: CRAN Package 'SitesInterest' (Inferring an Animal's Sites of Interest from High ResolutionData) Within the area of movement ecology, it can be useful to identify an animal's sites of interest. These will be places that an animal uses a lot and so will spend a proportionately longer time there. 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Use SI prefixes as constants like (4 * milli)^2 Package: r-cran-sitree Architecture: all Version: 0.1-15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2410 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-data.table Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-sitree_0.1-15-1.ca2004.1_all.deb Size: 1081720 MD5sum: 6cac78d5ab4ac75315c66f5d01ba47de SHA1: 3875b00ca69bbb24b7ad08164541a7aeb0f34718 SHA256: 57d0fa55941608496ec9e549404c6b0dcfd84388e0eb27ca4cdd22baf0a5e9de SHA512: f1b1f324287c82cda3d35e97c24c9ee793581bcb6f92bf1cd64457fbfb208718a6bc8491569a9d6668439bce7632e14b84364f036d07bbfa7d89183d12be6d0f Homepage: https://cran.r-project.org/package=sitree Description: CRAN Package 'sitree' (Single Tree Simulator) Framework to build an individual tree simulator. 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It provides a customizable R Markdown template for analysis and automatic generation of epidemiological reports that can be adapted to local, regional, and national contexts. This tool offers a standardized and reproducible workflow that helps to reduce manual labor and potential errors in report generation, improving their efficiency and consistency. Package: r-cran-sivs Architecture: all Version: 0.2.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 303 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-glmnet, r-cran-proc, r-cran-varhandle Suggests: r-cran-markdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-sivs_0.2.11-1.ca2004.1_all.deb Size: 203060 MD5sum: abd864c63193da8bfc2354db8bf3b021 SHA1: 1fc7588d79cab7cba34c3bbd6a3fbd785376e85a SHA256: 01bf8e2381ad40215b86ae5f589da97eab9ef5511af729cc88387c8c272914fc SHA512: 8cb41962286f197eb261597a4d9dff6745a06603dd7c57afcf168a3423719eb5f117212bec192bff9256ede12006a83b6b4555361c88eb1f70cb7e5c741667ec Homepage: https://cran.r-project.org/package=sivs Description: CRAN Package 'sivs' (Stable Iterative Variable Selection) An iterative feature selection method that internally utilizes various Machine Learning methods that have embedded feature reduction in order to shrink down the feature space into a small and yet robust set. Package: r-cran-sixsigma Architecture: all Version: 0.11.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 663 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lattice, r-cran-ggplot2, r-cran-reshape2, r-cran-nortest, r-cran-e1071, r-cran-scales, r-cran-testthat, r-cran-xtable Suggests: r-cran-covr Filename: pool/dists/focal/main/r-cran-sixsigma_0.11.1-1.ca2004.1_all.deb Size: 602720 MD5sum: b14e8b44e88b99bf6dcf92ac4576081e SHA1: 9d512342c43d7a01110fba8149962f0f5d48f218 SHA256: c0c76f42927c7c64695033301b4cdbb8fbf52b4938472b9a479915ce9b4f1d63 SHA512: c634557a943c944a3e6103082fdb862fff3e7b3e82abff20dde0c85c6cc40cf79e4aa0a0862497b2ad3e673c0ccc3ad8e6b1e2e5e6546af9ab3b3b7f7d5a8b45 Homepage: https://cran.r-project.org/package=SixSigma Description: CRAN Package 'SixSigma' (Six Sigma Tools for Quality Control and Improvement) Functions and utilities to perform Statistical Analyses in the Six Sigma way. Through the DMAIC cycle (Define, Measure, Analyze, Improve, Control), you can manage several Quality Management studies: Gage R&R, Capability Analysis, Control Charts, Loss Function Analysis, etc. Data frames used in the books "Six Sigma with R" [ISBN 978-1-4614-3652-2] and "Quality Control with R" [ISBN 978-3-319-24046-6], are also included in the package. Package: r-cran-sixtyfour Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1004 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-paws, r-cran-paws.common, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-fs, r-cran-s3fs, r-cran-cli, r-cran-glue, r-cran-memoise, r-cran-uuid, r-cran-jsonlite, r-cran-curl, r-cran-tidyr, r-cran-clipr, r-cran-withr, r-cran-ipaddress Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-roxyglobals, r-cran-dbi, r-cran-rpostgres, r-cran-rmariadb, r-cran-ggplot2, r-cran-lubridate, r-cran-testthat, r-cran-vcr, r-cran-webmockr Filename: pool/dists/focal/main/r-cran-sixtyfour_0.2.0-1.ca2004.1_all.deb Size: 679980 MD5sum: 691f2112bd004d0144a2a7fd8c8d647f SHA1: e353a7fdd17562478b881c5cf976751f44b55476 SHA256: 38379ba4c34c3b1cd899bbfae035cd37cf30ced6b324ed40cdc5fb72221f78df SHA512: 337414c60fee2b34e049cd4314f3d75706d762d3482ed938064a28fe687e7b0fbdeda2273f478801c2522416c6728de7b63126c58dd6e43eefa0bb52fc3c0857 Homepage: https://cran.r-project.org/package=sixtyfour Description: CRAN Package 'sixtyfour' (Humane Interface to Amazon Web Services) An opinionated interface to Amazon Web Services , with functions for interacting with 'IAM' (Identity and Access Management), 'S3' (Simple Storage Service), 'RDS' (Relational Data Service), Redshift, and Billing. Lower level functions ('aws_' prefix) are for do it yourself workflows, while higher level functions ('six_' prefix) automate common tasks. Package: r-cran-sizeestimation Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mcmcpack, r-cran-msm Filename: pool/dists/focal/main/r-cran-sizeestimation_1.1.1-1.ca2004.1_all.deb Size: 37796 MD5sum: d4a3d3d67bfa02bfdc5ce1e38314c426 SHA1: 66eb3ea41b80f205921e96a668d402f6d84dac92 SHA256: 0c1882d304ce317349c4666efa133aaffe45959129936f44d7752e27a892eb1c SHA512: 6f695eb928e5e0bb8e2eaf31119edca4478839b9985f8e4c266ce73f43b7ec3497122da4c1712faa9ba91caeb9f67b9eee832491ac6c05b237f0046abcbe1790 Homepage: https://cran.r-project.org/package=SizeEstimation Description: CRAN Package 'SizeEstimation' (Estimating the Sizes of Populations at Risk of HIV Infectionfrom Multiple Data Sources Using a Bayesian Hierarchical Model) This function develops an algorithm for presenting a Bayesian hierarchical model for estimating the sizes of local and national drug injected populations in Bangladesh. The model incorporates multiple commonly used data sources including mapping data, surveys, interventions, capture-recapture data, estimates or guesstimates from organizations, and expert opinion. Package: r-cran-sizemat Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1180 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mcmcpack, r-cran-matrixstats, r-cran-mass Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-sizemat_1.1.2-1.ca2004.1_all.deb Size: 530912 MD5sum: 99bb12e2417fbf22e0de6fb0cc5b7ade SHA1: 7bf003dd32d4eb9f70469837c95a38bdb5e984ca SHA256: 7ea41de66e956f0427f418d0eac6c53b561e3cadbb51feb383a8b07d6cb50380 SHA512: 6fec8d39dbb9dcd3cb8e448bf3e7d982c44870d7d74496d82d3cf07a45453cb560de29fbafdc96f0d12493da2ec2d15830d93172d4c26eb07d358237f689bd9e Homepage: https://cran.r-project.org/package=sizeMat Description: CRAN Package 'sizeMat' (Estimate Size at Sexual Maturity) Estimate morphometric and gonadal size at sexual maturity for organisms, usually fish and invertebrates. It includes methods for classification based on relative growth (using principal components analysis, hierarchical clustering, discriminant analysis), logistic regression (Frequentist or Bayes), parameters estimation and some basic plots. Package: r-cran-sizer Architecture: all Version: 0.1-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-boot, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-rlang Filename: pool/dists/focal/main/r-cran-sizer_0.1-8-1.ca2004.1_all.deb Size: 80912 MD5sum: dd373c26c0e2514490eb031b25c1f88a SHA1: 5ffaee2092f1eefcb8f5f423c1b3704dde1894e9 SHA256: 9ddff4c66252f076b78caf0e12cedc7827143ef7b0339e18fe6f86a5ee76fc43 SHA512: 04d041c0c50dbb03fc57552166566a187f119b63e312bde7c19aa2906cde7e0f33dd6ccaa1e60e70271d6e598c018172e84c46bf67a9d3d277025e3ab490622f Homepage: https://cran.r-project.org/package=SiZer Description: CRAN Package 'SiZer' (Significant Zero Crossings) Calculates and plots the SiZer map for scatterplot data. 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Package: r-cran-sjplot Architecture: all Version: 2.8.17-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2460 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayestestr, r-cran-datawizard, r-cran-dplyr, r-cran-ggeffects, r-cran-ggplot2, r-cran-knitr, r-cran-insight, r-cran-mass, r-cran-parameters, r-cran-performance, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-sjlabelled, r-cran-sjmisc, r-cran-sjstats, r-cran-tidyr Suggests: r-cran-brms, r-cran-car, r-cran-clubsandwich, r-cran-cluster, r-cran-cowplot, r-cran-effects, r-cran-haven, r-cran-gparotation, r-cran-ggrepel, r-cran-glmmtmb, r-cran-gridextra, r-cran-ggridges, r-cran-httr, r-cran-lme4, r-cran-nfactors, r-cran-pscl, r-cran-psych, r-cran-rmarkdown, r-cran-rstanarm, r-cran-sandwich, r-cran-survey, r-cran-tmb, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sjplot_2.8.17-1.ca2004.1_all.deb Size: 1402840 MD5sum: 437ce21d6c9db3d1d6f84ecb818ef1c0 SHA1: a1ac85061faf5be7d5412d9bd55bb1486ee63deb SHA256: 5047c3664ba5eb10c8654b6828d180843893ea8c844dca022176e6c0afecabe4 SHA512: 2551a09f2094e5df4f14eef42b039a2e7b3c9c97b547935ca6cfdc55d217061aca2feb103762f2a2329f21443bc71e7da969ed35656cfa0d8884b8fc705e9c48 Homepage: https://cran.r-project.org/package=sjPlot Description: CRAN Package 'sjPlot' (Data Visualization for Statistics in Social Science) Collection of plotting and table output functions for data visualization. Results of various statistical analyses (that are commonly used in social sciences) can be visualized using this package, including simple and cross tabulated frequencies, histograms, box plots, (generalized) linear models, mixed effects models, principal component analysis and correlation matrices, cluster analyses, scatter plots, stacked scales, effects plots of regression models (including interaction terms) and much more. This package supports labelled data. Package: r-cran-sjsdm Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1815 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate, r-cran-mvtnorm, r-cran-rstudioapi, r-cran-abind, r-cran-metrics, r-cran-mgcv, r-cran-cli, r-cran-crayon, r-cran-ggplot2, r-cran-checkmate, r-cran-mathjaxr, r-cran-ggtern, r-cran-beeswarm, r-cran-qgam, r-cran-scales Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-iml, r-cran-fields Filename: pool/dists/focal/main/r-cran-sjsdm_1.0.6-1.ca2004.1_all.deb Size: 1066140 MD5sum: 35da5aba3f7d3994dd37fb4bbbf9918b SHA1: 80b6918083602ebab386127abbeea705662d64cc SHA256: 88e85d029fc519db1541bd7501a4ef40e70ce9024c90489860e3bf58c2757898 SHA512: a26ae27a11b0cfb3d307e027a197a2a020d4df3599cb5b3176892c623beea437fa3d7a2d8caf27a60ef22bca8520cee7be62f562cdb118d465eea673751b30f7 Homepage: https://cran.r-project.org/package=sjSDM Description: CRAN Package 'sjSDM' (Scalable Joint Species Distribution Modeling) A scalable and fast method for estimating joint Species Distribution Models (jSDMs) for big community data, including eDNA data. The package estimates a full (i.e. non-latent) jSDM with different response distributions (including the traditional multivariate probit model). The package allows to perform variation partitioning (VP) / ANOVA on the fitted models to separate the contribution of environmental, spatial, and biotic associations. In addition, the total R-squared can be further partitioned per species and site to reveal the internal metacommunity structure, see Leibold et al., . The internal structure can then be regressed against environmental and spatial distinctiveness, richness, and traits to analyze metacommunity assembly processes. The package includes support for accounting for spatial autocorrelation and the option to fit responses using deep neural networks instead of a standard linear predictor. As described in Pichler & Hartig (2021) , scalability is achieved by using a Monte Carlo approximation of the joint likelihood implemented via 'PyTorch' and 'reticulate', which can be run on CPUs or GPUs. 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This package aims at providing, first, shortcuts for statistical measures, which otherwise could only be calculated with additional effort (like Cramer's V, Phi, or effect size statistics like Eta or Omega squared), or for which currently no functions available. Second, another focus lies on weighted variants of common statistical measures and tests like weighted standard error, mean, t-test, correlation, and more. 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Package: r-cran-sk Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 765 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rgeos, r-cran-rcolorbrewer, r-cran-sp, r-cran-gd, r-cran-rtop, r-cran-fitar, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sk_1.1-1.ca2004.1_all.deb Size: 704720 MD5sum: 4f369670ff691091c1aebcc84fbb4a51 SHA1: 6473b3633a6eda8a5c2cc9d4e9e2630965ca012e SHA256: da3389fd80403fa507f29f2dee0e748c37c9c60bf2fdf69b3c83f0243b66acdc SHA512: b79e9ed5e9511aeec864b618699952e2021cb8f5c2973328eff539f7d2b713fbffa3353cba786ad7572ac3844cda5d3257e41c8f6fe2940ae3d374edf937b5c7 Homepage: https://cran.r-project.org/package=SK Description: CRAN Package 'SK' (Segment-Based Ordinary Kriging and Segment-Based RegressionKriging for Spatial Prediction) Segment-based Kriging methods, including segment-based ordinary Kriging (SOK) and segment-based regression Kriging (SRK) for spatial prediction of line segment spatial data as described in Yongze Song (2018) . Includes the spatial prediction and spatial visualisation. The descriptions of the methods and case datasets refer to the citation information below. Package: r-cran-skater Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1128 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-tidyr, r-cran-readr, r-cran-purrr, r-cran-kinship2, r-cran-corrr, r-cran-tibble, r-cran-rlang Suggests: r-cran-rmarkdown, r-cran-markdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-skater_0.1.2-1.ca2004.1_all.deb Size: 406492 MD5sum: 06d7ba19e35e8ae6fe80a0e3c8f9f24d SHA1: 4024ed794284056ae28e0e10d914218bee7da912 SHA256: e666af3a2e17d8f4be642aefe71f5b631c8ba1b3a4320deff4ddf632247d7cda SHA512: 9349c6d6499891c6a3d0f21099bf34132678ca175fd3c90766cc4263240976fb67598f609c73987a7a7d3d9c4fb21d4f9ce25063b1ca8b0c408ec5f9fac52725 Homepage: https://cran.r-project.org/package=skater Description: CRAN Package 'skater' (Utilities for SNP-Based Kinship Analysis) Utilities for single nucleotide polymorphism (SNP) based kinship analysis testing and evaluation. The 'skater' package contains functions for importing, parsing, and analyzing pedigree data, performing relationship degree inference, benchmarking relationship degree classification, and summarizing identity by descent (IBD) segment data. Package functions and methods are described in Turner et al. (2021) "skater: An R package for SNP-based Kinship Analysis, Testing, and Evaluation" . Package: r-cran-skedastic Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4179 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rdpack, r-cran-broom, r-cran-pracma, r-cran-compquadform, r-cran-mass, r-cran-quadprog, r-cran-inflection, r-cran-rfast, r-cran-caret, r-cran-matrix, r-cran-quadprogxt, r-cran-slam, r-cran-roi, r-cran-osqp, r-cran-mgcv, r-cran-roi.plugin.qpoases Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools, r-cran-lmtest, r-cran-car, r-cran-tseries, r-cran-tibble, r-cran-testthat, r-cran-mlbench, r-cran-expm, r-cran-arrangements, r-cran-quantreg, r-cran-gmp, r-cran-rmpfr, r-cran-cubature, r-cran-mvtnorm, r-cran-lmboot, r-cran-sandwich, r-cran-cmna Filename: pool/dists/focal/main/r-cran-skedastic_2.0.3-1.ca2004.1_all.deb Size: 4182552 MD5sum: 73ba96fbecf67cb714724a4d5d1b8cfe SHA1: ac1e6fb25e86c0f30fce4e92a4050708c6f0226b SHA256: 99c3bde10b1d177a242594a40f3e4aa1ece8752bfdc83cabcbad4a3f871716c3 SHA512: f971933c5bb9752ff90677f270ae08bbf5c6c9a4ede7ac81896c43718027572cd609389c60e561cd181590335121895bdbec00e4f1e35712358ed82b9c75b9a8 Homepage: https://cran.r-project.org/package=skedastic Description: CRAN Package 'skedastic' (Handling Heteroskedasticity in the Linear Regression Model) Implements numerous methods for testing for, modelling, and correcting for heteroskedasticity in the classical linear regression model. The most novel contribution of the package is found in the functions that implement the as-yet-unpublished auxiliary linear variance models and auxiliary nonlinear variance models that are designed to estimate error variances in a heteroskedastic linear regression model. These models follow principles of statistical learning described in Hastie (2009) . The nonlinear version of the model is estimated using quasi-likelihood methods as described in Seber and Wild (2003, ISBN: 0-471-47135-6). Bootstrap methods for approximate confidence intervals for error variances are implemented as described in Efron and Tibshirani (1993, ISBN: 978-1-4899-4541-9), including also the expansion technique described in Hesterberg (2014) . The wild bootstrap employed here follows the description in Davidson and Flachaire (2008) . Tuning of hyper-parameters makes use of a golden section search function that is modelled after the MATLAB function of Zarnowiec (2022) . A methodological description of the algorithm can be found in Fox (2021, ISBN: 978-1-003-00957-3). There are 25 different functions that implement hypothesis tests for heteroskedasticity. These include a test based on Anscombe (1961) , Ramsey's (1969) BAMSET Test , the tests of Bickel (1978) , Breusch and Pagan (1979) with and without the modification proposed by Koenker (1981) , Carapeto and Holt (2003) , Cook and Weisberg (1983) (including their graphical methods), Diblasi and Bowman (1997) , Dufour, Khalaf, Bernard, and Genest (2004) , Evans and King (1985) and Evans and King (1988) , Glejser (1969) as formulated by Mittelhammer, Judge and Miller (2000, ISBN: 0-521-62394-4), Godfrey and Orme (1999) , Goldfeld and Quandt (1965) , Harrison and McCabe (1979) , Harvey (1976) , Honda (1989) , Horn (1981) , Li and Yao (2019) with and without the modification of Bai, Pan, and Yin (2016) , Rackauskas and Zuokas (2007) , Simonoff and Tsai (1994) with and without the modification of Ferrari, Cysneiros, and Cribari-Neto (2004) , Szroeter (1978) , Verbyla (1993) , White (1980) , Wilcox and Keselman (2006) , Yuce (2008) , and Zhou, Song, and Thompson (2015) . Besides these heteroskedasticity tests, there are supporting functions that compute the BLUS residuals of Theil (1965) , the conditional two-sided p-values of Kulinskaya (2008) , and probabilities for the nonparametric trend statistic of Lehmann (1975, ISBN: 0-816-24996-1). For handling heteroskedasticity, in addition to the new auxiliary variance model methods, there is a function to implement various existing Heteroskedasticity-Consistent Covariance Matrix Estimators from the literature, such as those of White (1980) , MacKinnon and White (1985) , Cribari-Neto (2004) , Cribari-Neto et al. (2007) , Cribari-Neto and da Silva (2011) , Aftab and Chang (2016) , and Li et al. (2017) . Package: r-cran-skeletalvis Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2250 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-arrow, r-cran-cowplot, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-ggrepel, r-cran-httr, r-cran-igraph, r-cran-miniui, r-cran-pbapply, r-cran-plotly, r-cran-rlang, r-cran-shiny, r-cran-tidyr, r-cran-visnetwork Suggests: r-cran-mockery, r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-skeletalvis_0.1.1-1.ca2004.1_all.deb Size: 1273760 MD5sum: 426377b1410dd698177dbc849fa4263c SHA1: 823420f403ff63c028bf5a54759ebe17760cb7e4 SHA256: e470ca81ae9d410a953eb263007fc9f698e10597e5cf6b75ed1f9a7cba4d3ded SHA512: 371170894f25d741eddea2d7e954cf2504d4ddafcf54e7327d961f52c47f18c7fb98121b9ea1e5fb54818bbdf008f9e9d18af45f8f1672974c4b9385458c805b Homepage: https://cran.r-project.org/package=SkeletalVis Description: CRAN Package 'SkeletalVis' (Exploration and Visualisation of Skeletal Transcriptomics Data) Allows search and visualisation of a collection of uniformly processed skeletal transcriptomic datasets. Includes methods to identify datasets where genes of interest are differentially expressed and find datasets with a similar gene expression pattern to a query dataset Soul J, Hardingham TE, Boot-Handford RP, Schwartz JM (2019) . 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Package skeletons it creates are set up for pushing your package to 'GitHub' and using other hosted services for building and test automation. 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Package: r-cran-sketcher Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1176 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jpeg, r-cran-png, r-cran-readbitmap, r-cran-downloader, r-cran-imager, r-cran-magrittr, r-cran-stringr, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sketcher_0.1.3-1.ca2004.1_all.deb Size: 1136080 MD5sum: b40ef5cf643b1657cf7b7b58d5c994df SHA1: 3eb8206aab7f836f67f78ae796a19a12cdb5007e SHA256: 4edc2eab65750d8c74cc051f10cff20a18f70e43e7fea629d976ca4142b666ba SHA512: a45e4863118cea7aad756d682f9b098db506dab133a99cb1b245bf66e34908d28133346d0ee33bd3abd76ddc0b8f5b0d98b4dbbf84e6f74db8251fa016d106f4 Homepage: https://cran.r-project.org/package=sketcher Description: CRAN Package 'sketcher' (Pencil Sketch Effect) An implementation of image processing effects that convert a photo into a line drawing image. For details, please refer to Tsuda, H. (2020). sketcher: An R package for converting a photo into a sketch style image. . Package: r-cran-sketchy Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-cran-stringi, r-cran-crayon, r-cran-packrat, r-cran-git2r, r-cran-xaringanextra, r-cran-rmarkdown, r-cran-remotes, r-cran-cli, r-cran-urlchecker, r-cran-stringr Suggests: r-cran-testthat, r-cran-formatr Filename: pool/dists/focal/main/r-cran-sketchy_1.0.5-1.ca2004.1_all.deb Size: 92292 MD5sum: a63095244d9ce40933c0cb5460f0367f SHA1: c339669042c3a241f9ac02d4f0fafe21dd24a67c SHA256: a29274b766e94d70cc90e4e8bfbe321776c3dbe10ee7004f175aef635d00d9cd SHA512: 25108cca877b2cb13bd48e21a008ce8098c88501bc52b3e3e5b7d7fae43b3677b8f6a48ec45ac60795ead1a4970eedc81f5c62a77d3acd443cf0880dc4094f3a Homepage: https://cran.r-project.org/package=sketchy Description: CRAN Package 'sketchy' (Create Custom Research Compendiums) Provides functions to create and manage research compendiums for data analysis. Research compendiums are a standard and intuitive folder structure for organizing the digital materials of a research project, which can significantly improve reproducibility. The package offers several compendium structure options that fit different research project as well as the ability of duplicating the folder structure of existing projects or implementing custom structures. It also simplifies the use of version control. Package: r-cran-skewhyperbolic Architecture: all Version: 0.4-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-distributionutils, r-cran-generalizedhyperbolic Suggests: r-cran-runit Filename: pool/dists/focal/main/r-cran-skewhyperbolic_0.4-2-1.ca2004.1_all.deb Size: 169020 MD5sum: 5125c704c4f613becdf5e2c3f0c36d8e SHA1: 85f533d74cbd572439763a6418ee2e4031a2bc72 SHA256: b2aebd6cee1a23362437ab105f2b7e1eca66ca2f146eee247ed15df94108375e SHA512: 2c988e0921ce22d7192791d4fa40e4560db9f321f7f1d0bc9bab3b8119fabae3a4b9110cc52e2444130d2c871912886623a0863c03f859bb06e72762f2c9c237 Homepage: https://cran.r-project.org/package=SkewHyperbolic Description: CRAN Package 'SkewHyperbolic' (The Skew Hyperbolic Student t-Distribution) Functions are provided for the density function, distribution function, quantiles and random number generation for the skew hyperbolic t-distribution. There are also functions that fit the distribution to data. There are functions for the mean, variance, skewness, kurtosis and mode of a given distribution and to calculate moments of any order about any centre. To assess goodness of fit, there are functions to generate a Q-Q plot, a P-P plot and a tail plot. Package: r-cran-skewlmm Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1306 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-optimparallel, r-cran-dplyr, r-cran-ggplot2, r-cran-future, r-cran-ggrepel, r-cran-haven, r-cran-mvtnorm, r-cran-nlme, r-cran-purrr, r-cran-furrr, r-cran-matrixcalc, r-cran-moments, r-cran-numderiv, r-cran-relliptical, r-cran-momtrunc, r-cran-truncatednormal Filename: pool/dists/focal/main/r-cran-skewlmm_1.1.2-1.ca2004.1_all.deb Size: 1215936 MD5sum: 9760a2ba30fdab735314f3cd5abb3685 SHA1: 83333307dafa32ab7d7b9cf2d2d2355608767dcd SHA256: 9cbefcd25992ff1d7e347351f9d00a3c3d4d776291679fde501f72e5d80d3508 SHA512: 29baaf01dceaebd1293f8e420f291ad27ef0271927c7f5b690dbe7a13aa91348b55b4b05b10b19085a917f80454745a68d461fa623df5e287da17db0711fb332 Homepage: https://cran.r-project.org/package=skewlmm Description: CRAN Package 'skewlmm' (Scale Mixture of Skew-Normal Linear Mixed Models) It fits scale mixture of skew-normal linear mixed models using either an expectation–maximization (EM) type algorithm or its accelerated version (Damped Anderson Acceleration with Epsilon Monotonicity, DAAREM), including some possibilities for modeling the within-subject dependence. Details can be found in Schumacher, Lachos and Matos (2021) . Package: r-cran-skewmlrm Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 709 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-foreach, r-cran-moments, r-cran-clustergeneration, r-cran-doparallel, r-cran-mass, r-cran-mvtnorm, r-cran-matrixcalc Suggests: r-cran-sn Filename: pool/dists/focal/main/r-cran-skewmlrm_1.7-1.ca2004.1_all.deb Size: 679220 MD5sum: 0fb8b8eb612b08219c65b92334bc135c SHA1: 793dac6a1ce6af74eceb0dd2ad545887f7a61c72 SHA256: 1a04b3c2d96f42b73fde9b374abab9a5ed1047c1b659ff1196b679906f227e88 SHA512: dd2cf1f83504982a9cc8f6d9932cd0c27a4f9461e759da0ace7e0c006badeed8cb4574693d79afce4060fc007d2e9cfb729cc37b84fae87d80eaea16abe5e772 Homepage: https://cran.r-project.org/package=skewMLRM Description: CRAN Package 'skewMLRM' (Estimation for Scale-Shape Mixtures of Skew-Normal Distributions) Provide data generation and estimation tools for the multivariate scale mixtures of normal presented in Lange and Sinsheimer (1993) , the multivariate scale mixtures of skew-normal presented in Zeller, Lachos and Vilca (2011) , the multivariate skew scale mixtures of normal presented in Louredo, Zeller and Ferreira (2021) and the multivariate scale mixtures of skew-normal-Cauchy presented in Kahrari et al. (2020) . Package: r-cran-skewsamp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-skewsamp_1.0.0-1.ca2004.1_all.deb Size: 71976 MD5sum: f6f22f462ce17e25c904e2ce07169275 SHA1: 9a6fb33404ebc15ff98191be2bc7ca2771659497 SHA256: 1bac5888ac2a28e29fcc5f886e147b5ba603b001f8789b3299b28c6abd03bdd2 SHA512: 6dd7140271062680d7e351ef0bb8b0d05f7f1771bb3fcc7fa64e045639a0aba2179b2c824e1ef010554fdf4535dd6e24730b0c4a9eb8c15e90ef9bb7591d3cba Homepage: https://cran.r-project.org/package=skewsamp Description: CRAN Package 'skewsamp' (Estimate Sample Sizes for Group Comparisons with SkewedDistributions) Estimate necessary sample sizes for comparing the location of data from two groups or categories when the distribution of the data is skewed. 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Package: r-cran-skewunit Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pracma Filename: pool/dists/focal/main/r-cran-skewunit_1.0-1.ca2004.1_all.deb Size: 60116 MD5sum: b069a2c2f6ecf8aae760af760b41bbb7 SHA1: 79a07f6c3c56a0336cd6373d38607ac7e2fa4333 SHA256: f4d5d99226a0b8c74d723eb73d9be5acf417517847be767e723358006c96c06f SHA512: fd858f96f3425c84f5bcf3d195f64db4081db6ce7f117b6ba148b959f5dd600eb3ff0603e108e826be1bf6e45ebe42a8cce9afe8d4226d5ab8221f4f9706e116 Homepage: https://cran.r-project.org/package=skewunit Description: CRAN Package 'skewunit' (Estimation and Other Tools for Skew-Unit Models) Provide estimation and data generation tools for the skew-unit family discussed based on Mukhopadhyay and Brani (1995) . The family contains extensions for popular distributions such as the ArcSin discussed in Arnold and Groeneveld (1980) , triangular, U-quadratic and Johnson-SB proposed in Cortina-Borja (2006) distributions, among others. 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Package: r-cran-slc Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-slc_0.3-1.ca2004.1_all.deb Size: 14484 MD5sum: a564290adefdcb343df838ba7ef042ee SHA1: 006513c20f26b724d6986d2fa6b019bdc599f8fe SHA256: b8fc45959a9f7966ecc7f50020cf4a5e39fa8141d951347229f9ed5a285abdd8 SHA512: df0d9f42c2c533c74794a91ea656acde451dbf56ffa4f43d7e1881e83945b1144482da0f2c5cf138ee4e2f281dd5c399ff6f393218966af5ea51c04cf5fbcf63 Homepage: https://cran.r-project.org/package=SLC Description: CRAN Package 'SLC' (Slope and level change) Estimates the slope and level change present in data after removing phase A trend. Represents graphically the original and the detrended data. Package: r-cran-slcare Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-nnet, r-cran-reda, r-cran-rereg, r-cran-rlang, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-slcare_1.2.0-1.ca2004.1_all.deb Size: 76372 MD5sum: e43479ac763307528280c550e9bfe84e SHA1: 794b7442bf0c5ee9e9e63886f729b606f91185ec SHA256: d03e9c9c4d69daa6d8726ce3213cdf877212a9255c07521536d3b9d6b6beb414 SHA512: 3db57fe10ea2a80342cb10ba0a5d7b2c0547e12bd245f203b0dc3fa6dddac274c280c469e84720609de7673e933d048dd74a69afdc5693441635810e3b82390d Homepage: https://cran.r-project.org/package=SLCARE Description: CRAN Package 'SLCARE' (Semiparametric Latent Class Analysis of Recurrent Events) Efficient R package for latent class analysis of recurrent events, based on the semiparametric multiplicative intensity model by Zhao et al. (2022) . SLCARE returns estimates for non-functional model parameters along with the associated variance estimates and p-values. Visualization tools are provided to depict the estimated functional model parameters and related functional quantities of interest. SLCARE also delivers a model checking plot to help assess the adequacy of the fitted model. Package: r-cran-sldassay Architecture: all Version: 1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sldassay_1.8-1.ca2004.1_all.deb Size: 30244 MD5sum: b2d30bb2e31d8f5210cab7729412eac4 SHA1: b8775f3e7194b140070422e866d70eac0fd4a5dd SHA256: 2924be2ae0e9cf2bf72bb609ba3c160e45fe27ce7529db2c9a22a75a8bd09459 SHA512: 0ea11a366a750f8d46ef2798ea2b938b307b7cd38ad1b4ce15343a6793a71a12056eb79e7a70a0598da2d6fc1a9b9f2d2af1d53142762c279b02495939357d66 Homepage: https://cran.r-project.org/package=SLDAssay Description: CRAN Package 'SLDAssay' (Software for Analyzing Limiting Dilution Assays) Calculates maximum likelihood estimate, exact and asymptotic confidence intervals, and exact and asymptotic goodness of fit p-values for concentration of infectious units from serial limiting dilution assays. This package uses the likelihood equation, exact goodness of fit p-values, and exact confidence intervals described in Meyers et al. (1994) . This software is also implemented as a web application through the Shiny R package . Package: r-cran-sleekts Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sleekts_1.0.2-1.ca2004.1_all.deb Size: 19636 MD5sum: 4b2dce3e8918556aa79b8115dff4bbed SHA1: d3163e844b8a907c9c94727c846ae8d656c71440 SHA256: 6d3071578ba3cc7e298ea5459810a2c033583cc6b626921635a333d4ef7870d1 SHA512: d16ddc42f278a78c29a1c8e48740c7e4b535acc671830a32acc4def7e1039c3ca90bd17addc4f815055dbc89f1df98458f27f14929e8186a9a14c065047fb8c0 Homepage: https://cran.r-project.org/package=sleekts Description: CRAN Package 'sleekts' (4253H, Twice Smoothing) Compute Time series Resistant Smooth 4253H, twice smoothing method. Package: r-cran-sleepcycles Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2, r-cran-plyr, r-cran-stringr, r-cran-viridis Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sleepcycles_1.1.4-1.ca2004.1_all.deb Size: 98524 MD5sum: 40f4fabe06f47c079b439bcb798b1116 SHA1: c2400db3b078265db70cdc1960e337bff0e65978 SHA256: 3da6ac20f36873b1db950dad4ad19c33d5f4caa8900394ecfee64a48cf9fb88f SHA512: 4a3c81f460ade0c8f7ba97dc5137a2108a7f55bcd71954b62caa3592a57969b8d45b414252834acf3e5ddbbcaed07611b74f04ebdfaf56c4702bc4a6af35bfe7 Homepage: https://cran.r-project.org/package=SleepCycles Description: CRAN Package 'SleepCycles' (Sleep Cycle Detection) Sleep cycles are largely detected according to the originally proposed criteria by Feinberg & Floyd (1979) as described in Blume & Cajochen (2021) . 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It implements sleep scoring using the "five-minute rule" (Hendricks et al. (2000) ), activity classification for Ethoscopes (Geissmann et al. (2017) ) and a new algorithm to detect when animals are dead. Package: r-cran-sleepwalk Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 353 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jrc, r-cran-cowplot, r-cran-httpuv, r-cran-jsonlite, r-cran-scales, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-sleepwalk_0.3.2-1.ca2004.1_all.deb Size: 114672 MD5sum: f5e92899e8c626f5626e3d414b7da879 SHA1: 0cbda70353af0f7d1b9e009faf61c0231a1e1532 SHA256: fd789aaf1cef6cf7a998f32070947aec7070d8d229d594f30c59372353933093 SHA512: 3bc7c6943db278c850ae48fcf4ef097f9e49c8c5c5bd48c70f54e5bd4e13323cd93c95644e55fcea62dac353574cfb8eb17b59c51828a9c165e2cb5ac57974e0 Homepage: https://cran.r-project.org/package=sleepwalk Description: CRAN Package 'sleepwalk' (Interactively Explore Dimension-Reduced Embeddings) A tool to interactively explore the embeddings created by dimension reduction methods such as Principal Components Analysis (PCA), Multidimensional Scaling (MDS), T-distributed Stochastic Neighbour Embedding (t-SNE), Uniform Manifold Approximation and Projection (UMAP) or any other. 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Package: r-cran-slendr Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4764 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-purrr, r-cran-readr, r-cran-magrittr, r-cran-reticulate, r-cran-tidyr, r-cran-png, r-cran-ijtiff, r-cran-ape, r-cran-shinywidgets, r-cran-shiny, r-cran-scales, r-cran-digest, r-cran-ggrepel Suggests: r-cran-testthat, r-cran-sf, r-cran-stars, r-cran-rnaturalearth, r-cran-gganimate, r-cran-knitr, r-cran-rmarkdown, r-cran-admixr, r-cran-units, r-cran-magick, r-cran-cowplot, r-cran-forcats, r-cran-rsvg Filename: pool/dists/focal/main/r-cran-slendr_1.1.0-1.ca2004.1_all.deb Size: 2484620 MD5sum: 722962e76aa2c47c29e46a003815a583 SHA1: 31525e94299b6c590de3c8305b5070f9283f46d7 SHA256: e663661ab13431c654a9cc93393ad1be5a2c73c2c693b889d43763dc12660974 SHA512: bfca2f7cd20a4ac6fbc33d95176cdfb7e764625f5ccd7eca777b73e4a2657bc41d2d8700c5168a32127de3f6a3ebe2fa21ce53ac913a7c0b6f4b86563cb6d6dd Homepage: https://cran.r-project.org/package=slendr Description: CRAN Package 'slendr' (A Simulation Framework for Spatiotemporal Population Genetics) A framework for simulating spatially explicit genomic data which leverages real cartographic information for programmatic and visual encoding of spatiotemporal population dynamics on real geographic landscapes. Population genetic models are then automatically executed by the 'SLiM' software by Haller et al. (2019) behind the scenes, using a custom built-in simulation 'SLiM' script. Additionally, fully abstract spatial models not tied to a specific geographic location are supported, and users can also simulate data from standard, non-spatial, random-mating models. These can be simulated either with the 'SLiM' built-in back-end script, or using an efficient coalescent population genetics simulator 'msprime' by Baumdicker et al. (2022) with a custom-built 'Python' script bundled with the R package. Simulated genomic data is saved in a tree-sequence format and can be loaded, manipulated, and summarised using tree-sequence functionality via an R interface to the 'Python' module 'tskit' by Kelleher et al. (2019) . Complete model configuration, simulation and analysis pipelines can be therefore constructed without a need to leave the R environment, eliminating friction between disparate tools for population genetic simulations and data analysis. Package: r-cran-sleuth2 Architecture: all Version: 2.0-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5086 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-lattice, r-cran-knitr, r-cran-mass, r-cran-agricolae, r-cran-car, r-cran-gmodels, r-cran-leaps, r-cran-mosaic Filename: pool/dists/focal/main/r-cran-sleuth2_2.0-7-1.ca2004.1_all.deb Size: 3896404 MD5sum: c319bd0b4d76f51ff51f7d0ccc0047f1 SHA1: 966e410d8974151f8d9237888991315b984d5b86 SHA256: d6663e2676f439abf24607dbbb681e526579f2ac70b4104fb7ad7e1a5181dc94 SHA512: 1a1f6f3052cd8b91ecebdea76f7332b4e5eca87b8a96df190666d392e96573a37b8489b7769f5945b70f7f9f62f4611a082f5c6ee6b9e7b4cdfe48524f7c4c95 Homepage: https://cran.r-project.org/package=Sleuth2 Description: CRAN Package 'Sleuth2' (Data Sets from Ramsey and Schafer's "Statistical Sleuth (2ndEd)") Data sets from Ramsey, F.L. and Schafer, D.W. (2002), "The Statistical Sleuth: A Course in Methods of Data Analysis (2nd ed)", Duxbury. Package: r-cran-sleuth3 Architecture: all Version: 1.0-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5901 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-cca, r-cran-hmisc, r-cran-mass, r-cran-agricolae, r-cran-car, r-cran-gmodels, r-cran-knitr, r-cran-lattice, r-cran-leaps, r-cran-mosaic, r-cran-multcomp Filename: pool/dists/focal/main/r-cran-sleuth3_1.0-6-1.ca2004.1_all.deb Size: 4696564 MD5sum: 9417bbb81dd8ed4c8bc06d79153a0396 SHA1: af6eab2c8ba4df8bf62906647df3e7422741e684 SHA256: a778a43c9803027b715b8c5d719f6ebfd877366e9b0681079950e6594d4bd3a6 SHA512: 0bb52dfa45e61b4e62e442ef874b196f354716f9893266374197b254f48d77a479ca5cd4af56aefc21c6070e3660f34a5445510108553a7b9081cf9b3592d5d7 Homepage: https://cran.r-project.org/package=Sleuth3 Description: CRAN Package 'Sleuth3' (Data Sets from Ramsey and Schafer's "Statistical Sleuth (3rdEd)") Data sets from Ramsey, F.L. and Schafer, D.W. (2013), "The Statistical Sleuth: A Course in Methods of Data Analysis (3rd ed)", Cengage Learning. Package: r-cran-slfpca Architecture: all Version: 3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fda, r-cran-fdapace, r-cran-psych Filename: pool/dists/focal/main/r-cran-slfpca_3.0-1.ca2004.1_all.deb Size: 43824 MD5sum: 3fb59d1c2a2977353e89865fc2aaac91 SHA1: 3a28cc4191691a12cb00bf7fef1281ae5ff0ef8a SHA256: 2d3c805c343a0d014055b01a13c47fdb13ea0bd2231c4de5d2f3c39e8ec8863d SHA512: 455fa02b2edfafd43cbb02102333ea1a05bc33b6ca6d8a2e385116f68064ff5621d002d4eca08575bc1ed566da9305b488a7b6f0f2d0f33e743f3f8581f3a5b0 Homepage: https://cran.r-project.org/package=SLFPCA Description: CRAN Package 'SLFPCA' (Sparse Logistic Functional Principal Component Analysis) Implementation for sparse logistic functional principal component analysis (SLFPCA). SLFPCA is specifically developed for functional binary data, and the estimated eigenfunction can be strictly zero on some sub-intervals, which is helpful for interpretation. The crucial function of this package is SLFPCA(). 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SLGF detects latent heteroscedasticity or group-based regression effects based on the levels of a user-specified categorical predictor. Package: r-cran-slicedlhd Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-slicedlhd_1.0-1.ca2004.1_all.deb Size: 34924 MD5sum: 519d4b9a53c02ad6a4dd31d433a05d97 SHA1: 414ca8b0bdf358d3667e4cf4834a418ceeee552e SHA256: cfd78e548236bc7d4c4f89e6d611b06425e681dccb63c7bac9289c3e2b0fbbed SHA512: 49914b16f83339c1e845782795fd284cb8ba12e2cbf9373737518c343076b86433fc03465880bc76f13f80057f8568203d5051e9ee581c88af86cab4beeb7298 Homepage: https://cran.r-project.org/package=SlicedLHD Description: CRAN Package 'SlicedLHD' (Sliced Latin Hypercube Designs) A facility to generate sliced (orthogonal) Latin hypercube designs with four and five slices. For details about sliced and orthogonal Latin hypercube designs, see Yang, J. F., Lin, C. D., Qian, P. Z., and Lin, D. K. (2013). "Construction of sliced orthogonal Latin hypercube designs". Statistica Sinica, 1117-1130, . 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(2019) . \n (2) IPWE-based global test (hypotehsis test, power calculation) by Ogbagaber S.B., Karp J., Wahed A.S. (2016) . \n (3) G estimates (pairwise comparison, power calculation) by Lavori R., Dawson P.W. (2012) . \n (4) IPW estimates (pairwise comparison, power calculation) by Murphy S.A. (2005) . \n (5) SAMRT with adaptive randomization by Cheung Y.K. (2015) . 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Reference: Weberpals J, Raman SR, Shaw PA, Lee H, Hammill BG, Toh S, Connolly JG, Dandreo KJ, Tian F, Liu W, Li J, Hernández-Muñoz JJ, Glynn RJ, Desai RJ. smdi: an R package to perform structural missing data investigations on partially observed confounders in real-world evidence studies. JAMIA Open. 2024 Jan 31;7(1):ooae008. . 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Package: r-cran-smiles Architecture: all Version: 0.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 260 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-boot, r-cran-meta Suggests: r-cran-bookdown, r-cran-diagrammer, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-smiles_0.1-0-1.ca2004.1_all.deb Size: 155504 MD5sum: b45c4934dab6d8481904b259d619e5c2 SHA1: e8b79068a426efe1bab16e3b4736c36a7e7d0bbc SHA256: a6522be8175c284b302f7b3a9637f7712ecc07fa5f3c8228c4a37fae418af93e SHA512: 849c131e8f46730595918db3570e110d8357abe940bd73d920275a5c25c1a3737afd4674fb0a9b999e205fab8bf5cc924860466c1b31d98430774774b4c7d79f Homepage: https://cran.r-project.org/package=smiles Description: CRAN Package 'smiles' (Sequential Method in Leading Evidence Synthesis) Trial sequential analysis emerges as an important method in data synthesis realm. 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Package: r-cran-smlmkalman Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3013 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-spdep, r-cran-pracma, r-cran-scales, r-cran-truncnorm Filename: pool/dists/focal/main/r-cran-smlmkalman_0.1.1-1.ca2004.1_all.deb Size: 3030656 MD5sum: afbcc286aa6b5d170b94abb533a27b6d SHA1: cfe82684ae8745abf0089de792333296d5705746 SHA256: bb679685010671e154c7612d1de08ec1eb4437c1400b292ae772fb5c243409f1 SHA512: 07b18697fc1353212738af6ae503bf24f176b462f355e571c28a2d945e627882d8740874130601ebf89eff04429686da5bd68072fca0ee1979d2b3d460db488d Homepage: https://cran.r-project.org/package=smlmkalman Description: CRAN Package 'smlmkalman' (Generation and Tracking of Super-Resolution Filamentous Datasets) A pair of functions that allow for the generation and tracking of coordinate data clouds without a time dimension, primarily for use in super-resolution plant micro-tubule image segmentation. Package: r-cran-smloutliers Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-smloutliers_0.1-1.ca2004.1_all.deb Size: 17164 MD5sum: 5c10f63f7a3857bfe2bef5e63c76965b SHA1: 5881a2e5321a27063c2bad34a99a1c0188699bc6 SHA256: 057a01a3545efb4d0d9658724df91431f3bb386533a6d14b75118f6f8767c40e SHA512: 8d66e87325767f3ebe76da894bab5c788c9d7eb21136ff79b8ec0f3a75441c53c64738582fd72719b9b58687ed0796e6c4b06803ed8a6ac1ca60f4ab9b8fd8eb Homepage: https://cran.r-project.org/package=SMLoutliers Description: CRAN Package 'SMLoutliers' (Outlier Detection Using Statistical and Machine Learning Methods) Local Correlation Integral (LOCI) method for outlier identification is implemented here. The LOCI method developed here is invented in Breunig, et al. (2000), see . 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For the parametric estimation, several discrete distributions are considered for the sojourn times: Uniform, Geometric, Poisson, Discrete Weibull and Negative Binomial. The non-parametric estimation concerns the sojourn time distributions, where no assumptions are done on the shape of distributions. Moreover, the estimation can be done on the basis of one or several sample paths, with or without censoring at the beginning or/and at the end of the sample paths. The implemented methods are described in Barbu, V.S., Limnios, N. (2008) , Barbu, V.S., Limnios, N. (2008) and Trevezas, S., Limnios, N. (2011) . Estimation and simulation of discrete-time k-th order Markov chains are also considered. 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The Swiss Municipal Data Merger Tool automatically detects these mutations and maps municipalities over time, i.e. municipalities of an old state to municipalities of a new state. This functionality is helpful when working with datasets that are based on different spatial references. The package's idea and use case is discussed in the following article: . 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Package: r-cran-smnet Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ssn, r-cran-rsqlite, r-cran-spam Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-smnet_2.1.2-1.ca2004.1_all.deb Size: 159608 MD5sum: 2b140677898dabb42236a99ee3136647 SHA1: 6c143a231a4ed77989a0c4845984e64f0b43c88d SHA256: e8186aab64945d70a59b0a5c8d4b13cb3718597bc97b8d2cf3ff9903c10fc903 SHA512: 80c46b2d97f89380c9fbb46a952317fecc14f6070d34da6b30c5304a46d44e74d4a3d96eced5238f5cda72b8b01c4042f24bc7b1a3b9090f0d97593c9d88d06b Homepage: https://cran.r-project.org/package=smnet Description: CRAN Package 'smnet' (Smoothing for Stream Network Data) Fits flexible additive models to data on stream networks, taking account of flow-connectivity of the network. Models are fitted using penalised least squares. 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For more details, see Kelin Zhong, Fernanda L. Schumacher, Luis M. Castro, Victor H. Lachos (2025) . 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Two variants of the present approach have been developed, one in each of the next references: Azzalini (2023) , (2024) . Package: r-cran-smoke Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1710 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rdpack Filename: pool/dists/focal/main/r-cran-smoke_2.0.1-1.ca2004.1_all.deb Size: 1611432 MD5sum: 6f6fd59d5a1d482465e61ad14857c1db SHA1: 365d142b54fa63571472cd37a1a4f3eb25a7ffd6 SHA256: 0ab16f996c16997378cde6632c428385b567eabb73d6cef7825c9443f4caaa0b SHA512: 1b651c9a47932ff04bb75565fba2c22ef6dbe820d5daa72b56d1cc2b9136783f66672f1f63cfbca47cda5be2d5bac6c3cd5d7d9e2268cd240f1ad779b4a3840e Homepage: https://cran.r-project.org/package=smoke Description: CRAN Package 'smoke' (Small Molecule Octet/BLI Kinetics Experiment) Bio-Layer Interferometry (BLI) is a technology to determine the binding kinetics between biomolecules. BLI signals are small and noisy when small molecules are investigated as ligands (analytes). We develop this package to process and analyze the BLI data acquired on Octet Red96 from Fortebio more accurately. Sun Q., Li X., et al (2020) . In this new version, we organize the BLI experiment data and analysis methods into a S4 class with self-explaining structure. Package: r-cran-smoothapc Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-quantreg, r-cran-sparsem, r-cran-lmtest, r-cran-rgl, r-cran-colorspace Suggests: r-cran-testthat, r-cran-demography Filename: pool/dists/focal/main/r-cran-smoothapc_0.3-1.ca2004.1_all.deb Size: 84260 MD5sum: ca630dd7ba4525adc6ead36ee1959881 SHA1: b7c4b9bd98247b9502490c62f0cd141c574ac136 SHA256: 012d0afa4e60bbf010671aa7748cc88ed0c7800850826a2f1f75c7f98455ae63 SHA512: e058121c4299335950457b5868a195ad353506419930609e9eef44b3a7e6f67f9e9a63e32aefa0ce9f5488199f96a9c18fcd037661b6d8889145bdba999db4fd Homepage: https://cran.r-project.org/package=smoothAPC Description: CRAN Package 'smoothAPC' (Smoothing of Two-Dimensional Demographic Data, Optionally Takinginto Account Period and Cohort Effects) The implemented method uses for smoothing bivariate thin plate splines, bivariate lasso-type regularization, and allows for both period and cohort effects. 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Package: r-cran-smoother Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ttr Filename: pool/dists/focal/main/r-cran-smoother_1.3-1.ca2004.1_all.deb Size: 23324 MD5sum: 1191b65d1293537d1105e9ae8f3cb0e8 SHA1: 962e86cb6e5f41fb85d22f7f1afaeec8845a08a5 SHA256: 8920e14425b660eb1663586fc64670bc492bad5415b8d2c411b2275697814b1e SHA512: d5bee5eeedef8995bd667a929733edacd47da8d9541013e807bf2c65043d2165c98723d05b5080be22b414117e7a1c9889424184e9970f7f8196321902675cf7 Homepage: https://cran.r-project.org/package=smoother Description: CRAN Package 'smoother' (Functions Relating to the Smoothing of Numerical Data) A collection of methods for smoothing numerical data, commencing with a port of the Matlab gaussian window smoothing function. In addition, several functions typically used in smoothing of financial data are included. 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This test statistic is equal sided, as proposed in "Homogenization of Radiosonde Temperature Time Series Using Innovation Statistics" by Haimberger, L., 2007. However, the statistic contains an estimate of sigma^2 in the denominator instead of sigma, which seems to be a more appropriate value (based on the paper "Homogenization of Swedish temperature data. Part I: Homogeneity test for linear trends." by Alexandersson, H., and A. Moberg, 1997). Package: r-cran-snn Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-snn_1.1-1.ca2004.1_all.deb Size: 43976 MD5sum: fe80b01fa0c4db943fdfbeb50dec8781 SHA1: a142661dcce0786f3cad5252d51f98561c5af254 SHA256: 4b547e5fd1093b487340eb3da43fd422436c29aec1def72f01211b096914858b SHA512: 49079400f4614fbac07dbed84c48462a475343e306e493c3d7bab110276ce45dbb2eb627272b8c99fb4e1304d3ee15d3ae0c26fb7b206e2457a3b43617db5454 Homepage: https://cran.r-project.org/package=snn Description: CRAN Package 'snn' (Stabilized Nearest Neighbor Classifier) Implement K-nearest neighbor classifier, weighted nearest neighbor classifier, bagged nearest neighbor classifier, optimal weighted nearest neighbor classifier and stabilized nearest neighbor classifier, and perform model selection via 5 fold cross-validation for them. This package also provides functions for computing the classification error and classification instability of a classification procedure. Package: r-cran-snotelr Architecture: all Version: 1.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-httr, r-cran-rvest, r-cran-dplyr, r-cran-memoise Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-testthat, r-cran-shinydashboard, r-cran-leaflet, r-cran-plotly, r-cran-dt Filename: pool/dists/focal/main/r-cran-snotelr_1.5.2-1.ca2004.1_all.deb Size: 85596 MD5sum: 4380478218023679d2a01ef5554eb69c SHA1: ca101de39be27d4121013afb76753bfb3d91cd04 SHA256: 18d769392fc7176b05482ded5b585b643398fbe875d61b339718d5cae0b21070 SHA512: f881057efead6af8b79bc1779f1e4f6aac633a6d06053ff04c84acfa34f61585da8406e8522056f11991021fe0049fd2b85e0ea51b43f751888c6e74a47d8332 Homepage: https://cran.r-project.org/package=snotelr Description: CRAN Package 'snotelr' (Calculate and Visualize 'SNOTEL' Snow Data and Seasonality) Programmatic interface to the 'SNOTEL' snow data (). Provides easy downloads of snow data into your R work space or a local directory. Additional post-processing routines to extract snow season indexes are provided. Package: r-cran-snow Architecture: all Version: 0.4-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-rlecuyer Filename: pool/dists/focal/main/r-cran-snow_0.4-4-1.ca2004.1_all.deb Size: 96748 MD5sum: 384f63d03fbf857b6477969abe54dce5 SHA1: 355370709abd2a5a35e43aaa43d0317b7fed0e56 SHA256: 6e742699dd2563b2ad7c4a771b40455302a4ea6ff727eb0f5d0ec8bb3ab84fc3 SHA512: 322e133ea57dcd5b6743fba0a0e283d1e8da0d4ce14fa45ea54ead6f5dfc947eb40a726572f79dcb46017b4762d6790b800034d6333ffc8931d4e5eea7ee6929 Homepage: https://cran.r-project.org/package=snow Description: CRAN Package 'snow' (Simple Network of Workstations) Support for simple parallel computing in R. Package: r-cran-snowdata Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-terra Filename: pool/dists/focal/main/r-cran-snowdata_1.0.0-1.ca2004.1_all.deb Size: 29884 MD5sum: 0e0978dfe837f68760ac2087e2a1f737 SHA1: 62a234cf09298a1d927ca098790c76241cea84da SHA256: a2e30a82c087574ceb7b6d811c1f56b76429882815f1e316307681bbbbc289d0 SHA512: 989f6618223600cfea81e9358828077433a67ad69794b8d507a51de428344e3f267ad34f6563a9fc8f9e6e56ef10c401695c7e577239075a4e8bafce99e8a3bf Homepage: https://cran.r-project.org/package=SnowData Description: CRAN Package 'SnowData' (Historical Data from John Snow's 1854 Cholera Outbreak Map) Provides historical datasets related to John Snow's 1854 cholera outbreak study in London. Includes data on cholera cases, water pump locations, and the street layout, enabling analysis and visualisation of the outbreak. Package: r-cran-snowfall Architecture: all Version: 1.84-6.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 309 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-snow Suggests: r-cran-rmpi Filename: pool/dists/focal/main/r-cran-snowfall_1.84-6.3-1.ca2004.1_all.deb Size: 248832 MD5sum: ce6d29e185b488cdc9dbe71b49362108 SHA1: 95c8e690769c9f6f33241da16633951e4a246ba2 SHA256: 7dcdd6f537f065e8887d8eda36a2a3cf88d6cecd80a5a775ecb3c471920e63cd SHA512: c78dfd6c6002951df6b9a41cd199197358d54b71ecf1463d8298fe92fbf6b65ed0e282aeae9828341c1c868e2b9c8b53fece9fb61c333275197c2edbdd075d78 Homepage: https://cran.r-project.org/package=snowfall Description: CRAN Package 'snowfall' (Easier Cluster Computing (Based on 'snow')) Usability wrapper around snow for easier development of parallel R programs. This package offers e.g. extended error checks, and additional functions. All functions work in sequential mode, too, if no cluster is present or wished. Package is also designed as connector to the cluster management tool sfCluster, but can also used without it. Package: r-cran-snowflakeauth Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-curl, r-cran-jsonlite, r-cran-rcpptoml, r-cran-rlang Suggests: r-cran-jose, r-cran-openssl, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-snowflakeauth_0.1.2-1.ca2004.1_all.deb Size: 40536 MD5sum: 579c61dcbee2221c4a8784f40f46ee98 SHA1: 24fa6b724d0542b6e478b2b5ea0f3183203be840 SHA256: 64b598da15a019679131b2cef9be6949e4c4f76aa08e0c2ec1433625c0890283 SHA512: 71abea890d47169987e6e9316c047f19f72cfb082804587744d008ac9ed21c1b68c095f124dbeef77c2359c9514500d3c6338ed8ed5f7fe2bfb3ea46a7e4bee2 Homepage: https://cran.r-project.org/package=snowflakeauth Description: CRAN Package 'snowflakeauth' (Authentication Helpers for 'Snowflake') Authentication helpers for 'Snowflake'. It provides compatibility with authentication approaches supported by the 'Snowflake Connector for Python' and the 'Snowflake CLI' . Package: r-cran-snowflakes Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 695 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-snowflakes_1.0.0-1.ca2004.1_all.deb Size: 486428 MD5sum: 6ed9a6ad168153a82261d6001a29439a SHA1: 5b1794fd78f3fc749d1fcbde5534a09328505721 SHA256: 343ec4b25d6d87426da7d6cf456adc5c47a11e10cd6e199fe986fe6d6e85fe0a SHA512: 301f7b3f9c8e17c0181be71f251c35ef0e7f1e4ec96b6a322c2c6b42090bad217c830f51fa9f30883ccdfe9e0dd6ddb21849f54539fbf6567236ac49239de56c Homepage: https://cran.r-project.org/package=snowflakes Description: CRAN Package 'snowflakes' (Random Snowflake Generator) The function generates and plots random snowflakes. Each snowflake is defined by a given diameter, width of the crystal, color, and random seed. Snowflakes are plotted in such way that they always remain round, no matter what the aspect ratio of the plot is. Snowflakes can be created using transparent colors, which creates a more interesting, somewhat realistic, image. Images of the snowflakes can be separately saved as svg files and used in websites as static or animated images. Package: r-cran-snowft Architecture: all Version: 1.6-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rlecuyer, r-cran-snow Suggests: r-cran-rmpi Filename: pool/dists/focal/main/r-cran-snowft_1.6-1-1.ca2004.1_all.deb Size: 76152 MD5sum: 081614c20fa5280d8892844cbd252708 SHA1: 59bf29a12c8b5f3ba7bbc6d58fef063091193df1 SHA256: 66ad8b966999c71eef0a06d18bedc7456794e663c4559af0a3aab81ff8df3fa0 SHA512: 4275235ffbe5c90419b867b3d5b00e5182fd596f631bbe359f7c9373c95de0ab0922c50cf8cf8ccdb4f819f5a4dc11f794d2097223cf6928702a4564c1655adb Homepage: https://cran.r-project.org/package=snowFT Description: CRAN Package 'snowFT' (Fault Tolerant Simple Network of Workstations) Extension of the snow package supporting fault tolerant and reproducible applications, as well as supporting easy-to-use parallel programming - only one function is needed. Dynamic cluster size is also available. Package: r-cran-snowquery Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate, r-cran-yaml, r-cran-dbi, r-cran-rpostgres, r-cran-rsqlite Filename: pool/dists/focal/main/r-cran-snowquery_1.2.1-1.ca2004.1_all.deb Size: 22152 MD5sum: 0a11b9c7af1a41a3bdedbc806dac8599 SHA1: 83635e91e9f41bfcf19188b67e5bc44dfdb6945d SHA256: 3abf9944d507629538e949f7d472346a88e87ab596cdd255d36ecaffec39840e SHA512: 35d9816dd711f83b1afdb95858e04b92828c5d4deac0726d6187f47465f82cfdec8ea4c327eb783d97ba582bc8da190e0033764a267f2fbc459d7e87a890682d Homepage: https://cran.r-project.org/package=snowquery Description: CRAN Package 'snowquery' (Query 'Snowflake' Databases with 'SQL') A wrapper allowing 'SQL' queries to be run on a 'Snowflake' instance directly from an 'R' script, by using the 'snowflake-connector-python' package in the background. Package: r-cran-snpaimer Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-adegenet, r-cran-doparallel, r-cran-dplyr, r-cran-forcats, r-cran-foreach, r-cran-ggplot2, r-cran-magrittr, r-cran-readr, r-cran-tidyr, r-cran-withr, r-cran-yaml Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-snpaimer_2.1.1-1.ca2004.1_all.deb Size: 24980 MD5sum: 74d2a3ba7c42d5e8378877ca7829fe2f SHA1: 75e14829533415c8ad2995456ae16a240b0fc569 SHA256: 79b0e963d19e80fc6f98e3d771afd8ea8ac9b635fcb7b7a8a7e37998adacf188 SHA512: 65c7acb264c53bb168d1806bfd020c2115d6a23cc36d9b799df4a59ba43e573d698d6f34dd50a9cc736a02ac30112be20e37350aa50e6a67e8b02d48a60dd74d Homepage: https://cran.r-project.org/package=snpAIMeR Description: CRAN Package 'snpAIMeR' (Assess the Diagnostic Power of Genomic Marker Combinations) Population genetics package for designing diagnostic panels. Candidate markers, marker combinations, and different panel sizes are assessed for how well they can predict the source population of known samples. Requires a genotype file of candidate markers in STRUCTURE format. Methods for population cross-validation are described in Jombart (2008) . Package: r-cran-snpannotator Architecture: all Version: 0.2.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 128 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-httr, r-cran-jsonlite, r-cran-xml2, r-cran-openxlsx, r-cran-progress, r-cran-doparallel, r-cran-foreach, r-cran-ggplot2, r-cran-kableextra, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-snpannotator_0.2.6.0-1.ca2004.1_all.deb Size: 83808 MD5sum: c56c2245f2bb1528d2fbd1d77f92a4ce SHA1: 944a42525efb06c408be1bf34023212187636f5a SHA256: 478934ab74f7a54e155424ed07fd77f2de96602568119a2e96ec495cf17f1e54 SHA512: 255ec85e41ed06f3aa546812743381be7c034c1d52fa6cc91c0939e71ba16b9e41d5335884402ccd6be7c7f97ee884aa8bff0d9071f1ea328cc759310e113406 Homepage: https://cran.r-project.org/package=SNPannotator Description: CRAN Package 'SNPannotator' (Investigating the Functional Characteristics of Selected SNPsand Their Vicinity Genomic Region) To investigate the functional characteristics of selected SNPs and their vicinity genomic region. Linked SNPs in moderate to high linkage disequilibrium (e.g. r2>0.50) with the corresponding index SNPs will be selected for further analysis. Package: r-cran-snpar Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-snpar_1.0-1.ca2004.1_all.deb Size: 86924 MD5sum: 1bbbfbaa1451eae3df6d7582613069dd SHA1: b99ad814ca7b38d6be5b90f70d1b7b326ab2b8da SHA256: 8e984451c0b9ad15b043e79dca78f26ee42d2959f0cbaf199f63ed6a141e2f2a SHA512: 229acd895e096e9a4ccc3af8e7d6a609b7995de4686649184c53cf4f75cf2294ca0d9b78fcd4042674ffc9fa9d08b7b6fcc50894cbab1bf31ea6ecf2922c50f6 Homepage: https://cran.r-project.org/package=snpar Description: CRAN Package 'snpar' (Supplementary Non-parametric Statistics Methods) contains several supplementary non-parametric statistics methods including quantile test, Cox-Stuart trend test, runs test, normal score test, kernel PDF and CDF estimation, kernel regression estimation and kernel Kolmogorov-Smirnov test. Package: r-cran-snpassoc Architecture: all Version: 2.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1336 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-haplo.stats, r-cran-mvtnorm, r-cran-survival, r-cran-tidyr, r-cran-plyr, r-cran-ggplot2, r-cran-poisbinom Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-bioc-biomart, r-bioc-variantannotation, r-bioc-genomicranges, r-bioc-iranges, r-bioc-s4vectors, r-bioc-org.hs.eg.db, r-bioc-txdb.hsapiens.ucsc.hg19.knowngene Filename: pool/dists/focal/main/r-cran-snpassoc_2.1-2-1.ca2004.1_all.deb Size: 1189528 MD5sum: 04a7cfdd061c23a953503e37e52f7d01 SHA1: d3d885e80a3e76d0b49590e3774a06e4c626030a SHA256: a4803c262fa651bd99c6974a4f24db237b6075ee5752c378b8de211017211daf SHA512: 2cecca1bd80bfa885362784c064ef251881accdc92f140b28696be38a598700e804787cf2fa76b0e0feb8f1d41e04e50238ae4470696275801021cbccc3b2f85 Homepage: https://cran.r-project.org/package=SNPassoc Description: CRAN Package 'SNPassoc' (SNPs-Based Whole Genome Association Studies) Functions to perform most of the common analysis in genome association studies are implemented. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented. Max-statistic and genetic risk-allele score exact distributions are also possible to be estimated. The methods are described in Gonzalez JR et al., 2007 . Package: r-cran-snpenrichment Architecture: all Version: 1.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2909 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-snpstats, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-snpenrichment_1.7.0-1.ca2004.1_all.deb Size: 1686576 MD5sum: f2bc4fa8b4a251afc24add66b7d835f5 SHA1: b94b7b6c6584397215535211421d69d2717c7143 SHA256: ec145270a7bd954ebb36c2f284c1db82400fd60018b4f1392377b5c56391d090 SHA512: 0c0b0c0640108ebacac1d64fad0be2dc7ef855d0be74ed712adaa608843f3f73d6a79e36675876d8af17990eefb3997c493fdd0b417fb5c1b3ac1aa33bd9f47f Homepage: https://cran.r-project.org/package=snpEnrichment Description: CRAN Package 'snpEnrichment' (SNPs Enrichment Analysis) Implements classes and methods for large scale SNP enrichment analysis (e.g. SNPs associated with genes expression in a GWAS signal). Package: r-cran-snpfiltr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 948 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-vcfr, r-cran-ggplot2, r-cran-rtsne, r-cran-cluster, r-cran-adegenet, r-cran-gridextra, r-cran-ggridges Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-snpfiltr_1.0.1-1.ca2004.1_all.deb Size: 633480 MD5sum: a1eda1ef87e331d72a04dbec212e31a1 SHA1: 460fc67ddad9e35ed604c6638f13cbc716a7f808 SHA256: d0f749f744563a938f62c8a3265a7e013d6315203fdc260c434599f19da5e127 SHA512: b1b0e9a79bffcc4b4a5ba5f7608f815ca3d2a55bdc08992b664f496e0a118aa29a72a76e5eb7827152f335cd67c46c0855cd3beca8b5f108a29e6b4f7f66e063 Homepage: https://cran.r-project.org/package=SNPfiltR Description: CRAN Package 'SNPfiltR' (Interactively Filter SNP Datasets) Is designed to interactively and reproducibly visualize and filter SNP (single-nucleotide polymorphism) datasets. This R-based implementation of SNP and genotype filters facilitates an interactive and iterative SNP filtering pipeline, which can be documented reproducibly via Rmarkdown. 'SNPfiltR' contains functions for visualizing various quality and missing data metrics for a SNP dataset, and then filtering the dataset based on user specified cutoffs. All functions take 'vcfR' objects as input, which can easily be generated by reading standard vcf (variant call format) files into R using the R package 'vcfR' (Knaus and Grünwald) (). Each 'SNPfiltR' function can return a newly filtered vcfR object, which can then be written to a local directory in standard vcf format using the 'vcfR' package, for downstream population genetic and phylogenetic analyses. Package: r-cran-snplinkage Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5671 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-gwastools, r-bioc-biomart, r-cran-cowplot, r-cran-data.table, r-bioc-gdsfmt, r-cran-ggplot2, r-cran-ggrepel, r-cran-gtable, r-cran-knitr, r-cran-magrittr, r-cran-reshape2, r-bioc-snprelate Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-snplinkage_1.2.0-1.ca2004.1_all.deb Size: 4667568 MD5sum: ca70eef6b4f585862e04aaf5104dc4b3 SHA1: 4bd0f315a8477f82c11e0283773931845e920adb SHA256: 843bda7d1756ebe6bfbffd54bd462a9a63263e3015c3c01ab26141ab42dde3a0 SHA512: 8883200cb2f7f28d6a27f45b23dfeb1adec38d39758e92e0b30733747c36e5e9dd331e76fc12e6ae2a4085efbbae97ae7eb8a10568f1ca2eafa9298852055ff4 Homepage: https://cran.r-project.org/package=snplinkage Description: CRAN Package 'snplinkage' (Single Nucleotide Polymorphisms Linkage DisequilibriumVisualizations) Linkage disequilibrium visualizations of up to several hundreds of single nucleotide polymorphisms (SNPs), annotated with chromosomic positions and gene names. Two types of plots are available for small numbers of SNPs (<40) and for large numbers (tested up to 500). Both can be extended by combining other ggplots, e.g. association studies results, and functions enable to directly visualize the effect of SNP selection methods, as minor allele frequency filtering and TagSNP selection, with a second correlation heatmap. The SNPs correlations are computed on Genotype Data objects from the 'GWASTools' package using the 'SNPRelate' package, and the plots are customizable 'ggplot2' and 'gtable' objects and are annotated using the 'biomaRt' package. Usage is detailed in the vignette with example data and results from up to 500 SNPs of 1,200 scans are in Charlon T. (2019) . Package: r-cran-snpls Architecture: all Version: 1.0.27-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-clickr, r-cran-future, r-cran-future.apply, r-cran-ggplot2, r-cran-ggrepel, r-cran-ks, r-cran-mass, r-cran-matrix, r-cran-pbapply Filename: pool/dists/focal/main/r-cran-snpls_1.0.27-1.ca2004.1_all.deb Size: 92160 MD5sum: 87d1c25ff90f63c1bcb54fc2655c03fa SHA1: 670681f5c9ec4777ddf3417373e25e4e209f7dac SHA256: 72ac62c2791aff8df7ca46e29c709b318e18f78118c7c7b5681e0b0e41c46245 SHA512: 6b121d87cd779db89feb75a51bb02973bde6c01c7a117d20c6b154b40bdca20c6a0e449c0a06de4cd4674359fbad48e88ae52ed2a015ca5a4caa4289d100018c Homepage: https://cran.r-project.org/package=sNPLS Description: CRAN Package 'sNPLS' (NPLS Regression with L1 Penalization) Tools for performing variable selection in three-way data using N-PLS in combination with L1 penalization, Selectivity Ratio and VIP scores. The N-PLS model (Rasmus Bro, 1996 ) is the natural extension of PLS (Partial Least Squares) to N-way structures, and tries to maximize the covariance between X and Y data arrays. The package also adds variable selection through L1 penalization, Selectivity Ratio and VIP scores. Package: r-cran-snpready Architecture: all Version: 0.9.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 910 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-matrixcalc, r-cran-stringr, r-cran-rgl, r-bioc-impute Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-snpready_0.9.6-1.ca2004.1_all.deb Size: 347760 MD5sum: 6aedf3c320945d9b3302c5dd54be6b6a SHA1: c3cc4de458abc32d21bdd9aa3960b6992d1842f4 SHA256: 63977f894403b51cfea9f41d0e0dc1515ad0d9fdbbecf48e8fb32c7647aeb566 SHA512: 52efae8f8a15421532292bd351d40d936db688844fb502866b2d90f679814b2407edacac931002554d803cc66fec73eb871ede0fc7c52e227b460a511d3d70ae Homepage: https://cran.r-project.org/package=snpReady Description: CRAN Package 'snpReady' (Preparing Genotypic Datasets in Order to Run Genomic Analysis) Three functions to clean, summarize and prepare genomic datasets to Genome Selection and Genome Association analysis and to estimate population genetic parameters. Package: r-cran-snqtl Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 253 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rarpack, r-cran-mass Filename: pool/dists/focal/main/r-cran-snqtl_0.2-1.ca2004.1_all.deb Size: 199976 MD5sum: bfe632880c3cc1ec4e8a85ae20798838 SHA1: a348e99e40d502b36a33217905b3eb17dc53e7af SHA256: e5db1d41a2aea8b8e146f6dc3af5e910a4ddb5b8759aa86cd275df9be7038086 SHA512: 4a982abf0212760a6299dca131e333dab1c453e9cc5a18b80a77cfad93a090eb0dede2943fd57fa4e289284d7c5a6fa5337c672902677073f5ce57d3d6348bec Homepage: https://cran.r-project.org/package=snQTL Description: CRAN Package 'snQTL' (Spectral Network Quantitative Trait Loci (snQTL) Analysis) A spectral framework to map quantitative trait loci (QTLs) affecting joint differential networks of gene co-Expression. Test the equivalence among multiple biological networks via spectral statistics. See reference Hu, J., Weber, J. N., Fuess, L. E., Steinel, N. C., Bolnick, D. I., & Wang, M. (2025) . Package: r-cran-sns Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 658 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mvtnorm, r-cran-coda, r-cran-numderiv Suggests: r-cran-regressionfactory Filename: pool/dists/focal/main/r-cran-sns_1.2.2-1.ca2004.1_all.deb Size: 543516 MD5sum: 9d5d35261aa7177fef22c6c6218e32b0 SHA1: 18dbaa6bd239cef49e67ff00410e0ba89e993297 SHA256: 66d4cc71e96a53c94948aec16306066f4f75a6ad23040103e12771f36d1e953e SHA512: 90a16d51e8ee0ef53147154832c67690d8a695fbb7e2429148f00eaebceadd73b892a414d4ed90a32f3b5b0f406ddf6fd1e0af9ffb52e4f8de7d8541e543a095 Homepage: https://cran.r-project.org/package=sns Description: CRAN Package 'sns' (Stochastic Newton Sampler (SNS)) Stochastic Newton Sampler (SNS) is a Metropolis-Hastings-based, Markov Chain Monte Carlo sampler for twice differentiable, log-concave probability density functions (PDFs) where the proposal density function is a multivariate Gaussian resulting from a second-order Taylor-series expansion of log-density around the current point. The mean of the Gaussian proposal is the full Newton-Raphson step from the current point. A Boolean flag allows for switching from SNS to Newton-Raphson optimization (by choosing the mean of proposal function as next point). This can be used during burn-in to get close to the mode of the PDF (which is unique due to concavity). For high-dimensional densities, mixing can be improved via 'state space partitioning' strategy, in which SNS is applied to disjoint subsets of state space, wrapped in a Gibbs cycle. Numerical differentiation is available when analytical expressions for gradient and Hessian are not available. Facilities for validation and numerical differentiation of log-density are provided. Note: Formerly available versions of the MfUSampler can be obtained from the archive . Package: r-cran-snscan Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 758 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-cran-powerlaw, r-cran-rmpfr Filename: pool/dists/focal/main/r-cran-snscan_1.0-1.ca2004.1_all.deb Size: 740760 MD5sum: 41203a318ae9b6b018d51eca8b6afda6 SHA1: 650f05053f89e21888220b4165ee08c82145db74 SHA256: 51ccfd8851c8e28ef7498f50ed43b202208c6f2088b3dca7cfc3e4c3613da443 SHA512: febefa8f5befb9331c29c6dbaf05e6e49a8e45671edbeb5d3293c39a42498c89b923d476ce7d59e08ab3a58d9dfade9f7f4395fda367bc76559e7a1771ea4760 Homepage: https://cran.r-project.org/package=SNscan Description: CRAN Package 'SNscan' (Scan Statistics in Social Networks) Scan statistics applied in social network data can be used to test the cluster characteristics among a social network. Package: r-cran-snschart Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-snschart_1.4.0-1.ca2004.1_all.deb Size: 226960 MD5sum: bfdbc10ae5e8711c2e854ba776cf6a59 SHA1: 181aa76ce59aa1ea1572ed40388364216a97f0e9 SHA256: a52986448e74e5c7822780a4c6bbd0e21c6f36dbf3ad7e99d1a1ed27d81a181e SHA512: d92cba7df73f8629459a32bcf039d31eb39393b4d0de1f71df622464b58b067bb17b99322cced1309975736f3f303026ab389e49d4f701b21e46c270ae5a6770 Homepage: https://cran.r-project.org/package=SNSchart Description: CRAN Package 'SNSchart' (Sequential Normal Scores in Statistical Process Management) The methods discussed in this package are new non-parametric methods based on sequential normal scores 'SNS' (Conover et al (2017) ), designed for sequences of observations, usually time series data, which may occur singly or in batches, and may be univariate or multivariate. These methods are designed to detect changes in the process, which may occur as changes in location (mean or median), changes in scale (standard deviation, or variance), or other changes of interest in the distribution of the observations, over the time observed. They usually apply to large data sets, so computations need to be simple enough to be done in a reasonable time on a computer, and easily updated as each new observation (or batch of observations) becomes available. Some examples and more detail in 'SNS' is presented in the work by Conover et al (2019) . Package: r-cran-snsequate Architecture: all Version: 1.3-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 353 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magic, r-cran-ake, r-cran-equate, r-cran-moments, r-cran-emdbook, r-cran-plyr, r-cran-statmod, r-cran-knitr, r-cran-progress Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-snsequate_1.3-5-1.ca2004.1_all.deb Size: 318652 MD5sum: 7571d7877f9959ae7e9f32f617cb7dd9 SHA1: 35b0faa4ebb405349f3fd27310f3a4a572811933 SHA256: e4c3ffbc257a0937fd09b81c83bbf8f51c435cb291e3c599fbcd2e0616d8abef SHA512: 8e63975d497a46b82c89146a719d8afde3a51e6efa5a73cdabba037c64334209aa89fa09540bfbb6cca11917d706d9446fb8af3db6fdbef2d16efa5812276f0d Homepage: https://cran.r-project.org/package=SNSequate Description: CRAN Package 'SNSequate' (Standard and Nonstandard Statistical Models and Methods for TestEquating) Contains functions to perform various models and methods for test equating (Kolen and Brennan, 2014 ; Gonzalez and Wiberg, 2017 ; von Davier et. al, 2004 ). It currently implements the traditional mean, linear and equipercentile equating methods. Both IRT observed-score and true-score equating are also supported, as well as the mean-mean, mean-sigma, Haebara and Stocking-Lord IRT linking methods. It also supports newest methods such that local equating, kernel equating (using Gaussian, logistic, Epanechnikov, uniform and adaptive kernels) with presmoothing, and IRT parameter linking methods based on asymmetric item characteristic functions. Functions to obtain both standard error of equating (SEE) and standard error of equating differences between two equating functions (SEED) are also implemented for the kernel method of equating. Package: r-cran-snsfdatasets Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-snsfdatasets_0.1.1-1.ca2004.1_all.deb Size: 21872 MD5sum: 4c002b113a1110b7089a75fb3ee2e90a SHA1: 7a80d6ff082cd3625f8d23139d32ff1735cdeef8 SHA256: a0b52abd0f0a1e4391e885b7855a411f4e57631b911bffa054e167f4f2082ada SHA512: 684337a03e73e69f74d7edede47baf662e9e32b7440e8eaa2c850fdf09782c5eb8a874f680179429943ccf24f62800557150f402c8cc7dcab8b1a0b547e0ac7d Homepage: https://cran.r-project.org/package=SNSFdatasets Description: CRAN Package 'SNSFdatasets' (Download Datasets from the Swiss National Science Foundation(SNF, FNS, SNSF)) Download and read datasets from the Swiss National Science Foundation (SNF, FNS, SNSF; ). The package is lightweight and without dependencies. Downloaded data can optionally be cached, to avoid repeated downloads of the same files. There are also utilities for comparing different versions of datasets, i.e. to report added, removed and changed entries. Package: r-cran-snsmart Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-envstats, r-cran-bayestestr, r-cran-condmvnorm, r-cran-cubature, r-cran-geepack, r-cran-hdinterval, r-cran-pracma, r-cran-rjags, r-cran-tidyr, r-cran-truncdist Suggests: r-cran-coda, r-cran-testthat Filename: pool/dists/focal/main/r-cran-snsmart_0.2.4-1.ca2004.1_all.deb Size: 152964 MD5sum: c8c52ded5ec7fd36427140e072df733f SHA1: 8c39ddb80f723f0af89be836e7ec33cbe21527ec SHA256: 515ac4081fb5ccf2ba0b0e801e66c45acebe042e1cc6b8b369da0a7cd5c80822 SHA512: 98a5e0f37a791409019b715012335e05034e064a3219cb6df8420a01ca11fd191c07c91ea61ea6a9a002ff0b851331302733b7f72dd2dc8e3d3dd992262a6111 Homepage: https://cran.r-project.org/package=snSMART Description: CRAN Package 'snSMART' (Small N Sequential Multiple Assignment Randomized Trial Methods) Consolidated data simulation, sample size calculation and analysis functions for several snSMART (small sample sequential, multiple assignment, randomized trial) designs under one library. See Wei, B., Braun, T.M., Tamura, R.N. and Kidwell, K.M. "A Bayesian analysis of small n sequential multiple assignment randomized trials (snSMARTs)." (2018) Statistics in medicine, 37(26), pp.3723-3732 . Package: r-cran-snvecr Architecture: all Version: 3.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1780 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-desolve, r-cran-cli, r-cran-dplyr, r-cran-tibble, r-cran-purrr, r-cran-readr, r-cran-tidyselect, r-cran-rlang, r-cran-glue, r-cran-backports, r-cran-stringr Suggests: r-cran-astrochron, r-cran-ggplot2, r-cran-tidyr, r-cran-testthat, r-cran-roxygen2, r-cran-knitr, r-cran-withr, r-cran-curl, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-snvecr_3.10.1-1.ca2004.1_all.deb Size: 1331688 MD5sum: 4754f1db5cc39a37197b6c7140e4fa32 SHA1: 1b026125c2d2e0eeb1ae714705b313446ac73df9 SHA256: 95f29b742fd99de3632d5483351d284de1765bf40c87ddb8c063c7b190a110a6 SHA512: 96fd328ae53bbaf32b6a498b87b04df1e0ae577bd481a011990db4c7ff8cfbccaa1b07dca2ff74d4c0824f92259754ec830021c7d4286230764b212ce69fc2d7 Homepage: https://cran.r-project.org/package=snvecR Description: CRAN Package 'snvecR' (Calculate Earth’s Obliquity and Precession in the Past) Easily calculate precession and obliquity from an orbital solution (defaults to ZB18a from Zeebe and Lourens (2019) ) and assumed or reconstructed values for tidal dissipation (Td) and dynamical ellipticity (Ed). 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Package: r-cran-snvlfdr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 545 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-snvlfdr_1.0.1-1.ca2004.1_all.deb Size: 107360 MD5sum: 71a1e6b8a273944f1c63278957ccfc49 SHA1: 4fa9cbbb1cafe9ad04078f3b878e40d6d40e3f7b SHA256: 7e92b16045c82a8be829c9bc5a489cd8271db635bfb0c3808e5414668fc2d22b SHA512: 808779fb59d77afc13d8677441c206066f7ef21e9be36b6712b13739de7c9bd22197ac9c49009c68d6336156a23118714920531e9d8173ded55aba4a846e3c5e Homepage: https://cran.r-project.org/package=SNVLFDR Description: CRAN Package 'SNVLFDR' (Empirical Bayes Single Nucleotide Variant Calling) Identifies single nucleotide variants in next-generation sequencing data by estimating their local false discovery rates. For more details, see Karimnezhad, A. and Perkins, T. J. (2024) . 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Soc.ca is optimized to the needs of the social scientist and presents easily interpretable results in near publication ready quality. 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It is also possible to determine the number of agonistic interactions between two individuals, sociometric and dyadics matrix from dataset obtained through electronic bins. In addition, it is possible plotting the results using a bar plot, box plot, and sociogram. 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(2008) . Package: r-cran-socialposition Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 380 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-socialposition_1.0.1-1.ca2004.1_all.deb Size: 260984 MD5sum: 21c480c22b9180661b6bdaaa08815571 SHA1: b19456b613a7236904ee00d29b7e41e9ffa3196e SHA256: 6bb96a8ae417ead19f65023b0863df010f307739752d96bf3f8f5ee1a7053829 SHA512: c59c7064887ddaca31185d3ebfb25533959f7f3291f20820e1b660164ba7c8fc81bb61098d0a43eee1da01ad33843a468ba72b5e0af17849297d1fa424f87aec Homepage: https://cran.r-project.org/package=SocialPosition Description: CRAN Package 'SocialPosition' (Social Position Indicators Construction Toolbox) Provides to sociologists (and related scientists) a toolbox to facilitate the construction of social position indicators from survey data. Social position indicators refer to what is commonly known as social class and social status. There exists in the sociological literature many theoretical conceptualisation and empirical operationalization of social class and social status. This first version of the package offers tools to construct the International Socio-Economic Index of Occupational Status (ISEI) and the Oesch social class schema. It also provides tools to convert several occupational classifications (PCS82, PCS03, and ISCO08) into a common one (ISCO88) to facilitate data harmonisation work, and tools to collapse (i.e. group) modalities of social position indicators. Package: r-cran-socialranking Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1726 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-relations, r-cran-rlang, r-cran-rdpack Suggests: r-cran-clipr, r-cran-testthat, r-cran-xfun, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-partitions Filename: pool/dists/focal/main/r-cran-socialranking_1.2.0-1.ca2004.1_all.deb Size: 760076 MD5sum: 19c6c53aca3e667508fc0a7cbe239cac SHA1: f6efe7104371b6378d9f3572e3601d116896146b SHA256: 47318c3c8a02ecab8c6ff96f20025b484678699c0f11027519c2071f7e2eace8 SHA512: 8d63dae1b4f67fb17eee197d67c11e9c19d28de50fb27043221db827163086e9f3d0647f74d27722d9c92671749fa79b686c24c1d61cb1897447645fcf5641b0 Homepage: https://cran.r-project.org/package=socialranking Description: CRAN Package 'socialranking' (Social Ranking Solutions for Power Relations on Coalitions) The notion of power index has been widely used in literature to evaluate the influence of individual players (e.g., voters, political parties, nations, stockholders, etc.) involved in a collective decision situation like an electoral system, a parliament, a council, a management board, etc., where players may form coalitions. 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Package: r-cran-socialrisk Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-stringr, r-cran-rlang, r-cran-tidyselect, r-cran-tidyr Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-socialrisk_0.5.1-1.ca2004.1_all.deb Size: 35064 MD5sum: 9e8a038276ee5ae17eb09947f8d6a751 SHA1: 837c0e669774a29e5ea3d6f631232e165b3af5fa SHA256: 52190aa6f22bf2658e8f60d0fb7f97ac18f544bbf26e8681ce8347c23b9aa31e SHA512: 33ef34652797285c082b7be0502c7699162f51d523a346466c9ea6fa9e6aa6bd99890b332fe857514c7f404ba1d165744069781eb913c7e1fb62c357be4998d9 Homepage: https://cran.r-project.org/package=socialrisk Description: CRAN Package 'socialrisk' (Identifying Patient Social Risk from Administrative Health CareData) Social risks are increasingly becoming a critical component of health care research. 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Package: r-cran-soil Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-ncvreg, r-cran-mass, r-cran-brglm2 Filename: pool/dists/focal/main/r-cran-soil_1.1-1.ca2004.1_all.deb Size: 41160 MD5sum: 37545378f7ec76f76190fda95230dbab SHA1: 3276b8998190fd26bf620b2114536a483b2197b3 SHA256: c1fe1a6ae98c45b838bb85abedef6ef2b1522074ea8da4d8118cb867a1893687 SHA512: 2d4221ae258c1ac50fd5a4184d83bc2b09e5b096d1d6184c83720e50869263d939f28dee82d3c94b63a241acf9b14a8449867b6872426608a3f918aaef94ffc6 Homepage: https://cran.r-project.org/package=SOIL Description: CRAN Package 'SOIL' (Sparsity Oriented Importance Learning) Sparsity Oriented Importance Learning (SOIL) provides a new variable importance measure for high dimensional linear regression and logistic regression from a sparse penalization perspective, by taking into account the variable selection uncertainty via the use of a sensible model weighting. The package is an implementation of Ye, C., Yang, Y., and Yang, Y. (2017+). Package: r-cran-soilassessment Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2392 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret, r-cran-desolve, r-cran-e1071, r-cran-fuzzyahp, r-cran-googledrive, r-cran-hmisc, r-cran-nnet, r-cran-png, r-cran-randomforest, r-cran-raster, r-cran-soiltexture, r-cran-sp, r-cran-sf, r-cran-terra Suggests: r-cran-arm, r-cran-cubist, r-cran-aqp, r-cran-kernlab, r-cran-nlme, r-cran-ranger, r-cran-rpart, r-cran-plyr, r-cran-qrnn, r-cran-quantregforest, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-soilassessment_0.3.0-1.ca2004.1_all.deb Size: 2344676 MD5sum: d2fdc405e16838916b478d723167fe1d SHA1: ede314a13a0a9811804b61872b723b74beec52be SHA256: 9cdad4d5272f3b734546d94887e4bca6e96b6924a44c7b3d235765df53de745c SHA512: c8201465def4257c20d4ab9f48ba431e1b71007248848f1245e50ff2b5c0e111cb283d28921ebb01f992a7dc85d49d25f7fc17e71f0af3046d36d587a61f4ec3 Homepage: https://cran.r-project.org/package=soilassessment Description: CRAN Package 'soilassessment' (Soil Health Assessment Models for Assessing Soil Conditions andSuitability) Soil health assessment builds information to improve decision in soil management. It facilitates assessment of soil conditions for crop suitability [such as those given by FAO ], groundwater recharge, fertility, erosion, salinization [], carbon sequestration, irrigation potential, and status of soil resources. Package: r-cran-soilchemistry Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-soilchemistry_0.1.0-1.ca2004.1_all.deb Size: 29328 MD5sum: 01922b42962d2aba26f73b2dad655fd7 SHA1: 9e2e7b5614b223c8fe888af1c6b43f2634c48eaf SHA256: b52b90903385d34399988913be871558585afede75216df240532a9612288f09 SHA512: 7f3ad8d1ff7adb9075b5cd3f6d1c4d2658f49da14faadd241177cc766b745d9b89db40904f82160a183abd6c60e976dbfc8d02b159ae118eae62fb8d104783a0 Homepage: https://cran.r-project.org/package=soilchemistry Description: CRAN Package 'soilchemistry' (Computation of Properties Related to Soil Chemical Environmentand Nutrient Availability) Facilitates basic and equation-based analyses of some important soil properties related to soil chemical environment and nutrient availability to plants. Freundlich H (1907). . Datta SP, Bhadoria PBS (1999). ."Boron adsorption and desorption in some acid soils of West Bengal, India". Langmuir I (1918). "The adsorption of gases on plane surfaces of glass, mica, and platinum". Khasawneh FE (1971). "Solution ion activity and plant growth". Package: r-cran-soilconservation Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-soilconservation_1.0.1-1.ca2004.1_all.deb Size: 53132 MD5sum: 65166f84b3e67b06ed8b521cbcd2a62e SHA1: fa00cbf55d0f3f0c2016a2471a4d43b275a65252 SHA256: 581e590d0a3142d4747d6b8a130ff20786ba7c7c3d5e34cfb3beeca8488924f8 SHA512: b3d6d3e13b84fda85aa02cf0cb62894acee5aecfc13dfc2475c9815adbe6bf85568d93624813a90719a0badc99a75be36cd387fb67c83217bac37a9bd72d7685 Homepage: https://cran.r-project.org/package=SoilConservation Description: CRAN Package 'SoilConservation' (Soil and Water Conservation) Includes four functions: RFactor_calc(), RFactor_est(), KFactor() and SoilLoss(). The rainfall erosivity factors can be calculated or estimated, and soil erodibility will be estimated by the equation extracted from the monograph. Soil loss will be estimated by the product of five factors (rainfall erosivity, soil erodibility, length and steepness slope, cover-management factor and support practice factor. In the future, additional functions can be included. This efforts to advance research in soil and water conservation, with fast and accurate results. Package: r-cran-soildb Architecture: all Version: 2.8.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2191 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aqp, r-cran-data.table, r-cran-dbi, r-cran-curl Suggests: r-cran-jsonlite, r-cran-xml2, r-cran-httr, r-cran-rvest, r-cran-odbc, r-cran-rsqlite, r-cran-sf, r-cran-wk, r-cran-terra, r-cran-raster, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-soildb_2.8.9-1.ca2004.1_all.deb Size: 1755272 MD5sum: e9ed2a68613bf78e036ce39bb22ec03f SHA1: 655d319a2b57fbf368cf96dc23ac9c5dcfc75680 SHA256: 2c52dfab1a36009ea5efd08570cafbf21847cd499b432332f7f1ed031792b824 SHA512: 4db8bf935e3791db39a097670224cce9df55681a809ad55ca53a2d416c73085c5c0c26d0ace5ead0072e2a4cd077bf8bfa006c668d064e624bfe127bc3eae9dc Homepage: https://cran.r-project.org/package=soilDB Description: CRAN Package 'soilDB' (Soil Database Interface) A collection of functions for reading soil data from U.S. Department of Agriculture Natural Resources Conservation Service (USDA-NRCS) and National Cooperative Soil Survey (NCSS) databases. Package: r-cran-soilfda Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-soilfda_0.1.0-1.ca2004.1_all.deb Size: 17392 MD5sum: d640f8b351abc9bfcf423d94a9da6766 SHA1: baae4f4abfe89e89e0f6fe9a88279c97dcb28195 SHA256: 2cd53ec33d276c1971447d51ddf92973a70fd2e1c41a999a3fcbd3a4bb4fdfff SHA512: 20aacb73e635bf63f14ecdd55f1cd58a1950770b9e2e323c12b5004b9eace6aebe6bc5631502199eba56dd40a6ee2314da04cb8b585566a7479479e5bc99d3a2 Homepage: https://cran.r-project.org/package=SoilFDA Description: CRAN Package 'SoilFDA' (Fractal Dimension Analysis of Soil Particle Size Distribution) Function for the computation of fractal dimension based on mass of soil particle size distribution by Tyler & Wheatcraft (1992) . It also provides functions for calculation of mean weight and geometric mean diameter of particle size distribution by Perfect et al. (1992) . Package: r-cran-soilfoodwebs Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 482 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-stringr, r-cran-diagram, r-cran-quadprog, r-cran-lpsolve, r-cran-rootsolve, r-cran-desolve Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-soilfoodwebs_1.0.2-1.ca2004.1_all.deb Size: 259224 MD5sum: ad667512088361379f6bf5a2eddbcd67 SHA1: 380c9ca8c8b162287011cf8d648499c1c3393ff6 SHA256: 98dae6b0a7aed9772378a8ccbce14cd02dbe7e415e6a385d12964ddd6c21ca9b SHA512: b4c01e946346329189d98733e8822af9e9824d91cf0b4635a1bc393b4e03df214c6612219a4c5687f077f9c05f0203ea1caffd8c451b318ea42c7681141ff424 Homepage: https://cran.r-project.org/package=soilfoodwebs Description: CRAN Package 'soilfoodwebs' (Soil Food Web Analysis) Analyzing soil food webs or any food web measured at equilibrium. The package calculates carbon and nitrogen fluxes and stability properties using methods described by Hunt et al. (1987) , de Ruiter et al. (1995) , Holtkamp et al. (2011) , and Buchkowski and Lindo (2021) . The package can also manipulate the structure of the food web as well as simulate food webs away from equilibrium and run decomposition experiments. Package: r-cran-soilfunctionality Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-soilfunctionality_0.1.0-1.ca2004.1_all.deb Size: 15008 MD5sum: 1121e42f69308a05f0426778e37e10f6 SHA1: 0c693083b69d69dd42203e65f4fd8eb36c78633b SHA256: ee27b2e5c83b431688577ae58596802b904535c8061b785ba75956e9e36f1250 SHA512: faa73b4734898361b2dc3dbf10d5b106a676c4e1617f98b1809d3e44c4da860c2f02176ec341efb2ee8f42e81ca45b0760f308ac3b0cb857cb4a3047cfdee5be Homepage: https://cran.r-project.org/package=SoilFunctionality Description: CRAN Package 'SoilFunctionality' (Soil Functionality Measurement) Generally, soil functionality is characterized by its capability to sustain microbial activity, nutritional element supply, structural stability and aid for crop production. Since soil functions can be linked to 80% of ecosystem services, conservation of degraded land should strive to restore not only the capacity of soil to sustain flora but also ecosystem provisions. The primary ecosystem services of soil are carbon sequestration, food or biomass production, provision of microbial habitat, nutrient recycling. However, the actual magnitude of soil functions provided by agricultural land uses has never been quantified. Nutrient supply capacity (NSC) is a measure of nutrient dynamics in restored land uses. Carbon accumulation proficiency (CAP) is a measure of ecosystem carbon sequestration. Biological activity index (BAI) is the average of responses of all enzyme activities in treated land over control/reference land. The CAP parameter investigates how land uses may affect carbon flows, retention, and sequestration. The CAP provides a signal for C cycles, flows, and the systems' relative operational supremacy. Package: r-cran-soilhyp Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-lubridate Filename: pool/dists/focal/main/r-cran-soilhyp_0.1.7-1.ca2004.1_all.deb Size: 224384 MD5sum: f36cf2dcdccfb140a33463f45f102ffc SHA1: 4551f31ef7eeda0811a81ece1dff9f42807decc1 SHA256: 12c0a4a58bab3a9f89ff284cf623809d655565cba12670bf1089b718a634f6aa SHA512: 35b63f76642b46a695cd3273889b6321f8ce42ec266d707d302fc986d80f844d6326f1f9f70e8d70a1c67b35184a9acc9ef95268e1e73ad9605c70328f4d5b46 Homepage: https://cran.r-project.org/package=SoilHyP Description: CRAN Package 'SoilHyP' (Soil Hydraulic Properties) Provides functions for (1) soil water retention (SWC) and unsaturated hydraulic conductivity (Ku) (van Genuchten-Mualem (vGM or vG) [1, 2], Peters-Durner-Iden (PDI) [3, 4, 5], Brooks and Corey (bc) [8]), (2) fitting of parameter for SWC and/or Ku using Shuffled Complex Evolution (SCE) optimisation and (3) calculation of soil hydraulic properties (Ku and soil water contents) based on the simplified evaporation method (SEM) [6, 7]. Main references: [1] van Genuchten (1980) , [2] Mualem (1976) , [3] Peters (2013) , [4] Iden and Durner (2013) , [5] Peters (2014) , [6] Wind G. P. (1966), [7] Peters and Durner (2008) and [8] Brooks and Corey (1964). Package: r-cran-soilhypfit Architecture: all Version: 0.1-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 396 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-nloptr, r-cran-snowfall, r-cran-mgcv, r-cran-quadprog, r-cran-rmpfr, r-cran-soilhyp Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-soilhypfit_0.1-7-1.ca2004.1_all.deb Size: 361236 MD5sum: f545b7dc25fbe51430b1a304da48b6ba SHA1: 0d05dfd75e2da504fbb0b8834d4749cacf0263c4 SHA256: fce3719eee233455167bf4e99c616e33110de8514495c390890e01ead28ff161 SHA512: a84c0ab7c81c71018a4860b0c1d7cba4921ae33cd6b9f099cec21c14ade1826a8879ac3ea5509c91b2d243c239913d3f92a56469c9b081bab3f2a8cd2522a640 Homepage: https://cran.r-project.org/package=soilhypfit Description: CRAN Package 'soilhypfit' (Modelling of Soil Water Retention and Hydraulic ConductivityData) Provides functions for efficiently estimating properties of the Van Genuchten-Mualem model for soil hydraulic parameters from possibly sparse soil water retention and hydraulic conductivity data by multi-response parameter estimation methods (Stewart, W.E., Caracotsios, M. Soerensen, J.P. (1992) "Parameter estimation from multi-response data" ). Parameter estimation is simplified by exploiting the fact that residual and saturated water contents and saturated conductivity are conditionally linear parameters (Bates, D. M. and Watts, D. G. (1988) "Nonlinear Regression Analysis and Its Applications" ). Estimated parameters are optionally constrained by the evaporation characteristic length (Lehmann, P., Bickel, S., Wei, Z. and Or, D. (2020) "Physical Constraints for Improved Soil Hydraulic Parameter Estimation by Pedotransfer Functions" ) to ensure that the estimated parameters are physically valid. Common S3 methods and further utility functions allow to process, explore and visualise estimation results. Package: r-cran-soilmanager Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1169 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-lubridate, r-cran-ggplot2, r-cran-ggthemes, r-cran-tidyr, r-cran-tibble, r-cran-readxl, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-soilmanager_1.1.0-1.ca2004.1_all.deb Size: 856220 MD5sum: 733112d9592c0b9b722e9a19e66f1aba SHA1: 17bc2cbf15f333824b44ee85b7558a5241bb0412 SHA256: 0383b5687678e85bff29a86dd7409cfdaf257c4dc5563af0f4ade9a240d180c4 SHA512: aa65cdf439c1b78e824f62aed07c238c6dac50fd98392900a22500e30185d18d54374bb4be11f876c90e1329971f51bdb8fc35f7c9b5892dfa6acfde58b9df8f Homepage: https://cran.r-project.org/package=SoilManageR Description: CRAN Package 'SoilManageR' (Calculate Soil Management Indicators for Agricultural PracticeAssessment) Calculate numerical agricultural soil management indicators from on a management timeline of an arable field. Currently, indicators for carbon (C) input into the soil system, soil tillage intensity rating (STIR), number of soil cover and living plant cover days, N fertilization and livestock intensity, and plant diversity are implemented. The functions can also be used independently of the management timeline to calculate some indicators. The package contains tables with reference information for the functions, as well as a '*.xlsx' template to collect the management data. Package: r-cran-soilphysics Architecture: all Version: 5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2616 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-boot, r-cran-mass, r-cran-shiny, r-cran-rhandsontable, r-cran-shinydashboard, r-cran-fields Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rpanel Filename: pool/dists/focal/main/r-cran-soilphysics_5.0-1.ca2004.1_all.deb Size: 1537712 MD5sum: c1364af49847ae15bee8b49c6dc10ecc SHA1: 2f4720df87bae4a417c5dc65bea93ee7124c61c5 SHA256: 3398400950f5a7838499bda9e1c3f01379a7d1b905f554acab986ca191ec5a7e SHA512: 06bbdb930dc3b5b7bc58c5cf0538ea7a2f35907f1d1c1405efd930d1f301c6e2e89d0a6b07221a1320a2954238df4a73564aa43b3af95b9c2f3d667e2cb6a828 Homepage: https://cran.r-project.org/package=soilphysics Description: CRAN Package 'soilphysics' (Soil Physical Analysis) Basic and model-based soil physical analyses. Package: r-cran-soilr Architecture: all Version: 1.2.107-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3714 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-desolve, r-cran-igraph, r-cran-assertthat, r-cran-expm, r-cran-sets, r-cran-purrr Suggests: r-cran-fme, r-cran-lattice, r-cran-mass, r-cran-knitr, r-cran-rmarkdown, r-cran-getopt, r-cran-tinytex Filename: pool/dists/focal/main/r-cran-soilr_1.2.107-1.ca2004.1_all.deb Size: 1976884 MD5sum: 549697882de3f03e2e8efc9aa41f8764 SHA1: 50ffd73b861c42335373479a7cd3184fd964b9a4 SHA256: 0aa80b78911fa9a629a94c8a3c2c9b55d791cdda022dd8c91d73cbb205ee05e4 SHA512: 15ec0340df4976dfbc7e76f8c5b08cb7853ccf0cbb5088fd49a9dc7607c8c02aae4cf8ac6c2fa6850d3679852b2e0bb4f54eef3cd089fdd65e9db3e23689f248 Homepage: https://cran.r-project.org/package=SoilR Description: CRAN Package 'SoilR' (Models of Soil Organic Matter Decomposition) Functions for modeling Soil Organic Matter decomposition in terrestrial ecosystems with linear and nonlinear systems of differential equations. The package implements models according to the compartmental system representation described in Sierra and others (2012) and Sierra and others (2014) . Package: r-cran-soilsaltindex Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4777 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-raster, r-cran-sp Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-soilsaltindex_0.1.0-1.ca2004.1_all.deb Size: 4340304 MD5sum: 0ba0c0ceeb1f13105dc7a7657dece94d SHA1: 4c0e82a1ed6c6b008784c881b035ae05c1f0c5d9 SHA256: 0dbea6b79770f9120e3bdda328581400c687dfbde5b23366443522eb3d286dc2 SHA512: e1f35e75d7f030f2e4e9a2c5142f1203b1b05a4c407d01e0323a3d131386b6c878ceb4dfc1f797b81d9279eb82914662583607cce2e3fc4d38b618198afc363f Homepage: https://cran.r-project.org/package=SoilSaltIndex Description: CRAN Package 'SoilSaltIndex' (Soil Salinity Indices Generation using Satellite Data) The developed function generates soil salinity indices using satellite data, utilizing multiple spectral bands such as Blue, Green, Red, Near-Infrared (NIR), and Shortwave Infrared (SWIR1, SWIR2). It computes 24 different salinity indices crucial for monitoring and analyzing salt-affected soils efficiently. For more details see, Rani, et al. (2022). . One of the key features of the developed function is its flexibility. Users can provide any combination of the required spectral bands, and the function will automatically calculate only the relevant indices based on the available data. This dynamic capability ensures that users can maximize the utility of their data without the need for all spectral bands, making the package versatile and user-friendly. Outputs are provided as GeoTIFF file format, facilitating easy integration with GIS workflows. Package: r-cran-soiltaxonomy Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 580 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringr, r-cran-data.table Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-markdown, r-cran-soildb, r-cran-ape, r-cran-data.tree Filename: pool/dists/focal/main/r-cran-soiltaxonomy_0.2.7-1.ca2004.1_all.deb Size: 408800 MD5sum: d1e944a30ddb85c77efecc3aae6c96f0 SHA1: 12a6d16701ccffe2a79d826a6a8e2d89423632d8 SHA256: bbf6855a3d079f0b5da17c4882edcccd92a33d0b5863e4a551105e00e08dfef1 SHA512: cd9177677b02f9c6896a8e79b101f72267fe5c8939ef6b7eacb8d91328f15d6b31411f179eea336d0ca9ed1ef93636b862bd59300b3ad37894e1dbc47835ffde Homepage: https://cran.r-project.org/package=SoilTaxonomy Description: CRAN Package 'SoilTaxonomy' (A System of Soil Classification for Making and Interpreting SoilSurveys) Taxonomic dictionaries, formative element lists, and functions related to the maintenance, development and application of U.S. Soil Taxonomy. Data and functionality are based on official U.S. Department of Agriculture sources including the latest edition of the Keys to Soil Taxonomy. Descriptions and metadata are obtained from the National Soil Information System or Soil Survey Geographic databases. Other sources are referenced in the data documentation. Provides tools for understanding and interacting with concepts in the U.S. Soil Taxonomic System. Most of the current utilities are for working with taxonomic concepts at the "higher" taxonomic levels: Order, Suborder, Great Group, and Subgroup. Package: r-cran-soiltestcorr Architecture: all Version: 2.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3018 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-tidyr, r-cran-purrr, r-cran-data.table, r-cran-ggplot2, r-cran-ggpp, r-cran-nlstools, r-cran-minpack.lm, r-cran-modelr, r-cran-nlraa, r-cran-aiccmodavg, r-cran-smatr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-soiltestcorr_2.2.1-1.ca2004.1_all.deb Size: 1502800 MD5sum: 11e40610ca8ab2864d2b263da8e77612 SHA1: f78d5eb62cecc378fdda2a5f423dd7e595c4b61b SHA256: 2a06a48ddc36ff249370876b49ec23a6d60732c5f8f1057fd1627a05222a594d SHA512: 026d91758c91c378a3b6f954c935e5e5442a8fe638827e23a73705f865078274511b7608ec1b20514adcec66520830a50b4cde65cb577c4da84e91869b47208e Homepage: https://cran.r-project.org/package=soiltestcorr Description: CRAN Package 'soiltestcorr' (Soil Test Correlation and Calibration) A compilation of functions designed to assist users on the correlation analysis of crop yield and soil test values. Functions to estimate crop response patterns to soil nutrient availability and critical soil test values using various approaches such as: 1) the modified arcsine-log calibration curve (Correndo et al. (2017) ); 2) the graphical Cate-Nelson quadrants analysis (Cate & Nelson (1965)), 3) the statistical Cate-Nelson quadrants analysis (Cate & Nelson (1971) ), 4) the linear-plateau regression (Anderson & Nelson (1975) ), 5) the quadratic-plateau regression (Bullock & Bullock (1994) ), and 6) the Mitscherlich-type exponential regression (Melsted & Peck (1977) ). The package development stemmed from ongoing work with the Fertilizer Recommendation Support Tool (FRST) and Feed the Future Innovation Lab for Collaborative Research on Sustainable Intensification (SIIL) projects. Package: r-cran-soiltesting Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-soiltesting_0.1.0-1.ca2004.1_all.deb Size: 47564 MD5sum: 7dcd2a3648b8219d1a8c802f321f9ca8 SHA1: fe7aea6ae42a9f5c7a568e9c22d0a12309a651ba SHA256: aab86b26e31977e72720549aea6c47739f5ae5933d3ee64dde55191616ad1590 SHA512: 4de6aadd60e3b89a26f35d4f8669e4bc04dc55e05fdfdad6f7a146c01d03b68bc43a044ce4e6c2e4d5d33849b87c1cfb1d179026624c9532962caffc87af5969 Homepage: https://cran.r-project.org/package=SoilTesting Description: CRAN Package 'SoilTesting' (Organic Carbon and Plant Available Nutrient Contents in Soil) Testing of soil for the contents of organic carbon, and available macro- and micro-nutrients is a crucial part of soil fertility assessment. This package computes some routinely tested soil properties viz. organic carbon (C), total nitrogen (N), available N, mineral N, available phosphorus (P), available potassium (K), available iron (Fe), available zinc (Zn), available manganese (Mn), available copper (Cu), and available nickel (Ni) in soil based on laboratory analysis data obtained by most commonly followed protocols. Besides, it can also draw standard curves based on absorption/emission vs. concentration data, and give out unknown concentrations from absorption/emission readings. Package: r-cran-soiltexture Architecture: all Version: 1.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 972 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sp, r-cran-mass Suggests: r-cran-xtable Filename: pool/dists/focal/main/r-cran-soiltexture_1.5.3-1.ca2004.1_all.deb Size: 762676 MD5sum: 418cd32cc1fa73da5671aee99eb529e6 SHA1: bfffc48e9b3b14efe6df2b79cec654ba47c8b3a3 SHA256: 89aabccad736f1d1d388e9efa6f6a7a26071aa7e8979c7165ea2f364cfb96d8d SHA512: 18144bc00913b99c827ae4f63b21df69316532ef88239edff475a80439b9e66d8709f715ba36f467f7324ba15a319cfec687af7002c97bf7b3f6106e4990b548 Homepage: https://cran.r-project.org/package=soiltexture Description: CRAN Package 'soiltexture' (Functions for Soil Texture Plot, Classification andTransformation) "The Soil Texture Wizard" is a set of R functions designed to produce texture triangles (also called texture plots, texture diagrams, texture ternary plots), classify and transform soil textures data. These functions virtually allows to plot any soil texture triangle (classification) into any triangle geometry (isosceles, right-angled triangles, etc.). This set of function is expected to be useful to people using soil textures data from different soil texture classification or different particle size systems. Many (> 15) texture triangles from all around the world are predefined in the package. A simple text based graphical user interface is provided: soiltexture_gui(). Package: r-cran-soilwater Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-raster Filename: pool/dists/focal/main/r-cran-soilwater_1.0.5-1.ca2004.1_all.deb Size: 35088 MD5sum: b59b228b6dff67ff3cfa8901f881d3bd SHA1: d203dad4e705e6694b85bed9e726214fd03d26ce SHA256: fbc5ba84e8ed503c4d47097ad868334ff44b72806c633f452e764814942646f6 SHA512: ad2847344423a76ab2440aee5a14566073c7f605946125edac46304be4dbaf3bddc789018a63605034f186d82dc7a6688950e5f86c57249f9c7f5eca02c612b9 Homepage: https://cran.r-project.org/package=soilwater Description: CRAN Package 'soilwater' (Implementation of Parametric Formulas for Soil Water Retentionor Conductivity Curve) It implements parametric formulas of soil water retention or conductivity curve. At the moment, only Van Genuchten (for soil water retention curve) and Mualem (for hydraulic conductivity) were implemented. See reference (). Package: r-cran-sojourn.data Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-nnet Filename: pool/dists/focal/main/r-cran-sojourn.data_0.3.0-1.ca2004.1_all.deb Size: 45936 MD5sum: d0ea7e833f8242dec69bb16d53604130 SHA1: 6bd1756f96d77847c043dbe956e7071de67adb7c SHA256: 068610ce4e5404ea5c6fd6198cd3436b1ec36df4fcf9949aeb28a44cd115821c SHA512: d7861161a9db48e9998d1aa9e9b51b05858743b47bb9edada48d6b6cd772fb31d910b38f43b7e99814cfcfbbff6f6a50ef247305086e41b0e8ebc07ca600e303 Homepage: https://cran.r-project.org/package=Sojourn.Data Description: CRAN Package 'Sojourn.Data' (Supporting Objects for Sojourn Accelerometer Methods) Stores objects (e.g. neural networks) that are needed for using Sojourn accelerometer methods. 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Package: r-cran-sokoban Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sokoban_0.1.0-1.ca2004.1_all.deb Size: 31512 MD5sum: 9cd209f956f779840f079482f06f1c90 SHA1: 4011c5c1a4b3734d3569c7de1cf260b8b119d772 SHA256: 715ad9be74f5c40bd38cc23e85f4d87dbefeb62b2627c4715685c57f77edec2f SHA512: c711f0ccbc86cd1414b0797003dd3070458c137d16d6accc66ba08cc46d700629b9bce7d44378e7092573fa21a6901b6271712df75c0a760d27256ff38112f1c Homepage: https://cran.r-project.org/package=sokoban Description: CRAN Package 'sokoban' (Sokoban Game) Interactively play a game of sokoban ,which has nine game levels.Sokoban is a type of transport puzzle, in which the player pushes boxes or crates around in a warehouse, trying to get them to storage locations. Package: r-cran-solar2 Architecture: all Version: 0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 855 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lattice, r-cran-data.table, r-cran-latticeextra, r-cran-rcolorbrewer, r-cran-httr2 Suggests: r-cran-zoo, r-cran-sp, r-cran-raster, r-cran-rastervis, r-cran-tdr, r-cran-meteoforecast, r-cran-jsonlite, r-cran-testthat Filename: pool/dists/focal/main/r-cran-solar2_0.11-1.ca2004.1_all.deb Size: 722972 MD5sum: 2103ba8d6ea7808693ae17025a665f93 SHA1: 3aeda3ff8c1250a428786c310256acd32c318a14 SHA256: 5455fe9ae7905312701d771c78e054a217e52393ca8db0519963c0891c53aff4 SHA512: e324aef1060ef5dd0182c932c909557aaa3b4296a6d13cf6ede9c224d9ac32fda59591092e394885ee83ad775ffee2d04f0b8746bd58e5ba213faf4f26b1abea Homepage: https://cran.r-project.org/package=solaR2 Description: CRAN Package 'solaR2' (Radiation and Photovoltaic Systems) Provides tools for calculating solar geometry, solar radiation on horizontal and inclined planes, and simulating the performance of various photovoltaic (PV) systems. 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The functions calculate solar top-of-atmosphere, open, diffuse and direct components, atmospheric transmittance and diffuse factors, day length, sunrise and sunset, solar azimuth, zenith, altitude, incidence, and hour angles, earth declination angle, equation of time, and solar constant. Details about the methods and equations are explained in Seyednasrollah, Bijan, Mukesh Kumar, and Timothy E. Link. 'On the role of vegetation density on net snow cover radiation at the forest floor.' Journal of Geophysical Research: Atmospheres 118.15 (2013): 8359-8374, . 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SolveBio is a biomedical knowledge hub that enables life science organizations to collect and harmonize the complex, disparate "multi-omic" data essential for today's R&D and BI needs. 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Reference: Benner, P., Faßbender, H. On the Solution of the Rational Matrix Equation. Benner, Faßbender (2007) . Package: r-cran-solvesaphe Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-solvesaphe_2.1.0-1.ca2004.1_all.deb Size: 128172 MD5sum: 6484530f0acbcc6543a2c3f2fdbff94e SHA1: 5b364ea2ecd688b99a37e6b9eb39498d9eb27ca9 SHA256: 2d90c8c9887199b6cc6c98fcde15e34f7a3c283d193800bf5d4b0dfd177e4e78 SHA512: 374e156c5c8301080bcc8bc82c0c29c75d02a537e6ab5d3ab1ee3cf6cadddf2eb9f7d8ae265a4ab3c2fa3f234bb1fda6c8840cb017e9c11b315745a3fa8f129d Homepage: https://cran.r-project.org/package=SolveSAPHE Description: CRAN Package 'SolveSAPHE' (Solver Suite for Alkalinity-PH Equations) Universal and robust algorithm for solving the total alkalinity-pH equation presented in G. Munhoven (2013) and G. Munhoven (2021) . The total alkalinity-pH equation relates total alkalinity and pH for a given set of acid-base concentrations in a given water sample, among which carbonic acid. This package is particularly useful in marine chemistry involving dissolved inorganic carbon. Original package in Fortran can be found at . 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Samples of unknown class are predicted by mapping them on the SOM and analysing class membership of neurons in the neighbourhood. 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Different versions of the algorithm are implemented, for numeric and relational data and for contingency tables as described, respectively, in Kohonen (2001) , Olteanu & Villa-Vialaneix (2005) and Cottrell et al (2004) . The package also contains many plotting features (to help the user interpret the results), can handle (and impute) missing values and is delivered with a graphical user interface based on 'shiny'. 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By means of the graphical user interface it provides a comfortable way to elaborate by self-organizing map algorithm rather big datasets (txt files up to 100 MB ) obtained by environmental high-frequency monitoring by sensors/instruments. The functions present in the package are based on 'kohonen' and 'openair' packages implemented by functions embedding Vesanto et al. (2001) heuristic rules for map initialization parameters, k-means clustering algorithm and map features visualization. Cluster profiles visualization as well as graphs dedicated to the visualization of time-dependent variables Licen et al. (2020) are provided. Package: r-cran-somhca Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-kohonen, r-cran-awesom, r-cran-maptree, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-somhca_0.2.0-1.ca2004.1_all.deb Size: 41636 MD5sum: 3e8afb353e4c62d02e4959c0cb46bf5f SHA1: 73e4e8fe89f71e501ac41c10c257581e7d0b8d1f SHA256: 5ff34c17d18fc9f1c095bf476e73c1b15915f6667a19f359e7c00923deaed26d SHA512: 55cebcac7373b9b1ec547d0c052ffd74177ee01424d28b06a7318102a92b407d8ac4423dacfbf1ba5f525c9cde76833c1eb6fb4bde7a8b010140c82b5d797ab6 Homepage: https://cran.r-project.org/package=somhca Description: CRAN Package 'somhca' (Self-Organising Maps Coupled with Hierarchical Cluster Analysis) Implements self-organising maps combined with hierarchical cluster analysis (SOM-HCA) for clustering and visualization of high-dimensional data. The package includes functions to estimate the optimal map size based on various quality measures and to generate a model using the selected dimensions. It also performs hierarchical clustering on the map nodes to group similar units. Documentation about the SOM-HCA method is provided in Pastorelli et al. (2024) . Package: r-cran-somnmr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3660 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-pracma, r-cran-minpack.lm, r-cran-quadprog, r-cran-intervalsurgeon, r-cran-dplyr, r-cran-ggplot2, r-cran-rlang Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-somnmr_0.3.0-1.ca2004.1_all.deb Size: 3633100 MD5sum: 319585f17452a2ff37aafe5925ab0edc SHA1: 5535c718740ec2cbc57c29b522fcbfb305e15caf SHA256: 37389578db28f9d893292a4f8c429ab7ed8a41045d56e4bba0fb8493558dd4e2 SHA512: 5b2ce3d7506f98b80f608cb7d037ee3f44530dee8381a40ea525a6b3afa197f8525caab1b3d37c3d747c63e064de3523946176b24a33f5b7f757a06e18b65fc8 Homepage: https://cran.r-project.org/package=SOMnmR Description: CRAN Package 'SOMnmR' (Analysis of Soil Organic Matter using Nuclear Magnetic Resonance) Integrates the 13C nuclear magnetic resonance spectra using different integration ranges. Output depends on the method chosen. For the Molecular Mixing Model, a measurement of the fitting quality is given by its R-factor. For more details see: . 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Package: r-cran-somspace Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3943 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-data.table, r-cran-kohonen, r-cran-maps, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-somspace_1.2.4-1.ca2004.1_all.deb Size: 3476404 MD5sum: 973ff15bdd482544af117c11cb663513 SHA1: fb6326489beb11f7d3314e4f73043a072f6d99c6 SHA256: b728ddcf4db6e6b826f5eb81e98d7e7f461759a4ed905e101e28f9db9f23e636 SHA512: 625284d0568f0d9b584d81aaa55708d5b7827ca545f5a598f7829a37830c3fbce323a478487fbe90b2c4e2ce54d3ba1617788a49f2e5501cb3bf3620d0d1c5d8 Homepage: https://cran.r-project.org/package=somspace Description: CRAN Package 'somspace' (Spatial Analysis with Self-Organizing Maps) Application of the Self-Organizing Maps technique for spatial classification of time series. The package uses spatial data, point or gridded, to create clusters with similar characteristics. The clusters can be further refined to a smaller number of regions by hierarchical clustering and their spatial dependencies can be presented as complex networks. Thus, meaningful maps can be created, representing the regional heterogeneity of a single variable. More information and an example of implementation can be found in Markonis and Strnad (2020, ). 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Package: r-cran-soniclength Architecture: all Version: 1.4.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 451 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-soniclength_1.4.7-1.ca2004.1_all.deb Size: 387252 MD5sum: f6e20eb3cfb943d54e6fde2c8c9b95b5 SHA1: f9f8b3b1506fa9560a3be6ecc631c4848f3edd9c SHA256: 8e4f61e5bd735795bcad308a41b040b36d1f58ab4f40d47ed32dcfd1993d8605 SHA512: 53198bab315d458c1f35e6dfbe0f85ab338dec6fe89e3e031e925d832c1da0b778c2a4aead14e9a724e73a98d8c101ad8d35f511f74c34a6d95aaa3cbb71fb47 Homepage: https://cran.r-project.org/package=sonicLength Description: CRAN Package 'sonicLength' (Estimating Abundance of Clones from DNA Fragmentation Data) Estimate the abundance of cell clones from the distribution of lengths of DNA fragments (as created by sonication, whence `sonicLength'). The algorithm in "Estimating abundances of retroviral insertion sites from DNA fragment length data" by Berry CC, Gillet NA, Melamed A, Gormley N, Bangham CR, Bushman FD. Bioinformatics; 2012 Mar 15;28(6):755-62 is implemented. The experimental setting and estimation details are described in detail there. Briefly, integration of new DNA in a host genome (due to retroviral infection or gene therapy) can be tracked using DNA sequencing, potentially allowing characterization of the abundance of individual cell clones bearing distinct integration sites. The locations of integration sites can be determined by fragmenting the host DNA (via sonication or fragmentase), breaking the newly integrated DNA at a known sequence, amplifying the fragments containing both host and integrated DNA, sequencing those amplicons, then mapping the host sequences to positions on the reference genome. The relative number of fragments containing a given position in the host genome estimates the relative abundance of cells hosting the corresponding integration site, but that number is not available and the count of amplicons per fragment varies widely. However, the expected number of distinct fragment lengths is a function of the abundance of cells hosting an integration site at a given position and a certain nuisance parameter. The algorithm implicitly estimates that function to estimate the relative abundance. Package: r-cran-sonicscrewdriver Architecture: all Version: 0.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2713 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-hms, r-cran-jsonlite, r-cran-mime, r-cran-rdpack, r-cran-seewave, r-cran-stringi, r-cran-suncalc, r-cran-tuner Suggests: r-cran-av, r-cran-covr, r-cran-devtools, r-cran-googlecloudstorager, r-cran-googlelanguager, r-cran-knitr, r-cran-pbapply, r-cran-plotrix, r-cran-reticulate, r-cran-rmarkdown, r-cran-soundecology, r-cran-spelling, r-cran-testthat, r-cran-waveletcomp Filename: pool/dists/focal/main/r-cran-sonicscrewdriver_0.0.7-1.ca2004.1_all.deb Size: 1913036 MD5sum: a63db44705b10acc1be5900b236052d0 SHA1: f3b67cc92327467aded1f2a090d3743362e5b4fe SHA256: 683c280efd6f4f7c6a2164234aa21db37c70d407aa19352fe014c34b1cf7e0e8 SHA512: 89551e81a701d04e0ffb2c5a43041390947a1eb2834bf292a956fc417aaa0177e64c76b04b94e639a0043f6d19ca7078771ef1daca5d3bb90fe187207379fab9 Homepage: https://cran.r-project.org/package=sonicscrewdriver Description: CRAN Package 'sonicscrewdriver' (Bioacoustic Analysis and Publication Tools) Provides tools for manipulating sound files for bioacoustic analysis, and preparing analyses these for publication. The package validates that values are physically possible wherever feasible. Package: r-cran-sonify Architecture: all Version: 0.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tune Filename: pool/dists/focal/main/r-cran-sonify_0.0-1-1.ca2004.1_all.deb Size: 20112 MD5sum: c767f5573418b954ee3bc210bd19e829 SHA1: 7a468e1a9c4e43f9c11b03917a52be3b6cd03585 SHA256: 6475ff0d68abd7becb157b5fd25ca1a214d3860f31267b5172b4d4172e04509f SHA512: 1e2caa711699e3d77f71d02a3f83f3c9be3a12025c344c5bbdaf73ed68e1f742c67bb3fe6fb8ff7233ef2498351e6e89335f7516a9ae3bf1e6565cfdf58d1357 Homepage: https://cran.r-project.org/package=sonify Description: CRAN Package 'sonify' (Data Sonification - Turning Data into Sound) Sonification (or audification) is the process of representing data by sounds in the audible range. 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Package: r-cran-sotkanet Architecture: all Version: 0.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 224 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-lubridate, r-cran-refmanager, r-cran-digest, r-cran-frictionless, r-cran-httr2, r-cran-magrittr Suggests: r-cran-remotes, r-cran-ggplot2, r-cran-knitr, r-cran-testthat, r-cran-roxygen2, r-cran-markdown, r-cran-kableextra, r-cran-rmarkdown, r-cran-covr, r-cran-ggrepel Filename: pool/dists/focal/main/r-cran-sotkanet_0.10.1-1.ca2004.1_all.deb Size: 147956 MD5sum: 3e5f058230dd656421902756b1ed88ff SHA1: 576c4a8b726d4876ed4dca5416f58adf1db8b947 SHA256: 13e6193d806445b12cc367f5ff39353f2c3df445e8755b74edf34a52bb7de83b SHA512: f20bd0537b3527ab22589fa378e1fcc19f5903317d5838b0f80e422e71e2dd9cd7f565202f59c70b2a66b7580e8df722d5fdc32430226bf4774058dbb1f53864 Homepage: https://cran.r-project.org/package=sotkanet Description: CRAN Package 'sotkanet' (Sotkanet Open Data Access and Analysis) Access statistical information on welfare and health in Finland from the Sotkanet open data portal . Package: r-cran-sotu Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3962 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sotu_1.0.4-1.ca2004.1_all.deb Size: 4021864 MD5sum: 9d461aac6ba0d90b62ba2e80131ac908 SHA1: 098431086cfdae17150cbf958b2e3a1fcf036e72 SHA256: 958c6f96388dfa26d69556a368d3ab769db921f72e05c1fe916028bd98d20181 SHA512: 9d1e471d57ae908d989d72d3371b991850aa32c543c5f1c453a809668ca2fcd069fca8e6af3d5181d998afc5c9cd7d595e28d00492b712091e6e3d9dfa18eef2 Homepage: https://cran.r-project.org/package=sotu Description: CRAN Package 'sotu' (United States Presidential State of the Union Addresses) The President of the United States is constitutionally obligated to provide a report known as the 'State of the Union'. The report summarizes the current challenges facing the country and the president's upcoming legislative agenda. While historically the State of the Union was often a written document, in recent decades it has always taken the form of an oral address to a joint session of the United States Congress. This package provides the raw text from every such address with the intention of being used for meaningful examples of text analysis in R. The corpus is well suited to the task as it is historically important, includes material intended to be read and material intended to be spoken, and it falls in the public domain. As the corpus spans over two centuries it is also a good test of how well various methods hold up to the idiosyncrasies of historical texts. Associated data about each address, such as the year, president, party, and format, are also included. Package: r-cran-sound Architecture: all Version: 1.4.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sound_1.4.6-1.ca2004.1_all.deb Size: 147600 MD5sum: efa1b6bd6d27087270a18d58a0b312ea SHA1: 59f426d8f2e9a933ec43f13b5e0d4b10ff1dc7dd SHA256: 4c279c71cf24a1853353d84e67fb3dd5a0f1f9b9adbf444751d9ce7a4c201eee SHA512: cb69f591e10c773f3ae84a4b8b33573cda25411b2b64be9f0dda6164ee508118e1038bb0cbf7806ae194a736179ef3931f31c4a68b51afa1061f330dfd791690 Homepage: https://cran.r-project.org/package=sound Description: CRAN Package 'sound' (A Sound Interface for R) Basic functions for dealing with wav files and sound samples. Package: r-cran-soundclass Architecture: all Version: 0.0.9.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 197 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-shinybs, r-cran-htmltools, r-cran-seewave, r-cran-dbi, r-cran-dplyr, r-cran-dbplyr, r-cran-rsqlite, r-cran-signal, r-cran-tuner, r-cran-zoo, r-cran-magrittr, r-cran-shinyfiles, r-cran-shiny, r-cran-generics, r-cran-keras, r-cran-shinyjs Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-soundclass_0.0.9.2-1.ca2004.1_all.deb Size: 133196 MD5sum: 5c39bc3c11d65acba5e8d585731c636e SHA1: 83be52dbda84937c6f4c0366cd06d77a5fe919d7 SHA256: 1350ca2c581a34d05a2a81555e23e46217eee560afcd220c9e4fc110381a7637 SHA512: 19cfc571e323c59b123f30f72d3008f45ea422476a779c6590eed7cbe3d6309ca7c7d6afb1db0ee1734bcc6722529fbb5901f485f00f0f004d2704b2369bf066 Homepage: https://cran.r-project.org/package=soundClass Description: CRAN Package 'soundClass' (Sound Classification Using Convolutional Neural Networks) Provides an all-in-one solution for automatic classification of sound events using convolutional neural networks (CNN). The main purpose is to provide a sound classification workflow, from annotating sound events in recordings to training and automating model usage in real-life situations. Using the package requires a pre-compiled collection of recordings with sound events of interest and it can be employed for: 1) Annotation: create a database of annotated recordings, 2) Training: prepare train data from annotated recordings and fit CNN models, 3) Classification: automate the use of the fitted model for classifying new recordings. By using automatic feature selection and a user-friendly GUI for managing data and training/deploying models, this package is intended to be used by a broad audience as it does not require specific expertise in statistics, programming or sound analysis. Please refer to the vignette for further information. Gibb, R., et al. (2019) Mac Aodha, O., et al. (2018) Stowell, D., et al. (2019) LeCun, Y., et al. (2012) . Package: r-cran-soundcorrs Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1569 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-shiny, r-cran-shinyjqui Filename: pool/dists/focal/main/r-cran-soundcorrs_0.4.0-1.ca2004.1_all.deb Size: 624272 MD5sum: d5188dc63a9afe43ad24ace158fc00ce SHA1: 8b1f454efc6ceeb0165541b3b207f5bbd4ce6476 SHA256: 38bb4b3bcd6e923df835b0b528ff978d4256f88f5f4a5e94bb58c33f9a43da86 SHA512: 8d98b33a2f605d0c889ec9574b8ff5b40577583b5d7d49a3c684251f3e59b50c68b5dde6c9f5807979397eec25086c0bf6d1d36caba05da899ec5e576f6018b1 Homepage: https://cran.r-project.org/package=soundcorrs Description: CRAN Package 'soundcorrs' (Semi-Automatic Analysis of Sound Correspondences) A set of tools that can be used in computer-aided analysis of sound correspondences between languages, plus several helper functions. Analytic functions range from purely qualitative analysis, through statistic methods yielding qualitative results, to an entirely quantitative approach. Package: r-cran-soundecology Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 892 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-oce, r-cran-ineq, r-cran-vegan, r-cran-tuner, r-cran-seewave Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-soundecology_1.3.3-1.ca2004.1_all.deb Size: 824836 MD5sum: 2a3442b11d1f15d6ee9d3525eef2b983 SHA1: 6f7bf50575ea340cef850d8d5099b7dec9208491 SHA256: 840a896dccc2f1098ef9b03a7bd6c1af0d4736fadb6ba2724fa8ed5bde3a80d3 SHA512: b3d88b9bea46d10068dbe30c97c9c4e593ba451ff13848078500440a8b9de590f985c7d0db6fc5bf3ca58d3d0e710ed7176e87ae870b23ebb21b8e862b7c0b76 Homepage: https://cran.r-project.org/package=soundecology Description: CRAN Package 'soundecology' (Soundscape Ecology) Functions to calculate indices for soundscape ecology and other ecology research that uses audio recordings. Package: r-cran-soundgen Architecture: all Version: 2.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2501 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shinybs, r-cran-tuner, r-cran-seewave, r-cran-zoo, r-cran-mvtnorm, r-cran-dtw, r-cran-phontools, r-cran-signal, r-cran-shiny, r-cran-shinyjs, r-cran-foreach, r-cran-doparallel, r-cran-nonlineartseries, r-cran-data.table Filename: pool/dists/focal/main/r-cran-soundgen_2.7.2-1.ca2004.1_all.deb Size: 1920132 MD5sum: 91bd03a24c21756fd036ab277d02ab08 SHA1: a1eda3821a4541978edc26501ac2e7c6761ba128 SHA256: bf63ce730c7b3ca22c2ab168f3801756c8f22722a7582ba441687ece03470afb SHA512: 9ed8419ed595e544dd4eb952dd8e3fe760d59f22afa90b6cf0ef9274d21c67a8603d2879d3be4e8b0a9a1dd0e2e21c1912f50966098d301f8838486928aa2386 Homepage: https://cran.r-project.org/package=soundgen Description: CRAN Package 'soundgen' (Sound Synthesis and Acoustic Analysis) Performs parametric synthesis of sounds with harmonic and noise components such as animal vocalizations or human voice. Also offers tools for audio manipulation and acoustic analysis, including pitch tracking, spectral analysis, audio segmentation, pitch and formant shifting, etc. Includes four interactive web apps for synthesizing and annotating audio, manually correcting pitch contours, and measuring formant frequencies. Reference: Anikin (2019) . Package: r-cran-soundshape Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1241 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-abind, r-cran-geomorph, r-cran-plot3d, r-cran-reshape2, r-cran-seewave, r-cran-tuner, r-cran-stringr Suggests: r-cran-vegan, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-soundshape_1.3.2-1.ca2004.1_all.deb Size: 1037324 MD5sum: 923b470055f040768025923a6bad4fa1 SHA1: 7207cf140be03ad7b1647d490a1102a43e5277ef SHA256: 26005e4e45df87636d8272e4e3e66c43a0c60fbe03ddcc2a64fbfa99a28ded7c SHA512: bd4b7fc53ed242eab6a4d64391108ba1ec070a7dad46f1b876792357107d2076c009c8a8b51bb70df7143670b6f2c34a2c71fa39d0bda6de70b6b1c7bfa69d69 Homepage: https://cran.r-project.org/package=SoundShape Description: CRAN Package 'SoundShape' (Sound Waves Onto Morphometric Data) Implement a promising, and yet little explored protocol for bioacoustical analysis, the eigensound method by MacLeod, Krieger and Jones (2013) . Eigensound is a multidisciplinary method focused on the direct comparison between stereotyped sounds from different species. 'SoundShape', in turn, provide the tools required for anyone to go from sound waves to Principal Components Analysis, using tools extracted from traditional bioacoustics (i.e. 'tuneR' and 'seewave' packages), geometric morphometrics (i.e. 'geomorph' package) and multivariate analysis (e.g. 'stats' package). For more information, please see Rocha and Romano (2021) and check 'SoundShape' repository on GitHub for news and updates . 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It can be used with both balanced and unbalanced experiments (with almost all test statistics) as well as in presence of either continuous covariates or a stratifying (categorical) variable. Package: r-cran-soupx Architecture: all Version: 1.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5825 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-cran-matrix, r-cran-seurat Suggests: r-cran-knitr, r-cran-rstan, r-bioc-dropletutils, r-cran-rmarkdown, r-cran-formatr Filename: pool/dists/focal/main/r-cran-soupx_1.6.2-1.ca2004.1_all.deb Size: 5060604 MD5sum: e23fc6b9aa59e738b332e3673623ae3b SHA1: f5235ccd075de08585baee6b1d6a313f0e70a5d1 SHA256: af0bb21dad43c3c8633274b741c902d55a728f793690598db82b7c246949bb88 SHA512: 9433e404170ff08e134b2628c9e2f6db8a9440e4a81af4ffb19ffa84bb3af7563da3104e2b8fa605a9a24d195ff3216520c5ed04cfca5838d1b41207b81b693c Homepage: https://cran.r-project.org/package=SoupX Description: CRAN Package 'SoupX' (Single Cell mRNA Soup eXterminator) Quantify, profile and remove ambient mRNA contamination (the "soup") from droplet based single cell RNA-seq experiments. Implements the method described in Young et al. (2018) . Package: r-cran-sourceset Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2221 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-grbase, r-cran-progress, r-cran-reshape2, r-bioc-graph, r-cran-igraph, r-cran-gtools, r-cran-plyr, r-cran-scales Suggests: r-bioc-annotationdbi, r-cran-networkd3, r-cran-ggplot2, r-bioc-rgraphviz, r-cran-knitr, r-cran-rmarkdown, r-bioc-biocstyle, r-bioc-biobase, r-bioc-graphite, r-bioc-hgu95av2.db, r-bioc-all, r-cran-mvtnorm, r-bioc-org.hs.eg.db Filename: pool/dists/focal/main/r-cran-sourceset_0.1.5-1.ca2004.1_all.deb Size: 1289744 MD5sum: b2a846268246d42f77df5846f8bdd150 SHA1: f4b6413ee9c35de8d5ecf2ea48e77eeb9c58226d SHA256: cd05be319aa08eb2fff176cd04a73022ab28505c9323bed90173bf083ec2f936 SHA512: 40902d8e8dabfd23005e6e8c50f7ef65e6551451cb771ebd4f401ea54f90df08245a4df5a053d37a1799b77d674d065e39c86ed78ffda61c3408b4f266341542 Homepage: https://cran.r-project.org/package=SourceSet Description: CRAN Package 'SourceSet' (A Graphical Model Approach to Identify Primary Genes inPerturbed Biological Pathways) The algorithm pursues the identification of the set of variables driving the differences in two different experimental conditions (i.e., the primary genes) within a graphical model context. It uses the idea of simultaneously looking for the differences between two multivariate normal distributions in all marginal and conditional distributions associated with a decomposable graph, which represents the pathway under exam. The implementation accommodates genomics specific issues (low sample size and multiple testing issues) and provides a number of functions offering numerical and visual summaries to help the user interpret the obtained results. In order to use the (optional) 'Cytoscape' functionalities, the suggested 'r2cytoscape' package must be installed from the 'GitHub' repository ('devtools::install_github('cytoscape/r2cytoscape')'). More details in Salviato et al., (2020) and Djordjilovic et al., (2022) . Package: r-cran-sourcoise Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 252 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-fs, r-cran-qs2, r-cran-cli, r-cran-purrr, r-cran-digest, r-cran-dplyr, r-cran-lubridate, r-cran-tibble, r-cran-jsonlite, r-cran-lobstr, r-cran-stringr, r-cran-glue, r-cran-rprojroot, r-cran-rlang, r-cran-scales, r-cran-logger Suggests: r-cran-knitr, r-cran-insee, r-cran-memoise, r-cran-quarto, r-cran-bench, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sourcoise_0.6.2-1.ca2004.1_all.deb Size: 150352 MD5sum: 7342101a7ee855cb26cf08b58da6cdae SHA1: 0fad34700ab1b2bf4f21983e978cdcb70f57c263 SHA256: a496c4662f3e39a7ba67509a84ed3871407f91e471e454444174880454b4496e SHA512: 1b800acf100412d96288c8fc3171158a249b510d6d1e573a4359c5963071f784e2e613cc17084a83cd71c144615520ba8ef85babf832eabcad61853a96d66bc6 Homepage: https://cran.r-project.org/package=sourcoise Description: CRAN Package 'sourcoise' (Source a Script and Cache) Provides a function that behaves nearly as base::source() but implements a caching mechanism on disk, project based. It allows to quasi source() R scripts that gather data but can fail or consume to much time to respond even if nothing new is expected. It comes with tools to check and execute on demand or when cache is invalid the script. 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Package: r-cran-spades.core Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6747 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-quickplot, r-cran-reproducible, r-cran-cli, r-cran-data.table, r-cran-fs, r-cran-igraph, r-cran-lobstr, r-cran-qs, r-cran-require, r-cran-terra, r-cran-whisker Suggests: r-cran-archive, r-cran-circstats, r-cran-codetools, r-cran-covr, r-cran-diagrammer, r-cran-future, r-cran-future.callr, r-cran-ggplot2, r-cran-ggplotify, r-cran-httr, r-cran-knitr, r-cran-lattice, r-cran-logging, r-cran-magrittr, r-cran-pkgload, r-cran-png, r-cran-rcolorbrewer, r-cran-raster, r-cran-rmarkdown, r-cran-roxygen2, r-cran-rsqlite, r-cran-rstudioapi, r-cran-sp, r-cran-spades.tools, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-spades.core_2.1.0-1.ca2004.1_all.deb Size: 3575380 MD5sum: 28cc1c6baf774b115817f6fc11c369dd SHA1: 56be3d4d34cde5a13091899732a1c28e03676700 SHA256: ad02a89ca020e1e3aa63ab366d08476ff7d91c210294fe5185874a74e483e4ad SHA512: aa45c7055224e5885806aadc4275068a3377129534f0353e66f5238f4d445d202dac2481f2f3eb9d063b50c119c3edaacf9d4e6f73d38a49eb1679334b8cfe0d Homepage: https://cran.r-project.org/package=SpaDES.core Description: CRAN Package 'SpaDES.core' (Core Utilities for Developing and Running Spatially ExplicitDiscrete Event Models) Provides the core framework for a discrete event system to implement a complete data-to-decisions, reproducible workflow. 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See Davies & Lawson (2019) for example. Package: r-cran-spanel Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spanel_0.1-1.ca2004.1_all.deb Size: 57652 MD5sum: 92878817aa1f51e4540711d62c3332ca SHA1: 6c46c28cab79ce23dc955d4d91822b36e4f7f008 SHA256: 64b678d5223dc0294b8eac5592f32631c84554ddd39a3ee0237702768b7dfdc5 SHA512: 22ae6a1c83d8daca98c5bfeed6049b8f87bb66df5abe6f1b3aa63e22ed2a1bc568d6f6b49479c4988b1d8fa0f579e4583265eb87f71cb9c41f6cba32dea64e0b Homepage: https://cran.r-project.org/package=spanel Description: CRAN Package 'spanel' (Spatial Panel Data Models) Fit the spatial panel data models: the fixed effects, random effects and between models. 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Package: r-cran-spar Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spar_0.1-1.ca2004.1_all.deb Size: 54872 MD5sum: b459dfda2c62fd00ff3104489731c950 SHA1: 4b520c66e14d6fd8558e346d2fa433a2c12897b4 SHA256: 5fc67adf608de4e18371a8845a972f5c1d4981a2bc2dfa885ba79721407f7d51 SHA512: 056dba048ba77ba1d29dea2ab04770c81eca1ad61f4f8f92467da3ed3ff5a1a94a3df2150c53fd75757029a315f9dc154a6b40a2d8218c8836aeaf942df371f2 Homepage: https://cran.r-project.org/package=SPAr Description: CRAN Package 'SPAr' (Perform rare variants association analysis based on summation ofpartition approaches) This package performs robust nonparametric tests for rare variants association analysis using summation of partition approaches that incorporate gene-gene and gene-environmental interactions Package: r-cran-spareg Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1052 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-matrix, r-cran-rocr, r-cran-rdpack, r-cran-ggplot2, r-cran-rlang, r-cran-glmnet Suggests: r-cran-testthat, r-cran-foreach, r-cran-doparallel, r-cran-robustbase, r-cran-cellwise, r-cran-variablescreening, r-cran-ggpubr, r-cran-r.matlab Filename: pool/dists/focal/main/r-cran-spareg_1.0.0-1.ca2004.1_all.deb Size: 924028 MD5sum: f50ffef5d996999b546088946b129a1a SHA1: 9d55b28957ea4e22962ec22498b7f5587385df31 SHA256: e827294425c4a5c1b43ffd0ae7fe4d2fc8c65a4ab5952f5fdb7a8c0585cf2a4f SHA512: 6036cc11c26a1b8c910777fc50c985d25d5c6454940d026d29e5e6364afeabe9d400666a12004bc19291aa9e7220d8a5578a48e10f82ebe1e9b3ce26e338ca35 Homepage: https://cran.r-project.org/package=spareg Description: CRAN Package 'spareg' (Sparse Projected Averaged Regression) A flexible framework combining variable screening and random projection techniques for fitting ensembles of predictive generalized linear models to high-dimensional data. 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Package: r-cran-spark.sas7bdat Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 198 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sparklyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spark.sas7bdat_1.4-1.ca2004.1_all.deb Size: 20232 MD5sum: 01b4987ccdd955cc88242dd745004423 SHA1: 2a51f83b73aba0f59d90c4e70713c83715f983f9 SHA256: e6cc11e7d0fd3b4dc86006479f63f055dcda165085e45d43d76811e190a1a3e7 SHA512: 150f48ba5a3ccb868e7625ac7736b282f0904de83e75d7a4cf6301499c5a184890cd753de8325eb1d9ab81f04c58e0e7550458935041b25ac9458df2128f8c31 Homepage: https://cran.r-project.org/package=spark.sas7bdat Description: CRAN Package 'spark.sas7bdat' (Read in 'SAS' Data ('.sas7bdat' Files) into 'Apache Spark') Read in 'SAS' Data ('.sas7bdat' Files) into 'Apache Spark' from R. 'Apache Spark' is an open source cluster computing framework available at . 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'XGBoost' is an optimized distributed gradient boosting library. Package: r-cran-sparql Architecture: all Version: 1.16-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-rcurl Filename: pool/dists/focal/main/r-cran-sparql_1.16-1.ca2004.1_all.deb Size: 36332 MD5sum: 71a3a5c620ceb29ec25a43b0e788dc61 SHA1: 585943a79771986e5b3dc62cb05c533f1a7e38ae SHA256: a964145abaaccef10dcd2553eb683a55ff4601aaf4bd78be553eff5079788011 SHA512: a5161630fd1848f41611a9c066c8bae4c26dae04b92dcbb71c08f7458bf9cfe031e032a68909303387f686845ad4c262bd9fe8ab63dcb9a99f893a902a97ebd2 Homepage: https://cran.r-project.org/package=SPARQL Description: CRAN Package 'SPARQL' (SPARQL client) Use SPARQL to pose SELECT or UPDATE queries to an end-point. 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Package: r-cran-sparrpowr Architecture: all Version: 0.2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1926 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dofuture, r-cran-dorng, r-cran-fields, r-cran-foreach, r-cran-future, r-cran-iterators, r-cran-lifecycle, r-cran-sparr, r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-terra Suggests: r-cran-geojsonsf, r-cran-ggmap, r-cran-ggplot2, r-cran-sf, r-cran-spatstat.data, r-cran-spelling, r-cran-testthat, r-cran-tidyterra, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-sparrpowr_0.2.8-1.ca2004.1_all.deb Size: 1436840 MD5sum: a63a34718811f34afc0c740a30cf7bbe SHA1: a07d4c554df3f5adc373a854d5b76a54fee84492 SHA256: 0e2915e477a55be448e027946880876ec9260cacc5c5985da0fb885d21b8a5df SHA512: 17e47b4dcf55462cd24cb9c5009b8bc5e84aa4a8034ca9d8b39e9623edeeba9ed61c85de4de272274f74913631a0daa26ad13b044b6aeda24d72d149fc022ac9 Homepage: https://cran.r-project.org/package=sparrpowR Description: CRAN Package 'sparrpowR' (Power Analysis to Detect Spatial Relative Risk Clusters) Calculate the statistical power to detect clusters using kernel-based spatial relative risk functions that are estimated using the 'sparr' package. Details about the 'sparr' package methods can be found in the tutorial: Davies et al. (2018) . Details about kernel density estimation can be found in J. F. Bithell (1990) . More information about relative risk functions using kernel density estimation can be found in J. F. Bithell (1991) . 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This algorithm clusters samples from two different populations, links the clusters across the conditions and identifies marker genes for these changes. The package was designed for scRNA-Seq data but is also applicable to many other data types, just replace cells with samples and genes with variables. The package also contains functions for estimating the parameters for SparseDC as outlined in the paper. We recommend that users further select their marker genes using the magnitude of the cluster centers. Package: r-cran-sparsediscrim Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 405 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bdsmatrix, r-cran-corpcor, r-cran-dplyr, r-cran-ggplot2, r-cran-mvtnorm, r-cran-rlang Suggests: r-cran-testthat, r-cran-mass, r-cran-covr, r-cran-modeldata, r-cran-spelling Filename: pool/dists/focal/main/r-cran-sparsediscrim_0.3.0-1.ca2004.1_all.deb Size: 334712 MD5sum: 8a92f8fbe32d4a0adcd587d50f85df74 SHA1: 11d9891c078296bf2127d0ed56f93e6ae8abc69d SHA256: 0faaf6b248da29c21e94e238917beee09d38cacbadba2c03a0124b9e5d978add SHA512: 13c88b0ab204205a54f3b5cdb39fd7860560b227274d1421c3b0fe44ecc25fe4a540ceedb7553f34a720bd263ee358de747ad27c0e75fd6728c01a1be435821d Homepage: https://cran.r-project.org/package=sparsediscrim Description: CRAN Package 'sparsediscrim' (Sparse and Regularized Discriminant Analysis) A collection of sparse and regularized discriminant analysis methods intended for small-sample, high-dimensional data sets. The package features the High-Dimensional Regularized Discriminant Analysis classifier from Ramey et al. (2017) . Other classifiers include those from Dudoit et al. (2002) , Pang et al. (2009) , and Tong et al. (2012) . Package: r-cran-sparseeigen Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 436 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sparseeigen_0.1.0-1.ca2004.1_all.deb Size: 322332 MD5sum: d581632d6164c40add0d643bb686454d SHA1: 70dcb94c61023f2d071a83ca5faa757fd7315fbb SHA256: fce0d6e6dd54391a738ef612bffb003dded1d7b566a75a4458da36f515489f1b SHA512: 53ad8870da2acba6c76a5832ae9a1bd4132ae244b54eed2f2ac680b36d934599c1a20644ed78421c602ea8f7b583699158f1b1cd4f245c9296fb5083bcb89ecc Homepage: https://cran.r-project.org/package=sparseEigen Description: CRAN Package 'sparseEigen' (Computation of Sparse Eigenvectors of a Matrix) Computation of sparse eigenvectors of a matrix (aka sparse PCA) with running time 2-3 orders of magnitude lower than existing methods and better final performance in terms of recovery of sparsity pattern and estimation of numerical values. Can handle covariance matrices as well as data matrices with real or complex-valued entries. Different levels of sparsity can be specified for each individual ordered eigenvector and the method is robust in parameter selection. See vignette for a detailed documentation and comparison, with several illustrative examples. The package is based on the paper: K. Benidis, Y. Sun, P. Babu, and D. P. Palomar (2016). "Orthogonal Sparse PCA and Covariance Estimation via Procrustes Reformulation," IEEE Transactions on Signal Processing . Package: r-cran-sparseflmm Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 414 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mgcv, r-cran-refund, r-cran-mass, r-cran-matrix, r-cran-data.table Filename: pool/dists/focal/main/r-cran-sparseflmm_0.4.2-1.ca2004.1_all.deb Size: 386056 MD5sum: 94e7b4fade1fe7370d7698b8cf65e06f SHA1: 6adbc24c2b8ecde16fa9f689b7693a4318eccc7b SHA256: be5b2ebea187e0a088e463caa7c4791ceb9bf19633d64bd4bf526ab5a4430994 SHA512: 79f1838aa2a8b7c1f7f5b26c3fd88adb8b98c7dc38f6e5f5eecbe312cd8f25c84cf9a35889b892dbd047571fc4be9179eae17353fb4db79a47dbdef6853b2b5a Homepage: https://cran.r-project.org/package=sparseFLMM Description: CRAN Package 'sparseFLMM' (Functional Linear Mixed Models for Irregularly or SparselySampled Data) Estimation of functional linear mixed models for irregularly or sparsely sampled data based on functional principal component analysis. Package: r-cran-sparsefunclust Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 196 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cluster Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sparsefunclust_1.0.0-1.ca2004.1_all.deb Size: 129084 MD5sum: 6c85fcb527e4e8e3d261b0a89df3408f SHA1: 9eedbfb7b9678c1231247fbd1abbfd66e4a9675d SHA256: 553621c95e1d94631e76d65199595adc5589a3ed9c079074c3f0d940d8e1c5af SHA512: 10cd78bee4a30d4bceea723ac2223053ed193618bb4e10baa5166f05198ea4b80bcab58abebc6241e70c9e000cd1be8183287afe47fdffa9a2f712ed66c612df Homepage: https://cran.r-project.org/package=SparseFunClust Description: CRAN Package 'SparseFunClust' (Sparse Functional Clustering) Provides a general framework for performing sparse functional clustering as originally described in Floriello and Vitelli (2017) , with the possibility of jointly handling data misalignment (see Vitelli, 2019, ). Package: r-cran-sparsegrid Architecture: all Version: 0.8.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 380 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-statmod, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-sparsegrid_0.8.2-1.ca2004.1_all.deb Size: 173944 MD5sum: f0f095919ae4f8756aa1df8e202b55ee SHA1: 5dfe37ed225629daad2359d6903aa682f7307fb8 SHA256: 438cea35f47f802123d56123dab9b4e7227344ce566ed03d5f78596d34b9839c SHA512: fa6a92cd7df4a5924c2ba38dbfed3eeb64dd9007a61ac8be997148e0547b6549f9c56e672d9ac4edcf2aea8b0d105a6d2606e8dae6f762bbaedea04d178d88c0 Homepage: https://cran.r-project.org/package=SparseGrid Description: CRAN Package 'SparseGrid' (Sparse grid integration in R) SparseGrid is a package to create sparse grids for numerical integration, based on code from www.sparse-grids.de Package: r-cran-sparseindextracking Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2962 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-bookdown, r-cran-knitr, r-cran-prettydoc, r-cran-rmarkdown, r-cran-r.rsp, r-cran-xts Filename: pool/dists/focal/main/r-cran-sparseindextracking_0.1.1-1.ca2004.1_all.deb Size: 2383120 MD5sum: 376c6310ae3b77d00ca991d6d8785e9c SHA1: f45c5966f72ba931701896555df118cf6e15d0a4 SHA256: 071809237a742631f3fb0126d10f34277f0e9044528fc4b86ea231e470e3b496 SHA512: eea52721391b4da0823c7706b63485e01d57e09f86163f914c2253651689ab16dbce270ffbcef4cf5078c964e10b109a73a102473a187a6bffea8309a5b1482e Homepage: https://cran.r-project.org/package=sparseIndexTracking Description: CRAN Package 'sparseIndexTracking' (Design of Portfolio of Stocks to Track an Index) Computation of sparse portfolios for financial index tracking, i.e., joint selection of a subset of the assets that compose the index and computation of their relative weights (capital allocation). The level of sparsity of the portfolios, i.e., the number of selected assets, is controlled through a regularization parameter. Different tracking measures are available, namely, the empirical tracking error (ETE), downside risk (DR), Huber empirical tracking error (HETE), and Huber downside risk (HDR). See vignette for a detailed documentation and comparison, with several illustrative examples. The package is based on the paper: K. Benidis, Y. Feng, and D. P. Palomar, "Sparse Portfolios for High-Dimensional Financial Index Tracking," IEEE Trans. on Signal Processing, vol. 66, no. 1, pp. 155-170, Jan. 2018. . Package: r-cran-sparselda Architecture: all Version: 0.1-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 402 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-elasticnet, r-cran-mass, r-cran-mda Filename: pool/dists/focal/main/r-cran-sparselda_0.1-9-1.ca2004.1_all.deb Size: 380684 MD5sum: 7c0377145dac5aaaf0cb06ffd90a3c64 SHA1: ab9e95ad4340ed9830eb468aebc4638eb4b489c0 SHA256: 834d9a4747c1113cd105b16de88ecf600b47b0d469c7656b63353cdcfc5a5331 SHA512: c213af3d0efc7897bbd02c5bd7757f3b117756653c37c691e539962859636ace4449c4ae5b99a834bef4c77b3bddfca8645c31e178184b9d18e61f24b1b2441c Homepage: https://cran.r-project.org/package=sparseLDA Description: CRAN Package 'sparseLDA' (Sparse Discriminant Analysis) Performs sparse linear discriminant analysis for Gaussians and mixture of Gaussian models. Package: r-cran-sparselink Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 486 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-glmnet, r-cran-proc, r-cran-mvtnorm, r-cran-spls, r-cran-xrnet Suggests: r-cran-knitr, r-cran-testthat, r-cran-remotes, r-cran-glmtrans, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sparselink_1.0.0-1.ca2004.1_all.deb Size: 169216 MD5sum: de723f7b4518951f0d101e67c1245e59 SHA1: df10ac3a9f29053a6ee5454c751147ae730ccfd9 SHA256: 3023cf4861e31f136a6f2e268f2191df35fa0b27d1fc49526cd2b1abacb77b10 SHA512: a3e78e0b801ce1c52032b9ef793e3e577e384ec20244f8b4964fe5b1a4275f699e7ebde17a6d0209691698846807578887cd0f5a81b5194eda7a394c47e3bbd9 Homepage: https://cran.r-project.org/package=sparselink Description: CRAN Package 'sparselink' (Sparse Regression for Related Problems) Estimates sparse regression models (i.e., with few non-zero coefficients) in high-dimensional multi-task learning and transfer learning settings, as proposed by Rauschenberger et al. (2025) . Package: r-cran-sparselrmatrix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-rspectra Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sparselrmatrix_0.1.0-1.ca2004.1_all.deb Size: 26376 MD5sum: 0231207d3e54bf4673676b046456c78e SHA1: 53a5312454ad8082c1091f52c01ca3ccb3750c79 SHA256: d67f73408b43e47727a72d55824f88e65f87065e17ea4620719d01dbe59e3660 SHA512: 95b601a4e3fcd4ccb65f0746313a88b5ad39bbba335914b3dc3a709adc5323738d33b967a5058b425000b9126a43c17546ed52c76e2bc6f388aa1f62f158ca7e Homepage: https://cran.r-project.org/package=sparseLRMatrix Description: CRAN Package 'sparseLRMatrix' (Represent and Use Sparse + Low Rank Matrices) Provides an S4 class for representing and interacting with sparse plus rank matrices. At the moment the implementation is quite spare, but the plan is eventually subclass Matrix objects. Package: r-cran-sparsematest Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 70 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glasso Filename: pool/dists/focal/main/r-cran-sparsematest_1.0.0-1.ca2004.1_all.deb Size: 40876 MD5sum: 987c666d61fd1ca3f33ace17af91510f SHA1: a42ce3d8b05a8784ad0a59ebded81b4631f78cdc SHA256: cb76b5ce778071854061fa95daaeae6d2eed6a1ce41d5e0badcfd5c0868562c8 SHA512: c0a7eedb7ac39017b0196d3c0d1d92e5900250e80a0c0fd448b7f22919ea4ceb35804d885bfe4d700ee4b1f010bf1ff2e7dc0c0ca664acfb221145cb221fea53 Homepage: https://cran.r-project.org/package=sparseMatEst Description: CRAN Package 'sparseMatEst' (Sparse Matrix Estimation and Inference) The 'sparseMatEst' package provides functions for estimating sparse covariance and precision matrices with error control. A false positive rate is fixed corresponding to the probability of falsely including a matrix entry in the support of the estimator. It uses the binary search method outlined in Kashlak and Kong (2019) and in Kashlak (2019) . Package: r-cran-sparsemdc Architecture: all Version: 0.99.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4814 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dorng, r-cran-foreach, r-cran-doparallel Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sparsemdc_0.99.5-1.ca2004.1_all.deb Size: 4843016 MD5sum: c90a7ee69cd714f52f0ae591b38f14c9 SHA1: 524efa59405dffbf522238b9cfc28376f8fb9d75 SHA256: 51f00a8017b99dd0e33a35d4b1b88d2b7c87e988c005fd50bafa359edd203f11 SHA512: a97e69f77931681d0766e3f33f19c38e7e45a251d20c8b35e7b6d0c07d1c1a3ba8f14b3f1b141ec771c168232eecf60a6a7e7e2178c68fb0df9161e4313ef475 Homepage: https://cran.r-project.org/package=SparseMDC Description: CRAN Package 'SparseMDC' (Implementation of SparseMDC Algorithm) Implements the algorithm described in Barron, M., and Li, J. (Not yet published). This algorithm clusters samples from multiple ordered populations, links the clusters across the conditions and identifies marker genes for these changes. The package was designed for scRNA-Seq data but is also applicable to many other data types, just replace cells with samples and genes with variables. The package also contains functions for estimating the parameters for SparseMDC as outlined in the paper. We recommend that users further select their marker genes using the magnitude of the cluster centers. Package: r-cran-sparsemse Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 147 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lpsolve, r-cran-rcapture Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sparsemse_2.0.1-1.ca2004.1_all.deb Size: 112948 MD5sum: 21de560e9bb0e95899880dd470bd524e SHA1: 1ab19848b54ebe4f1f8764a804fc17d12f571865 SHA256: 0db4fd3745ac39e04fab018ed813e84189bf72ed3d71b7b982db08d1b726caa4 SHA512: d86a6c939e8a9760dd7306f7cf82ef1c505e0e70975c63359c473df892442bb1681dc226245f395b4c2d8f2184a7e3a586e00460921a838756c41cf13287aaac Homepage: https://cran.r-project.org/package=SparseMSE Description: CRAN Package 'SparseMSE' ('Multiple Systems Estimation for Sparse Capture Data') Implements the routines and algorithms developed and analysed in "Multiple Systems Estimation for Sparse Capture Data: Inferential Challenges when there are Non-Overlapping Lists" Chan, L, Silverman, B. W., Vincent, K (2019) . This package explicitly handles situations where there are pairs of lists which have no observed individuals in common. It deals correctly with parameters whose estimated values can be considered as being negative infinity. It also addresses other possible issues of non-existence and non-identifiability of maximum likelihood estimates. Package: r-cran-sparsemvn Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 428 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Suggests: r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-forcats, r-cran-knitr, r-cran-bookdown, r-cran-kableextra, r-cran-testthat, r-cran-scales, r-cran-trustoptim Filename: pool/dists/focal/main/r-cran-sparsemvn_0.2.2-1.ca2004.1_all.deb Size: 273220 MD5sum: 270b6c208d57c9355fe3004279e51a97 SHA1: 651fb4039f80147c1b8453e0b57da2f224c294c1 SHA256: adb816a40a53add36f88a63a4f26089526724cb7c4e9a503a10056be9a0aff82 SHA512: 8db8c71810fcb2a36be494d23160074a9bdb8dd0f82ef71a10fc9ab39c2e3119479be98799c5f45f23e799e0a228500b47c23c3660d4586afee048b90c11ce5e Homepage: https://cran.r-project.org/package=sparseMVN Description: CRAN Package 'sparseMVN' (Multivariate Normal Functions for Sparse Covariance andPrecision Matrices) Computes multivariate normal (MVN) densities, and samples from MVN distributions, when the covariance or precision matrix is sparse. Package: r-cran-sparsepca Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rsvd Filename: pool/dists/focal/main/r-cran-sparsepca_0.1.2-1.ca2004.1_all.deb Size: 48364 MD5sum: f1c7f9a26a2b1c4dc3c497e1781d110f SHA1: 9e0bb05a265fe0e36cb97653572b019f3dc24593 SHA256: 103c86c9f1d589e0eb4c2c002827010148b97bd3f9d4e914884fd260e63016ef SHA512: 97db7006dc12a78f396de632691429118ab703e2313e35e1196f85249c4fc5a19ba26dbdbb6e7d9600206df6c1bd8b428573f5fe1ce9b5d7b3f7512ecbc78af4 Homepage: https://cran.r-project.org/package=sparsepca Description: CRAN Package 'sparsepca' (Sparse Principal Component Analysis (SPCA)) Sparse principal component analysis (SPCA) attempts to find sparse weight vectors (loadings), i.e., a weight vector with only a few 'active' (nonzero) values. This approach provides better interpretability for the principal components in high-dimensional data settings. This is, because the principal components are formed as a linear combination of only a few of the original variables. This package provides efficient routines to compute SPCA. Specifically, a variable projection solver is used to compute the sparse solution. In addition, a fast randomized accelerated SPCA routine and a robust SPCA routine is provided. Robust SPCA allows to capture grossly corrupted entries in the data. The methods are discussed in detail by N. Benjamin Erichson et al. (2018) . Package: r-cran-sparsepp Architecture: all Version: 1.22-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 623 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-rcpp Filename: pool/dists/focal/main/r-cran-sparsepp_1.22-1.ca2004.1_all.deb Size: 109108 MD5sum: ccc495e0d088cc8f65a189ca8cfbf14d SHA1: cee550fc4b974ae0ffa76c82e75d869b8d00697d SHA256: 4ff5e35a3de3da5effffcf9c6aa5d8d5f06d5a5fd5ed8dd85816faa5bff11979 SHA512: c7810180f5186c954f3289f0a436d45ad3646953062e8a65b0928eb59a9f0f39cd01321b82684c4db2a11ca51e44c7bc3c3975ce49d184f3994db4be1b4ee911 Homepage: https://cran.r-project.org/package=sparsepp Description: CRAN Package 'sparsepp' ('Rcpp' Interface to 'sparsepp') Provides interface to 'sparsepp' - fast, memory efficient hash map. It is derived from Google's excellent 'sparsehash' implementation. We believe 'sparsepp' provides an unparalleled combination of performance and memory usage, and will outperform your compiler's unordered_map on both counts. Only Google's 'dense_hash_map' is consistently faster, at the cost of much greater memory usage (especially when the final size of the map is not known in advance). Package: r-cran-sparser Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2376 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ncvreg, r-cran-rlang, r-cran-magrittr, r-cran-dplyr, r-cran-recipes Suggests: r-cran-survival, r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-testthat, r-cran-covr, r-cran-modeldata, r-cran-mass Filename: pool/dists/focal/main/r-cran-sparser_0.3.2-1.ca2004.1_all.deb Size: 1669548 MD5sum: fbc0d1c7f6ac78edfa854323d96fc3de SHA1: 1a8e01fb11428a836e9d45f01d2787a3b957786e SHA256: 579aeba791c2eda41b9985496bf6647824cd427a3820155d4899ece2d86a4bff SHA512: 1c0f8ef2c2fa8848856e652929749ee4584579ca12453d5a7b659e2821cf6d53c3aa977400ab9cf36cb9e87c0c5306966ef2bce61b04cb9783d991f16acb130c Homepage: https://cran.r-project.org/package=sparseR Description: CRAN Package 'sparseR' (Variable Selection under Ranked Sparsity Principles forInteractions and Polynomials) An implementation of ranked sparsity methods, including penalized regression methods such as the sparsity-ranked lasso, its non-convex alternatives, and elastic net, as well as the sparsity-ranked Bayesian Information Criterion. As described in Peterson and Cavanaugh (2022) , ranked sparsity is a philosophy with methods primarily useful for variable selection in the presence of prior informational asymmetry, which occurs in the context of trying to perform variable selection in the presence of interactions and/or polynomials. Ultimately, this package attempts to facilitate dealing with cumbersome interactions and polynomials while not avoiding them entirely. Typically, models selected under ranked sparsity principles will also be more transparent, having fewer falsely selected interactions and polynomials than other methods. Package: r-cran-sparsestep Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Filename: pool/dists/focal/main/r-cran-sparsestep_1.0.1-1.ca2004.1_all.deb Size: 48388 MD5sum: 92388f42e05c13df2b7c9bbebefcc82c SHA1: 812e85414a479bd2559631249d76a27a8d6e23ff SHA256: 2caff5680cffcbd114c3c743dae39c722715438171fe8f5eced562ea4231215c SHA512: 535671912c950f3061fe37fe7401272f92d55f2103f84617c26b7392b42462fd99fafdf0e1fd530019d47ea8e1f01da2feab9a405acf9a13c566aeb8fa146472 Homepage: https://cran.r-project.org/package=sparsestep Description: CRAN Package 'sparsestep' (SparseStep Regression) Implements the SparseStep model for solving regression problems with a sparsity constraint on the parameters. The SparseStep regression model was proposed in Van den Burg, Groenen, and Alfons (2017) . In the model, a regularization term is added to the regression problem which approximates the counting norm of the parameters. By iteratively improving the approximation a sparse solution to the regression problem can be obtained. In this package both the standard SparseStep algorithm is implemented as well as a path algorithm which uses golden section search to determine solutions with different values for the regularization parameter. Package: r-cran-sparsevar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 431 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-ncvreg, r-cran-doparallel, r-cran-glmnet, r-cran-ggplot2, r-cran-reshape2, r-cran-mvtnorm, r-cran-picasso, r-cran-corpcor Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sparsevar_0.1.0-1.ca2004.1_all.deb Size: 391880 MD5sum: d632e10ed9a67c80d3ae6f1a11a6ced5 SHA1: 85095ab4b7cf7c24af24a6ea04308534b65adf1d SHA256: 6eb5aa7d7af3dd0240d5cd75e023997c09a72e81a31b60b2b9a3c519d567c6af SHA512: cbd4b1e3029caf46ea5616a5e814801915aa6031d8e9d9af016f0164737f68a90e0768c03e29e0a2318f0c644f5e83dc77a55f338cf4113c5fbf1dc5024c41b7 Homepage: https://cran.r-project.org/package=sparsevar Description: CRAN Package 'sparsevar' (Sparse VAR/VECM Models Estimation) A wrapper for sparse VAR/VECM time series models estimation using penalties like ENET (Elastic Net), SCAD (Smoothly Clipped Absolute Deviation) and MCP (Minimax Concave Penalty). Based on the work of Sumanta Basu and George Michailidis . Package: r-cran-sparsevfc Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2790 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-pdist, r-cran-purrr Suggests: r-cran-ggplot2, r-cran-dplyr, r-cran-tibble, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-sparsevfc_0.1.2-1.ca2004.1_all.deb Size: 2689308 MD5sum: 623434fcd4cea817ba75cb3c77626bcf SHA1: d0598eba22fadfa5ecb1cd00e5104257ec262449 SHA256: 5fee5f20ef77db26be22ca175707d902989e9213d97b1df839aceff05d4dde52 SHA512: 85c7bf1757794dfbb4336ddc442e02b473005fc55b5863f3dacd71ba5440414b3e8ee6c1f66696493c897f14667dcf84bc24bbdc85bbb10437d2ec1d051b85f2 Homepage: https://cran.r-project.org/package=SparseVFC Description: CRAN Package 'SparseVFC' (Sparse Vector Field Consensus for Vector Field Learning) The sparse vector field consensus (SparseVFC) algorithm (Ma et al., 2013 ) for robust vector field learning. Largely translated from the Matlab functions in . Package: r-cran-spartaas Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3146 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-factominer, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-plotly, r-cran-stringr, r-cran-colorspace, r-cran-shiny, r-cran-shinydashboard, r-cran-shinyjs, r-cran-shinyjqui, r-cran-fpc, r-cran-ggdendro, r-cran-htmltools, r-cran-rstudioapi, r-cran-htmlwidgets, r-cran-shinythemes, r-cran-explor, r-cran-shinywidgets, r-cran-scatterd3, r-cran-ks, r-cran-foreign, r-cran-cluster, r-cran-leaflet, r-cran-ape, r-cran-mass, r-cran-ade4, r-cran-lmtest, r-cran-nor1mix, r-cran-shinycssloaders, r-cran-scales, r-cran-fastcluster Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-sf Filename: pool/dists/focal/main/r-cran-spartaas_1.2.4-1.ca2004.1_all.deb Size: 2487832 MD5sum: 455f811bfad8fd3438bd3709257ca43b SHA1: 24d9621bb3096f145f47f375ee1f761965461bd2 SHA256: 5b1225649cef7398dba2f49b97f4c8cef19834309159d92749bfe1c1b60b948c SHA512: bc43302ceeb10e7e50b72b1e897d891a26cfc63e1d8b158db8ad4aab07ab4acbf66bbbe78f9c94f723ee61346f58bae435e54bb99a39393fd8d42b9b56637ab6 Homepage: https://cran.r-project.org/package=SPARTAAS Description: CRAN Package 'SPARTAAS' (Statistical Pattern Recognition and daTing using ArchaeologicalArtefacts assemblageS) Statistical pattern recognition and dating using archaeological artefacts assemblages. Package of statistical tools for archaeology. hclustcompro()/perioclust(): Bellanger Lise, Coulon Arthur, Husi Philippe (2021, ISBN:978-3-030-60103-4). mapclust(): Bellanger Lise, Coulon Arthur, Husi Philippe (2021) . seriograph(): Desachy Bruno (2004) . cerardat(): Bellanger Lise, Husi Philippe (2012) . Package: r-cran-spatemr Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-gamlss, r-cran-gamlss.dist Suggests: r-cran-testthat, r-cran-sp, r-cran-spdep Filename: pool/dists/focal/main/r-cran-spatemr_1.2.0-1.ca2004.1_all.deb Size: 61236 MD5sum: b08f88ada465ed14f34029741e7c9643 SHA1: 298f3ebbfc45e5aa537ca2073e5184c571e1c3c1 SHA256: 946ec8df8c5e2bd8c1b079d515d698b2ac64263b84be6b674875d674ce4501ba SHA512: 44d88d7dca23c59f138700b04c4fcec4ac453fc3c5af94a887a3b92fc38309cb0b3a6c8d444919c689c61d87931da741b1ddbb99f6dbec977ec0218133b93c6a Homepage: https://cran.r-project.org/package=spatemR Description: CRAN Package 'spatemR' (Generalized Spatial Autoregresive Models for Mean and Variance) Modeling spatial dependencies in dependent variables, extending traditional spatial regression approaches. It allows for the joint modeling of both the mean and the variance of the dependent variable, incorporating semiparametric effects in both models. Based on generalized additive models (GAM), the package enables the inclusion of non-parametric terms while maintaining the classical theoretical framework of spatial regression. Additionally, it implements the Generalized Spatial Autoregression (GSAR) model, which extends classical methods like logistic Spatial Autoregresive Models (SAR), probit Spatial Autoregresive Models (SAR), and Poisson Spatial Autoregresive Models (SAR), offering greater flexibility in modeling spatial dependencies and significantly improving computational efficiency and the statistical properties of the estimators. Related work includes: a) J.D. Toloza-Delgado, Melo O.O., Cruz N.A. (2024). "Joint spatial modeling of mean and non-homogeneous variance combining semiparametric SAR and GAMLSS models for hedonic prices". . b) Cruz, N. A., Toloza-Delgado, J. D., Melo, O. O. (2024). "Generalized spatial autoregressive model". . Package: r-cran-spatentropy Architecture: all Version: 2.2-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 491 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-spatstat, r-cran-spatstat.geom, r-cran-spatstat.random Filename: pool/dists/focal/main/r-cran-spatentropy_2.2-4-1.ca2004.1_all.deb Size: 454864 MD5sum: 4e8bc645c6e55d43d5931086edc469e6 SHA1: d76ff234f5d872c86f142ca4a92b869b7fb0000a SHA256: 8309a95e07979425e0b973cc7c7f16ae6e56fd46d36a821d72d4945824b5067e SHA512: f50731d16fc273205484fd59424081c219191a73830b5f437243a44765fa0934860b03cd42ecff40612fb48b9f2b3c4b1919272d7dd4e6fd1a73c7a7fb16d710 Homepage: https://cran.r-project.org/package=SpatEntropy Description: CRAN Package 'SpatEntropy' (Spatial Entropy Measures) The heterogeneity of spatial data presenting a finite number of categories can be measured via computation of spatial entropy. Functions are available for the computation of the main entropy and spatial entropy measures in the literature. They include the traditional version of Shannon's entropy (Shannon, 1948 ), Batty's spatial entropy (Batty, 1974 ), O'Neill's entropy (O'Neill et al., 1998 ), Li and Reynolds' contagion index (Li and Reynolds, 1993 ), Karlstrom and Ceccato's entropy (Karlstrom and Ceccato, 2002 ), Leibovici's entropy (Leibovici, 2009 ), Parresol and Edwards' entropy (Parresol and Edwards, 2014 ) and Altieri's entropy (Altieri et al., 2018, ). Full references for all measures can be found under the topic 'SpatEntropy'. The package is able to work with lattice and point data. The updated version works with the updated 'spatstat' package (>= 3.0-2). Package: r-cran-spatest Architecture: all Version: 3.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spatest_3.1.2-1.ca2004.1_all.deb Size: 119704 MD5sum: ff5ebe5a62fb247dcb21d192afb92ee1 SHA1: 5af0ca3731ee3b97812ca389005efee4a53acf05 SHA256: 7a5a6f4604ae49b37dd58413db7248c9c6c0933ed3d712becce557f695e890cd SHA512: db3d1e87239505ffd0afab5c18ecb29060435d67ef17841fe1ae6776fb174ad8abf3fcb56769f5d1c41950acb2222e47bec9efe02ce19da2717f4b09e2483fa0 Homepage: https://cran.r-project.org/package=SPAtest Description: CRAN Package 'SPAtest' (Score Test and Meta-Analysis Based on Saddlepoint Approximation) Performs score test using saddlepoint approximation to estimate the null distribution. Also prepares summary statistics for meta-analysis and performs meta-analysis to combine multiple association results. For the latest version, please check . Package: r-cran-spatfd Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3775 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-plotly, r-cran-dplyr, r-cran-proxy, r-cran-reshape, r-cran-gstat, r-cran-sp, r-cran-fda, r-cran-sf, r-cran-mass, r-cran-geor, r-cran-tidyr, r-cran-fda.usc Filename: pool/dists/focal/main/r-cran-spatfd_0.0.1-1.ca2004.1_all.deb Size: 3781120 MD5sum: 56b4e285de861aa36f4353cda7f0a0ab SHA1: f595ec005614c43a9c6a1c1167a04931fa2a243e SHA256: 3290e24604fd48845d9baf189b801b0c93b0065f80562b4f83d4aaa0558dd516 SHA512: e347a143183875f59076878522877655aa3b87731f66e7ee6bb96ac8398876165766a95f05e2451f59fbde2c41d11b49c88269ec15860d73edea1bb43e2168ab Homepage: https://cran.r-project.org/package=SpatFD Description: CRAN Package 'SpatFD' (Functional Geostatistics: Univariate and Multivariate FunctionalSpatial Prediction) Performance of functional kriging, cokriging, optimal sampling and simulation for spatial prediction of functional data. The framework of spatial prediction, optimal sampling and simulation are extended from scalar to functional data. 'SpatFD' is based on the Karhunen-Loève expansion that allows to represent the observed functions in terms of its empirical functional principal components. Based on this approach, the functional auto-covariances and cross-covariances required for spatial functional predictions and optimal sampling, are completely determined by the sum of the spatial auto-covariances and cross-covariances of the respective score components. The package provides new classes of data and functions for modeling spatial dependence structure among curves. The spatial prediction of curves at unsampled locations can be carried out using two types of predictors, and both of them report, the respective variances of the prediction error. In addition, there is a function for the determination of spatial locations sampling configuration that ensures minimum variance of spatial functional prediction. There are also two functions for plotting predicted curves at each location and mapping the surface at each time point, respectively. References Bohorquez, M., Giraldo, R., and Mateu, J. (2016) , Bohorquez, M., Giraldo, R., and Mateu, J. (2016) , Bohorquez M., Giraldo R. and Mateu J. (2021) . Package: r-cran-spatgc Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mvtnorm, r-cran-spdep, r-cran-sf Filename: pool/dists/focal/main/r-cran-spatgc_0.1.0-1.ca2004.1_all.deb Size: 55752 MD5sum: 2c56c383c3e1deae39ac34563758e0cb SHA1: 05ad38baaa31da756fba1df12bc635446928e5f1 SHA256: b2d0f71aafb43bd0168faa18bd69d60f54ce1cbacdfa27482f6149594c38a733 SHA512: e93b6807856312c991b2e62dc5761c1988c31149c7428380df67eae637e4ff8b9d9bbf993c344e19f62a84dd5b5015cf6748e09f51ef9e69f6ca83186027b73a Homepage: https://cran.r-project.org/package=SpatGC Description: CRAN Package 'SpatGC' (Bayesian Modeling of Spatial Count Data) Provides a collection of functions for preparing data and fitting Bayesian count spatial regression models, with a specific focus on the Gamma-Count (GC) model. The GC model is well-suited for modeling dispersed count data, including under-dispersed or over-dispersed counts, or counts with equivalent dispersion, using Integrated Nested Laplace Approximations (INLA). The package includes functions for generating data from the GC model, as well as spatially correlated versions of the model. See Nadifar, Baghishani, Fallah (2023) . Package: r-cran-spatgeom Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-sf, r-cran-dplyr, r-cran-lwgeom, r-cran-cowplot, r-cran-purrr Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spatgeom_0.3.0-1.ca2004.1_all.deb Size: 45980 MD5sum: 4ccadb9b463e95e8cb14eb745a45ddf5 SHA1: fd310ac6f923b197624973a3747b1ccca8e04236 SHA256: ce6ba1939a8453d107b49b4a785b4bd3816e20dfa67a6ba1463182da6e57bc0a SHA512: 2949a6ebf598da72a15cd650b92e079a909d96304154d0fb4be94e1d4d32dd0dc3ae0f5aedbe1710931d01f5e9e18aee0f614c11aa5c7b5cffa53d8ae36593f2 Homepage: https://cran.r-project.org/package=spatgeom Description: CRAN Package 'spatgeom' (Geometric Spatial Point Analysis) The implementation to perform the geometric spatial point analysis developed in Hernández & Solís (2022) . It estimates the geometric goodness-of-fit index for a set of variables against a response one based on the 'sf' package. The package has methods to print and plot the results. Package: r-cran-spatgrid Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-raster, r-cran-sp, r-cran-sf, r-cran-qpdf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spatgrid_0.1.0-1.ca2004.1_all.deb Size: 24396 MD5sum: 3a5fdab01e19d21a223ffcaf0efa15af SHA1: 27d1121fe5de44fe4f670bf8261fbdaec647f786 SHA256: b0053c5ebf37c5e17a78765b6aae100cfa1043cbacee74deebb5e10590c56774 SHA512: 42002d96595f131dbfb1e251f0c0420681ac69a524e6d36a98e854875894af68220fe17da18a263bbf3d2a467c1b73a79977f2f7745d19c631b4cbd8431e8c09 Homepage: https://cran.r-project.org/package=SpatGRID Description: CRAN Package 'SpatGRID' (Spatial Grid Generation from Longitude and Latitude List) The developed function is designed for the generation of spatial grids based on user-specified longitude and latitude coordinates. The function first validates the input longitude and latitude values, ensuring they fall within the appropriate geographic ranges. It then creates a polygon from the coordinates and determines the appropriate Universal Transverse Mercator zone based on the provided hemisphere and longitude values. Subsequently, transforming the input Shapefile to the Universal Transverse Mercator projection when necessary. Finally, a spatial grid is generated with the specified interval and saved as a Shapefile. For method details see, Brus,D.J.(2022).. The function takes into account crucial parameters such as the hemisphere (north or south), desired grid interval, and the output Shapefile path. The developed function is an efficient tool, simplifying the process of empty spatial grid generation for applications such as, geo-statistical analysis, digital soil mapping product generation, etc. Whether for environmental studies, urban planning, or any other geo-spatial analysis, this package caters to the diverse needs of users working with spatial data, enhancing the accessibility and ease of spatial data processing and visualization. Package: r-cran-spathial Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2535 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-igraph, r-cran-matrixstats, r-cran-mass, r-cran-rtsne, r-cran-class, r-cran-knitr, r-cran-rmarkdown, r-cran-irlba Filename: pool/dists/focal/main/r-cran-spathial_0.1.2-1.ca2004.1_all.deb Size: 1887552 MD5sum: 533be638b358c36e996adcc4cf1f955b SHA1: f00aa79273e6918085abe1c78b7eac5d712b2e71 SHA256: c3bd021efaf0dbde0b72dd7627996b17f89f3ba82606609def6c03e45c49570c SHA512: cfcaa0642e851cd3e911f0742e1d88a064ac6bce8757d5e0bf7e308ad79b7580a2d4b4c47d6599749c8a555cf877a8e8c88330541177d7c0aecd77032a6a11cc Homepage: https://cran.r-project.org/package=spathial Description: CRAN Package 'spathial' (Evolutionary Analysis) A generic tool for manifold analysis. It allows to infer a relevant transition or evolutionary path which can highlights the features involved in a specific process. 'spathial' can be useful in all the scenarios where the temporal (or pseudo-temporal) evolution is the main problem (e.g. tumor progression). The algorithm for finding the principal path is described in: Ferrarotti et al., (2019) ." Package: r-cran-spatialacc Architecture: all Version: 0.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sp Filename: pool/dists/focal/main/r-cran-spatialacc_0.1-5-1.ca2004.1_all.deb Size: 49728 MD5sum: 11d66327787f735e3fff73ea8d36239a SHA1: 48e70df2060a004df992e21065105bc39545a9dd SHA256: 02ca2c4ba0e6ca96e34ab7f66dfdf8faa7f08acd8eda92a1a46a06e83bb3eba5 SHA512: 8bf8f142f742c6ac3c45e0e5c30d515350e5744ee7576276145bd279da35f6b3ee8f456f92e9312bfe03f6ae9469ef636ce066063d975fffa6c4b7275edeefb9 Homepage: https://cran.r-project.org/package=SpatialAcc Description: CRAN Package 'SpatialAcc' (Spatial Accessibility Measures) Provides a set of spatial accessibility measures from a set of locations (demand) to another set of locations (supply). It aims, among others, to support research on spatial accessibility to health care facilities. Includes the locations and some characteristics of major public hospitals in Greece. Package: r-cran-spatialball Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3484 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-hexbin, r-cran-ggplot2, r-cran-lubridate, r-cran-rcolorbrewer Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spatialball_0.1.0-1.ca2004.1_all.deb Size: 3250404 MD5sum: f65c571c9f25210bd88a9594085dd2e5 SHA1: a364a735df85977eabb01d1652c62894e60b078d SHA256: 77176ec727abdafbebcd1a52a2a4b36bcdc02ddfb7bd0cc72eb272899ca8184b SHA512: 881c3accb50dc96c0d0107ca9bdbbbf76e6abf3f59ddaedbf60c69fb114e9fad09e1172373179d163866a1269518963a359c11810d120200e880cd77d8962aaa Homepage: https://cran.r-project.org/package=SpatialBall Description: CRAN Package 'SpatialBall' (Spatial NBA Visualization and Analysis) Creates offensive and defensive shot charts for teams, players and seasons, and more comprehensively for spatial analysis of NBA data. Includes data from the 2016-17 NBA season extracted from . Package: r-cran-spatialcovariance Architecture: all Version: 0.6-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spatialcovariance_0.6-9-1.ca2004.1_all.deb Size: 95408 MD5sum: addf189dc34b1d3cf5a4960935a2a597 SHA1: 8357ad843cca90bfebe1e403eaa76f88a6635d2f SHA256: 10665085cd1581aa836b1e9eca232c4dcf962e14ae1a6e4b2d55253504819000 SHA512: a229622f442f77f7b5c78f16f09f429f1beb2ee5d9ec7b1a4dcec2c50ae0b8cf3c86ea8b1bb6d986b36fb2564029fd05041274c0f7d0e856b626c7d69aff1df6 Homepage: https://cran.r-project.org/package=spatialCovariance Description: CRAN Package 'spatialCovariance' (Computation of Spatial Covariance Matrices for Data onRectangles) Functions that compute the spatial covariance matrix for the matern and power classes of spatial models, for data that arise on rectangular units. This code can also be used for the change of support problem and for spatial data that arise on irregularly shaped regions like counties or zipcodes by laying a fine grid of rectangles and aggregating the integrals in a form of Riemann integration. Package: r-cran-spatialddls Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3830 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rlang, r-cran-grr, r-cran-matrix, r-bioc-spatialexperiment, r-bioc-singlecellexperiment, r-bioc-summarizedexperiment, r-bioc-zinbwave, r-cran-pbapply, r-bioc-s4vectors, r-cran-dplyr, r-cran-reshape2, r-cran-gtools, r-cran-reticulate, r-cran-keras, r-cran-tensorflow, r-cran-fnn, r-cran-ggplot2, r-cran-ggpubr, r-bioc-scran, r-bioc-scuttle Suggests: r-cran-knitr, r-cran-rmarkdown, r-bioc-biocparallel, r-bioc-rhdf5, r-bioc-delayedarray, r-bioc-delayedmatrixstats, r-bioc-hdf5array, r-cran-testthat, r-bioc-complexheatmap, r-bioc-bluster, r-cran-lsa, r-cran-irlba Filename: pool/dists/focal/main/r-cran-spatialddls_1.0.3-1.ca2004.1_all.deb Size: 3266372 MD5sum: fb8c59f682fe971191ad32295a623857 SHA1: 8ead9d414026fe6e640f2c5b8ab6d6a2bd86d3a7 SHA256: 7f66e1be6241c0f70be9919b25f01c44540c648e636896e314f3425995d60af9 SHA512: 5549cb32339f608ba163f410414fee61c283c0205f859482385feb63452be9b9835f2fb4fc0264e1e89bbf941bdb151380ed6d6d737f62bc75cf4969e9d0b84e Homepage: https://cran.r-project.org/package=SpatialDDLS Description: CRAN Package 'SpatialDDLS' (Deconvolution of Spatial Transcriptomics Data Based on NeuralNetworks) Deconvolution of spatial transcriptomics data based on neural networks and single-cell RNA-seq data. SpatialDDLS implements a workflow to create neural network models able to make accurate estimates of cell composition of spots from spatial transcriptomics data using deep learning and the meaningful information provided by single-cell RNA-seq data. See Torroja and Sanchez-Cabo (2019) and Mañanes et al. (2024) to get an overview of the method and see some examples of its performance. Package: r-cran-spatialeco Architecture: all Version: 2.0-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2320 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-terra Suggests: r-cran-spatstat.geom, r-cran-spatstat.explore, r-cran-spdep, r-cran-ks, r-cran-cluster, r-cran-readr, r-cran-rcurl, r-cran-rann, r-cran-rms, r-cran-yaimpute, r-cran-mgcv, r-cran-zyp, r-cran-spatialpack, r-cran-mass, r-cran-caret, r-cran-dplyr, r-cran-earth, r-cran-matrix, r-cran-gstat, r-cran-spatstat.data, r-cran-units, r-cran-sp, r-cran-stringr, r-cran-lwgeom, r-cran-geodata Filename: pool/dists/focal/main/r-cran-spatialeco_2.0-2-1.ca2004.1_all.deb Size: 2158112 MD5sum: 00c2079e0a7ef4f4845bdff881a9a0b2 SHA1: 9e3b92eb98e11ee49232fc25c3956acf0631bd95 SHA256: d6f58b4a8b0ff5be896f0d00c743537edc7cf9dd7f880a0549fbd4ee7713591b SHA512: c25a183c6e253e99d810a56cce378f7cb3cf99fc3a7aa493f5166d378386ef6a01a125282ea44f6990dff07993c25641fa3ff3e93b2122e11418baf1e580bf16 Homepage: https://cran.r-project.org/package=spatialEco Description: CRAN Package 'spatialEco' (Spatial Analysis and Modelling Utilities) Utilities to support spatial data manipulation, query, sampling and modelling in ecological applications. Functions include models for species population density, spatial smoothing, multivariate separability, point process model for creating pseudo- absences and sub-sampling, Quadrant-based sampling and analysis, auto-logistic modeling, sampling models, cluster optimization, statistical exploratory tools and raster-based metrics. Package: r-cran-spatialfdar Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-fda, r-cran-rgl, r-cran-geometry, r-cran-knitr, r-cran-rmarkdown Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-spatialfdar_1.0.0-1.ca2004.1_all.deb Size: 199980 MD5sum: c16a6fbf4458b9b53a30bc7e27454fb9 SHA1: 386f9c2e89d0a5f10f97acf70e9347f1aa127cbe SHA256: 58e638ca7d12f544ce2ad64e8e4509ec9ece80f3c61cc6df91fbf9e96c5da6f0 SHA512: d3939be8fdfddec61fb1246676af86233334507d7a2fe0d18a4f54cc7012fe10b5c23834d22fd0644686138b816e750f5ac7688d1b359884591e400a3b0c566e Homepage: https://cran.r-project.org/package=SpatialfdaR Description: CRAN Package 'SpatialfdaR' (Spatial Functional Data Analysis) Finite element modeling (FEM) uses meshes of triangles to define surfaces. A surface within a triangle may be either linear or quadratic. In the order one case each node in the mesh is associated with a basis function and the basis is called the order one finite element basis. In the order two case each edge mid-point is also associated with a basis function. Functions are provided for smoothing, density function estimation point evaluation and plotting results. Two papers illustrating the finite element data analysis are Sangalli, L.M., Ramsay, J.O., Ramsay, T.O. (2013) and Bernardi, M.S, Carey, M., Ramsay, J. O., Sangalli, L. (2018). Modelling spatial anisotropy via regression with partial differential regularization Journal of Multivariate Analysis, 167, 15-30. Package: r-cran-spatialfusion Architecture: all Version: 0.7-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 566 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rstan, r-cran-sp, r-cran-sf, r-cran-fields, r-cran-spam, r-cran-deldir Suggests: r-cran-testthat, r-cran-tmap, r-cran-r.rsp, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spatialfusion_0.7-2-1.ca2004.1_all.deb Size: 424640 MD5sum: 5670e1622b8dfe4ec4a8ff322ff702a1 SHA1: a6036356dc90d724e9d25b2eb2d392265e5aaa29 SHA256: 860e4b2620e66fe36b2f6c670bb10b5acce09d770a28e217db3ec2cfbfb40909 SHA512: bd7dd887e9daa0fc3254d11fb3f96921d4f139233dd065ce2ee05440985e61bf4068afe80fd2df918b0a83dcc8c89f6aba5f26d3f96aebf8e1443afc76607324 Homepage: https://cran.r-project.org/package=spatialfusion Description: CRAN Package 'spatialfusion' (Multivariate Analysis of Spatial Data Using a Unifying SpatialFusion Framework) Multivariate modelling of geostatistical (point), lattice (areal) and point pattern data in a unifying spatial fusion framework. Details are given in Wang and Furrer (2021) . Model inference is done using either 'Stan' or 'INLA' . Package: r-cran-spatialgraph Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-igraph, r-cran-pracma, r-cran-sf, r-cran-shape, r-cran-sp, r-cran-splancs Filename: pool/dists/focal/main/r-cran-spatialgraph_1.0-4-1.ca2004.1_all.deb Size: 123716 MD5sum: fb7cd0438912b97b7951ec5189c0ae63 SHA1: 80ccf8dd4857f48e8fd3506927ed0f7a311f1ba4 SHA256: 0bc2e2bf785b5b812eb7417d46ea30e73db1c5f5755b0a28207fa9f59f24780f SHA512: 8929d2b88980df42d656a815f66b9fdf7731487427b04e87ea0ab8614f855d1ad2260a3540e86a06b351824817ef87f5cab345505d4063dabaa9c0b6986dd70a Homepage: https://cran.r-project.org/package=SpatialGraph Description: CRAN Package 'SpatialGraph' (The SpatialGraph Class and Utilities) Provision of the S4 SpatialGraph class built on top of objects provided by 'igraph' and 'sp' packages, and associated utilities. See the documentation of the SpatialGraph-class within this package for further description. An example of how from a few points one can arrive to a SpatialGraph is provided in the function sl2sg(). Package: r-cran-spatialml Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ranger, r-cran-caret, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-spatialml_0.1.7-1.ca2004.1_all.deb Size: 64936 MD5sum: 13abf20c3cab24e16493ddf26d557cac SHA1: fec0fc9fdad1d3ab12e93d03b00f14622825e30c SHA256: 3861d2b52904009cd7c51d5839d557cd2631004a06fddd1e9576538b8f756c0f SHA512: a348d45d21b0055c87658337639ec3312388f4e4c9c57b3796b274452622b1a475dfba30bc5b09d0dcb6d6fde3a58be65aeab6af1f1321f4a0f385509524ba3e Homepage: https://cran.r-project.org/package=SpatialML Description: CRAN Package 'SpatialML' (Spatial Machine Learning) Implements a spatial extension of the random forest algorithm (Georganos et al. (2019) ). Allows for a geographically weighted random forest regression including a function to find the optical bandwidth. (Georganos and Kalogirou (2022) ). Package: r-cran-spatialnbda Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 754 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-socialnetworks, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-spatialnbda_1.0-1.ca2004.1_all.deb Size: 631392 MD5sum: 26bb2eceba34eb2bde1546d664a66063 SHA1: be28d6df79db160817977b1b9951bbc1f966a9e5 SHA256: 47f8ebfc7ed85f99a2340a4c777fada96a48c894613b431057943243ebc332df SHA512: 87930bf5eec7ec09e83703ff264171e04a13a984386d58e50b22663796a6698b0ca4294ac4a95256cb6014fa1ca8426dd53383ece934760f99027ac67ee30fe8 Homepage: https://cran.r-project.org/package=spatialnbda Description: CRAN Package 'spatialnbda' (Performs spatial NBDA in a Bayesian context) Network based diffusion analysis (NBDA) allows inference on the asocial and social transmission of information. This may involve the social transmission of a particular behaviour such as tool use, for example. For the NBDA, the key parameters estimated are the social effect and baseline rate parameters. The baseline rate parameter gives the rate at which the behaviour is first performed (or acquired) asocially amongst the individuals in a given population. The social effect parameter quantifies the effect of the social associations amongst the individuals on the rate at which each individual first performs or displays the behaviour. Spatial NBDA involves incorporating spatial information in the analysis. This is done by incorporating social networks derived from spatial point patterns (of the home bases of the individuals under study). In addition, a spatial covariate such as vegetation cover, or slope may be included in the modelling process. Package: r-cran-spatialpop Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-qpdf, r-cran-numbers Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spatialpop_0.1.0-1.ca2004.1_all.deb Size: 21228 MD5sum: 58ba4fb43c72055678ee1e49d48831f3 SHA1: ba987916eaba947030f899a317d89fec131abf8b SHA256: 3cf181d82130c63944eb9d91eb3ccc51ee1677771e257424b5f81666dd2bbd21 SHA512: 1ac864b28ad20d3f791684eee815fe943a84fbbd669ba1a51bda6a21a191b5398097dc160816a85c08c4f3bb3f1220258d100f8aac5d963a66cf0f987a8fbf46 Homepage: https://cran.r-project.org/package=SpatialPOP Description: CRAN Package 'SpatialPOP' (Generation of Spatial Data with Spatially Varying ModelParameter) A spatial population can be generated based on spatially varying regression model under the assumption that observations are collected from a uniform two-dimensional grid consist of (m * m) lattice points with unit distance between any two neighbouring points. For method details see Chao, Liu., Chuanhua, Wei. and Yunan, Su. (2018).. This spatially generated data can be used to test different issues related to the statistical analysis of spatial data. This generated spatial data can be utilized in geographically weighted regression analysis for studying the spatially varying relationships among the variables. Package: r-cran-spatialposition Architecture: all Version: 2.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 822 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-sp, r-cran-isoband, r-cran-raster Suggests: r-cran-lwgeom, r-cran-doparallel, r-cran-foreach, r-cran-cartography, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spatialposition_2.1.2-1.ca2004.1_all.deb Size: 562864 MD5sum: 5df3438e994a7fdf8b046d1fa690271d SHA1: 9a2314d127f098f0ee1b50aa49cacb091435fb31 SHA256: e4e3adc7c7b2c5c7e4609c5ddec59dd0e52ab1a126104722e2e82eb246a63164 SHA512: 6e91cf918f80af92965ed805e5021efb2078965b3fbd84fc3e5fd7322b60fdb7e81733ab9c32b31f44c92110a43301a9e027aab3b030a79ac21a39b36c9f439b Homepage: https://cran.r-project.org/package=SpatialPosition Description: CRAN Package 'SpatialPosition' (Spatial Position Models) Computes spatial position models: the potential model as defined by Stewart (1941) and catchment areas as defined by Reilly (1931) or Huff (1964) . Package: r-cran-spatialprobit Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 325 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-matrix, r-cran-spdep, r-cran-spatialreg, r-cran-mvtnorm, r-cran-tmvtnorm Suggests: r-cran-runit, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spatialprobit_1.0.4-1.ca2004.1_all.deb Size: 272692 MD5sum: b3e2354bdec38dc799d5db7e6313bdc5 SHA1: 4475157596278d61001f110f62f5240dee2a02a9 SHA256: 31ec1d331d742cadea6d379ab1d7ee0258d2612c5c15de7aebd40487781af406 SHA512: dd58c6f0ee1375bbe67dce2c3e8895ac430d8a89390112c98c188ef90de708dd994ddd52cc54a6090d6b3e8c2bb8e750a9d5236d96765e78372934fc08f3ceb8 Homepage: https://cran.r-project.org/package=spatialprobit Description: CRAN Package 'spatialprobit' (Spatial Probit Models) A collection of methods for the Bayesian estimation of Spatial Probit, Spatial Ordered Probit and Spatial Tobit Models. Original implementations from the works of 'LeSage and Pace' (2009, ISBN: 1420064258) were ported and adjusted for R, as described in 'Wilhelm and de Matos' (2013) . Package: r-cran-spatialrdd Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2238 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-sf, r-cran-ggplot2, r-cran-rdrobust, r-cran-lmtest, r-cran-sandwich, r-cran-cowplot, r-cran-magrittr, r-cran-rlang, r-cran-broom Suggests: r-cran-knitr, r-cran-tmap, r-cran-rmarkdown, r-cran-testthat, r-cran-kableextra, r-cran-lfe, r-cran-stargazer Filename: pool/dists/focal/main/r-cran-spatialrdd_0.1.0-1.ca2004.1_all.deb Size: 1691468 MD5sum: 21d6fdc1376afee724c26388321e9239 SHA1: 98ca4233e959d7b212d6d22aea8cf5f389c0c196 SHA256: cc78b59664d8f12fffce88ff1141b36d2c4253d258e89d8edfd019ae0641ddcd SHA512: ba8008f1a11b4ee7f7a096003ede909f2248863445c6cda3d5b77d0ad9e343f82edff3830d73e4803d9df195cec4565d58e696818124252dc960584228fcafab Homepage: https://cran.r-project.org/package=SpatialRDD Description: CRAN Package 'SpatialRDD' (Conduct Multiple Types of Geographic Regression DiscontinuityDesigns) Spatial versions of Regression Discontinuity Designs (RDDs) are becoming increasingly popular as tools for causal inference. However, conducting state-of-the-art analyses often involves tedious and time-consuming steps. This package offers comprehensive functionalities for executing all required spatial and econometric tasks in a streamlined manner. Moreover, it equips researchers with tools for performing essential placebo and balancing checks comprehensively. The fact that researchers do not have to rely on 'APIs' of external 'GIS' software ensures replicability and raises the standard for spatial RDDs. Package: r-cran-spatialregimes Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 518 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-spdep, r-cran-quantreg, r-cran-gwmodel, r-cran-plm, r-cran-spatialreg Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-spatialregimes_1.2-1.ca2004.1_all.deb Size: 455568 MD5sum: 575719718851320d3a3ce4701fd65981 SHA1: 138c0aa4b14e5ea23325e2f42cc847d67d603305 SHA256: 8f4a54ccd578139fde8d6b3ec7fde235ad8ef52a44d7d3c734bd6fbb6d71b3f3 SHA512: 57a889e60fc2b3a96696ea1b161aec14a0e6b92b1a3e0d53fcb95ecc688325753c19f5bd8e5b42a581fe2c99c899eb76bce1b4f75f4014664dc6fb5a38196540 Homepage: https://cran.r-project.org/package=SpatialRegimes Description: CRAN Package 'SpatialRegimes' (Spatial Constrained Clusterwise Regression) A collection of functions for estimating spatial regimes, aggregations of neighboring spatial units that are homogeneous in functional terms. The term spatial regime, therefore, should not be understood as a synonym for cluster. More precisely, the term cluster does not presuppose any functional relationship between the variables considered, while the term regime is linked to a regressive relationship underlying the spatial process. Package: r-cran-spatialrf Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 661 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-tibble, r-cran-foreach, r-cran-doparallel, r-cran-ranger, r-cran-rlang, r-cran-tidyr, r-cran-tidyselect, r-cran-huxtable, r-cran-patchwork, r-cran-viridis Suggests: r-cran-testthat, r-cran-spelling Filename: pool/dists/focal/main/r-cran-spatialrf_1.1.4-1.ca2004.1_all.deb Size: 612508 MD5sum: 1aee030d85f538f231e8d6e825256707 SHA1: 3daeb1576d19581e514da38ad505e8066499ef52 SHA256: 4d25e8a6a8d0bb6c27a00be633e57d28092532d9320dc331be20dad68abff0d9 SHA512: 8b1b8439b1cf4d5c8f7f2549d848f9e6c4c8e32b241246bb36af94e0a25bf77c0c4a679d22738c69f1e62aceeb4499ff0498ba13b9f15610a2d289fb77fc5918 Homepage: https://cran.r-project.org/package=spatialRF Description: CRAN Package 'spatialRF' (Easy Spatial Modeling with Random Forest) Automatic generation and selection of spatial predictors for spatial regression with Random Forest. Spatial predictors are surrogates of variables driving the spatial structure of a response variable. The package offers two methods to generate spatial predictors from a distance matrix among training cases: 1) Moran's Eigenvector Maps (MEMs; Dray, Legendre, and Peres-Neto 2006 ): computed as the eigenvectors of a weighted matrix of distances; 2) RFsp (Hengl et al. ): columns of the distance matrix used as spatial predictors. Spatial predictors help minimize the spatial autocorrelation of the model residuals and facilitate an honest assessment of the importance scores of the non-spatial predictors. Additionally, functions to reduce multicollinearity, identify relevant variable interactions, tune random forest hyperparameters, assess model transferability via spatial cross-validation, and explore model results via partial dependence curves and interaction surfaces are included in the package. The modelling functions are built around the highly efficient 'ranger' package (Wright and Ziegler 2017 ). Package: r-cran-spatialromle Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spatialromle_0.1.0-1.ca2004.1_all.deb Size: 40704 MD5sum: 72aa970cf90a3208872cd9600c4bebad SHA1: 6c8b9e77f26c126f1da5e2afccf8fccdcbd3dcb1 SHA256: 406f7a743803948f38e5130fd5f7c3d5061f0623774b51b708f2b2ae6901936c SHA512: 175b3dd524a660cf4975bfcac2b0f1c8314ed6224deee22cd72791a7e28964178ad38efdf26422150e93250beb5329feb2095eaa0681d69a80977a6a69b01523 Homepage: https://cran.r-project.org/package=SpatialRoMLE Description: CRAN Package 'SpatialRoMLE' (Robust Maximum Likelihood Estimation for Spatial Error Model) Provides robust estimation for spatial error model to presence of outliers in the residuals. The classical estimation methods can be influenced by the presence of outliers in the data. We proposed a robust estimation approach based on the robustified likelihood equations for spatial error model (Vural Yildirim & Yeliz Mert Kantar (2020): Robust estimation approach for spatial error model, Journal of Statistical Computation and Simulation, ). 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Options for calculating both the univariate and bivariate Ripley's K are included. Calculations are performed using a permutation-based approach presented by Wilson et al. . Package: r-cran-spatialvs Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 373 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-nlme, r-cran-fields Filename: pool/dists/focal/main/r-cran-spatialvs_1.1-1.ca2004.1_all.deb Size: 346872 MD5sum: 7a2b230c2bd2d5aa06d9bb9526266cae SHA1: a89f85b64dbb509ad111dfa6de847b37cb0f973c SHA256: 0f5e5af5f9def542683b4017914a8d3571eda1eec7fb281eb279c8586a79b5f8 SHA512: b6ab155bc98ced05e759b34aeb29aa16b56e24c5d3bc56b110035e6b02acee56745ace510bb7a60d0824426d1c9af8ef3434ccc0249711f4c3ecb15d29610964 Homepage: https://cran.r-project.org/package=SpatialVS Description: CRAN Package 'SpatialVS' (Spatial Variable Selection) Perform variable selection for the spatial Poisson regression model under the adaptive elastic net penalty. Spatial count data with covariates is the input. We use a spatial Poisson regression model to link the spatial counts and covariates. For maximization of the likelihood under adaptive elastic net penalty, we implemented the penalized quasi-likelihood (PQL) and the approximate penalized loglikelihood (APL) methods. The proposed methods can automatically select important covariates, while adjusting for possible spatial correlations among the responses. More details are available in Xie et al. (2018, ). The package also contains the Lyme disease dataset, which consists of the disease case data from 2006 to 2011, and demographic data and land cover data in Virginia. The Lyme disease case data were collected by the Virginia Department of Health. The demographic data (e.g., population density, median income, and average age) are from the 2010 census. Land cover data were obtained from the Multi-Resolution Land Cover Consortium for 2006. 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Most of the functions here require the forecast and observed fields to be gridded and on the same grid. For a thorough review of most of the methods in this package, please see Gilleland et al. (2009) and for a tutorial on some of the main functions available here, see Gilleland (2022) . 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Package: r-cran-spatsoc Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1903 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-adehabitathr, r-cran-data.table, r-cran-igraph, r-cran-sf, r-cran-units Suggests: r-cran-asnipe, r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spatsoc_0.2.2-1.ca2004.1_all.deb Size: 713872 MD5sum: cf36a59857f69b9f4425b4b107e1a908 SHA1: f7aceaf5c0c8a838cad81878de8262eac8bbd823 SHA256: 15b1c358373ef790f6e40816cca875241e35e020eec14aa2034855d29f128c79 SHA512: 52b54cb12a93d34a47d73841d3b8ec5d3e760ee3e149016643ef1a5c43334ea005cc5df6e39bd0ff1bdbd3795e180775b84b44cbfa535055e9f1400d5040c33a Homepage: https://cran.r-project.org/package=spatsoc Description: CRAN Package 'spatsoc' (Group Animal Relocation Data by Spatial and TemporalRelationship) Detects spatial and temporal groups in GPS relocations (Robitaille et al. (2019) ). It can be used to convert GPS relocations to gambit-of-the-group format to build proximity-based social networks In addition, the randomizations function provides data-stream randomization methods suitable for GPS data. Package: r-cran-spatstat.data Architecture: all Version: 3.1-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4326 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spatstat.utils, r-cran-matrix Suggests: r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-spatstat.explore, r-cran-spatstat.model, r-cran-spatstat.linnet Filename: pool/dists/focal/main/r-cran-spatstat.data_3.1-6-1.ca2004.1_all.deb Size: 4190056 MD5sum: 8f580b6c3900ec441ba848ebd220e82e SHA1: e165062d553d13514de65b8c37e150a61b256611 SHA256: 812d375e249f99c39f4ed1daeb8fabbcc5b006d5ecc08d9b4a2f0ffb855b4eda SHA512: 45de43c0c304e72e99c6b2beecc501d74a7567b122bac737b123885f004b44ae02db1fd8b989f0fb1bbf67167370513c98dfdd1bbaeb40e18c1482462f945a2f Homepage: https://cran.r-project.org/package=spatstat.data Description: CRAN Package 'spatstat.data' (Datasets for 'spatstat' Family) Contains all the datasets for the 'spatstat' family of packages. 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Package: r-cran-spatstat.local Architecture: all Version: 5.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 379 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-spatstat.data, r-cran-spatstat.univar, r-cran-spatstat.sparse, r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-spatstat.explore, r-cran-spatstat.model, r-cran-spatstat, r-cran-tensor, r-cran-spatstat.utils Filename: pool/dists/focal/main/r-cran-spatstat.local_5.1-0-1.ca2004.1_all.deb Size: 348188 MD5sum: 315a9a47362379564d34d79f79c1f20b SHA1: c3dd0391f15e6fe7ad226591e9f65a21e40432f7 SHA256: eadedd12b868c1ad2c8607d307f5bc7cef22d2ed1ade57bc616461a95830dafa SHA512: cd5de78cdb5258d9a2f529b72560c621c8dc9386f48f09a7198dd30eca44116e5199fef47e6141a1ad72a25857534f9bef1c90a818d28cfad9fb41ab5c6440c6 Homepage: https://cran.r-project.org/package=spatstat.local Description: CRAN Package 'spatstat.local' (Extension to 'spatstat' for Local Composite Likelihood) Extension to the 'spatstat' package, enabling the user to fit point process models to point pattern data by local composite likelihood ('geographically weighted regression'). Package: r-cran-spatstat Architecture: all Version: 3.3-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5277 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-spatstat.data, r-cran-spatstat.univar, r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-spatstat.explore, r-cran-spatstat.model, r-cran-spatstat.linnet, r-cran-spatstat.utils Filename: pool/dists/focal/main/r-cran-spatstat_3.3-3-1.ca2004.1_all.deb Size: 4167280 MD5sum: 5ed4f16bad718e37b19030fda36e8fc7 SHA1: 0d3dd0b075de91c17eb15b0e8464c8b1ffcbc4ff SHA256: 793b988a157215c514b22eceb37998724da8623573de7cec6f9746dbeb0d5036 SHA512: e8673d122ba521c7e3a7afa421ad5aee876aac5303b8335f802469671b0297d87b14c03526f432f89069a9d6ab20f3fec04821df3302a4635d2d9c2c34ff77d3 Homepage: https://cran.r-project.org/package=spatstat Description: CRAN Package 'spatstat' (Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests) Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images. Contains over 3000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference. Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks. Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported. Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods. A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots. Package: r-cran-spatsurv Architecture: all Version: 2.0-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 981 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-sp, r-cran-spatstat.explore, r-cran-spatstat.geom, r-cran-spatstat.random, r-cran-raster, r-cran-iterators, r-cran-fields, r-cran-matrix, r-cran-stringr, r-cran-sf, r-cran-rcolorbrewer, r-cran-lubridate Suggests: r-cran-rgl Filename: pool/dists/focal/main/r-cran-spatsurv_2.0-1-1.ca2004.1_all.deb Size: 919492 MD5sum: 00a0288ee00b10a1fcd60ae32f247e21 SHA1: c4240c669239c4e0fd5817646172fdd80430f91b SHA256: 26673cdf99446e81a060498c929cc1e4a14fcd1a12e63c8c325e53a4d19bb02a SHA512: ca3dd92e8a0cee3e687b63e9989a735cbab767b47f2c2c5d10a498b6f9cca268836dce9b59d8fc45631ee20a472c793613185adcfcb73f55092792ff8b3692b3 Homepage: https://cran.r-project.org/package=spatsurv Description: CRAN Package 'spatsurv' (Bayesian Spatial Survival Analysis with Parametric ProportionalHazards Models) Bayesian inference for parametric proportional hazards spatial survival models; flexible spatial survival models. See Benjamin M. Taylor, Barry S. Rowlingson (2017) . Package: r-cran-spb Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-crayon, r-cran-knitr Filename: pool/dists/focal/main/r-cran-spb_1.0-1.ca2004.1_all.deb Size: 35388 MD5sum: 3e781c2c578238739c48ac0ea79b19db SHA1: cba4f70e10c7de8d3ac6f3a872f7c4ff203b0cad SHA256: 5cd05ea94d0f60dfc6aac620e0dfe7ef40cfc8fcc94b458a4be234be5c39be98 SHA512: 199473c89ceba9880ba04392e8f9b408a6e12274f3d0b1e8f5463b84b8a2abd1121d3fbed2d4bba7d54dc6d60e537ba2bef669911e67457003fbe7457e131452 Homepage: https://cran.r-project.org/package=SPB Description: CRAN Package 'SPB' (Simple Progress Bars for Procedural Coding) Provides a simple progress bar to use for basic and advanced users that suits all those who prefer procedural programming. 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Package: r-cran-speaq Architecture: all Version: 2.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4552 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-bioc-massspecwavelet, r-cran-cluster, r-cran-dosnow, r-cran-data.table, r-cran-foreach, r-cran-rfast, r-cran-ggplot2, r-cran-gridextra, r-cran-reshape2, r-cran-rvest, r-cran-xml2, r-cran-missforest, r-bioc-impute Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-gridbase Filename: pool/dists/focal/main/r-cran-speaq_2.7.0-1.ca2004.1_all.deb Size: 3532012 MD5sum: 2cbc264e866be531c575985f33483b07 SHA1: b977443db9efffe14a818eeb2f1dba45f5667dcc SHA256: 1f8749df1dd82099364cb2c2e802793a26d87d6222b7079dc53dccb91d9a316b SHA512: fd82a08742c428b513907d65ec0ec96514085515cd017ebf1e6235c056af43f0c286e3f1aa251571453dc2acc44bf17dd332c842d27254eef38178df9295b70d Homepage: https://cran.r-project.org/package=speaq Description: CRAN Package 'speaq' (Tools for Nuclear Magnetic Resonance (NMR) Spectra Alignment,Peak Based Processing, Quantitative Analysis and Visualizations) Makes Nuclear Magnetic Resonance spectroscopy (NMR spectroscopy) data analysis as easy as possible by only requiring a small set of functions to perform an entire analysis. 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Package: r-cran-spec Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-encode, r-cran-csv, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-spec_0.1.9-1.ca2004.1_all.deb Size: 102284 MD5sum: e28b8aa769e38ed13389e13c8085e2a9 SHA1: a7cedf0686a835a89df65000198095b83ccc60d9 SHA256: acc0750f55f77b02f9033d206fa541eebbceb01f664a2e20c7c717cd23567bba SHA512: 6f3e8e10e2e1ed134257c5c081b022e49acee7f0b2f51e72081addef3b7fb91b3f62078069b21ddad68b452eff713cc870be98e9e081e2c3bdf932fbff52bac9 Homepage: https://cran.r-project.org/package=spec Description: CRAN Package 'spec' (A Data Specification Format and Interface) Creates a data specification that describes the columns of a table (data.frame). Provides methods to read, write, and update the specification. Checks whether a table matches its specification. 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Includes a spectral clustering implementation, a locally adapted kernel function akin to what is already proposed in kernlab, and an optional procedure that automatically estimates the optimal number of clusters. Several sample data sets are also included. 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It improves upon existing offerings with additional features and 'tidyverse' integration. Users can easily visualize and evaluate how their models behave under different specifications with a high degree of customization. For a description and applications of specification curve analysis see Simonsohn, Simmons, and Nelson (2020) . Package: r-cran-specdetec Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-abind Filename: pool/dists/focal/main/r-cran-specdetec_1.0.0-1.ca2004.1_all.deb Size: 63916 MD5sum: 09ef00b332c702e3b9bfc9acf69ecbe9 SHA1: 4144fbec94b29e7a88810a21654811c255e4e3be SHA256: 253c810d8f47a20b108efce0ba9af9181a8b5461f0bc44168754b4821d736b08 SHA512: d104d6b29bbc9253309308b1b016f0dc97fbeea4c46170da11391c14f9fdc855b5bc34efb54ac6d56ed845a883a479b0b4e8be51efdf2b46537859f55f8f6d18 Homepage: https://cran.r-project.org/package=SpecDetec Description: CRAN Package 'SpecDetec' (Change Points Detection with Spectral Clustering) Calculate change point based on spectral clustering with the option to automatically calculate the number of clusters if this information is not available. 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Package: r-cran-specieschrom Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-colorramps, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-abind Filename: pool/dists/focal/main/r-cran-specieschrom_1.0.0-1.ca2004.1_all.deb Size: 100892 MD5sum: bb9b7f17901abb2169ff0b4eaa9336ff SHA1: 69dd00791abc5c31e2e8b3dcdfa5a6ce46e242e1 SHA256: c22dd0289c3efb485abb0dad862985d542447b5d52dc3a98b01d233d4e3429f1 SHA512: 7b00cf796cf6282c978db08f37d1d78e83f6c7f7ac7e2a2284f602497a982bc4d8cf6e5697eac871efce90ca68130b3f47da3130ccce50263543f206843c946a Homepage: https://cran.r-project.org/package=specieschrom Description: CRAN Package 'specieschrom' (The Species Chromatogram) A simple method to display and characterise the multidimensional ecological niche of a species. The method also estimates the optimums and amplitudes along each niche dimension. 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Package: r-cran-speck Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4514 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ckmeans.1d.dp, r-cran-magrittr, r-cran-matrix, r-cran-rsvd, r-cran-seurat Suggests: r-cran-ggplot2, r-cran-gridextra, r-cran-knitr, r-cran-rmarkdown, r-cran-seuratobject, r-cran-usethis Filename: pool/dists/focal/main/r-cran-speck_1.0.0-1.ca2004.1_all.deb Size: 4514216 MD5sum: b3a1d1175b6e742f980742f96fa18053 SHA1: 0af169568841aa900bf372ca92136eac7b712115 SHA256: 1ec448194dfb4d2f5da7c9f2de94ed48e216a8e20990563d94d3530f48422d5b SHA512: 5d8c04fb6a73a8d1c95025799d3810ea2463660abfb98e6154d526bb7f1889764d2bba7c06046f49de7b745da2659609802114248c3c89a913fc3162eef38e9b Homepage: https://cran.r-project.org/package=SPECK Description: CRAN Package 'SPECK' (Receptor Abundance Estimation using Reduced Rank Reconstructionand Clustered Thresholding) Surface Protein abundance Estimation using CKmeans-based clustered thresholding ('SPECK') is an unsupervised learning-based method that performs receptor abundance estimation for single cell RNA-sequencing data based on reduced rank reconstruction (RRR) and a clustered thresholding mechanism. Seurat's normalization method is described in: Hao et al., (2021) , Stuart et al., (2019) , Butler et al., (2018) and Satija et al., (2015) . Method for the RRR is further detailed in: Erichson et al., (2019) and Halko et al., (2009) . Clustering method is outlined in: Song et al., (2020) and Wang et al., (2011) . Package: r-cran-specr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3778 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-broom, r-cran-cowplot, r-cran-dplyr, r-cran-furrr, r-cran-future, r-cran-ggplot2, r-cran-ggraph, r-cran-glue, r-cran-igraph, r-cran-lifecycle, r-cran-lme4, r-cran-magrittr, r-cran-parallelly, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-broom.mixed, r-cran-gapminder, r-cran-ggridges, r-cran-knitr, r-cran-lavaan, r-cran-testthat, r-cran-tidyverse, r-cran-performance, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-specr_1.0.0-1.ca2004.1_all.deb Size: 2331000 MD5sum: 854ca36a57585def74006b18152d970a SHA1: c8afec4a018c92f0be757b95e0bbe200a0507bf0 SHA256: 931e368f4940e2633fe3567ed2a4319a7c0e56e8b52e9112d6936b6c30d97162 SHA512: effa6e911670c86767abf1779d838ce112a77913f2f48746a362a6544671a6c40fb970ecbcd7e10e59fa2f7645e129ac97839e7b8f45f866a567f7775d2e5151 Homepage: https://cran.r-project.org/package=specr Description: CRAN Package 'specr' (Conducting and Visualizing Specification Curve Analyses) Provides utilities for conducting specification curve analyses (Simonsohn, Simmons & Nelson (2020, ) or multiverse analyses (Steegen, Tuerlinckx, Gelman & Vanpaemel, 2016, ) including functions to setup, run, evaluate, and plot all specifications. Package: r-cran-spect Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-futile.logger, r-cran-dplyr, r-cran-doparallel, r-cran-ggplot2, r-cran-survminer, r-cran-riskregression, r-cran-caret, r-cran-caretensemble, r-cran-survival, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-randomforest, r-cran-kernlab, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spect_1.0-1.ca2004.1_all.deb Size: 146416 MD5sum: 9b0b78523fc8e6d4324c7159b8c77b61 SHA1: 2677d2e0370af6d900448e33f56bdf0a8b3b6715 SHA256: b662054138d155d9613f9accd6fd8002fa552e6ad4c728a55a4f5b55299d22fe SHA512: 610aabd21bde2316edf06404572865fe533a9870030ed672dfbce9b23e17b77715d69c827151f009d0331895bc917158529064dbc4928b5735a3d90ba83e6dae Homepage: https://cran.r-project.org/package=spect Description: CRAN Package 'spect' (Survival Prediction Ensemble Classification Tool) A tool for survival analysis using a discrete time approach with ensemble binary classification. 'spect' provides a simple interface consistent with commonly used R data analysis packages, such as 'caret', a variety of parameter options to help facilitate search automation, a high degree of transparency to the end-user - all intermediate data sets and parameters are made available for further analysis and useful, out-of-the-box visualizations of model performance. Methods for transforming survival data into discrete-time are adapted from the 'autosurv' package by Suresh et al., (2022) . Package: r-cran-spectacles Architecture: all Version: 0.5-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2427 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-plyr, r-cran-reshape2, r-cran-stringr, r-cran-baseline, r-cran-signal, r-cran-epir Suggests: r-cran-caret, r-cran-pls, r-cran-rcolorbrewer, r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-spectacles_0.5-4-1.ca2004.1_all.deb Size: 2155276 MD5sum: fdf7053f91b2aba8e5987c76456da044 SHA1: 2b5afb6a736ff3f69fea95bee00f31431a3b9256 SHA256: 2621194311dcde51427ee80d1a5f5b02ca74a7e3dbf993a8f536b2e5eabb2853 SHA512: 69d4a67ba7af8230c6c4ed2f465989ec357cbf10c470bdb329e2e9bf60d72ef9eaeccb2b73c397a7efe24af2a70ad3a48ab931a33acedf26509bebdd30ef99cb Homepage: https://cran.r-project.org/package=spectacles Description: CRAN Package 'spectacles' (Storing, Manipulating and Analysis Spectroscopy and AssociatedData) Stores and eases the manipulation of spectra and associated data, with dedicated classes for spatial and soil-related data. Package: r-cran-spectator Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 249 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-geojsonsf, r-cran-httr, r-cran-sf Suggests: r-cran-calendar, r-cran-calendr, r-cran-httptest, r-cran-knitr, r-cran-lubridate, r-cran-lutz, r-cran-maps, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spectator_0.2.0-1.ca2004.1_all.deb Size: 104612 MD5sum: ab1ff595906d33b21d6e2ae127d91592 SHA1: a155d84b644bb62c1e69d0c5d2fdc31acb20e309 SHA256: 29a3f27a262c6e53c464371b61b2659184065103d27a203d06cae98975a7eb30 SHA512: aa0e65872571294d4013ce5f7a174657c14437561b269f7360e06525b0904ca58578b5e9d04b08c38de1a25ba46ea05e2d496626c5b5262735b9f18ee98d8203 Homepage: https://cran.r-project.org/package=spectator Description: CRAN Package 'spectator' (Interface to the 'Spectator Earth' API) Provides interface to the 'Spectator Earth' API , mainly for obtaining the acquisition plans and satellite overpasses for Sentinel-1, Sentinel-2, Landsat-8 and Landsat-9 satellites. Current position and trajectory can also be obtained for a much larger set of satellites. It is also possible to search the archive for available images over the area of interest for a given (past) period, get the URL links to download the whole image tiles, or alternatively to download the image for just the area of interest based on selected spectral bands. Package: r-cran-spectr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-foreach, r-cran-lomb Suggests: r-cran-doparallel, r-cran-knitr, r-cran-qs, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spectr_1.0.1-1.ca2004.1_all.deb Size: 22188 MD5sum: f5cbb9de34b2421e35ee84040128e856 SHA1: 320e11d8b2a01ad70802e7aa05160c68bb1da16e SHA256: da00c5122f87b51b2f4e17f0f6e8d22caaa9daeffd1e981299283c29abeb6189 SHA512: dc87079cc87f88853bc58f56abdd7b4991401cad5fdafe027e613ea6ece649e0d948a510c8bfe79efd1a4af2c73692b019de9119ecb379d2d48246c3189b0013 Homepage: https://cran.r-project.org/package=spectr Description: CRAN Package 'spectr' (Calculate the Periodogram of a Time-Course) Provides a consistent interface to use various methods to calculate the periodogram and estimate the period of a rhythmic time-course. Methods include Lomb-Scargle, fast Fourier transform, and three versions of the chi-square periodogram. See Tackenberg and Hughey (2021) . Package: r-cran-spectral Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 185 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rasterimage, r-cran-lattice, r-cran-rhpcblasctl, r-cran-pbapply Filename: pool/dists/focal/main/r-cran-spectral_2.0-1.ca2004.1_all.deb Size: 154048 MD5sum: 4be129bc0949fee126d439a38efffe1b SHA1: 8cf0a2aa93c329dd8586e1a674266d3de6c32974 SHA256: 8538330686472da40ae8cb4b0354a9fff3e5eb21d300d22d3353394c4f290b9f SHA512: bb4eada3adcbdc57d2d7dad510842e353c021c6e4bbdaf5580ad5e674a0dd21d02495687c4877d7372ca3e5a8f087ae71d63d74169c8fad43a41bf5dcbd4f9d0 Homepage: https://cran.r-project.org/package=spectral Description: CRAN Package 'spectral' (Common Methods of Spectral Data Analysis) On discrete data spectral analysis is performed by Fourier and Hilbert transforms as well as with model based analysis called Lomb-Scargle method. Fragmented and irregularly spaced data can be processed in almost all methods. Both, FFT as well as LOMB methods take multivariate data and return standardized PSD. For didactic reasons an analytical approach for deconvolution of noise spectra and sampling function is provided. A user friendly interface helps to interpret the results. Package: r-cran-spectralanalysis Architecture: all Version: 4.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6126 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-baseline, r-bioc-biocgenerics, r-cran-data.table, r-cran-ggplot2, r-cran-jsonlite, r-cran-magrittr, r-cran-nnls, r-cran-nmf, r-cran-plotly, r-cran-plyr, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-signal, r-cran-viridis, r-cran-hnmf, r-cran-zoo, r-cran-pls Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-webshot, r-cran-bookdown Filename: pool/dists/focal/main/r-cran-spectralanalysis_4.3.3-1.ca2004.1_all.deb Size: 2057656 MD5sum: a808d802bc29d0ea54eb9876b9c3d32f SHA1: 7b8173637861e28b51de0d01b662a7cf78a0ddaf SHA256: 9b866b56727010176c43a0acf4ee9bda5e9d1738df0b8fc5331aeb53237f5b5b SHA512: e500456a0219ba4c4cdacf5709bf9c207af0be4820b792f7a4ac66e7a4a5b493dcc2dea0a85abbead03610cb6e73b762cae00527f219de25488ed751416cd0f0 Homepage: https://cran.r-project.org/package=spectralAnalysis Description: CRAN Package 'spectralAnalysis' (Pre-Process, Visualize and Analyse Spectral Data) Infrared, near-infrared and Raman spectroscopic data measured during chemical reactions, provide structural fingerprints by which molecules can be identified and quantified. The application of these spectroscopic techniques as inline process analytical tools (PAT), provides the pharmaceutical and chemical industry with novel tools, allowing to monitor their chemical processes, resulting in a better process understanding through insight in reaction rates, mechanistics, stability, etc. Data can be read into R via the generic spc-format, which is generally supported by spectrometer vendor software. Versatile pre-processing functions are available to perform baseline correction by linking to the 'baseline' package; noise reduction via the 'signal' package; as well as time alignment, normalization, differentiation, integration and interpolation. Implementation based on the S4 object system allows storing a pre-processing pipeline as part of a spectral data object, and easily transferring it to other datasets. Interactive plotting tools are provided based on the 'plotly' package. Non-negative matrix factorization (NMF) has been implemented to perform multivariate analyses on individual spectral datasets or on multiple datasets at once. NMF provides a parts-based representation of the spectral data in terms of spectral signatures of the chemical compounds and their relative proportions. See 'hNMF'-package for references on available methods. The functionality to read in spc-files was adapted from the 'hyperSpec' package. Package: r-cran-spectralanomaly Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-spectralanomaly_0.1.1-1.ca2004.1_all.deb Size: 85120 MD5sum: a8794f2dc9b7095b927db80a16ea01a2 SHA1: c22b93cd31315b9fdd2e289100204a036f82cf58 SHA256: 94d8582eee1975995aa113e4c729776a42b52d4fe4bc6eb9fca91854a5d14ea4 SHA512: 79fa984f7b4e1cc910f303a0b3d4dd9a99399be3737e53f405da8d8c86a03b97a314d656f411c89740047f2fecccb6fb3c75be8853d008e08beee23793f6c6a9 Homepage: https://cran.r-project.org/package=spectralAnomaly Description: CRAN Package 'spectralAnomaly' (Detect Anomalies Using the Spectral Residual Algorithm) Apply the spectral residual algorithm to data, such as a time series, to detect anomalies. Anomaly scores can be used to determine outliers based upon a threshold or fed into more sophisticated prediction models. Methods are based upon "Time-Series Anomaly Detection Service at Microsoft", Ren, H., Xu, B., Wang, Y., et al., (2019) . 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It uses R environments to store GP objects as references/pointers. Package: r-cran-spectralmap Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-scatterplot3d, r-cran-fields Filename: pool/dists/focal/main/r-cran-spectralmap_1.0-1.ca2004.1_all.deb Size: 14336 MD5sum: 40042a1a4f55b888d0fd77e2466018aa SHA1: f27f81a78569bf82f79abc5b1adb0a0ec49b6490 SHA256: 5d6c276fb378df782ec0a8dce5254830943df69c3c2cc0b92e9788ee47a5e39f SHA512: 01df36c903727d00ccd75ec10036f553d383cc1c515d52997936fb46483f9f437975ab63b7d0cfdae68633dcb960f24659d2b9c5153276dbdf84cfacdc2ef2b0 Homepage: https://cran.r-project.org/package=SpectralMap Description: CRAN Package 'SpectralMap' (Diffusion Map and Spectral Map) Implements the diffusion map method of dimensionality reduction and spectral method of combining multiple diffusion maps, including creation of the spectra and visualization of maps. Package: r-cran-spectralr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1124 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rgee, r-cran-geojsonio, r-cran-sf, r-cran-dplyr, r-cran-ggplot2, r-cran-reshape2, r-cran-rlang, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-spectralr_0.1.3-1.ca2004.1_all.deb Size: 949764 MD5sum: aeb9e7029385dd4fb78ec1eea22e01e3 SHA1: 01d26eefc82eae0448f962434bc7fb7f3cf5b29e SHA256: de4970c6117b1ec3dae261bc948de275696cfd05eb98bfca81577ea0b2464c5c SHA512: fa04821b6cc34ad30329a2d96b712f82a1826679bd2557bb2488c4b407bfef0d1cf92c727ec444e31d3c05454469fce0fce8686e01cda92b33a0c6d6084018ca Homepage: https://cran.r-project.org/package=spectralR Description: CRAN Package 'spectralR' (Obtain and Visualize Spectral Reflectance Data for Earth SurfacePolygons) Tools for obtaining, processing, and visualizing spectral reflectance data for the user-defined land or water surface classes for visual exploring in which wavelength the classes differ. Input should be a shapefile with polygons of surface classes (it might be different habitat types, crops, vegetation, etc.). The Sentinel-2 L2A satellite mission optical bands pixel data are obtained through the Google Earth Engine service () and used as a source of spectral data. Package: r-cran-spectran Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3199 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-chromote, r-cran-colorspec, r-cran-cowplot, r-cran-dplyr, r-cran-gghighlight, r-cran-ggplot2, r-cran-ggrepel, r-cran-ggridges, r-cran-ggtext, r-cran-gt, r-cran-htmltools, r-cran-magrittr, r-cran-openxlsx, r-cran-pagedown, r-cran-patchwork, r-cran-png, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-scales, r-cran-shiny, r-cran-shinyalert, r-cran-shinydashboard, r-cran-shinyfeedback, r-cran-shinyjs, r-cran-shinywidgets, r-cran-spacesxyz, r-cran-spscomps, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tidyselect, r-cran-waiter, r-cran-webshot2, r-cran-withr Suggests: r-cran-config, r-cran-here, r-cran-magick, r-cran-pkgload, r-cran-readxl, r-cran-rhub, r-cran-rmarkdown, r-cran-rsconnect Filename: pool/dists/focal/main/r-cran-spectran_1.0.6-1.ca2004.1_all.deb Size: 2707752 MD5sum: 6a6308406bebc13470049279138553b1 SHA1: d139bd1f440741224b535ed294a530df86e31026 SHA256: b34cfebb3285b008252959ece6f46a330743916899da116330822a4863216663 SHA512: d3d4ae4ff3a95a1c7195943bbd4cdc48338ed8de2664bcd5d170736a090e476b4312235779063d97a6b6f9b474064a52f9faa6d9203be9f08f9dc2f2921849ee Homepage: https://cran.r-project.org/package=Spectran Description: CRAN Package 'Spectran' (Visual and Non-Visual Spectral Analysis of Light) Analyse light spectra for visual and non-visual (often called melanopic) needs, wrapped up in a Shiny App. 'Spectran' allows for the import of spectra in various CSV forms but also provides a wide range of example spectra and even the creation of own spectral power distributions. The goal of the app is to provide easy access and a visual overview of the spectral calculations underlying common parameters used in the field. It is thus ideal for educational purposes or the creation of presentation ready graphs in lighting research and application. 'Spectran' uses equations and action spectra described in CIE S026 (2018) , DIN/TS 5031-100 (2021) , and ISO/CIE 23539 (2023) . 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Implements an S3 class spectra that other packages can build on. Provides methods to access, plot, manipulate, splice sensor overlap, vector normalize and smooth spectra. Package: r-cran-spectrum Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3897 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-clusterr, r-cran-rfast, r-cran-diptest Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-spectrum_1.1-1.ca2004.1_all.deb Size: 3586568 MD5sum: df86373866b36f916bd8e900fa7e85b1 SHA1: 33745fdacea7796d1a4d513dfcabe2a070004d9e SHA256: 7f5a6a64c26cbac81a43ed36a3bb08222c755884977730c7a250e279ee19d350 SHA512: b9f36b2b2f60e4d601e39084f43f74c95336a731acac90a6baf533a6505300aeb77b0d04a8b9a2a369ad496a864c9f9f155ac4782203c314dc2597e76195ca9a Homepage: https://cran.r-project.org/package=Spectrum Description: CRAN Package 'Spectrum' (Fast Adaptive Spectral Clustering for Single and Multi-View Data) A self-tuning spectral clustering method for single or multi-view data. 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The method improves efficiency by leveraging baseline predictors of the endpoint. The inverse probability weighting technique of Robins, Rotnitzky, and Zhao (JASA, 1994) is used to provide unbiased estimation when the endpoint is missing at random. 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Package: r-cran-spev Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spev_1.0.0-1.ca2004.1_all.deb Size: 15676 MD5sum: 203d1e34dc918f44ffb312e72f216280 SHA1: 9cbded8454644c3eefd0b26a5cdf8673b0ce850b SHA256: 72e64ae34cae1b72000df5d260d48db40cdcc9454f5a7d60d6361990faa18bac SHA512: 54e70a363ee56e3173f92f34c976915870a740a79a48ce839b7dc668610fe34d45e864e30437e07492c19a8dc65e756e0648cc6af44c641a2e74ae742a8894d3 Homepage: https://cran.r-project.org/package=SPEV Description: CRAN Package 'SPEV' (Unsmoothed and Smoothed Penalized PCA using Nesterov Smoothing) We provide functionality to implement penalized PCA with an option to smooth the objective function using Nesterov smoothing. Two functions are available to compute a user-specified number of eigenvectors. 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Package: r-cran-spex Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-quadmesh, r-cran-raster, r-cran-reproj, r-cran-sp, r-cran-crsmeta Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spex_0.7.1-1.ca2004.1_all.deb Size: 124912 MD5sum: acb2027b33c997f849d986bdb2c743e7 SHA1: cae04d96de80de75d221211e1fa933ebcabc6eb3 SHA256: b9f275946f3f29a993f81fa9b9e91332d9f74cd883dca4b85dc86979003f8503 SHA512: addbfd7dcde0a6895ceb0ba98a52fecdbea7829adaf0f371ea16223c08de8ab62e5a10e3cccecc5664e0aa4cb00316f6a2fda8cdc474325a83ccff6f94980e9d Homepage: https://cran.r-project.org/package=spex Description: CRAN Package 'spex' (Spatial Extent Tools) Functions to produce a fully fledged 'geo-spatial' object extent as a 'SpatialPolygonsDataFrame'. 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Package: r-cran-spfda Architecture: all Version: 0.9.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mathjaxr Suggests: r-cran-grpreg, r-cran-refund Filename: pool/dists/focal/main/r-cran-spfda_0.9.2-1.ca2004.1_all.deb Size: 62096 MD5sum: 8a8bcb29172d0bb079553c3c3ce138a8 SHA1: 25709d96275b22f2044c6c0672f360ba9f660d5c SHA256: dbff1a2a2884b5ae7f989452ded1a884ed21e77766151e9d0caa6569042c930f SHA512: 7544b99e3773084f52efbd526dc5caf048a3fbff1fab8b46b098dc98a82fd6bafd5aef6b51d4f402224ec04f6dc608e1074b1689dc60addb7a39577edb156f50 Homepage: https://cran.r-project.org/package=spfda Description: CRAN Package 'spfda' (Function-on-Scalar Regression with Group-Bridge Penalty) Implements a group-bridge penalized function-on-scalar regression model proposed by Wang et al. (2023) , to simultaneously estimate functional coefficient and recover the local sparsity. Package: r-cran-spfilter Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spfilter_2.1.0-1.ca2004.1_all.deb Size: 175556 MD5sum: 80e5eb0a0d9b879aa6640c5c1ae8284c SHA1: c26fd33d3afe4c78379d7c15b8cd757b922b00de SHA256: 88931a9ddd12ab402778aa00aaff767a7ed9fc263d8361429c7ea3670816ecba SHA512: b46e774d5644c097a367bb81508ad9f36321a1546afd1ce9274f8041d947010ed5b5f12ab49b86660cada0633233ff8fba8c53677ef632f279a1080fce1f84b0 Homepage: https://cran.r-project.org/package=spfilteR Description: CRAN Package 'spfilteR' (Semiparametric Spatial Filtering with Eigenvectors in(Generalized) Linear Models) Tools to decompose (transformed) spatial connectivity matrices and perform supervised or unsupervised semiparametric spatial filtering in a regression framework. 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Package: r-cran-spflow Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 994 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda, r-cran-matrix, r-cran-rspectra, r-cran-rdpack Suggests: r-cran-covr, r-cran-knitr, r-cran-sf, r-cran-sp, r-cran-spdep, r-cran-tinytest, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spflow_0.1.0-1.ca2004.1_all.deb Size: 758420 MD5sum: c6ce19a7c81991ee58fb364e0e4a100f SHA1: e52dc8451c7334236ec0f212b4c17955cf81bf02 SHA256: 349c706f046b960a7d46719e24380943b98596d5c2f76f4cd023b8e5ff132b8b SHA512: b92099c6b4406a729e7680ae83d4a6edc54469784ba531e48591836dc67f8ee7642b2007c1cca9ab002d15190874635d9e396ee2b4314d165c30744cd5a942a5 Homepage: https://cran.r-project.org/package=spflow Description: CRAN Package 'spflow' (Spatial Econometric Interaction Models) Efficient estimation of spatial econometric models of origin-destination flows, which may exhibit spatial autocorrelation in the dependent variable, the explanatory variables or both. The model is the one proposed by LeSage and Pace (2008) , who develop a matrix formulation that exploits the relational structure of flow data. The estimation procedures follow most closely those outlined by Dargel (2021) (preprint available at ). 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The SPSA-FSR algorithm searches for a locally optimal set of features that yield the best predictive performance using some error measures such as mean squared error (for regression problems) and accuracy rate (for classification problems). Package: r-cran-spgrass6 Architecture: all Version: 0.8-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 489 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp, r-cran-xml Suggests: r-cran-rgdal Filename: pool/dists/focal/main/r-cran-spgrass6_0.8-9-1.ca2004.1_all.deb Size: 399708 MD5sum: cad97ff8fe553c0567948276d4119cbc SHA1: 90d0d489d4b5859269719c2d7afa400aa96f66f8 SHA256: 1a88df58722a78558e98b102e92790b2c99e003c87f48a11db27d6490f583404 SHA512: e367c9e804874966fd217fa34dae039e134b12a9443c0544451671a246f2fbbf80e667ece6a9181f41c81379d8593b262fa3d9d8ddba72a615ce46437a136615 Homepage: https://cran.r-project.org/package=spgrass6 Description: CRAN Package 'spgrass6' (Interface Between GRASS 6+ Geographical Information System and R) Interpreted interface between GRASS 6+ geographical information system and R, based on starting R from within the GRASS environment, or running free-standing R in a temporary GRASS location; the package provides facilities for using all GRASS commands from the R command line. This package may not be used for GRASS 7, for which rgrass7 should be used. Package: r-cran-spheredata Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 222 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spheredata_0.1.3-1.ca2004.1_all.deb Size: 171616 MD5sum: 7fac8b9ba486f0f52eb2a0b0c819dd6d SHA1: 034d5a55818ae6767634d5fa950027ad9c328f9c SHA256: 5538283e8a99b9029864b21b7e9efcc851c8ad05a9898d981bfb29d7abe9ed08 SHA512: 5457900deccff8d62c798dce973010f53652f5e5cd01c3443092f074f33c320e5a94eacb1aacafb8281815ccf54b96ed1730ba11885fef509af57cb336836a5a Homepage: https://cran.r-project.org/package=spheredata Description: CRAN Package 'spheredata' (Students' Performance Dataset in Physics Education Research(SPHERE)) A multidimensional dataset of students' performance assessment in high school physics. The SPHERE dataset was collected from 497 students in four public high schools specifically measuring their conceptual understanding, scientific ability, and attitude toward physics [see Santoso et al. (2024) ]. The data collection was conducted using some research based assessments established by the physics education research community. They include the Force Concept Inventory, the Force and Motion Conceptual Evaluation, the Rotational and Rolling Motion Conceptual Survey, the Fluid Mechanics Concept Inventory, the Mechanical Waves Conceptual Survey, the Thermal Concept Evaluation, the Survey of Thermodynamic Processes and First and Second Laws, the Scientific Abilities Assessment Rubrics, and the Colorado Learning Attitudes about Science Survey. Students' attributes related to gender, age, socioeconomic status, domicile, literacy, physics identity, and test results administered using teachers' developed items are also reported in this dataset. Package: r-cran-sphereml Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 303 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-shiny, r-cran-shinydashboard, r-cran-spheredata, r-cran-lavaan, r-cran-semplot, r-cran-ctt, r-cran-mirt, r-cran-shinycssloaders, r-cran-fselectorrcpp, r-cran-randomforest, r-cran-caret, r-cran-catools, r-cran-proc, r-cran-ga, r-cran-readxl Filename: pool/dists/focal/main/r-cran-sphereml_0.1.1-1.ca2004.1_all.deb Size: 194820 MD5sum: 25963242c43f27dee8facae395246325 SHA1: 6670ea6c7c8f353bd7f37c3cfa49d392eb8e62b3 SHA256: 9f2ae34866bfe177c588790be0bce72842a47ec967425b071b19f1b8e6051bf0 SHA512: f035d0dcf18a80ee0019830d8072b5834128d6e45520f1bcd09e36d7f8cba324e2df2cde3ad2409588889ff58fa3b0e7afa599aff105d00fbebaeb88ee5906aa Homepage: https://cran.r-project.org/package=sphereML Description: CRAN Package 'sphereML' (Analyzing Students' Performance Dataset in Physics EducationResearch (SPHERE) using Machine Learning (ML)) A simple package facilitating ML based analysis for physics education research (PER) purposes. The implemented machine learning technique is random forest optimized by item response theory (IRT) for feature selection and genetic algorithm (GA) for hyperparameter tuning. The data analyzed here has been made available in the CRAN repository through the 'spheredata' package. The SPHERE stands for Students' Performance in Physics Education Research (PER). The students are the eleventh graders learning physics at the high school curriculum. We follow the stream of multidimensional students' assessment as probed by some research based assessments in PER. The goal is to predict the students' performance at the end of the learning process. Three learning domains are measured including conceptual understanding, scientific ability, and scientific attitude. Furthermore, demographic backgrounds and potential variables predicting students' performance on physics are also demonstrated. Package: r-cran-sphereoptimize Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sphereoptimize_0.1.1-1.ca2004.1_all.deb Size: 16876 MD5sum: 9a97a3bf9aa8ca776f2816db70b9f087 SHA1: 20f4da9d3630ad130080d9920fae27477b785b54 SHA256: 1363003a3456a75194c9cfccf974e33de5fd013cc91d556a731da3d8c632a532 SHA512: f2156fcc9379e72651a7735061064924640c5b1c5f030216424f74020ad22eb13bc668786fb0c629cd06890283678b6565af92f28ae73f3019b7b40f36272f56 Homepage: https://cran.r-project.org/package=SphereOptimize Description: CRAN Package 'SphereOptimize' (Optimization on a Unit Sphere) A simple tool for numerical optimization on the unit sphere. This is achieved by combining the spherical coordinating system with L-BFGS-B optimization. This algorithm is implemented in Kolkiewicz, A., Rice, G., & Xie, Y. (2020) . Package: r-cran-spherepc Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 145 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-geosphere, r-cran-rgl, r-cran-sphereplot Filename: pool/dists/focal/main/r-cran-spherepc_0.1.7-1.ca2004.1_all.deb Size: 113232 MD5sum: 7eb8cb45c3574ddfa1d662dd51488070 SHA1: bff60a13f33c7950a507c53688f90ebe54c25c10 SHA256: 3862f7e21b1257fc7cc4473ae7fcf80285dfb77cfa806e53852e03b1096adca0 SHA512: 44af4bc84737f4219b8ca4b1ea31691ae7a4116000d6cc24d44b3233e6e9f47e1db9bbdebd12a525cd92405e0a278569487a8253220bd3f3df939fbd558f76c2 Homepage: https://cran.r-project.org/package=spherepc Description: CRAN Package 'spherepc' (Spherical Principal Curves) Fitting dimension reduction methods to data lying on two-dimensional sphere. This package provides principal geodesic analysis, principal circle, principal curves proposed by Hauberg, and spherical principal curves. Moreover, it offers the method of locally defined principal geodesics which is underway. The detailed procedures are described in Lee, J., Kim, J.-H. and Oh, H.-S. (2021) . Also see Kim, J.-H., Lee, J. and Oh, H.-S. (2020) . Package: r-cran-sphereplot Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rgl Filename: pool/dists/focal/main/r-cran-sphereplot_1.5.1-1.ca2004.1_all.deb Size: 41476 MD5sum: ce6b31e1868d75fbcfd3e61f0be360c4 SHA1: 5d54c51b002e9a1140cbc972e6afea12d2dc9280 SHA256: bfdd85a27888ec86bdeb57fbf28fd29536ea0f0413b5c165329649b87828a383 SHA512: fbd920ec2fadc521775b12d10afcf4567fa503f8339b941002fb8205b6d6588de30feeb83def974244ecfebad4141c0d44a18d8a8e4b6017cbcd419df54b1ca2 Homepage: https://cran.r-project.org/package=sphereplot Description: CRAN Package 'sphereplot' (Spherical Plotting) Various functions for creating spherical coordinate system plots via extensions to rgl. Package: r-cran-spheresmooth Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-sphereplot, r-cran-rgl, r-cran-ggplot2, r-cran-rworldmap, r-cran-sf Filename: pool/dists/focal/main/r-cran-spheresmooth_0.1.3-1.ca2004.1_all.deb Size: 219684 MD5sum: 7e197e09bb9b314368e35a65ecce242e SHA1: 626b2368e7965c4b5a0b98add7aa311603e1d37e SHA256: 101bd69ecc592293b3d752a9a3ea2283160cd75547bbc26c19caed06bdae039d SHA512: 39e46ed0a053b554d5178e5fa4f1e50755b8585b3b5ec85e48cbb8901e32dcfbf4b0319859bf77ffbae1b2b39321cfe8e18faed0747ce6591d1b12bb83f0edf5 Homepage: https://cran.r-project.org/package=spheresmooth Description: CRAN Package 'spheresmooth' (Piecewise Geodesic Smoothing for Spherical Data) Fitting a smooth path to a given set of noisy spherical data observed at known time points. It implements a piecewise geodesic curve fitting method on the unit sphere based on a velocity-based penalization scheme. The proposed approach is implemented using the Riemannian block coordinate descent algorithm. To understand the method and algorithm, one can refer to Bak, K. Y., Shin, J. K., & Koo, J. Y. (2023) for the case of order 1. Additionally, this package includes various functions necessary for handling spherical data. Package: r-cran-sphericalcubature Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cubature, r-cran-simplicialcubature, r-cran-mvmesh, r-cran-abind Filename: pool/dists/focal/main/r-cran-sphericalcubature_1.5-1.ca2004.1_all.deb Size: 101260 MD5sum: 015e5d954f9d5fdee659d2dd72069e85 SHA1: 41792af65566d9d00853a9f03ff80ee5b27d715f SHA256: 4da720de2db4cfd2f6c550408db2f4f20e2d5987ff722e0a065a61db2abc0356 SHA512: acf5cadc598a2fcfc4fde2ca171815da39b9283155d5897052149389dc069c1798f6231bc1e5ed71e0f27ce18fc153e58f181d5c6225e9eeaa378393a2e3c2e9 Homepage: https://cran.r-project.org/package=SphericalCubature Description: CRAN Package 'SphericalCubature' (Numerical Integration over Spheres and Balls in n-Dimensions;Multivariate Polar Coordinates) Provides several methods to integrate functions over the unit sphere and ball in n-dimensional Euclidean space. Routines for converting to/from multivariate polar/spherical coordinates are also provided. Package: r-cran-sphericalk Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sphericalk_1.2-1.ca2004.1_all.deb Size: 36544 MD5sum: e459b31828c430a5b42a32be5bc93881 SHA1: 65ea5f58bf0b60272f95eb246c98010852555519 SHA256: 91d954c7e1e977dfcfe1ed4b50995325bd146e3512d5d5740d8949312558c67a SHA512: 82017a0014456a4978602fd706046e446896c7f0284c1f8939fcfcbaf68e17d5340a852b3c80622de114ac78fca1e736a1a6171aaafa4df062d94a463b4fdb86 Homepage: https://cran.r-project.org/package=SphericalK Description: CRAN Package 'SphericalK' (Spherical K-Function) Spherical K-function for point-pattern analysis on the sphere. Package: r-cran-sphet Architecture: all Version: 2.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 627 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlme, r-cran-spatialreg, r-cran-spdep, r-cran-matrix, r-cran-sp, r-cran-mvtnorm, r-cran-stringr, r-cran-coda, r-cran-spdata, r-cran-sf Filename: pool/dists/focal/main/r-cran-sphet_2.1-1-1.ca2004.1_all.deb Size: 543424 MD5sum: b5081068721b65c1121d161b2afaeac6 SHA1: 5fdf7773fca3c3c8cafb3632641bb6d8c54ac012 SHA256: c92d0272373bf01a7010dcab9c693cffa0c27232617c239d3ca2330f94b58e28 SHA512: 7ad842db2d7a2b46aaecd3b78e2a188e2fc0f5ed269ee858728f23790800c9a7929e338b40f9171a9a0f30e46b0deb76eff0681e355c249c0dedf6753b1e5040 Homepage: https://cran.r-project.org/package=sphet Description: CRAN Package 'sphet' (Estimation of Spatial Autoregressive Models with and withoutHeteroskedastic Innovations) Functions for fitting Cliff-Ord-type spatial autoregressive models with and without heteroskedastic innovations using Generalized Method of Moments estimation are provided. Some support is available for fitting spatial HAC models, and for fitting with non-spatial endogeneous variables using instrumental variables. Package: r-cran-spiassay Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spiassay_1.1.0-1.ca2004.1_all.deb Size: 34684 MD5sum: d3b8e41893ab9467eb4dcd4295d46465 SHA1: 9a4ba736b13f661c9da6b7a654ad25c4a081e5e4 SHA256: 4ce7d6faf14116c60070f598982d46cac313ee30d30b7415f6acc597bb23fe19 SHA512: 0a3152ddcf73ccd00d917bb47a89f7a2764994b9c7481008a578e9f5e55439ae24ed493d6e567fc92b71b3e3568a5b2456edb0ee9d3a76932e20c6363d7e19d8 Homepage: https://cran.r-project.org/package=SPIAssay Description: CRAN Package 'SPIAssay' (A Genetic-Based Assay for the Identification of Cell Lines) The SNP Panel Identification Assay (SPIA) is a package that enables an accurate determination of cell line identity from the genotype of single nucleotide polymorphisms (SNPs). The SPIA test allows to discern when two cell lines are close enough to be called similar and when they are not. Details about the method are available at "Demichelis et al. (2008) SNP panel identification assay (SPIA): a genetic-based assay for the identification of cell lines. Nucleic Acids Res., 3, 2446-2456". Package: r-cran-spicefp Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 872 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-stringr, r-cran-tidyr, r-cran-matrix, r-cran-genlasso, r-cran-purrr Suggests: r-cran-fields Filename: pool/dists/focal/main/r-cran-spicefp_0.1.2-1.ca2004.1_all.deb Size: 802588 MD5sum: 2265360001d60db8ad27f511343782cd SHA1: 06a47240df617d1e2ff56f9a8f8e4c844d3aabed SHA256: a98f85756a9669f3b5d9ce45b50ec2968679cc7cfe3a466b80a1a1c0da6c28e7 SHA512: f3d900b3a75dd587ac82447e9893e17a6dd570345374c4bed2b8c6c36e6bcc88bdef36f46ae22479cb529cc0ef9a8a7fdaec28a898718130743143a1a179f3bd Homepage: https://cran.r-project.org/package=SpiceFP Description: CRAN Package 'SpiceFP' (Sparse Method to Identify Joint Effects of Functional Predictors) A set of functions allowing to implement the 'SpiceFP' approach which is iterative. It involves transformation of functional predictors into several candidate explanatory matrices (based on contingency tables), to which relative edge matrices with contiguity constraints are associated. Generalized Fused Lasso regression are performed in order to identify the best candidate matrix, the best class intervals and related coefficients at each iteration. The approach is stopped when the maximal number of iterations is reached or when retained coefficients are zeros. Supplementary functions allow to get coefficients of any candidate matrix or mean of coefficients of many candidates. The methods in this package are describing in Girault Gnanguenon Guesse, Patrice Loisel, Bénedicte Fontez, Thierry Simonneau, Nadine Hilgert (2021) "An exploratory penalized regression to identify combined effects of functional variables -Application to agri-environmental issues" . Package: r-cran-spichanges Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 823 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-gamlss, r-cran-gamlss.dist, r-cran-lubridate, r-cran-mumin, r-cran-rlang, r-cran-spsutil, r-cran-brglm2, r-cran-zoo Suggests: r-cran-archive, r-cran-curl, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-ggplot2, r-cran-knitr, r-cran-ncdf4, r-cran-patchwork, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-roxyglobals, r-cran-sf, r-cran-purrr, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-spichanges_0.2.0-1.ca2004.1_all.deb Size: 400276 MD5sum: 57dbc1c7e427a6a7188e9f9b95af427b SHA1: def3c85c245f620e26e7d48284e9b562ab99fbe8 SHA256: 294919e0829b3c4c1a76884bb0d570c67b9ec760fac41ebd8de037b67740f122 SHA512: 6bf9cbe4a101c953c3dba7c1fbd060d4221c22bbec3d69ff47a102d32a8c0bec42b11feec83faf95bbede75c135a3a16bdb7516943dcec0140ca5c0d0cc91c0e Homepage: https://cran.r-project.org/package=SPIChanges Description: CRAN Package 'SPIChanges' (Improves the Interpretation of the Standardized PrecipitationIndex Under Changing Climate Conditions) Improves the interpretation of the Standardized Precipitation Index under changing climate conditions. The package uses the nonstationary approach proposed in Blain et al. (2022) to detect trends in rainfall quantities and to quantify the effect of such trends on the probability of a drought event occurring. Package: r-cran-spicy Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-clipr, r-cran-collapse, r-cran-dplyr, r-cran-haven, r-cran-labelled, r-cran-rlang, r-cran-stringi, r-cran-stringr, r-cran-tibble, r-cran-tidyselect Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-spicy_0.1.0-1.ca2004.1_all.deb Size: 135724 MD5sum: 2613d0053ccaabec3d93f60f2575c927 SHA1: e2299134ae1155819dfa7e95e15ba956fa38b1d5 SHA256: 50c26fafb3c3f3f4b4bfe24a769ad91d2f9219204fa4700b514c31792e0b243f SHA512: 22059056f043372214522d62e07748874812676087859a8a96dda3b10964a8d2b052c58b0fd211d0e132ccc70dc0f9f28a1785744a2ca9f43d7c2a539ef5681e Homepage: https://cran.r-project.org/package=spicy Description: CRAN Package 'spicy' (Descriptive Statistics and Data Management Tools) Extracts and summarizes metadata from data frames, including variable names, labels, types, and missing values. Computes compact descriptive statistics, frequency tables, and cross-tabulations to assist with efficient data exploration. Facilitates the identification of missing data patterns and structural issues in datasets. Designed to streamline initial data management and exploratory analysis workflows within 'R'. Package: r-cran-spider Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 299 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ape, r-cran-pegas Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-spider_1.5.1-1.ca2004.1_all.deb Size: 250920 MD5sum: c92f06de6f7f8158dcfbb99811f08583 SHA1: 7404d0a4924fec8e63cb7fc43ff81ec677d8b5f7 SHA256: 139ca1f395e97acbc48d6a52cd520ca3507ca33281800354048abf7d9a1a9210 SHA512: 1bb3335aee614051a976bfc0ea671f438f619849365da095779d2cb1846d6a8b426d012ef068065b617b254b42a0c5ee9c7ae5c9e64d5226df10be55815f79c2 Homepage: https://cran.r-project.org/package=spider Description: CRAN Package 'spider' (Species Identity and Evolution in R) Analysis of species limits and DNA barcoding data. Included are functions for generating important summary statistics from DNA barcode data, assessing specimen identification efficacy, testing and optimizing divergence threshold limits, assessment of diagnostic nucleotides, and calculation of the probability of reciprocal monophyly. Additionally, a sliding window function offers opportunities to analyse information across a gene, often used for marker design in degraded DNA studies. Further information on the package has been published in Brown et al (2012) . Package: r-cran-spidr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-rgbif, r-cran-rworldmap, r-cran-rworldxtra Filename: pool/dists/focal/main/r-cran-spidr_1.0.2-1.ca2004.1_all.deb Size: 71892 MD5sum: 5454210bf4e7fd896cc85403522662a6 SHA1: 93cd3a96895f1af069398dece49ea4974c84aec4 SHA256: 03211e1caee25693ec0bebd2c5e0e8947acd9fdc6a7d2f96931d9e484549def9 SHA512: e1b61e0a4b03c7756d76eaa270ff8681a85cd912db8fc5824048f7182a3bed44e87756bce6224912c9fa64418619f5ce2ebc9912a31a179947e0944cf2774eb0 Homepage: https://cran.r-project.org/package=spidR Description: CRAN Package 'spidR' (Spider Knowledge Online) Allows the user to connect with the World Spider Catalogue (WSC; ) and the World Spider Trait (WST; ) databases. Also performs several basic functions such as checking names validity, retrieving coordinate data from the Global Biodiversity Information Facility (GBIF; ), and mapping. Package: r-cran-spiga Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ga Filename: pool/dists/focal/main/r-cran-spiga_1.0.0-1.ca2004.1_all.deb Size: 67416 MD5sum: 36f6adcc7a10bfe1f6328e1c46525633 SHA1: 15b04e88da9abe0d2ef24bee16c47d40417c747a SHA256: b96a18732ceb739fa026a1e2b96ec39babd88c0c0c4e90593fd5976591cba3e8 SHA512: ba26d5d20dfff6f8573cff8609976f95edb098479ffba20e8b76ccd38ba4707cb32d6b21b0a45f7b0e4954b7a1e6c5b94c93eecf5604ed2fe46e1024097d5c2f Homepage: https://cran.r-project.org/package=SPIGA Description: CRAN Package 'SPIGA' (Compute SPI Index using the Methods Genetic Algorithm andMaximum Likelihood) Calculate the Standardized Precipitation Index (SPI) for monitoring drought, using Artificial Intelligence techniques (SPIGA) and traditional numerical technique Maximum Likelihood (SPIML). For more information see: http://drought.unl.edu/monitoringtools/downloadablespiprogram.aspx. Package: r-cran-spikes Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 704 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-emdbook Filename: pool/dists/focal/main/r-cran-spikes_1.1-1.ca2004.1_all.deb Size: 687564 MD5sum: d5538693b316ff412a3d7eb406c1c931 SHA1: 9b7857920c19c8ddacd2001d5fb9a8bd4531a796 SHA256: c5a53a87fc4953e795bf3a8031c7ed67741081e7c325296418612a9ed55c7827 SHA512: 7af1418ae23724ed9fd70e4d36f6149df3e073c4b33d11e5dfbc1f0f31432fdbbf48e836c643d0436e0e619754fda999d64e7132b3fa1aec9dcf63887d8ea741 Homepage: https://cran.r-project.org/package=spikes Description: CRAN Package 'spikes' (Detecting Election Fraud from Irregularities in Vote-ShareDistributions) Applies re-sampled kernel density method to detect vote fraud. 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Package: r-cran-spillover Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 695 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-vars, r-cran-dplyr, r-cran-ggplot2, r-cran-fastsom, r-cran-tidyr, r-cran-zoo Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-spillover_0.1.1-1.ca2004.1_all.deb Size: 585140 MD5sum: f027cbc285d71d07f21c975857526d99 SHA1: 76a9e629b1206c7907a0268b7e267541ac9e3194 SHA256: f0488597ae901c98adf9e20c08c6cf529a6d4493f59e0f0c001c45caa0c30183 SHA512: 4c5cdae010cdfc6c461e213bf3fea3fc026ce1517e9a8cbb7d8370006d623c8bbed2c5a12813bde7729e3c0bbd9d2fc8bd74423a5254027a7f3bbe864ce48111 Homepage: https://cran.r-project.org/package=Spillover Description: CRAN Package 'Spillover' (Spillover/Connectedness Index Based on VAR Modelling) A user-friendly tool for estimating both total and directional connectedness spillovers based on Diebold and Yilmaz (2009, 2012). It also provides the user with rolling estimation for total and net indices. User can find both orthogonalized and generalized versions for each kind of measures. See Diebold and Yilmaz (2009, 2012) find them at and . 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Package: r-cran-spinar Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 459 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-checkmate, r-cran-progress Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spinar_0.2.0-1.ca2004.1_all.deb Size: 128660 MD5sum: bc67f6fe0de7c8953dc5b70029def4c0 SHA1: cf26ff0aab1760b92fcca4a639f5e179343acbe0 SHA256: 46b1ffb39052059f0da408ad25eade7f4afde715948b581f05edef1e78d7eead SHA512: 9c9b1e1ea9a7ccc61cdb9c8cd4191aecadbd59c1d5257fd1e0835b944f085f4d4e6bd427f7b4cf08834fc573bd0e16d7fe51b0c52b8839d2460969ed75239c78 Homepage: https://cran.r-project.org/package=spINAR Description: CRAN Package 'spINAR' ((Semi)Parametric Estimation and Bootstrapping of INAR Models) Semiparametric and parametric estimation of INAR models including a finite sample refinement (Faymonville et al. (2022) ) for the semiparametric setting introduced in Drost et al. 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The 'spinifex' packages generates paths for manual tours by manipulating the contribution of a single variable at a time Cook & Buja (1997) . Other types of tours, such as grand (random walk) and guided (optimizing some objective function) are available in the 'tourr' package Wickham et al. . 'spinifex' builds on 'tourr' and can render tours with 'gganimate' and 'plotly' graphics, and allows for exporting as an .html widget and as an .gif, respectively. This work is fully discussed in Spyrison & Cook (2020) . Package: r-cran-spinner Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 219 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-torch, r-cran-igraph, r-cran-purrr, r-cran-ggplot2, r-cran-ggthemes, r-cran-tictoc, r-cran-readr, r-cran-lubridate, r-cran-rlist, r-cran-fastdummies, r-cran-entropy, r-cran-abind Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-spinner_1.1.0-1.ca2004.1_all.deb Size: 181280 MD5sum: 2015bfce943d612d79ec8efab5e2bcac SHA1: 9dd4080095036ec7716a2db8d4fc47a3d9440ce5 SHA256: ec6afefa9b9d1ba203073864668e9fe7739faf5ff5155659d8a9fc17f6e8a93b SHA512: fd4cf423feb63f2411d1235e6b0178436a55062c012a2375a3784d1aeb315147144c67dcb54ccf0b46dd1f405d2c8cc2b1bb32f6fdedfbddac9109e35e7ffc75 Homepage: https://cran.r-project.org/package=spinner Description: CRAN Package 'spinner' (An Implementation of Graph Net Architecture Based on 'torch') Proposes a 'torch' implementation of Graph Net architecture allowing different options for message passing and feature embedding. 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Package: r-cran-spir Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 867 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gsheet, r-cran-reshape2, r-cran-ggplot2, r-cran-ggsci, r-cran-readr, r-cran-lubridate Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spir_0.2.1-1.ca2004.1_all.deb Size: 641168 MD5sum: 6969e456ecd4493ab880b70f2b5c62b0 SHA1: 86ad09d70a44f5678b0a1af6805f409824bb320a SHA256: 2587f9e2b3d7843a9a88519920cca96bd122bc110a0a4ca21dc77bcd276eb744 SHA512: c9f386d7fcb11b9cad89f740c9885db454aed00aaabb9eb0d9d45ab9852a4c875f54a47731d4ae69be189e552f0c8977f787be54272db68d23d815ef7074149e Homepage: https://cran.r-project.org/package=spiR Description: CRAN Package 'spiR' (Wrapper for the Social Progress Index Data) In 2015, The 17 United Nations' Sustainable Development Goals were adopted. 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Package: r-cran-spiralize Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1149 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-globaloptions, r-cran-getoptlong, r-cran-circlize, r-cran-lubridate, r-bioc-complexheatmap Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-grimport, r-cran-grimport2, r-cran-jpeg, r-cran-png, r-cran-tiff, r-cran-cranlogs, r-cran-cowplot, r-cran-dendextend, r-cran-bezier, r-cran-magick, r-cran-ape Filename: pool/dists/focal/main/r-cran-spiralize_1.1.0-1.ca2004.1_all.deb Size: 996396 MD5sum: 6aecdb566b3c88c74d59ce09d8ea6067 SHA1: a73f2339fbb8ac5bc715bbe33d6673ba9818123d SHA256: 6b0b4fa7b169fb49d94e52055bb02c7aa9f433c12d7f9fc6617117276d0037da SHA512: 10001e4b7324857edb38b1e2bde28d145c9c97eafd5c419608d00e2c2c2950ea56b6064d643ce23159c63dcbadd3dd8ffe71bf4c731223b055e0f14414308af9 Homepage: https://cran.r-project.org/package=spiralize Description: CRAN Package 'spiralize' (Visualize Data on Spirals) It visualizes data along an Archimedean spiral , makes so-called spiral graph or spiral chart. 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See Robergs, Dwyer, and Astorino (2010) for more details on data processing. Package: r-cran-splash Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-splash_1.0.2-1.ca2004.1_all.deb Size: 81368 MD5sum: 4226ef1883dae4aaf49f8456f87184f6 SHA1: 673c8acbd4d47ea198528e98d80359adc222e45e SHA256: 3a67206ab1d7b0c2072b097a0458c8567b5adfd2f7089f3a228bfc64b43348c5 SHA512: be3e44f14745f0885b4fe2ee522c1d5ac090675e78608e05a9d2bad0e977b638d035bcdb65ebe292d0f0be2ea032001d7a02b1233f3bae0dd2367b5ac94df562 Homepage: https://cran.r-project.org/package=splash Description: CRAN Package 'splash' (Simple Process-Led Algorithms for Simulating Habitats) This program calculates bioclimatic indices and fluxes (radiation, evapotranspiration, soil moisture) for use in studies of ecosystem function, species distribution, and vegetation dynamics under changing climate scenarios. 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Package: r-cran-splashr Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1054 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml2, r-cran-curl, r-cran-httr, r-cran-dplyr, r-cran-purrr, r-cran-stevedore, r-cran-magick, r-cran-scales, r-cran-formatr, r-cran-openssl, r-cran-stringi, r-cran-hartools, r-cran-jsonlite, r-cran-lubridate Suggests: r-cran-testthat, r-cran-tibble, r-cran-jpeg, r-cran-png, r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-splashr_0.6.0-1.ca2004.1_all.deb Size: 729404 MD5sum: 0a184e3ea011e7f8ce833a800b76c390 SHA1: 33921d0b29dbd87c047714f3472fa84e941b3dbc SHA256: b4d25ff3d173eee80616e3d9b5b886708eee6db1672a3cbb8b9604dc4629b9b8 SHA512: ac3752001a11e4b6e8f2e9569b46ff883297310aeb0ae12e56cbcf83148cf67b42804ca78ca1adc1ec9c0e5b86817a3bc875f54c09f56879c5592712d925a48b Homepage: https://cran.r-project.org/package=splashr Description: CRAN Package 'splashr' (Tools to Work with the 'Splash' 'JavaScript' Rendering andScraping Service) 'Splash' is a 'JavaScript' rendering service. 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Package: r-cran-spldv Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-formula, r-cran-matrix, r-cran-maxlik, r-cran-sphet, r-cran-memisc, r-cran-car, r-cran-numderiv, r-cran-mass, r-cran-spatialreg Suggests: r-cran-spdep Filename: pool/dists/focal/main/r-cran-spldv_0.1.3-1.ca2004.1_all.deb Size: 111420 MD5sum: 8db2809df7eba9c852ff78bec6bb5145 SHA1: 2e23d9612a85391791f7193f855b5f67879da33b SHA256: a548d06fac9e042638a9db467af60ad2aebc22e3fc07268e18f458ae802aeb39 SHA512: f4fbacac9e9afad41d47667200e83bbd25fd6e1b344a225f929d369924a9de1519c40512f39c9ce3ad32878bbd941e195f0838ae2014cd0d807de9f77fa553d4 Homepage: https://cran.r-project.org/package=spldv Description: CRAN Package 'spldv' (Spatial Models for Limited Dependent Variables) The current version of this package estimates spatial autoregressive models for binary dependent variables using GMM estimators . It supports one-step (Pinkse and Slade, 1998) and two-step GMM estimator along with the linearized GMM estimator proposed by Klier and McMillen (2008) . It also allows for either Probit or Logit model and compute the average marginal effects. All these models are presented in Sarrias and Piras (2023) . Package: r-cran-splice Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2704 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-synthetic, r-cran-zoo, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-rcolorbrewer, r-cran-actuar Filename: pool/dists/focal/main/r-cran-splice_1.1.2-1.ca2004.1_all.deb Size: 2043968 MD5sum: f02be5c657ff4ab88553c42507cddb27 SHA1: 77f019d5b3e137fa449fad4331c92f1ff495a189 SHA256: 7467ec684ec85a9bd8096c6ad0894c127f7cec419c68850fc0ec547511ac87c2 SHA512: a3c7b7e2aae2231df33e838383f570ca680c33981102c731c3c97cf70739c18332e5cac544d1f9109b29f5602f50e0423c7ddad70deed83f98864d5416f71af4 Homepage: https://cran.r-project.org/package=SPLICE Description: CRAN Package 'SPLICE' (Synthetic Paid Loss and Incurred Cost Experience (SPLICE)Simulator) An extension to the individual claim simulator called 'SynthETIC' (on CRAN), to simulate the evolution of case estimates of incurred losses through the lifetime of an insurance claim. The transactional simulation output now comprises key dates, and both claim payments and revisions of estimated incurred losses. An initial set of test parameters, designed to mirror the experience of a real insurance portfolio, were set up and applied by default to generate a realistic test data set of incurred histories (see vignette). However, the distributional assumptions used to generate this data set can be easily modified by users to match their experiences. Reference: Avanzi B, Taylor G, Wang M (2021) "SPLICE: A Synthetic Paid Loss and Incurred Cost Experience Simulator" . Package: r-cran-splinecox Architecture: all Version: 0.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-joint.cox, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-splinecox_0.0.4-1.ca2004.1_all.deb Size: 58408 MD5sum: ff112e3c4e63a8bffd00a0c293835d37 SHA1: b08ba8be96c0d10c26c4ace7b827111474b6eea6 SHA256: 1000f46eea8892c9f2fad6d1858ece1ee12ea1fc61fe6ef54fc6754c9f920d0c SHA512: 814cf1d0eff23e6aaa269a236366c641ad342c51219fab0a78ac442911c0498fd216c0870e37f439f6aaff3ab949be903bf56f94a885735bf319a6d274e104c4 Homepage: https://cran.r-project.org/package=splineCox Description: CRAN Package 'splineCox' (A Two-Stage Estimation Approach to Cox Regression Using M-SplineFunction) Implements a two-stage estimation approach for Cox regression using five-parameter M-spline functions to model the baseline hazard. It allows for flexible hazard shapes and model selection based on log-likelihood criteria as described in Teranishi et al.(2025). In addition, the package provides functions for constructing and evaluating B-spline copulas based on five M-spline or I-spline basis functions, allowing users to flexibly model and compute bivariate dependence structures. Both the copula function and its density can be evaluated. Package: r-cran-splinetree Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3315 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rpart, r-cran-nlme, r-cran-mosaic, r-cran-ggplot2, r-cran-treeclust, r-cran-mclust Suggests: r-cran-r.rsp, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-splinetree_0.2.0-1.ca2004.1_all.deb Size: 2709120 MD5sum: 6f03761d046d56e2c29dc5e65b537866 SHA1: 6b1ba1ad2fac2d39b3340a8b3703e324b1c12505 SHA256: ab314aa5b49bbc98893e22006eaf6c6c07e72b995772cdc0d58fe6971a49dd48 SHA512: 9804d94045b3882c977bd766f794be0f0a9faee30e55ff64caf6b8fcf5957d7a6cea984c91fcf906530c7838b4b418b6775236e7d7ba72758f4003eac4c9e5b4 Homepage: https://cran.r-project.org/package=splinetree Description: CRAN Package 'splinetree' (Longitudinal Regression Trees and Forests) Builds regression trees and random forests for longitudinal or functional data using a spline projection method. Implements and extends the work of Yu and Lambert (1999) . This method allows trees and forests to be built while considering either level and shape or only shape of response trajectories. Package: r-cran-splinets Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4102 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-splinets_1.5.1-1.ca2004.1_all.deb Size: 4096540 MD5sum: 67be3c57779d8527db1536eb505e0112 SHA1: 6109a6e7c91539fdb8973979999b4f294d349070 SHA256: 086d5dbdc175472d043f6b48d01f6e49ecaf521e86b68d2fe792bfcf315cff1d SHA512: cb80f184496ba6dcbd363a21dfbfe9a6c689e418547aa763f6199154e2325487d2366df384f602405c8b63fc9646ba50c4701d8ef2a404bc0c5f45e8650e80a9 Homepage: https://cran.r-project.org/package=Splinets Description: CRAN Package 'Splinets' (Functional Data Analysis using Splines and Orthogonal SplineBases) Splines are efficiently represented through their Taylor expansion at the knots. The representation accounts for the support sets and is thus suitable for sparse functional data. Two cases of boundary conditions are considered: zero-boundary or periodic-boundary for all derivatives except the last. The periodical splines are represented graphically using polar coordinates. The B-splines and orthogonal bases of splines that reside on small total support are implemented. The orthogonal bases are referred to as 'splinets' and are utilized for functional data analysis. Random spline generator is implemented as well as all fundamental algebraic and calculus operations on splines. The optimal, in the least square sense, functional fit by 'splinets' to data consisting of sampled values of functions as well as splines build over another set of knots is obtained and used for functional data analysis. The S4-version of the object oriented R is used. , , . Package: r-cran-splitfeas Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-corpcor, r-cran-matrixstats Filename: pool/dists/focal/main/r-cran-splitfeas_0.1.0-1.ca2004.1_all.deb Size: 56744 MD5sum: a35ca42813f552dd124091a847d1ad1b SHA1: 11cc74b52922fabde6dc762a228d070c24fd391a SHA256: 714d52081dfb81734eb6a08f01e6084cb8e92a3d78184c6d01a47acd2a90cd73 SHA512: 2ebea7bdd1ee88ed4694f2e89c22f1ca433e3c14af13affeaa45c1b96d7b06a43189e2710415032a0da65835526c1e7029bda38f50e1c82fe36564e9f453a3e1 Homepage: https://cran.r-project.org/package=splitFeas Description: CRAN Package 'splitFeas' (Multi-Set Split Feasibility) An implementation of the majorization-minimization (MM) algorithm introduced by Xu, Chi, Yang, and Lange (2017) for solving multi-set split feasibility problems. In the multi-set split feasibility problem, we seek to find a point x in the intersection of multiple closed sets and whose image under a mapping also must fall in the intersection of several closed sets. Package: r-cran-splitfngr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lbfgs Filename: pool/dists/focal/main/r-cran-splitfngr_0.1.2-1.ca2004.1_all.deb Size: 24312 MD5sum: ec644d9396cbb599c81f9f811ac35ee3 SHA1: b8053bc747a0670c0f22796d18f516430b3089b2 SHA256: edef4ac8158864435a4cbae18dc08c5f7dc0a0badcddbb3b5699074ab6b08d64 SHA512: 8a89669d1518137e99d805681535d70d5c009a27f1aba99b98406cd2fb73a95b71a6c0b96234e28861af3f747e3cae26f828106bc2fb6d41485f3d5e3f2955ba Homepage: https://cran.r-project.org/package=splitfngr Description: CRAN Package 'splitfngr' (Combined Evaluation and Split Access of Functions) Some R functions, such as optim(), require a function its gradient passed as separate arguments. When these are expensive to calculate it may be much faster to calculate the function (fn) and gradient (gr) together since they often share many calculations (chain rule). This package allows the user to pass in a single function that returns both the function and gradient, then splits (hence 'splitfngr') them so the results can be accessed separately. The functions provided allow this to be done with any number of functions/values, not just for functions and gradients. Package: r-cran-splithalfr Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 693 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tibble, r-cran-psych, r-cran-boot, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-mass Filename: pool/dists/focal/main/r-cran-splithalfr_3.0.0-1.ca2004.1_all.deb Size: 499160 MD5sum: 87c15e3eb3686559070d5b26b7f8ce15 SHA1: 11b2b7d140915edc8d7f6f792c5641fb849cf9bb SHA256: 00a75e96d988cdd0ca25e9672ae3d250a506efc1e99d0e63229cb49c45a9704a SHA512: 6e410ee87ec4ee1ff3f0b76cef002da73552a03f0efc9e7c7730ece21f79e28ecb77f7e8459acc03080eb5dfdf09fdd3768f9df26ff99286f966b6fe7fb3287a Homepage: https://cran.r-project.org/package=splithalfr Description: CRAN Package 'splithalfr' (Estimate Split-Half Reliabilities) Estimates split-half reliabilities for scoring algorithms of cognitive tasks and questionnaires. The 'splithalfr' supports researcher-provided scoring algorithms, with six vignettes illustrating how on included datasets. The package provides four splitting methods (first-second, odd-even, permutated, Monte Carlo), the option to stratify splits by task design, a number of reliability coefficients, the option to sub-sample data, and bootstrapped confidence intervals. Package: r-cran-splitknockoff Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-mass, r-cran-latex2exp, r-cran-rspectra, r-cran-ggplot2, r-cran-matrix, r-cran-mvtnorm Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-splitknockoff_2.1-1.ca2004.1_all.deb Size: 79140 MD5sum: 0dc86848b3f1b59afc883eb45d27a3ec SHA1: 768233adacb9005af62e3e525827ba75ebc2e566 SHA256: 4e352f340972def74af13ef23e16dc0932e53e6b4fbb947fa30aeac1f13b4d7f SHA512: d5470c26fb42f6774d4f6cc273909898cacf8ffdd26204532e600455cb45fc7fe782e14faa9cadac7f58ea5a0650beb6bf4ed07d1b40f22feb0800c57e4da5ac Homepage: https://cran.r-project.org/package=SplitKnockoff Description: CRAN Package 'SplitKnockoff' (Split Knockoffs for Structural Sparsity) Split Knockoff is a data adaptive variable selection framework for controlling the (directional) false discovery rate (FDR) in structural sparsity, where variable selection on linear transformation of parameters is of concern. This proposed scheme relaxes the linear subspace constraint to its neighborhood, often known as variable splitting in optimization. Simulation experiments can be reproduced following the Vignette. 'Split Knockoffs' is first defined in Cao et al. (2021) . Package: r-cran-splitselect Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-multicool, r-cran-glmnet, r-cran-doparallel, r-cran-foreach Suggests: r-cran-testthat, r-cran-mvnfast Filename: pool/dists/focal/main/r-cran-splitselect_1.0.3-1.ca2004.1_all.deb Size: 83096 MD5sum: 190f261726381305098892628de054a1 SHA1: 5becf2072be912d123b6615a2188c337d836fac8 SHA256: 61a79cdf2923d11c1f33555c1832b10c6c99ffb63243bbbc9484245c39ca7926 SHA512: ac9f3aacf1410f5ff2789355ae1a18c8fe5f765d33e6bc1edd4c247495ad77541a443625b57a23d5ae997bd49cca63fb58d52a46efaec9909869d1eee767f52a Homepage: https://cran.r-project.org/package=splitSelect Description: CRAN Package 'splitSelect' (Best Split Selection Modeling for Low-Dimensional Data) Functions to generate or sample from all possible splits of features or variables into a number of specified groups. 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Package: r-cran-splitwise Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1257 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-rpart Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-splitwise_1.0.0-1.ca2004.1_all.deb Size: 368620 MD5sum: cdeaa132c7f4cfb43196ad48cb4aeaeb SHA1: 75e51dacdff142749c606c8b4c4622c311840417 SHA256: 73094c244aab66eee5d0ab1ccd00d679fdee6233ffbe9fc88ffe5fdc9b040588 SHA512: 901bb9e70142bcd11a880af158e88894d03b1ffcc90950d3d616323043a178e07a1ef9aaa92d7b8f6af9b82a699950af583d6b9a71454ad0794f6f48db73f766 Homepage: https://cran.r-project.org/package=SplitWise Description: CRAN Package 'SplitWise' ('SplitWise': Hybrid Stepwise Regression with Single-Split DummyEncoding) Implements 'SplitWise', a hybrid regression approach that transforms numeric variables into either single-split (0/1) dummy variables or retains them as continuous predictors. 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Package: r-cran-spm2 Architecture: all Version: 1.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 409 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-spm, r-cran-gstat, r-cran-sp, r-cran-randomforest, r-cran-gbm, r-cran-fields, r-cran-nlme, r-cran-glmnet, r-cran-e1071 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spm2_1.1.3-1.ca2004.1_all.deb Size: 367192 MD5sum: bd40fcef7b1acf165e0db14a21f62a1d SHA1: 2b0232b6011c0f1b0e1cd1a5253b2b0654c7656c SHA256: c70b21521ff136c6c998c7d6848b6638bc318fd07852caaa03d480d342792158 SHA512: f11422f4ddfbdc3140e8399b6c723b9ffc2e6b604a30660badaa29d2b903f7becd34992d292c410e1f0c189a5b1b1b44368b2e7e3aa8feb34b0781b4cd58bb87 Homepage: https://cran.r-project.org/package=spm2 Description: CRAN Package 'spm2' (Spatial Predictive Modeling) An updated and extended version of 'spm' package, by introducing some further novel functions for modern statistical methods (i.e., generalised linear models, glmnet, generalised least squares), thin plate splines, support vector machine, kriging methods (i.e., simple kriging, universal kriging, block kriging, kriging with an external drift), and novel hybrid methods (228 hybrids plus numerous variants) of modern statistical methods or machine learning methods with mathematical and/or univariate geostatistical methods for spatial predictive modelling. For each method, two functions are provided, with one function for assessing the predictive errors and accuracy of the method based on cross-validation, and the other for generating spatial predictions. It also contains a couple of functions for data preparation and predictive accuracy assessment. Package: r-cran-spm Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4593 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gstat, r-cran-sp, r-cran-randomforest, r-cran-psy, r-cran-gbm, r-cran-biomod2, r-cran-ranger Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spm_1.2.2-1.ca2004.1_all.deb Size: 3833800 MD5sum: 963c1378e3b8a8d7a8e3e328cd5c7122 SHA1: 8fed7e3da13b5735855ba67be2e106d465b87c9e SHA256: c7704d64a10ff087ca7e71eb06d4c07c1e7c3a0d814cb175f75c8e531445bfb7 SHA512: e1ee0c89a82796520512b1601b0937da09755609570bde7ce36382c379b2246ddd9da85c79089ad2875476f3e8a17fde73a4c6d67621309f573bed99a3345c36 Homepage: https://cran.r-project.org/package=spm Description: CRAN Package 'spm' (Spatial Predictive Modeling) Introduction to some novel accurate hybrid methods of geostatistical and machine learning methods for spatial predictive modelling. It contains two commonly used geostatistical methods, two machine learning methods, four hybrid methods and two averaging methods. For each method, two functions are provided. One function is for assessing the predictive errors and accuracy of the method based on cross-validation. The other one is for generating spatial predictions using the method. For details please see: Li, J., Potter, A., Huang, Z., Daniell, J. J. and Heap, A. (2010) Li, J., Heap, A. D., Potter, A., Huang, Z. and Daniell, J. (2011) Li, J., Heap, A. D., Potter, A. and Daniell, J. (2011) Li, J., Potter, A., Huang, Z. and Heap, A. (2012) . Package: r-cran-spmaps Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3228 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-sp Suggests: r-cran-testthat, r-cran-covr, r-cran-antaresviz Filename: pool/dists/focal/main/r-cran-spmaps_0.5.0-1.ca2004.1_all.deb Size: 3267080 MD5sum: b784ab2989e8f27615bae95ddcdfaf86 SHA1: 817635cc602214dc28cc194183b0913d9af9dce6 SHA256: caeeb8ff337263b938ce359c8f2a78aa50641835d6f54beecc855c194503dd34 SHA512: c63b30377830761937f363387e6a7ac51b051bd7a7ae1d7b3545223a745fbb8206642e6d87ffc509ce577d3b830b0bb79f0d06e08bd438fe08fff4f24af81833 Homepage: https://cran.r-project.org/package=spMaps Description: CRAN Package 'spMaps' (Europe SpatialPolygonsDataFrame Builder) Build custom Europe SpatialPolygonsDataFrame, if you don't know what is a SpatialPolygonsDataFrame see SpatialPolygons() in 'sp', by example for mapLayout() in 'antaresViz'. 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Package: r-cran-spmlficmcm Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 164 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nleqslv Filename: pool/dists/focal/main/r-cran-spmlficmcm_1.4-1.ca2004.1_all.deb Size: 138044 MD5sum: 330d1d1797a14342c35480194e6d4933 SHA1: 658e59e901e8cc6969cb0888e0b0c0a769c87f64 SHA256: 5fd1997bc9351d8ef203e78a9e1dd0803e8e5175d0c536c41a8beb2656ab4f44 SHA512: b07e86ea1ddd5ded1f07b66dba5e482cce5ff9d642cf526393c0601cc08b2f2c6fb4307c4103128ed3907eb7ee32080c14f41e5ce7fbbe16d9bdbe77263794cb Homepage: https://cran.r-project.org/package=SPmlficmcm Description: CRAN Package 'SPmlficmcm' (Semiparametric Maximum Likelihood Method for InteractionsGene-Environment in Case-Mother Control-Mother Designs) Implements the method of general semiparametric maximum likelihood estimation for logistic models in case-mother control-mother designs. Package: r-cran-spmodel Architecture: all Version: 0.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5168 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-generics, r-cran-matrix, r-cran-sf, r-cran-tibble Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-ggplot2, r-cran-ranger, r-cran-statmod, r-cran-proc, r-cran-emmeans, r-cran-estimability Filename: pool/dists/focal/main/r-cran-spmodel_0.10.0-1.ca2004.1_all.deb Size: 3494672 MD5sum: a5dcbe21c74602d9a834dd6715c2dd28 SHA1: 1bc69ac03224aa55099f33443b244e074df2f6ec SHA256: 0e9dfd883fc3fac70b7398843bc2b0fa316a8439290c9b686995478fe2a4855f SHA512: 3107361fff9046341f85f772f398552bd6e57d901da1edea851b1dee5888233476b325d0d297d650f1f27c23a24733728d84dc10b1c8609aa26d0e761c715500 Homepage: https://cran.r-project.org/package=spmodel Description: CRAN Package 'spmodel' (Spatial Statistical Modeling and Prediction) Fit, summarize, and predict for a variety of spatial statistical models applied to point-referenced and areal (lattice) data. Parameters are estimated using various methods. Additional modeling features include anisotropy, non-spatial random effects, partition factors, big data approaches, and more. Model-fit statistics are used to summarize, visualize, and compare models. Predictions at unobserved locations are readily obtainable. For additional details, see Dumelle et al. (2023) . Package: r-cran-spmoran Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4811 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-fields, r-cran-vegan, r-cran-matrix, r-cran-doparallel, r-cran-foreach, r-cran-ggplot2, r-cran-spdep, r-cran-rarpack, r-cran-rcolorbrewer, r-cran-fnn Suggests: r-cran-r.rsp, r-cran-spdata Filename: pool/dists/focal/main/r-cran-spmoran_0.3.3-1.ca2004.1_all.deb Size: 4812504 MD5sum: cedc7b6cd296ec88e48847b76baa1fd8 SHA1: 35eef7b6388bea4d41c8edb00db9d436c1e394b3 SHA256: 594957ea2b602d58ce16653317551386b84dc1aba5c0ad1e4ac127768dd818e2 SHA512: 4a3ea7baf8a3a394271bd1172981e981070743a3c867ce0f7483071f48f3fdb3dc7661db98afc39f4b0bc56639c8fd86ba6a8bb01ac72b04008a7359cb904507 Homepage: https://cran.r-project.org/package=spmoran Description: CRAN Package 'spmoran' (Fast Spatial and Spatio-Temporal Regression using MoranEigenvectors) A collection of functions for estimating spatial and spatio-temporal regression models. Moran eigenvectors are used as spatial basis functions to efficiently approximate spatially dependent Gaussian processes (i.e., random effects eigenvector spatial filtering; see Murakami and Griffith 2015 ). The implemented models include linear regression with residual spatial dependence, spatially/spatio-temporally varying coefficient models (Murakami et al., 2017, 2024; ,), spatially filtered unconditional quantile regression (Murakami and Seya, 2019 ), Gaussian and non-Gaussian spatial mixed models through compositionally-warping (Murakami et al. 2021, ). Package: r-cran-spnaf Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 658 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-sf, r-cran-spdep, r-cran-tidyr, r-cran-rlang, r-cran-deldir Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tmap Filename: pool/dists/focal/main/r-cran-spnaf_1.1.0-1.ca2004.1_all.deb Size: 590524 MD5sum: 40c5433fcd4af2f7c3761c87adfed911 SHA1: e87d6279274e77a685b5e622124d94255e42cc20 SHA256: 620a381b3b457a03912357673fb3293995e4eed6e74f6e0b014fedb4b8624816 SHA512: 3254cd505cb8f38b63ea6aee7d44485a32e1531f0890ac2e3e0b8f2595b78faa8fcf646890c14537a190cbe79d9a619f0e55af11b658ac1443c3d39e78123a06 Homepage: https://cran.r-project.org/package=spnaf Description: CRAN Package 'spnaf' (Spatial Network Autocorrelation for Flow Data) Identify statistically significant flow clusters using the local spatial network autocorrelation statistic G_ij* proposed by 'Berglund' and 'Karlström' (1999) . The metric, an extended statistic of 'Getis/Ord' G ('Getis' and 'Ord' 1992) , detects a group of flows having similar traits in terms of directionality. You provide OD data and the associated polygon to get results with several parameters, some of which are defined by spdep package. Package: r-cran-spnet Architecture: all Version: 0.9.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4763 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp, r-cran-shape Filename: pool/dists/focal/main/r-cran-spnet_0.9.1-0-1.ca2004.1_all.deb Size: 1590160 MD5sum: cb39170ef43f079558101987931bc3b5 SHA1: 88343664affb6b6cea3d7f14c0d4fe7663bc8c03 SHA256: f380b6dedb305bf157c7a95823dddd9dcfcc984176499f671a89094b7b5cf2ce SHA512: 4969ae5cfb1a48efbbd0b25575936cad794e5b51c6c27fdeda522b819012d4ade54d699a67dd8feac609a29e4cbe9ceebfe9662dbae841615d1195a0cc89ee30 Homepage: https://cran.r-project.org/package=spnet Description: CRAN Package 'spnet' (Plotting (Social) Networks on Maps) Facilitates the rendering of networks for which nodes have a specific position on a map (cities, participants in a political debate, etc.). 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Package: r-cran-spnmf Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 300 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nmf Filename: pool/dists/focal/main/r-cran-spnmf_0.1.1-1.ca2004.1_all.deb Size: 269912 MD5sum: 851a094c427c1852e4db3f395eec82c6 SHA1: 28e6f6328e150654794d35d0b38b4609ee71f3b2 SHA256: b014d94e0a7a0f8a9d412e2fd1fe324712ef698190fd60229cbf5df4c7bade43 SHA512: 67b3f17ee2f928510477c690651943ee8a55a168f0c5c15cdb7777e86ac8ba79b9ee3c53d9499ac8ac0c8b9d581ab2efec56d487526fb62a35d999b9fcd9feb5 Homepage: https://cran.r-project.org/package=SpNMF Description: CRAN Package 'SpNMF' (Supervised NMF) Non-negative Matrix Factorization(NMF) is a powerful tool for identifying the key features of microbial communities and a dimension-reduction method. 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Includes functionality for retrieving species occurrence data, and combining those data. Package: r-cran-spoiler Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmltools, r-cran-shiny Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-spoiler_1.0.0-1.ca2004.1_all.deb Size: 12000 MD5sum: d3ce3d681e57d64e9ddc8aa6bf8f3163 SHA1: b8145737133770c71ecc44c421a50d23616c5178 SHA256: 98fb692446bc41d39e4d7e5cea3da34326a382b36b12a5fc0f35402e43ac659a SHA512: 4c067cd5429674356e7ccdadb1a640cfbcce819664cda8fede2bf4f7f95cbe9825fc094ed0c54d5a0dd8fb3a4000041ddd10186f531f91bd61ff45d396b2ea2b Homepage: https://cran.r-project.org/package=spoiler Description: CRAN Package 'spoiler' (Blur 'HTML' Elements in 'Shiny' Applications Using'Spoiler-Alert.js') It can be useful to temporarily hide some text or other HTML elements in 'Shiny' applications. 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Package: r-cran-spooky Architecture: all Version: 1.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-purrr, r-cran-ggplot2, r-cran-readr, r-cran-lubridate, r-cran-imputets, r-cran-fancova, r-cran-scales, r-cran-tictoc, r-cran-modeest, r-cran-moments, r-cran-greybox, r-cran-philentropy, r-cran-entropy, r-cran-fastdummies Filename: pool/dists/focal/main/r-cran-spooky_1.4.0-1.ca2004.1_all.deb Size: 66756 MD5sum: 4782473e32091ce65dcf026c476be252 SHA1: 5b1495839d76f9e0a5610277bb2c90866c866d33 SHA256: bb73ce2bf8d047b509abaaf31e41705d66c05d0bd9a7969186fe18674cf6ca2c SHA512: 2b70b40f84f7cbbeadaac04592415cefb4e59fea1993fe471e20af85aa7aabf33eec83bf163dfd7ea45208bf9a620fc480fc5063eb1676c1b9fd06bfbb5b7352 Homepage: https://cran.r-project.org/package=spooky Description: CRAN Package 'spooky' (Time Feature Extrapolation Using Spectral Analysis andJack-Knife Resampling) Proposes application of spectral analysis and jack-knife resampling for multivariate sequence forecasting. 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Package: r-cran-spork Architecture: all Version: 0.3.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 239 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-png, r-cran-latexpdf, r-cran-kableextra Suggests: r-cran-testthat, r-cran-magrittr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-spork_0.3.5-1.ca2004.1_all.deb Size: 202176 MD5sum: 58c3ff366d608229efd774cab0a19e12 SHA1: 621c97310a37b7ad481e14652bef39a9b7f01345 SHA256: 6c289410fd4f1e75de8f76c929c441a002c67a91291b60bf4a866cd491bf7819 SHA512: 368e28084d5f98cd1a1d98efae5cbb232b4e82e599af4cc8ec062845d84b8f2c55b842f596d653ef6d1503ccfaf6e2d2b035b715945d6f10c1c89e9822919f38 Homepage: https://cran.r-project.org/package=spork Description: CRAN Package 'spork' (Generalized Label Formatting) The 'spork' syntax describes label formatting concisely, supporting mixed nesting of subscripts and superscripts to arbitrary depth. It intends to be easy to read and write in plain text, and easy to convert to equivalent presentations in 'plotmath', 'latex', and 'html'. Greek symbols and a multiplication symbol are explicitly supported. See ?as_spork and ?as_previews. Package: r-cran-sportsanalytics Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 166 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-archetypes Filename: pool/dists/focal/main/r-cran-sportsanalytics_0.2-1.ca2004.1_all.deb Size: 118412 MD5sum: e9064c9a97e5a2f17972ebd6d4cc25c2 SHA1: 4a6490025524c79d4e1e5b3eab0dcb496ffc7299 SHA256: a7571a99d444ae4944cfac2350c0d74f8e2eee352d2d77efabb32f5aa812b105 SHA512: 3414ed310e620b59fcc54dd83a21a48a46f3eb380a3d7ce214a604bd8987f98c9b6fb272c3c980cc26a30f4324df4324885f57f5c9c13b04be411770b9e5c401 Homepage: https://cran.r-project.org/package=SportsAnalytics Description: CRAN Package 'SportsAnalytics' (Infrastructure for Sports Analytics) The aim of this package is to provide infrastructure for sports analysis. Anyway, currently it is a selection of data sets, functions to fetch sports data, examples, and demos -- with the ambition to develop bit by bit a set of classes to represent general concepts of sports analysis. Package: r-cran-sportscausal Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-causalimpact, r-cran-keras Filename: pool/dists/focal/main/r-cran-sportscausal_1.0-1.ca2004.1_all.deb Size: 35348 MD5sum: 2afaa2f32d942ed4bd2971eed9c04ae9 SHA1: 635087a5db56c6d04c0135b0fbbc5b049fafd69f SHA256: 611e5d4bd4fed0b17e68c21eb98c62d416d3088dbea7b43539c4efb27ee36058 SHA512: 4ed2080aca8ecd9a80f873e256bd11813e65ff6c5e493659f0417eb90e55c79423fa923a77e619da4150ea81138491178a72920b5417ba0bf4c7d19d3802d9a0 Homepage: https://cran.r-project.org/package=SPORTSCausal Description: CRAN Package 'SPORTSCausal' (Spillover Time Series Causal Inference) A time series causal inference model for Randomized Controlled Trial (RCT) under spillover effect. 'SPORTSCausal' (Spillover Time Series Causal Inference) separates treatment effect and spillover effect from given responses of experiment group and control group by predicting the response without treatment. It reports both effects by fitting the Bayesian Structural Time Series (BSTS) model based on 'CausalImpact', as described in Brodersen et al. (2015) . Package: r-cran-sportstour Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sportstour_0.1.0-1.ca2004.1_all.deb Size: 22584 MD5sum: d026ad17dd64895a5d0dcc48cc6fc29b SHA1: 47b52e476819b71dfae95d85951150798b382d53 SHA256: 21bda9ca21f612b9f1a52cb825ee48bcdfb2923963f8c0079c7e7627243815fc SHA512: 1b2988408d110f49b0be4d784bbcf552b81045d287e59e35902ac796de1015b33974213caab48313d91bd3aa8f578ee393d1de7f64d07787ebfb1dd0dee33e50 Homepage: https://cran.r-project.org/package=SportsTour Description: CRAN Package 'SportsTour' (Display Tournament Fixtures using Knock Out and Round RobinTechniques) Use of Knock Out and Round Robin Techniques in preparing tournament fixtures as discussed in the Book Health and Physical Education by 'Dr. V K Sharma'(2018,ISBN:978-93-5272-134-4). Package: r-cran-sportyr Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4462 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggfittext, r-cran-ggplot2, r-cran-glue, r-cran-rlang Suggests: r-cran-data.table, r-cran-gganimate, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-curl Filename: pool/dists/focal/main/r-cran-sportyr_2.2.2-1.ca2004.1_all.deb Size: 2749344 MD5sum: a22460268792a77be882b2b29b55ff3e SHA1: 6963d625152758e09f22c5dcb74714d3fd15f382 SHA256: e30eb46180fbefd3441981526c98886b164c5c3dafd4ca11eba3104fdf86aae6 SHA512: fa363aa1040dd15a0b29ad820115dc0f1ee7af35afb18aaef7736edc62d59db77b50092efa0a2503a83dd304892ad236c2021813ca5d96303fd8953f81c1ada9 Homepage: https://cran.r-project.org/package=sportyR Description: CRAN Package 'sportyR' (Plot Scaled 'ggplot' Representations of Sports Playing Surfaces) Create scaled 'ggplot' representations of playing surfaces. 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Package: r-cran-spot Architecture: all Version: 2.11.14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1449 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-deoptim, r-cran-ggplot2, r-cran-glmnet, r-cran-lagp, r-cran-mass, r-cran-nloptr, r-cran-plgp, r-cran-plotly, r-cran-rpart, r-cran-randomforest, r-cran-ranger, r-cran-rgenoud, r-cran-rsm Suggests: r-cran-batchtools, r-cran-car, r-cran-farff, r-cran-knitr, r-cran-microbenchmark, r-cran-rmarkdown, r-cran-openml, r-cran-party, r-cran-rcolorbrewer, r-cran-readr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spot_2.11.14-1.ca2004.1_all.deb Size: 1093224 MD5sum: a674c7716920a83ca7027bdc14f8a36c SHA1: 67ca5b6aa2ab1642b660b9cb93dac33a7fd2dc04 SHA256: 1d613eab4b91f2f18691e0741f511473aab8fb7edae06cbb7bafc59781cf156e SHA512: af99a725c5579da1990705c1f3b6a37f764652476b81417900ecdb1f464b9de1dbf30fe35067bd97c2f8d0aaba8dd35ba13ddf7f6d37e5f9352a58496c3de98c Homepage: https://cran.r-project.org/package=SPOT Description: CRAN Package 'SPOT' (Sequential Parameter Optimization Toolbox) A set of tools for model-based optimization and tuning of algorithms (hyperparameter tuning respectively hyperparameter optimization). 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It includes a quick, graphical setup for spot, interactive 3D plots, export possibilities and more. Package: r-cran-spotidy Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-purrr, r-cran-httr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spotidy_0.1.0-1.ca2004.1_all.deb Size: 65596 MD5sum: 9d4deec3b977641c0907228204a1bd6b SHA1: b598057e18442b3fce3ac417e3927c380534c282 SHA256: 53ff95be9407df19992acb4395399336a6b76995477ab1e9f7d2de4c4670c3ba SHA512: ee1ad90df29c336c98b5d3bedff106c9cce081f5bbcc6073c0e54da9229af5db9ce43e3329bdf6073254d207e7636fdb5de7beef36493d4e8b1472cc4269bdeb Homepage: https://cran.r-project.org/package=spotidy Description: CRAN Package 'spotidy' (Providing Convenience Functions to Connect R with the SpotifyAPI) Providing convenience functions to connect R with the 'Spotify' application programming interface ('API'). 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Package: r-cran-spotifyr Architecture: all Version: 2.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 624 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-purrr, r-cran-httr, r-cran-lubridate, r-cran-jsonlite, r-cran-readr, r-cran-rvest, r-cran-stringr, r-cran-tibble, r-cran-janitor, r-cran-rlang, r-cran-magrittr, r-cran-assertthat, r-cran-xml2 Suggests: r-cran-ggridges, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-spotifyr_2.2.5-1.ca2004.1_all.deb Size: 533084 MD5sum: d620666941a733ff8ca4fd2fa5ff52fc SHA1: 309ce26dcf22762fb93e0666f23c15503423ac9f SHA256: 715662aa0d52d0535d4e4d5ff19d40d0be4491e5c84f3f840b3d48b6e55af9ae SHA512: 0286791d86783ec862428cabd08c22e999a7de70d69089a41644798cda56471dae0cc2a31ea508fc20a2ed861528d2bc046970861d25552d13deed87014801f8 Homepage: https://cran.r-project.org/package=spotifyr Description: CRAN Package 'spotifyr' (R Wrapper for the 'Spotify' Web API) An R wrapper for pulling data from the 'Spotify' Web API in bulk, or post items on a 'Spotify' user's playlist. 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It provides tools for hyperparameter tuning via 'keras/tensorflow', interfacing 'mlr', for performing Markov chain simulations, and for sensitivity analysis based on sequential bifurcation methods as described in Bettonvil and Kleijnen (1996). Furthermore, additional plotting functions for output from 'SPOT' runs are implemented. Bartz-Beielstein T, Lasarczyk C W G, Preuss M (2005) . Bartz-Beielstein T, Zaefferer M, Rehbach F (2021) . Bartz-Beielstein T, Rehbach F, Sen A, Zaefferer M . Bettonvil, B, Kleijnen JPC (1996) . Package: r-cran-spotoroo Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 811 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-geodist, r-cran-progress, r-cran-dplyr, r-cran-cli, r-cran-patchwork, r-cran-ggrepel, r-cran-ggextra, r-cran-ggbeeswarm, r-cran-ggplot2 Suggests: r-cran-sf, r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-markdown Filename: pool/dists/focal/main/r-cran-spotoroo_0.1.5-1.ca2004.1_all.deb Size: 583768 MD5sum: 9202dc4f6830a4e458cf0195b6d2c7fe SHA1: 297b6b6e8c5cf75535c77609cc887bed83eb7d97 SHA256: f063124b6b27fda7baa5f46edf9c9ea72430985bb806d465efc429e5abfcc04e SHA512: 0819de8fcc9e9001aa02dcf40c07b5dfc52a4ae441a8a1f1ec8eba1bc3e0b9ed1340abdb4833f343f083e84b3430b34990454fb4a091303f7fac7859efd331b9 Homepage: https://cran.r-project.org/package=spotoroo Description: CRAN Package 'spotoroo' (Spatiotemporal Clustering of Satellite Hot Spot Data) An algorithm to cluster satellite hot spot data spatially and temporally. Package: r-cran-spots Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-matrix, r-cran-rspectra Suggests: r-cran-ape, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-spots_0.1.0-1.ca2004.1_all.deb Size: 315568 MD5sum: fa17f2e2606485122a24d78d5a6f1256 SHA1: 300811337119a9374a77e38bbedb624bc4240214 SHA256: 2902c9545653670f9ac18c4e0c3badadd92325c08a907a71f0009ece90eb98ae SHA512: 7dc9e07910591d09b951cbf2e6e5bc395bc9cbe0f06863bbd54fa16fd996d7d36e0362cd3cbe591ad0036bd0b72019453612e277e036bd173593f1e3a216541f Homepage: https://cran.r-project.org/package=spots Description: CRAN Package 'spots' (Spatial Component Analysis) The spots package is designed for spatial omics (10x Visium, etc.) data analysis. It performs various statistical analyses and tests, including spatial component analysis (SCA), both global and local spatial statistics, such as univariate and bivariate Moran's I, Getis-Ord Gi* statistics, etc. See Integrated protein and transcriptome high-throughput spatial profiling (2022) for more details. Package: r-cran-spotsampling Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-balancedsampling, r-cran-sampling, r-cran-pracma, r-cran-wavesampling, r-cran-mass Filename: pool/dists/focal/main/r-cran-spotsampling_0.1.0-1.ca2004.1_all.deb Size: 73220 MD5sum: 4d051de848ec4db7fbb655bf97e6a15e SHA1: 2ec08d1d7734129fc470ef8882700c76bd3e83fd SHA256: a5161c66abc3ab7b4f4e07094ad686694a2b624d744920ef4e728044dc1d5eaf SHA512: c48d3a3878cf7fabdf782db12af9379599e5f754beecfb7b14382f8fdf71d86f35e53f99a1e99e8b630caceac88002f9e21938e684f84e3f7877751a09e906b4 Homepage: https://cran.r-project.org/package=SpotSampling Description: CRAN Package 'SpotSampling' (SPatial and Optimally Temporal (SPOT) Sampling) In spatial data, information of two neighboring units are generally very similar. For spatial sampling, it is therefore more efficient to select samples that are well spread out in space. Often, the interest lies not only in estimating a measure at one point in time, but rather in estimating several points in time to also study the evolution. Three new methods called Orfs (Optimal Rotation with Fixed sample Size), Orsp (Optimal Rotation with Spread sample), and Spot (Spatial and Optimally Temporal Sampling) are implemented in this package. Orfs allows to select temporal samples with fixed size. Orsp selects spatio-temporal samples with random size that are well spread out in space at each point in time. And Spot generates spread sample with fixed sample size at each wave. These methods provide an optimal time rotation of the selected units using the systematic sampling. Package: r-cran-spouse Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spouse_0.1.0-1.ca2004.1_all.deb Size: 16724 MD5sum: bf8ab85853a0b800187ffd6b3c451ce2 SHA1: 90039eb45095f92ed29f0354ae74c88e26ee1690 SHA256: 13f622e9f9e358bb2d72da06342ec8422bf14bdb8672e6106b90e59ac526878d SHA512: 25429e041dae2116812438a8989ccc507b74191bce5b47cbba2da317949dae87c1ff19ee807a1a788e2c70af8d62bc141ffce0cb640ad347841c4893ea36ed7c Homepage: https://cran.r-project.org/package=SPOUSE Description: CRAN Package 'SPOUSE' (Scatter Plots Over-Viewed Using Summary Ellipses) Summary ellipses superimposed on a scatter plot contain all bi-variate summary statistics for regression analysis. Furthermore, the outer ellipse flags potential outliers. Multiple groups can be compared in terms of centers and spreads as illustrated in the examples. Package: r-cran-spower Architecture: all Version: 0.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 666 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-simdesign, r-cran-cocor, r-cran-car, r-cran-polycor, r-cran-parallelly, r-cran-ggplot2, r-cran-plotly, r-cran-lavaan, r-cran-envstats Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bookdown, r-cran-vgam, r-cran-copula, r-cran-pwr Filename: pool/dists/focal/main/r-cran-spower_0.2.3-1.ca2004.1_all.deb Size: 514748 MD5sum: e8f9482c29134396c2096f82bd85e5cb SHA1: f4b13fe6050543cf9cf2ef837febe8fd26e7eab3 SHA256: 2509c6b974780d74bba9b3d9843bb5ad015188441f69fa9357396d2ad34edb01 SHA512: d30e24e18fe4a800991d9b1d5d5ad3906644dd5c40970c57f4e26c3854a935f3b31a6ec9da75a13dd0d8a09c8142a7c0f10ef7aa8e7d63022227d63f96bcd27e Homepage: https://cran.r-project.org/package=Spower Description: CRAN Package 'Spower' (Power Analyses using Monte Carlo Simulations) Provides a general purpose simulation-based power analysis API for routine and customized simulation experimental designs. The package focuses exclusively on Monte Carlo simulation variants of (expected) prospective power analyses, criterion analyses, compromise analyses, sensitivity analyses, and a priori analyses. The default simulation experiment functions found within the package provide stochastic variants of the power analyses subroutines found in the G*Power 3.1 software (Faul, Erdfelder, Buchner, and Lang, 2009) , along with various other parametric and non-parametric power analysis examples (e.g., mediation analyses). Supporting functions are also included, such as for building empirical power curve estimates, which utilize a similar API structure. Package: r-cran-sppcomb Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 291 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nleqslv Filename: pool/dists/focal/main/r-cran-sppcomb_0.1-1.ca2004.1_all.deb Size: 259292 MD5sum: e7d543e831c802086c75398876f7b3c4 SHA1: 8df44a138f8e348d8bb07a162f9a87dc32825445 SHA256: 2a4126413ec78349e46422e9354ada37e6145a8f66dc32cff7fbac4e6e4ce282 SHA512: 266c1661384ab85c911d238a7e28faedbf93e7abd7dc9cb0d069dbf9b2b02e7fec44c6ed5b05c12ce6e2c9111f7ed4318abd804678da3eb89e16040f3e5eb3b4 Homepage: https://cran.r-project.org/package=SPPcomb Description: CRAN Package 'SPPcomb' (Combining Different Spatial Datasets in Cancer Risk Estimation) We propose a novel two-step procedure to combine epidemiological data obtained from diverse sources with the aim to quantify risk factors affecting the probability that an individual develops certain disease such as cancer. See Hui Huang, Xiaomei Ma, Rasmus Waagepetersen, Theodore R. Holford, Rong Wang, Harvey Risch, Lloyd Mueller & Yongtao Guan (2014) A New Estimation Approach for Combining Epidemiological Data From Multiple Sources, Journal of the American Statistical Association, 109:505, 11-23, . Package: r-cran-spphpr Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 369 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spphpr_1.1.5-1.ca2004.1_all.deb Size: 336960 MD5sum: 107fa7354486dffbb5b1dee07688b49a SHA1: 798b92b5cba4912ba210fddef70effc9a7aadbb9 SHA256: d0fee8d2c2934096be8040b3cf5f8e39ede72e98815f53753dcef564fb64f3c4 SHA512: e544222b193afba6711fb6b304961e64c0137e6de6441cb275377b48b7ee86d41a781e14b3b5d24bb26f81c04fffd7c3766b68ab33163a64d88b9d4cbb037b4c Homepage: https://cran.r-project.org/package=spphpr Description: CRAN Package 'spphpr' (Spring Phenological Prediction) Predicts the occurrence times (in day-of-year) of spring phenological events. Three methods, including the accumulated degree days (ADD) method, the accumulated days transferred to a standardized temperature (ADTS) method, and the accumulated developmental progress (ADP) method, were used. See Shi et al. (2017a) and Shi et al. (2017b) for details. Package: r-cran-sppop Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 168 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-qpdf, r-cran-numbers Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-sppop_0.1.0-1.ca2004.1_all.deb Size: 58480 MD5sum: feae76c4bbe08fb2772ee6fff66fe36c SHA1: 5031011954a239e1d3850bccd70e3db4b31f9490 SHA256: d60d35b38d4b26f07826e524add2bbb717cc61534ce868d01a3b5ecdd3652289 SHA512: 175cdfa049eb864b65a3018a676707967dd66dcb204bcd7959a2067f9c55d2462160ffa128d7d4c08817d368c6f466ee17ebbafd6e24fa9d0504a64566d6ed7b Homepage: https://cran.r-project.org/package=SpPOP Description: CRAN Package 'SpPOP' (Generation of Spatial Population under Different Levels ofRelationships among Variables) The developed package can be used to generate a spatial population for different levels of relationships among the dependent and auxiliary variables along with spatially varying model parameters. A spatial layout is designed as a [0,k-1]x[0,k-1] square region on which observations are collected at (k x k) lattice points with a unit distance between any two neighbouring points along the horizontal and vertical axes. For method details see Chao, Liu., Chuanhua, Wei. and Yunan, Su. (2018).. The generated spatial population can be utilized in Geographically Weighted Regression model based analysis for studying the spatially varying relationships among the variables. Furthermore, various statistical analysis can be performed on this spatially generated data. Package: r-cran-spqdep Architecture: all Version: 0.1.3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1601 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-dplyr, r-cran-ggplot2, r-cran-gt, r-cran-gtools, r-cran-igraph, r-cran-magrittr, r-cran-matrix, r-cran-purrr, r-cran-rsample, r-cran-sf, r-cran-sp, r-cran-spatialreg, r-cran-spdep, r-cran-tidyr, r-cran-units Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spqdep_0.1.3.6-1.ca2004.1_all.deb Size: 1317868 MD5sum: 9bd28535ee00c7b4ff676ef26a359153 SHA1: ec748526ac63a3d0e5b95993ab1f101c9f3a6497 SHA256: 4313355a9453fc25183ebef26d74806c3b32d62bcb82868b1ec546837de2fed4 SHA512: 17e68a178166d2f02bdfe6d1aeeffbd17b079c7568589d04ace905f460115c0f1751f1e135f95dc81cbbe71af6af98d5678177889caacfe77307bc2265ea9f6f Homepage: https://cran.r-project.org/package=spqdep Description: CRAN Package 'spqdep' (Testing for Spatial Independence of Cross-Sectional QualitativeData) Testing for Spatial Dependence of Qualitative Data in Cross Section. The list of functions includes join-count tests, Q test, spatial scan test, similarity test and spatial runs test. The methodology of these models can be found in and . Package: r-cran-spreda Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 896 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-nlme Filename: pool/dists/focal/main/r-cran-spreda_1.2-1.ca2004.1_all.deb Size: 855276 MD5sum: 34c9e2d26fa014c9887d66fa2c76b792 SHA1: 9a90cdac72953d9ac9656ccfcd9b5d21adee4e38 SHA256: 4d723c663d97047b5047682d36aaab32bd6f5e1edf9095aea7febbf3220e1ab1 SHA512: e921f119aafd7241e0e34c257caffc2196eeed1f673bc574ad01c0de9100821513a3aa9011b0e219166342b498a147b9d9ffd07439ae4788258e5568ae6d6f9d Homepage: https://cran.r-project.org/package=SPREDA Description: CRAN Package 'SPREDA' (Statistical Package for Reliability Data Analysis) The Statistical Package for REliability Data Analysis (SPREDA) implements recently-developed statistical methods for the analysis of reliability data. Modern technological developments, such as sensors and smart chips, allow us to dynamically track product/system usage as well as other environmental variables, such as temperature and humidity. We refer to these variables as dynamic covariates. The package contains functions for the analysis of time-to-event data with dynamic covariates and degradation data with dynamic covariates. The package also contains functions that can be used for analyzing time-to-event data with right censoring, and with left truncation and right censoring. Financial support from NSF and DuPont are acknowledged. Package: r-cran-spreg Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sn, r-cran-ucminf Filename: pool/dists/focal/main/r-cran-spreg_1.0-1.ca2004.1_all.deb Size: 30812 MD5sum: a9dc7b434d454b8926e18ecfe8a376d4 SHA1: a465799ecb4e39fb20092910193643298c549e6d SHA256: e1fde9fd9c9821d2ad2d5d0f550de9980fb34092e7c1f52e6202b6eab62f36d5 SHA512: f881e7c1eddb96b3cc4d3878726ec80cbb699b5a9c533216b02851dc69a268fbe6bb16c3f83ef1ba6275e2c13dbf633ea21e3feccaf36dbb48f154c0d82422d1 Homepage: https://cran.r-project.org/package=SPreg Description: CRAN Package 'SPreg' (Bias Reduction in the Skew-Probit Model for a Binary Response) Provides a function for the estimation of parameters in a binary regression with the skew-probit link function. Naive MLE, Jeffrey type of prior and Cauchy prior type of penalization are implemented, as described in DongHyuk Lee and Samiran Sinha (2019+) . Package: r-cran-spreval Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1101 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-timedate, r-cran-interp Suggests: r-cran-fields, r-cran-knitr, r-cran-rmarkdown, r-cran-plotrix Filename: pool/dists/focal/main/r-cran-spreval_1.1.0-1.ca2004.1_all.deb Size: 676712 MD5sum: 30db2496a68bab8457621d616ea4177b SHA1: a5405681bc47bf3a6ae2f9c819dce5325a067cad SHA256: de9438f9cf9250d9bcde91fd8f5d9737cadde5c6121365500f962c40b1279cee SHA512: e45ee67de315a523136cb48082cba3750960eb0c9d802fec12f233fa79e43b2193b7c2afb1bbe3c74189c557ea9982d88189e4c9f99d4719a5e8e90d6e0523aa Homepage: https://cran.r-project.org/package=spreval Description: CRAN Package 'spreval' (Evaluation of Sprinkler Irrigation Uniformity and Efficiency) Processing and analysis of field collected or simulated sprinkler system catch data (depths) to characterize irrigation uniformity and efficiency using standard and other measures. Standard measures include the Christiansen coefficient of uniformity (CU) as found in Christiansen, J.E.(1942, ISBN:0138779295, "Irrigation by Sprinkling"); and distribution uniformity (DU), potential efficiency of the low quarter (PELQ), and application efficiency of the low quarter (AELQ) that are implementations of measures of the same notation in Keller, J. and Merriam, J.L. (1978) "Farm Irrigation System Evaluation: A Guide for Management" . spreval::DU.lh is similar to spreval::DU but is the distribution uniformity of the low half instead of low quarter as in DU. spreval::PELQT is a version of spreval::PELQ adapted for traveling systems instead of lateral move or solid-set sprinkler systems. The function spreval::eff is analogous to the method used to compute application efficiency for furrow irrigation presented in Walker, W. and Skogerboe, G.V. (1987,ISBN:0138779295, "Surface Irrigation: Theory and Practice"),that uses piecewise integration of infiltrated depth compared against soil-moisture deficit (SMD), when the argument "target" is set equal to SMD. The other functions contained in the package provide graphical representation of sprinkler system uniformity, and other standard univariate parametric and non-parametric statistical measures as applied to sprinkler system catch depths. A sample data set of field test data spreval::catchcan (catch depths) is provided and is used in examples and vignettes. Agricultural systems emphasized, but this package can be used for landscape irrigation evaluation, and a landscape (turf) vignette is included as an example application. Package: r-cran-sprex Architecture: all Version: 1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-swfscmisc Filename: pool/dists/focal/main/r-cran-sprex_1.4.3-1.ca2004.1_all.deb Size: 72712 MD5sum: f6afa06e51c899c07564fddd61638cde SHA1: 7bdf496dae4a90e2a7c806e450a64e3d96d117df SHA256: 87ca5b1b1b395160136631d00def2942e16dd60a74236750e594d1a204112af2 SHA512: 450bc250672286f4c6536a98a6b302460be70594c36b8a2f4b3ba176535e8156546cfedd5ca1411b90783089b148c63eec35f0b1d01904eea68beab9846731e2 Homepage: https://cran.r-project.org/package=sprex Description: CRAN Package 'sprex' (Species Richness and Extrapolation) Functions for calculating species richness for rarefaction and extrapolation, primarily non-parametric species richness such as jackknife, Chao1, and ACE. Also available are functions for plotting species richness and extrapolation curves, and computing standard diversity and entropy indices. Package: r-cran-springpheno Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-springpheno_0.5.0-1.ca2004.1_all.deb Size: 149764 MD5sum: 1613dcdf92047f10d9623edec5f9c188 SHA1: 16e2e7725ce43ac472d3051affe096fac93e2310 SHA256: a209d4c053459cfe849137aad87f66d0615fac7ba698e0e65fcef729878ad65f SHA512: e741a73ee9ea037496569c3fe97d535a42be3c1f2ae33b29b0af1693ad581093170741e135e08e326c8863079908ee0a1e8b0e1541c4b39d8f9265d24643be1c Homepage: https://cran.r-project.org/package=springpheno Description: CRAN Package 'springpheno' (Spring Phenological Indices) Computes the extended spring indices (SI-x) and false spring exposure indices (FSEI). The SI-x indices are standard indices used for analysis in spring phenology studies. In addition, the FSEI is also from research on the climatology of false springs and adjusted to include an early and late false spring exposure index. The indices include the first leaf index, first bloom index, and false spring exposure indices, along with all calculations for all functions needed to calculate each index. The main function returns all indices, but each function can also be run separately. Allstadt et al. (2015) Ault et al. (2015) Peterson and Abatzoglou (2014) Schwarz et al. (2006) Schwarz et al. (2013) . Package: r-cran-springsteen Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 993 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-devtools, r-cran-rlang Suggests: r-cran-tidytext, r-cran-dplyr, r-cran-lubridate, r-cran-readr, r-cran-stringr, r-cran-magrittr, r-cran-tidyselect Filename: pool/dists/focal/main/r-cran-springsteen_0.1.0-1.ca2004.1_all.deb Size: 720960 MD5sum: 0570becfae5b7d3970bb89e82dc9da18 SHA1: 7f7c4c91afe2b5ad2e274e89d90027eb636bb03d SHA256: 4cdea1a258804c57d77ddf52831408992f72a3ab84d766d40c37c01792d5a575 SHA512: 6dc8e671f7af5c93b2939b18b6212bb9a3132d22fa387341f3e85db3142f552babc307ce3e14fddf00af1fd04af4b03bbecaaa0023c8d98a4abb1731fdf3a758 Homepage: https://cran.r-project.org/package=spRingsteen Description: CRAN Package 'spRingsteen' (All Things Data and Springsteen) An R data package containing setlists from all Bruce Springsteen concerts over 1973-2021. Also includes all his song details such as lyrics and albums. Data extracted from: . Package: r-cran-sprsmdl Architecture: all Version: 0.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sprsmdl_0.1-0-1.ca2004.1_all.deb Size: 24672 MD5sum: 8a42eef21eed1aebb9b3ae7a98e4c68c SHA1: 7e93dde14b2711626934381d9548d7036af9478e SHA256: 982e4d95e9962f5b5be2f78ea7d9afca758a740ad956b49fc9d565b4ea1c2f22 SHA512: 67b5ae948ff34df267da18e28e7daa3ae56f92cd0ae8e1e3a10a65104453b70f29212fcb4a22ea762d1e9ea4707238bc7a0a95e80f47723bd3c145cd601d47c9 Homepage: https://cran.r-project.org/package=sprsmdl Description: CRAN Package 'sprsmdl' (Sparse modeling toolkit) R functions to mine sparse models from data. Package: r-cran-sprt Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sprt_1.0-1.ca2004.1_all.deb Size: 53256 MD5sum: eb32302e0db481ce661a4073d312abde SHA1: c05b17aa6c43c77cdae409b73443367573d09a89 SHA256: 7ea398f20992554c121949e3e312388a80de9078f83ad933fb7e2046b2dc1fb3 SHA512: 61121725e1779b26c4eb41502c39115073d877f9aca9a562a2a9e2a6701c28fb0011e581f0f0918fc00d070b23f2a76018589d21d379e5e13fe0926ee2bb3297 Homepage: https://cran.r-project.org/package=SPRT Description: CRAN Package 'SPRT' (Wald's Sequential Probability Ratio Test) Perform Wald's Sequential Probability Ratio Test on variables with a Normal, Bernoulli, Exponential and Poisson distribution. Plot acceptance and continuation regions, or create your own with the help of closures. 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SPRTs are applied to the data during the sampling process, ideally after each observation. At any stage, the test will return a decision to either continue sampling or terminate and accept one of the specified hypotheses. The seq_ttest() function performs one-sample, two-sample, and paired t-tests for testing one- and two-sided hypotheses (Schnuerch & Erdfelder (2019) ). The seq_anova() function allows to perform a sequential one-way fixed effects ANOVA (Steinhilber et al. (2023) ). Learn more about the package by using vignettes "browseVignettes(package = "sprtt")" or go to the website . 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This package gives functions to draw stratified sequential Poisson samples according to the method by Ohlsson (1998, ISSN:0282-423X), as well as other order sample designs by Rosén (1997, ), and generate appropriate bootstrap replicate weights according to the generalized bootstrap method by Beaumont and Patak (2012, ). Package: r-cran-spscomps Architecture: all Version: 0.3.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 446 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-shiny, r-cran-assertthat, r-cran-stringr, r-cran-glue, r-cran-magrittr, r-cran-shinytoastr, r-cran-shinyace, r-cran-htmltools, r-cran-r6, r-cran-crayon Suggests: r-cran-testthat, r-cran-shinyjqui, r-cran-spsutil Filename: pool/dists/focal/main/r-cran-spscomps_0.3.3.0-1.ca2004.1_all.deb Size: 280104 MD5sum: 84141da3d92d082b4ee911bb4ed3f072 SHA1: 7cae66bb25fa93e8d013ac13a8a15614cac3196c SHA256: c1f06a156a894bc2cb75962e8c8145df3fa1be2bdbabceafe857f38f0d435e47 SHA512: 60af052b72cb9b3eba260e93119980efbcafab03689ff920d6a4512883fe77db5a2ac6b9d60924852e5b041d4ff54f51b72e895f4fb9d8d6b8693da888449152 Homepage: https://cran.r-project.org/package=spsComps Description: CRAN Package 'spsComps' ('systemPipeShiny' UI and Server Components) The systemPipeShiny (SPS) framework comes with many UI and server components. However, installing the whole framework is heavy and takes some time. If you would like to use UI and server components from SPS in your own Shiny apps, do not hesitate to try this package. Package: r-cran-spselect Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tester, r-cran-magic, r-cran-pracma Filename: pool/dists/focal/main/r-cran-spselect_0.0.1-1.ca2004.1_all.deb Size: 93432 MD5sum: 1e95808e459e00993944ced542e36af9 SHA1: d45f8ab3ee868bae9a050e065d10fe68a487020b SHA256: 95393987dfc1111be7a3fc607c631ed73a0cab8b87af8e4bc5298c5adbfa4c54 SHA512: f033af6ba8ae01e19fae6ca229bb168ffec896569aebc8a4dbc007fe379f0c7c47e2132c11562eb9990162fe2be9673e8a822ef95690788888e8c26c071377d6 Homepage: https://cran.r-project.org/package=spselect Description: CRAN Package 'spselect' (Selecting Spatial Scale of Covariates in Regression Models) Fits spatial scale (SS) forward stepwise regression, SS incremental forward stagewise regression, SS least angle regression (LARS), and SS lasso models. All area-level covariates are considered at all available scales to enter a model, but the SS algorithms are constrained to select each area-level covariate at a single spatial scale. Package: r-cran-spsh Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 223 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-deoptim, r-cran-lhs, r-cran-pracma, r-cran-fme, r-cran-hypergeo, r-cran-rdpack Filename: pool/dists/focal/main/r-cran-spsh_1.1.0-1.ca2004.1_all.deb Size: 183124 MD5sum: 6bc4c682b4abfb9784b65f47d87b80ed SHA1: fb29024aa44933ce0e79dbc6e32d4a7f3e036332 SHA256: 0ba8b83dfb03cc50cfad54589f477f01a1b8f4d02a8eee058ca3bfbec536b427 SHA512: 2ae25cef27257742a1898d84bd3b7df23f9df54873c4ada0701c44d9acd7da964e71c1693b1f88e28804f9752118f4b942a96d11c62f9e16235042e2d395266d Homepage: https://cran.r-project.org/package=spsh Description: CRAN Package 'spsh' (Estimation and Prediction of Parameters of Various SoilHydraulic Property Models) Estimates model parameters of soil hydraulic property functions by inverting measured data. A wide range of hydraulic models, weighting schemes, global optimization algorithms, Markov chain Monte Carlo samplers, and extended statistical analyses of results are provided. Prediction of soil hydraulic property model parameters and common soil properties using pedotransfer functions is facilitated. Parameter estimation is based on identically and independentally distributed (weighted) model residuals, and simple model selection criteria (Hoege, M., Woehling, T., and Nowak, W. (2018) ) can be calculated. The included models are the van Genuchten-Mualem in its unimodal, bimodal and trimodal form, the the Kosugi 2 parametric-Mualem model, and the Fredlund-Xing model. All models can be extended to account for non-capillary water storage and conductivity (Weber, T.K.D., Durner, W., Streck, T. and Diamantopoulos, E. (2019) . The isothermal vapour conductivity (Saito, H., Simunek, J. and Mohanty, B.P. (2006) ) is calculated based on volumetric air space and a selection of different tortuosity models: (Grable, A.R., Siemer, E.G. (1968) , Lai, S.H., Tiedje J.M., Erickson, E. (1976) , Moldrup, P., Olesen, T., Rolston, D.E., and Yamaguchi, T. (1997) , Moldrup, P., Olesen, T., Yoshikawa, S., Komatsu, T., and Rolston, D.E. (2004) , Moldrup, P., Olesen, T., Yoshikawa, S., Komatsu, T., and Rolston, D.E. (2005) , Millington, R.J., Quirk, J.P. (1961) , Penman, H.L. (1940) , and Xu, X, Nieber, J.L. Gupta, S.C. (1992) ). Package: r-cran-spsi Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plot3d Filename: pool/dists/focal/main/r-cran-spsi_0.1-1.ca2004.1_all.deb Size: 88796 MD5sum: 57e7491f3c4ab229343c1e23e0da9795 SHA1: cb410fa3f1a7889acdce5d5c9d96c236666b28c7 SHA256: f74920e693c1d650780ecfd865a999b6697ca217377e6062d852c86cca13fedf SHA512: 195183a10aeefd00dbb4705a0dad6c80634c625658c71ff826cebd6b14afa37b5896ff86eb2f073d5b6c120faac90c032a62ba0e8c2f033b5de55b42536fa81b Homepage: https://cran.r-project.org/package=spsi Description: CRAN Package 'spsi' (Shape-Preserving Uni-Variate and Bi-Variate Spline Interpolation) Program uses method of polynomial of variable degrees to interpolate gridded data preserving monotonicity and/or convexity or none. Method is implemented for univariate and bivariate cases. If values of derivatives are provided, spline will fix them,if not program will estimate them numerically. Package written purely in R. Package: r-cran-spsl Architecture: all Version: 0.1-9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-spsl_0.1-9-1.ca2004.1_all.deb Size: 108620 MD5sum: b8e9cfce85945bd63122acbacba739e2 SHA1: eb3430efb90d57f75e5e696f5eb05066bb60d7fc SHA256: e6a88751ad12f9d0a41b63820c8e64c6b1b71533375abeeedffc9540d864d8b1 SHA512: 461d4c5df123b58280051f82d917b587eb565d5c7e6743790cb33578fef347459a3b69a3e57c0061ec77c869a99c4f5f2b7ed4e0c0ea3e7ddbb58782a8c3c2fa Homepage: https://cran.r-project.org/package=SPSL Description: CRAN Package 'SPSL' (Site Percolation on Square Lattices (SPSL)) Provides basic functionality for labeling iso- & anisotropic percolation clusters on 2D & 3D square lattices with various lattice sizes, occupation probabilities, von Neumann & Moore (1,d)-neighborhoods, and random variables weighting the percolation lattice sites. Package: r-cran-spsur Architecture: all Version: 1.0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4374 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-formula, r-cran-ggplot2, r-cran-gmodels, r-cran-gridextra, r-cran-mass, r-cran-matrix, r-cran-minqa, r-cran-numderiv, r-cran-rdpack, r-cran-rlang, r-cran-sparsemvn, r-cran-spatialreg, r-cran-spdep, r-cran-sphet Suggests: r-cran-dplyr, r-cran-knitr, r-cran-sf Filename: pool/dists/focal/main/r-cran-spsur_1.0.2.5-1.ca2004.1_all.deb Size: 1860068 MD5sum: 10080da740d7bdf16aa00547599af546 SHA1: 5455e4ed073561f4d9886be1b1b9a96b3dc0ae5b SHA256: b448be5400d4b9a62330942fc1163f14097b194321a3807549f2aafbbe7488c6 SHA512: 97cdd09e87d3797570bcaf66faebcfa8836c09c9e731e702b800cbbacdbd6b6c7d8044e5c2a5b77a2b1cf7e51f08acb53b01c5720afa580caead36f33e7841d8 Homepage: https://cran.r-project.org/package=spsur Description: CRAN Package 'spsur' (Spatial Seemingly Unrelated Regression Models) A collection of functions to test and estimate Seemingly Unrelated Regression (usually called SUR) models, with spatial structure, by maximum likelihood and three-stage least squares. The package estimates the most common spatial specifications, that is, SUR with Spatial Lag of X regressors (called SUR-SLX), SUR with Spatial Lag Model (called SUR-SLM), SUR with Spatial Error Model (called SUR-SEM), SUR with Spatial Durbin Model (called SUR-SDM), SUR with Spatial Durbin Error Model (called SUR-SDEM), SUR with Spatial Autoregressive terms and Spatial Autoregressive Disturbances (called SUR-SARAR), SUR-SARAR with Spatial Lag of X regressors (called SUR-GNM) and SUR with Spatially Independent Model (called SUR-SIM). The methodology of these models can be found in next references Minguez, R., Lopez, F.A., and Mur, J. (2022) Mur, J., Lopez, F.A., and Herrera, M. (2010) Lopez, F.A., Mur, J., and Angulo, A. (2014) . Package: r-cran-spsurvey Architecture: all Version: 5.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7144 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-survey, r-cran-boot, r-cran-crossdes, r-cran-deldir, r-cran-lme4, r-cran-mass, r-cran-sampling, r-cran-units Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-spsurvey_5.5.1-1.ca2004.1_all.deb Size: 2226524 MD5sum: af6533b7fe9cd78d62eef91dbb97c3dd SHA1: 75f5a14380376454ba97d433eb2e671ab9ff00bf SHA256: e28f18f531d6ba96ee23eb39616025e85a1d2c2f7dcdb05f2c0993c42ff1d72a SHA512: a2cb7afde974c6709c98434a68f40495b7e1b18b3a401bc9181318db7b82b90d3a9335cca5faadf5d6a085e79bf5ce46d278c03433a5b07412f026eb24dee815 Homepage: https://cran.r-project.org/package=spsurvey Description: CRAN Package 'spsurvey' (Spatial Sampling Design and Analysis) A design-based approach to statistical inference, with a focus on spatial data. Spatially balanced samples are selected using the Generalized Random Tessellation Stratified (GRTS) algorithm. The GRTS algorithm can be applied to finite resources (point geometries) and infinite resources (linear / linestring and areal / polygon geometries) and flexibly accommodates a diverse set of sampling design features, including stratification, unequal inclusion probabilities, proportional (to size) inclusion probabilities, legacy (historical) sites, a minimum distance between sites, and two options for replacement sites (reverse hierarchical order and nearest neighbor). Data are analyzed using a wide range of analysis functions that perform categorical variable analysis, continuous variable analysis, attributable risk analysis, risk difference analysis, relative risk analysis, change analysis, and trend analysis. spsurvey can also be used to summarize objects, visualize objects, select samples that are not spatially balanced, select panel samples, measure the amount of spatial balance in a sample, adjust design weights, and more. For additional details, see Dumelle et al. (2023) . Package: r-cran-spsutil Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-assertthat, r-cran-stringr, r-cran-glue, r-cran-magrittr, r-cran-crayon, r-cran-r6 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-spsutil_0.2.2-1.ca2004.1_all.deb Size: 124760 MD5sum: 114441666d9b59b0c72a7bfe5a630214 SHA1: 7da1afeb601048cfd65cf9cb9079734831300155 SHA256: 45c34098c49f9ec4a1a2f77db3a76fc1de5113dd520cf18ce0dc7782fa862fcf SHA512: 5cfd37285080284791eca80f455475b6118f861d55aa285bac7655f277537539cd83e5eea6e2ad87bf75f424deeeb8dfb8cb9b2e41e5dfcba8b49547003be5aa Homepage: https://cran.r-project.org/package=spsUtil Description: CRAN Package 'spsUtil' ('systemPipeShiny' Utility Functions) The systemPipeShiny (SPS) framework comes with many useful utility functions. However, installing the whole framework is heavy and takes some time. If you like only a few useful utility functions from SPS, install this package is enough. Package: r-cran-spthin Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-spam, r-cran-fields, r-cran-knitr Filename: pool/dists/focal/main/r-cran-spthin_0.2.0-1.ca2004.1_all.deb Size: 92072 MD5sum: 964c81a86f082ec246af4227c125a769 SHA1: 7bade46813db71803b90993744927c4822ec3654 SHA256: c0e0942ba11107163b2dfa9e3eaf817489e866365d687772d4af20ec56bdfac8 SHA512: 9f6ba5e109a0f7c7eec4ca7bce656d5b26a61f5c766fb9a105567a4ef2fc5a248ca6885340af9188cbba71c710c097604ed48f2184f15a64a9deb31981ec8bb9 Homepage: https://cran.r-project.org/package=spThin Description: CRAN Package 'spThin' (Functions for Spatial Thinning of Species Occurrence Records forUse in Ecological Models) A set of functions that can be used to spatially thin species occurrence data. The resulting thinned data can be used in ecological modeling, such as ecological niche modeling. Package: r-cran-sptotal Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1768 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-viridis Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat, r-cran-prettydoc, r-cran-tibble, r-cran-gstat Filename: pool/dists/focal/main/r-cran-sptotal_1.0.1-1.ca2004.1_all.deb Size: 1147620 MD5sum: afcde0e7617478f0a9e1f8fb41125c66 SHA1: 49423c7be7e2b420e4a114be36eabc0a16dfcf98 SHA256: 253b67a1fd933db932d43adf42f50d78447377b0923e81a3d5594323d557fa61 SHA512: f02e7a936cdedcb05e95ef93d8ae7d5d741c59e836118c7cae6a21ed000b5510b400b8d8c75d21157e2cb9478ef567c7f0c55cba70cdf734d3c3f8b148687145 Homepage: https://cran.r-project.org/package=sptotal Description: CRAN Package 'sptotal' (Predicting Totals and Weighted Sums from Spatial Data) Performs predictions of totals and weighted sums, or finite population block kriging, on spatial data using the methods in Ver Hoef (2008) . The primary outputs are an estimate of the total, mean, or weighted sum in the region, an estimated prediction variance, and a plot of the predicted and observed values. This is useful primarily to users with ecological data that are counts or densities measured on some sites in a finite area of interest. Spatial prediction for the total count or average density in the entire region can then be done using the functions in this package. Package: r-cran-spup Architecture: all Version: 1.4-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2362 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-gstat, r-cran-magrittr, r-cran-mvtnorm, r-cran-purrr, r-cran-raster, r-cran-whisker Suggests: r-cran-dplyr, r-cran-ggally, r-cran-gridextra, r-cran-knitr, r-cran-png, r-cran-readr, r-cran-sp, r-cran-testthat, r-cran-sf Filename: pool/dists/focal/main/r-cran-spup_1.4-0-1.ca2004.1_all.deb Size: 1715536 MD5sum: 9622f6e38de88a59813ceb120714aa45 SHA1: 088c16c4a35cf3b9bdc042dae212709244c75e22 SHA256: 05e90ba0d245de28a4eec9ee3d1153a4cdcf8dc97d0b9d1496ac42a5804443b9 SHA512: 553c06c2b677550a80e3000d2a58b026e781099b7e3d0b11f82e9363cc9ad0d2a9c38c55d9a5084d04f63c69b6cedf830befe0cc7eabb3772b4e791588352dbc Homepage: https://cran.r-project.org/package=spup Description: CRAN Package 'spup' (Spatial Uncertainty Propagation Analysis) Uncertainty propagation analysis in spatial environmental modelling following methodology described in Heuvelink et al. (2007) and Brown and Heuvelink (2007) . The package provides functions for examining the uncertainty propagation starting from input data and model parameters, via the environmental model onto model outputs. The functions include uncertainty model specification, stochastic simulation and propagation of uncertainty using Monte Carlo (MC) techniques. Uncertain variables are described by probability distributions. Both numerical and categorical data types are handled. Spatial auto-correlation within an attribute and cross-correlation between attributes is accommodated for. The MC realizations may be used as input to the environmental models called from R, or externally. Package: r-cran-spurs Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 414 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-lattice Filename: pool/dists/focal/main/r-cran-spurs_2.0.3-1.ca2004.1_all.deb Size: 190780 MD5sum: b926e04f5d9d2a1313aeb4064309a326 SHA1: a3ce3dbef3de372f6883b67f0b24423c0ffc0fb0 SHA256: 67ff3d0b1a75e42ace70fc94be8d5f09c06376277322293a6f9555b606e323d1 SHA512: f8b5ec849709a52318c4cd2e978f80925dce214a4c10b8e60448ce9e4c0cbaf08f1876cd54be60f98d30277b67fa7fc243c52ba38f8b8cc3ef770003b61b9d4d Homepage: https://cran.r-project.org/package=spuRs Description: CRAN Package 'spuRs' (Functions and Datasets for "Introduction to ScientificProgramming and Simulation Using R") Provides functions and datasets from Jones, O.D., R. Maillardet, and A.P. Robinson. 2014. An Introduction to Scientific Programming and Simulation, Using R. 2nd Ed. Chapman And Hall/CRC. Package: r-cran-sputnik Architecture: all Version: 1.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-e1071, r-bioc-edger, r-cran-spatstat.explore, r-cran-spatstat.geom, r-cran-viridis, r-cran-ggplot2, r-cran-reshape, r-cran-imager, r-cran-infotheo, r-cran-irlba, r-cran-dosnow, r-cran-foreach Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sputnik_1.4.3-1.ca2004.1_all.deb Size: 221728 MD5sum: 34788326730cbf2f2c3df252ac26f673 SHA1: 11af516445f367f56c94c1f22ff3de80e0ce0c25 SHA256: 1e4e1d7b1d6bac05ec961b50bcdcfadf9e809ab157433f540b5fa6096b4dc3f2 SHA512: bb5ff47665b71d155d8f5313d24e053aff08f93b8d0c53f64fab033ec6f145a67bd68a30a026d95a1e4bc0eb0e77317f51119df4b46b444723ea83cdd8e00c6a Homepage: https://cran.r-project.org/package=SPUTNIK Description: CRAN Package 'SPUTNIK' (Spatially Automatic Denoising for Imaging Mass SpectrometryToolkit) Set of tools for peak filtering of mass spectrometry imaging data based on spatial distribution of signal. Given a region-of-interest, representing the spatial region where the informative signal is expected to be localized, a series of filters determine which peak signals are characterized by an implausible spatial distribution. The filters reduce the dataset dimension and increase its information vs noise ratio, improving the quality of the unsupervised analysis results, reducing data dimension and simplifying the chemical interpretation. The methods are described in Inglese P. et al (2019) . Package: r-cran-spyvsspy Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-spyvsspy_0.1.1-1.ca2004.1_all.deb Size: 13088 MD5sum: b25be54c78dd72f59dde75bff455f76c SHA1: f786227b4d6028aa2566042d15c7ce3f0c8b7036 SHA256: f5cbe7a84441ac686d73b03e0f3ba493c5ac019ce2b017e5db63829ec1f69dc7 SHA512: 896be15bcbf6a890d04fd13c7fe4da6f5b8b3905202a5b2e2201475055e9a81b0cb6a896094eb3a0f733eb335894a2ed4bab5634a7d746ec14b11623a67f0488 Homepage: https://cran.r-project.org/package=SPYvsSPY Description: CRAN Package 'SPYvsSPY' (Spy vs. Spy Data) Data on the Spy vs. Spy comic strip of Mad magazine, created and written by Antonio Prohias. Package: r-cran-sqb Architecture: all Version: 0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-nnet, r-cran-pls Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-sqb_0.4-1.ca2004.1_all.deb Size: 29060 MD5sum: 48fe47afaa327476d0db17daf3e182ca SHA1: 955d56e1a321e2c2e900706d1d62f6491269c2b1 SHA256: 41eef9b03d51e7a778253580705a48cfccfb8c79993e325d9bf002b85ff8eaac SHA512: 9ea530ab7a0b30f353d415181bed177364abe200c989d81100e7facd00e26e3ead75dee9cc0deb85b6f294f66dca1ed9f21f973aae431a421a05aa7123bc6943 Homepage: https://cran.r-project.org/package=SQB Description: CRAN Package 'SQB' (Sequential Bagging on Regression) Methodology: Remove one observation. Training the rest of data that are sampled without replacement and given this observation's input, predict the response back. Replicate this N times and for each response, take a sample from these replicates with replacement. Average each responses of sample and again replicate this step N time for each observation. Approximate these N new responses by using bootstrap method and generate another N responses y'. Training these y' and predict to have N responses of each testing observation. The average of N is the final prediction. Each observation will do the same. Package: r-cran-sqda Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1565 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-limma, r-cran-pdsce, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-sqda_1.0-1.ca2004.1_all.deb Size: 1569440 MD5sum: dc567309020a0faa95b383a704f4b463 SHA1: af46fbbcde35d9930142c92459661f49bbd041f0 SHA256: 2ecde094d76f53558d8283a2abb61685e7214b09adfddb0ec976d520ec1e83df SHA512: 1556317d1ca4c6e3b2fa617c99f91c37f277c7b51a6ee5de4abb32da0d81b5adf94c07215d7782f36723abd14eae04860802d82ec13d451e383112aaceec0828 Homepage: https://cran.r-project.org/package=SQDA Description: CRAN Package 'SQDA' (Sparse Quadratic Discriminant Analysis) Sparse Quadratic Discriminant Analysis (SQDA) can be performed. In SQDA, the covariance matrix are assumed to be block-diagonal.And, for each block, sparsity assumption is imposed on the covariance matrix. It is useful in high-dimensional setting. Package: r-cran-sqi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-readxl, r-cran-dplyr, r-cran-matrixstats, r-cran-olsrr, r-cran-factominer Filename: pool/dists/focal/main/r-cran-sqi_0.1.0-1.ca2004.1_all.deb Size: 86308 MD5sum: 5dee84b09b3bf0a742fbb5abbe9cfc9c SHA1: ee9579685875fdb8aa4cf9eefc125dc9aa8c5c07 SHA256: 6ca6f7251396d3e1fd3bbbc2e16ee1961eda171dde826d33791bce3ceee4d08d SHA512: 0070dbcbb31af21537a5dfeb6728e84a2c7ef73cea696e78a072065c65ad157d015af0564a8197f16856465f1505b8411f1883634ad91e65b1a299015d04094f Homepage: https://cran.r-project.org/package=SQI Description: CRAN Package 'SQI' (Soil Quality Index) The overall performance of soil ecosystem services and productivity greatly relies on soil health, making it a crucial indicator. The evaluation of soil physical, chemical, and biological parameters is necessary to determine the overall soil quality index. In our package, three commonly used methods, including linear scoring, regression-based, and principal component-based soil quality indexing, are employed to calculate the soil quality index. This package has been developed using concept of Bastida et al. (2008) and Doran and Parkin (1994) . Package: r-cran-sql Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dbi, r-cran-duckdb, r-cran-arrow, r-cran-stringr Filename: pool/dists/focal/main/r-cran-sql_0.1.1-1.ca2004.1_all.deb Size: 16336 MD5sum: 230adf4795c3f76a862cd24fd72b34b6 SHA1: 72e4e7d9e58b20b2bf90278ace0d5601b83a70a1 SHA256: 793ccc5380548930b853e3c26bdfcdc705b6d18afe4d0066008159cffcb82778 SHA512: aa756fde0a2e7b133287ee7f820eef10f806596f8225d84e4b04327f3075387148ce12df248002ba073022b0924102784ba75e2fc967a4f5ec7889313685d5d5 Homepage: https://cran.r-project.org/package=SQL Description: CRAN Package 'SQL' (Executes 'SQL' Statements) Runs 'SQL' statements on in-memory data frames within a temporary in-memory 'duckdb' data base. Package: r-cran-sqlcaser Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sqlcaser_0.2.0-1.ca2004.1_all.deb Size: 24064 MD5sum: 4816bfe35f650fc9f487ac098f7b559e SHA1: 5ad31c9d68afbc0c5b8b1dce64082ad4b2f819fe SHA256: 98240e930a71def810e2b760889c4d70e8342795bdf770538ee23d5e601e0c51 SHA512: 5a9803b531f231b9dc9194f7f7882a36dda6b1ab3d3bf12932d642e10cf5d1024de28c055e06465f026f6069e357d1afaf2a2ecd0660a4912b8e41363e630ebc Homepage: https://cran.r-project.org/package=sqlcaser Description: CRAN Package 'sqlcaser' ('SQL' Case Statement Generator) Includes built-in methods for generating long 'SQL' CASE statements, and other 'SQL' statements that may otherwise be arduous to construct by hand. The generated statement can easily be concatenated to string literals to form queries to 'SQL'-like databases, such as when using the 'RODBC' package. The current methods include casewhen() for building CASE statements, inlist() for building IN statements, and updatetable() for building UPDATE statements. Package: r-cran-sqldf Architecture: all Version: 0.4-11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gsubfn, r-cran-proto, r-cran-rsqlite, r-cran-dbi, r-cran-chron Suggests: r-cran-rh2, r-cran-rmysql, r-cran-rpostgresql, r-cran-svunit, r-cran-mass Filename: pool/dists/focal/main/r-cran-sqldf_0.4-11-1.ca2004.1_all.deb Size: 75668 MD5sum: 9681c2ef79a48a832cfa721a0a268cfc SHA1: 8cc7777908fb3b7ee4c7174e9b126ca1ec7d0544 SHA256: 6ea7bb66bf6e7f2e729dbac3c61cedfd67ef421e50fe6d76846ae86d89594e0a SHA512: 199aff1ceaf1d3464337525cc3fdf2bb7383c9d0adb6697a1ce8746fe471bf2ddc9c6615482bc63b79313e2dd05b68ed84eefe9889fb1ec9d0a712b07bc2b88b Homepage: https://cran.r-project.org/package=sqldf Description: CRAN Package 'sqldf' (Manipulate R Data Frames Using SQL) The sqldf() function is typically passed a single argument which is an SQL select statement where the table names are ordinary R data frame names. sqldf() transparently sets up a database, imports the data frames into that database, performs the SQL select or other statement and returns the result using a heuristic to determine which class to assign to each column of the returned data frame. The sqldf() or read.csv.sql() functions can also be used to read filtered files into R even if the original files are larger than R itself can handle. 'RSQLite', 'RH2', 'RMySQL' and 'RPostgreSQL' backends are supported. 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'SQL' statements and queries may be interpolated with string literals. Execution of individual statements and queries may be controlled with keywords. Multiple connections may be defined with 'YAML' and accessed by name. Package: r-cran-sqlhelpers Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-toolbox, r-cran-dbi, r-cran-odbc, r-cran-stringi Filename: pool/dists/focal/main/r-cran-sqlhelpers_0.1.2-1.ca2004.1_all.deb Size: 64680 MD5sum: ae5fc16af7c0b74883b32a7005dc79fd SHA1: 1da108d82e190d53f020fe291460a88916459413 SHA256: 6356f711d4a19df7865c555e3f3236787ca08b73d89ba7b53f7b1529d110ea14 SHA512: 05c5d5b124b1f63a27f1a02d0a0e1978bbbf13cf794b22cdd0ba2cfd38578265dbbe6a33245574c93f9337e701fe18d3ee79ea872e5baf664577213b0741e976 Homepage: https://cran.r-project.org/package=sqlHelpers Description: CRAN Package 'sqlHelpers' (Collection of 'SQL' Utilities for 'T-SQL' and 'Postgresql') Includes functions for interacting with common meta data fields, writing insert statements, calling functions, and more for 'T-SQL' and 'Postgresql'. Package: r-cran-sqliter Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-functional, r-cran-dbi, r-cran-rsqlite Filename: pool/dists/focal/main/r-cran-sqliter_0.1.0-1.ca2004.1_all.deb Size: 21176 MD5sum: 6d71c90beca496d44950e355aa9d00d7 SHA1: 70497634aef9ee9da51a0cc1dc6c6841df374a31 SHA256: 43142a3fbee645aada97cb0da475711b2c42ba4d794697e8bafddbac46f9f6ef SHA512: 53fe78d1c13ad4ac5f9c7a22f343bf182f27b1f798965798b60273d4adec51aa412f3a3f079490f6ccaa2b2cedd9643faba13f42b46bdcac5d7cc4bfedba1ede Homepage: https://cran.r-project.org/package=sqliter Description: CRAN Package 'sqliter' (Connection wrapper to SQLite databases) sqliter helps users, mainly data munging practioneers, to organize their sql calls in a clean structure. It simplifies the process of extracting and transforming data into useful formats. Package: r-cran-sqliteutils Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rsqlite, r-cran-dbi, r-cran-dplyr, r-cran-dbplyr, r-cran-magrittr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sqliteutils_0.1.0-1.ca2004.1_all.deb Size: 16016 MD5sum: 44ef3fc445bfb582c323b3c1ead70ca5 SHA1: 8cd211d7e0b9699ee621cc5ad75113a251f3e4ef SHA256: 60b645c83dd89c1267bbf0551b3850f1ee43d39d2a98423ddc7532ae26d21c2c SHA512: 9040216e84400df9d65f57a2f76dd74b87101389c515f22f700081f0bed18a47b9c031aaf968851856a212648f2f82a83347a8cd62ee380db07295e9823309a7 Homepage: https://cran.r-project.org/package=sqliteutils Description: CRAN Package 'sqliteutils' (Utility Functions for 'SQLite') A tool for working with 'SQLite' databases. 'SQLite' has some idiosyncrasies and limitations that impose some hurdles to the R developer who is using this database as a repository. 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Package: r-cran-sqlove Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dbi, r-cran-readr, r-cran-rjdbc, r-cran-odbc Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sqlove_1.0.2-1.ca2004.1_all.deb Size: 23464 MD5sum: 3b19fbea53b7151cbbcb7ede305728ae SHA1: 3aab959e27e32484064535742e372e94c4d55686 SHA256: f5ab0a7fce453f21b7dc298a7f8a3e0e7c921e8f821dc221ee1db728df5aadaa SHA512: 0540a8b8f4af570e5bbc0608aa6d2f5427fbe901ae476e531850ce15adf5eabeaaf7e1cccc7597168ae84751f8246175de0dad45e7c2f33ce041da03a99f035c Homepage: https://cran.r-project.org/package=SQLove Description: CRAN Package 'SQLove' (Execute 'SQL' Scripts in 'R' Containing Multiple Queries) The nature of working with structured query language ('SQL') scripts efficiently often requires the creation of temporary tables and there are few clean and simple 'R' 'SQL' execution approaches that allow you to complete this kind of work with the 'R' environment. This package seeks to give 'SQL' implementations in 'R' a little love by deploying functions that allow you to deploy complex 'SQL' scripts within a typical 'R' workflow. Package: r-cran-sqlparser Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-reticulate Filename: pool/dists/focal/main/r-cran-sqlparser_0.1.0-1.ca2004.1_all.deb Size: 23628 MD5sum: c9f6db55a5a81d6943274df6fc16b263 SHA1: bde414efbbc5206c12f675414bf128671d73fa9b SHA256: 37416fb7d3fd16c16929210f45b6bcce94ee24f59faf9b78c8fef6c9a65e84c0 SHA512: 131e15d11312b07f96148457ef76e44e43751349ab07f679c83a3b17c834a8f05d372f508c1ca4acc6e101a4af94498161a200a491e38411aff1c81bc9154e9d Homepage: https://cran.r-project.org/package=sqlparseR Description: CRAN Package 'sqlparseR' (Wrapper for 'Python' Module 'sqlparse': Parse, Split, and Format'SQL') Wrapper for the non-validating 'SQL' parser 'Python' module 'sqlparse' . It allows parsing, splitting, and formatting 'SQL' statements. Package: r-cran-sqlrender Architecture: all Version: 1.19.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 635 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rjava, r-cran-rlang, r-cran-checkmate Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-shiny, r-cran-shinydashboard Filename: pool/dists/focal/main/r-cran-sqlrender_1.19.2-1.ca2004.1_all.deb Size: 458152 MD5sum: edbde69e828b78b29117b9b779cfad2c SHA1: d4b9d0f0954b27c7d21fc0fedd48b58f01b86780 SHA256: 71f0c3838bf365efa52d6aee6bcb4fffff4e520156090597829eb39703e9d21e SHA512: ab8bfc6989d5d2d396815a5abbd258b166e12dcbe41dec0747353358b1556cf096d567df06855ce411e9cda536ab52a505cc9887f05fde492f5afc409983ec6c Homepage: https://cran.r-project.org/package=SqlRender Description: CRAN Package 'SqlRender' (Rendering Parameterized SQL and Translation to Dialects) A rendering tool for parameterized SQL that also translates into different SQL dialects. 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Package: r-cran-sqlscore Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dbplyr Suggests: r-cran-testthat, r-cran-arm, r-cran-glmnet, r-cran-mboost, r-cran-covr Filename: pool/dists/focal/main/r-cran-sqlscore_0.1.4-1.ca2004.1_all.deb Size: 47932 MD5sum: e2c36b8aac585c890d9ead2fa6058aa3 SHA1: 78eb306b7b5fb2884e96cbf3f8db5f5664f360c7 SHA256: a92ef05b861daf3c5b37199f57a872983ab8425472e269dc5dec02e19d055358 SHA512: 51d9f649c47411751ca9cf7e18513cf83837e0539907b25a368d4f0ef9d5871dc274fe3248b34d11dbe4e598f271ba5ea2ae2ed0debd1894f0ac4d01f0518cd9 Homepage: https://cran.r-project.org/package=sqlscore Description: CRAN Package 'sqlscore' (Utilities for Generating SQL Queries from Model Objects) Provides utilities for generating SQL queries (particularly CREATE TABLE statements) from R model objects. 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Package: r-cran-sqlstrings Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 44 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-fs, r-cran-readr, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sqlstrings_1.0.0-1.ca2004.1_all.deb Size: 12264 MD5sum: e535694b629b6c810697b5b6b3e9e448 SHA1: c2ef95d1272911da4bbf2dfcc8b8518078a1a5de SHA256: dfb9cc38b7f02d43851cb393cf9f636730e63214c95a4a6ab0fc2a2746afea3b SHA512: 2bc87430ef043e974eb984153bee25e3c6611053ffdd2c17ce1ef76c453711bc92d1f988900310e7c1b4276ff0cadbfcf31784220f2441f22be5ff3027fe8bbe Homepage: https://cran.r-project.org/package=sqlstrings Description: CRAN Package 'sqlstrings' (Map 'SQL' Code to R Lists) Provides a helper function, to bulk read 'SQL' code from separate files and load it into an 'R' list, where the list elements contain the individual statements and queries as strings. 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Package: r-cran-sqltargets Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dbi, r-cran-fs, r-cran-glue, r-cran-jinjar, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-stringr, r-cran-tarchetypes, r-cran-targets, r-cran-withr Suggests: r-cran-testthat, r-cran-rsqlite Filename: pool/dists/focal/main/r-cran-sqltargets_0.2.1-1.ca2004.1_all.deb Size: 111316 MD5sum: c0d317a2dacf111baf7f495cf300061f SHA1: 161cc6a658e8964e6265b2b10fe9cab03dd17528 SHA256: 7e7a2ee1250e87d9aeff8261599aa6e4ef227e65a265979418e23a4822f4619e SHA512: a6e54ad12862cc9467e82fa16f590c597e882f5b4dc1d52c02c4588fa1a8d37976f8db7a46eb96ac5aa0e88e585f43a6671e7e23979dc6611df55d7e21787507 Homepage: https://cran.r-project.org/package=sqltargets Description: CRAN Package 'sqltargets' ('Targets' Extension for 'SQL' Queries) Provides an extension for 'SQL' queries as separate file within 'targets' pipelines. 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Package: r-cran-sqmtools Architecture: all Version: 1.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3614 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-zip, r-cran-reshape2, r-cran-ggplot2, r-bioc-pathview, r-cran-data.table, r-bioc-biostrings Suggests: r-cran-vegan, r-cran-microeco, r-bioc-phyloseq Filename: pool/dists/focal/main/r-cran-sqmtools_1.7.2-1.ca2004.1_all.deb Size: 3650504 MD5sum: 531f27b5c6fe6cee8d61411049be97b2 SHA1: 0ae6ee7e07abe4a2f1f543fa3965da30392b5680 SHA256: acee2122afe583501ed61103857a5d998cf176e396fbc6c87076f3e91a0d01c7 SHA512: ce002039de1faf91d40db03945a429f7e0189d2ec62ffee8617fddf67402d1fa5a4df6832210c6130104e3d8a7d195f5955d4875592b31b25abeef2baa918644 Homepage: https://cran.r-project.org/package=SQMtools Description: CRAN Package 'SQMtools' (Analyze Results Generated by the 'SqueezeMeta' Pipeline) 'SqueezeMeta' is a versatile pipeline for the automated analysis of metagenomics/metatranscriptomics data (). This package provides functions loading 'SqueezeMeta' results into R, filtering them based on different criteria, and visualizing the results using basic plots. The 'SqueezeMeta' project (and any subsets of it generated by the different filtering functions) is parsed into a single object, whose different components (e.g. tables with the taxonomic or functional composition across samples, contig/gene abundance profiles) can be easily analyzed using other R packages such as 'vegan' or 'DESeq2'. The methods in this package are further described in Puente-Sánchez et al., (2020) . Package: r-cran-sqn Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mclust, r-cran-nor1mix Filename: pool/dists/focal/main/r-cran-sqn_1.0.6-1.ca2004.1_all.deb Size: 107188 MD5sum: f064ab9e3ab70523650778a0ae3bfa58 SHA1: 1e676819980c37b9fef9c23718ce16cc26e3b89e SHA256: 641c7b54c14bceb052cc1bc0d7c8efc7942f402157f720705a116eea4d1e369c SHA512: e16323c97a38109e734f3b673b32a2563803e5607472e2524725256d84d959e3a92770c8c7b46a8971df620873fe78d78404960407bcea3c4975d84d894c8074 Homepage: https://cran.r-project.org/package=SQN Description: CRAN Package 'SQN' (Subset Quantile Normalization) Normalization based a subset of negative control probes as described in 'Subset quantile normalization using negative control features'. Wu Z, Aryee MJ, J Comput Biol. 2010 Oct;17(10):1385-95 [PMID 20976876]. Package: r-cran-sqrl Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 424 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rodbc Filename: pool/dists/focal/main/r-cran-sqrl_1.0.2-1.ca2004.1_all.deb Size: 379712 MD5sum: aa5226a8ba31cefc456d2924ed1938bb SHA1: fd3caf5ea3ff22cd1482327b05058669d73197e1 SHA256: 4d3619c11cfa761a64b420cc97785d7aa19029b7874636ecd5d87f9f3f7fd85a SHA512: fcd29e8614774016e437da77ee21282e3f82fb50e65c96158b1dcc65fc98e5854120663bffe3e9790a38cec9a548f189d2943f12a873393f2a209201625e9ed8 Homepage: https://cran.r-project.org/package=SQRL Description: CRAN Package 'SQRL' (Enhances Interaction with 'ODBC' Databases) Provides simple and powerful interfaces that facilitate interaction with 'ODBC' data sources. Each data source gets its own unique and dedicated interface, wrapped around 'RODBC'. Communication settings are remembered between queries, and are managed silently in the background. 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Package: r-cran-squant Architecture: all Version: 1.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glmnet, r-cran-survival, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-squant_1.1.7-1.ca2004.1_all.deb Size: 128356 MD5sum: e74e435edbe2bed7eeff910e8d8029ca SHA1: be6b5098fbee88d8abd765a66022dd99255b9e4f SHA256: 2f8ff95400def7b148179fcea7fe5d25877d4b82da601e093240b06790d32fe7 SHA512: 530a41e1a292d885358d99d6072cfbd9897f5c5f3a5333e898212b00ebe69614c5af936c565fad2d31bc83da6fa9c017fbdf7bed0670747cc9307a32eef62247 Homepage: https://cran.r-project.org/package=squant Description: CRAN Package 'squant' (Subgroup Identification Based on Quantitative Objectives) A subgroup identification method for precision medicine based on quantitative objectives. This method can handle continuous, binary and survival endpoint for both prognostic and predictive case. For the predictive case, the method aims at identifying a subgroup for which treatment is better than control by at least a pre-specified or auto-selected constant. For the prognostic case, the method aims at identifying a subgroup that is at least better than a pre-specified/auto-selected constant. The derived signature is a linear combination of predictors, and the selected subgroup are subjects with the signature > 0. The false discover rate when no true subgroup exists is controlled at a user-specified level. Package: r-cran-squarem Architecture: all Version: 2021.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 254 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-setrng Filename: pool/dists/focal/main/r-cran-squarem_2021.1-1.ca2004.1_all.deb Size: 176448 MD5sum: be37b28f0f19eeff13492f364b795dca SHA1: 0342aa9ce2d7ce0c0eb53049bcc34b2564676840 SHA256: 3750d7e9db4a6e4530d92211fd57359bfdbffdf4ee18adfbb2447b35da3eac11 SHA512: 843473bd9ea07853c15f346a3e4478884d579135dd629ec92639e38cae1375c729209fad5dbeef4ea0e6d72b66ace19ac2fa42dbbe4ad5384ced3c68457ce489 Homepage: https://cran.r-project.org/package=SQUAREM Description: CRAN Package 'SQUAREM' (Squared Extrapolation Methods for Accelerating EM-Like MonotoneAlgorithms) Algorithms for accelerating the convergence of slow, monotone sequences from smooth, contraction mapping such as the EM algorithm. It can be used to accelerate any smooth, linearly convergent acceleration scheme. 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Package: r-cran-squash Architecture: all Version: 1.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 183 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-squash_1.0.9-1.ca2004.1_all.deb Size: 143640 MD5sum: 4a0b12ef26e355c65a9119d28eb3b299 SHA1: 93264a8d52d6b23dc1998b863c7d08c80245401e SHA256: 27b52f52ef45f06e4f157bc6f7eefbef199194de0cdb8d10913c1967ea0571c6 SHA512: 958414748ace645812a6106063387495ffac137e9644875f0976eeae26aec34c6993bc2a2479c4f2db37cfb861d78fc0d10dab47028511fb6d056e463bc0b7e0 Homepage: https://cran.r-project.org/package=squash Description: CRAN Package 'squash' (Color-Based Plots for Multivariate Visualization) Functions for color-based visualization of multivariate data, i.e. colorgrams or heatmaps. Lower-level functions map numeric values to colors, display a matrix as an array of colors, and draw color keys. 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This tool has two main objectives: First, it provides an educational tool useful for students, teachers and researchers who want to learn to use mixed-effects models. Users can experience how the mixed-effects model framework can be used to understand distinct biological phenomena by interactively exploring simulated multilevel data. Second, it offers research opportunities to those who are already familiar with mixed-effects models, as it enables the generation of data sets that users may download and use for a range of simulation-based statistical analyses such as power and sensitivity analysis of multilevel and multivariate data [Allegue, H., Araya-Ajoy, Y.G., Dingemanse, N.J., Dochtermann N.A., Garamszegi, L.Z., Nakagawa, S., Reale, D., Schielzeth, H. and Westneat, D.F. (2016) ]. Package: r-cran-squids Architecture: all Version: 25.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 295 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-squids_25.6.1-1.ca2004.1_all.deb Size: 228224 MD5sum: 2cda9c723ad492d9f1ae847bf3990b45 SHA1: 865f8b2437006e01417b27cc2df9db9fbb1acc34 SHA256: d76718526879236b7b3a47bfebaa38d013d8ebba84a8d0bdab8301cee839a0b2 SHA512: 6b2a4206f148309982eaa1c780cb05c9eb6e69766349490db7e6dc67aed26f5971a4dea3d7621febfcc397e3b652e30faae6df2dc3e9ff5e183789e87b67cc28 Homepage: https://cran.r-project.org/package=squids Description: CRAN Package 'squids' (Short Quasi-Unique Identifiers (SQUIDs)) It is often useful to produce short, quasi-unique identifiers (SQUIDs) without the benefit of a central authority to prevent duplication. Although Universally Unique Identifiers (UUIDs) provide for this, these are also unwieldy; for example, the most used UUID, version 4, is 36 characters long. SQUIDs are short (8 characters) at the expense of having more collisions, which can be mitigated by combining them with human-produced suffixes, yielding relatively brief, half human-readable, almost-unique identifiers (see for example the identifiers used for Decentralized Construct Taxonomies; Peters & Crutzen, 2024 ). SQUIDs are the number of centiseconds elapsed since the beginning of 1970 converted to a base 30 system. This package contains functions to produce SQUIDs as well as convert them back into dates and times. 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Package: r-cran-sra Architecture: all Version: 0.1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 170 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-sra_0.1.4.1-1.ca2004.1_all.deb Size: 139524 MD5sum: 6bc1ae0e5c5d079a7db347050e0eb102 SHA1: 20922cbc01d161140250def7e46b10229cae58da SHA256: d39e2f0be4960c59fe416f286a0812cd371c0d67e0f466368737582289059065 SHA512: e76a5f15892ce9406d0266735be4b40febbdc6526f510d34d051c8208357913e4facaa384d21ddce4a0f04e80a8138c2377c99bdfe722d8e16644dfe9e18a408 Homepage: https://cran.r-project.org/package=sra Description: CRAN Package 'sra' (Selection Response Analysis) Artificial selection through selective breeding is an efficient way to induce changes in traits of interest in experimental populations. This package (sra) provides a set of tools to analyse artificial-selection response datasets. 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SRCS: a technique for comparing multiple algorithms under several factors in dynamic optimization problems. In: E. Alba, A. Nakib, P. Siarry (Eds.), Metaheuristics for Dynamic Optimization. Series: Studies in Computational Intelligence 433, Springer, Berlin/Heidelberg, 2012. 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Package: r-cran-sreg Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 176 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-extradistr, r-cran-rlang, r-cran-tidyr, r-cran-cli Suggests: r-cran-haven, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sreg_1.0.1-1.ca2004.1_all.deb Size: 122812 MD5sum: 0caeed792d9a77cfcfb4389f92da9002 SHA1: d737ccdc4bd6dd63396d7d1bf778ef4df9d8926e SHA256: 52b0fec93c32547c9ad9e4e7c3bb4597724e40063d65d4bbbe0039c4d809da3f SHA512: 91542872694d5d16ac5606b99700c45140a92d076dd0617b86cb462766d29d035e28b208819a3f9441d14a1809a3fb0606bd6bd2ac96d131348c9bc908bef3ef Homepage: https://cran.r-project.org/package=sreg Description: CRAN Package 'sreg' (Stratified Randomized Experiments) Estimate average treatment effects (ATEs) in stratified randomized experiments. 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Package: r-cran-sregsurvey Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gamlss, r-cran-gamlss.dist, r-cran-teachingsampling, r-cran-dplyr, r-cran-caret, r-cran-magrittr Suggests: r-cran-survey Filename: pool/dists/focal/main/r-cran-sregsurvey_0.1.3-1.ca2004.1_all.deb Size: 43928 MD5sum: ca020b551040d924be6840e2854acf8e SHA1: ceba0bd81d9905be59c0577181db6fc97ad27858 SHA256: fc51493dc83d53b805cbbb4812eb8c843092ada72e65f681df871bfafb06f9b0 SHA512: c1ad29ba4852fa1ee887ff36fbcef2a10450a03fce69acac5a91cef688680f8411d5630903e16a77ab42d4e0413f41971bde2b0c8ac37b871fdc3f24c58f4b61 Homepage: https://cran.r-project.org/package=sregsurvey Description: CRAN Package 'sregsurvey' (Semiparametric Model-Assisted Estimation in Finite Populations) It is a framework to fit semiparametric regression estimators for the total parameter of a finite population when the interest variable is asymmetric distributed. The main references for this package are Sarndal C.E., Swensson B., and Wretman J. (2003,ISBN: 978-0-387-40620-6, "Model Assisted Survey Sampling." Springer-Verlag) Cardozo C.A, Paula G.A. and Vanegas L.H. (2022) "Generalized log-gamma additive partial linear mdoels with P-spline smoothing", Statistical Papers. Cardozo C.A and Alonso-Malaver C.E. (2022). "Semi-parametric model assisted estimation in finite populations." In preparation. Package: r-cran-srlars Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cellwise, r-cran-glmnet Suggests: r-cran-testthat, r-cran-mvnfast Filename: pool/dists/focal/main/r-cran-srlars_1.0.1-1.ca2004.1_all.deb Size: 43920 MD5sum: cf8c3a0ad43c19a308f5dc7a32782e57 SHA1: 0dc2b013bf8318f27939cf83b3edb5b15be65866 SHA256: a95756334a300cf1ea1a92628ed3820a0b4562ef5a0717e05085a25d86270d50 SHA512: c1652584c02be73be0d0174b612aa9236b6608eecc8bae5e4708c7dd8884cc98a21de3c93c361d77641f100807ef6be0e85f976be585696812cc5a179710b858 Homepage: https://cran.r-project.org/package=srlars Description: CRAN Package 'srlars' (Split Robust Least Angle Regression) Functions to perform split robust least angle regression. The approach first uses the least angle regression algorithm to split the variables into the models of an ensemble and robust estimates of the correlation between predictors. An elastic net estimator is then applied to the selected predictors in each model using the imputed data from the detect deviating cell (DDC) method. Package: r-cran-srlts Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 646 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ncvreg, r-cran-rcpproll, r-cran-rlang, r-cran-yardstick Suggests: r-cran-covr, r-cran-kableextra, r-cran-knitr, r-cran-magrittr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-srlts_0.1.1-1.ca2004.1_all.deb Size: 375756 MD5sum: a14e88d36f323cf2038740c3b7cf004d SHA1: 124ace0d2d12f929bf6dd2f4d698a5ee53d07847 SHA256: 8953b125d32fa8576ae43f9dee23f99f3197e9f27cc711312f791bf758228d31 SHA512: e4649fbd386142163f8b5988248694e5fc153b0968c4d2d7e27c9a396c7112d9ba92426a00baf1fc3421615d64e2a6f624d2516a60db4cddffce0331ef67707b Homepage: https://cran.r-project.org/package=srlTS Description: CRAN Package 'srlTS' (Sparsity-Ranked Lasso for Time Series) An implementation of sparsity-ranked lasso for time series data. This methodology is especially useful for large time series with exogenous features and/or complex seasonality. Originally described in Peterson and Cavanaugh (2022) in the context of variable selection with interactions and/or polynomials, ranked sparsity is a philosophy with methods useful for variable selection in the presence of prior informational asymmetry. This situation exists for time series data with complex seasonality, as shown in Peterson and Cavanaugh (2023+) , which also describes this package in greater detail. The Sparsity-Ranked Lasso (SRL) for Time Series implemented in 'srlTS' can fit large/complex/high-frequency time series quickly, even with a high-dimensional exogenous feature set. The SRL is considerably faster than its competitors, while often producing more accurate predictions. Also included is a long hourly series of arrivals into the University of Iowa Emergency Department with concurrent local temperature. Package: r-cran-srmdata Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 461 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-srmdata_1.0.1-1.ca2004.1_all.deb Size: 359820 MD5sum: bf119be482a2068eefa52a77c1c8886a SHA1: a451525f4ada6a9990d228124a3cf8f591117b7e SHA256: b1733b05217ee500581ebe5c595de0cf44887583bf108d31f54626a53dc101d1 SHA512: 3f27239be608cf240ad2500a4ffecccbd865a7ba4452438890ed55c99c7ced6e2d0a1d16813d337f00999338b74eb6e709a3dcb86868a3a1d4d9157f05571825 Homepage: https://cran.r-project.org/package=SRMData Description: CRAN Package 'SRMData' (Data Files Supporting "Scientific Research and Methodology" byPeter K. Dunn (2025)) Provides most of the data files used in the textbook "Scientific Research and Methodology" by Dunn (2025, ISBN:9781032496726; forthcoming). Package: r-cran-srnagenetic Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-deseq2, r-cran-futile.logger, r-cran-ggplot2, r-cran-ggsci, r-cran-plyr, r-cran-venndiagram Filename: pool/dists/focal/main/r-cran-srnagenetic_0.1.0-1.ca2004.1_all.deb Size: 104464 MD5sum: d80c9c199b7d543fe436ce83bd0f75bf SHA1: 37873a1447d269f9cb843509c08dc6a4ecf3b488 SHA256: 68283fb26f2a9c955f7e7956e8eee650af695077e98a4f1de1fa3ca068a77be0 SHA512: 6afc179ceb237c2bf113a4c116b0ff0d435fa63bb85a6d268fe8e5f5b558a4c8454a40e11caf2beb8bcb72fcc9c7675e2337c6b6d10faee2dd835fb9a9f48474 Homepage: https://cran.r-project.org/package=sRNAGenetic Description: CRAN Package 'sRNAGenetic' (Analysis of Small RNA Expression Changes in Hybrid Plants) The most important function of the R package is the genetic effects analysis of small RNA in hybrid plants via two methods, and at the same time, it provides various forms of graph related to data characteristics and expression analysis. In terms of two classification methods, one is the calculation of the additive (a) and dominant (d), the other is the evaluation of expression level dominance by comparing the total expression of the small RNA in progeny with the expression level in the parent species. Package: r-cran-srp Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fda, r-cran-mgcv Filename: pool/dists/focal/main/r-cran-srp_1.2.0-1.ca2004.1_all.deb Size: 62984 MD5sum: a8c31d4ed1fb4e470ca3f24ba453c95e SHA1: 9b082ca9999e40e03f896d85759df7a9c2f8722a SHA256: 0ec71e767c453f66e9843756dfb08841a9261d6dc4a09343e0c0f12fe7bc831d SHA512: 6f9f2d7248a84ceadfb56ccb3633f40be2fe5836d96a8b553702313badbab1ffb7eb4ce2e6fa31dbe17eef98e758a2e594b8acb734a954e0e675bf0d53118ced Homepage: https://cran.r-project.org/package=srp Description: CRAN Package 'srp' (Smooth-Rough Partitioning of the Regression Coefficients) Performs the change-point detection in regression coefficients of linear model by partitioning the regression coefficients into two classes of smoothness. The change-point and the regression coefficients are jointly estimated. Package: r-cran-srppp Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2409 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dm, r-cran-xml2, r-cran-tibble, r-cran-stringr, r-cran-dplyr, r-cran-tidyr, r-cran-cli Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-here, r-cran-diagrammer, r-cran-diagrammersvg, r-cran-testthat, r-cran-waldo Filename: pool/dists/focal/main/r-cran-srppp_1.0.1-1.ca2004.1_all.deb Size: 557884 MD5sum: 178b2e793bef74a7af943407f607ddaf SHA1: c31c673f2836a5ed24355685f639fab3fe7ae82c SHA256: d2ce0e8332824d3178836b5e58ddf64ca640751b1b7bd8b9f7a6ac54981acbba SHA512: 5f356f7662c512c3c586c5a75e966f0048eefb266f3ac1f6d5b528aa8b5ecb693b025d3ed6f448ab06982a07a4b5c4472f0b12f5bdae1bde0d541139d6067e10 Homepage: https://cran.r-project.org/package=srppp Description: CRAN Package 'srppp' (Read the Swiss Register of Plant Protection Products) Generate data objects from XML versions of the Swiss Register of Plant Protection Products. 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Rarefying (random subsampling without replacement), which is a popular method for normalization, has been widely criticized for its poor reproducibility and potential distortion of the community structure. In the context of microbiome count data, researchers explicitly advised against the use of rarefying. An alternative to rarefying is scaling with ranked subsampling (SRS). SRS consists of two steps. In the first step, the total counts for all OTUs (operational taxonomic units) or species in each sample are divided by a scaling factor chosen in such a way that the sum of the scaled counts Cscaled equals Cmin. In the second step, the non-integer Cscaled values are converted into integers by an algorithm that we dub ranked subsampling. The Cscaled value for each OTU or species is split into the integer part Cint (Cint = floor(Cscaled)) and the fractional part Cfrac (Cfrac = Cscaled - Cints). 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(2014) . Package: r-cran-ssabss Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-tsbss, r-cran-ictest, r-cran-jade, r-cran-bssprep, r-cran-ggplot2, r-cran-xts, r-cran-zoo Filename: pool/dists/focal/main/r-cran-ssabss_0.1.1-1.ca2004.1_all.deb Size: 90204 MD5sum: 9865eef7c762b4b7c46efcfe87fd3b1d SHA1: 26d4e6e186fc1d9ac713bfcff129f0e5c4257248 SHA256: 712fe489b69850a68773dc918526d5c81eb82ff1a1bd752587ecccda0322ac97 SHA512: ce6a88442d04d5a7ba7cfbda276c68bd19ead00de3b7042c06d161809a18686c164024200ffa51b443b0f94721f15aa1f57cca3a291e8da83337c5285766198a Homepage: https://cran.r-project.org/package=ssaBSS Description: CRAN Package 'ssaBSS' (Stationary Subspace Analysis) Stationary subspace analysis (SSA) is a blind source separation (BSS) variant where stationary components are separated from non-stationary components. Several SSA methods for multivariate time series are provided here (Flumian et al. (2021); Hara et al. (2010) ) along with functions to simulate time series with time-varying variance and autocovariance (Patilea and Raissi(2014) ). Package: r-cran-ssanv Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ssanv_1.1-1.ca2004.1_all.deb Size: 64980 MD5sum: de91a7ebce917972aa827f16f796f199 SHA1: 954210ba4b173448f551c73904c9c0d1ed473c2e SHA256: b5cdec36b63e9b0bc2d6b22dd6360b6611f5cbd1f49572b33abca892869ffee3 SHA512: 1a3deb59dd94bdb6c7abf5b26cbc7f5e1366f2b7caab5b28af46b5963041b07075cb963d03bc6d41fedfd50d7676357ed26ffaf451fd81fe9763ed457596f7cf Homepage: https://cran.r-project.org/package=ssanv Description: CRAN Package 'ssanv' (Sample Size Adjusted for Nonadherence or Variability of InputParameters) A set of functions to calculate sample size for two-sample difference in means tests. Does adjustments for either nonadherence or variability that comes from using data to estimate parameters. 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Package: r-cran-ssc Architecture: all Version: 2.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 619 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-proxy Suggests: r-cran-caret, r-cran-e1071, r-cran-c50, r-cran-kernlab, r-cran-testthat, r-cran-timedate, r-cran-stringi, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-ssc_2.1-0-1.ca2004.1_all.deb Size: 493528 MD5sum: c4bddcbaa1e81cd8246dc101d68a19dd SHA1: f2812313cbc9f97137069051ff3142a3dfe1c299 SHA256: 3fd080c1da46d88ddd75ce68cf98ce64058d899df79e231699c6883b8cbd29d8 SHA512: 4afa5eb6ec2be7689c48aa9a2fc88c6b54e46840486300ca23895d2ab73c38a88081256e52ffbc0e4fe8cc6c6d76ebe8e5fc2218eb2bc4d5e1c1901feb0589db Homepage: https://cran.r-project.org/package=ssc Description: CRAN Package 'ssc' (Semi-Supervised Classification Methods) Provides a collection of self-labeled techniques for semi-supervised classification. 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Package: r-cran-sscor Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1389 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pcapp, r-cran-robustbase, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-sscor_0.2.1-1.ca2004.1_all.deb Size: 1392592 MD5sum: 24e1956d55eed8aad79118c93ef7ca62 SHA1: 42e15f215c19a7bfbd76a4c37075541cd33529fd SHA256: d76f9ffb780e211fc69565ce2de36236fcfe966f0adb3a134bda1af2f3978f43 SHA512: b4f5ac35cc7a280fd274fe2579d1fe838ddd7dc29fdf7955af39603c527ba313e791f07da4e607bfdf0c72301b3b8fd86d4f7011ebe82d4c06e323c09df5fe56 Homepage: https://cran.r-project.org/package=sscor Description: CRAN Package 'sscor' (Robust Correlation Estimation and Testing Based on Spatial Signs) Provides the spatial sign correlation and the two-stage spatial sign correlation as well as a one-sample test for the correlation coefficient. Package: r-cran-sscsrs Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sscsrs_0.1.0-1.ca2004.1_all.deb Size: 16544 MD5sum: f0f0fb00a44b66142c72dac69025d39c SHA1: 24034113a24fbfce0115f762f9dea6781958846b SHA256: 417702d069b03f9c17e05277df836f5ec49853e482407a9a64d3c6e64635c9e8 SHA512: b07fde701f9e73fb6915ff4d09d52372906fd016b5ff63f3dd0cf5b397a0bd585fc5b275235d384a501ceeb79aeb4ca2d3d8817b46d1b641e560121460de6350 Homepage: https://cran.r-project.org/package=SscSrs Description: CRAN Package 'SscSrs' (Sample Size Calculator for Estimation of Population Mean andProportion under SRS) It helps in determination of sample size for estimation of population mean and proportion based upon the availability of prior information on coefficient of variation (CV) of the population under Simple Random Sampling (SRS) with or without replacement sampling design. 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Package: r-cran-ssd4mosaic Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3496 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-actuar, r-cran-config, r-cran-fitdistrplus, r-cran-ggplot2, r-cran-golem, r-cran-htmltools, r-cran-htmlwidgets, r-cran-jsonlite, r-cran-rhandsontable, r-cran-rlang, r-cran-rmarkdown, r-cran-shiny, r-cran-shinybusy, r-cran-shinyjs Suggests: r-cran-knitr, r-cran-remotes, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ssd4mosaic_1.0.3-1.ca2004.1_all.deb Size: 1258064 MD5sum: 3a781c9efc946a5bec617ce635552bd6 SHA1: 3e1a26cd5976cc9dfab740135502ed04d8405d19 SHA256: be67708d1451c567825554822653316509394f937f11cdab2eeb38aabc74564a SHA512: 0236a08bfcadee775c0c5a9afd4ffa1af33d5cc1f531d0e1dbf27872f68c37430431f43e4633a72257c1d4a352db98285a898ddafc38d1aa6275b8ded67a4e90 Homepage: https://cran.r-project.org/package=ssd4mosaic Description: CRAN Package 'ssd4mosaic' (Web Application for the SSD Module of the MOSAIC Platform) Web application using 'shiny' for the SSD (Species Sensitivity Distribution) module of the MOSAIC (MOdeling and StAtistical tools for ecotoxICology) platform. It estimates the Hazardous Concentration for x% of the species (HCx) from toxicity values that can be censored and provides various plotting options for a better understanding of the results. See our companion paper Kon Kam King et al. (2014) . Package: r-cran-ssd Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ssd_0.3-1.ca2004.1_all.deb Size: 24444 MD5sum: 0022825183a2ae6ea2685e5f849860cd SHA1: 2c9e222e0badf6845a1f8737f18085a91f0bc423 SHA256: efd36a13a61894fedab93d8f7f536f6b09405171d3db3f5b8a995e79c9653a89 SHA512: 278a133c585f6044e741235ca1163882178940a18a2bfa533d61b53f294c42243377ec193baaf52eee965c0cdd83518fe0c9eb9f06b900fa9e2c1dc486f234bb Homepage: https://cran.r-project.org/package=ssd Description: CRAN Package 'ssd' (Sample Size Determination (SSD) for Unordered Categorical Data) ssd calculates the sample size needed to detect the differences between two sets of unordered categorical data. Package: r-cran-ssddata Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-chk, r-cran-dplyr, r-cran-rdpack Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ssddata_1.0.0-1.ca2004.1_all.deb Size: 113292 MD5sum: e9e70d4d024ad83a908d45874669571c SHA1: 117a4a13c10a55c22c49eea860b4c6d5af642364 SHA256: 9de33653eb8ee56b31237ffd9a12987baf22d79014912d9b183c7bdb22e1c82c SHA512: 2acda99922b7bc6d0a858a0019fa5b32050e753f2d1d5b40966d74169494da879326aafe34a840606c0ce316908c324c84b2c7d9ac480fe3bb42564d0172a507 Homepage: https://cran.r-project.org/package=ssddata Description: CRAN Package 'ssddata' (Species Sensitivity Distribution Data) Reference data sets of species sensitivities to compare the results of fitting species sensitivity distributions using software such as 'ssdtools' and 'Burrlioz'. It consists of 17 primary data sets from four different Australian and Canadian organizations as well as five datasets from anonymous sources. It also includes a data set of the results of fitting various distributions using different software. 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Note to use this package, GSVA(>= 1.52.1) is needed to pre-installed. Hanzelmann, S., Castelo, R., and Guinney, J. (2013) . 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Individuals SDMs can be created using a single or multiple algorithms (ensemble SDMs). For each species, an SDM can yield a habitat suitability map, a binary map, a between-algorithm variance map, and can assess variable importance, algorithm accuracy, and between- algorithm correlation. Methods to stack individual SDMs include summing individual probabilities and thresholding then summing. Thresholding can be based on a specific evaluation metric or by drawing repeatedly from a Bernoulli distribution. The SSDM package also provides a user-friendly interface. 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Package: r-cran-sse Architecture: all Version: 0.7-17-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 570 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-sse_0.7-17-1.ca2004.1_all.deb Size: 433220 MD5sum: 847f99300854593833c8f93ccaa60bb8 SHA1: a30ba9011d345e99734b3debb5940008bb783377 SHA256: 1aa2a49ef2967d59f2f098f3dd19c3ffce1f5e0db1aa85fea006b9f92bf5d9fb SHA512: 298ce77591007d3f16c3c2ef645cdae199e43487247ded7cd7744464783f876044bfad2418862a0169f8499dab8b953eae173bef69f1dd1073108818e54aad78 Homepage: https://cran.r-project.org/package=sse Description: CRAN Package 'sse' (Sample Size Estimation) Provides functions to evaluate user-defined power functions for a parameter range, and draws a sensitivity plot. It also provides a resampling procedure for semi-parametric sample size estimation and methods for adding information to a Sweave report. 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Package: r-cran-ssev Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 59 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pwr, r-cran-mess Filename: pool/dists/focal/main/r-cran-ssev_0.1.0-1.ca2004.1_all.deb Size: 28200 MD5sum: 4438cfa4614910fd28d6b1a82818e9d9 SHA1: f27ff4f546ae75bbe9cddd1b67be14cb966b547d SHA256: 24da49fd4b22b9e3da0ea947e147c726ddda5fa5f5db274e2c26c32c8a7a83eb SHA512: 29b8891d4a3f470f5726064cc76574402e5d8aa29d8bb7732e7944eb7515c48d54f27c7048c7879898c403f88394f92aad367bc69b7271422c8a65ac03eb92e5 Homepage: https://cran.r-project.org/package=ssev Description: CRAN Package 'ssev' (Sample Size Computation for Fixed N with Optimal Reward) Computes the optimal sample size for various 2-group designs (e.g., when comparing the means of two groups assuming equal variances, unequal variances, or comparing proportions) when the aim is to maximize the rewards over the full decision procedure of a) running a trial (with the computed sample size), and b) subsequently administering the winning treatment to the remaining N-n units in the population. Sample sizes and expected rewards for standard t- and z- tests are also provided. Package: r-cran-ssfa Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1504 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-matrix, r-cran-maxlik, r-cran-spdep, r-cran-sp, r-cran-spatialreg Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-ssfa_1.2.2-1.ca2004.1_all.deb Size: 1317064 MD5sum: e112ef8c0dff46203a26cfd393dc1c0c SHA1: 37e090f18b9d89b6ec79bf16b0b2905179f23d6a SHA256: 0173ec127fa5b5874c010072e979c17f545a2ab4601ef5e6cca4e5d7a9ee370d SHA512: 78ed83f609e91e6935518ef70b58b546d36cfd762eb6ed65692bc44131d651fe36925cb63fad7bb4b0ca202956746274475c08b9d1fb125905cd98b197829429 Homepage: https://cran.r-project.org/package=ssfa Description: CRAN Package 'ssfa' (Spatial Stochastic Frontier Analysis) Spatial Stochastic Frontier Analysis (SSFA) is an original method for controlling the spatial heterogeneity in Stochastic Frontier Analysis (SFA) models, for cross-sectional data, by splitting the inefficiency term into three terms: the first one related to spatial peculiarities of the territory in which each single unit operates, the second one related to the specific production features and the third one representing the error term. Package: r-cran-ssfit Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survey Filename: pool/dists/focal/main/r-cran-ssfit_1.2-1.ca2004.1_all.deb Size: 19756 MD5sum: 1c48b8234584571ddae510145762ece8 SHA1: d47569941d73c4a5b0e58720e0cbdb24ed354f64 SHA256: 4866a11f12e12161d17675dcad3392dfdecb0cc3683aa1eea14768b91f356820 SHA512: 21ce86c23a172f481d8ebc55482104a0fc557f8debea17a2d83852eed76fb27d4d15babf27f24b48993400bc84065a7199db3c0638fdac9c62f0c3da845bb607 Homepage: https://cran.r-project.org/package=ssfit Description: CRAN Package 'ssfit' (Fitting of Parametric Models using Summary Statistics) Fits complex parametric models using the method proposed by Cox and Kartsonaki (2012) without likelihoods. Package: r-cran-ssh.utils Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 171 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Filename: pool/dists/focal/main/r-cran-ssh.utils_1.0-1.ca2004.1_all.deb Size: 138540 MD5sum: 2d745919eb5fdde9f29cdd2c118b5e60 SHA1: 52483d020163ee954701a6a42c039f584a0428ae SHA256: b5bf7cee8d636af422937690b327380833d100964ed495eea575193b331ef81b SHA512: d7fea8a205926078aab1deb8e8b06455969a5396152d5dfc829d45ed9c87e80873a7c07f7cd32eacac3c5a2a3b5418585225c99786d6527d4b53e1c75c04c9df Homepage: https://cran.r-project.org/package=ssh.utils Description: CRAN Package 'ssh.utils' (Local and remote system commands with output and error capture) This package provides utility functions for system command execution, both locally and remotely using ssh/scp. The command output is captured and provided to the caller. This functionality is intended to streamline calling shell commands from R, retrieving and using their output, while instrumenting the calls with appropriate error handling. NOTE: this first version is limited to unix with local and remote systems running bash as the default shell. Package: r-cran-sshaarp Architecture: all Version: 2.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2897 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-data.table, r-cran-stringr, r-cran-gtools, r-cran-gmt, r-cran-desctools, r-cran-dplyr, r-cran-filesstrings, r-cran-purrr, r-cran-stringi, r-cran-hlatools Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sshaarp_2.0.8-1.ca2004.1_all.deb Size: 1873756 MD5sum: 4ebac90e6ba3d0e87634189fc8147051 SHA1: fdaf140bed05bb8825d3f339c159b3b5a97c92b8 SHA256: e945cef16777a141ecd98c861b8c7b44bb192eb9bf963b7c3c7e47a01348f8a1 SHA512: 5b50af3d2fa5f82804fe7ac0ed4a7386d1ee9070edb893e519a791b3a716d8ab00de83e9c508a6336e9a0a3a69e451f853ece16033de220b475efc0f6f54ced6 Homepage: https://cran.r-project.org/package=SSHAARP Description: CRAN Package 'SSHAARP' (Searching Shared HLA Amino Acid Residue Prevalence) Processes amino acid alignments produced by the 'IPD-IMGT/HLA (Immuno Polymorphism-ImMunoGeneTics/Human Leukocyte Antigen) Database' to identify user-defined amino acid residue motifs shared across HLA alleles, HLA alleles, or HLA haplotypes, and calculates frequencies based on HLA allele frequency data. 'SSHAARP' (Searching Shared HLA Amino Acid Residue Prevalence) uses 'Generic Mapping Tools (GMT)' software and the 'GMT' R package to generate global frequency heat maps that illustrate the distribution of each user-defined map around the globe. 'SSHAARP' analyzes the allele frequency data described by Solberg et al. (2008) , a global set of 497 population samples from 185 published datasets, representing 66,800 individuals total. Users may also specify their own datasets, but file conventions must follow the prebundled Solberg dataset, or the mock haplotype dataset. Package: r-cran-sship Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-openssl, r-cran-rcurl, r-cran-yaml Suggests: r-cran-httptest, r-cran-httpuv, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-sship_0.9.0-1.ca2004.1_all.deb Size: 52756 MD5sum: 04575839288042d532abcc4806b5b9b9 SHA1: c5b81ad1a593c3d04e8d05e9a0a3f02ee92d0851 SHA256: a37524ed54302c140b45a024ac3f7c864aabd09cc74dfb398ba6379293d92694 SHA512: f2cdcccff0342596837499e3dfa0e3047213f50a464f76675c2704636478026c3d0e103ea00c6805c26d74be7f273f236f4d9370c2c08a5c2a4041a4ba68c0e4 Homepage: https://cran.r-project.org/package=sship Description: CRAN Package 'sship' (Tool for Secure Shipment of Content) Convenient tools for exchanging files securely from within R. By encrypting the content safe passage of files (shipment) can be provided by common but insecure carriers such as ftp and email. Based on asymmetric cryptography no management of shared secrets is needed to make a secure shipment as long as authentic public keys are available. Public keys used for secure shipments may also be obtained from external providers as part of the overall process. Transportation of files will require that relevant services such as ftp and email servers are available. Package: r-cran-ssifs Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 354 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-gtools, r-cran-igraph, r-cran-meta, r-cran-netmeta, r-cran-plyr, r-cran-r2jags, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ssifs_1.0.5-1.ca2004.1_all.deb Size: 250280 MD5sum: 21d049943e1605d03e2a8fee896e1e94 SHA1: 04f1dbf0af297486a96409f5c44b90275690e0d7 SHA256: a9b85af4a292ce6620f8137b94de333527376a26dcd90140a2debdf5d103f0dc SHA512: f55e756bfeb41ab04216a6f43fb556b7b88f006c3dc6acfaa44493da1b0eaadd31b99919062ff59c68fcf1231c4085ad813e5e4e9856b9938234b70a1ebad838 Homepage: https://cran.r-project.org/package=ssifs Description: CRAN Package 'ssifs' (Stochastic Search Inconsistency Factor Selection) Evaluating the consistency assumption of Network Meta-Analysis both globally and locally in the Bayesian framework. Inconsistencies are located by applying Bayesian variable selection to the inconsistency factors. The implementation of the method is described by Seitidis et al. (2023) . Package: r-cran-ssimmap Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2997 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-scales, r-cran-dplyr, r-cran-terra, r-cran-ggplot2, r-cran-sf, r-cran-knitr Suggests: r-cran-rcolorbrewer, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ssimmap_0.1.1-1.ca2004.1_all.deb Size: 2802692 MD5sum: d890484916a8679af87f8d35d8144048 SHA1: adf16d345c46ba29bd6aa3353d794c36b4a6b0b1 SHA256: e59fa3b1e3a4f924124ef8620b3c5052f04135ecaf1b9510085210743309c6b8 SHA512: cf42e5e9654b511262b258892c21587832d0be46bc0adf132ef453bd244a137b70d9f189a310de7c9f654a63fff3f6609f0f6f4bebe8855aa5f9e68d4e6b5a61 Homepage: https://cran.r-project.org/package=SSIMmap Description: CRAN Package 'SSIMmap' (The Structural Similarity Index Measure for Maps) Extends the classical SSIM method proposed by 'Wang', 'Bovik', 'Sheikh', and 'Simoncelli'(2004) . for irregular lattice-based maps and raster images. The geographical SSIM method incorporates well-developed 'geographically weighted summary statistics'('Brunsdon', 'Fotheringham' and 'Charlton' 2002) with an adaptive bandwidth kernel function for irregular lattice-based maps. Package: r-cran-ssimparser Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tidyr, r-cran-dplyr, r-cran-stringr, r-cran-airportr, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-ssimparser_0.1.1-1.ca2004.1_all.deb Size: 43924 MD5sum: d339abaf2d85472228c9f1eef23a97bd SHA1: 9a4b370d8b079b46a0a96b1574cad6ef361cbaa2 SHA256: 9c521a174daf3c514802b16500b5dd39051e66dd1738fe609f3daa1ecec6ead8 SHA512: 0e627792f1ae260ab0d18f7385d6bee33bace66b4d16188bc3ae2990dd7677e1cc560d84b2910a874ac7e3eb2ffacf823d68e5a84e20431134da92d52de1ba80 Homepage: https://cran.r-project.org/package=ssimparser Description: CRAN Package 'ssimparser' (Standard Schedules Information Parser) Parse Standard Schedules Information file (types 2 and 3) into a Data Frame. Can also expand schedules into flights. Package: r-cran-ssize.fdr Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 110 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ssize.fdr_1.3-1.ca2004.1_all.deb Size: 82252 MD5sum: 249e46d0c08ac68380aea98159dc17b8 SHA1: f9e3f8ced703094f92942bf2456d9b3a4a41b269 SHA256: 3ed9cf60528d4c199c6bf8d678493195ac2391dadfac12cafd0cc9f0b230f23a SHA512: aafe3b7e1ea7060de25a388516abba8b94d704786e44172e2d9b75469caedb2b5255f794408dc408d12666adc57a6fc83befc054a36edeb9432ad2e7c35d5bdf Homepage: https://cran.r-project.org/package=ssize.fdr Description: CRAN Package 'ssize.fdr' (Sample Size Calculations for Microarray Experiments) Functions that calculate appropriate sample sizes for one-sample t-tests, two-sample t-tests, and F-tests for microarray experiments based on desired power while controlling for false discovery rates. For all tests, the standard deviations (variances) among genes can be assumed fixed or random. This is also true for effect sizes among genes in one-sample and two sample experiments. Functions also output a chart of power versus sample size, a table of power at different sample sizes, and a table of critical test values at different sample sizes. Package: r-cran-ssizerna Architecture: all Version: 1.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 497 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-bioc-biobase, r-bioc-edger, r-bioc-limma, r-bioc-qvalue, r-cran-ssize.fdr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-ssizerna_1.3.3-1.ca2004.1_all.deb Size: 456392 MD5sum: 4f1981f9bce7cba885267445974c7393 SHA1: 51ef635b05113505fec46a12c75779cbc3dba970 SHA256: 655bb17344f3325f65f4404fb60e9a124427cfe5f3a452ccf10ffff76341d7f6 SHA512: f6af93c65d9cd2c630647d00059acbd27d07fe2c6014ad5d391270263e48dec2a18c69a6381306637335b0fd59d771933b5583328f1ea817c2a968a5b4dafb4f Homepage: https://cran.r-project.org/package=ssizeRNA Description: CRAN Package 'ssizeRNA' (Sample Size Calculation for RNA-Seq Experimental Design) We propose a procedure for sample size calculation while controlling false discovery rate for RNA-seq experimental design. Our procedure depends on the Voom method proposed for RNA-seq data analysis by Law et al. (2014) and the sample size calculation method proposed for microarray experiments by Liu and Hwang (2007) . We develop a set of functions that calculates appropriate sample sizes for two-sample t-test for RNA-seq experiments with fixed or varied set of parameters. The outputs also contain a plot of power versus sample size, a table of power at different sample sizes, and a table of critical test values at different sample sizes. To install this package, please use 'source("http://bioconductor.org/biocLite.R"); biocLite("ssizeRNA")'. For R version 3.5 or greater, please use 'if(!requireNamespace("BiocManager", quietly = TRUE)){install.packages("BiocManager")}; BiocManager::install("ssizeRNA")'. Package: r-cran-ssm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 352 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ssm_1.0.1-1.ca2004.1_all.deb Size: 263652 MD5sum: fbc4f19ac2a9ff6fdd31cd8781d3c52c SHA1: 3d8012533333a109df37479dc637d9b6d51ea488 SHA256: 0b176df9489c3173b59f0279ec6f79a5321f6d0db58c84510348cf14e722876e SHA512: c8efafb384cd606a54ee7165b40d5a4f2fedb5e3d8fb55a7454a6efe53bb2dc48d4950f935a8849a1027f913138a2336ded3f3e11522ba509cd3ab029f19432e Homepage: https://cran.r-project.org/package=SSM Description: CRAN Package 'SSM' (Fit and Analyze Smooth Supersaturated Models) Creates an S4 class "SSM" and defines functions for fitting smooth supersaturated models, a polynomial model with spline-like behaviour. Functions are defined for the computation of Sobol indices for sensitivity analysis and plotting the main effects using FANOVA methods. It also implements the estimation of the SSM metamodel error using a GP model with a variety of defined correlation functions. Package: r-cran-ssmn Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 156 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mnormt, r-cran-moments, r-cran-truncdist, r-cran-sn Filename: pool/dists/focal/main/r-cran-ssmn_1.1-1.ca2004.1_all.deb Size: 123328 MD5sum: 60635d55191100cf0064c0c48ccb23c5 SHA1: 285b4d258d5f69bae355b8baf62b4786b1c264f5 SHA256: 54f29647a8538d28d9c76ba3d7879efff3c2addf16fcf1a9031f2850eb7d0199 SHA512: d642b9f608a3f1fec9866c82f0218736cffbe141643b378c44f3a25da6c39a7dfc7df3e4490dcdc23bd3a53dcd53ff0626922217004f2d96404d0b9fa3983b52 Homepage: https://cran.r-project.org/package=ssmn Description: CRAN Package 'ssmn' (Skew Scale Mixtures of Normal Distributions) Performs the EM algorithm for regression models using Skew Scale Mixtures of Normal Distributions. Package: r-cran-ssmodels Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1353 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-sn, r-cran-numderiv, r-cran-pracma, r-cran-misctools, r-cran-rdpack Suggests: r-cran-knitr, r-cran-testthat, r-cran-maxlik, r-cran-mvtnorm, r-cran-sampleselection, r-cran-kableextra, r-cran-kfigr, r-cran-ggplot2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-ssmodels_2.0.1-1.ca2004.1_all.deb Size: 1149136 MD5sum: e6458dab20ddd98835c10471db585a53 SHA1: c309cc642b0fd5e966b262c7b809a4a52454ac0e SHA256: 5255477c2b190054b6f27eab61c1ac537d22118d553f32c555990bff4df6fce3 SHA512: cac5bd34368f713fc5a54a033c70ab956a05525db9f1dbb2f97a0501f8f31e7592367bf2a4b054c20b92fefbda3134cb1f42bdfb2ca7fb6fda99dd542763bb11 Homepage: https://cran.r-project.org/package=ssmodels Description: CRAN Package 'ssmodels' (Sample Selection Models) In order to facilitate the adjustment of the sample selection models existing in the literature, we created the 'ssmodels' package. Our package allows the adjustment of the classic Heckman model (Heckman (1976), Heckman (1979) ), and the estimation of the parameters of this model via the maximum likelihood method and two-step method, in addition to the adjustment of the Heckman-t models introduced in the literature by Marchenko and Genton (2012) and the Heckman-Skew model introduced in the literature by Ogundimu and Hutton (2016) . We also implemented functions to adjust the generalized version of the Heckman model, introduced by Bastos, Barreto-Souza, and Genton (2021) , that allows the inclusion of covariables to the dispersion and correlation parameters, and a function to adjust the Heckman-BS model introduced by Bastos and Barreto-Souza (2020) that uses the Birnbaum-Saunders distribution as a joint distribution of the selection and primary regression variables. This package extends and complements existing R packages such as 'sampleSelection' (Toomet and Henningsen, 2008) and 'ssmrob' (Zhelonkin et al., 2016), providing additional robust and flexible sample selection models. Package: r-cran-ssmrcd Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1117 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-robustbase, r-cran-scales, r-cran-car, r-cran-dbscan, r-cran-plot3d, r-cran-dplyr, r-cran-ggplot2, r-cran-expm, r-cran-foreach, r-cran-doparallel, r-cran-rrcov, r-cran-desctools, r-cran-rootsolve, r-cran-matrix, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ssmrcd_1.1.0-1.ca2004.1_all.deb Size: 935816 MD5sum: 218ac07ade74c23062363a9f0d5447c1 SHA1: 7c7ef86b31026a5f72c6756292103c8a0ad0b9ba SHA256: 95530fcf670ff8f1eceb4e187f3f710a23d1bdb494ac03fd9027375967722938 SHA512: 7816ff5579ed52f2f4c6b8bc29ebc89a7b6bdb661ac929d70ab397051645674ef5385206d0a2103caf6f1ade05ecab58f30d37517c3ce1ac3c656ddc18a54128 Homepage: https://cran.r-project.org/package=ssMRCD Description: CRAN Package 'ssMRCD' (Spatially Smoothed MRCD Estimator) Estimation of the Spatially Smoothed Minimum Regularized Determinant (ssMRCD) estimator and its usage in an ssMRCD-based outlier detection method as described in Puchhammer and Filzmoser (2023) and for sparse robust PCA for multi-source data described in Puchhammer, Wilms and Filzmoser (2024) . Included are also complementary visualization and parameter tuning tools. Package: r-cran-ssmrob Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 300 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sampleselection, r-cran-robustbase, r-cran-mass Suggests: r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-ssmrob_1.0-1.ca2004.1_all.deb Size: 251652 MD5sum: 8141509519e1b84f16fbf84365b8408b SHA1: 8000fa46f7f49f606be7095cc5e096eecf356e39 SHA256: c757e3cc8f7b145bdb741911b6309ff15725f88b716825f82169a06efa82240a SHA512: 9b31e6d6c33ceed8d9e64b691d0297077843cd537cb1750846ac21a66f6de2a2c295b62be5aede95800dd455463f7eaa4c72ff49118bffbd493109b52c0f7f4d Homepage: https://cran.r-project.org/package=ssmrob Description: CRAN Package 'ssmrob' (Robust Estimation and Inference in Sample Selection Models) Package provides a set of tools for robust estimation and inference for models with sample selectivity and endogenous treatment model. For details, see Zhelonkin and Ronchetti (2021) . Package: r-cran-ssmsn Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mcmcpack Filename: pool/dists/focal/main/r-cran-ssmsn_0.2.0-1.ca2004.1_all.deb Size: 15932 MD5sum: 8d19289c6c115e9b9ff00dc43fd14d28 SHA1: 6096f3c93b5c944c4d187d8a68ec17e92caefeca SHA256: 32e40609fb0161f3070115dab08cdb96648b9fab19178c2f7482bf1ef9d21add SHA512: 7cebaaba1ea0f1fa4b6141b79442a5d4dc6275783dded933e90b039a0db81370e3219948655d769a22589a9f561a72c14de5e6913c916090daf9ec3c24a738f0 Homepage: https://cran.r-project.org/package=ssmsn Description: CRAN Package 'ssmsn' (Scale-Shape Mixtures of Skew-Normal Distributions) It provides the density and random number generator for the Scale-Shape Mixtures of Skew-Normal Distributions proposed by Jamalizadeh and Lin (2016) . Package: r-cran-ssmutpa Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3308 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-ggridges, r-cran-igraph, r-cran-kernlab, r-bioc-maftools, r-cran-matrix, r-cran-nbclust, r-cran-pheatmap, r-cran-rcolorbrewer, r-cran-survival Suggests: r-cran-knitr, r-cran-qpdf, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ssmutpa_0.1.2-1.ca2004.1_all.deb Size: 1941136 MD5sum: 3b6575bbc67babe545cfb46f5c86871e SHA1: 06f2b64abaec165d91b13be8ee78fd26628a1941 SHA256: e66c3525cd9f83e298300e28e6b174ae55cb673a8d50e0e3304d290ea30cbaf2 SHA512: 4a31b7e12b8edbad5a7adb3cfcdfcd0e9d1d8bad5d584144087bae7118178304648d0893f3b599d1ed4c3ac9045df0c53246bfd77d13a7a16241825495b39765 Homepage: https://cran.r-project.org/package=ssMutPA Description: CRAN Package 'ssMutPA' (Single-Sample Mutation-Based Pathway Analysis) A systematic bioinformatics tool to perform single-sample mutation-based pathway analysis by integrating somatic mutation data with the Protein-Protein Interaction (PPI) network. In this method, we use local and global weighted strategies to evaluate the effects of network genes from mutations according to the network topology and then calculate the mutation-based pathway enrichment score (ssMutPES) to reflect the accumulated effect of mutations of each pathway. Subsequently, the ssMutPES profiles are used for unsupervised spectral clustering to identify cancer subtypes. Package: r-cran-ssnbayes Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4960 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-plyr, r-cran-dplyr, r-cran-rstan, r-cran-sf, r-cran-ssn2 Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ssnbayes_0.0.3-1.ca2004.1_all.deb Size: 790160 MD5sum: db35bce9532fa50a7e8370595341bf6d SHA1: 83e101ef4b46abb50541a479507dcb683a31cf17 SHA256: b633396ed6e57626ef166b21cdb9ca3dae2f8aba8c804102f805a7cdcf524a99 SHA512: eaf3e692d145c02dcb02ddb7b6609bf546785c522e663d18f2d3b9827d0a42b02881c690e4c3e8ae84b9d2e2e31015f69a7cab42433e10d2c50484cc2126dbb3 Homepage: https://cran.r-project.org/package=SSNbayes Description: CRAN Package 'SSNbayes' (Bayesian Spatio-Temporal Analysis in Stream Networks) Fits Bayesian spatio-temporal models and makes predictions on stream networks using the approach by Santos-Fernandez, Edgar, et al. (2022)."Bayesian spatio-temporal models for stream networks". . In these models, spatial dependence is captured using stream distance and flow connectivity, while temporal autocorrelation is modelled using vector autoregression methods. Package: r-cran-ssnbler Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2578 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-dplyr, r-cran-pdist, r-cran-igraph, r-cran-rsqlite, r-cran-withr, r-cran-ssn2, r-cran-doparallel, r-cran-foreach Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ssnbler_1.1.0-1.ca2004.1_all.deb Size: 874064 MD5sum: b8fe81e0367589df1de6307940013115 SHA1: a873a8dbe8885742d2a9f98a13bfbc34f4d2c2ee SHA256: 6daf5b583bd9a30c3931ecd514ae2393ca46b204311cec073bf2e2b3a67dcc16 SHA512: 7b048280e97dec30e08a5bd4b7ca3caa44661a42d2140628c86ccf56e3a59ee3117145383aff2ffcbadb0d34f804b618c1a230a1cfc4ae260978909fe88b531f Homepage: https://cran.r-project.org/package=SSNbler Description: CRAN Package 'SSNbler' (Assemble 'SSN' Objects) Import, create and assemble data needed to fit spatial-statistical stream-network models using the 'SSN2' package for 'R'. Streams, observations, and prediction locations are represented as simple features and specific tools provided to define topological relationships between features; calculate the hydrologic distances (with flow-direction preserved) and the spatial additive function used to weight converging stream segments; and export the topological, spatial, and attribute information to an `SSN` (spatial stream network) object, which can be efficiently stored, accessed and analysed in 'R'. A detailed description of methods used to calculate and format the spatial data can be found in Peterson, E.E. and Ver Hoef, J.M., (2014) . Package: r-cran-ssp Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 324 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-vegan, r-cran-sampling, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-ssp_1.0.2-1.ca2004.1_all.deb Size: 199660 MD5sum: 5598d39b006c09a2aaede556469ba3aa SHA1: fdbb08ac5cc35488bb777b9a4878a329aa05b41d SHA256: d0cc2df7676e3da3e5240c45a7d07fde5fcf8f5043bc9ca591469e9b313511bd SHA512: 6d23b7b6724f8b87f6ed82e7c74f6b533d69791f397ed1bd1a226076b1d93b5405ff6674b868a494498d4ed05586863ebdc41ca291a08804538e6914ad2c43a3 Homepage: https://cran.r-project.org/package=SSP Description: CRAN Package 'SSP' (Simulated Sampling Procedure for Community Ecology) The Simulation-based Sampling Protocol (SSP) is an R package designed to estimate sampling effort in studies of ecological communities. It is based on the concept of pseudo-multivariate standard error (MultSE) (Anderson & Santana-Garcon, 2015, ) and the simulation of ecological data. The theoretical background is described in Guerra-Castro et al. (2020, ). Package: r-cran-ssplots Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-reshape2, r-cran-zoo Filename: pool/dists/focal/main/r-cran-ssplots_0.1.2-1.ca2004.1_all.deb Size: 52348 MD5sum: 57f53d320a590127dbb76b79313169a4 SHA1: ed30f97d430ab2bff8aa3ee5b3adf40cf4680966 SHA256: 2e513e870002e2138d71f901fd9ff87541661d621669c87ea52948dd6d285605 SHA512: a534a414af259cdff398fc9d4656241986f57212568fffdecfe0c556a0ad8cf16b4a237dfe036aba051d0048d436c1fe9c5ae1df2c8ec2636badc779eaabc050 Homepage: https://cran.r-project.org/package=SSplots Description: CRAN Package 'SSplots' (Stock Status Plots (SSPs)) Pauly et al. (2008) created (and coined the name) 'Stock Status Plots' for a UNEP compendium on Large Marine Ecosystems(LMEs, Sherman and Hempel (2009)). Stock status plots are bivariate graphs summarizing the status (e.g., developing, fully exploited, overexploited, etc.), through time, of the multispecies fisheries of a fished area or ecosystem. This package contains three functions to generate stock status plots viz., SSplots_pauly() (as per the criteria proposed by Pauly et al.,2008), SSplots_kleisner() (as per the criteria proposed by Kleisner and Pauly (2011) and Kleisner et al. (2013) )and SSplots_EPI() (as per the criteria proposed by Jayasankar et al.,2021 ). 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The package is opinionated in its implementation of SPMs as it internally makes the choice to use penalized spatial gams with time lags. However, it also aims to provide options for the user to customize their model. The methods are described in Pedersen et al. (2022, ). Package: r-cran-ssr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 289 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-cran-e1071 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tgp Filename: pool/dists/focal/main/r-cran-ssr_0.1.1-1.ca2004.1_all.deb Size: 191600 MD5sum: 05f12dd7db4af7218c5130e71c803c40 SHA1: e4aa15124810622599eee261d1e5a81270505ae3 SHA256: 7d3b3da3da4ca320e53612d272b6da0e5a8f33c07cdc015a81b14283c46770cd SHA512: 5b25ef51a92e77c604b1c1bd603a7793d4df2ad0ded62b0ccf3b1ff54161f893c5760166ff6dd38b892e0edb83ef749022b3ffcbab864f3121d86d06b83eb6f8 Homepage: https://cran.r-project.org/package=ssr Description: CRAN Package 'ssr' (Semi-Supervised Regression Methods) An implementation of semi-supervised regression methods including self-learning and co-training by committee based on Hady, M. F. A., Schwenker, F., & Palm, G. (2009) . 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Package includes functions for generating a sequential relation table and a treegram to visualize the sequential relations between pairs of items. Package: r-cran-ssrat Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 181 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plyr, r-cran-sna Filename: pool/dists/focal/main/r-cran-ssrat_1.1-1.ca2004.1_all.deb Size: 120168 MD5sum: 09a46df9abe86e41282db864131b6b07 SHA1: a2666b1ff536e8cf21280e493cef03acc09ad691 SHA256: cbc87352b104185ba9671aec5ae581cf119afcd5954c659a873e174e7d464458 SHA512: f970523f608ca7da89004d9a8bc94cbe775b67bba99642c34bc624ce59312e4395b48482a8b0e562e9b8eabc0852a73bf8ddef9d26bbea1e9239171e5943e944 Homepage: https://cran.r-project.org/package=SSrat Description: CRAN Package 'SSrat' (Two-Dimensional Sociometric Status Determination with RatingScales) A set of functions for two-dimensional sociometric status determination with rating scales. For each person assessed, SSrat computes probability distributions of the total scores for `Sympathy' (S), `Antipathy' (A), social `Preference' (P) and social `Impact' (I), and applies a set of criteria for sociometric status categorization. Package: r-cran-ssrm.logmer Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-statmod, r-cran-sfsmisc Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ssrm.logmer_0.1-1.ca2004.1_all.deb Size: 26232 MD5sum: 6985367513b2d49615be9f4ae6eb6c2b SHA1: 630c9a3d45ddb592e1b4411e343add52aed5d954 SHA256: da86b88146eefef2d70fbcf316ef97940374d6b29490954abef3ff3a16c8e39a SHA512: f56c2ba364f37b581181cfdf6a032f24b82b5ae3eda4900b8a0007ef4a8b8631d50fadae7662490e1373040cafc648aae6e76448f9a203ded37fdf395ebde86f Homepage: https://cran.r-project.org/package=ssrm.logmer Description: CRAN Package 'ssrm.logmer' (Sample Size Determination for Longitudinal Designs with BinaryOutcome) Provides the necessary sample size for a longitudinal study with binary outcome in order to attain a pre-specified power while strictly maintaining the Type I error rate. Kapur K, Bhaumik R, Tang XC, Hur K, Reda DJ, Bhaumik D (2014) . Package: r-cran-ssrmst Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-survrm2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ssrmst_0.1.1-1.ca2004.1_all.deb Size: 35104 MD5sum: 7a0594af2e2328a551a769d4839eb7c3 SHA1: 70c5a46d4339637984648c078fd64f48b07b83a6 SHA256: 2e83203e9aaea36bf670b6399064c371257aefab44d718a0490279938ded8d13 SHA512: af17212b02918e57a97eeb596047254027612d06cb02f05fa02a06cddb48c67a2ac70dfcaa4d878b50a2968a06aae21d9f8747ee115e537799f1489f065fa716 Homepage: https://cran.r-project.org/package=SSRMST Description: CRAN Package 'SSRMST' (Sample Size Calculation using Restricted Mean Survival Time) Calculates the power and sample size based on the difference in Restricted Mean Survival Time. 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Includes functions for both "integration" and "mean" methods; both fixed and adaptive stop-signal delays are supported (see appropriate functions). Calculation is based on Verbruggen et al. (2019) and Verbruggen et al. (2013) . 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SSVS is a Bayesian variable selection method used to estimate the probability that individual predictors should be included in a regression model. Using MCMC estimation, the method samples thousands of regression models in order to characterize the model uncertainty regarding both the predictor set and the regression parameters. For details see Bainter, McCauley, Wager, and Losin (2020) Improving practices for selecting a subset of important predictors in psychology: An application to predicting pain, Advances in Methods and Practices in Psychological Science 3(1), 66-80 . Package: r-cran-ssw Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 731 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-ssw_0.2.1-1.ca2004.1_all.deb Size: 252724 MD5sum: 09cd0e22ee6a9a8c773b505939f4a4d7 SHA1: 84186b1bca95efdfb5ffa83b10dfb00885bf6aa2 SHA256: 5902b76f8892d2762a5714c8496bff59f526bb5d90ce146d74a2821b1f3a9bae SHA512: 9095c6bd46bf2d811d00cb9d7bb473b396c6ac8dd23704890bd6c3d11d974f4d9b160dab18f6e406c585998a09ace8c179ad3c583aed6bfcbf88c6ee72d7c36f Homepage: https://cran.r-project.org/package=ssw Description: CRAN Package 'ssw' (Striped Smith-Waterman Algorithm for Sequence Alignment usingSIMD) Provides an R interface for 'SSW' (Striped Smith-Waterman) via its 'Python' binding 'ssw-py'. 'SSW' is a fast 'C' and 'C++' implementation of the Smith-Waterman algorithm for pairwise sequence alignment using Single-Instruction-Multiple-Data (SIMD) instructions. 'SSW' enhances the standard algorithm by efficiently returning alignment information and suboptimal alignment scores. The core 'SSW' library offers performance improvements for various bioinformatics tasks, including protein database searches, short-read alignments, primary and split-read mapping, structural variant detection, and read-overlap graph generation. These features make 'SSW' particularly useful for genomic applications. Zhao et al. (2013) developed the original 'C' and 'C++' implementation. 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Package: r-cran-st Architecture: all Version: 1.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 609 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sda, r-cran-fdrtool, r-cran-corpcor Suggests: r-bioc-limma, r-cran-samr Filename: pool/dists/focal/main/r-cran-st_1.2.7-1.ca2004.1_all.deb Size: 586084 MD5sum: f18352998b11ecb270ff7af4f44a3be1 SHA1: 022792d4bdf923bf0e04092f3a91c30f29d6e56a SHA256: d2443aba4cb845d61b26f1a6dae0d11759880dd548ac1c54c0d21c1762b40948 SHA512: 2ebeb37c81bb10cdbb5e42fd555ab1b2b2becf895162c1463af99a9f771654071e9a00ef285cb3a676ce00f6ada43ac7afdd6faa2c2d18d57aaaa8384eacc52a Homepage: https://cran.r-project.org/package=st Description: CRAN Package 'st' (Shrinkage t Statistic and Correlation-Adjusted t-Score) Implements the "shrinkage t" statistic introduced in Opgen-Rhein and Strimmer (2007) and a shrinkage estimate of the "correlation-adjusted t-score" (CAT score) described in Zuber and Strimmer (2009) . 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Package: r-cran-sta Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2152 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-raster, r-cran-geots, r-cran-foreach, r-cran-trend, r-cran-doparallel, r-cran-mapview, r-cran-rcolorbrewer Suggests: r-cran-sp Filename: pool/dists/focal/main/r-cran-sta_0.1.7-1.ca2004.1_all.deb Size: 2018484 MD5sum: bfa02c49a63a3c3c87d135f82eab5b43 SHA1: 89a9fe421f56f584d97b7bcb1dd013ee92dcda23 SHA256: 879d0f5f0591e9e9e60342074c411a4b781d3657eed79130ef25997d2c6f74d0 SHA512: 931f3079c7175b9a963e86a679dca581dd046140a7a093b8b34d6e9eaef6660c715a20a370cc9aaf62fc91b455e3481b4719978d88232f1e821f46dc32b47f10 Homepage: https://cran.r-project.org/package=sta Description: CRAN Package 'sta' (Seasonal Trend Analysis for Time Series Imagery in R) Efficiently estimate shape parameters of periodic time series imagery with which a statistical seasonal trend analysis (STA) is subsequently performed. STA output can be exported in conventional raster formats. Methods to visualize STA output are also implemented as well as the calculation of additional basic statistics. STA is based on (R. Eastman, F. Sangermano, B. Ghimire, H. Zhu, H. Chen, N. Neeti, Y. Cai, E. Machado and S. Crema, 2009) . Package: r-cran-stabiliser Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 213 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-glmnet, r-cran-dplyr, r-cran-bigstep, r-cran-rsample, r-cran-tibble, r-cran-purrr, r-cran-tidyr, r-cran-stringr, r-cran-ggplot2, r-cran-broom, r-cran-caret, r-cran-ncvreg, r-cran-knitr, r-cran-hmisc, r-cran-expss, r-cran-lme4, r-cran-matrixstats, r-cran-recipes, r-cran-lmertest Suggests: r-cran-rmarkdown, r-cran-testthat, r-cran-markdown Filename: pool/dists/focal/main/r-cran-stabiliser_1.0.6-1.ca2004.1_all.deb Size: 148712 MD5sum: 236d7b2a0b55da3e3277f275d79cb408 SHA1: e9c988f7829d833030294183cb573bd5128b899f SHA256: 0454ac7f844a81b15eb1219abdd1e000dc99d3ea819154381c321e71eaab6400 SHA512: dd9a9f806d77c7be59ad101e4f2c297132cc7a4834da603a453ce0cd6e22b89de6bdc179ebc04d37f5460d68a046b762a40c9fb7d3f013fed8d9af9e836e5d9f Homepage: https://cran.r-project.org/package=stabiliser Description: CRAN Package 'stabiliser' (Stabilising Variable Selection) A stable approach to variable selection through stability selection and the use of a permutation-based objective stability threshold. Lima et al (2021) , Meinshausen and Buhlmann (2010) . Package: r-cran-stability Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 162 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggfortify, r-cran-lme4, r-cran-magrittr, r-cran-matrixstats, r-cran-reshape2, r-cran-rlang, r-cran-scales, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-stability_0.6.0-1.ca2004.1_all.deb Size: 122116 MD5sum: d48ad7e0858d7adb77a838c4a3521c55 SHA1: 56560b1cda86c458a100beaf226736dcd179d53f SHA256: bef9c860b8c78c9d527a5059e932d5fdfd5f5ddc3d635dacd900394d07ede5b3 SHA512: c4ab759e24d2eadccb6f59da3fa1e061329f00c72bb66f6551a882506465a7c89ada75f7b8803ba92af45315cbb0a957f0c08f8e925b855c5c34ad8acedea559 Homepage: https://cran.r-project.org/package=stability Description: CRAN Package 'stability' (Stability Analysis of Genotype by Environment Interaction (GEI)) Provides functionalities for performing stability analysis of genotype by environment interaction (GEI) to identify superior and stable genotypes across diverse environments. 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Package: r-cran-stabilityapp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1134 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-dt, r-cran-gridextra, r-cran-patchwork, r-cran-stability, r-cran-shiny, r-cran-shinybs, r-cran-shinydashboardplus Suggests: r-cran-shinytest2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-stabilityapp_0.1.0-1.ca2004.1_all.deb Size: 979020 MD5sum: 2abda71c87547a92fb333d4cdad831d1 SHA1: d1104ea34c1157ec245a12cff389ea7e0f04f44c SHA256: cb970174e48f694d3c64ab57099d2642d0eb5a9d71a7ec77cfb683ea99876e9c SHA512: 9f961413903010d5cc724b90efea7b37b1becaee01eec57b17ad7a2124d880b9496c3c31bc01d9676b8dd7eb9e3df1c7baee1e1e5abdbb061981cf5de32d85f8 Homepage: https://cran.r-project.org/package=StabilityApp Description: CRAN Package 'StabilityApp' (Stability Analysis App for GEI in Multi-Environment Trials) Provides tools for Genotype by Environment Interaction (GEI) analysis, using statistical models and visualizations to assess genotype performance across environments. 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Package: r-cran-stabilizedregression Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-r6, r-cran-glmnet, r-cran-corpcor, r-cran-ggplot2, r-cran-ggrepel Filename: pool/dists/focal/main/r-cran-stabilizedregression_1.1-1.ca2004.1_all.deb Size: 132348 MD5sum: b18cf5a1382883a13acbc6c0dd65127d SHA1: 867b8b6308356c6427d3d2405589d33eab51c56c SHA256: 21e722de4047537be10b9dcae42cf570846d34a10c364e27356b6b40aa95f975 SHA512: 407a4ab3370a33eb232a4781d87b32935912d6203aad1caa2608a96c365db447f1bcca1a3ce02d9674d5beaf81cc92b3f7885f1db8ae6f0c96516e4bde57e860 Homepage: https://cran.r-project.org/package=StabilizedRegression Description: CRAN Package 'StabilizedRegression' (Stabilizing Regression and Variable Selection) Contains an implementation of 'StabilizedRegression', a regression framework for heterogeneous data introduced in Pfister et al. (2021) . The procedure uses averaging to estimate a regression of a set of predictors X on a response variable Y by enforcing stability with respect to a given environment variable. The resulting regression leads to a variable selection procedure which allows to distinguish between stable and unstable predictors. The package further implements a visualization technique which illustrates the trade-off between stability and predictiveness of individual predictors. Package: r-cran-stabilo Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-pracma Filename: pool/dists/focal/main/r-cran-stabilo_0.1.1-1.ca2004.1_all.deb Size: 42516 MD5sum: 82b8af6485ad723ddcbe035030ca0cf5 SHA1: 9f5381b730486628dfc22d861a808667433f926f SHA256: 4398fa3b19eef52f339ca2ac5021f120283cae26a62a85bea4da8b8be9a149ca SHA512: 696417b50f41ce365ae7e7d568106400d51d41413fa8a91c789f3de07fe4ec9269f77f17737054f4547a8da062645ea54b44b4bc5dbec0c5b8f467eedc8e1db6 Homepage: https://cran.r-project.org/package=stabilo Description: CRAN Package 'stabilo' (Stabilometric Signal Quantification) Functions for stabilometric signal quantification. The input is a data frame containing the x, y coordinates of the center-of-pressure displacement. Jose Magalhaes de Oliveira (2017) "Statokinesigram normalization method"; T E Prieto, J B Myklebust, R G Hoffmann, E G Lovett, B M Myklebust (1996) "Measures of postural steadiness: Differences between healthy young and elderly adults"; L F Oliveira et al (1996) "Calculation of area of stabilometric signals using principal component analisys". Package: r-cran-stabledist Architecture: all Version: 0.7-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-matrix, r-cran-fbasics, r-cran-fmstable, r-cran-runit, r-cran-rmpfr, r-cran-libstable4u Filename: pool/dists/focal/main/r-cran-stabledist_0.7-2-1.ca2004.1_all.deb Size: 76732 MD5sum: 139519150284974ddb4536036d18649c SHA1: 734b545271395799948b1cb3967c3a540ffe64c8 SHA256: a2f6acd995e95a893babb322d193cb223bfa4c8d1b613458979a29ce3260f43c SHA512: f5d15cadd9bbbd28f98ca81763fc44944bcf45f1b4f16777843229e9df2397df09562ad9dd270ded2b75f55b55f84206985c8d7c0c89a33450d238fb756f1dd1 Homepage: https://cran.r-project.org/package=stabledist Description: CRAN Package 'stabledist' (Stable Distribution Functions) Density, Probability and Quantile functions, and random number generation for (skew) stable distributions, using the parametrizations of Nolan. Package: r-cran-stableestim Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 546 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-numderiv, r-cran-xtable, r-cran-fbasics, r-cran-mass, r-cran-matrix, r-cran-stabledist, r-cran-testthat, r-cran-rdpack Filename: pool/dists/focal/main/r-cran-stableestim_2.3-1.ca2004.1_all.deb Size: 445040 MD5sum: d81f5325fd2cc656260ff860040b4c84 SHA1: 38bf512cfb99199be92609abe9cb234e44101ec5 SHA256: fceff0be7742f00b4e3526080213c39e42656bf5e2f6ee04c436a1db1b563bd3 SHA512: c01286539d01009920182027782060fe578f8fbd48bd4baf6ad4d40adc0ab9786cdc730350a35de04147233613e43647e68fac6c712b81056597821e28545714 Homepage: https://cran.r-project.org/package=StableEstim Description: CRAN Package 'StableEstim' (Estimate the Four Parameters of Stable Laws using DifferentMethods) Estimate the four parameters of stable laws using maximum likelihood method, generalised method of moments with finite and continuum number of points, iterative Koutrouvelis regression and Kogon-McCulloch method. The asymptotic properties of the estimators (covariance matrix, confidence intervals) are also provided. Package: r-cran-stablegr Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mcmcse, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-stablegr_1.2-1.ca2004.1_all.deb Size: 59716 MD5sum: 68063ad094a997fecb12ca73b2ad1ff1 SHA1: f1c43cdc417302c15e4ce33c24369e3c57d53f15 SHA256: 48ce095dc12a9f66cf410d881257869ac44f941149eff0136c820d46b2ce6457 SHA512: fbb22086363d80469cf4467d83951a5d3c65724077609495e10b8bf75ef670c68a88b5f48d1650c0513b9db7399d108838c2cb878cfe5e762667890df97e28a0 Homepage: https://cran.r-project.org/package=stableGR Description: CRAN Package 'stableGR' (A Stable Gelman-Rubin Diagnostic for Markov Chain Monte Carlo) Practitioners of Bayesian statistics often use Markov chain Monte Carlo (MCMC) samplers to sample from a posterior distribution. This package determines whether the MCMC sample is large enough to yield reliable estimates of the target distribution. In particular, this calculates a Gelman-Rubin convergence diagnostic using stable and consistent estimators of Monte Carlo variance. Additionally, this uses the connection between an MCMC sample's effective sample size and the Gelman-Rubin diagnostic to produce a threshold for terminating MCMC simulation. Finally, this informs the user whether enough samples have been collected and (if necessary) estimates the number of samples needed for a desired level of accuracy. The theory underlying these methods can be found in "Revisiting the Gelman-Rubin Diagnostic" by Vats and Knudson (2018) . Package: r-cran-stablelearner Architecture: all Version: 0.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 506 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-e1071, r-cran-partykit, r-cran-party, r-cran-randomforest, r-cran-ranger Suggests: r-cran-formula, r-cran-nnet, r-cran-rpart, r-cran-evtree, r-cran-rchallenge, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stablelearner_0.1-5-1.ca2004.1_all.deb Size: 370076 MD5sum: 34d7a0b65a49a7392c9015a84822e957 SHA1: e742a3d41f9023c7b16204ed7f1873d642e7ed7c SHA256: cf6e024d2a6f0564e5e5e315b823224153e538061a1636249565f8c5e320943b SHA512: 80cd0f29400c675840bb8225505981a6dd95be6b4ca2aac30633933b971123c99bf833eb0ed1a404cfdd4eb9ee81856191761e5ffdcc719237018be759d6f511 Homepage: https://cran.r-project.org/package=stablelearner Description: CRAN Package 'stablelearner' (Stability Assessment of Statistical Learning Methods) Graphical and computational methods that can be used to assess the stability of results from supervised statistical learning. Package: r-cran-stablespec Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggm, r-cran-matrixcalc, r-cran-sem, r-cran-nsga2r, r-bioc-graph, r-bioc-rgraphviz, r-cran-polycor, r-cran-foreach Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-stablespec_0.3.0-1.ca2004.1_all.deb Size: 147116 MD5sum: 6d05fc08b72e5260783ccaa3a9402702 SHA1: 369d0f06ce4095b1ae346f05c88b3e21e9adcb03 SHA256: 317045723e701d9ae3c22c59e14b47f86002f076df41b32de97d0b7979bbd214 SHA512: e374ab29078e619605769a3ad3da7a57ea356a38d6536aee938c82b2041468bf57e7993c242494b1642e774ce9a82831beb51f7e8632cb119e02cc356e71cff2 Homepage: https://cran.r-project.org/package=stablespec Description: CRAN Package 'stablespec' (Stable Specification Search in Structural Equation Models) An exploratory and heuristic approach for specification search in Structural Equation Modeling. The basic idea is to subsample the original data and then search for optimal models on each subset. Optimality is defined through two objectives: model fit and parsimony. As these objectives are conflicting, we apply a multi-objective optimization methods, specifically NSGA-II, to obtain optimal models for the whole range of model complexities. From these optimal models, we consider only the relevant model specifications (structures), i.e., those that are both stable (occur frequently) and parsimonious and use those to infer a causal model. Package: r-cran-stabm Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 541 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-checkmate, r-cran-matrix Suggests: r-cran-cowplot, r-cran-ggdendro, r-cran-ggplot2, r-cran-igraph, r-cran-knitr, r-cran-mlbench, r-cran-rmarkdown, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-stabm_1.2.2-1.ca2004.1_all.deb Size: 471768 MD5sum: cd6262638500f6bb116c3e4686687a06 SHA1: b5f7e6eb3959fa47a104fdb49d77887e801fbab2 SHA256: d8b05453c8e9f0676454fd5cbd33579a2de08da59bcba96a4d33c3da8b159297 SHA512: 8e86dafacf22968a9b0b8131ebd41583e09fd700c5426261e1d70f8cbfb416ab37029fa7488c9a51bb214cc6b77bebe4ead15e525aeb49f2e09155851e0b5baf Homepage: https://cran.r-project.org/package=stabm Description: CRAN Package 'stabm' (Stability Measures for Feature Selection) An implementation of many measures for the assessment of the stability of feature selection. Both simple measures and measures which take into account the similarities between features are available, see Bommert (2020) . Package: r-cran-stabs Architecture: all Version: 0.6-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 207 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-glmnet, r-cran-lars, r-cran-mboost, r-cran-th.data, r-cran-hdi, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stabs_0.6-4-1.ca2004.1_all.deb Size: 135080 MD5sum: 2ff6cd54c5bc8c0c10780a47fb9da5be SHA1: dfa3f654b6a04fccdc03c9d4b091e9c238da114c SHA256: d5e39607976d3df3a98dfbbb949416b02fd4d1b0a623639881e75e9aa3fed267 SHA512: c626155b0594833b91c6787650991f8de7f2c48968c510faada5747aaadb3edd11514bb104f9319cfcd3fce83a0b236d1c7413c11e8b161253af760574f20f39 Homepage: https://cran.r-project.org/package=stabs Description: CRAN Package 'stabs' (Stability Selection with Error Control) Resampling procedures to assess the stability of selected variables with additional finite sample error control for high-dimensional variable selection procedures such as Lasso or boosting. Both, standard stability selection (Meinshausen & Buhlmann, 2010, ) and complementary pairs stability selection with improved error bounds (Shah & Samworth, 2013, ) are implemented. The package can be combined with arbitrary user specified variable selection approaches. Package: r-cran-staccuracy Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tidyr Suggests: r-cran-autogam, r-cran-testthat Filename: pool/dists/focal/main/r-cran-staccuracy_0.2.2-1.ca2004.1_all.deb Size: 66616 MD5sum: e724773e3a727d73a3cab3c3fb74a80d SHA1: 3b84bf7ca7cec03f11596b83bc2de2b3ea12ab95 SHA256: af2affb814b2b6bd811e64c2a65f8a97eb32cfed4008f96f345c6a6cf8526e79 SHA512: bb5cdfa8178e11af89b052f17e468cad9457391e4cdd5f1091f2cb1fb930593c5a991e6243605aef426e5e26ded40091c2e21905b9e49a8bf5c3a7bd32ce8194 Homepage: https://cran.r-project.org/package=staccuracy Description: CRAN Package 'staccuracy' (Standardized Accuracy and Other Model Performance Metrics) Standardized accuracy (staccuracy) is a framework for expressing accuracy scores such that 50% represents a reference level of performance and 100% is a perfect prediction. The 'staccuracy' package provides tools for creating staccuracy functions as well as some recommended staccuracy measures. It also provides functions for some classic performance metrics such as mean absolute error (MAE), root mean squared error (RMSE), and area under the receiver operating characteristic curve (AUCROC), as well as their winsorized versions when applicable. Package: r-cran-stackgbm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 887 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-proc, r-cran-progress, r-cran-rlang Suggests: r-cran-knitr, r-cran-lightgbm, r-cran-msaenet, r-cran-rmarkdown, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-stackgbm_0.1.0-1.ca2004.1_all.deb Size: 364192 MD5sum: 50798c355883c9bf8a6c47dc585f6f47 SHA1: b16f6b00e6bd2ac0af3305540d85a5dc9274c271 SHA256: fe71fc95fb4c85046a44ca8e8c658e8d655fba991150cd48139c558ef21d9a76 SHA512: e4482994c8115b81f9b41783d5e51998738be564c2c313c4c948e451680afa68033cd7bc1c4c1bf1dcf0e889458272c5c8dfdad9c8c0ec1271099f223e260e3c Homepage: https://cran.r-project.org/package=stackgbm Description: CRAN Package 'stackgbm' (Stacked Gradient Boosting Machines) A minimalist implementation of model stacking by Wolpert (1992) for boosted tree models. A classic, two-layer stacking model is implemented, where the first layer generates features using gradient boosting trees, and the second layer employs a logistic regression model that uses these features as inputs. Utilities for training the base models and parameters tuning are provided, allowing users to experiment with different ensemble configurations easily. It aims to provide a simple and efficient way to combine multiple gradient boosting models to improve predictive model performance and robustness. Package: r-cran-stackimpute Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2125 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sandwich, r-cran-zoo, r-cran-mice, r-cran-dplyr, r-cran-mass, r-cran-magrittr, r-cran-boot Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stackimpute_0.1.0-1.ca2004.1_all.deb Size: 2082200 MD5sum: a1e5070b3377a0fe46296e9b704818a0 SHA1: 3ddcce588a86f86fbbf9d31cdfbabad46c7aaf90 SHA256: 7f69559ba9e1b9cd43331ae858230a0b814dcc849436f6792577625b6bbef1bb SHA512: 1a9237e484e2f2428a4bede91a07c2277e39689d82fcf64f9ad3d173e2981244de6e5836bfc502814147ec60bbff313a1f9791a4d88d1709e67fca3971783384 Homepage: https://cran.r-project.org/package=StackImpute Description: CRAN Package 'StackImpute' (Tools for Analysis of Stacked Multiple Imputations) Provides methods for inference using stacked multiple imputations augmented with weights. The vignette provides example R code for implementation in general multiple imputation settings. For additional details about the estimation algorithm, we refer the reader to Beesley, Lauren J and Taylor, Jeremy M G (2020) “A stacked approach for chained equations multiple imputation incorporating the substantive model” , and Beesley, Lauren J and Taylor, Jeremy M G (2021) “Accounting for not-at-random missingness through imputation stacking” . Package: r-cran-stacking Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-caret Filename: pool/dists/focal/main/r-cran-stacking_0.2.1-1.ca2004.1_all.deb Size: 56168 MD5sum: dfceed38c630dabfd067a0e39a82e62a SHA1: 83f0d424d05c34976ce2455ef23209c97048cb5a SHA256: 659465696d1d0bb7588a702350687c37a06a0343b3b4d759c70c3dde0b7468e5 SHA512: aa0eabaac071f11725569105abeb4ea03ebbfb02331d4d0a49645174d5798f43424d06089a8abea42cf6fdb29f8b71cbd4f54ffd7f8f924d0bb1073d92953024 Homepage: https://cran.r-project.org/package=stacking Description: CRAN Package 'stacking' (Building Predictive Models with Stacking) Building predictive models with stacking which is a type of ensemble learning. Learners can be specified from those implemented in 'caret'. For more information of the package, see Nukui and Onogi (2023) . 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Package: r-cran-stacks Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2006 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-butcher, r-cran-cli, r-cran-dplyr, r-cran-foreach, r-cran-furrr, r-cran-future, r-cran-generics, r-cran-ggplot2, r-cran-glmnet, r-cran-glue, r-cran-parsnip, r-cran-purrr, r-cran-recipes, r-cran-rlang, r-cran-rsample, r-cran-tibble, r-cran-tidyr, r-cran-tune, r-cran-vctrs, r-cran-workflows Suggests: r-cran-covr, r-cran-h2o, r-cran-kernlab, r-cran-kknn, r-cran-knitr, r-cran-modeldata, r-cran-nnet, r-cran-ranger, r-cran-rmarkdown, r-cran-testthat, r-cran-workflowsets, r-cran-yardstick Filename: pool/dists/focal/main/r-cran-stacks_1.1.1-1.ca2004.1_all.deb Size: 1732988 MD5sum: cb6b7714e8ed9343b7dfec2436e6635c SHA1: c6120ca49bf52cba69a95b140563c96c8c2c8e46 SHA256: 00ab751d8d5b5f0ebeb630559c3c68fb85b9f3ae4f52c1bd9c90e95e8d2502d3 SHA512: f18191d5e6f3e8d8f5fd09c77d6e36704f9d9c71bd45c4ccbc3e2f442bc96d20953fdee0c65205662f98df5c57b82c001dfe343cb057db4f42a3bc12f99886b9 Homepage: https://cran.r-project.org/package=stacks Description: CRAN Package 'stacks' (Tidy Model Stacking) Model stacking is an ensemble technique that involves training a model to combine the outputs of many diverse statistical models, and has been shown to improve predictive performance in a variety of settings. 'stacks' implements a grammar for 'tidymodels'-aligned model stacking. Package: r-cran-stacomir Architecture: all Version: 0.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2424 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stacomirtools, r-cran-magrittr, r-cran-intervals, r-cran-rcolorbrewer, r-cran-stringr, r-cran-rpostgres, r-cran-ggplot2, r-cran-reshape2, r-cran-lattice, r-cran-hmisc, r-cran-lubridate, r-cran-dplyr, r-cran-xtable, r-cran-mgcv, r-cran-rlang, r-cran-pool, r-cran-dbi, r-cran-withr, r-cran-scales Suggests: r-cran-testthat, r-cran-viridis, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stacomir_0.6.1-1.ca2004.1_all.deb Size: 1747640 MD5sum: f56d073f5e9c32d9741932996f703f0a SHA1: f46a552a9964aa0b1f83117a9e2e4bb490c306fc SHA256: e0f26fadc5f05610c29802fc3e39794fb20e942a0bc26d431e3ae9f545138f6b SHA512: 4fbe1bdd1a869f446d63c561bdda90208f2d3135936b8852340eba0725ce2aa4fd8617a77503a04173d5027e896cd479db7dba2534a6fdd5e9e5bb4a8875892a Homepage: https://cran.r-project.org/package=stacomiR Description: CRAN Package 'stacomiR' (Fish Migration Monitoring) Graphical outputs and treatment for a database of fish pass monitoring. 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Package: r-cran-stacomirtools Architecture: all Version: 0.6.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rodbc, r-cran-dbi, r-cran-pool, r-cran-xtable, r-cran-rpostgres Suggests: r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-stacomirtools_0.6.0.1-1.ca2004.1_all.deb Size: 119924 MD5sum: 965e7728765fe667be06520b5a252492 SHA1: 00fe2c6c6aa1fe212b27451a10d9b0c7b01c8a91 SHA256: eeae5db23cde704328b1cfe5b0d9c9e4aaaecb28ab5a60de424924708fe0fc37 SHA512: b4bb7af1525d9a44d70e3f6f0f21e614cbada386a744f6172d2d537a637480e7786ad66f3c8484ce43f3fa68a029ac5831d6f6a863c7cfead06027086bae8ce6 Homepage: https://cran.r-project.org/package=stacomirtools Description: CRAN Package 'stacomirtools' (Connection Class for Package stacomiR) S4 class wrappers for the 'ODBC' and Pool DBI connection, also provides some utilities to paste small datasets to clipboard, rename columns. 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Package: r-cran-stepgbm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-spm, r-cran-steprf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-reshape2, r-cran-lattice Filename: pool/dists/focal/main/r-cran-stepgbm_1.0.1-1.ca2004.1_all.deb Size: 29444 MD5sum: 1f4ebea14e9c341c65e0402b6dcafb3d SHA1: 5fc50de2a980574571b2834f1bd684f2ffc59161 SHA256: ae08d844b4bd7c169f0f6ead2641b3b1d3720ebd3f25853ade980db979c45d2a SHA512: 7cff774acb333281f1f18ef7017332adfe70b0c954b72de3fd644c8017a1e3c0d65d02f6612b74d7a0e949ce90bb5d2b2b89effbb36ee8cdd0a7ca5f74d01609 Homepage: https://cran.r-project.org/package=stepgbm Description: CRAN Package 'stepgbm' (Stepwise Variable Selection for Generalized Boosted RegressionModeling) An introduction to a couple of novel predictive variable selection methods for generalised boosted regression modeling (gbm). 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Package: r-cran-stepgwr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-qpdf, r-cran-numbers, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-stepgwr_0.1.0-1.ca2004.1_all.deb Size: 26984 MD5sum: ffefadbc7c5822df78dfcfeb798bc563 SHA1: 271ef805cd94e2f15212cb19a783d1c47b609cfa SHA256: bca7597ef0a69ca6d479b34cbcf7eeb2839f73e3f9bb2eaeedc34bd0414edb3f SHA512: ea5eb32dab676e1c2885bdb7909c1d7cc4b0cdf540b17f8924e89a6bfb71c9f7df1a6ab45b8a0a9dd52f63c39b9b74a357e05f955d1eda24badcc0764f5a927f Homepage: https://cran.r-project.org/package=StepGWR Description: CRAN Package 'StepGWR' (A Hybrid Spatial Model for Prediction and Capturing SpatialVariation in the Data) It is a hybrid spatial model that combines the variable selection capabilities of stepwise regression methods with the predictive power of the Geographically Weighted Regression(GWR) model.The developed hybrid model follows a two-step approach where the stepwise variable selection method is applied first to identify the subset of predictors that have the most significant impact on the response variable, and then a GWR model is fitted using those selected variables for spatial prediction at test or unknown locations. 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Package: r-cran-stepjglm Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rsq Filename: pool/dists/focal/main/r-cran-stepjglm_0.0.1-1.ca2004.1_all.deb Size: 64568 MD5sum: edd073fa657b0e94a0779a54000e3e18 SHA1: ff0b2f6b859e75c449e78bf304590823838ede99 SHA256: 767719a0ffb8f337f627be0eb4d28e59ba8eec4079a37342964420befa045305 SHA512: c1761c6337b68983de5b0309a8b511d1f2dac43dd859c9eab6e73f46c109058706de2d3fb15209584a28aef19bbc96b28c5959bc94355384395d68f88dab1bea Homepage: https://cran.r-project.org/package=stepjglm Description: CRAN Package 'stepjglm' (Variable Selection for Joint Modeling of Mean and Dispersion) A Package for selecting variables for the joint modeling of mean and dispersion (including models for mixture experiments) based on hypothesis testing and the quality of model's fit. 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It is a 'Python' package following the scikit-learn API for model-based clustering and generalized mixture modeling (latent class/profile analysis) of continuous and categorical data. 'StepMix' handles missing values through Full Information Maximum Likelihood (FIML) and provides multiple stepwise Expectation-Maximization (EM) estimation methods based on pseudolikelihood theory. Additional features include support for covariates and distal outcomes, various simulation utilities, and non-parametric bootstrapping, which allows inference in semi-supervised and unsupervised settings. 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Package: r-cran-steppenal Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-mvtnorm, r-cran-proc, r-cran-dfoptim, r-cran-caret Filename: pool/dists/focal/main/r-cran-steppenal_0.2-1.ca2004.1_all.deb Size: 79644 MD5sum: b3221d6c36c0f96825eb67f3e2640f07 SHA1: 0c4b6be73485a49cef824f7c2411470c50e7a41a SHA256: 2d242946014682f3366d26f9044250d08428e1d8bad303ebbb870dc8d9bed3b1 SHA512: 288a61f5fb2de9ade9ecdfec35987292ec02fd7be98597d25fb7d9cc37dec08a23abd586e73375d70f1c840ccbf9c802b51ebf2ef1897365b85b79b3313e0672 Homepage: https://cran.r-project.org/package=stepPenal Description: CRAN Package 'stepPenal' (Stepwise Forward Variable Selection in Penalized Regression) Model Selection Based on Combined Penalties. 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Package: r-cran-steprf Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-spm, r-cran-randomforest, r-cran-spm2, r-cran-psy Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-lattice, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-steprf_1.0.2-1.ca2004.1_all.deb Size: 49936 MD5sum: 5cbd80b8017ac305efc03847d8738949 SHA1: 7b47cd5cf027fbe16f5881f646ea0fe99d5e4c69 SHA256: 7b458024b00d3ce940b759447f31c66b3e48af204157bbc417ce10808dbc5e34 SHA512: cdade30c267ab01718d86c3f8a6bca292552fae7daef4d7760c7409851f182eeff34ac0e36a0976252395e686555ce8f82f34d1c770504bada143bdf18da75c2 Homepage: https://cran.r-project.org/package=steprf Description: CRAN Package 'steprf' (Stepwise Predictive Variable Selection for Random Forest) An introduction to several novel predictive variable selection methods for random forest. They are based on various variable importance methods (i.e., averaged variable importance (AVI), and knowledge informed AVI (i.e., KIAVI, and KIAVI2)) and predictive accuracy in stepwise algorithms. For details of the variable selection methods, please see: Li, J., Siwabessy, J., Huang, Z. and Nichol, S. (2019) . Li, J., Alvarez, B., Siwabessy, J., Tran, M., Huang, Z., Przeslawski, R., Radke, L., Howard, F., Nichol, S. (2017). . 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My students, and academics like me who teach the same topics I teach, should find this useful if their teaching workflow is also built around the R programming language. The applications are multiple but mostly cluster on topics of statistical methodology, international relations, and political economy. 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The contents include themes for plots, functions for simulating quantities of interest from regression models, functions for simulating various forms of fake data for instructional/research purposes, and many more. All told, the functions provided here are broadly useful for data organization, data presentation, data recoding, and data simulation. 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The base deterministic model is derived from Band (2012) . This was further expanded on by Masden (2015) and code used here is heavily derived from this work with input from Dr A. Cook at the British Trust for Ornithology. These collision risk models are useful for marine ornithologists who are working in the offshore wind industry, particularly in UK waters. However, many of the species included in the stochastic collision risk models can also be found in the North Atlantic in the United States and Canada, and could be applied there. Package: r-cran-stochprofml Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 362 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-stochprofml_2.0.3-1.ca2004.1_all.deb Size: 318096 MD5sum: 12cdd383b7ef79a22c937deb25b299f8 SHA1: 615eb96ac8c19c8decef459d46ed1c378390da8f SHA256: ee3996be2e787f3678c3d9e9cac91de44072d85f502a2c22c1c1cb0d3140c702 SHA512: 648255590a29726f8a31f394ae80e885912ef49dd6bfb07ac4d7d8995f3a9b036489f3ac7d5e5d706f36f87ab599cea4f2390eb413215e834016a9feb8cd5074 Homepage: https://cran.r-project.org/package=stochprofML Description: CRAN Package 'stochprofML' (Stochastic Profiling using Maximum Likelihood Estimation) New Version of the R package originally accompanying the paper "Parameterizing cell-to-cell regulatory heterogeneities via stochastic transcriptional profiles" by Sameer S Bajikar, Christiane Fuchs, Andreas Roller, Fabian J Theis and Kevin A Janes (PNAS 2014, 111(5), E626-635 ). In this paper, we measure expression profiles from small heterogeneous populations of cells, where each cell is assumed to be from a mixture of lognormal distributions. We perform maximum likelihood estimation in order to infer the mixture ratio and the parameters of these lognormal distributions from the cumulated expression measurements. The main difference of this new package version to the previous one is that it is now possible to use different n's, i.e. a dataset where each tissue sample originates from a different number of cells. We used this on pheno-seq data, see: Tirier, S.M., Park, J., Preusser, F. et al. Pheno-seq - linking visual features and gene expression in 3D cell culture systems. Sci Rep 9, 12367 (2019) ). Package: r-cran-stockanalyst Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 222 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-stockanalyst_1.0.1-1.ca2004.1_all.deb Size: 178968 MD5sum: 8bbc0ca4a3be1a327ca050af477c50bb SHA1: d96335b972f16eeb68c2c2bc7112c3f6b19671d7 SHA256: c08b6cda1eca29cbc2260c7096e7f4047967a5af7835d8e4d3409b255708479c SHA512: 42f3b6498adaa96c07692a8475c0fb62a6c4312e071b548936fd07b117a6de685d8e8466ab244111722af4f5dceeaa8d87e983213770b39371bc069e62c893d6 Homepage: https://cran.r-project.org/package=stockAnalyst Description: CRAN Package 'stockAnalyst' (Equity Valuation using Methods of Fundamental Analysis) Methods of Fundamental Analysis for Valuation of Equity included here serve as a quick reference for undergraduate courses on Stock Valuation and Chartered Financial Analyst Levels 1 and 2 Readings on Equity Valuation. Jerald E. Pinto (“Equity Asset Valuation (4th Edition)”, 2020, ISBN: 9781119628194). Chartered Financial Analyst Institute ("Chartered Financial Analyst Program Curriculum 2020 Level I Volumes 1-6. (Vol. 4, pp. 445-491)", 2019, ISBN: 9781119593577). Chartered Financial Analyst Institute ("Chartered Financial Analyst Program Curriculum 2020 Level II Volumes 1-6. (Vol. 4, pp. 197-447)", 2019, ISBN: 9781119593614). Package: r-cran-stockdistfit Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1530 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-fgarch, r-cran-fbasics, r-cran-fitdistrplus, r-cran-xts, r-cran-magrittr, r-cran-zoo, r-cran-quantmod, r-cran-ghyp Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stockdistfit_1.0.0-1.ca2004.1_all.deb Size: 822016 MD5sum: 827dd2f652806946e40836cce14e2b79 SHA1: d3a33bbfe11f6fea83f9363e9f66f0068f6c03b5 SHA256: fc76996900cbfe72f0f5a25d57fd7798d4cdf28dff73a9ec0f6b2d2bb5a9de68 SHA512: 7e85f9d245051098e2aac1bec4121acb58e6dbaaa6d7506c18e2d5f6a0e324e06f83594748db060d30568c9a98a2ec176aaf3cba90ac979a7b3d2095c7445073 Homepage: https://cran.r-project.org/package=StockDistFit Description: CRAN Package 'StockDistFit' (Fit Stock Price Distributions) The 'StockDistFit' package provides functions for fitting probability distributions to stock price data. The package uses maximum likelihood estimation to find the best-fitting distribution for a given stock. It also offers a function to fit several distributions to one or more assets and compare the distribution with the Akaike Information Criterion (AIC) and then pick the best distribution. References are as follows: Siew et al. (2008) and Benth et al. (2008) . Package: r-cran-stodom Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-tibble, r-cran-ggplot2, r-cran-pracma, r-cran-tidyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-stodom_0.0.1-1.ca2004.1_all.deb Size: 48588 MD5sum: ff21bb231f91f5821322a0a08f73a961 SHA1: 348e19af5790c69c4db2d9f6571d4a1ea806e557 SHA256: 7ab05cab782e6a780b040b167a08371609bf7152a8a38de9d6c5e79cc6edaa83 SHA512: 122946067cb8952ef3c29404cff594883e3537cde4b40a65690c3551b716c8c83f5c40bfed1eff7711c7fdcb01e7715a83b78ea1ab1ce3153481768706e01af3 Homepage: https://cran.r-project.org/package=stodom Description: CRAN Package 'stodom' (Estimating Consistent Tests for Stochastic Dominance) Stochastic dominance tests help ranking different distributions. The package implements the consistent test for stochastic dominance by Barrett and Donald (2003) . Specifically, it implements Barrett and Donald's Kolmogorov-Smirnov type tests for first- and second-order stochastic dominance based on bootstrapping 2 and 1. Package: r-cran-stoichcalc Architecture: all Version: 1.1-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-stoichcalc_1.1-5-1.ca2004.1_all.deb Size: 37464 MD5sum: 39b9cfacabad8ac2f673f93fa7c2efb8 SHA1: 22696b48e8e2bdcbe6a99d4a609b28cef5b2e1b2 SHA256: 6a54b650cf094bc7a0ddb07639cdfbe7558c34f199f76e6e370a35281721ea6e SHA512: 423eeb4a3c93318f953a7dc7afbe1f40fa8fa9d5f07caa0438c7711e1532ad58588457f39cd04510f5e3c200736dbb97249e10c961a2ae8531a38b2422099e7c Homepage: https://cran.r-project.org/package=stoichcalc Description: CRAN Package 'stoichcalc' (R Functions for Solving Stoichiometric Equations) Given a list of substance compositions, a list of substances involved in a process, and a list of constraints in addition to mass conservation of elementary constituents, the package contains functions to build the substance composition matrix, to analyze the uniqueness of process stoichiometry, and to calculate stoichiometric coefficients if process stoichiometry is unique. (See Reichert, P. and Schuwirth, N., A generic framework for deriving process stoichiometry in enviromental models, Environmental Modelling and Software 25, 1241-1251, 2010 for more details.) Package: r-cran-stokes Architecture: all Version: 1.2-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1346 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-permutations, r-cran-partitions, r-cran-disordr, r-cran-spray Suggests: r-cran-knitr, r-cran-deriv, r-cran-testthat, r-cran-markdown, r-cran-rmarkdown, r-cran-quadform, r-cran-magrittr, r-cran-covr Filename: pool/dists/focal/main/r-cran-stokes_1.2-3-1.ca2004.1_all.deb Size: 323328 MD5sum: 3f5b15c4f2328988f1182a9d5c9a32c7 SHA1: fad27160ade265435edd5e5cff96d279ba22fe4f SHA256: 68cdab879fa429998dc251cb502cfe570af7494e10c761662b99eb6b2b7fbfa8 SHA512: 480666348230fb3a62a0daf79fcae7cd8141293d091ed100c16dbb2bd8be827d99d18ebbeafbe80d6b73b50a88a994cea8bf52c75b38aa0b354bfae686757da0 Homepage: https://cran.r-project.org/package=stokes Description: CRAN Package 'stokes' (The Exterior Calculus) Provides functionality for working with tensors, alternating forms, wedge products, Stokes's theorem, and related concepts from the exterior calculus. Uses 'disordR' discipline (Hankin, 2022, ). The canonical reference would be M. Spivak (1965, ISBN:0-8053-9021-9) "Calculus on Manifolds". To cite the package in publications please use Hankin (2022) . Package: r-cran-stopdetection Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 365 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-data.table, r-cran-geodist, r-cran-lubridate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-stopdetection_0.1.2-1.ca2004.1_all.deb Size: 290172 MD5sum: d56b4c71e3614d2b9ec6100091b5a03b SHA1: 6c75c69ad0d13a5965dcd8c13c9db987e5d091c7 SHA256: 80ce36a7d9cf234e42f3524cc462b992b6ebd8b8f77972383aa50f1c083315e6 SHA512: 004d314998a68b49bf63d7492b7dc1a878bd2099658f4b5afb3153d2759a4ec3d346fb7b03d2ed7d4586980626beb338040bf4bad7d28dad89b3f48755dddc78 Homepage: https://cran.r-project.org/package=stopdetection Description: CRAN Package 'stopdetection' (Stop Detection in Timestamped Trajectory Data usingSpatiotemporal Clustering) Trajectory data formed by human or animal movement is often marked by periods of movement interspersed with periods of standing still. It is often of interest to researchers to separate geolocation trajectories of latitude/longitude points by clustering consecutive locations to produce a model of this behavior. This package implements the Stay Point detection algorithm originally described in Ye (2009) that uses time and distance thresholds to characterize spatial regions as 'stops'. This package also implements the concept of merging described in Montoliu (2013) as stay point region estimation, which allows for clustering of temporally adjacent stops for which distance between the midpoints is less than the provided threshold. GPS-like data from various sources can be used, but the temporal thresholds must be considered with respect to the sampling interval, and the spatial thresholds must be considered with respect to the measurement error. Package: r-cran-stopes Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mass, r-cran-cvtools, r-cran-glmnet, r-cran-changepoint Filename: pool/dists/focal/main/r-cran-stopes_0.2-1.ca2004.1_all.deb Size: 44128 MD5sum: b7cfe2ea8051d6282267a4ce49f82e6d SHA1: 5907504e10e677b0ee13003289a72c1291c1501c SHA256: 4ff488a53dc0586031e01d39b70167941bc98ab589723c7287033febd0c3af47 SHA512: fd47207a24bb69f398590884fd206424d55322e3ddb6707c8c3a29e4fc50106f4378cd1ecc05f2d377de43b713cec233f6c7716a8d11cafc2a02e8ac74c62869 Homepage: https://cran.r-project.org/package=STOPES Description: CRAN Package 'STOPES' (Selection Threshold Optimized Empirically via Splitting) Implements variable selection procedures for low to moderate size generalized linear regressions models. It includes the STOPES functions for linear regression (Capanu M, Giurcanu M, Begg C, Gonen M, Optimized variable selection via repeated data splitting, Statistics in Medicine, 2020, 19(6):2167-2184) as well as subsampling based optimization methods for generalized linear regression models (Marinela Capanu, Mihai Giurcanu, Colin B Begg, Mithat Gonen, Subsampling based variable selection for generalized linear models). Package: r-cran-stopp Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1850 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-kernsmooth, r-cran-mass, r-cran-fields, r-cran-optimx, r-cran-plot3d, r-cran-sparr, r-cran-spatstat.explore, r-cran-spatstat.geom, r-cran-spatstat.linnet, r-cran-spatstat.random, r-cran-splancs, r-cran-spatstat.model, r-cran-spatstat.utils, r-cran-stlnpp, r-cran-stpp, r-cran-mgcv, r-cran-spatstat.univar Filename: pool/dists/focal/main/r-cran-stopp_0.2.4-1.ca2004.1_all.deb Size: 1830380 MD5sum: 65f2066f00f74ec1d9377ec61868abc9 SHA1: 62b68495fb39acb7da54b9ffbb69f758cd31a4fb SHA256: d3725a653fc3ad45ebf0f0f4e27bdb13cc4e332ba432a8ac7fbd1288ee9697fd SHA512: e6393e21407aa403daa042e04becd43cef5a4bd57db2eeb1edc08e77e5d1efe94d473d5f201c6610479988b0292b742ab84b6c928b740bddb1fb948708275d70 Homepage: https://cran.r-project.org/package=stopp Description: CRAN Package 'stopp' (Spatio-Temporal Point Pattern Methods, Model Fitting,Diagnostics, Simulation, Local Tests) Toolbox for different kinds of spatio-temporal analyses to be performed on observed point patterns, following the growing stream of literature on point process theory. This R package implements functions to perform different kinds of analyses on point processes, proposed in the papers (Siino, Adelfio, and Mateu 2018; Siino et al. 2018; Adelfio et al. 2020; D’Angelo, Adelfio, and Mateu 2021; D’Angelo, Adelfio, and Mateu 2022; D’Angelo, Adelfio, and Mateu 2023). The main topics include modeling, statistical inference, and simulation issues on spatio-temporal point processes on Euclidean space and linear networks. Package: r-cran-stoppingrule Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-pracma, r-cran-matrixstats Filename: pool/dists/focal/main/r-cran-stoppingrule_0.5.2-1.ca2004.1_all.deb Size: 123404 MD5sum: a9d805ff277c22b8b1935132af4809b3 SHA1: 95b5664eec59a920b0c23598506de30086885838 SHA256: 6f55b5ad7617d9c5be1a43024ec4370adf39ced681e83f6805524e994022540f SHA512: 0bcae777bb8a7f3420023ec6296ee3476cd058c89c58366581fb59e3c2c005267080e180a81e90ca72dd8b273eb2931337336944e00e8c85eb41ff6b1062ffa6 Homepage: https://cran.r-project.org/package=stoppingrule Description: CRAN Package 'stoppingrule' (Create and Evaluate Stopping Rules for Safety Monitoring) Provides functions for creating, displaying, and evaluating stopping rules for safety monitoring in clinical studies. Package: r-cran-stops Architecture: all Version: 1.9-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 948 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-smacofx, r-cran-acepack, r-cran-clue, r-cran-cmaes, r-cran-cordillera, r-cran-dfoptim, r-cran-energy, r-cran-minerva, r-cran-nloptr, r-cran-pomp, r-cran-pso, r-cran-registry, r-cran-scagnostics, r-cran-smacof, r-cran-tgp, r-cran-vegan Suggests: r-cran-r.rsp, r-cran-diceoptim, r-cran-dicekriging Filename: pool/dists/focal/main/r-cran-stops_1.9-1-1.ca2004.1_all.deb Size: 694400 MD5sum: a7848b1d1b4a5ba0de4ccd9d4c840278 SHA1: 5e6c17051baefc7bf64ee1ce067d2e632f7038df SHA256: 666c5dfbefe38e9bab8207489407f73351e473360a94e85b9a6abafd7ca0170a SHA512: 6bce6af6ffb0879c6375d67ade772f1cdd98a81ce8b498cff5cf14d31aafe6aa37d1c24828872ea2845c5783e15dca89bc7179a70edd08c7d7ee6edda1c60f2f Homepage: https://cran.r-project.org/package=stops Description: CRAN Package 'stops' (Structure Optimized Proximity Scaling) Methods that use flexible variants of multidimensional scaling (MDS) which incorporate parametric nonlinear distance transformations and trade-off the goodness-of-fit fit with structure considerations to find optimal hyperparameters, also known as structure optimized proximity scaling (STOPS) (Rusch, Mair & Hornik, 2023,). The package contains various functions, wrappers, methods and classes for fitting, plotting and displaying different 1-way MDS models with ratio, interval, ordinal optimal scaling in a STOPS framework. These cover essentially the functionality of the package smacofx, including Torgerson (classical) scaling with power transformations of dissimilarities, SMACOF MDS with powers of dissimilarities, Sammon mapping with powers of dissimilarities, elastic scaling with powers of dissimilarities, spherical SMACOF with powers of dissimilarities, (ALSCAL) s-stress MDS with powers of dissimilarities, r-stress MDS, MDS with powers of dissimilarities and configuration distances, elastic scaling powers of dissimilarities and configuration distances, Sammon mapping powers of dissimilarities and configuration distances, power stress MDS (POST-MDS), approximate power stress, Box-Cox MDS, local MDS, Isomap, curvilinear component analysis (CLCA), curvilinear distance analysis (CLDA) and sparsified (power) multidimensional scaling and (power) multidimensional distance analysis (experimental models from smacofx influenced by CLCA). All of these models can also be fit by optimizing over hyperparameters based on goodness-of-fit fit only (i.e., no structure considerations). The package further contains functions for optimization, specifically the adaptive Luus-Jaakola algorithm and a wrapper for Bayesian optimization with treed Gaussian process with jumps to linear models, and functions for various c-structuredness indices. Hyperparameter optimization can be done with a number of techniques but we recommend either Bayesian optimization or particle swarm. For using "Kriging", users need to install a version of the archived 'DiceOptim' R package. Package: r-cran-stopwords Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-isocodes Suggests: r-cran-covr, r-cran-quanteda, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-stopwords_2.3-1.ca2004.1_all.deb Size: 226852 MD5sum: e08ea9b635f3b66c2f63ddbc74d53198 SHA1: b8593d3d0ff1709a923270b547a20fa9ac1d6cef SHA256: 5b31d6cb8dd3e6ff2fd4236fe14c62fd9856f00a40ac9801d818d74204d0b85c SHA512: 2662de1052eb2b9e99661c6ae6434bf158341b8d57793c1819e7313f038c71d3e3b9aeea13ec976cef9ba1ebabbe843ed16bd82ec83bebc8f7881b8aa6f56003 Homepage: https://cran.r-project.org/package=stopwords Description: CRAN Package 'stopwords' (Multilingual Stopword Lists) Provides multiple sources of stopwords, for use in text analysis and natural language processing. Package: r-cran-storm Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-permute, r-cran-rjson Filename: pool/dists/focal/main/r-cran-storm_1.2-1.ca2004.1_all.deb Size: 136120 MD5sum: 59d10d2959a1e7a6c0a0d665f281a9a3 SHA1: bc07703b1fe8e7cebbc659fa76dff8bf032aa8ad SHA256: 6eb8b5960fb1c1ea7da216e10570b5aca9320d56eb075a9bcee8341e5f8f4de0 SHA512: 0a8000b4e2425af0748369890269abcd349d8945f8f9ce156dfe3963ef630fcb10704acafd98199e01c5bde99045491f4a3ab52a90ef4dde36c66ee13714d0de Homepage: https://cran.r-project.org/package=Storm Description: CRAN Package 'Storm' (Write Storm Bolts in R using the Storm Multi-Language Protocol) Storm is a distributed real-time computation system. Similar to how Hadoop provides a set of general primitives for doing batch processing, Storm provides a set of general primitives for doing real-time computation. Storm includes a "Multi-Language" (or "Multilang") Protocol to allow implementation of Bolts and Spouts in languages other than Java. This R extension provides implementations of utility functions to allow an application developer to focus on application-specific functionality rather than Storm/R communications plumbing. Package: r-cran-stortingscrape Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 520 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rvest, r-cran-httr2, r-cran-stringr Suggests: r-cran-magick, r-cran-rmarkdown, r-cran-knitr, r-cran-pscl Filename: pool/dists/focal/main/r-cran-stortingscrape_0.4.1-1.ca2004.1_all.deb Size: 408120 MD5sum: 09224fe8e469099ec9063a1f7a5aca07 SHA1: 19035a5f237221c2a68d759a2b3ba02433445ad2 SHA256: 5d6fd499d89a56da8efc23a747ec6c1aab1b062fbcc6b7d94bdf35b9a6c445a9 SHA512: 7429ed35ff3bf541ac8bcf92c3186c556afaead37ce2e33071caa34d9b423db4f623d0c6cc46ea9ff482ecdd04b7637f26e3427f5994fde2b15c06bce2a221cb Homepage: https://cran.r-project.org/package=stortingscrape Description: CRAN Package 'stortingscrape' (Access Data from the Norwegian Parliament API) Functions for retrieving general and specific data from the Norwegian Parliament, through the Norwegian Parliament API at . 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To learn more about the project visit and . Package: r-cran-storywranglr Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 90 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-tibble, r-cran-urltools Filename: pool/dists/focal/main/r-cran-storywranglr_0.2.0-1.ca2004.1_all.deb Size: 53592 MD5sum: 89559fd53389a895b2008b34edc6daa7 SHA1: 362c38e2c5e852b2184c4ce5e49ae2f944f5a5d6 SHA256: b6d23205c4849c183147b5be14464e22c6ac9f5f778984e503a5b9b07a4d980a SHA512: 1096e766cce0aacc62691891b4bb1c02e3ba69fe76eeebe1f57c0d870b3b8b5723ef22daa844447699445ab3c7e665f18ee70ffc4ddc5925b6919cb654e54b6a Homepage: https://cran.r-project.org/package=storywranglr Description: CRAN Package 'storywranglr' (Explore Twitter Trends with the 'Storywrangler' API) An interface to explore trends in Twitter data using the 'Storywrangler' Application Programming Interface (API), which can be found here: . Package: r-cran-stpga Architecture: all Version: 5.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 557 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-algdesign, r-cran-scales, r-cran-scatterplot3d, r-cran-emoa Suggests: r-cran-r.rsp, r-cran-emmreml, r-cran-quadprog, r-cran-usingr, r-cran-glmnet, r-cran-leaps, r-cran-matrix Filename: pool/dists/focal/main/r-cran-stpga_5.2.1-1.ca2004.1_all.deb Size: 535316 MD5sum: f17bda46502e9951fd24227a481ff185 SHA1: ee2a228790c3e7dd1ffd552b2bbfad857013642f SHA256: b3a3cc70eedef8065660c640678ad141d5d29a8bab09a31953011c2c7c5fb408 SHA512: 71036145696e0e58b612e5391e5492867ce1f042eb35da3047732c4a20c6d6d85fc68bc55dc4b28f2f6c472078e918af85b3bc2e876d5f178887a9ad3a662044 Homepage: https://cran.r-project.org/package=STPGA Description: CRAN Package 'STPGA' (Selection of Training Populations by Genetic Algorithm) Combining Predictive Analytics and Experimental Design to Optimize Results. To be utilized to select a test data calibrated training population in high dimensional prediction problems and assumes that the explanatory variables are observed for all of the individuals. Once a "good" training set is identified, the response variable can be obtained only for this set to build a model for predicting the response in the test set. The algorithms in the package can be tweaked to solve some other subset selection problems. Package: r-cran-stplanr Architecture: all Version: 1.2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2969 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-curl, r-cran-data.table, r-cran-dplyr, r-cran-geosphere, r-cran-httr, r-cran-jsonlite, r-cran-lwgeom, r-cran-magrittr, r-cran-nabor, r-cran-od, r-cran-pbapply, r-cran-rcpp, r-cran-rlang, r-cran-sf, r-cran-sfheaders Suggests: r-cran-cyclestreets, r-cran-dodgr, r-cran-geodist, r-cran-igraph, r-cran-knitr, r-cran-leaflet, r-cran-mapsapi, r-cran-opentripplanner, r-cran-osrm, r-cran-pct, r-cran-rmarkdown, r-cran-testthat, r-cran-tmap Filename: pool/dists/focal/main/r-cran-stplanr_1.2.3-1.ca2004.1_all.deb Size: 2118580 MD5sum: ea006fccf0e97b8e5d5457f3c262e104 SHA1: f401258ff63a6d49f06d2b7dcf002dd9af772ab6 SHA256: cde8e0a426ffba158ed944e18949ae20b0d65e88dee66411ed153352864fefa4 SHA512: 0ef6da84ec74d21f7d185c53a18a25c8901e6cbcee03402a66b274508d2ebcecf363163f4de737aaf28fa07aa6abdfc5a7931a5fffa200852d857015965fc512 Homepage: https://cran.r-project.org/package=stplanr Description: CRAN Package 'stplanr' (Sustainable Transport Planning) Tools for transport planning with an emphasis on spatial transport data and non-motorized modes. The package was originally developed to support the 'Propensity to Cycle Tool', a publicly available strategic cycle network planning tool (Lovelace et al. 2017) , but has since been extended to support public transport routing and accessibility analysis (Moreno-Monroy et al. 2017) and routing with locally hosted routing engines such as 'OSRM' (Lowans et al. 2023) . The main functions are for creating and manipulating geographic "desire lines" from origin-destination (OD) data (building on the 'od' package); calculating routes on the transport network locally and via interfaces to routing services such as (Desjardins et al. 2021) ; and calculating route segment attributes such as bearing. The package implements the 'travel flow aggregration' method described in Morgan and Lovelace (2020) and the 'OD jittering' method described in Lovelace et al. (2022) . Further information on the package's aim and scope can be found in the vignettes and in a paper in the R Journal (Lovelace and Ellison 2018) , and in a paper outlining the landscape of open source software for geographic methods in transport planning (Lovelace, 2021) . Package: r-cran-stppsim Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2257 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-splancs, r-cran-dplyr, r-cran-tidyr, r-cran-magrittr, r-cran-sf, r-cran-sp, r-cran-ks, r-cran-terra, r-cran-raster, r-cran-simriv, r-cran-data.table, r-cran-tibble, r-cran-stringr, r-cran-lubridate, r-cran-spatstat.geom, r-cran-sparr, r-cran-chron, r-cran-ggplot2, r-cran-geosphere, r-cran-leaflet, r-cran-cowplot, r-cran-gstat, r-cran-otusummary, r-cran-progressr, r-cran-future.apply Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stppsim_1.3.4-1.ca2004.1_all.deb Size: 1428520 MD5sum: 3f90b2a9a7469a39c827f581d48fb13b SHA1: 75a99d227aa40fa8239d1e044e468bf61a4bf79b SHA256: a08f30ce650ac275afbe4dc4c25396b91c289440d944475d0567ec67c3bd0678 SHA512: c5e0d95c7ba95398daa1c3bf5806be86ccaa50c258b0b3c6acf6afca032943df7745eee6a47f21c249490bb388ab0f0feaaa90053cedd228e7bbf1647842390c Homepage: https://cran.r-project.org/package=stppSim Description: CRAN Package 'stppSim' (Spatiotemporal Point Patterns Simulation) Generates artificial point patterns marked by their spatial and temporal signatures. The resulting point cloud may exhibit inherent interactions between both signatures. The simulation integrates microsimulation (Holm, E., (2017)) and agent-based models (Bonabeau, E., (2002)), beginning with the configuration of movement characteristics for the specified agents (referred to as 'walkers') and their interactions within the simulation environment. These interactions (Quaglietta, L. and Porto, M., (2019)) result in specific spatiotemporal patterns that can be visualized, analyzed, and used for various analytical purposes. Given the growing scarcity of detailed spatiotemporal data across many domains, this package provides an alternative data source for applications in social and life sciences. 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Simulated portfolios optimize exposure to an input signal subject to constraints such as position size and factor exposure. For background see L. Chincarini and D. Kim (2010, ISBN:978-0-07-145939-6) "Quantitative Equity Portfolio Management". Package: r-cran-stranslate Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-crayon, r-cran-knitr, r-cran-stringr Suggests: r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stranslate_0.1.3-1.ca2004.1_all.deb Size: 56528 MD5sum: 7fd8b9747369c5309c977f0ceae39625 SHA1: d4a1d1ed436d9abc26fb91629baa92076e64d191 SHA256: 0c2d685ee5bc252e1f2cdb4998eb70d5a248fafe4fd9dd2d8c3cd84e484b7ca5 SHA512: 7ced6e46a68d3125118dddf2eac3d8f3716950286038f9ba6acde2fc3a2037aafec17cf766b265c9faca0bfb2f74c140cb6642d5881f8c478259ea80f39a40a1 Homepage: https://cran.r-project.org/package=stranslate Description: CRAN Package 'stranslate' (Simple Translation Between Different Languages) Message translation is often managed with 'po' files and the 'gettext' programme, but sometimes another solution is needed. 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Package: r-cran-strata.maxcombo Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 62 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-strata.maxcombo_0.0.1-1.ca2004.1_all.deb Size: 29404 MD5sum: b4bcab47a88d1dc8197e98bce87485e2 SHA1: c7db801c01fc197ce376f65c2fc5012685732d6e SHA256: 3c02ea988b63ccf1f6769256c0fe5c93802481ae207fb8f4ebd31ccdcc414524 SHA512: 80dbf309c012db2b85fc29c4a510fab23f2e1db00a2ea1241ba635173b6a4aac3c9a2e20edf65f1fa3036f887b128de2d3f3db9764673efad7f88e21af650dbe Homepage: https://cran.r-project.org/package=strata.MaxCombo Description: CRAN Package 'strata.MaxCombo' (Stratified Max-Combo Test) Non-proportional hazard (NPH) is commonly observed in immuno-oncology studies, where the survival curves of the treatment and control groups show delayed separation. To properly account for NPH, several statistical methods have been developed. 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Package: r-cran-strata Architecture: all Version: 1.4.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-dplyr, r-cran-fs, r-cran-glue, r-cran-lifecycle, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-stringr, r-cran-tibble Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-strata_1.4.5-1.ca2004.1_all.deb Size: 104492 MD5sum: 55b94b30d6089e09251965c31a3681bb SHA1: ba34470b29c65bf49796ccd44ef3033d94cfa871 SHA256: fd786b6b486675b8445950c0349a05b847f9295bbcfe9f9606e7c1eac020fadd SHA512: 7da3bc0b51f6722f78023b1b2f559727e9cb4a8654e263b88670f35087d2783ef862b2897a5d8243276260ebce61f2aad29ced77dc3c7970aaab8de112e9cd0b Homepage: https://cran.r-project.org/package=strata Description: CRAN Package 'strata' (Simple Framework for Simple Automation) Build a project framework for users with access to only the most basic of automation tools. 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Package: r-cran-stratamatch Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1194 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-hmisc, r-cran-magrittr Suggests: r-cran-knitr, r-cran-optmatch, r-cran-rmarkdown, r-cran-testthat, r-cran-glmnet, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-stratamatch_0.1.9-1.ca2004.1_all.deb Size: 789376 MD5sum: 059c02c98190d592da0b7723a053fc66 SHA1: 49b6820a1d5e230a75888abdd918efc178d39039 SHA256: 213a749ef3d3ff0b86b94ed660a62adce0bc3a7e4a4f64b22d1e011bf5749372 SHA512: e885ed3ce56ea79c82a312d44df5a157808205668e3a2cf8ad1fcc4c9c758b9e75aae1be8bd61b6e3f532c42ceb912840ce23e7f4edc7fbb015727cfe6d88249 Homepage: https://cran.r-project.org/package=stratamatch Description: CRAN Package 'stratamatch' (Stratification and Matching for Large Observational Data Sets) A pilot matching design to automatically stratify and match large datasets. The manual_stratify() function allows users to manually stratify a dataset based on categorical variables of interest, while the auto_stratify() function does automatically by allocating a held-aside (pilot) data set, fitting a prognostic score (see Hansen (2008) ) on the pilot set, and stratifying the data set based on prognostic score quantiles. The strata_match() function then does optimal matching of the data set in parallel within strata. Package: r-cran-stratastats Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 64 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-abind, r-cran-gt Filename: pool/dists/focal/main/r-cran-stratastats_0.2-1.ca2004.1_all.deb Size: 31988 MD5sum: 5fdb35ba4e582dc64002a2506f8b8be3 SHA1: 0cac004e8fadd81ddf3e082544ad4fc81dcf06f5 SHA256: 04bc82124fe606da0ac5904a1289d9dbe7cf4005a4c2b9dd185522b670e718d7 SHA512: 634182291a429ffc217b96b77b154eb7d2d21070e6aff6bf0f2bb8119035469be8a1918450fd21f14cbd4a98784e8f0084dc217f7ef23af97895e1c7a8612baf Homepage: https://cran.r-project.org/package=stratastats Description: CRAN Package 'stratastats' (Stratified Analysis of 2x2 Contingency Tables) Offers a comprehensive approach for analysing stratified 2x2 contingency tables. It facilitates the calculation of odds ratios, 95% confidence intervals, and conducts chi-squared, Cochran-Mantel-Haenszel, Mantel-Haenszel, and Breslow-Day-Tarone tests. The package is particularly useful in fields like epidemiology and social sciences where stratified analysis is essential. The package also provides interpretative insights into the results, aiding in the understanding of statistical outcomes. Package: r-cran-stratbr Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rglpk, r-cran-snowfall, r-cran-stratification Filename: pool/dists/focal/main/r-cran-stratbr_1.2-1.ca2004.1_all.deb Size: 30984 MD5sum: b1a5c0dc8fd54054c15bac8573bd32f1 SHA1: a3701345fb5329651578c1de814347fdd8068372 SHA256: bd814ce7037f5946cccf97f9c700da9cd49541c231ceee94f301924551a3e870 SHA512: a57833bff9eb007cca15e57de188df0851fc943f770326ed2bde2ca1c50cae5f31c8c99b67140761e046c81c5833c78e2f1327a6b82ab1597e17b678b97949ae Homepage: https://cran.r-project.org/package=stratbr Description: CRAN Package 'stratbr' (Optimal Stratification in Stratified Sampling) An Optimization Algorithm Applied to Stratification Problem.This function aims at constructing optimal strata with an optimization algorithm based on a global optimisation technique called Biased Random Key Genetic Algorithms. Package: r-cran-strategicplayers Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.3.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-strategicplayers_1.1-1.ca2004.1_all.deb Size: 18948 MD5sum: 313a97bda9c0f53604e7795f28dea154 SHA1: cb7f225d98e75465437e0095b3395e6b78774a88 SHA256: 14c6b0aed376573f25f9a0a3c866ac6a1ea965a35fe1cde0fda05c165ee3f5f9 SHA512: a2134560527c0f927f783c8808de5b4ef8ef13d564b85e948c36efcbc33a7377df89436860436ab373d533b56d82c8a606098108a69bf113b1078068d7f23ada Homepage: https://cran.r-project.org/package=strategicplayers Description: CRAN Package 'strategicplayers' (Strategic Players) Identifies individuals in a social network who should be the intervention subjects for a network intervention in which you have a group of targets, a group of avoiders, and a group that is neither. Package: r-cran-strategy Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 670 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-zoo, r-cran-xts Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-strategy_1.0.1-1.ca2004.1_all.deb Size: 473460 MD5sum: 9042a5eafc19b53cd128a97ee09a7333 SHA1: 372b689e71922e963592d414c673704c13edbb4e SHA256: 6c42b23def455f36fc1a770321b76ce4b3795ab6ce369c6daa319804d1ffcf5e SHA512: ea44a59211ff1fe7851528a90c805502d640882bca47348ef183a20409b6bcb21817508a06142c2000d7fe9800e85e28775f91d219dd0fdad6699593194be427 Homepage: https://cran.r-project.org/package=Strategy Description: CRAN Package 'Strategy' (Generic Framework to Analyze Trading Strategies) Users can build and test customized quantitative trading strategies. Some quantitative trading strategies are already implemented, e.g. various moving-average filters with trend following approaches. The implemented class called "Strategy" allows users to access several methods to analyze performance figures, plots and backtest the strategies. Furthermore, custom strategies can be added, a generic template is available. The custom strategies require a certain input and output so they can be called from the Strategy-constructor. Package: r-cran-stratifiedbalancing Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bnlearn, r-cran-plyr Filename: pool/dists/focal/main/r-cran-stratifiedbalancing_0.3.0-1.ca2004.1_all.deb Size: 50640 MD5sum: 2dcc8ee92ae0e62df96cf764cb5fe083 SHA1: 02fca1b299acdaf62b44bd256dec16517093a47d SHA256: 8ece08784e3910c157dc1edecd58a982e4bd7a2a4fdbc732c2e4f04fd2843bbe SHA512: 2573c8346d0ad7dff8d6bfffcea02f7e121c9a94b3817200de9e839527cc6736270b327320e0080993eaea1a6a15b08462de447f06f630c413e73675c44794c9 Homepage: https://cran.r-project.org/package=StratifiedBalancing Description: CRAN Package 'StratifiedBalancing' (Stratified Covariate Balancing) Performs Stratified Covariate Balancing with Markov blanket feature selection and use of synthetic cases. See Alemi et al. (2016) . Package: r-cran-stratifiedmedicine Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5781 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-partykit, r-cran-ranger, r-cran-survival, r-cran-glmnet, r-cran-ggplot2, r-cran-ggparty, r-cran-mvtnorm, r-cran-coin Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-mass, r-cran-bart, r-cran-proc, r-cran-survrm2, r-cran-th.data, r-cran-sandwich, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-stratifiedmedicine_1.0.5-1.ca2004.1_all.deb Size: 909944 MD5sum: a63dc4bb2c84fb1ec7011ee65f73d972 SHA1: 1fa0f7cb657a73cfff52e767adfb8635f1e3d97d SHA256: 940bc50942f4a5faffe6f9ea5ce8b9f4cc851dddb5c164c20384fc639b565a6b SHA512: ab7eb8db21a395e6c23e2d8d26d71700d342d2f291d54b3e74818e5e4a9434fa75fa0253b92acec90c958974ca41d451aeb750066dc3712c9851b5e379e0c7b9 Homepage: https://cran.r-project.org/package=StratifiedMedicine Description: CRAN Package 'StratifiedMedicine' (Stratified Medicine) A toolkit for stratified medicine, subgroup identification, and precision medicine. Current tools include (1) filtering models (reduce covariate space), (2) patient-level estimate models (counterfactual patient-level quantities, such as the conditional average treatment effect), (3) subgroup identification models (find subsets of patients with similar treatment effects), and (4) treatment effect estimation and inference (for the overall population and discovered subgroups). These tools can be customized and are directly used in PRISM (patient response identifiers for stratified medicine; Jemielita and Mehrotra 2019 . This package is in beta and will be continually updated. Package: r-cran-stratifiedrf Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-c50, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-stratifiedrf_0.2.2-1.ca2004.1_all.deb Size: 48836 MD5sum: d191d9b79ccc4dd61c32268077c9cd69 SHA1: 5e5ef2f8027b9c3c39d769dbf50b74bf43cef1bc SHA256: 4f3b5757069fb6db03f21b298ce4b589940caa6ea665560107ad41152e619315 SHA512: 269c85bb096dfd9f2f1609738f4ab0d20259db987d59422d7148cdd5923e92c7952a02223ed5bed7dd9eb0898cde7c7506bf4c531b1a3832f7eca00b8aacd2fc Homepage: https://cran.r-project.org/package=StratifiedRF Description: CRAN Package 'StratifiedRF' (Builds Trees by Sampling Variables in Groups) Random Forest-like tree ensemble that works with groups of predictor variables. When building a tree, a number of variables is taken randomly from each group separately, thus ensuring that it considers variables from each group for the splits. Useful when rows contain information about different things (e.g. user information and product information) and it's not sensible to make a prediction with information from only one group of variables, or when there are far more variables from one group than the other and it's desired to have groups appear evenly on trees. Trees are grown using the C5.0 algorithm rather than the usual CART algorithm. Supports parallelization (multithreaded), missing values in predictors, and categorical variables (without doing One-Hot encoding in the processing). Can also be used to create a regular (non-stratified) Random Forest-like model, but made up of C5.0 trees and with some additional control options. As it's built with C5.0 trees, it works only for classification (not for regression). Package: r-cran-stratifiedyh Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-stratifiedyh_0.1.0-1.ca2004.1_all.deb Size: 24248 MD5sum: 4367c775dc33e97d4a56bdc0bb5666de SHA1: b0ca254a7ba686d35972143f7322dc8f7130ba09 SHA256: 86d911c6bfa02cec29a87c3ea82acfd19bc3445b20283c452923d7a96740a238 SHA512: bd53383203ccad54644559f74ccf11d7ad34c6bc5c06b33952a54a904bb21c0b9f56a4cc43244b604f84574444f0ac7ed9a9506b8d2ca9155dc082a3870f647d Homepage: https://cran.r-project.org/package=stratifiedyh Description: CRAN Package 'stratifiedyh' (Stratified Sampling and Labeling of Data in R) Provides functions for stratified sampling and assigning custom labels to data, ensuring randomness within groups. The package supports various sampling methods such as stratified, cluster, and systematic sampling. It allows users to apply transformations and customize the sampling process. This package can be useful for statistical analysis and data preparation tasks. Package: r-cran-stratigrapher Architecture: all Version: 1.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1242 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-xml, r-cran-dplyr, r-cran-stringr, r-cran-shiny, r-cran-diagram, r-cran-reshape Suggests: r-cran-astrochron, r-cran-rfoc, r-cran-plyr Filename: pool/dists/focal/main/r-cran-stratigrapher_1.3.1-1.ca2004.1_all.deb Size: 1209556 MD5sum: 25fef39c10df1a841cc273b62703a0c8 SHA1: edf26b12a81db45240abe48542f949f280e090f5 SHA256: 0edf26048109f46e9ae4e51c6cd631437d634de3d8bbd5f5fd8af6c5f725a73c SHA512: 9f23b87bebe461bbc910ffffd2b8c696511b20dc6eb3493849c462fb5161396d4515c2540c89fa5faca62eb3af4c4af8bb7348769453909a67df743c4773d4e9 Homepage: https://cran.r-project.org/package=StratigrapheR Description: CRAN Package 'StratigrapheR' (Integrated Stratigraphy) Includes bases for litholog generation: graphical functions based on R base graphics, interval management functions and svg importation functions among others. Also include stereographic projection functions, and other functions made to deal with large datasets while keeping options to get into the details of the data. When using for publication please cite Sebastien Wouters, Anne-Christine Da Silva, Frederic Boulvain and Xavier Devleeschouwer, 2021. The R Journal 13:2, 153-178. The palaeomagnetism functions are based on: Tauxe, L., 2010. Essentials of Paleomagnetism. University of California Press. ; Allmendinger, R. W., Cardozo, N. C., and Fisher, D., 2013, Structural Geology Algorithms: Vectors & Tensors: Cambridge, England, Cambridge University Press, 289 pp.; Cardozo, N., and Allmendinger, R. W., 2013, Spherical projections with OSXStereonet: Computers & Geosciences, v. 51, no. 0, p. 193 - 205, . Package: r-cran-stratpal Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 814 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-admtools, r-cran-paleots Suggests: r-cran-ape, r-cran-fossilsim, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-stratpal_0.5.0-1.ca2004.1_all.deb Size: 457572 MD5sum: 99906bf2255a326221f9be5af7be59f2 SHA1: 2ffa6dd55f9365a41632f30832a01596f249cc1b SHA256: 5a2cd0c45486e4212dc3f33693f5f9dc56ff7fcfdaa3fe5f1db61863be01f880 SHA512: 5d62b7b79eeedea9ebffb717b35dd38c493afae4cf9faa40a3fc922b6080c3756cf09b850be25c746814612639cd979c028f014a23334152d5733c9485224041 Homepage: https://cran.r-project.org/package=StratPal Description: CRAN Package 'StratPal' (Stratigraphic Paleobiology Modeling Pipelines) The fossil record is a joint expression of ecological, taphonomic, evolutionary, and stratigraphic processes (Holland and Patzkowsky, 2012, ISBN:978-0226649382). This package allowing to simulate biological processes in the time domain (e.g., trait evolution, fossil abundance, phylogenetic trees), and examine how their expression in the rock record (stratigraphic domain) is influenced based on age-depth models, ecological niche models, and taphonomic effects. Functions simulating common processes used in modeling trait evolution or event type data such as first/last occurrences are provided and can be used standalone or as part of a pipeline. The package comes with example data sets and tutorials in several vignettes, which can be used as a template to set up one's own simulation. Package: r-cran-stratsel Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 180 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-memisc, r-cran-formula, r-cran-mnormt, r-cran-pbivnorm Filename: pool/dists/focal/main/r-cran-stratsel_1.4-1.ca2004.1_all.deb Size: 146380 MD5sum: 96d46ed9ba0fbfbf7595ca114388648e SHA1: 2b119a37b7a625e31c88a80cb34835836a9b56bd SHA256: 1c6c77727c2c4f1fef666a249f73b3c9a3ff6e2403cf537ea025e1e2f6a1cc4e SHA512: 6b5540a45b0006ad140bf5bc1e7a0a13036beeae2a100e169d4a8802f42f71fa94b35389eb15e6941a1d738ae0c7c4f3b7a2989789cdaa9b0aaba61232e449ec Homepage: https://cran.r-project.org/package=StratSel Description: CRAN Package 'StratSel' (Strategic Selection Estimator) Provides functions to estimate a strategic selection estimator. A strategic selection estimator is an agent error model in which the two random components are not assumed to be orthogonal. In addition this package provides generic functions to print and plot objects of its class as well as the necessary functions to create tables for LaTeX. There is also a function to create dyadic data sets. Package: r-cran-stratus Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-phangorn, r-cran-igraph, r-cran-gmp, r-cran-ggplot2, r-bioc-ggtree, r-cran-rcppalgos Filename: pool/dists/focal/main/r-cran-stratus_1.1.2-1.ca2004.1_all.deb Size: 80472 MD5sum: 59d4e5f9bf4bf7612382fbf56abb9b81 SHA1: dd0f7d813ecb4f31935e5750d9520f915ebd5308 SHA256: 0c8bb4d7d8bb723304ca2b46fc3eac9e67f9d519e16afd8316422384659e13fd SHA512: 3c130c79aa57be729a729b7fe39019725427b77301e6beed3c4798aa064f7b98c6c1ac2f4acf8c7b8d5da27c334d8c5dd7114548867680e14f449305c9891343 Homepage: https://cran.r-project.org/package=STraTUS Description: CRAN Package 'STraTUS' (Enumeration and Uniform Sampling of Transmission Trees for aKnown Phylogeny) For a single, known pathogen phylogeny, provides functions for enumeration of the set of compatible epidemic transmission trees, and for uniform sampling from that set. Optional arguments allow for incomplete sampling with a known number of missing individuals, multiple sampling, and known infection time limits. Always assumed are a complete transmission bottleneck and no superinfection or reinfection. See Hall and Colijn (2019) for methodology. Package: r-cran-stratvns Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-partitions, r-cran-multalloc Filename: pool/dists/focal/main/r-cran-stratvns_1.1-1.ca2004.1_all.deb Size: 52156 MD5sum: 200ce1659687ce168b58508c4aca18d3 SHA1: 081c0823cbf0aac1aa760ef152413fca5f7807a8 SHA256: 55908bcb51c2e45944a49d4326ba44b2b18a7abe8cd381fe238fc139118549f9 SHA512: 86a4ceacc5df52cd98b4527d6c741a830d231f186e4314ec411dd72257aac18c71445a930bb1076d9631ae43a4ac95ae0574f119adf4d13ce86886fdeaff8bf5 Homepage: https://cran.r-project.org/package=stratvns Description: CRAN Package 'stratvns' (Optimal Stratification in Stratified Sampling) An Optimization Algorithm Applied to Stratification Problem.This function aims at constructing optimal strata with an optimization algorithm based on a global optimisation technique called vns. Package: r-cran-straweib Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-straweib_1.1-1.ca2004.1_all.deb Size: 77276 MD5sum: a09335b8d5471e8f8defea1441908cdd SHA1: 913e818ba4fe5b33d229a1db3734916c94593acb SHA256: 513ecde82a4cdd1fbe928abf7a3263acf18cdf25fab08e3c41c60c30c70dbe9a SHA512: 82c9af6dd6a7861348bff0cc5c9397bfec593c5770484b00d10b36e278ccf14d1eaba7761d4812839796e3a8a80d756fefe81e25e27c19fcf120fd482e1ed1e6 Homepage: https://cran.r-project.org/package=straweib Description: CRAN Package 'straweib' (Stratified Weibull Regression Model) The main function is icweib(), which fits a stratified Weibull proportional hazards model for left censored, right censored, interval censored, and non-censored survival data. We parameterize the Weibull regression model so that it allows a stratum-specific baseline hazard function, but where the effects of other covariates are assumed to be constant across strata. Please refer to Xiangdong Gu, David Shapiro, Michael D. Hughes and Raji Balasubramanian (2014) for more details. Package: r-cran-stray Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 474 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fnn, r-cran-ggplot2, r-cran-colorspace, r-cran-pcapp, r-cran-ks Filename: pool/dists/focal/main/r-cran-stray_0.1.1-1.ca2004.1_all.deb Size: 417084 MD5sum: 31886166de0d6d4f0312ade7cd4d9cb1 SHA1: 2285a28d478d9124e16c06296fd9ef819beaf30a SHA256: 7c801bac90de8cb3492e3206942fff82ef05eca4a23be0dab9b58092a0c1a144 SHA512: 345d6944d417fce47bbdb4f4bded0c6812bb11057a1c7ba8d6183c51e32403c6426d5351aec086e34b1178b3bef641042eaaffbd3a634c95472804ced63b5c91 Homepage: https://cran.r-project.org/package=stray Description: CRAN Package 'stray' (Anomaly Detection in High Dimensional and Temporal Data) This is a modification of 'HDoutliers' package. The 'HDoutliers' algorithm is a powerful unsupervised algorithm for detecting anomalies in high-dimensional data, with a strong theoretical foundation. However, it suffers from some limitations that significantly hinder its performance level, under certain circumstances. This package implements the algorithm proposed in Talagala, Hyndman and Smith-Miles (2019) for detecting anomalies in high-dimensional data that addresses these limitations of 'HDoutliers' algorithm. We define an anomaly as an observation that deviates markedly from the majority with a large distance gap. An approach based on extreme value theory is used for the anomalous threshold calculation. Package: r-cran-streak Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3121 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ckmeans.1d.dp, r-cran-matrix, r-cran-seurat, r-cran-speck, r-cran-vam Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-streak_1.0.0-1.ca2004.1_all.deb Size: 3149328 MD5sum: f9c39a1b2b856d4bfe78e9ca7e691893 SHA1: 0f6408b3a1a75ef88663e327b4e3fa9e5a8ee85e SHA256: e146e49ce0be97b3bbffb120be1824662d51826f5f67e61612fc6b61e69ff6f0 SHA512: 187b43d1893efffebcba619d086d8c1f2189fd97c535655b71b77ca5cf6afc589c3a25f38fd4f448e783081cd2cffd85eac09a207aef7568c3558a44ace9b0c1 Homepage: https://cran.r-project.org/package=STREAK Description: CRAN Package 'STREAK' (Receptor Abundance Estimation using Feature Selection and GeneSet Scoring) Performs receptor abundance estimation for single cell RNA-sequencing data using a supervised feature selection mechanism and a thresholded gene set scoring procedure. Seurat's normalization method is described in: Hao et al., (2021) , Stuart et al., (2019) , Butler et al., (2018) and Satija et al., (2015) . Method for reduced rank reconstruction and rank-k selection is detailed in: Javaid et al., (2022) . Gene set scoring procedure is described in: Frost et al., (2020) . Clustering method is outlined in: Song et al., (2020) and Wang et al., (2011) . 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Poudyal, N., and Spanos, A. (2022) . Spanos, A. (1994) . Package: r-cran-stressaddition Architecture: all Version: 3.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-drc, r-cran-plotrix Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-stressaddition_3.1.0-1.ca2004.1_all.deb Size: 78716 MD5sum: 28b9b0b46b5602bbbe81cd3fc96c85f6 SHA1: 2b72eabfa4db7b6fc096b9ee31e3a45cbc841db7 SHA256: ba599051962ef62b8990c7403fd43635cbd600c73df76994c1d13c5ec0b80c6f SHA512: 09c9f897505316288b35204bb69aa2bdcbf5158a761ee604fb97956d672c0ad796fce97f9a99a017012f1653f74393f1ac704770d540b017506067a7abac1b38 Homepage: https://cran.r-project.org/package=stressaddition Description: CRAN Package 'stressaddition' (Modelling Tri-Phasic Concentration-Response Relationships) The stress addition approach is an alternative to the traditional concentration addition or effect addition models. 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Provides query functions for both the composite stress index and the components data. By default the download includes daily time series data starting September 25, 1991. The functions return a class of either type easing or cfsi which contain a list of items related to the query and its graphical presentation. The list includes the time series data as an xts object. The package provides four lattice time series plots to render the time series data in a manner similar to the bank's own presentation. 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Package: r-cran-string2adjmatrix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Filename: pool/dists/focal/main/r-cran-string2adjmatrix_0.1.0-1.ca2004.1_all.deb Size: 15000 MD5sum: 70ea96b3d8c7f65e352058f61b3922bb SHA1: 9af48727f8394c35ef9c097fabf6a8c5efd55bc3 SHA256: f12ad53dcea198cebaed3f795dce4bca26d37b6eb7da49af011870517845daa9 SHA512: 0927d6b4e27ed8a53a7b1e28ae6d367816ee8a9098ae1e64b3d3cc8ebc1e102cdc481ab7e22137cfbf8d354352890192888d0eb1bcfa60be22ab63fb925f240e Homepage: https://cran.r-project.org/package=String2AdjMatrix Description: CRAN Package 'String2AdjMatrix' (Creates an Adjacency Matrix from a List of Strings) Takes a list of character strings and forms an adjacency matrix for the times the specified characters appear together in the strings provided. For use in social network analysis and data wrangling. 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The 'stringi' ('stringr') package on the other hand has well named functions, extensive Unicode support and allows for a streamlined workflow. On the other hand it adds dependencies and regular expression interpretation between base R functions and 'stringi' functions might differ. This packages aims at providing a solution to the use case of unwanted dependencies on the one hand but the need for streamlined text processing on the other. The packages' functions are solely based on wrapping base R functions into 'stringr'/'stringi' like function names. Along the way it adds one or two extra functions and last but not least provides all functions as generics, therefore allowing for adding methods for other text structures besides plain character vectors. Package: r-cran-stringformattr Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Filename: pool/dists/focal/main/r-cran-stringformattr_0.1.2-1.ca2004.1_all.deb Size: 13804 MD5sum: 8d5c6a07df6e8df606e34c6de87ae20f SHA1: 94ca93f3914303ccf82b535a6fe9613261c5a3ba SHA256: 39764eafeeb01375473259c00586e6c7bffb35321ba9bd444a59eebc58526727 SHA512: d9752e30b04f4aade0d59eaca03a1da5e53a813d78f0036dae89dc649b4128d24d14a81d45c2051a3033a72f36e7879356d6faffc8c9a03d5a9501dda3d8e072 Homepage: https://cran.r-project.org/package=stringformattr Description: CRAN Package 'stringformattr' (Dynamic String Formatting) Pass named and unnamed character vectors into specified positions in strings. This represents an attempt to replicate some of python's string formatting. Package: r-cran-stringr Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 567 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-lifecycle, r-cran-magrittr, r-cran-rlang, r-cran-stringi, r-cran-vctrs Suggests: r-cran-covr, r-cran-dplyr, r-cran-gt, r-cran-htmltools, r-cran-htmlwidgets, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-stringr_1.5.1-1.ca2004.1_all.deb Size: 285052 MD5sum: 1c2f622bd617670e7b410995898a619e SHA1: 73882038b621a8472bee5df202beb14945ba9947 SHA256: 048aaa8026bf27222a01e7b6cbfa1a538fdbf65811942e00ccb4f4ed9deba069 SHA512: 2920359f070a8071028ce75b42603ce1cd852645fc853434997cc3cea5bcb412d3c67013db4ad6bc3d9345a0bc34cdf8e952817f0b261a0204eb99672cf009e3 Homepage: https://cran.r-project.org/package=stringr Description: CRAN Package 'stringr' (Simple, Consistent Wrappers for Common String Operations) A consistent, simple and easy to use set of wrappers around the fantastic 'stringi' package. All function and argument names (and positions) are consistent, all functions deal with "NA"'s and zero length vectors in the same way, and the output from one function is easy to feed into the input of another. Package: r-cran-stringstatic Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 551 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-stringstatic_0.1.2-1.ca2004.1_all.deb Size: 440384 MD5sum: 9b0908396180ab2fd4b36aacedd2a928 SHA1: decd7dd3417f625aba4ae79a9fdd296fd82a13f8 SHA256: 1e75de5e047bcf4b092a83617cee76ea13b6db6492c0426e0090f5a59cadf36d SHA512: fd7e15107fd9c31784744e6a4c2a4d77c1cad222443f7d36fb3cab2dbafca5b9e9989b3f3eff99c5763897d3bcb584a588c1c6872c0c72ae74df471c348fd431 Homepage: https://cran.r-project.org/package=stringstatic Description: CRAN Package 'stringstatic' (Dependency-Free String Operations) Provides drop-in replacements for functions from the 'stringr' package, with the same user interface. These functions have no external dependencies and can be copied directly into your package code using the 'staticimports' package. Package: r-cran-stringx Architecture: all Version: 0.2.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringi Suggests: r-cran-realtest Filename: pool/dists/focal/main/r-cran-stringx_0.2.9-1.ca2004.1_all.deb Size: 219484 MD5sum: 25483516264b17ba30cb80c0cbb02192 SHA1: 361e76b6e2f5d1e0e691d4965e25e29c045ada9e SHA256: 754768d8303b42acc3ad9745513dff655cc7e8c59ddc6ed98f5139b8663b729b SHA512: 44c584aa0fa3f2e2f87d78a7c577e513ac7108240dbbd4586c8b69553457483a3351ef36458f91a9e285a28cb4a121890f4d3a3118c461a80ba2529afddad724 Homepage: https://cran.r-project.org/package=stringx Description: CRAN Package 'stringx' (Replacements for Base String Functions Powered by 'stringi') English is the native language for only 5% of the World population. Also, only 17% of us can understand this text. Moreover, the Latin alphabet is the main one for merely 36% of the total. The early computer era, now a very long time ago, was dominated by the US. Due to the proliferation of the internet, smartphones, social media, and other technologies and communication platforms, this is no longer the case. This package replaces base R string functions (such as grep(), tolower(), sprintf(), and strptime()) with ones that fully support the Unicode standards related to natural language and date-time processing. It also fixes some long-standing inconsistencies, and introduces some new, useful features. Thanks to 'ICU' (International Components for Unicode) and 'stringi', they are fast, reliable, and portable across different platforms. Package: r-cran-strip Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rlist Suggests: r-cran-caret, r-cran-e1071, r-cran-knitr, r-cran-randomforest, r-cran-testthat Filename: pool/dists/focal/main/r-cran-strip_1.0.0-1.ca2004.1_all.deb Size: 29392 MD5sum: 09a364fe24e178e64bef3ea816221afa SHA1: 0bf03bc3f965a8a000f26f3d4843875b52b6a3f4 SHA256: c02104a353ffd1ce45b3ffc5dcfbd29d448e5a99d538e6081689c31e3cfb5ba8 SHA512: 69038f4b89f6d1b46e7188d11d5bc7842c9aa513cb86036dee8aa65660477d4d05c1fa46278615688ad9d0e0cbeb087ce9ae12e81e2edefbed8ef53f5562d9ab Homepage: https://cran.r-project.org/package=strip Description: CRAN Package 'strip' (Lighten your R Model Outputs) The strip function deletes components of R model outputs that are useless for specific purposes, such as predict[ing], print[ing], summary[izing], etc. Package: r-cran-stripless Architecture: all Version: 1.0-3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1352 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lattice Suggests: r-cran-knitr, r-cran-faraway, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-stripless_1.0-3-1.ca2004.1_all.deb Size: 617472 MD5sum: 74034e48282467a27c226677143bc9be SHA1: 13f5a79e450a6ff2c10c514af447f6aeb138d1f1 SHA256: ebf19d9c30f77d024d92a47106134437a55859f1607f0e7751813101e4349377 SHA512: 01c4f1e1703afb496078e5aa36fcdeb900500a61e208427a7b18b2d8b5a992cebeb2dc4cadd4bc3cf25ff4cfa2d97a5faa2818db025f0eb3ab4953f264655df4 Homepage: https://cran.r-project.org/package=stripless Description: CRAN Package 'stripless' (Structured Trellis Displays Without Strips for Lattice Graphics) For making Trellis-type conditioning plots without strip labels. This is useful for displaying the structure of results from factorial designs and other studies when many conditioning variables would clutter the display with layers of redundant strip labels. Settings of the variables are encoded by layout and spacing in the trellis array and decoded by a separate legend. The functionality is implemented by a single S3 generic strucplot() function that is a wrapper for the Lattice package's xyplot() function. This allows access to all Lattice graphics capabilities in the usual way. Package: r-cran-strmps Architecture: all Version: 0.6.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 924 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-bioc-biostrings, r-bioc-shortread, r-bioc-pwalign, r-bioc-iranges, r-cran-tidyr, r-cran-tibble, r-cran-dplyr, r-cran-stringr, r-cran-purrr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-strmps_0.6.8-1.ca2004.1_all.deb Size: 522432 MD5sum: 101141efe71fd4281412b611459ec692 SHA1: 7a1bf6b79da6b62e7fcf1c29721bbf570d7d4e8f SHA256: 3974182eaf1c10fbfcce4bd158c49cfc92f6deea335257808c50f0b5a5083dc2 SHA512: 02b24bc8953b8cc1e4298637a45bae49f84709116c465106540c2f0c6a27154ada00bb8fe5ad274f253cbfc2a36d07ad7a4bb4e27ab681c07a2438ad389ea4c5 Homepage: https://cran.r-project.org/package=STRMPS Description: CRAN Package 'STRMPS' (Analysis of Short Tandem Repeat (STR) Massively ParallelSequencing (MPS) Data) Loading, identifying, aggregating, manipulating, and analysing short tandem repeat regions of massively parallel sequencing data in forensic genetics. The analyses and framework implemented in this package relies on the papers of Vilsen et al. (2017) and Vilsen et al. (2018) . Note: that the parallelisation in the package relies on mclapply() and, thus, speed-ups will only be seen on UNIX based systems. Package: r-cran-stroke Architecture: all Version: 24.10.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 438 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-calendar, r-cran-dplyr, r-cran-ggplot2, r-cran-gtsummary, r-cran-lubridate, r-cran-mass, r-cran-rankinplot, r-cran-tidyr, r-cran-tibble, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-here, r-cran-spelling, r-cran-usethis, r-cran-pak, r-cran-roxygen2, r-cran-devtools Filename: pool/dists/focal/main/r-cran-stroke_24.10.1-1.ca2004.1_all.deb Size: 280428 MD5sum: 65ae98ce0c637f6e9cb2c2dc52bb5777 SHA1: e820a98649a84cb278eb31e99a94344bc76f64a5 SHA256: 06a70220c73cc07ecf840110e9d40874381263d49ce4c586775f9b052246892d SHA512: c0c183da96acb931b4a81c50952fbb39bc8ee35e7e4d5bf51a36e6b761fcb654c094542c5ef850ed7aef4a4dadff8b1f572b84b52d428e36b2d803b981b1c3d1 Homepage: https://cran.r-project.org/package=stRoke Description: CRAN Package 'stRoke' (Clinical Stroke Research) A collection of tools for clinical trial data management and analysis in research and teaching. The package is mainly collected for personal use, but any use beyond that is encouraged. This package has migrated functions from 'agdamsbo/daDoctoR', and new functions has been added. Version follows months and year. See NEWS/Changelog for release notes. This package includes sampled data from the TALOS trial (Kraglund et al (2018) ). The win_prob() function is based on work by Zou et al (2022) . The age_calc() function is based on work by Becker (2020) . Package: r-cran-stroupglmm Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 199 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-aod, r-cran-broom.mixed, r-cran-car, r-cran-dplyr, r-cran-emmeans, r-cran-ggplot2, r-cran-lattice, r-cran-lmertest, r-cran-magrittr, r-cran-mass, r-cran-mutoss, r-cran-nlme, r-cran-parameters, r-cran-phia, r-cran-scatterplot3d, r-cran-survey Filename: pool/dists/focal/main/r-cran-stroupglmm_0.3.0-1.ca2004.1_all.deb Size: 134112 MD5sum: ff0bc43511874170846acd85a4a3b233 SHA1: b038b15d29762d23c88adf37a64cd43d80a29935 SHA256: af6f1162862e5ba56e90c63fd1f3253eb0947fa384b96838c97fe784b95f00a2 SHA512: ed7350754b5695def0d0401497166d3404dda3edf287e4b893586d3620b9d193ef5bcbb07b6266fb940f1d79c4ac2a3ff4622f681c0bdf90323e948a2c1fbfe7 Homepage: https://cran.r-project.org/package=StroupGLMM Description: CRAN Package 'StroupGLMM' (R Codes and Datasets for Generalized Linear Mixed Models: ModernConcepts, Methods and Applications by Walter W. Stroup) R Codes and Datasets for Stroup, W. W. (2012). Generalized Linear Mixed Models Modern Concepts, Methods and Applications, CRC Press. Package: r-cran-strs Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-stringi Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-strs_0.1.0-1.ca2004.1_all.deb Size: 79212 MD5sum: 6f1546af5be522e5fa62bb77e5de4490 SHA1: cb24d838c3ca2e7be8870b3ffd82aebb2fe9099d SHA256: 5511fdecbbe55f1371a93a4417803b339f4a74518f6f616781e247f5e1996458 SHA512: b72ef12d2019e507c64190fe685e019c479588e85e3a10a8ad01788babbe0d7f7b71e92b6d40bc9ae4213038c1207466b6138e112b61f84131f844c610ee0ba5 Homepage: https://cran.r-project.org/package=strs Description: CRAN Package 'strs' ('Python' Style String Functions) A comprehensive set of string manipulation functions based on those found in 'Python' without relying on 'reticulate'. It provides functions that intend to (1) make it easier for users familiar with 'Python' to work with strings, (2) reduce the complexity often associated with string operations, (3) and enable users to write more readable and maintainable code that manipulates strings. Package: r-cran-structfdr Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 661 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nlme, r-cran-ape, r-cran-cluster, r-cran-dirmult, r-cran-matrixstats Suggests: r-cran-mass, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-reshape Filename: pool/dists/focal/main/r-cran-structfdr_1.4-1.ca2004.1_all.deb Size: 474316 MD5sum: 65bcc375c42edc9f8c10f0f0943ddef3 SHA1: 6e9c8dfcf839f8ead6c55c88f7cbb1975573104f SHA256: f3e5c6e073898e58651455189e205a02b3a0f808f6aff25a7ff47c6d840a25d9 SHA512: 24b5df2c8754828d676fe2e42ff09be0703afe96f67e8089b6638f7e334c642ce75aa07688b90528924c594397d8bdcb8dd53f2958d5530943b11e550cf42cfe Homepage: https://cran.r-project.org/package=StructFDR Description: CRAN Package 'StructFDR' (False Discovery Control Procedure Integrating the PriorStructure Information) Perform more powerful false discovery control (FDR) for microbiome data, taking into account the prior phylogenetic relationship among bacteria species. As a general methodology, it is applicable to any type of (genomic) data with prior structure information. Package: r-cran-structree Architecture: all Version: 1.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 384 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mgcv, r-cran-lme4, r-cran-penalized Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-structree_1.1.7-1.ca2004.1_all.deb Size: 329844 MD5sum: 3ecd976d7bb7039265fe38f5bda8f8e2 SHA1: 12a6d22cf51ed9a0ce94485d7ffa58ae9c914f03 SHA256: 8856e9bde363bef6ca069dc9300044ed979f0d7fb140d447f95045da7843535a SHA512: ce7fc2a3d973a712b190e9372937b2a2a4325b46c2fe43caacbb6685f236fb98f5f2b094e632d0fd2951bf34998c41693e75e27e853c053ffbcd8fe3136299b1 Homepage: https://cran.r-project.org/package=structree Description: CRAN Package 'structree' (Tree-Structured Clustering) Tree-structured modelling of categorical predictors (Tutz and Berger (2018), ) or measurement units (Berger and Tutz (2018), ). Package: r-cran-structuraldecompose Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 207 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-changepoint, r-cran-segmented, r-cran-strucchange Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-structuraldecompose_0.1.1-1.ca2004.1_all.deb Size: 110312 MD5sum: e50458c00579230b6f24fa17c0ed8830 SHA1: e36711304e292b7fa3725d217d36c089d04d9ac6 SHA256: 9f8a7ce83db565a780ed24fb2d204982033f34985eba5a035968f9e50502ab2f SHA512: 2760e65dad026c8367d7813d444e05be875e558b1e66637f6a6c8eca4ea8cbc4cac3ee27dcc301e19869dbd55c945d4c846909710eceea524c75ed5a39778fb9 Homepage: https://cran.r-project.org/package=StructuralDecompose Description: CRAN Package 'StructuralDecompose' (Decomposes a Level Shifted Time Series) Explains the behavior of a time series by decomposing it into its trend, seasonality and residuals. It is built to perform very well in the presence of significant level shifts. It is designed to play well with any breakpoint algorithm and any smoothing algorithm. Currently defaults to 'lowess' for smoothing and 'strucchange' for breakpoint identification. The package is useful in areas such as trend analysis, time series decomposition, breakpoint identification and anomaly detection. Package: r-cran-structuremc Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-matrixcalc Filename: pool/dists/focal/main/r-cran-structuremc_1.0-1.ca2004.1_all.deb Size: 16820 MD5sum: 8e7db7fe018f17e96e92e116b11e3a06 SHA1: dadec169feac92953c6bbe693081544cbdfd969f SHA256: 83781d7248b81446aff93f6fc132487d757904913504ca5dc820731c82779dc8 SHA512: dc897bc599b5c692c66db068781462cb6f38b3361ee78ef93091755510d5a21a40d3a86065d801a737593779cfc9255037ff164de73a4a6099a3d18d9c64c59c Homepage: https://cran.r-project.org/package=StructureMC Description: CRAN Package 'StructureMC' (Structured Matrix Completion) Provides an efficient method to recover the missing block of an approximately low-rank matrix. Current literature on matrix completion focuses primarily on independent sampling models under which the individual observed entries are sampled independently. Motivated by applications in genomic data integration, we propose a new framework of structured matrix completion (SMC) to treat structured missingness by design [Cai T, Cai TT, Zhang A (2016) ]. Specifically, our proposed method aims at efficient matrix recovery when a subset of the rows and columns of an approximately low-rank matrix are observed. The main function in our package, smc.FUN(), is for recovery of the missing block A22 of an approximately low-rank matrix A given the other blocks A11, A12, A21. Package: r-cran-strvalidator Architecture: all Version: 2.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3754 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-gwidgets2, r-cran-gwidgets2tcltk, r-cran-gridextra, r-cran-gtable, r-cran-plyr, r-cran-scales, r-cran-data.table, r-cran-dt, r-cran-dplyr, r-cran-plotly, r-cran-mass Suggests: r-cran-resourceselection, r-cran-testthat Filename: pool/dists/focal/main/r-cran-strvalidator_2.4.1-1.ca2004.1_all.deb Size: 2217252 MD5sum: 841ce63027f89e84aef0e6b31d491630 SHA1: 8b14c0bed7ce9c1248869b596423c4f6e6c6f733 SHA256: 13bd0031d69f682fc2c7b25c69eb9706bcb388981abdc39888c65094fc7e5d01 SHA512: 1d8e502fff01b2c1d81a4c7ccf8514bcc34a0e47fb3c391f031f26673e973cc76b930b912eea52c2f33158cd144fc81e7524eabf08021dc7f28dec20eec59519 Homepage: https://cran.r-project.org/package=strvalidator Description: CRAN Package 'strvalidator' (Process Control and Validation of Forensic STR Kits) An open source platform for validation and process control. Tools to analyze data from internal validation of forensic short tandem repeat (STR) kits are provided. The tools are developed to provide the necessary data to conform with guidelines for internal validation issued by the European Network of Forensic Science Institutes (ENFSI) DNA Working Group, and the Scientific Working Group on DNA Analysis Methods (SWGDAM). A front-end graphical user interface is provided. More information about each function can be found in the respective help documentation. Package: r-cran-stsd Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 270 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-stsd_0.2.0-1.ca2004.1_all.deb Size: 217684 MD5sum: ce7400da7b125b914a201ec086d15d2e SHA1: 3d04c7f593fd12b8c7a28f24eadd9a2f67d80a07 SHA256: 24bba54a78c41e6332258be555e0608b4e6fcbe4f8ae57e1c736597723c108b5 SHA512: 907818d84bfba5da8a089a7a1207d3b39d8372489e388ee84575f4e54daa31184efc690df587a6cefb5f1cd75c2201369765b586608d6ef5feaba02a8f9b612e Homepage: https://cran.r-project.org/package=sTSD Description: CRAN Package 'sTSD' (Simulate Time Series Diagnostics) These are tools that allow users to do time series diagnostics, primarily tests of unit root, by way of simulation. While there is nothing necessarily wrong with the received wisdom of critical values generated decades ago, simulation provides its own perks. Not only is simulation broadly informative as to what these various test statistics do and what are their plausible values, simulation provides more flexibility for assessing unit root by way of different thresholds or different hypothesized distributions. 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Variable selection is automatically built-in. Final signatures are returned with interaction plots for predictive signatures. Cross-validation performance evaluation and testing dataset results are also output. Detail algorithms are described in Huang et al (2017) . Package: r-cran-subgrplots Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3565 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-alluvial, r-cran-circlize, r-cran-colorspace, r-cran-diagram, r-cran-dplyr, r-cran-ggplot2, r-cran-ggrepel, r-cran-gridbase, r-cran-gridextra, r-cran-plyr, r-cran-polyclip, r-cran-scales, r-cran-shape, r-cran-sp, r-cran-survrm2, r-cran-survival, r-cran-upsetr, r-cran-venndiagram Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rgeos Filename: pool/dists/focal/main/r-cran-subgrplots_0.1.3-1.ca2004.1_all.deb Size: 3192568 MD5sum: a4459dd342a2c3835fdd0972298621e6 SHA1: 9c07190c704ac2ea1743593e04ff3a2586d3e57f SHA256: f48929314e0afcfa6d102f28a53f82f99bd8071d5dbb6e89e1bbead4170a876a SHA512: bdb4a7d2b3649ad7d3bdb277d9551507f04865f1ae1ed465c0b5a8c0114f1a10a7f5d3c14648184b4c936c94a7cff41fdd5ff1772dbd8ac79d7179584312cd86 Homepage: https://cran.r-project.org/package=SubgrPlots Description: CRAN Package 'SubgrPlots' (Graphical Displays for Subgroup Analysis in Clinical Trials) Provides functions for obtaining a variety of graphical displays that may be useful in the subgroup analysis setting. An example with a prostate cancer dataset is provided. The graphical techniques considered include level plots, mosaic plots, contour plots, bar charts, Venn diagrams, tree plots, forest plots, Galbraith plots, L'Abbé plots, the subpopulation treatment effect pattern plot, alluvial plots, circle plots and UpSet plots. Package: r-cran-subgxe Architecture: all Version: 0.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 271 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-lmtest, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-subgxe_0.9.0-1.ca2004.1_all.deb Size: 228964 MD5sum: c85d8fe7ea6bbe8c39ae1c6b4260c570 SHA1: 632293c606aee6fac01f40a920558fcff88bb833 SHA256: c5e68243ccdea887d0f62e2955f5e9b1ad8bf1b9ae205dc392c9d73ae78835a8 SHA512: 4e11134e8461818846b50ebe296642a99c801842ac106c31e517b2083d098976a7e67cebb2d1b226a64eed5f5716ca03b7c793c87bb43892c772318518c7e325 Homepage: https://cran.r-project.org/package=subgxe Description: CRAN Package 'subgxe' (Combine Multiple GWAS by Using Gene-Environment Interactions) Classical methods for combining summary data from genome-wide association studies (GWAS) only use marginal genetic effects and power can be compromised in the presence of heterogeneity. 'subgxe' is a R package that implements p-value assisted subset testing for association (pASTA), a method developed by Yu et al. (2019) . pASTA generalizes association analysis based on subsets by incorporating gene-environment interactions into the testing procedure. Package: r-cran-subincomer Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 581 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-countrycode, r-cran-curl, r-cran-dplyr, r-cran-rlang, r-cran-sf, r-cran-tidygeocoder, r-cran-zip Suggests: r-cran-extrafont, r-cran-fixest, r-cran-ggplot2, r-cran-ggtext, r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-subincomer_0.3.0-1.ca2004.1_all.deb Size: 499668 MD5sum: 6003de23ea9a43f9126cf2c650fff410 SHA1: f89b52ffdb230392d68135267e54975941d3bc06 SHA256: c1f60bbe59460379880a4ad1ead79eb2bf59c8133a8f5fecc440785496098b41 SHA512: 4a65f8990a03867d7ed0b1525d9e3055cdcdc9d1357fdbad206afb7fc24fa4ef3be275b482a6f8d001acdbaa103e7469516dcf8da5b1576cb80e6e426d2ae213 Homepage: https://cran.r-project.org/package=subincomeR Description: CRAN Package 'subincomeR' (Access to Global Sub-National Income Data) Provides access to granular sub-national income data from the MCC-PIK Database Of Sub-national Economic Output (DOSE). The package downloads and processes the data from its open repository on 'Zenodo' (). Functions are provided to fetch data at multiple geographic levels, match coordinates to administrative regions, and access associated geometries. Package: r-cran-submax Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mvtnorm, r-cran-sensitivityfull Filename: pool/dists/focal/main/r-cran-submax_1.1.5-1.ca2004.1_all.deb Size: 84264 MD5sum: 5b8fbb6009977bbd210e8291889c841b SHA1: cd6085822177cb3a5c2d4b188e999c4954b71bba SHA256: f0daedbb137041d00ed48ed0dac570577368abf23ee5a3398f996bea800813b9 SHA512: 51c7e3752f083b4f01f605143d26f0c63933b31ef63659cb1676749f830f7b7dbfc190473160180a28e275301ea18c82d3215b7e0ee05eaf7ff85370aac80729 Homepage: https://cran.r-project.org/package=submax Description: CRAN Package 'submax' (Effect Modification in Observational Studies Using the SubmaxMethod) Effect modification occurs if a treatment effect is larger or more stable in certain subgroups defined by observed covariates. The submax or subgroup-maximum method of Lee et al. (2018) does an overall test and separate tests in subgroups, correcting for multiple testing using the joint distribution. Package: r-cran-subniche Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 214 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ade4, r-cran-siber, r-cran-polyclip, r-cran-wordcloud Suggests: r-cran-adegraphics, r-cran-ape, r-cran-circstats, r-cran-deldir, r-cran-lattice, r-cran-maptools, r-cran-mass, r-cran-pixmap, r-cran-spdep, r-cran-splancs, r-cran-waveslim Filename: pool/dists/focal/main/r-cran-subniche_1.5-1.ca2004.1_all.deb Size: 180676 MD5sum: b0d813f22b8b0f11d3e2575aede17e8d SHA1: 81d34a340706ad72d1c2136aa4b310354b664042 SHA256: f38b72bfda4e2698ba66dbe6be4148c98fe7d1b078afe3a6b1f1cfac0dcccdd6 SHA512: 4922ae7443ccb944c1e7c233cfe43cf5a36a49c1ad3b463bbe349b18d5289203dedfdbd240e476bab59bf66b70dda8fbf2b421145decd70232275f41df7fa982 Homepage: https://cran.r-project.org/package=subniche Description: CRAN Package 'subniche' (Within Outlying Mean Indexes: Refining the OMI Analysis) Complementary indexes calculation to the Outlying Mean Index analysis to explore niche shift of a community and biological constraint within an Euclidean space, with graphical displays. For details see Karasiewicz et al. (2017) . Package: r-cran-subpathwaygmir Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4583 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-igraph Filename: pool/dists/focal/main/r-cran-subpathwaygmir_1.0-1.ca2004.1_all.deb Size: 4186928 MD5sum: f0e680304c526ac1aeb45cbeb69fece0 SHA1: ba7518f2c46ccaea6d8e6f259647d373fff851c9 SHA256: edd43449967852d1bd96d8dbeea03eb563e59c9f6af994a225c4759b29106bf1 SHA512: 1eb0cda9031d3ab539112986ec2f8317fb56af748f9cfe22c99de9b8618d39e65d42791fcfbb62793c494af13387bb53a4eaaaa1fa4e851daefa6a9efad4bbe1 Homepage: https://cran.r-project.org/package=SubpathwayGMir Description: CRAN Package 'SubpathwayGMir' (Identify Metabolic Subpathways Mediated by MicroRNAs) Routines for identifying metabolic subpathways mediated by microRNAs (miRNAs) through topologically locating miRNAs and genes within reconstructed Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathway graphs embedded by miRNAs. (1) This package can obtain the reconstructed KEGG metabolic pathway graphs with genes and miRNAs as nodes, through converting KEGG metabolic pathways to graphs with genes as nodes and compounds as edges, and then integrating miRNA-target interactions verified by low-throughput experiments from four databases (TarBase, miRecords, mirTarBase and miR2Disease) into converted pathway graphs. (2) This package can locate metabolic subpathways mediated by miRNAs by topologically analyzing the "lenient distance" of miRNAs and genes within reconstructed KEGG metabolic pathway graphs.(3) This package can identify significantly enriched miRNA-mediated metabolic subpathways based on located subpathways by hypergenomic test. (4) This package can support six species for metabolic subpathway identification, such as caenorhabditis elegans, drosophila melanogaster, danio rerio, homo sapiens, mus musculus and rattus norvegicus, and user only need to update interested organism-specific environment variables. Package: r-cran-subpathwaylnce Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3498 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-igraph, r-bioc-rbgl, r-cran-biasedurn, r-bioc-graph Suggests: r-cran-xml Filename: pool/dists/focal/main/r-cran-subpathwaylnce_1.0-1.ca2004.1_all.deb Size: 3383696 MD5sum: 7b9655630392b7901803d3b6903786ba SHA1: 11a01355753d470c46fbab7df7e1e8e8fa7e1e08 SHA256: 0c13ef632323c6b9de0c826b96aa1669b2c7fcc634df111c6f5d0ea4acfa3e61 SHA512: beb6d13e81b620afb423ebee585157df8ea4b7827313f9ffda423053a718765a5c9392eaea90f0d2fdf22501ba7471f02e0b03ed9f0691c089792c75e78d107c Homepage: https://cran.r-project.org/package=SubpathwayLNCE Description: CRAN Package 'SubpathwayLNCE' (Identify Signal Subpathways Competitively Regulated by LncRNAsBased on ceRNA Theory) Identify dysfunctional subpathways competitively regulated by lncRNAs through integrating lncRNA-mRNA expression profile and pathway topologies. Package: r-cran-subsamp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-subsamp_0.1.0-1.ca2004.1_all.deb Size: 20916 MD5sum: add94e4823c820c8927326a5a92af737 SHA1: a5d00e0f0e882cd6f2162f1741a80f61f0db808a SHA256: 7606c8ba3a1053eb58a4b85d83c446ca5ac6135fddbb705df67b37400cfb3464 SHA512: a44d524624628cbc423d3d15a7a402f64abb695b05ff8a654eedcf6ff20ad866d8ba0523325f7bbe30d2c84a0e3688ec55408318ee152ea736850c55277a04b4 Homepage: https://cran.r-project.org/package=subsamp Description: CRAN Package 'subsamp' (Subsample Winner Algorithm for Variable Selection in LinearRegression with a Large Number of Variables) This subsample winner algorithm (SWA) for regression with a large-p data (X, Y) selects the important variables (or features) among the p features X in explaining the response Y. The SWA first uses a base procedure, here a linear regression, on each of subsamples randomly drawn from the p variables, and then computes the scores of all features, i.e., the p variables, according to the performance of these features collected in each of the subsample analyses. It then obtains the 'semifinalist' of the features based on the resulting scores and determines the 'finalists', i.e., the important features, from the 'semifinalist'. Fan, Sun and Qiao (2017) . Package: r-cran-subscore Architecture: all Version: 3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ctt, r-cran-irtoys, r-cran-sirt, r-cran-ltm, r-cran-cocor, r-cran-boot Filename: pool/dists/focal/main/r-cran-subscore_3.3-1.ca2004.1_all.deb Size: 108396 MD5sum: ab2610c3e2c81aea6b90dcf52ff24b76 SHA1: 5ebbd6e5a5fded0ae83391b720d5a9ec6d27119f SHA256: 24cd4e66d8c3345756de8591ec2af9f658ac20e51be9673aa1c5d8c73b97c917 SHA512: d8c665ae3c2bf709cc68b6cb267a6fc1ceeb0ac6f2a0be89fd85c3284a178710877ee4732bc8bc5d000f10ee0bc188fe8b95bc8fb5891d2e471bad2dcd2f6d91 Homepage: https://cran.r-project.org/package=subscore Description: CRAN Package 'subscore' (Computing Subscores in Classical Test Theory and Item ResponseTheory) Functions for computing test subscores using different methods in both classical test theory (CTT) and item response theory (IRT). This package enables three types of subscoring methods within the framework of CTT and IRT, including (1) Wainer's augmentation method (Wainer et. al., 2001) , (2) Haberman's subscoring methods (Haberman, 2008) , and (3) Yen's objective performance index (OPI; Yen, 1987) . It also includes functions to compute Proportional Reduction of Mean Squared Errors (PRMSEs) in Haberman's methods which are used to examine whether test subscores are of added value. In addition, the package includes a function to assess the local independence assumption of IRT with Yen's Q3 statistic (Yen, 1984 ; Yen, 1993 ). Package: r-cran-subscreen Architecture: all Version: 4.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2429 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-plyr, r-cran-data.table, r-cran-ggplot2, r-cran-ggrepel, r-cran-rlang, r-cran-stringr, r-cran-shiny, r-cran-dt, r-cran-shinyjs, r-cran-bsplus, r-cran-colourpicker, r-cran-dplyr, r-cran-ranger, r-cran-shinywidgets Suggests: r-cran-survival, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-subscreen_4.0.1-1.ca2004.1_all.deb Size: 1964604 MD5sum: be02f983cc01dc59aaacdf9ab6bcf730 SHA1: 2a3661690852673c80dd4a224f4418c13ef44fb7 SHA256: 95f7094e249ff01d7d26a70beebc3d558f679f0f7e9625055c4d7aadbd32312e SHA512: 729df0e5e065c838b1dd2fd28403d27d8b99c2893a8122ad9cb424fe67a49589c0b9b6e54207034af6794877073aeaba0a2e9de843634dfb9634f5f8be3bce9c Homepage: https://cran.r-project.org/package=subscreen Description: CRAN Package 'subscreen' (Systematic Screening of Study Data for Subgroup Effects) Identifying outcome relevant subgroups has now become as simple as possible! The formerly lengthy and tedious search for the needle in a haystack will be replaced by a single, comprehensive and coherent presentation. The central result of a subgroup screening is a diagram in which each single dot stands for a subgroup. The diagram may show thousands of them. The position of the dot in the diagram is determined by the sample size of the subgroup and the statistical measure of the treatment effect in that subgroup. The sample size is shown on the horizontal axis while the treatment effect is displayed on the vertical axis. Furthermore, the diagram shows the line of no effect and the overall study results. For small subgroups, which are found on the left side of the plot, larger random deviations from the mean study effect are expected, while for larger subgroups only small deviations from the study mean can be expected to be chance findings. So for a study with no conspicuous subgroup effects, the dots in the figure are expected to form a kind of funnel. Any deviations from this funnel shape hint to conspicuous subgroups. Package: r-cran-subsemble Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-superlearner Suggests: r-cran-arm, r-cran-caret, r-cran-class, r-cran-cvauc, r-cran-e1071, r-cran-earth, r-cran-gam, r-cran-gbm, r-cran-glmnet, r-cran-hmisc, r-cran-ipred, r-cran-lattice, r-cran-logicreg, r-cran-mass, r-cran-mda, r-cran-mlbench, r-cran-nnet, r-cran-party, r-cran-polspline, r-cran-quadprog, r-cran-randomforest, r-cran-rpart, r-cran-sis, r-cran-spls, r-cran-stepplr Filename: pool/dists/focal/main/r-cran-subsemble_0.1.0-1.ca2004.1_all.deb Size: 51528 MD5sum: 5aead79ff580fe5de2da711ee0fcdcb0 SHA1: 6743ce85d71766c396b8a1d2e8be2193fecf5075 SHA256: 22887652cfe6a6d503df85beda0180e0ee007e061000bdbec8566480d2248acd SHA512: f522aef32e7e29a048bb77888c787dbd7c0f9f95b31f18bfe131cba80bbbcc4db0962fdb0bdd04be44fdddba9980a1af5076008a1b275e2f7b79afe37fc0434f Homepage: https://cran.r-project.org/package=subsemble Description: CRAN Package 'subsemble' (An Ensemble Method for Combining Subset-Specific Algorithm Fits) The Subsemble algorithm is a general subset ensemble prediction method, which can be used for small, moderate, or large datasets. Subsemble partitions the full dataset into subsets of observations, fits a specified underlying algorithm on each subset, and uses a unique form of k-fold cross-validation to output a prediction function that combines the subset-specific fits. An oracle result provides a theoretical performance guarantee for Subsemble. The paper, "Subsemble: An ensemble method for combining subset-specific algorithm fits" is authored by Stephanie Sapp, Mark J. van der Laan & John Canny (2014) . Package: r-cran-subspace Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4450 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggvis, r-cran-colorspace, r-cran-stringr, r-cran-rjava Filename: pool/dists/focal/main/r-cran-subspace_1.0.4-1.ca2004.1_all.deb Size: 4247716 MD5sum: 2e1334bdf1fb8507bf5f024fff7f4896 SHA1: 487b4676751bc571e6e2a3ee021b147c589d9e22 SHA256: 7d1e6efbb1ca6f7449226bc69b03eb173ce69252ed62f1844fe8fac87873d166 SHA512: 62082006a07c05495f570bcd3a7d52c3b1d47bc1af17e57b897801233a344c9384515d228554fba1327922872aa26cac38c94dbfc4a22ff6cb1d82715a75f619 Homepage: https://cran.r-project.org/package=subspace Description: CRAN Package 'subspace' (Interface to OpenSubspace) An interface to 'OpenSubspace', an open source framework for evaluation and exploration of subspace clustering algorithms in WEKA (see for more information). Also performs visualization. Package: r-cran-substackr Architecture: all Version: 0.1.15-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-httr2, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-substackr_0.1.15-1.ca2004.1_all.deb Size: 35436 MD5sum: 4bc2541cd923f85877f657e96e8c177d SHA1: ee7288574f355ced8e56fc96a46d3ee09cdc963b SHA256: 493af659a28a95482fe870689e23554e2bf7335f137a49141e7ef929b44b866e SHA512: 3abceb7ec8a78e27579f43acce8cca83091d5cadf6d8a1dc1fd33678eef6d518efcf4542944b75a274a5aa548f31bd2eaaeb48fbd25576921e50087ce68e1905 Homepage: https://cran.r-project.org/package=substackR Description: CRAN Package 'substackR' (Access Substack Data via API) An interface to access data from Substack publications via API. Users can fetch the latest, top, search for specific posts, or retrieve a single post by its slug. This functionality is useful for developers and researchers looking to analyze Substack content or integrate it into their applications. For more information, visit the API documentation at . Package: r-cran-subtee Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 652 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-mass, r-cran-ggplot2, r-cran-survival, r-cran-matrixstats Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-subtee_1.0.1-1.ca2004.1_all.deb Size: 413676 MD5sum: c8fb4a8e17285f91b4d3dd80401d9c9b SHA1: 3f4726068d79cc6c07202e7272e7bddc34ba717b SHA256: 14253ba687be6ecc35f1d531a92cec8822e269ed53cb6abf3c59e5ca1c1a72d0 SHA512: effc900559a041b9e75db3cc7d3a6fb5ebfd5dc558bebc253593b25796afdac8025602f4cb79a7ea257917a99a44e2bc813c813a69441af37521ad85cc84a9b0 Homepage: https://cran.r-project.org/package=subtee Description: CRAN Package 'subtee' (Subgroup Treatment Effect Estimation in Clinical Trials) Naive and adjusted treatment effect estimation for subgroups. Model averaging (Bornkamp et.al, 2016 ) and bagging (Rosenkranz, 2016 ) are proposed to address the problem of selection bias in treatment effect estimates for subgroups. The package can be used for all commonly encountered type of outcomes in clinical trials (continuous, binary, survival, count). Additional functions are provided to build the subgroup variables to be used and to plot the results using forest plots. For details, see Ballarini et.al. (2021) . Package: r-cran-subtype Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-penalized, r-cran-rocr Filename: pool/dists/focal/main/r-cran-subtype_1.0-1.ca2004.1_all.deb Size: 43720 MD5sum: bc320818cc0a8629e57a8cbe2d80e515 SHA1: e83d8672355f81cd7e1912dab55aacfe932fef24 SHA256: 29b0be0597c23d4ef98d25773e8efc84a9e8c70844a7c0eb8e73429371fd89d3 SHA512: 5c87f371641e3e7b8c359da776ab56d421d6c1be9c52c3a8ca1c1bb7d152cdbddd3d64d8f4189b7b96891cc3b4df161615af49bc5db9eb760099084e9da3a83b Homepage: https://cran.r-project.org/package=subtype Description: CRAN Package 'subtype' (Cluster analysis to find molecular subtypes and their assessment) subtype performs a biclustering procedure on a input dataset and assess whether resulting clusters are promising subtypes. Note that the R-package rsmooth should be installed before implementing subtype. rsmooth can be downloaded from http://www.meb.ki.se/~yudpaw. Package: r-cran-subtypedrug Architecture: all Version: 0.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4755 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-biocgenerics, r-bioc-gsva, r-cran-igraph, r-cran-pheatmap, r-cran-rvest, r-cran-xml2, r-bioc-chemminer Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-subtypedrug_0.1.9-1.ca2004.1_all.deb Size: 4210296 MD5sum: d6cd4e4e7e8873353775c23ead0745ea SHA1: 6240025b425e85d20b2d8363e9db9d21445be69e SHA256: 55ca7fa55928bf80a53cbccc8aa2dd4700121f896da4d5ef6d4922141b87bf96 SHA512: f4be43ebb3281d6e8b238e01cbe3e0ec8407689bd5c513bd7b11a5d48ef26a7181122f9e5c0e3e8ef13c6a9ea37c1e1af8e458fbe737bd645fe0976258c9dcc5 Homepage: https://cran.r-project.org/package=SubtypeDrug Description: CRAN Package 'SubtypeDrug' (Prioritization of Candidate Cancer Subtype Specific Drugs) A systematic biology tool was developed to prioritize cancer subtype-specific drugs by integrating genetic perturbation, drug action, biological pathway, and cancer subtype. The capabilities of this tool include inferring patient-specific subpathway activity profiles in the context of gene expression profiles with subtype labels, calculating differentially expressed subpathways based on cultured human cells treated with drugs in the 'cMap' (connectivity map) database, prioritizing cancer subtype specific drugs according to drug-disease reverse association score based on subpathway, and visualization of results (Castelo (2013) ; Han et al (2019) ; Lamb and Justin (2006) ). Please cite using . Package: r-cran-subvis Architecture: all Version: 2.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-bioc-biostrings Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-subvis_2.0.2-1.ca2004.1_all.deb Size: 47996 MD5sum: df1789bcdef5758a81a0deb18fc09859 SHA1: 474632e95f1a9f6077b21cd1fe8dcf298a3967cd SHA256: 59d578d2eb18658966392f22f26439fe427c8e06baf181fb4a6e00e0d9ba2c1f SHA512: b6ec5b872bc87ebf43c7cf64a32109e335b99167df03beb6149a5b9fa8d5b1b233e6420d0faf51493ec7ef137408db945f3025bbfc6b7a40cff94131c5aeddfc Homepage: https://cran.r-project.org/package=SubVis Description: CRAN Package 'SubVis' (Visual Exploration of Protein Alignments Resulting from MultipleSubstitution Matrices) Substitution matrices are important parameters in protein alignment algorithms. These matrices represent the likelihood that an amino acid will be substituted for another during mutation. This tool allows users to apply predefined and custom matrices and then explore the resulting alignments with interactive visualizations. 'SubVis' requires the availability of a web browser. 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Package: r-cran-sudachir Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-glue, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-reticulate, r-cran-tibble, r-cran-tidyselect Suggests: r-cran-rstudioapi, r-cran-testthat Filename: pool/dists/focal/main/r-cran-sudachir_0.1.0-1.ca2004.1_all.deb Size: 78904 MD5sum: 7257fbf42f5bb08ddf4474e227fed90a SHA1: 7307ea9ae8849d2b66c8af387be2a08044c61466 SHA256: de0f77eca67d2582af35c2a8a673b2e3ea4165eaaeefd10e7a52cd40f377e857 SHA512: 3a7d5a1163e368589019458bd1b2d38cc8cf9e20fa1a624accb5ada15e3a4d3a8723cda6af52564ae52a41620415a567ae8e186e56ad5143dce4e22c8b7286a9 Homepage: https://cran.r-project.org/package=sudachir Description: CRAN Package 'sudachir' (R Interface to 'Sudachi') Interface to 'Sudachi' , a Japanese morphological analyzer. This is a port of what is available in Python. 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Sudden losses, defined as the opposite of sudden gains can also be identified. Two different datasets can be created, one including all sudden gains/losses and one including one selected sudden gain/loss for each case. It can extract scores around sudden gains/losses. It can plot the average change around sudden gains/losses and trajectories of individual cases. Package: r-cran-sudoku Architecture: all Version: 2.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-tkrplot Filename: pool/dists/focal/main/r-cran-sudoku_2.8-1.ca2004.1_all.deb Size: 49576 MD5sum: 9f221ee173cfb55d4ba3525c0962e31b SHA1: 690a69d996386b4326c2a727429c561cb0d252d1 SHA256: 899242db300be2bc1a41d9a7c6b1562f5dc7591127d072c421fce83744078bd8 SHA512: 471b6c0565b0a673ac02f8053a51366818d27c83ad64be4e58875c73444901c23fd8daecd6d6f1a932e8ae744ef80cd9c7cd13df527a3e04c11d085346976dd6 Homepage: https://cran.r-project.org/package=sudoku Description: CRAN Package 'sudoku' (Sudoku Puzzle Generator and Solver) Generates, plays, and solves Sudoku puzzles. The GUI playSudoku() needs package "tkrplot" if you are not on Windows. 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The present package uses a slightly different algorithm, has a simpler coding and presents a few more sugar tools, such as plot and print methods. Solved sudoku games are of some interest in Experimental Design as examples of Latin Square designs with additional balance constraints. 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Some very important functions related to row-column designs as well as block designs along with basic functions are included in this package. Package: r-cran-sue Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-sue_1.0-1.ca2004.1_all.deb Size: 32012 MD5sum: 4d7aa1872fff70fad6511e283d589544 SHA1: c100e0897ed43b0bbaeb3b87fe8794f60173b191 SHA256: 15e7367eb38f0298cd52c07b780656b8dd2f8fc8722042fa6a8938e7dedde71d SHA512: ec6cb5c5b1c7c8401ce90ea1d256bad3a21ebebe695053ed1d0f213a6bc249026979cb9b11a41c7bb556058f06904a590799d2ea3f266a6325259c68d91295d9 Homepage: https://cran.r-project.org/package=SUE Description: CRAN Package 'SUE' (Subsampling method) This is a package for the subsampling method of robust estimation of linear regression models Package: r-cran-suessr Architecture: all Version: 0.1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 743 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-suessr_0.1.6-1.ca2004.1_all.deb Size: 720576 MD5sum: 7323f1b879b472a86b341d5b83f2d22e SHA1: d99357a402d0aca3a4766a85e5a46e805926772a SHA256: e194826cfb3ebb815a8f5d5e451ecced85d9caafa2ceb0ddb59c776aea40545b SHA512: fd25c921b6668fbb3cd4c4d19de8d373ebf1f8a9e2fbfc9a0d8c04d3ab00a9b2154b7de619a4ccd5c9a2488a9ea8989108d096b05b862f213be9736c89bad937 Homepage: https://cran.r-project.org/package=SuessR Description: CRAN Package 'SuessR' (Suess and Laws Corrections for Marine Stable Carbon Isotope Data) Generates region-specific Suess and Laws corrections for stable carbon isotope data from marine organisms collected between 1850 and 2023. 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Package: r-cran-sufficientforecasting Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 209 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-gam Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-sufficientforecasting_0.1.0-1.ca2004.1_all.deb Size: 161056 MD5sum: f360de07ff068e38bc969db6b20a414b SHA1: c2090a658346f8e1ab499210e69f04ccdd36ff19 SHA256: 0230271ec3b78d1ade7b2365191c7143acf9c81493031d0db9f25d047af21977 SHA512: f636908ca0536ced292fbdaa9f1d40c45157c2744e03e7d143302d60a5218a4d56ebc75a2b59ecaedf803d15aa5cd4ab2b5b4b197f9041e69ce3440146947087 Homepage: https://cran.r-project.org/package=sufficientForecasting Description: CRAN Package 'sufficientForecasting' (Sufficient Forecasting using Factor Models) The sufficient forecasting (SF) method is implemented by this package for a single time series forecasting using many predictors and a possibly nonlinear forecasting function. Assuming that the predictors are driven by some latent factors, the SF first conducts factor analysis and then performs sufficient dimension reduction on the estimated factors to derive predictive indices for forecasting. The package implements several dimension reduction approaches, including principal components (PC), sliced inverse regression (SIR), and directional regression (DR). Methods for dimension reduction are as described in: Fan, J., Xue, L. and Yao, J. (2017) , Luo, W., Xue, L., Yao, J. and Yu, X. (2022) and Yu, X., Yao, J. and Xue, L. (2022) . 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See the Journal of Statistical Software reference: Zhang, H. S., Cook, D., Laa, U., Langrené, N., & Menéndez, P. (2024) . The manuscript for this package is currently under preparation and can be found on GitHub at . 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This package provides a minimal way to declare when a suggested package is needed. 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Here, Suns-Voc curves can be constructed with outdoor time-series I-V curves [1,2,3] of full-size photovoltaic (PV) modules instead of having to be measured in the lab. Time series of four different power loss modes can be calculated based on obtained Isc-Voc curves. This material is based upon work supported by the U.S. Department of Energy's Office of Energy Efficiency and Renewable Energy (EERE) under Solar Energy Technologies Office (SETO) Agreement Number DE-EE0008172. Jennifer L. Braid is supported by the U.S. Department of Energy (DOE) Office of Energy Efficiency and Renewable Energy administered by the Oak Ridge Institute for Science and Education (ORISE) for the DOE. ORISE is managed by Oak Ridge Associated Universities (ORAU) under DOE contract number DE-SC0014664. [1] Wang, M. et al, 2018. . [2] Walters et al, 2018 . [3] Guo, S. et al, 2016. . 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An alternate specification is that features in each cluster have the same compound symmetric normal distribution, and the conditional distribution of the outcome given the features has the same coefficient for each feature in a cluster. Package: r-cran-superb Architecture: all Version: 0.95.19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3190 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-lsr, r-cran-plyr, r-cran-ggplot2, r-cran-stringr, r-cran-foreign, r-cran-shiny, r-cran-shinybs, r-cran-rrapply, r-cran-rdpack Suggests: r-cran-dplyr, r-cran-psych, r-cran-emojifont, r-cran-fmultivar, r-cran-gridextra, r-cran-knitr, r-cran-lattice, r-cran-lawstat, r-cran-boot, r-cran-png, r-cran-reshape2, r-cran-rmarkdown, r-cran-rcolorbrewer, r-cran-sadists, r-cran-scales, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-superb_0.95.19-1.ca2004.1_all.deb Size: 1603144 MD5sum: deb519915aa46ad904f436369a825ab0 SHA1: 691223fb19a90b56a698263d5ba58f54ae462c8e SHA256: 6ca985782a85caf2dfa453ca303dd7a269a85831e6668538accf73d1c37c5c88 SHA512: 1db4f0dc292bc4c57a54dccae3dd22b7ea34bf8d530f72dfb9fea2d66f7016434b2a1a0c169865c9d6c8bb039c6b045d77c8a001b31dbc86082aaf8998b10b66 Homepage: https://cran.r-project.org/package=superb Description: CRAN Package 'superb' (Summary Plots with Adjusted Error Bars) Computes standard error and confidence interval of various descriptive statistics under various designs and sampling schemes. The main function, superbPlot(), return a plot. superbData() returns a dataframe with the statistic and its precision interval so that other plotting package can be used. See Cousineau and colleagues (2021) or Cousineau (2017) for a review as well as Cousineau (2005) , Morey (2008) , Baguley (2012) , Cousineau & Laurencelle (2016) , Cousineau & O'Brien (2014) , Calderini & Harding for specific references. Package: r-cran-superbiclust Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 294 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biclust, r-bioc-fabia, r-cran-matrix Filename: pool/dists/focal/main/r-cran-superbiclust_1.2-1.ca2004.1_all.deb Size: 218048 MD5sum: 878a9e31e126eb1c508738e471b4f5eb SHA1: 94391405849f81eeb7de005578cce4b35211b60d SHA256: b43353a2d989cdc0ade20aacb5366fbcbc1bfe4f97d997ff5ca1fc689a5bc893 SHA512: be87752ac6cce634581e5c6e1d4d4b71ce77f0caf5b22685daa086bd159bf050f3b4c3376e4dcbdb7738d3325550e8ecb81935c7c2a0973cc038fe389c7af68d Homepage: https://cran.r-project.org/package=superbiclust Description: CRAN Package 'superbiclust' (Generating Robust Biclusters from a Bicluster Set (EnsembleBiclustering)) Biclusters are submatrices in the data matrix which satisfy certain conditions of homogeneity. Package contains functions for generating robust biclusters with respect to the initialization parameters for a given bicluster solution contained in a bicluster set in data, the procedure is also known as ensemble biclustering. The set of biclusters is evaluated based on the similarity of its elements (the overlap), and afterwards the hierarchical tree is constructed to obtain cut-off points for the classes of robust biclusters. The result is a number of robust (or super) biclusters with none or low overlap. Package: r-cran-supercell Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3750 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-igraph, r-cran-rann, r-cran-weightedcluster, r-cran-corpcor, r-cran-weights, r-cran-hmisc, r-cran-matrix, r-cran-matrixstats, r-cran-plyr, r-cran-irlba, r-cran-patchwork, r-cran-ggplot2, r-cran-umap, r-cran-entropy, r-cran-rtsne, r-cran-dbscan, r-cran-scales, r-cran-plotfunctions, r-cran-proxy, r-cran-rlang Suggests: r-bioc-singlecellexperiment, r-bioc-summarizedexperiment, r-cran-cowplot, r-bioc-scater, r-cran-seurat, r-cran-knitr, r-cran-rmarkdown, r-cran-remotes, r-bioc-bluster, r-cran-testthat Filename: pool/dists/focal/main/r-cran-supercell_1.0.1-1.ca2004.1_all.deb Size: 3460160 MD5sum: 2dc8b349cddd9bdcfcbdac600e85344c SHA1: 0309dd2536b4e68a6de0cd14320910ce75031a4e SHA256: f8b29290637f08c4d421402ea92d7099da1ecbe7ece8037783b1db9ad3c23611 SHA512: 04c8b0cf01a640e9b9bdf4745292a80a479f4b830cb24393f82468202835c0f088d0561c9bb179037022c528cfdb0aacd1e4173b39e00aaffd5275c3e75be3a5 Homepage: https://cran.r-project.org/package=SuperCell Description: CRAN Package 'SuperCell' (Simplification of scRNA-Seq Data by Merging Together SimilarCells) Aggregates large single-cell data into metacell dataset by merging together gene expression of very similar cells. 'SuperCell' uses 'velocyto.R' for RNA velocity. We also recommend installing 'scater' Bioconductor package . Package: r-cran-supercompress Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fnn Filename: pool/dists/focal/main/r-cran-supercompress_1.1-1.ca2004.1_all.deb Size: 21132 MD5sum: b387a88dd9e48fc83ddb3510bb203e0a SHA1: 9912a1813f9bd71a0c1425a40f4446bb9f748d98 SHA256: 2a3a7a30360f8d5819a4c0060f420e76c27e7e1bacd64515ad2c964406ae3e71 SHA512: 373312ddf9dbfbff9ef3f1a9bd300ad626041096d486719b190c0ec603bc398d654c6c3c01eaf12cebee9ac58bd896b09c1d12c98a8b24370f2e847656cbe050 Homepage: https://cran.r-project.org/package=supercompress Description: CRAN Package 'supercompress' (Supervised Compression of Big Data) A supervised compression method that incorporates the response for reducing big data to a carefully selected subset. Please see Joseph and Mak (2021) . This research is supported by a U.S. National Science Foundation (NSF) grant CMMI-1921646. Package: r-cran-superdiag Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2432 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-coda Filename: pool/dists/focal/main/r-cran-superdiag_2.0-1.ca2004.1_all.deb Size: 2333732 MD5sum: e888160b374f983fcdae08b582d9165d SHA1: b08d370bb39e36ed289c25e583c1059b12dc5a50 SHA256: 545c963f6dd634a988a2fdf265ff6cfb0067bd1b229cb3da3fe0cd9edf09b420 SHA512: 5fb7b93861c1d67f5cec29b2a536bd4fff3a5cb09a211a038683e4163526c4be3f79e8d37b867648c17b876930171f53d8d2cdb5335dee408440b2c3734e2088 Homepage: https://cran.r-project.org/package=superdiag Description: CRAN Package 'superdiag' (A Comprehensive Test Suite for Testing Markov ChainNonconvergence) The 'superdiag' package provides a comprehensive test suite for testing Markov Chain nonconvergence. It integrates five standard empirical MCMC convergence diagnostics (Gelman-Rubin, Geweke, Heidelberger-Welch, Raftery-Lewis, and Hellinger distance) and plotting functions for trace plots and density histograms. The functions of the package can be used to present all diagnostic statistics and graphs at once for conveniently checking MCMC nonconvergence. Package: r-cran-superheat Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-gtable, r-cran-magrittr, r-cran-plyr, r-cran-scales, r-cran-ggdendro Suggests: r-cran-knitr, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-superheat_0.1.0-1.ca2004.1_all.deb Size: 120104 MD5sum: 4061f673f096d6aa3e6fb3f8a41bbfa9 SHA1: 1eee9d0104ac9ac2e03f79b2e85f606435b561f4 SHA256: 65e6deafd41df97805a643074a0b4901607d92a523e2331b0f78f75ed5a0eb07 SHA512: ae94046a2ad3862a4e6d054d6eab66f673e6ea81da815991c46a871365e136b836c8ae6147bd8934d3538aac32ea08e47981422a5dcffbeb258408eca756d94d Homepage: https://cran.r-project.org/package=superheat Description: CRAN Package 'superheat' (A Graphical Tool for Exploring Complex Datasets Using Heatmaps) A system for generating extendable and customizable heatmaps for exploring complex datasets, including big data and data with multiple data types. Package: r-cran-superlearner Architecture: all Version: 2.0-29-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 831 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-nnls, r-cran-gam, r-cran-cvauc Suggests: r-cran-arm, r-cran-bartmachine, r-cran-biglasso, r-cran-bigmemory, r-cran-caret, r-cran-class, r-cran-devtools, r-cran-e1071, r-cran-earth, r-cran-gbm, r-bioc-genefilter, r-cran-ggplot2, r-cran-glmnet, r-cran-ipred, r-cran-kernelknn, r-cran-kernlab, r-cran-knitr, r-cran-lattice, r-cran-logicreg, r-cran-mass, r-cran-mlbench, r-cran-nloptr, r-cran-nnet, r-cran-party, r-cran-polspline, r-cran-prettydoc, r-cran-quadprog, r-cran-randomforest, r-cran-ranger, r-cran-rhpcblasctl, r-cran-rocr, r-cran-rmarkdown, r-cran-rpart, r-cran-sis, r-cran-speedglm, r-cran-spls, r-bioc-sva, r-cran-testthat, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-superlearner_2.0-29-1.ca2004.1_all.deb Size: 565264 MD5sum: 91510d3d748ef6063a66400b6372712a SHA1: 4fed5bd656e8515af5ce2932a3aa53b955164ea2 SHA256: b2f03eb66a250ec3c818ff864c905292fe30061649cdf9d2e0669c6964dd933a SHA512: d8fe02c1ad78b7c651b8bd3f7a713dc60ef8b053805e569472d6edbda8a5b58d689cb5dec19aa2d07539e41e461eb8bb6b58f7d27fd681e2c2790abd979c5b23 Homepage: https://cran.r-project.org/package=SuperLearner Description: CRAN Package 'SuperLearner' (Super Learner Prediction) Implements the super learner prediction method and contains a library of prediction algorithms to be used in the super learner. Package: r-cran-supermice Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mice, r-cran-superlearner Suggests: r-cran-arm, r-cran-bartmachine, r-cran-class, r-cran-e1071, r-cran-earth, r-cran-extratrees, r-cran-gbm, r-cran-glmnet, r-cran-ipred, r-cran-kernelknn, r-cran-kernlab, r-cran-logicreg, r-cran-mass, r-cran-nnet, r-cran-party, r-cran-polspline, r-cran-randomforest, r-cran-ranger, r-cran-rpart, r-cran-speedglm, r-cran-spls, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-supermice_1.1.1-1.ca2004.1_all.deb Size: 43436 MD5sum: 4897854e148942b69bbaf03e61236464 SHA1: 1e080aeb37cc187f9d3f8e58d960bb5a196faadd SHA256: 4f51da0f123335c945fdf3b408cdcf13c1a36da3cb2c9b4e5a21c04294424e34 SHA512: 0695b0ef04d5b09d683bdb018bd2cb9e139e52bb3639a7df4f37656e31a2c397fc28a269690a106ba357e25865b8fb829d58ece5ffe4828793c1fb54b6b6fb36 Homepage: https://cran.r-project.org/package=superMICE Description: CRAN Package 'superMICE' (SuperLearner Method for MICE) Adds a Super Learner ensemble model method (using the 'SuperLearner' package) to the 'mice' package. Laqueur, H. S., Shev, A. B., Kagawa, R. M. C. (2021) . Package: r-cran-supernova Architecture: all Version: 3.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 409 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-pillar, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-vctrs Suggests: r-cran-car, r-cran-covr, r-cran-dplyr, r-cran-ggplot2, r-cran-lintr, r-cran-lme4, r-cran-magrittr, r-cran-readr, r-cran-remotes, r-cran-testthat, r-cran-tidyr, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-supernova_3.0.0-1.ca2004.1_all.deb Size: 322704 MD5sum: 472494144ab39571a6d044c8fd76cec5 SHA1: b3053f4ca9d4569e8f79a77f86ef17b7aa7a12b3 SHA256: 00f6ef2046e0b26a1302a77e7dc436c124f5382cf88b8b3eed5bdd93a4027aa7 SHA512: 03fa64c6fed4ff6a4fc39b7332f3f0a075d35db3f468f168a23bcac1a0df6a7c7ba44f15811e978106f836d9411f16b408ac0e2fd789573d6645bed70b160a69 Homepage: https://cran.r-project.org/package=supernova Description: CRAN Package 'supernova' (Judd, McClelland, & Ryan Formatting for ANOVA Output) Produces ANOVA tables in the format used by Judd, McClelland, and Ryan (2017, ISBN: 978-1138819832) in their introductory textbook, Data Analysis. This includes proportional reduction in error and formatting to improve ease the transition between the book and R. Package: r-cran-superpc Architecture: all Version: 1.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 345 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-superpc_1.12-1.ca2004.1_all.deb Size: 291796 MD5sum: 89addf15d8357c872808701f3029371e SHA1: b9544e85ccea9a810b7117f9f07798ead815088e SHA256: 8dc04cb32038e320f7004678bb56c4c2b15efb5f2d873e93dfaaf49f02f30289 SHA512: 076c1f448d2cfad4f5cac2d2ce38b0e45330462bf41196439ca64e0bbe23f20c591e45b4d761dea9783b4305a43c2cc39ffc9fc086aaa809a5c31d571807b10b Homepage: https://cran.r-project.org/package=superpc Description: CRAN Package 'superpc' (Supervised Principal Components) Does prediction in the case of a censored survival outcome, or a regression outcome, using the "supervised principal component" approach. 'Superpc' is especially useful for high-dimensional data when the number of features p dominates the number of samples n (p >> n paradigm), as generated, for instance, by high-throughput technologies. Package: r-cran-superpca Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-rspectra, r-cran-psych, r-cran-fbasics, r-cran-r.matlab, r-cran-glmnet, r-cran-mass, r-cran-matrixstats, r-cran-timeseries, r-cran-matlabr, r-cran-spls, r-cran-pracma, r-cran-matlab Filename: pool/dists/focal/main/r-cran-superpca_0.4.0-1.ca2004.1_all.deb Size: 126816 MD5sum: c8f9e3fb2fe127f9ef4b5704678439cc SHA1: a65d778c4df21f0b0ab4d1d941f70f4b3891f930 SHA256: 07b8f3f36b4cac3e6e85ec24ee0198580b71397cd15bcebe731aa3fa0a07939e SHA512: 3bc54d2e0044be7820a307ed1fcd6a79d78fec9bd6197abcfc71721b8a73685ebc24c3fd207ad2ed827d93e481a6a1a4c63f800e33ff0e72bd0e2c0210596d80 Homepage: https://cran.r-project.org/package=SuperPCA Description: CRAN Package 'SuperPCA' (Supervised Principal Component Analysis) Dimension reduction of complex data with supervision from auxiliary information. The package contains a series of methods for different data types (e.g., multi-view or multi-way data) including the supervised singular value decomposition (SupSVD), supervised sparse and functional principal component (SupSFPC), supervised integrated factor analysis (SIFA) and supervised PARAFAC/CANDECOMP factorization (SupCP). When auxiliary data are available and potentially affect the intrinsic structure of the data of interest, the methods will accurately recover the underlying low-rank structure by taking into account the supervision from the auxiliary data. For more details, see the paper by Gen Li, . Package: r-cran-superpower Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2301 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-afex, r-cran-emmeans, r-cran-ggplot2, r-cran-reshape2, r-cran-dplyr, r-cran-magrittr, r-cran-tidyselect, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-pwr, r-cran-testthat, r-cran-covr, r-cran-jmvcore, r-cran-spelling Filename: pool/dists/focal/main/r-cran-superpower_0.2.4-1.ca2004.1_all.deb Size: 1432828 MD5sum: 2c0af96709e14ff0b7310d4ae05cc6e5 SHA1: af17edeb46413d0953496ff97183f1cd8f16cf45 SHA256: 7de9b1f01897af1300770e313400fe0965f5640d8205887e267dff95d54ebc24 SHA512: 5673be783466f8af4586270f23a6753def7b4dc400e57eec6286b23266e6ca392390b6cdb8967dfce76121a74203837c6e289beb7c20de99da468838143ee564 Homepage: https://cran.r-project.org/package=Superpower Description: CRAN Package 'Superpower' (Simulation-Based Power Analysis for Factorial Designs) Functions to perform simulations of ANOVA designs of up to three factors. Calculates the observed power and average observed effect size for all main effects and interactions in the ANOVA, and all simple comparisons between conditions. Includes functions for analytic power calculations and additional helper functions that compute effect sizes for ANOVA designs, observed error rates in the simulations, and functions to plot power curves. Please see Lakens, D., & Caldwell, A. R. (2021). "Simulation-Based Power Analysis for Factorial Analysis of Variance Designs". . Package: r-cran-superspreading Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1257 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-rlang Suggests: r-cran-dplyr, r-cran-epiparameter, r-cran-fitdistrplus, r-cran-ggplot2, r-cran-ggtext, r-cran-knitr, r-cran-purrr, r-cran-rmarkdown, r-cran-scales, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-superspreading_0.3.0-1.ca2004.1_all.deb Size: 641596 MD5sum: 69895d21db7e00eb0e0be382fc9eaed3 SHA1: df04202afee4fdf6a641f7dffc2b86a3b6770b9e SHA256: 56ae42ddf72c1b2a0245270e7ae3ce37506c55ed35b6c3f1921e5f0643a7406e SHA512: e412273e149546dcf18231e983f919a570a2d7e44821ea39247680dfd0b7023082c703267244b9980d28bef63cc642169534e2fb612dc78b8dfc2deace1e4310 Homepage: https://cran.r-project.org/package=superspreading Description: CRAN Package 'superspreading' (Understand Individual-Level Variation in Infectious DiseaseTransmission) Estimate and understand individual-level variation in transmission. Implements density and cumulative compound Poisson discrete distribution functions ('Kremer et al.' (2021) ), as well as functions to calculate infectious disease outbreak statistics given epidemiological parameters on individual-level transmission; including the probability of an outbreak becoming an epidemic/extinct ('Kucharski et al.' (2020) ), or the cluster size statistics, e.g. what proportion of cases cause X\% of transmission ('Lloyd-Smith et al.' (2005) ). Package: r-cran-supervisedprim Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-prim Suggests: r-cran-kernlab, r-cran-testthat Filename: pool/dists/focal/main/r-cran-supervisedprim_2.0.0-1.ca2004.1_all.deb Size: 18772 MD5sum: 75f9d13ea8685393eb963080bfd37fb1 SHA1: 6b6223be39c8433040c3a8e92e6a27607f2fb395 SHA256: d6a9b6f34eb31a43b6f21cb859814646b60310264eaa805afa5c813391d78ab7 SHA512: bafe4dfcaac01e69f958b0bc7382630b7921e25a0e996ecac8884fbf3bf3b7db1ef65d6f6fec1c1bc3bcd1cfe226847ccf5407a439b3be2b7b5d4e378c1af01a Homepage: https://cran.r-project.org/package=supervisedPRIM Description: CRAN Package 'supervisedPRIM' (Supervised Classification Learning and Prediction using PatientRule Induction Method (PRIM)) The Patient Rule Induction Method (PRIM) is typically used for "bump hunting" data mining to identify regions with abnormally high concentrations of data with large or small values. This package extends this methodology so that it can be applied to binary classification problems and used for prediction. Package: r-cran-supmz Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-supmz_0.2.0-1.ca2004.1_all.deb Size: 23976 MD5sum: fd8e81aa9a906d47508efec77855e525 SHA1: 1aa2528b1e0fdfb8d8473dd3404772688a0bec06 SHA256: 2c62e3ee4258a5c7a3c7e5c1de6267746259422c1cf8a9b740f53e72e9329cde SHA512: 4aa218a816f6ccfbe767cd364af1473e9ac715cba7211e85f2ff2b943d3ed43d05030de9a0107519d8140e0d6337584841dc3ba319e6889d352732ea8bf489d1 Homepage: https://cran.r-project.org/package=SupMZ Description: CRAN Package 'SupMZ' (Detecting Structural Change with Heteroskedasticity) Calculates the sup MZ value to detect the unknown structural break points under Heteroskedasticity as given in Ahmed et al. (2017) (). 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Facilitates open, reproducible research workflows: scientists re-analyzing published datasets can work with them as easily as if they were stored on their own computer, and others can track their analysis workflow painlessly. The main function suppdata() returns a (temporary) location on the user's computer where the file is stored, making it simple to use suppdata() with standard functions like read.csv(). Package: r-cran-support.bws2 Architecture: all Version: 0.4-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-doe.base, r-cran-survival Filename: pool/dists/focal/main/r-cran-support.bws2_0.4-0-1.ca2004.1_all.deb Size: 106812 MD5sum: 27ec75e5f9b44522fea9ab5fcfe8cf83 SHA1: fda21a48449bfddd86521798a1f15d5b0e7473f7 SHA256: 5e2e6c9a3dd928e3101e3b788b6dcddf81fa9f9fafafdb3d151ce9ba947303f5 SHA512: 9b3029e3364dc9cab74eec37aab10dbcdfc317414fd9dfe897da8689e4e14f4e38f7a569efd0159c25a48d5a643fef96af050595b222b0ec4a048b4c012fc06e Homepage: https://cran.r-project.org/package=support.BWS2 Description: CRAN Package 'support.BWS2' (Tools for Case 2 Best-Worst Scaling) Provides three basic functions that support an implementation of Case 2 (profile case) best-worst scaling. The first is to convert an orthogonal main-effect design into questions, the second is to create a dataset suitable for analysis, and the third is to calculate count-based scores. For details, see Aizaki and Fogarty (2019) . 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Case 3 BWS is a question-based survey method to elicit people's preferences for attribute levels. Case 3 BWS constructs various combinations of attribute levels (profiles) and then asks respondents to select the best and worst profiles in each choice set. A main function creates a dataset for the analysis from the choice sets and the responses to the questions. For details on Case 3 BWS, refer to Louviere et al. (2015) . Package: r-cran-support.bws Architecture: all Version: 0.4-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 160 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-doe.base, r-cran-crossdes, r-cran-survival, r-cran-mlogit, r-cran-gmnl, r-cran-apollo Filename: pool/dists/focal/main/r-cran-support.bws_0.4-6-1.ca2004.1_all.deb Size: 124652 MD5sum: 17538d6333850cb861df8f5b8d506714 SHA1: a4f8eddadbb99cf4de2a30e7355e0ccbcb06788e SHA256: 8569a2db621faf58db8bb0b0d49b32646da4b2ac9018505a0869a6fa14180fac SHA512: d8a741eba9188e3c90aadce8e581ed5d3a2c7856e3b9542b0942ae69c756544b487dc7cf912c08b418ac98c388e58474c8721156ef9339793bb41a36065d153d Homepage: https://cran.r-project.org/package=support.BWS Description: CRAN Package 'support.BWS' (Tools for Case 1 Best-Worst Scaling) Provides basic functions that support an implementation of object case (Case 1) best-worst scaling: a function for converting a two-level orthogonal main-effect design/balanced incomplete block design into questions; two functions for creating a data set suitable for analysis; a function for calculating count-based scores; a function for calculating shares of preference; and a function for generating artificial responses to questions. See Louviere et al. (2015) for details on best-worst scaling, and Aizaki and Fogarty (2023) for the package. Package: r-cran-support.ces Architecture: all Version: 0.7-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-doe.base, r-cran-mass, r-cran-simex Suggests: r-cran-survival, r-cran-mded Filename: pool/dists/focal/main/r-cran-support.ces_0.7-0-1.ca2004.1_all.deb Size: 127700 MD5sum: 2bcd216bc60d0f56576589b070f0c91f SHA1: 0baf1b969efbccefe3da3658eba769f6e70704f6 SHA256: 586f94557612e32e2f4eb3021c3caa328e9dfa3ae9546e79593b51f1619ce8e2 SHA512: 3f6c7b10b3d7f5422176d5b7dfad07fb8250803d6c5fc4640c86ec484eb8c19e1ca06e2d0798373d0c7a41edddf13e48a5a83790f32cb96a1135c4c893f2511b Homepage: https://cran.r-project.org/package=support.CEs Description: CRAN Package 'support.CEs' (Basic Functions for Supporting an Implementation of ChoiceExperiments) Provides basic functions that support an implementation of (discrete) choice experiments (CEs). CEs is a question-based survey method measuring people's preferences for goods/services and their characteristics. Refer to Louviere et al. (2000) for details on CEs, and Aizaki (2012) for the package. Package: r-cran-supportint Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-profilelikelihood Filename: pool/dists/focal/main/r-cran-supportint_1.1-1.ca2004.1_all.deb Size: 44716 MD5sum: b8f27dd4a22ab398aefabb4be816b18b SHA1: 0067b0043d7b655d825f58de821482f92f950a72 SHA256: 8fe78c94a1e66fa005c6f1e5dc81a1ffab4bbc2dad4baafc59513b6b9b8d2790 SHA512: 224c599734b29ee0b36983b261d2916ed47f57e650a26576821db34b8e164e70467d8c640fc5adcd2e1de1dc7b7b76614f102fca7dc11ef49ac69615da233074 Homepage: https://cran.r-project.org/package=supportInt Description: CRAN Package 'supportInt' (Calculates Likelihood Support Intervals for Common Data Types) Calculates likelihood based support intervals for several common data types including binomial, Poisson, normal, lm(), and glm(). For the binomial, Poisson, and normal data likelihood intervals are calculated via root finding algorithm. Additional parameters allow the user to specify whether they would like to receive a parametric bootstrap estimate of the confidence level of said support interval. For lm() and glm(), the function returns profile likelihoods for each coefficient in the model. 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The only theme for these functions is that they tend towards simple, short, and narrowly-scoped. These functions are built for tasks that often recur but are not large enough in scope to warrant an ecosystem of interdependent functions. Package: r-cran-supreme Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 585 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-yaml, r-cran-nomnoml, r-cran-shiny Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-digest Filename: pool/dists/focal/main/r-cran-supreme_1.1.0-1.ca2004.1_all.deb Size: 501960 MD5sum: 4b5fcf6445fa3274411b91e844d1442f SHA1: 48d32c1dd38c1aec17b0f3a4dcf905eaa5bd624b SHA256: 4494611a43b0bfe8c82675214ee54294adbf1acaf873613b25706194387f57c4 SHA512: 260fa47a8e46c736d020a9dc02b7a661f0073905c3e3cac421593474283c8c4fcae481d7dd9bff692521cf3affe100ab1231f072cb159ddf6c078a4300050e62 Homepage: https://cran.r-project.org/package=supreme Description: CRAN Package 'supreme' (Modeling Tool for 'Shiny' Applications Developed with Modules) A modeling tool helping users better structure 'Shiny' applications developed with 'Shiny' modules. Users are able to: 1. Visualize relationship of modules in existing applications 2. Design new applications from scratch. Package: r-cran-sur Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 597 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-learnr Filename: pool/dists/focal/main/r-cran-sur_1.0.4-1.ca2004.1_all.deb Size: 184148 MD5sum: f73422b38d3ab4359ed7bfb3a9915e32 SHA1: f6245ff3aa3d73a1dcc4aecd95e837e941ab4ea0 SHA256: 493265735aed11e93d1f840875f8c7946fb2d3ed5355081dd3a898792247e14a SHA512: 43a1a2e49525b5bec472c3337bf9de63c96e4119f0c9639b063ad6669900a9c5f8c43c942d154f253bbfc6c155e34aa414c9cf5fdb67b9621ad7193fec6d18f1 Homepage: https://cran.r-project.org/package=sur Description: CRAN Package 'sur' (Companion to "Statistics Using R: An Integrative Approach") Access to the datasets and many of the functions used in "Statistics Using R: An Integrative Approach". These datasets include a subset of the National Education Longitudinal Study, the Framingham Heart Study, as well as several simulated datasets used in the examples throughout the textbook. The functions included in the package reproduce some of the functionality of 'Stata' that is not directly available in 'R'. The package also contains a tutorial on basic data frame management, including how to handle missing data. Package: r-cran-sure Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 186 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-goftest, r-cran-gridextra Suggests: r-cran-mass, r-cran-ordinal, r-cran-rms, r-cran-testthat, r-cran-vgam Filename: pool/dists/focal/main/r-cran-sure_0.2.0-1.ca2004.1_all.deb Size: 138960 MD5sum: 73c64a9d77bdeabf2b81228fc4761c66 SHA1: e01baf97e69e3f57eec5a0386bdefb8ba014943a SHA256: ed7a1509704f0f8a31ab5b66f988dd7ae292746d6e977196cdd38c0e1bde9415 SHA512: 777b7cabf01fb2760b88245fb41038ade27590de8015a5d2f7b132053f8144ff6e83853316c845274605e78d373c50c56dae2032a50e9cb3d9f9f1e115bd1299 Homepage: https://cran.r-project.org/package=sure Description: CRAN Package 'sure' (Surrogate Residuals for Ordinal and General Regression Models) An implementation of the surrogate approach to residuals and diagnostics for ordinal and general regression models; for details, see Liu and Zhang (2017) . These residuals can be used to construct standard residual plots for model diagnostics (e.g., residual-vs-fitted value plots, residual-vs-covariate plots, Q-Q plots, etc.). The package also provides an 'autoplot' function for producing standard diagnostic plots using 'ggplot2' graphics. The package currently supports cumulative link models from packages 'MASS', 'ordinal', 'rms', and 'VGAM'. Support for binary regression models using the standard 'glm' function is also available. Package: r-cran-surf.vs Architecture: all Version: 1.1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 144 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-survival, r-cran-dplyr Suggests: r-cran-foreach, r-cran-doparallel, r-cran-knitr Filename: pool/dists/focal/main/r-cran-surf.vs_1.1.0.1-1.ca2004.1_all.deb Size: 94856 MD5sum: 7417ab214f441e18d544e64c8c52bcc4 SHA1: 8580c9f3ad57ce3632260ac7ef2e08dd5f86c70f SHA256: 9edf2cb9e65f374f99311513f0f64046c2e5a9b373f50102e967f40550686353 SHA512: facfd28906f794eb49ee3f4b43b3528c5fc5129d99ecdaf3282138288fbfe98b0848dcb9a1c17e84102379876281a8301ac2a40f815ee963573748f80468e0a8 Homepage: https://cran.r-project.org/package=SuRF.vs Description: CRAN Package 'SuRF.vs' (Subsampling Ranking Forward Selection (SuRF)) Performs variable selection based on subsampling, ranking forward selection. Details of the method are published in Lihui Liu, Hong Gu, Johan Van Limbergen, Toby Kenney (2020) SuRF: A new method for sparse variable selection, with application in microbiome data analysis Statistics in Medicine 40 897-919 . Xo is the matrix of predictor variables. y is the response variable. Currently only binary responses using logistic regression are supported. X is a matrix of additional predictors which should be scaled to have sum 1 prior to analysis. fold is the number of folds for cross-validation. Alpha is the parameter for the elastic net method used in the subsampling procedure: the default value of 1 corresponds to LASSO. prop is the proportion of variables to remove in the each subsample. weights indicates whether observations should be weighted by class size. When the class sizes are unbalanced, weighting observations can improve results. B is the number of subsamples to use for ranking the variables. C is the number of permutations to use for estimating the critical value of the null distribution. If the 'doParallel' package is installed, the function can be run in parallel by setting ncores to the number of threads to use. If the default value of 1 is used, or if the 'doParallel' package is not installed, the function does not run in parallel. display.progress indicates whether the function should display messages indicating its progress. family is a family variable for the glm() fitting. Note that the 'glmnet' package does not permit the use of nonstandard link functions, so will always use the default link function. However, the glm() fitting will use the specified link. The default is binomial with logistic regression, because this is a common use case. pval is the p-value for inclusion of a variable in the model. Under the null case, the number of false positives will be geometrically distributed with this as probability of success, so if this parameter is set to p, the expected number of false positives should be p/(1-p). Package: r-cran-surf Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 225 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-numderiv, r-cran-survey, r-cran-mass, r-cran-abind Suggests: r-cran-testthat, r-cran-sampling, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-surf_1.0.0-1.ca2004.1_all.deb Size: 193912 MD5sum: 67a5f1f2804723315d7e07d7e558d5f6 SHA1: d56eac15735a6fc314c649c1d19ad606f1775882 SHA256: a3054d25dcb62cff519c0233cd380598c4a852d04d0c35aa4b56b6dd2409095b SHA512: b2bcc61029185f400446245cefcae71e5324665a0fbd45780426572b502c4f9067b7a266817dfad59e3c977b78dbafa0b7221db306a6f5c95fd452dc36a673bf Homepage: https://cran.r-project.org/package=surf Description: CRAN Package 'surf' (Survey-Based Gross Flows Estimation) Estimation of gross flows under non-response and complex sampling designs, using Gutiérrez, Nascimento Silva and Trujillo (2014) complex sampling extension of the non-response model developed by Stasny (1987) . It estimates the gross flows process under non-response by modelling the observable cross-tabulation counts as a two-stage Markov Chain process, combining (1) the unobservable Markov Chain describing the transition of states; and (2) the non-response process, given by the initial response probabilities and the response/non-response transition probabilities. Package: r-cran-surface Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 400 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-ouch, r-cran-mass, r-cran-geiger, r-cran-phytools Suggests: r-cran-igraph Filename: pool/dists/focal/main/r-cran-surface_0.6-1.ca2004.1_all.deb Size: 342736 MD5sum: a4cc0942dc49e8bd9da581388cb6bf30 SHA1: d4eff0365c23afb1a3f80ebd846af7c0406fe48f SHA256: dd5ca7d7bfda0f68eaa2c6aa63eb5665640df119c39c72107e77dcfbf0f7e794 SHA512: 3dc0f211bd247478dd275ba92f84233d5c48a471d30495535ce431a734f1752b30695affed70aadcfe448c019f3149b901513d3a5e8b559472ed5325ab6893e6 Homepage: https://cran.r-project.org/package=surface Description: CRAN Package 'surface' (Fitting Hansen Models to Investigate Convergent Evolution) This data-driven phylogenetic comparative method fits stabilizing selection models to continuous trait data, building on the 'ouch' methodology of Butler and King (2004) . The main functions fit a series of Hansen models using stepwise AIC, then identify cases of convergent evolution where multiple lineages have shifted to the same adaptive peak. For more information see Ingram and Mahler (2013) . Package: r-cran-surfacetortoise Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-terra, r-cran-gstat, r-cran-sf Suggests: r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-surfacetortoise_2.0.1-1.ca2004.1_all.deb Size: 40808 MD5sum: 38ad881ca7c1ce118e18ad97a8c85bdb SHA1: 71888ba687e041daa22c74fdc9d643bec42f179e SHA256: 63dfbc54a4624e3caa6ca690595d8c29d05974fa9ddc6a0818c4ea0873b5a35e SHA512: 91dd372b809ce6f8f41ec387ad73d4f18d5d8f2878039391755a359eb15fa34b5284fdc2e7abab595aaec67e6fa5a8b0e534e16894e35f3bff2d11ef1a3be1a0 Homepage: https://cran.r-project.org/package=SurfaceTortoise Description: CRAN Package 'SurfaceTortoise' (Find Optimal Sampling Locations Based on Spatial Covariate(s)) Create sampling designs using the surface reconstruction algorithm. Original method by: Olsson, D. 2002. A method to optimize soil sampling from ancillary data. Poster presenterad at: NJF seminar no. 336, Implementation of Precision Farming in Practical Agriculture, 10-12 June 2002, Skara, Sweden. Package: r-cran-surfrough Architecture: all Version: 0.0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4464 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-terra Suggests: r-cran-tinytest Filename: pool/dists/focal/main/r-cran-surfrough_0.0.1.0-1.ca2004.1_all.deb Size: 4053220 MD5sum: 0459a67e1c2ee7bfd6e8709bbbb3096d SHA1: 6f266872cc5eb56193607bcb2b12b1d75c6a2d2a SHA256: 16d3dd150549461bd81c57bbdb084360d682398a6b3acb8e90361ad7eadee6f1 SHA512: f587522e308b527a0f171489dbf9c232ee778dca52d83a7b8bcfd90c79a34941c8d46418e2e972ab639d2098c4f20b8db4d21feedfeaf4fba9066b3d16b98e8a Homepage: https://cran.r-project.org/package=SurfRough Description: CRAN Package 'SurfRough' (Calculate Surface/Image Texture Indexes) Methods for the computation of surface/image texture indices using a geostatistical based approach (Trevisani et al. (2023) ). It provides various functions for the computation of surface texture indices (e.g., omnidirectional roughness and roughness anisotropy), including the ones based on the robust MAD estimator. The kernels included in the software permit also to calculate the surface/image texture indices directly from the input surface (i.e., without de-trending) using increments of order 2. It also provides the new radial roughness index (RRI), representing the improvement of the popular topographic roughness index (TRI). The framework can be easily extended with ad-hoc surface/image texture indices. Package: r-cran-surreal Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1073 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-png Filename: pool/dists/focal/main/r-cran-surreal_0.0.1-1.ca2004.1_all.deb Size: 1025872 MD5sum: e9195494e89e0b8e33eee71c97126962 SHA1: 1aa64d18bd89a80a1df34df83631d73ee981968f SHA256: 33b0ba4f2206be9452f5868aa2255908cb74039d7801ffdd1aa4d23988ec95b8 SHA512: 8bc3230de8dbefa992140c42392d83b732b7b1bf466d54cbe73e442daa3816b8490e73591e308267bd13691f7a7e920ef748dc4d27cf48157a46de0e3872a910 Homepage: https://cran.r-project.org/package=surreal Description: CRAN Package 'surreal' (Create Datasets with Hidden Images in Residual Plots) Implements the "Residual (Sur)Realism" algorithm described by Stefanski (2007) to generate datasets that reveal hidden images or messages in their residual plots. It offers both predefined datasets and tools to embed custom text or images into residual structures. Allowing users to create intriguing visual demonstrations for teaching model diagnostics. Package: r-cran-surrogate Architecture: all Version: 3.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2358 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-lattice, r-cran-latticeextra, r-cran-survival, r-cran-nlme, r-cran-lme4, r-cran-logistf, r-cran-rms, r-cran-ks, r-cran-extradistr, r-cran-pbapply, r-cran-flexsurv, r-cran-rvinecopulib, r-cran-maxlik, r-cran-purrr, r-cran-mbess, r-cran-tidyr, r-cran-dplyr, r-cran-tibble, r-cran-lifecycle Suggests: r-cran-copula, r-cran-fnn, r-cran-mgcv, r-cran-testthat, r-cran-vdiffr, r-cran-fitdistrplus, r-cran-kdecopula, r-cran-cubature, r-cran-mvtnorm, r-cran-withr, r-cran-stringr, r-cran-ggplot2, r-cran-sn, r-cran-pracma Filename: pool/dists/focal/main/r-cran-surrogate_3.4.1-1.ca2004.1_all.deb Size: 2190472 MD5sum: 78cfe70766789eea78bf70b5e7a1f8de SHA1: a2bb56aa488e9515906704f399bfeb376b881204 SHA256: 2814e0ab0314b905437f8676d83bb43c21133afb4bac1320cdbbba3e656a5b6d SHA512: e32da1a91934fb9f1d968eae657731910bb85bf416f2605f0d0a3a992447515116a6caf410d3d4ee3017ded9c32a313822216ba5f0af674829ca526971560ac1 Homepage: https://cran.r-project.org/package=Surrogate Description: CRAN Package 'Surrogate' (Evaluation of Surrogate Endpoints in Clinical Trials) In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a (bio)marker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's Seventh Framework Programme for research, technological development and demonstration (Grant Agreement no 602552), the Special Research Fund (BOF) of Hasselt University (BOF-number: BOF2OCPO3), GlaxoSmithKline Biologicals, Baekeland Mandaat (HBC.2022.0145), and Johnson & Johnson Innovative Medicine. Package: r-cran-surrogateoutcome Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 166 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-surrogateoutcome_1.1-1.ca2004.1_all.deb Size: 135896 MD5sum: e5ca0ed5a7196abef68814b719b01018 SHA1: 6b475d182d1912989b23112221d4248623c6ea38 SHA256: e31eeb36b7f0e08c9c077de78c8c19eda19c869bf81d4c9ed69b210de7f48b2a SHA512: 5351bd51afcf0e5564c88a8f9ff7df31d1f20cc5a84b576aef4d4a78b402d8f9cb8ae7ae51f268c1f722d6aae4ffe65fb6fa9d0eed019e6ab63d4577ed3b1f8a Homepage: https://cran.r-project.org/package=SurrogateOutcome Description: CRAN Package 'SurrogateOutcome' (Estimation of the Proportion of Treatment Effect Explained bySurrogate Outcome Information) Provides functions to estimate the proportion of treatment effect on a censored primary outcome that is explained by the treatment effect on a censored surrogate outcome/event. All methods are described in detail in Parast, Tian, Cai (2020) "Assessing the Value of a Censored Surrogate Outcome" . The main functions are (1) R.q.event() which calculates the proportion of the treatment effect (the difference in restricted mean survival time at time t) explained by surrogate outcome information observed up to a selected landmark time, (2) R.t.estimate() which calculates the proportion of the treatment effect explained by primary outcome information only observed up to a selected landmark time, and (3) IV.event() which calculates the incremental value of the surrogate outcome information. Package: r-cran-surrogateparadoxtest Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 77 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-monotonicitytest Filename: pool/dists/focal/main/r-cran-surrogateparadoxtest_2.0-1.ca2004.1_all.deb Size: 50624 MD5sum: 7d28c53f8a40de132fe4aa6c227c1de6 SHA1: 53f6610386bd10a3d4f68f69a3b036c1e1839d6c SHA256: 49527f86a24800fc32f9be3d353d57b637104c0b76aa41b9bcf61ff3f35d76f3 SHA512: e84bf7f7674fab4119b32b8415ba34a2c91cd9e197a7d68d434743cf13d7cbd6da34b28caa2f4b884e5bba13115a3449014c2b526f8cc438fe8a863ab8d66ef6 Homepage: https://cran.r-project.org/package=SurrogateParadoxTest Description: CRAN Package 'SurrogateParadoxTest' (Empirical Testing of Surrogate Paradox Assumptions) Provides functions to nonparametrically assess assumptions necessary to prevent the surrogate paradox through hypothesis tests of stochastic dominance, monotonicity of regression functions, and non-negative residual treatment effects. More details are available in Hsiao et al 2025 (under review). A tutorial for this package can be found at . Package: r-cran-surrogaterank Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 487 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-pbmcapply Suggests: r-cran-roxygen2 Filename: pool/dists/focal/main/r-cran-surrogaterank_2.0-1.ca2004.1_all.deb Size: 465388 MD5sum: d67da87e79df6431aeed3880ab67954e SHA1: c99cc3127724d4b6983054750d1f0f95b83e7903 SHA256: 9787fbccca3fb25c5d4831ed8cde77ffe89063eeff0464a6be780e19640f5ef1 SHA512: f6a4498206b5220a39630effe3949e7264ac2f896a921875780ff255bd5b37e9cc3c7d0ba04027d5dfa9f6747a6d75c6e8fb46b1982319843645447ce2164db2 Homepage: https://cran.r-project.org/package=SurrogateRank Description: CRAN Package 'SurrogateRank' (Rank-Based Test to Evaluate a Surrogate Marker) Uses a novel rank-based nonparametric approach to evaluate a surrogate marker in a small sample size setting. Details are described in Parast et al (2024) and Hughes A et al (2025) . A tutorial for this package can be found at and a Shiny App implementing the package can be found at . Package: r-cran-surrogatersq Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1264 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mass, r-cran-passo, r-cran-progress, r-cran-scales Suggests: r-cran-r.rsp, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-surrogatersq_0.2.1-1.ca2004.1_all.deb Size: 1225912 MD5sum: c9e4c53a4ac707c402085bcdff8d8afd SHA1: 65b53b23becbe68bbef42b8b415737afb7776d06 SHA256: 5a03b6f0d110d15d90bd7f0e09c1be51e4002eb1ab5b536b7c91e59fc5f0c4be SHA512: 40e13b5dcd86c6b1abbdbc6fc0810aba32cf4f4af054c1e9f31bf80ad9f65c97ea12430f2361629599ce5149d38599ce2d9cb1aa3ebd39b2100ee5c66e911815 Homepage: https://cran.r-project.org/package=SurrogateRsq Description: CRAN Package 'SurrogateRsq' (Goodness-of-Fit Analysis for Categorical Data using theSurrogate R-Squared) To assess and compare the models' goodness of fit, R-squared is one of the most popular measures. For categorical data analysis, however, no universally adopted R-squared measure can resemble the ordinary least square (OLS) R-squared for linear models with continuous data. This package implement the surrogate R-squared measure for categorical data analysis, which is proposed in the study of Dungang Liu, Xiaorui Zhu, Brandon Greenwell, and Zewei Lin (2022) . It can generate a point or interval measure of the surrogate R-squared. It can also provide a ranking measure of the percentage contribution of each variable to the overall surrogate R-squared. This ranking assessment allows one to check the importance of each variable in terms of their explained variance. This package can be jointly used with other existing R packages for variable selection and model diagnostics in the model-building process. Package: r-cran-surrogateseq Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-surrogateseq_1.0-1.ca2004.1_all.deb Size: 130064 MD5sum: c6692e9730af8fca5b9aabae3bd3a119 SHA1: 5783f3e43f17044ab6ea04153db4b35f7437471f SHA256: da03027ff1dac033d9993575fbd32cd7095744892df5410db9e460512b6cf36b SHA512: 4765bdc1aae6761ade254c55b161d5190f68890ef6e9c84338bf03161171d77e1157394161d10a5b6ee1b23a152e8db221f72526a251017f033756d0ae6d3563 Homepage: https://cran.r-project.org/package=SurrogateSeq Description: CRAN Package 'SurrogateSeq' (Group Sequential Testing of a Treatment Effect Using a SurrogateMarker) Provides functions to implement group sequential procedures that allow for early stopping to declare efficacy using a surrogate marker and the possibility of futility stopping. More details are available in: Parast, L. and Bartroff, J (2024) . A tutorial for this package can be found at . Package: r-cran-surrogatetest Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-surrogatetest_1.3-1.ca2004.1_all.deb Size: 157676 MD5sum: 49e5f259551aeffae66da19041c5fec6 SHA1: de5a9555ba7cd76597ddaf8096c02d1389b22588 SHA256: c6a870828591d5306eb5df63f56f343a343d00aacf06443d53bde1ce48f58d65 SHA512: 8cedfce6ef53c5549569e65c5555b9c99617e7f4f4ddd5bf52054319744a722245212c365fda56ff2125ebc8b12786dc66d459a4c18c8d9d7538432b69e2ccca Homepage: https://cran.r-project.org/package=SurrogateTest Description: CRAN Package 'SurrogateTest' (Early Testing for a Treatment Effect using Surrogate MarkerInformation) Provides functions to test for a treatment effect in terms of the difference in survival between a treatment group and a control group using surrogate marker information obtained at some early time point in a time-to-event outcome setting. Nonparametric kernel estimation is used to estimate the test statistic and perturbation resampling is used for variance estimation. More details will be available in the future in: Parast L, Cai T, Tian L (2019) ``Using a Surrogate Marker for Early Testing of a Treatment Effect" Biometrics, 75(4):1253-1263. . Package: r-cran-surrosurv Architecture: all Version: 1.1.26-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 766 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-copula, r-cran-eha, r-cran-lme4, r-cran-mass, r-cran-matrix, r-cran-msm, r-cran-mvmeta, r-cran-optimx, r-cran-parfm, r-cran-survival Suggests: r-cran-r.rsp, r-cran-testthat Filename: pool/dists/focal/main/r-cran-surrosurv_1.1.26-1.ca2004.1_all.deb Size: 719048 MD5sum: beb7f9ef35266275e122d928763115df SHA1: b0786a13629fc05697edbc47a047b52f7c1983ad SHA256: b6652941e2ef413391adb9cd782463e5ca1b4233c2f74cbc7f676639277e73c1 SHA512: e98e8f2dd97bae24eee637c57a48190e8613c7aebaac1baf19df48f5e143f9afeb1807d05a20d63e8b9841769fa2e473c8e9fa54015cf3d357dc27ed8276f3b7 Homepage: https://cran.r-project.org/package=surrosurv Description: CRAN Package 'surrosurv' (Evaluation of Failure Time Surrogate Endpoints in IndividualPatient Data Meta-Analyses) Provides functions for the evaluation of surrogate endpoints when both the surrogate and the true endpoint are failure time variables. The approaches implemented are: (1) the two-step approach (Burzykowski et al, 2001) with a copula model (Clayton, Plackett, Hougaard) at the first step and either a linear regression of log-hazard ratios at the second step (either adjusted or not for measurement error); (2) mixed proportional hazard models estimated via mixed Poisson GLM (Rotolo et al, 2017 ). 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Package: r-cran-surtex Architecture: all Version: 0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-surtex_0.9-1.ca2004.1_all.deb Size: 15740 MD5sum: b0acea36c9dd474f5d11c385dc75c888 SHA1: f824d372bcdf4f47a942706a5750249cb6513eba SHA256: 52ade221de95f7c85b9f8982da076e30bcbe06fff7fa97f50183b3331cca7736 SHA512: 74d770743f6c592cd84cf041a003c65da580ffb23fe4422c9105ac0ef86269b31cd506cc351dbc4c8c1886424175142fdd3380effca21d5e25872d95f2bb22c2 Homepage: https://cran.r-project.org/package=suRtex Description: CRAN Package 'suRtex' (LaTeX descriptive statistic reporting for survey data) suRtex was designed for easy descriptive statistic reporting of categorical survey data (e.g., Likert scales) in LaTeX. suRtex takes a matrix or data frame and produces the LaTeX code necessary for a sideways table creation. Mean, median, standard deviation, and sample size are optional. 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Package: r-cran-survbootoutliers Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 238 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Suggests: r-bioc-biocparallel Filename: pool/dists/focal/main/r-cran-survbootoutliers_1.0-1.ca2004.1_all.deb Size: 197584 MD5sum: 32ebdce0cee7317c3aabea97be44b3c1 SHA1: 4e34d42e64b48ff72a14f86e1146c37ad3590efc SHA256: 5ef679a517ac21c00897182896507362a11fd4a35ddc6465b187a97234fd5980 SHA512: ad09cfe409d358e4d56df3098d98c084ed524ed136d1a79e06783145d5fa00c65794a9d87e2166a33d348cbd78c506b27dc8e076b3049eb6c1e0f55aba234690 Homepage: https://cran.r-project.org/package=survBootOutliers Description: CRAN Package 'survBootOutliers' (Concordance Based Bootstrap Methods for Outlier Detection inSurvival Analysis) Three new methods to perform outlier detection in a survival context. In total there are six methods provided, the first three methods are traditional residual-based outlier detection methods, the second three are the concordance-based. Package developed during the work on the two following publications: Pinto J., Carvalho A. and Vinga S. (2015) ; Pinto J.D., Carvalho A.M., Vinga S. (2015) . Package: r-cran-survcompare Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 276 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-survival, r-cran-timeroc, r-cran-caret, r-cran-glmnet, r-cran-randomforestsrc, r-cran-missforestpredict Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-survcompare_0.3.0-1.ca2004.1_all.deb Size: 174604 MD5sum: 048b6761d3d26cc1b245de480a53a91a SHA1: 3857456b890899376c1ca24daa65b6affedb58f8 SHA256: e91c168608b536c549f1687381db439666e9de410f05bcd8beb967a8137ff582 SHA512: 188af3852afdf8fcf0d77b179482b0a9bf045688d02eea3c5959f0388757ed165cf043bca385fa26c670265aa3ef7882b728d81145c480987b46a64e4689391d Homepage: https://cran.r-project.org/package=survcompare Description: CRAN Package 'survcompare' (Nested Cross-Validation to Compare Cox-PH, Cox-Lasso, SurvivalRandom Forests) Performs repeated nested cross-validation for Cox Proportionate Hazards, Cox Lasso, Survival Random Forest, and their ensemble. Returns internally validated concordance index, time-dependent area under the curve, Brier score, calibration slope, and statistical testing of non-linear ensemble outperforming the baseline Cox model. In this, it helps researchers to quantify the gain of using a more complex survival model, or justify its redundancy. Equally, it shows the performance value of the non-linear and interaction terms, and may highlight the need of further feature transformation. Further details can be found in Shamsutdinova, Stamate, Roberts, & Stahl (2022) "Combining Cox Model and Tree-Based Algorithms to Boost Performance and Preserve Interpretability for Health Outcomes" , where the method is described as Ensemble 1. Package: r-cran-survcorr Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival, r-cran-fields Filename: pool/dists/focal/main/r-cran-survcorr_1.1-1.ca2004.1_all.deb Size: 44776 MD5sum: 908dc5f611e6b852f20a4597096f52d3 SHA1: c143351f8d259d168fb42fb611e91bc4e754c661 SHA256: 8a30b3d0aecefb9448a018442b5c4f8ac63f1f50c2e793658303b9610b5453b7 SHA512: 9b8b3c58dbb8079b2285eebdbf57bf4d0a7d2842f32da0c2252c4a80fe867dbb11253cfaad3951c9728391c9ff8c805d9665e283e4410fbb9df8af656504a46b Homepage: https://cran.r-project.org/package=SurvCorr Description: CRAN Package 'SurvCorr' (Correlation of Bivariate Survival Times) Estimates correlation coefficients with associated confidence limits for bivariate, partially censored survival times. Uses the iterative multiple imputation approach proposed by Schemper, Kaider, Wakounig and Heinze (2013) . Provides a scatterplot function to visualize the bivariate distribution, either on the original time scale or as copula. Package: r-cran-survcurve Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Suggests: r-cran-knitr, r-cran-mstate, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-survcurve_1.0-1.ca2004.1_all.deb Size: 128388 MD5sum: 155881dcad428469e04544612ebc20b7 SHA1: 6277e8227997d83ca17922c83f4fff8dbbacc5c3 SHA256: 2eb4f608a724e7433151391e05e9b9b8e49d469414f88e3aeb45d6bb918d0217 SHA512: 4f15b805cee76a553dd5598f934b341980b73f27223f0d89c82eb441ce0658c9ba9466a0a9a60bd19af60346bd8c75fcc733c0f379ec053ffe7710d0a2cd93e5 Homepage: https://cran.r-project.org/package=survCurve Description: CRAN Package 'survCurve' (Plots Survival Curves Element by Element) Plots survival models from the 'survival' package. Additionally, it plots curves of multistate models from the 'mstate' package. Typically, a plot is drawn by the sequence survplot(), confIntArea(), survCurve() and nrAtRisk(). The separation of the plot in this 4 functions allows for great flexibility to make a custom plot for publication. Package: r-cran-survdisc Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3534 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cubature, r-cran-mvtnorm, r-cran-mass, r-cran-nlme, r-cran-simex, r-cran-survival Filename: pool/dists/focal/main/r-cran-survdisc_0.1.1-1.ca2004.1_all.deb Size: 2898564 MD5sum: 30c108173b38eb80d266d2500f3ee2fc SHA1: d5f53d199f0f0f401154cd7b8125b0317b631832 SHA256: 664cedf15a3e81de834e162f15039e3143a1db26713e0888845237d015954837 SHA512: 8ccc08545e5c3d005c14ccf61459d7fd2f880cba63dc07f9727a166db33e75e854072a83af22936f37aae4ef4df8f8789f6fce3137e62fbbf27a197d22a97326 Homepage: https://cran.r-project.org/package=SurvDisc Description: CRAN Package 'SurvDisc' (Discrete Time Survival and Longitudinal Data Analysis) Various functions for discrete time survival analysis and longitudinal analysis. SIMEX method for correcting for bias for errors-in-variables in a mixed effects model. Asymptotic mean and variance of different proportional hazards test statistics using different ties methods given two survival curves and censoring distributions. Score test and Wald test for regression analysis of grouped survival data. Calculation of survival curves for events defined by the response variable in a mixed effects model crossing a threshold with or without confirmation. Package: r-cran-surveltest Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-iso, r-cran-nloptr, r-cran-plyr, r-cran-survival Filename: pool/dists/focal/main/r-cran-surveltest_2.0.1-1.ca2004.1_all.deb Size: 173644 MD5sum: 5c196efc854331370d18bbcc992b30c3 SHA1: 9744431fc1da49ce0d2e280b76af0ab2af5886df SHA256: 4b11ad5a276cc20906ab16cd0ca442ae701ee51d89c51299153e63ece427cadd SHA512: 1d171e85bc2b14d3a0059290436734f88e2a1742561f59a7f0054b3b6d1c9b6d3fbf4f9d6fdcac6c7476c3c808e17ca497f66629cc5c3ecb347719a70c4861c3 Homepage: https://cran.r-project.org/package=survELtest Description: CRAN Package 'survELtest' (Comparing Multiple Survival Functions with Crossing Hazards) Computing the one-sided/two-sided integrated/maximally selected EL statistics for simultaneous testing, the one-sided/two-sided EL tests for pointwise testing, and an initial test that precedes one-sided testing to exclude the possibility of crossings or alternative orderings among the survival functions. Package: r-cran-survex Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1219 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dalex, r-cran-ggplot2, r-cran-kernelshap, r-cran-pec, r-cran-survival, r-cran-patchwork Suggests: r-cran-censored, r-cran-covr, r-cran-flexsurv, r-cran-gbm, r-cran-generics, r-cran-glmnet, r-cran-ingredients, r-cran-knitr, r-cran-mboost, r-cran-parsnip, r-cran-progressr, r-cran-randomforestsrc, r-cran-ranger, r-cran-reticulate, r-cran-rmarkdown, r-cran-rms, r-cran-testthat, r-cran-treeshap, r-cran-withr, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-survex_1.2.0-1.ca2004.1_all.deb Size: 1187308 MD5sum: f5a7f00e505ce9eec4e117ef687b0808 SHA1: 28c29e3c5a82562278a65cef04415564eb99c817 SHA256: fc6de1b332fe29625855c2bc39124c5cdf20a779d244ec25f22abcee291d22d1 SHA512: 405dad7adeeb389dbb953c1375ee349da87f8725363608c044cd86997d05f91210396d7a0353e5c18a010b79cfc9396d8c0f551497f5c842e1cce91976a4ee57 Homepage: https://cran.r-project.org/package=survex Description: CRAN Package 'survex' (Explainable Machine Learning in Survival Analysis) Survival analysis models are commonly used in medicine and other areas. Many of them are too complex to be interpreted by human. Exploration and explanation is needed, but standard methods do not give a broad enough picture. 'survex' provides easy-to-apply methods for explaining survival models, both complex black-boxes and simpler statistical models. They include methods specific to survival analysis such as SurvSHAP(t) introduced in Krzyzinski et al., (2023) , SurvLIME described in Kovalev et al., (2020) as well as extensions of existing ones described in Biecek et al., (2021) . Package: r-cran-survexp.fr Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 115 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-writexls Filename: pool/dists/focal/main/r-cran-survexp.fr_1.2-1.ca2004.1_all.deb Size: 82928 MD5sum: 77052b0983184b84541facde5163ceb1 SHA1: a18cae860e6f88872824b6a41e3249b8ccad9697 SHA256: d13cae67b14dced9d343aeb9a13fcc4aeeac7f156defb041778f909b958a0d4e SHA512: 8543e8380da319c2f2e05fef65f42c79b79145b36b1b084fd2aa194cf8c1e0256b6ae02d74c90dab1271d937afaeddb67f596c8b8c34afb4d9437d7b7d796b65 Homepage: https://cran.r-project.org/package=survexp.fr Description: CRAN Package 'survexp.fr' (Relative Survival, AER and SMR Based on French Death Rates) It computes Relative survival, AER and SMR based on French death rates. Package: r-cran-surveycc Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 189 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-candisc, r-cran-survey Filename: pool/dists/focal/main/r-cran-surveycc_0.2.1-1.ca2004.1_all.deb Size: 155804 MD5sum: 5deca1794af798df82f4b0fdf670fef0 SHA1: 323704b97823bc8b155a23728bb2b99b7cee9421 SHA256: 673373a60327dad2f7824931823592db5821a4a293635aace5f70af7a9715e31 SHA512: a670b1d037203d8209d87076129000d25254cf2710f4da15375f6084fe64db34e9c813a51594666a9635d38d20573f294a446532cba17aa9b4dcc6a80db1fe63 Homepage: https://cran.r-project.org/package=SurveyCC Description: CRAN Package 'SurveyCC' (Canonical Correlation for Survey Data) Performs canonical correlation for survey data, including multiple tests of significance for secondary canonical correlations. A key feature of this package is that it incorporates survey data structure directly in a novel test of significance via a sequence of simple linear regression models on the canonical variates. See reference - Cruz-Cano, Cohen, and Mead-Morse (2024) "Canonical Correlation Analysis of Survey data: the SurveyCC R package" The R Journal under review. Package: r-cran-surveycv Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1132 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survey, r-cran-magrittr Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-islr, r-cran-knitr, r-cran-rmarkdown, r-cran-rpms, r-cran-testthat Filename: pool/dists/focal/main/r-cran-surveycv_0.2.0-1.ca2004.1_all.deb Size: 746784 MD5sum: b3efd8ecc151dd03439fdb4753e3f2b4 SHA1: 3aceb9c439246ab4c02649126124e4b8c6ef1b3a SHA256: 92cd35ecac4b8aaaec6975ed16eda246d5eab7bfe58cf872df5facf618d01c9a SHA512: 23bd9f1060e6577eeae3ce60a6dc53a81d50bb7a260f3e712042a27a882c3833cfd28de172b69e3ac498b7238bc776cdf274cb7c6112448cfc0769caa585cb67 Homepage: https://cran.r-project.org/package=surveyCV Description: CRAN Package 'surveyCV' (Cross Validation Based on Survey Design) Functions to generate K-fold cross validation (CV) folds and CV test error estimates that take into account how a survey dataset's sampling design was constructed (SRS, clustering, stratification, and/or unequal sampling weights). You can input linear and logistic regression models, along with data and a type of survey design in order to get an output that can help you determine which model best fits the data using K-fold cross validation. Our paper on "K-Fold Cross-Validation for Complex Sample Surveys" by Wieczorek, Guerin, and McMahon (2022) explains why differing how we take folds based on survey design is useful. Package: r-cran-surveydata Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 881 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-rlang, r-cran-magrittr, r-cran-purrr, r-cran-ggplot2, r-cran-scales, r-cran-tidyr, r-cran-dt, r-cran-assertthat Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-withr, r-cran-covr, r-cran-rprojroot, r-cran-spelling Filename: pool/dists/focal/main/r-cran-surveydata_0.2.7-1.ca2004.1_all.deb Size: 357004 MD5sum: 43193bb48dbcc3ffc70e99088fae4091 SHA1: fc704b66c72f8265f8aa498519f3d5604b8870eb SHA256: 6a91374d88c08a12c58867d390bfadbfecfa5c1036ef1b5a2b7229932d1919d4 SHA512: cafea2e34fa185a6b2c366565f09b096148305aed5dca155e38b5eebbc834b4389a34bfc4af5a64a71d4b6ee9fd672d7498347239b8d90fa6a24c409a3268ec1 Homepage: https://cran.r-project.org/package=surveydata Description: CRAN Package 'surveydata' (Tools to Work with Survey Data) Data obtained from surveys contains information not only about the survey responses, but also the survey metadata, e.g. the original survey questions and the answer options. The 'surveydata' package makes it easy to keep track of this metadata, and to easily extract columns with specific questions. Package: r-cran-surveydefense Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-flextable Suggests: r-cran-officer Filename: pool/dists/focal/main/r-cran-surveydefense_0.2.0-1.ca2004.1_all.deb Size: 50920 MD5sum: b824531f9bb4a3e60b28be8f9ae3f4b7 SHA1: 3394e48f6defeb7b9937e1d0df315f9894071963 SHA256: 3582abc9cec958debe81252dc2b66e62285a8300072d8b3ba432a5840141acf2 SHA512: a4b3753e05612d757e5b414fffdc5ef4f899642fb98f4f3082b83660c61bf61148a9dad50040131ceabb2ea9a8f67d0149d3d5d00f9b32fae9f9581d2849f0e8 Homepage: https://cran.r-project.org/package=SurveyDefense Description: CRAN Package 'SurveyDefense' (Survey Defense Tool) This tool is designed to analyze up to 5 Fraud Detection Questions integrated into a survey, focusing on potential fraudulent participants to clean the survey dataset from potential fraud. Fraud Detection Questions and further information available at . Package: r-cran-surveydown Architecture: all Version: 0.11.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1047 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bslib, r-cran-cli, r-cran-dbi, r-cran-dotenv, r-cran-dt, r-cran-fs, r-cran-htmltools, r-cran-jsonlite, r-cran-markdown, r-cran-miniui, r-cran-pool, r-cran-quarto, r-cran-rpostgres, r-cran-rstudioapi, r-cran-rvest, r-cran-shiny, r-cran-shinyjs, r-cran-shinywidgets, r-cran-xml2, r-cran-yaml Suggests: r-cran-glue, r-cran-knitr, r-cran-leaflet, r-cran-testthat Filename: pool/dists/focal/main/r-cran-surveydown_0.11.0-1.ca2004.1_all.deb Size: 787640 MD5sum: 08ab4f8c537a42a618eab0b5c7a907f4 SHA1: c4010b2a0bfd3ef402e252f97972367db3e51162 SHA256: a6660be485a5f46ef0d5f00c3d83882cca4068ad7d504562d89921b0939d1194 SHA512: aa5f0c42347f0c6b8eac6b164342f907abd118bace4439154837d7cf2d2c7668003a949d9439e3e61fc43b0211ce6093b002a09fc479d2ae174a6f26c7fd310d Homepage: https://cran.r-project.org/package=surveydown Description: CRAN Package 'surveydown' (Markdown-Based Programmable Surveys Using 'Quarto' and 'shiny') Generate programmable surveys using markdown and R code chunks. Surveys are composed of two files: a survey.qmd 'Quarto' file defining the survey content (pages, questions, etc), and an app.R file defining a 'shiny' app with global settings (libraries, database configuration, etc.) and server configuration options (e.g., conditional skipping / display, etc.). Survey data collected from respondents is stored in a 'PostgreSQL' database. Features include controls for conditional skip logic (skip to a page based on an answer to a question), conditional display logic (display a question based on an answer to a question), a customizable progress bar, and a wide variety of question types, including multiple choice (single choice and multiple choices), select, text, numeric, multiple choice buttons, text area, and dates. Because the surveys render into a 'shiny' app, designers can also leverage the reactive capabilities of 'shiny' to create dynamic and interactive surveys. Package: r-cran-surveyeditor Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1683 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-surveyeditor_1.0-1.ca2004.1_all.deb Size: 1195160 MD5sum: f478dcc9709051e204d251361f2a8e76 SHA1: 829aed2c7fb02aff513e544ae751051d437344e4 SHA256: 87e89bb71f5c01519823726669778f5df1a4a063b63733d5e817e840c028b25e SHA512: 9121f051580297797302c291632ce76d80effbfe697a506c31158b0486c4bb7feed68a97dac6a1ede859e534d5f20447cd37021bb62480e9993f543562a9ca22 Homepage: https://cran.r-project.org/package=surveyeditor Description: CRAN Package 'surveyeditor' (Generate a Survey that can be Completed by Survey Respondents) Help generate slides for surveys or experiments. The resulted slides allow the subject to respond with the use of the mouse (usual keyboard input is replaced with clicking on a virtual keyboard on the slide). Subjects' responses are saved to the user- specified location in the form of R-readable text file. To allow flexibility, each function in this package generates a particular type of slides thus general R function writing skills are required to compile these edited slides. Package: r-cran-surveyexplorer Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1106 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-ggupset, r-cran-gt, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-surveyexplorer_0.2.0-1.ca2004.1_all.deb Size: 569076 MD5sum: b9c6468d72e17d6f55ec427c43069d9d SHA1: 5c86dd3b850b13e6d6fa4a6d09c62c3f0494ec0c SHA256: 6dd02d7a7a25370a744980709a021e15b69f81b01a807ede23d3d6206fb60e29 SHA512: b97fb7491047c50fc6a7cac49bfd6a82e8eed1916f4c720341f690bcd5d72987e8588f2fe7b62d8df5242ef23843949521e9b0625ac893e38654cdf599568e30 Homepage: https://cran.r-project.org/package=surveyexplorer Description: CRAN Package 'surveyexplorer' (Quickly Explore Complex Survey Data) Visualize and tabulate single-choice, multiple-choice, matrix-style questions from survey data. Includes ability to group cross-tabulations, frequency distributions, and plots by categorical variables and to integrate survey weights. Ideal for quickly uncovering descriptive patterns in survey data. Package: r-cran-surveynnet Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 182 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-nnet, r-cran-practools, r-cran-survey, r-cran-survival Filename: pool/dists/focal/main/r-cran-surveynnet_1.0.0-1.ca2004.1_all.deb Size: 144712 MD5sum: ba05964eec52df92d0b26c1e39782061 SHA1: 7aa96887ada7e2eb34d8f0ba1f276dd842d146a0 SHA256: 2ab88a9234acd58ef8005b4a3ccf18eb414f1bd9bdbe34dad7a7ced67d52178e SHA512: e841bde455e50f398516398556ec835abf072ef7109438ac19cf7c63bb8c5747362ebcb96e8bbba96b882349092a934fd26af34aa61753dbce844d7bf57a6749 Homepage: https://cran.r-project.org/package=surveynnet Description: CRAN Package 'surveynnet' (Neural Network for Complex Survey Data) The goal of 'surveynnet' is to extend the functionality of 'nnet', which already supports survey weights, by enabling it to handle clustered and stratified data. It achieves this by incorporating design effects through the use of effective sample sizes as outlined by Chen and Rust (2017), , and performed by 'deffCR' in the package 'PracTools' (Valliant, Dever, and Kreuter (2018), ). Package: r-cran-surveyoutliers Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 148 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-surveyoutliers_0.1-1.ca2004.1_all.deb Size: 116604 MD5sum: 72f1714f3b55a5ec651ea2df53e89227 SHA1: a3f0e90cefc39a11619cf423a6f801fa1c424d83 SHA256: 0b917d79af00fc7ed39765ef2842ce0904344de46def771a5d23f8ad9b2bc712 SHA512: f0e3218f52ebff801e0ea0b65be2aee65cdb9248b01cf084a101a6cccb8855492369e93c92e31a7b40caebaff20fe38616953a2bd142f7e7f9d7a8ab32ed71f2 Homepage: https://cran.r-project.org/package=surveyoutliers Description: CRAN Package 'surveyoutliers' (Helps Manage Outliers in Sample Surveys) At present, the only functionality is the calculation of optimal one-sided winsorizing cutoffs. The main function is optimal.onesided.cutoff.bygroup. It calculates the optimal tuning parameter for one-sided winsorisation, and so calculates winsorised values for a variable of interest. See the help file for this function for more details and an example. Package: r-cran-surveyprev Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5961 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survey, r-cran-ggplot2, r-cran-rdhs, r-cran-summer, r-cran-dplyr, r-cran-labelled, r-cran-sjlabelled, r-cran-naniar, r-cran-raster, r-cran-sp, r-cran-spdep, r-cran-stringr, r-cran-tidyverse, r-cran-data.table, r-cran-sf, r-cran-matrixstats Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-r.rsp, r-cran-kableextra, r-cran-geodata, r-cran-patchwork, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-surveyprev_1.0.0-1.ca2004.1_all.deb Size: 5103808 MD5sum: e48ce205b770028420bddc7401c16890 SHA1: 096aee25ae058662a0615d36987d06aae53e15cf SHA256: 6e42e2d56c181fd71d72fd0f47882f0cf3e99cf88dbf3a375e2c14112f017860 SHA512: 16348719ce27a3b2fec4ab55343f8642cbf92fa5e19d6e7d72c85a331388646a7a787f2d1e61b5a185ab0b238d8c2b605c168408f0eb39edd32fac35fe333af4 Homepage: https://cran.r-project.org/package=surveyPrev Description: CRAN Package 'surveyPrev' (Mapping the Prevalence of Binary Indicators using Survey Data inSmall Areas) Provides a pipeline to perform small area estimation and prevalence mapping of binary indicators using health and demographic survey data, described in Fuglstad et al. (2022) and Wakefield et al. (2020) . Package: r-cran-surveysimr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 130 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-shiny, r-cran-moments Suggests: r-cran-roxygen2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-surveysimr_0.1.0-1.ca2004.1_all.deb Size: 37332 MD5sum: 5fa968dcd6872254b4b77e452039420e SHA1: f83ab7f44ff482fa67cc5b7ba96fd52605c5dcb4 SHA256: 9a741b3b488d424b74bf9c708107a1e2ba17f8a398a1ccc7ea4834ed66b520bd SHA512: 0d322e6400db3125e8ffb54f20c6a61d5f098e3e0912d4e363448330f23ab2264d5f4f116ce0b557a2adb11dc2ba761588a499221fe78708f8595474141fdc2c Homepage: https://cran.r-project.org/package=surveySimR Description: CRAN Package 'surveySimR' (Estimation of Population Total under Complex Sampling Design) Sample surveys use scientific methods to draw inferences about population parameters by observing a representative part of the population, called sample. The SRSWOR (Simple Random Sampling Without Replacement) is one of the most widely used probability sampling designs, wherein every unit has an equal chance of being selected and units are not repeated.This function draws multiple SRSWOR samples from a finite population and estimates the population parameter i.e. total of HT, Ratio, and Regression estimators. Repeated simulations (e.g., 500 times) are used to assess and compare estimators using metrics such as percent relative bias (%RB), percent relative root means square error (%RRMSE).For details on sampling methodology, see, Cochran (1977) "Sampling Techniques" . Package: r-cran-surveytable Architecture: all Version: 0.9.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4969 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-assertthat, r-cran-magrittr, r-cran-glue, r-cran-survey, r-cran-huxtable Suggests: r-cran-kableextra, r-cran-gt, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-surveytable_0.9.8-1.ca2004.1_all.deb Size: 659472 MD5sum: e8d3b190a79d11809436b4e09f7ff86f SHA1: c622a8e5c9eee8cbbe5254815d6f43c1838640df SHA256: b88ce47f1cc271a93bb98a64d380540926f6e7c18203ab9963028a12c62c53ce SHA512: 52ad66a78dbf73dc5dbc630bdbcd4a888127cfd8bb34310fc07750a5bf6d4fa22fc5be72312aa0474fce990a7fa3dd1960609d9c2782a001220cb3ec7f063ac8 Homepage: https://cran.r-project.org/package=surveytable Description: CRAN Package 'surveytable' (Formatted Survey Estimates) Short and understandable commands that generate tabulated, formatted, and rounded survey estimates. Mostly a wrapper for the 'survey' package (Lumley (2004) ) that identifies low-precision estimates using the National Center for Health Statistics (NCHS) presentation standards (Parker et al. (2017) , Parker et al. (2023) ). Package: r-cran-survhe Architecture: all Version: 2.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 333 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-flexsurv, r-cran-dplyr, r-cran-ggplot2, r-cran-rms, r-cran-xlsx, r-cran-tibble, r-cran-tidyr Suggests: r-cran-rstan, r-cran-testthat Filename: pool/dists/focal/main/r-cran-survhe_2.0.5-1.ca2004.1_all.deb Size: 294360 MD5sum: 27ce5a21a1469300423e98d21652fac6 SHA1: 19b7df46c4d35f26018a604282e56aa7e67bde5a SHA256: 328f2d8ab8ed3c59e608c8f2825d8e7a5437054085caa458fad9e10804b54c90 SHA512: 49b031077cce5eb09b9763fcd50d6b03d5b9868b7cc3e63e5662f8c00c04c6b0a2fc6fd1c3fdab532244b6fc497a417bb2ef4899a4ab0d662f6d4f5b8b6d55f5 Homepage: https://cran.r-project.org/package=survHE Description: CRAN Package 'survHE' (Survival Analysis in Health Economic Evaluation) Contains a suite of functions for survival analysis in health economics. These can be used to run survival models under a frequentist (based on maximum likelihood) or a Bayesian approach (both based on Integrated Nested Laplace Approximation or Hamiltonian Monte Carlo). To run the Bayesian models, the user needs to install additional modules (packages), i.e. 'survHEinla' and 'survHEhmc'. These can be installed from using 'install.packages("survHEhmc", repos = c("https://giabaio.r-universe.dev", "https://cloud.r-project.org"))' and 'install.packages("survHEinla", repos = c("https://giabaio.r-universe.dev", "https://cloud.r-project.org"))' respectively. 'survHEinla' is based on the package INLA, which is available for download at . The user can specify a set of parametric models using a common notation and select the preferred mode of inference. The results can also be post-processed to produce probabilistic sensitivity analysis and can be used to export the output to an Excel file (e.g. for a Markov model, as often done by modellers and practitioners). . Package: r-cran-survhidim Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 470 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-rdpack, r-cran-readr, r-cran-tidyverse, r-cran-glmnet, r-cran-factoextra, r-cran-igraph, r-cran-useful Filename: pool/dists/focal/main/r-cran-survhidim_0.1.1-1.ca2004.1_all.deb Size: 445024 MD5sum: 456b83ba8ab0d987ce8f65dc27f59fb0 SHA1: 6de0c5a985634924b5b14fc362d418c3c2e9ddcf SHA256: 2cd0247200c512f78e3240ea43a6819c7a6a8744f4abe5d8e028f540d19e6f81 SHA512: 5c5375022d78f7f8f1e95b3f115378d24a4b4691cdb4f150cc979e0aea774d4c36b06eff54dc4827a6de8d89c480546d43705caee0490e4267930303710266f2 Homepage: https://cran.r-project.org/package=SurvHiDim Description: CRAN Package 'SurvHiDim' (High Dimensional Survival Data Analysis) High dimensional time to events data analysis with variable selection technique. Currently support LASSO, clustering and Bonferroni's correction. Package: r-cran-survimchd Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 430 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-rjags, r-cran-r2jags, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-survimchd_0.1.2-1.ca2004.1_all.deb Size: 405656 MD5sum: f144d40568ec073f88087a2e30cef4cc SHA1: e7892c099d52ecc763d76bbd692221ef6f3a4f1f SHA256: a8777a1de1824e738ec76a9eeae41b45163a3b9e62434a4f614de361334a7a95 SHA512: 2a95365a9e98441742a2f22cbc95007742358456e68907016675fea7616da2b989fad5e747e663a26809da66b57badd268541935e361d3f985b6f84e0a44a1b0 Homepage: https://cran.r-project.org/package=SurviMChd Description: CRAN Package 'SurviMChd' (High Dimensional Survival Data Analysis with Markov Chain MonteCarlo) High dimensional survival data analysis with Markov Chain Monte Carlo(MCMC). Currently supports frailty data analysis. Allows for Weibull and Exponential distribution. Includes function for interval censored data. Package: r-cran-survimpute Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-vgam, r-cran-mass Suggests: r-cran-mitools Filename: pool/dists/focal/main/r-cran-survimpute_0.1.0-1.ca2004.1_all.deb Size: 66336 MD5sum: f453b94427e240c547bc322f3685e3dd SHA1: 36250752acefcea8ece3998438449375fa3294bd SHA256: 9393c695c38d896207f6fa4bde390fd6355a737a64baac1bf0b5e067d0241e07 SHA512: 4e4d704757b671019c358e3e85e4779348a0baf6bc905b8106fc13029e47c27d894f929ed17301676722ec04cf02e88338e1b37948aced624ed7e4d4da0c5334 Homepage: https://cran.r-project.org/package=SurvImpute Description: CRAN Package 'SurvImpute' (Multiple Imputation for Missing Covariates in Time-to-Event Data) Generates multiple imputed datasets from a substantive model compatible fully conditional specification model for time-to-event data. Our method assumes that the censoring process also depends on the covariates with missing values. Details will be available in an upcoming publication. Package: r-cran-survival666 Architecture: all Version: 0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2051 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-survminer, r-cran-ggplot2 Suggests: r-cran-tidyverse, r-cran-magrittr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-survival666_0.5-1.ca2004.1_all.deb Size: 2042448 MD5sum: bbb1b69518be4e681f57412ad9be697f SHA1: aea5df942cc9f96a351cf437ec28bdd5fb481f53 SHA256: 4d6b799dd9ad2b1c4c8de5727ca1806d8f094c21ba0dec209688fe2ef2c32f21 SHA512: e09730b2509b6c2faf65cd27d4304b9b858434d060d1b5a84abd1f5400ddb30e17a57026c5ae2686ee51c55857f14cc19825beabb2df61688a066136b3f4316f Homepage: https://cran.r-project.org/package=survival666 Description: CRAN Package 'survival666' (Eliminate the Influence of Co-Expression Genes on Target Genes) Functions can be used for batch survival analysis, but not only for it. 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Aims at providing a clear and elegant syntax, support for use in a pipeline, structured output and plotting. Builds upon the 'survminer' package for Kaplan-Meier plots and provides a customizable implementation for forest plots. Kaplan & Meier (1958) Cox (1972) Journal of the Royal Statistical Society. Series B (Methodological), Vol. 34, No. 2 (1972), pp. 187-220 (34 pages) Peto & Peto (1972) . Package: r-cran-survivalmpl Architecture: all Version: 0.2-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 175 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-mass Filename: pool/dists/focal/main/r-cran-survivalmpl_0.2-4-1.ca2004.1_all.deb Size: 143716 MD5sum: 7f7a5418b6b942669c7e29e98b231fb8 SHA1: 84835496cada7ec69fd8b07bbcb0f1b45f56f099 SHA256: 64eb54e92b592fe792bd8cd5d697cf0417d4c55009934f31b06246f0adec2a5a SHA512: 3f94ef239d1506d4a8bb591614cdcbb8b0432a210c6b3084c652ee1f88e8052b39a1079babb90eea4a029c4015e1cbcf6fff286ff0a746fa841fbabec2179c9a Homepage: https://cran.r-project.org/package=survivalMPL Description: CRAN Package 'survivalMPL' (Penalised Maximum Likelihood for Survival Analysis Models) Estimate the regression coefficients and the baseline hazard of proportional hazard Cox models with left, right or interval censored survival data using maximum penalised likelihood. A 'non-parametric' smooth estimate of the baseline hazard function is provided. Package: r-cran-survivalmpldc Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 649 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-copula, r-cran-splines2, r-cran-survival, r-cran-matrixcalc Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-survivalmpldc_0.1.1-1.ca2004.1_all.deb Size: 423920 MD5sum: 96c6efa2807a8f420a1a0c6bb25db368 SHA1: c84060e3efb614c4ec2d8c8c169cc87e60907649 SHA256: c7ad0367c0d6fbf920901dc6bd23b333818e923ddb9e5b2ef373c55bfd4ce8b5 SHA512: f21d47d174c1e8bcbf9e593a1c26ea24d9060cd9b19377cc09d12949119ed503e09d6c57025aafc921986236e340dd5cf0f27e7394617fb3119771c1a2dcbaab Homepage: https://cran.r-project.org/package=survivalMPLdc Description: CRAN Package 'survivalMPLdc' (Penalised Likelihood for Survival Analysis with DependentCensoring) Fitting Cox proportional hazard model under dependent right censoring using copula and maximum penalised likelihood methods. Package: r-cran-survivalpath Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 278 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-ggplot2, r-bioc-ggtree, r-bioc-treeio, r-cran-dplyr, r-cran-rms, r-cran-survival, r-cran-survminer, r-cran-survivalroc, r-cran-hmisc Filename: pool/dists/focal/main/r-cran-survivalpath_1.3.2-1.ca2004.1_all.deb Size: 247528 MD5sum: f1b265830f52661ecac48dd6096d57ae SHA1: 106d073fcf3d9d02fd9e6b0aa0af70a0cdca959e SHA256: 1549ec1c8a72768f9c50169e4a7d5b35b3dd9665b7f16f007634bfa739dc3aba SHA512: 22997017597d4ee8ce32cd4dc5ad41fd154e5c3f9317890de1d0695eab04fcef05a8b893b0e379afcbff8cea99fe4de9b54a17438925ff7503c49f022331d241 Homepage: https://cran.r-project.org/package=SurvivalPath Description: CRAN Package 'SurvivalPath' (Construction and Visualization of Survival Path Tree usingTime-Series Survival Data) Facilitates building personalized survival path models. The function survivalpath() return tree structure results, which can be used to draw easily beautiful and ready-to-publish survival path tree. See Shen L, et al (2018) . Package: r-cran-survivalplann Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-nnet Filename: pool/dists/focal/main/r-cran-survivalplann_0.1-1.ca2004.1_all.deb Size: 52432 MD5sum: 0493bbba56945f4204f2408a4e7c23b8 SHA1: 84c37afb6d5e613efa9a83284482fa1f040c7b06 SHA256: 075fe493e1ad3b57d4803de0654fb9eb85ab0bcee03410c5b3af4230f8565645 SHA512: 92b6da56196c992b730507bf8d5f44651aa34d0fed7612c4bd97ac868ca1c927e2880af26bdcd5cff9dcf0566f3ce9dcada3ea6607ad80eac650ea8dc6238da6 Homepage: https://cran.r-project.org/package=survivalPLANN Description: CRAN Package 'survivalPLANN' (Neural Networks to Predict Survival) Several functions and S3 methods to predict survival by using neural networks. We implemented Partial Logistic Artificial Neural Networks (PLANN) as proposed by Biganzoli et al. (1998) . Package: r-cran-survivalsl Architecture: all Version: 0.97.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 451 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-date, r-cran-mass, r-cran-glmnet, r-cran-caret, r-cran-flexsurv, r-cran-randomforestsrc, r-cran-hdnom, r-cran-glmnetutils, r-cran-survivalplann, r-cran-dplyr, r-cran-rpart Suggests: r-cran-reticulate, r-cran-survivalmodels Filename: pool/dists/focal/main/r-cran-survivalsl_0.97.1-1.ca2004.1_all.deb Size: 413252 MD5sum: 8aa6838ef0c3544d926299284b0cba2a SHA1: b3182861d446746659bc2600daac66ebdbf8ddf6 SHA256: 7aaa41b04c5e1a2a461fb27a5f2d3852b98b05cbfe27ed778f4c445c56fd8fbb SHA512: 2946616766fa27976a8b83efbc3dc5698a6220ba16caf98f5be34e652ca7fa79513b7d1354de18805cfb78732748b4e13345384d6d6273784c9b518724a1589b Homepage: https://cran.r-project.org/package=survivalSL Description: CRAN Package 'survivalSL' (Super Learner for Survival Prediction from Censored Data) Several functions and S3 methods to construct a super learner in the presence of censored times-to-event and to evaluate its prognostic capacities. Package: r-cran-survivalsurrogate Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-glue, r-cran-mlr3, r-cran-purrr, r-cran-sparsem, r-cran-rbeta2009, r-cran-data.table, r-cran-rpart Suggests: r-cran-mlr3learners Filename: pool/dists/focal/main/r-cran-survivalsurrogate_1.1-1.ca2004.1_all.deb Size: 173036 MD5sum: 8694b929d40237a503074cd2943fee05 SHA1: 3ed5fb3c1eebaa6d718319f34a72caa309f9b653 SHA256: 74fb4c8129150b81a9075a28d3042bb3ac60164aa9a918504b0e8b51197af341 SHA512: ca7f5902534c9b2995815febcb8683ecb6e16a5120086116ab58f7d0761ced7f93cd16a3692eb74ab2d10134d28d0ea50cbca5d5b3786ea387df143b5d978cf5 Homepage: https://cran.r-project.org/package=survivalsurrogate Description: CRAN Package 'survivalsurrogate' (Evaluate a Longitudinal Surrogate with a Censored Outcome) Provides influence function-based methods to evaluate a longitudinal surrogate marker in a censored time-to-event outcome setting, with plug-in and targeted maximum likelihood estimation options. Details are described in: Agniel D and Parast L (2025). "Robust Evaluation of Longitudinal Surrogate Markers with Censored Data." Journal of the Royal Statistical Society: Series B . A tutorial for this package can be found at and a Shiny App implementing the package can be found at . 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Three approaches are available in the package: The regression approach takes censoring into account when formulating the inequality constraints of the support vector problem. In the ranking approach, the inequality constraints set the objective to maximize the concordance index for comparable pairs of observations. The hybrid approach combines the regression and ranking constraints in the same model. 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Split from the 'survival' package since the vignettes were getting large. Also, since 'survival' is a recommended package it cannot make use of other packages outside of base+recommended (e.g. 'rmarkdown'). 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Package: r-cran-survjamda.data Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 12381 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-survjamda.data_1.0.2-1.ca2004.1_all.deb Size: 12647240 MD5sum: 80437195a4f05b228db85a7ef05f87f5 SHA1: 44cd09a0acbb0073c65fca2a77e16a83deb8dd4e SHA256: db49f038f6a37786f02b0286e4631e5576c9328bd65d48d03a2fb2a0d323861d SHA512: f6d1fb335f178dfb9542213fa2405dc1014acc9011fb105737bd9af7d3d44cbdd9b5ce5878aa186d01e39972bbdcc38f1a8d1cdc26318b214c5a89262ae9cee5 Homepage: https://cran.r-project.org/package=survJamda.data Description: CRAN Package 'survJamda.data' (Data for Package 'survJambda') Three breast cancer gene expression data sets that can be used for package 'survJamda'. This package contains the gene expression and phenotype data of GSE1992, GSE3143 and GSE4335. Package: r-cran-survjamda Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 484 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-survivalroc, r-cran-ecodist, r-bioc-survcomp, r-cran-survjamda.data Filename: pool/dists/focal/main/r-cran-survjamda_1.1.4-1.ca2004.1_all.deb Size: 418632 MD5sum: df6ffef5c1d4deacbac650042ddd1784 SHA1: ed0277f1aea9b3b29970baac6b93ce91e0c85cae SHA256: 9f6e780cc65c5c18950f0b5bca76c2d3cf0e296729c4631c960253ef109d6a06 SHA512: 35e4cd5c6e52387525de62ca17adafff5804b7a2999c86ece108d36e333971b84f6b8a3873570eea9cbde3beeb346d86d4a5a546b58f2ce4b8683d19e587aca6 Homepage: https://cran.r-project.org/package=survJamda Description: CRAN Package 'survJamda' (Survival Prediction by Joint Analysis of Microarray GeneExpression Data) Microarray gene expression data can be analyzed individually or jointly using merging methods or meta-analysis to predict patients' survival and risk assessment. Package: r-cran-survlong Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-survlong_1.5-1.ca2004.1_all.deb Size: 109496 MD5sum: a9789e4e3c0f7e6d5b51ce7959e9d22f SHA1: 1b7718871181ac96db430710408fe3af622c3252 SHA256: 4b9b7222bdcffbf57e170716a7b58aa286e70d5f710105cc66f541392bb442c6 SHA512: fcff9bd77f1eb33d33f268785ff4262479dca8b5e7b5c2355a164ee8d8619fe34c8d98d786bcc420dd166a1df7e25890c96c953d503a53abee3d3e884618c7c3 Homepage: https://cran.r-project.org/package=SurvLong Description: CRAN Package 'SurvLong' (Analysis of Proportional Hazards Model with Sparse LongitudinalCovariates) Provides kernel weighting methods for estimation of proportional hazards models with intermittently observed longitudinal covariates. Cao H., Churpek M. M., Zeng D., and Fine J. P. (2015) . Package: r-cran-survma Architecture: all Version: 1.6.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survival, r-cran-maxlik, r-cran-pec, r-cran-quadprog Filename: pool/dists/focal/main/r-cran-survma_1.6.8-1.ca2004.1_all.deb Size: 81324 MD5sum: 5d418580f152eac7afd9f3cab943d8fc SHA1: 793a62031c4e15b30a15ab9d68a3d377b8ee12e3 SHA256: f352e8bf13dc56c6d765463e67f506eba49b1e1fa03cd470906a81a344033bfd SHA512: 1137d7b16589184ccb1d099e4e0822f6a2a488d98c615d808a793ee9e14cc296f52bafbd983bce112169acd583efd015c8a9facb13332c1e862f47f021ad0b4e Homepage: https://cran.r-project.org/package=SurvMA Description: CRAN Package 'SurvMA' (Model Averaging Prediction of Personalized SurvivalProbabilities) Provide model averaging-based approaches that can be used to predict personalized survival probabilities. The key underlying idea is to approximate the conditional survival function using a weighted average of multiple candidate models. Two scenarios of candidate models are allowed: (Scenario 1) partial linear Cox model and (Scenario 2) time-varying coefficient Cox model. A reference of the underlying methods is Li and Wang (2023) . Package: r-cran-survmetrics Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 201 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survminer, r-cran-survival, r-cran-mass, r-cran-pec Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-caret, r-cran-ggplot2, r-cran-ggpubr, r-cran-randomforestsrc, r-cran-testthat Filename: pool/dists/focal/main/r-cran-survmetrics_0.5.1-1.ca2004.1_all.deb Size: 97888 MD5sum: 322d3f6a62a677fc4ed5f17417033499 SHA1: bd89cd30435ff728c0f3986111f3c5ea736bc3f1 SHA256: c456cd89ddba5494351e9523d7b4165acda6e06df2051685085a7a6bc090d59d SHA512: 50d3e44b5966857e7a3b705744b56d7187584740a2cedabf597ef217df0d82c251d8ce3ac93cb23e867bdbf2abf5a8ce6913992f79e3679237f37f11893556f4 Homepage: https://cran.r-project.org/package=SurvMetrics Description: CRAN Package 'SurvMetrics' (Predictive Evaluation Metrics in Survival Analysis) An implementation of popular evaluation metrics that are commonly used in survival prediction including Concordance Index, Brier Score, Integrated Brier Score, Integrated Square Error, Integrated Absolute Error and Mean Absolute Error. For a detailed information, see (Ishwaran H, Kogalur UB, Blackstone EH and Lauer MS (2008) ) , (Moradian H, Larocque D and Bellavance F (2017) ), (Hanpu Zhou, Hong Wang, Sizheng Wang and Yi Zou (2023) ) for different evaluation metrics. Package: r-cran-survmi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival, r-cran-zoo Filename: pool/dists/focal/main/r-cran-survmi_0.1.0-1.ca2004.1_all.deb Size: 96312 MD5sum: 94a316bdbada70cec1a12b5ebc6b5ca3 SHA1: 2a003c9f0bcd7ba1f15214b711e814b9a723b4ee SHA256: 2eb8422713fad24b7f33b776a54c8b52b97dfa2c7c1928b86355410f4e42dce0 SHA512: 85e41b9b83a147c4eea05699e835b2e4097b9c206d8ab96488d4b3cc40a399c6b4e06077ff2c437377fea32fc3e60c83c97148fc4111740f2ecdabc67746f00a Homepage: https://cran.r-project.org/package=SurvMI Description: CRAN Package 'SurvMI' (Multiple Imputation Method in Survival Analysis) In clinical trials, endpoints are sometimes evaluated with uncertainty. Adjudication is commonly adopted to ensure the study integrity. We propose to use multiple imputation (MI) introduced by Robin (1987) to incorporate these uncertainties if reasonable event probabilities were provided. The method has been applied to Cox Proportional Hazard (PH) model, Kaplan-Meier (KM) estimation and Log-rank test in this package. Moreover, weighted estimations discussed in Cook (2004) were also implemented with weights calculated from event probabilities. In conclusion, this package can handle time-to-event analysis if events presented with uncertainty by different methods. 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Other functions are also available to plot adjusted curves for `Cox` model and to visually examine 'Cox' model assumptions. 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Implements survival stacking for conditional survival estimation, standardized survival function estimation for current status data, and methods for algorithm-agnostic variable importance. See Wolock CJ, Gilbert PB, Simon N, and Carone M (2024) . Package: r-cran-survms Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 665 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-survms_0.0.1-1.ca2004.1_all.deb Size: 537168 MD5sum: 6ecff01a78fd4ee92e1994fc39d5de6a SHA1: fa568466887ebd829760096fe0bc7ece3724baa5 SHA256: 24e779a9a0cffd8faebe53e9c39a6b7cdc741aa66551fb165ac40c82c372f53c SHA512: bb3c22605a31b29b731e07a6a15dd15eab712009cf13ce5cb06e9c4f2c79e2ae8321c20d604f35b4457019860bf603790c4eb8c4f0f5a07841cfd9816dbd4fff Homepage: https://cran.r-project.org/package=survMS Description: CRAN Package 'survMS' (Survival Model Simulation) Package enables the data simulation from different survival models (Cox, AFT, and AH models). The simulated data will have various levels of complexity according to the survival model considered. The implemented methods for the Cox model are described in Ralf Bender, Thomas Augustin, Maria Blettner (2004) . Package: r-cran-survnma Architecture: all Version: 1.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 68 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-netmeta Filename: pool/dists/focal/main/r-cran-survnma_1.1-1-1.ca2004.1_all.deb Size: 31588 MD5sum: 974c92f99d8a51c707cb45a48dd5ce17 SHA1: b0b5a27a59dc4c2b8a59d850f11b409fec5a30d6 SHA256: d09fbfe2014cc28005e2171f69ffda84d593b481e2a0cedf5544861c3bd00202 SHA512: 8c7648f602980603038483db58a2b498e46492c0520e5907e6d714601dbb1bdcef8201e6907c8f07a975c155ec3390955cd1af834440e119fd2d0b4439f089a5 Homepage: https://cran.r-project.org/package=survNMA Description: CRAN Package 'survNMA' (Network Meta-Analysis Combining Survival and Count Outcomes) Network meta-analysis for survival outcome data often involves several studies only involve dichotomized outcomes (e.g., the numbers of event and sample sizes of individual arms). To combine these different outcome data, Woods et al. (2010) proposed a Bayesian approach using complicated hierarchical models. Besides, frequentist approaches have been alternative standard methods for the statistical analyses of network meta-analysis, and the methodology has been well established. We proposed an easy-to-implement method for the network meta-analysis based on the frequentist framework in Noma and Maruo (2025) . This package involves some convenient functions to implement the simple synthesis method. Package: r-cran-survobj Architecture: all Version: 3.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 967 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-ggplot2, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-survobj_3.1.1-1.ca2004.1_all.deb Size: 612452 MD5sum: bcbb8fa5a9004f13994cea497366b66d SHA1: 2afa443f07f8d06accdf82161f1534b6a60bf7cf SHA256: e998d6b71938f45d691683702397fd3aa6d1d97ba8f02f9589345add3a0f8331 SHA512: 5422d06a621eb49fe57335466ca993503d4daceda3c141fd85e2da1e6a3a6cb08e2b50dfc2f70c8cb1bfd818d303678194c35efdc619a9fbfc509ceb9fe2634f Homepage: https://cran.r-project.org/package=survobj Description: CRAN Package 'survobj' (Objects to Simulate Survival Times) Generate objects that simulate survival times. Random values for the distributions are generated using the method described by Bender (2003) and Leemis (1987) in Operations Research, 35(6), 892–894. 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Package: r-cran-survparamsim Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 468 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-broom, r-cran-dplyr, r-cran-eha, r-cran-forcats, r-cran-ggplot2, r-cran-lifecycle, r-cran-magrittr, r-cran-mvtnorm, r-cran-purrr, r-cran-rlang, r-cran-survival, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-survminer, r-cran-testthat, r-cran-vdiffr, r-cran-withr, r-cran-flexsurv Filename: pool/dists/focal/main/r-cran-survparamsim_0.1.7-1.ca2004.1_all.deb Size: 342972 MD5sum: 78e1ee7d53b66901819ba20d96d3a7e0 SHA1: 0badb42c8fbf281da7b59c31520b08095873db1a SHA256: 512aeef6fd757b6d41b732254729403baf5923357733e907f6124e137fd3bf15 SHA512: 644489ffc752c652eabb1b52b5bd5f4339abb07ba5346026b71a8e8e781daf604ef4d855d85156fabf02722636707f59b78204f68d164cb333eba5f58d85bf00 Homepage: https://cran.r-project.org/package=survParamSim Description: CRAN Package 'survParamSim' (Parametric Survival Simulation with Parameter Uncertainty) Perform survival simulation with parametric survival model generated from 'survreg' function in 'survival' package. In each simulation coefficients are resampled from variance-covariance matrix of parameter estimates to capture uncertainty in model parameters. Prediction intervals of Kaplan-Meier estimates and hazard ratio of treatment effect can be further calculated using simulated survival data. Package: r-cran-survregcenscov Architecture: all Version: 1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 416 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-survregcenscov_1.7-1.ca2004.1_all.deb Size: 377748 MD5sum: 3969bfe56d2a774b6dc57052fe998d33 SHA1: b43a38c5ebaf9e4b7f27ce011ed0e460044709e1 SHA256: 3c5caa977c9673455f8afcbdb4fa2c7ffc85b892db3304dabb5ca52681457f4a SHA512: 778f1b2809214364878b09cc0f92ee57162cb94c12e2b5c2f4fdd9856c73681a64c874294fb36f9fc9140ba016460ddfbe07cdbffc463966715d615edf8ed634 Homepage: https://cran.r-project.org/package=SurvRegCensCov Description: CRAN Package 'SurvRegCensCov' (Weibull Regression for a Right-Censored Endpoint withInterval-Censored Covariate) The function SurvRegCens() of this package allows estimation of a Weibull Regression for a right-censored endpoint, one interval-censored covariate, and an arbitrary number of non-censored covariates. Additional functions allow to switch between different parametrizations of Weibull regression used by different R functions, inference for the mean difference of two arbitrarily censored Normal samples, and estimation of canonical parameters from censored samples for several distributional assumptions. Hubeaux, S. and Rufibach, K. (2014) . Package: r-cran-survregvb Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-bayestestr, r-cran-invgamma Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-survival Filename: pool/dists/focal/main/r-cran-survregvb_0.0.2-1.ca2004.1_all.deb Size: 135944 MD5sum: a5e2305b5bb2b4daf2320954e78ad619 SHA1: d7c7fdd941ac93fa41d2debaf1e30379e36719b2 SHA256: a226ca6619ee914202ea8b166b21f3eda27326115206ac19a6f2e58a7229f5cd SHA512: 81ee89beb2a1042bfbc88fa7f7e29b54d2476df1cca3c4ada4012781b6fe98d961a08cb603357536489dfd9909fa89151dca3cc98ab653878a5144e2cece0122 Homepage: https://cran.r-project.org/package=survregVB Description: CRAN Package 'survregVB' (Variational Bayesian Analysis of Survival Data) Implements Bayesian inference in accelerated failure time (AFT) models for right-censored survival times assuming a log-logistic distribution. Details of the variational Bayes algorithms, with and without shared frailty, are described in Xian et al. (2024) and Xian et al. (2024) , respectively. Package: r-cran-survrm2 Architecture: all Version: 1.0-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 296 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-survrm2_1.0-4-1.ca2004.1_all.deb Size: 175608 MD5sum: 547fece050cf03f815a8c1f9fa645aac SHA1: 04832d0d15fd7db49d01c6474d1b3d07903f964a SHA256: 51fcab38bd847d9cd2c60000f13a4c64a6f5d2b9cc68cb00a18b9086d5e5297e SHA512: 06597dd206f736baf1c379a22935fde0e3b8704d9ace88972fee47ce196125db6e1d596ee6103db94160034a64c1058f575232a14a41be54c7a3cc36c6277d55 Homepage: https://cran.r-project.org/package=survRM2 Description: CRAN Package 'survRM2' (Comparing Restricted Mean Survival Time) Performs two-sample comparisons using the restricted mean survival time (RMST) as a summary measure of the survival time distribution. Three kinds of between-group contrast metrics (i.e., the difference in RMST, the ratio of RMST and the ratio of the restricted mean time lost (RMTL)) are computed. It performs an ANCOVA-type covariate adjustment as well as unadjusted analyses for those measures. 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Package: r-cran-survrm2perm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-survrm2perm_0.1.0-1.ca2004.1_all.deb Size: 51876 MD5sum: dda2c4e1a1802194289ae5bc08117841 SHA1: cdcf4b4025af7c2e493c163a1aad58ec6d4e1185 SHA256: 5d74937e585b81c2319a2b7517db758c4ec7199af03aebf0ee9553eae2c1998c SHA512: b1cbac7869f54ee660f4970fe294e407d2716da70cbd624cd38a1529cb725b224f0021620c6a9fbe3f600990b1a1b8ead497314ff73ad3e8168be2021b762096 Homepage: https://cran.r-project.org/package=survRM2perm Description: CRAN Package 'survRM2perm' (Permutation Test for Comparing Restricted Mean Survival Time) Performs the permutation test using difference in the restricted mean survival time (RMST) between groups as a summary measure of the survival time distribution. When the sample size is less than 50 per group, it has been shown that there is non-negligible inflation of the type I error rate in the commonly used asymptotic test for the RMST comparison. Generally, permutation tests can be useful in such a situation. However, when we apply the permutation test for the RMST comparison, particularly in small sample situations, there are some cases where the survival function in either group cannot be defined due to censoring in the permutation process. Horiguchi and Uno (2020) have examined six workable solutions to handle this numerical issue. It performs permutation tests with implementation of the six methods outlined in the paper when the numerical issue arises during the permutation process. The result of the asymptotic test is also provided for a reference. Package: r-cran-survsakk Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1010 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-survival Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-survsakk_1.3.2-1.ca2004.1_all.deb Size: 648324 MD5sum: 2e8576df3523d120418d3f4021b19a65 SHA1: 38c8509eb0b585fc352373d5f1f2b020796474ee SHA256: 3ed53250328aef52e82fc8f7f807fe93c37f02d63c0c1e3c9b4e3fdfa355920d SHA512: 1c0ce452df44288244657e921221f244c84f49e169dd59339dcd6ed8202c11cd2e62d5d6458bb060fabf422dec9f6c8e8df20e5034347197f9ccd4c480e411cc Homepage: https://cran.r-project.org/package=survSAKK Description: CRAN Package 'survSAKK' (Create Publication Ready Kaplan-Meier Plots) Incorporate various statistics and layout customization options to enhance the efficiency and adaptability of the Kaplan-Meier plots. Package: r-cran-survsens Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ggplot2, r-cran-interp, r-cran-metr, r-cran-reshape2, r-cran-survival Filename: pool/dists/focal/main/r-cran-survsens_1.1.0-1.ca2004.1_all.deb Size: 125104 MD5sum: 6392096bfd444a85eee352bdb6614d45 SHA1: 07f2d5ef5f6fada4a04136fd3fe801ca05437b15 SHA256: 6d9543b0874d4493c939fba14389c4cf09f44f53371047685bc33a66ff26a931 SHA512: ca64c0e719e8da7101847565a5058491a866953cbe0dd6d5f85bf55c87cbfc335cbb5c0454dce49db56d6fec96994e7c16096fd3f625a62cbd50d503de85227a Homepage: https://cran.r-project.org/package=survSens Description: CRAN Package 'survSens' (Sensitivity Analysis with Time-to-Event Outcomes) Performs a dual-parameter sensitivity analysis of treatment effect to unmeasured confounding in observational studies with either survival or competing risks outcomes. Huang, R., Xu, R. and Dulai, P.S.(2020) . Package: r-cran-survsim Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-eha, r-cran-statmod Filename: pool/dists/focal/main/r-cran-survsim_1.1.8-1.ca2004.1_all.deb Size: 124584 MD5sum: 7349174349e8fb32b6613facc36f6127 SHA1: 6e3e880dfee479aca862e86a635f1f2035aa1b5f SHA256: cdcf572d8dd13d1cc2cdd039255ee5a4b86a7c4da93ee855c355ad6c1f9ed5c5 SHA512: bfa09c0b9070e2bc2d785b1084b4033c8520608e1369569d41934d04eb9f528b1d618cb161c72079dace953469da4d88eadd40ace8a5d85bbd34c4b15bf01af3 Homepage: https://cran.r-project.org/package=survsim Description: CRAN Package 'survsim' (Simulation of Simple and Complex Survival Data) Simulation of simple and complex survival data including recurrent and multiple events and competing risks. See Moriña D, Navarro A. (2014) and Moriña D, Navarro A. (2017) . Package: r-cran-survsparse Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-mass, r-cran-nloptr, r-cran-nleqslv, r-cran-tibble, r-cran-foreach, r-cran-gaussquad, r-cran-purrr Filename: pool/dists/focal/main/r-cran-survsparse_0.1-1.ca2004.1_all.deb Size: 63528 MD5sum: ff8ed1f586def9fd1bd32c1496a08d19 SHA1: 9abdb35c3ce0525dc1354fd8b1a4f616212cedca SHA256: b872aaad95101717b032602e2206dbd7e1406665e1df5de6a532c77dcb417826 SHA512: 27d5e290db4f93575284f1d15900468d5bbc7f9083c3e2c348fbd7f6c7a72c04c443db8f38e5620eb2e56fd2d67d2084f6c3d33cc1955193c0c3d843a2b075fd Homepage: https://cran.r-project.org/package=SurvSparse Description: CRAN Package 'SurvSparse' (Survival Analysis with Sparse Longitudinal Covariates) Survival analysis with sparse longitudinal covariates under right censoring scheme. Different hazards models are involved. Please cite the manuscripts corresponding to this package: Sun, Z. et al. (2022) , Sun, Z. and Cao, H. (2023) and Sun, D. et al. (2023) . Package: r-cran-survspearman Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 496 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-survspearman_1.0.1-1.ca2004.1_all.deb Size: 317880 MD5sum: 8d034ede294e5cd740af2c09c0d69b78 SHA1: 74ec1a0a4c44a199cdfd92cdd833c974096e09aa SHA256: 9aaee14284d6b364d25c472984823b5392763adb96869cd7979d3411c5ebe30a SHA512: d3e3db382519f4f2277571125384b9bfced0165cc8fdd80b5f6fcf8b12e6807ebe45b775f079cef390d0b3af117725bdbfd6f9eb61f78647f656ec39f755dd3a Homepage: https://cran.r-project.org/package=survSpearman Description: CRAN Package 'survSpearman' (Nonparametric Spearman's Correlation for Survival Data) Nonparametric estimation of Spearman's rank correlation with bivariate survival (right-censored) data as described in Eden, S.K., Li, C., Shepherd B.E. (2021), Nonparametric Estimation of Spearman's Rank Correlation with Bivariate Survival Data, Biometrics (under revision). The package also provides functions that visualize bivariate survival data and bivariate probability mass function. Package: r-cran-survtmle Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3764 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-speedglm, r-cran-superlearner, r-cran-plyr, r-cran-dplyr, r-cran-tidyr, r-cran-stringr, r-cran-ggplot2, r-cran-ggsci Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-survival, r-cran-cmprsk, r-cran-tibble Filename: pool/dists/focal/main/r-cran-survtmle_1.1.1-1.ca2004.1_all.deb Size: 3610008 MD5sum: 5c93fe6cc4d352677f0cd2a8db9124c6 SHA1: ed43070b597404fc3ccd5df8676fef4a27b84621 SHA256: 8b9bc16f30bceff34d6dd994fe2ab5fa8a9e2bcc939d174d8939d849c32ccd15 SHA512: 740f2296c81beffb3f4bb2de35c292861c0e9bf93eca0c37955b1200528cce03decce4a62e717c3bc73ba02110bf2b163df175f4a7756d4bda5971ca8a149dbd Homepage: https://cran.r-project.org/package=survtmle Description: CRAN Package 'survtmle' (Compute Targeted Minimum Loss-Based Estimates in Right-CensoredSurvival Settings) Targeted estimates of marginal cumulative incidence in survival settings with and without competing risks, including estimators that respect bounds (Benkeser, Carone, and Gilbert. Statistics in Medicine, 2017. ). Package: r-cran-survtrunc Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-survtrunc_0.2.0-1.ca2004.1_all.deb Size: 76436 MD5sum: 2c6e30be86595d8fef44fd5ed9bba29f SHA1: cc80a438d41bb8ed186f62286d80b0375ab48a82 SHA256: 0dc4e308516230d1cb32f6a00c2bad73fd208944fdcc994cf84f491ce7954ee0 SHA512: 53af33d507e475c8028e2e0bbafc4df4da0c6669f5cfa4ada5e6b3f0de48309f48bb7b444faf938b9024c0d52188afa15dad61bef77912a2043466e65339d2df Homepage: https://cran.r-project.org/package=SurvTrunc Description: CRAN Package 'SurvTrunc' (Analysis of Doubly Truncated Data) Package performs Cox regression and survival distribution function estimation when the survival times are subject to double truncation. In case that the survival and truncation times are quasi-independent, the estimation procedure for each method involves inverse probability weighting, where the weights correspond to the inverse of the selection probabilities and are estimated using the survival times and truncation times only. A test for checking this independence assumption is also included in this package. The functions available in this package for Cox regression, survival distribution function estimation, and testing independence under double truncation are based on the following methods, respectively: Rennert and Xie (2018) , Shen (2010) , Martin and Betensky (2005) . When the survival times are dependent on at least one of the truncation times, an EM algorithm is employed to obtain point estimates for the regression coefficients. The standard errors are calculated using the bootstrap method. See Rennert and Xie (2022) . Both the independent and dependent cases assume no censoring is present in the data. Please contact Lior Rennert for questions regarding function coxDT and Yidan Shi for questions regarding function coxDTdep. Package: r-cran-susenas Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1268 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-readxl Filename: pool/dists/focal/main/r-cran-susenas_0.1.0-1.ca2004.1_all.deb Size: 1200540 MD5sum: e2231271b27a08da2c011c66006424a6 SHA1: d0e64c5f9a135a5130625f19bc9a26c52ec59241 SHA256: cbce217d51e1d0395d8a2dd3fbf28f5aa66c5cda42eefd087d9f28f841e48fe7 SHA512: 243ea26c261b318a9ecfbc00b4720da1b31877794e46439243ac947625a7ef7833ab3b26e79a739fa13705abfe19afa5421a3ac1d2857cb8ed964c1b70a532fe Homepage: https://cran.r-project.org/package=SUSENAS Description: CRAN Package 'SUSENAS' (National Socio-Economic Survey Data Collection Indonesia) Survey to collect data about the social and economic conditions of Indonesian society. This activity aims to include: As a data source for planning and evaluating national, sectoral development programs, and providing indicators for Sustainable Development Goals (TPB), National Medium Term Development Plan (RPJMN), and Nawacita, GDP/GRDP and annual Integrated Institutional Balance Sheet. 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Package: r-cran-svenssonm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 65 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-svenssonm_0.1.0-1.ca2004.1_all.deb Size: 33276 MD5sum: 84f5dc56eed3ef86e5af4d41f9f93132 SHA1: ae061aff6bbc3df8721bf84570a040bea403cb22 SHA256: 35c5d98301d6e1ea0ae207bc71e7ab79469b06f2d3f4ce8c3e0bee094949cb5f SHA512: f5f212c1810033951322836076ce337af98495161a078bc4c19bbad6d0749305f2f30655bf7d0a1de2719cb2730fc5d4e725e5e8d8ed30ea02223e16d53737b4 Homepage: https://cran.r-project.org/package=svenssonm Description: CRAN Package 'svenssonm' (Svensson's Method) Obtain parameters of Svensson's Method, including percentage agreement, systematic change and individual change. Also, the contingency table can be generated. 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Provides three methods for estimation, namely outcome modeling and two factorizations of inverse probability weighting. Under stronger assumptions, these methods estimate the causal population average treatment effect. Salerno et al., (2024) . Package: r-cran-svydiags Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 319 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-survey Suggests: r-cran-doby, r-cran-foreign, r-cran-nhanes, r-cran-sampling Filename: pool/dists/focal/main/r-cran-svydiags_0.7-1.ca2004.1_all.deb Size: 285976 MD5sum: d91b0bf09354d6357f45371ab1a9d5c0 SHA1: 6f464828038938f9a9e1f235d16c813d6222b5fc SHA256: 6a44f54aaa2d6b1c6181cccd83bc5e8f87752fd8ebf1260a37fa00a37d44334f SHA512: 3fc025ffb9074c3188abb7d342134c55b8310e2113b42c716bc8960ebeec3b6f6a4c6ca0f466c3e051c96b933bb92634b1100132b617fa67be42d08871519045 Homepage: https://cran.r-project.org/package=svydiags Description: CRAN Package 'svydiags' (Regression Model Diagnostics for Survey Data) Diagnostics for fixed effects linear and general linear regression models fitted with survey data. Extensions of standard diagnostics to complex survey data are included: standardized residuals, leverages, Cook's D, dfbetas, dffits, condition indexes, and variance inflation factors as found in Li and Valliant (Surv. Meth., 2009, 35(1), pp. 15-24; Jnl. of Off. Stat., 2011, 27(1), pp. 99-119; Jnl. of Off. Stat., 2015, 31(1), pp. 61-75); Liao and Valliant (Surv. Meth., 2012, 38(1), pp. 53-62; Surv. Meth., 2012, 38(2), pp. 189-202). Variance inflation factors and condition indexes are also computed for some general linear models as described in Liao (U. Maryland thesis, 2010). Package: r-cran-svylme Architecture: all Version: 1.5-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 304 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survey, r-cran-minqa, r-cran-matrix, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-svylme_1.5-1-1.ca2004.1_all.deb Size: 237584 MD5sum: b7ea99b2eeda30d94fcbc857cefabe1d SHA1: 76bd75f0fef185d7842e93b2aa7bd0b3bed88873 SHA256: 78e5906b9640cbc31ba9090301f3bc3f6ad00756a1c283a133a57ddfcdbb2ad2 SHA512: 509d445414c2b5864a214198edc8643be7bf0879e140b54aae3e5363fb4255c551cefd79ee0d5cd2d0286992989d164e912e956279dcc90a007445c2ba0836ea Homepage: https://cran.r-project.org/package=svylme Description: CRAN Package 'svylme' (Linear Mixed Models for Complex Survey Data) Linear mixed models for complex survey data, by pairwise composite likelihood, as described in Lumley & Huang (2023) . Supports nested and crossed random effects, and correlated random effects as in genetic models. Allows for multistage sampling and for other designs where pairwise sampling probabilities are specified or can be calculated. Package: r-cran-svynom Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hmisc, r-cran-rms, r-cran-survey, r-cran-survival Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-svynom_1.2-1.ca2004.1_all.deb Size: 39744 MD5sum: 58e872a01fdc16abaccbb50b86401c3c SHA1: 124291a07e5492fd44edff7eebff0f0a697a551e SHA256: 9dd58cb477ac9c0edf06638f4a1deeb246b6dbb7e5e9e9e8861dcb99fa45efc2 SHA512: 89d09323e6452639930a3ebbff64254c7ebca8dbfd5d2734bea9484a83635201a55cd2870f6964ebda3774a2ac3a82672c42228a3e22ff85d0cfadf64968741f Homepage: https://cran.r-project.org/package=SvyNom Description: CRAN Package 'SvyNom' (Nomograms for Right-Censored Outcomes from Survey Designs) Builds, evaluates and validates a nomogram with survey data and right-censored outcomes. As described in Capanu (2015) , the package contains functions to create the nomogram, validate it using bootstrap, as well as produce the calibration plots. Package: r-cran-svyroc Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 252 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-survey, r-cran-svyvarsel Filename: pool/dists/focal/main/r-cran-svyroc_1.0.0-1.ca2004.1_all.deb Size: 214428 MD5sum: 5845c5146049c343fdf344fc94afe79b SHA1: 7e956050efa622662315b008d8642705e452a9d2 SHA256: e8c1b87197fe14ee76f74e7eaa4df13c24656e0392782a926a0595908e6996d3 SHA512: 5c18640384bf90f16c969d19a84d23a80c9391a3c4c08b3fad35d57e067efd2d8839458db935f0ac468764b752831e3b8809b0444e5e611c81b1ac748eb995e6 Homepage: https://cran.r-project.org/package=svyROC Description: CRAN Package 'svyROC' (Estimation of the ROC Curve and the AUC for Complex Survey Data) Estimate the receiver operating characteristic (ROC) curve, area under the curve (AUC) and optimal cut-off points for individual classification taking into account complex sampling designs when working with complex survey data. Methods implemented in this package are described in: A. Iparragirre, I. Barrio, I. Arostegui (2024) ; A. Iparragirre, I. Barrio, J. Aramendi, I. Arostegui (2022) ; A. Iparragirre, I. Barrio (2024) . 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Lumley, I. Barrio, I. Arostegui (2024) . Package: r-cran-svyvgam Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 161 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-vgam, r-cran-survey Suggests: r-cran-pscl, r-cran-knitr, r-cran-markdown, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-svyvgam_1.2-1.ca2004.1_all.deb Size: 73328 MD5sum: 962c757060ac0d6fcecce63133b4b6e6 SHA1: 534da60681d9796852f7629876e7555b8d134ad7 SHA256: 1c7aaf7ae6144a8abdfacc694fdc86694cdf381c4f0ff93f167ccd960c02ddab SHA512: 6c20d1b1747f870eae56ab7177a41a0d373af3ddf23c2b527ec224526097dc83e0bc6490103f164a4643d7d9ab60830d2c8bd8ae880ed91bdbeda45ffe6b894d Homepage: https://cran.r-project.org/package=svyVGAM Description: CRAN Package 'svyVGAM' (Design-Based Inference in Vector Generalised Linear Models) Provides inference based on the survey package for the wide range of parametric models in the 'VGAM' package. Package: r-cran-svyweight Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-survey, r-cran-gdata Suggests: r-cran-dplyr, r-cran-srvyr, r-cran-testthat, r-cran-mice Filename: pool/dists/focal/main/r-cran-svyweight_0.1.0-1.ca2004.1_all.deb Size: 98640 MD5sum: 716357ddba251ad0183fe389ffb3af24 SHA1: 695be48845d0c91a108abaaf90d79bb821974369 SHA256: f3b2b23013001aeb45776cc35d7e9a251e4f0ca59fe3399503ec1a7f71512fc6 SHA512: 8b18ef9bddae42d721c3d00dc1e99392036da0e43f8ea1ed7157959fb75ee0398325d4e39873a4cf111e9106bf9d8ea5df353194e34f826ea9666d8e109973e3 Homepage: https://cran.r-project.org/package=svyweight Description: CRAN Package 'svyweight' (Quick and Flexible Survey Weighting) Quickly and flexibly calculates weights for survey data, in order to correct for survey non-response or other sampling issues. Uses rake weighting, a common technique also know as rim weighting or iterative proportional fitting. This technique allows for weighting on multiple variables, even when the interlocked distribution of the two variables is not known. Interacts with Thomas Lumley's 'survey' package, as described in Lumley, Thomas (2011, ISBN:978-1-118-21093-2). Adds additional functionality, more adaptable syntax, and error-checking to the base weighting functionality in 'survey.' 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This package works on top of the 'caret' package and proceeds in a forward-step manner. More specifically, it builds and tests learners starting from very few attributes until it includes a maximal number of attributes by increasing the number of attributes at each step. Hence, for each fixed number of attributes, the algorithm tests various (randomly selected) learners and picks those with the best performance in terms of training error. Throughout, the algorithm uses the information coming from the best learners at the previous step to build and test learners in the following step. In the end, it outputs a set of strong low-dimensional learners. 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One solution is to use principal component analysis (PCA) results in the regression, as discussed in Chan and Park (2005) . The swaprinc() package streamlines comparisons between a raw regression model with the full set of raw independent variables and a principal component regression model where principal components are estimated on a subset of the independent variables, then swapped into the regression model in place of those variables. The swaprinc() function compares one raw regression model to one principal component regression model, while the compswap() function compares one raw regression model to many principal component regression models. Package functions include parameters to center, scale, and undo centering and scaling, as described by Harvey and Hansen (2022) . Additionally, the package supports using Gifi methods to extract principal components from categorical variables, as outlined by Rossiter (2021) . 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The swarm space concept, the metrics and data sets included are described in: Papadopoulou Marina, Furtbauer Ines, O'Bryan Lisa R., Garnier Simon, Georgopoulou Dimitra G., Bracken Anna M., Christensen Charlotte and King Andrew J. (2023) . Package: r-cran-swash Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 986 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lubridate Filename: pool/dists/focal/main/r-cran-swash_1.2.1-1.ca2004.1_all.deb Size: 921824 MD5sum: e8b79dcbd3a0aa152edae21a61dca69e SHA1: e919be0ad9cbb5ef030024245101da810eae1854 SHA256: 05489b9dcbd2f40310e26dc802e36f4cdf08c474b88212dbf24cd57275809c0a SHA512: db7d1d35676d7f407a3bb8260613a81ea4c1186883fc099c92e08a828deadfd6d15db4035b3f429fb8b436d0bd795a08e8f0c3198ba146fee2c35a733e53f234 Homepage: https://cran.r-project.org/package=swash Description: CRAN Package 'swash' (Swash-Backwash Model for the Single Epidemic Wave) The Swash-Backwash Model for the Single Epidemic Wave was developed by Cliff and Haggett (2006) to model the velocity of spread of infectious diseases across space. 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Package: r-cran-swcrtdesign Architecture: all Version: 4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 195 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lme4, r-cran-lmertest Filename: pool/dists/focal/main/r-cran-swcrtdesign_4.0-1.ca2004.1_all.deb Size: 169600 MD5sum: 329ae97b4c5cfeac5d059540cb6710f5 SHA1: b92b995bfe29a2cb565fb6b9cd6c05bd4e05cb89 SHA256: 79744b8274a4b54dabedbaee3b3c2981ae084055222a347434599d196804c9f0 SHA512: a4a42c69ce3fe944935be8f28949c21fbf5175a57bdf573fbe62f5dd0320df67c2f8a77f93ce0e276f22950d4e698f3656b34a64506e6d723a37ddcc8a3ff587 Homepage: https://cran.r-project.org/package=swCRTdesign Description: CRAN Package 'swCRTdesign' (Stepped Wedge Cluster Randomized Trial (SW CRT) Design) A set of tools for examining the design and analysis aspects of stepped wedge cluster randomized trials (SW CRT) based on a repeated cross-sectional sampling scheme (Hussey MA and Hughes JP (2007) Contemporary Clinical Trials 28:182-191. ). Package: r-cran-swdft Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1429 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-fftwtools, r-cran-fields, r-cran-signal, r-cran-nloptr, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-swdft_1.0.0-1.ca2004.1_all.deb Size: 980164 MD5sum: 71a479ff2a2c53a30a8a0e16b6ebab58 SHA1: 7490403f9add93303cc83ed8f2c8b7fb34d1bbc1 SHA256: 68060c9df51d17521374c60b3719d6b8240249e23a20d176d44f00256617a9e0 SHA512: 47c40fd89b613fe309dbe88c74cc6149a4a3808b7c8ccadcd6c7f5f672532dcbd368fe1d190f5d5385179716a577341fa2a398df0afde457b0762e50bbe17584 Homepage: https://cran.r-project.org/package=swdft Description: CRAN Package 'swdft' (Sliding Window Discrete Fourier Transform (SWDFT)) Implements the Sliding Window Discrete Fourier Transform (SWDFT). 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Package: r-cran-sweepdiscovery Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1705 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-randomforest Filename: pool/dists/focal/main/r-cran-sweepdiscovery_0.1.1-1.ca2004.1_all.deb Size: 1678244 MD5sum: a34675668eae7d34d53af878d863920f SHA1: 83ea46d941975e0283b7269d16ceeb675dcbb90c SHA256: c152842f86a55a57c4c8d418450ebbff7333abe44fa3e9a9d38df7b71e200c1d SHA512: 776c15e1af45277958c2f7e92d92c53722457f850780c44fe210bdb8b0f54fc7c62adbf595d24a25d02aa6331b9c6c0d15a51ae3b659595f1ea2c0307f78f4cb Homepage: https://cran.r-project.org/package=SweepDiscovery Description: CRAN Package 'SweepDiscovery' (Selective Sweep Discovery Tool) Selective sweep is a biological phenomenon in which genetic variation between neighboring beneficial mutant alleles is swept away due to the effect of genetic hitchhiking. 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Package: r-cran-swfscairdas Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1210 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-lubridate, r-cran-magrittr, r-cran-purrr, r-cran-readr, r-cran-rlang, r-cran-stringr, r-cran-swfscdas, r-cran-swfscmisc, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-swfscairdas_0.3.1-1.ca2004.1_all.deb Size: 1065804 MD5sum: c044e2b7f0250ca350f9a42c861e0425 SHA1: c78467bc3220509a0d3094245c3efd2fa3f9de1f SHA256: d393e7e3b9cc07092a6447e1e7dfd51daf49ec23f3718c06dce0d2f3641b1e1d SHA512: d0fed25320660b1eebde362071f636e5c0e73983f0e0d517078e2111a18eab53d5b5ffa18a1b60de9c42ca16c5e20225bc27360205460d5a841fec00f5421e1a Homepage: https://cran.r-project.org/package=swfscAirDAS Description: CRAN Package 'swfscAirDAS' (Southwest Fisheries Science Center Aerial DAS Data Processing) Process and summarize aerial survey 'DAS' data (AirDAS) collected using an aerial survey program from the Southwest Fisheries Science Center (SWFSC) . 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Package: r-cran-swgee Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gee, r-cran-geepack, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-swgee_1.4-1.ca2004.1_all.deb Size: 57340 MD5sum: 9cddc7db673ad5ef050b7eef814a42b9 SHA1: 11efb9f5c14366a2e7af68eb9bb94e5546bac37e SHA256: ad2cb902545e38a75556a7b7a6ee8bef70f80ba9ecb30dd85c24433aeacc9fe4 SHA512: 800d0f2139d5f040a208a0fbdfa041d948791d2ea4615b1320c07beadbfc4d5ed89660c3632686b9d75cd8c7d7e776f4c62053f0483d72504925090961748c0d Homepage: https://cran.r-project.org/package=swgee Description: CRAN Package 'swgee' (Simulation Extrapolation Inverse Probability WeightedGeneralized Estimating Equations) Simulation extrapolation and inverse probability weighted generalized estimating equations method for longitudinal data with missing observations and measurement error in covariates. References: Yi, G. Y. 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To that end 'SwimmeR' allows results to be read in from .html sources, like 'Hy-Tek' real time results pages, '.pdf' files, 'ISL' results, 'Omega' results, and (on a development basis) '.hy3' files. Once read in, 'SwimmeR' can convert swimming times (performances) between the computationally useful format of seconds reported to the '100ths' place (e.g. 95.37), and the conventional reporting format (1:35.37) used in the swimming community. 'SwimmeR' can also score meets in a variety of formats with user defined point values, convert times between courses ('LCM', 'SCM', 'SCY') and draw single elimination brackets, as well as providing a suite of tools for working cleaning swimming data. This is a developmental package, not yet mature. 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These variables are often correlated, and while PCA-based indices can address the issue of multicollinearity, they typically do not account for survey weights, which can lead to inaccurate rankings of survey units such as households, districts, or states. To resolve this, the current package facilitates the development of a principal component analysis-based composite index by incorporating survey weights for each sample observation. This ensures the generation of a survey-weighted principal component-based normalized composite index. Additionally, the package provides a normalized principal component-based composite index and ranks the sample observations based on the values of the composite indices. For method details see, Skinner, C. J., Holmes, D. J. and Smith, T. M. F. (1986) , Singh, D., Basak, P., Kumar, R. and Ahmad, T. (2023) . 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Focused on Australian climate data (SILO climate data), hydrological models (eWater Source) and in particular South Australia ( hydrological data). Package: r-cran-sybil Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2981 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-lattice Suggests: r-cran-glpkapi, r-cran-lpsolveapi Filename: pool/dists/focal/main/r-cran-sybil_2.2.0-1.ca2004.1_all.deb Size: 2115320 MD5sum: e152322ec32bf8cdec16d43319f391c7 SHA1: c815f82d87fbd2c1dcbecea5f49e0cabb0170ea5 SHA256: a1ac748702c51a50ce3c40134d94226f1023209097eda138d6022cae43966647 SHA512: be36f4bea4d84633b013b30d9108a12da337e1bf8560a4cd59bc14783e41d38cc10964c01f80ace8e8861516cb9957a592a69e0565d1b752c13686ffaf502bb9 Homepage: https://cran.r-project.org/package=sybil Description: CRAN Package 'sybil' (Efficient Constrained Based Modelling) This Systems Biology Package (Gelius-Dietrich et. al. 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A., Jarre, F., Gelius-Dietrich, G., & Lercher, M. J. (2015). CycleFreeFlux: efficient removal of thermodynamically infeasible loops from flux distributions. Bioinformatics, 31(13), 2159-2165. . Flux balance analysis is a technique to find fluxes in metabolic models at steady state. It is described in Orth, J.D., Thiele, I. and Palsson, B.O. What is flux balance analysis? Nat. Biotech. 28, 245-248 (2010). 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Package: r-cran-syndi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 247 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mice, r-cran-magrittr, r-cran-dplyr, r-cran-stackimpute, r-cran-arm, r-cran-boot, r-cran-broom, r-cran-mvtnorm, r-cran-randomforest, r-cran-mass, r-cran-knitr Suggests: r-cran-markdown Filename: pool/dists/focal/main/r-cran-syndi_0.1.0-1.ca2004.1_all.deb Size: 131340 MD5sum: c81aa44afca716694b25ce9770e090b4 SHA1: fc2c6fd7183c17d8679aa1676f98ab8b1e9de3b2 SHA256: 06b4240eceda74eff3eea123278dfdc7e22f44c2da66221829187c204df9320a SHA512: b7da672dd65862444b859ad6442f7e1b059ff67abfa640ee31985459a4673bc4e3b5dd987a9ca479ff501fd1b73c4947e3ba68999614310125341360deab9266 Homepage: https://cran.r-project.org/package=SynDI Description: CRAN Package 'SynDI' (Synthetic Data Integration) Regression inference for multiple populations by integrating summary-level data using stacked imputations. Gu, T., Taylor, J.M.G. and Mukherjee, B. (2021) A synthetic data integration framework to leverage external summary-level information from heterogeneous populations . Package: r-cran-synergylmm Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4289 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-rlang, r-cran-dplyr, r-cran-ggplot2, r-cran-cowplot, r-cran-nlme, r-cran-nlmeu, r-cran-fbasics, r-cran-car, r-cran-mass, r-cran-performance, r-cran-lattice, r-cran-marginaleffects, r-cran-clubsandwich Suggests: r-cran-lme4, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-synergylmm_1.0.1-1.ca2004.1_all.deb Size: 3358200 MD5sum: 174d930141ab118108edc7255034ed65 SHA1: 177f75fa83bb51e2e60c68fcb2a98b2c41c9f7d9 SHA256: 763631d2c50e20f3fe15fc79d1ec1560b25ab7318f2f33fac2967ddc0e09287b SHA512: 741ce93737f19f810561a7a82a738714d27464d4a6e2c109962ab748e7551d96ba36ffa57706ce974d6f986807d045365c7493784cf00e0eb9abdd1af9ff7e8e Homepage: https://cran.r-project.org/package=SynergyLMM Description: CRAN Package 'SynergyLMM' (Statistical Framework for in Vivo Drug Combination Studies) A framework for evaluating drug combination effects in preclinical in vivo studies. 'SynergyLMM' provides functions to analyze longitudinal tumor growth experiments using linear mixed-effects models, perform time-dependent analyses of synergy and antagonism, evaluate model diagnostics and performance, and assess both post-hoc and a priori statistical power. The calculation of drug combination synergy follows the statistical framework provided by Demidenko and Miller (2019, ). The implementation and analysis of linear mixed-effect models is based on the methods described by Pinheiro and Bates (2000, ), and Gałecki and Burzykowski (2013, ). Package: r-cran-synfd Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-l1pack, r-cran-rdpack Suggests: r-cran-mass, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-synfd_0.1.3-1.ca2004.1_all.deb Size: 61772 MD5sum: 9b23fdaeae9e31d5254573f551e26ded SHA1: bdf0b68f0b2ae79f06c4088090ca2760ad08488c SHA256: 516cd756699289db204f44ba0b11bb736cd46311a9f93e72be5b192e1ced63b6 SHA512: 03ba3c32abc712c3d65e1efae828d25e43dda7a83455b2e6158f8e1bfb24a4e9027ed1558c4b48dac26c36d5bc0d38ab55ede9d5f4f85e354fa75c77139d83db Homepage: https://cran.r-project.org/package=synfd Description: CRAN Package 'synfd' (Synthesize Dense or Sparse Functional Data/Snippets) Provides a flexible and simple tool to synthesize regular or irregular functional data and snippets to facilitate research or analysis of functional data. Package: r-cran-synoptreg Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5082 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-lubridate, r-cran-magrittr, r-cran-sf, r-cran-rnaturalearth, r-cran-rnaturalearthdata, r-cran-metr, r-cran-raster, r-cran-rncep, r-cran-stringr, r-cran-tidyr, r-cran-tibble, r-cran-kohonen Suggests: r-cran-maptools, r-cran-ncdf4, r-cran-rgeos, r-cran-udunits2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-synoptreg_1.2.1-1.ca2004.1_all.deb Size: 4701512 MD5sum: a11a8e0ad7a0493866ec3fb5804093e6 SHA1: 0a44a74082604fa68245e4b00c973b704ede5d26 SHA256: 4e91258bdac9ab707aa489ba0af7814f6ad9e76b8941b87c184802e1147db320 SHA512: f01513564286f807bea528c13efe1155ae89d269935980ccbcd4e2ca932a8ad9e7243a04a701608291c842e485a9c604ecd20bc6b50a1b92a4d3c57769a70f4b Homepage: https://cran.r-project.org/package=synoptReg Description: CRAN Package 'synoptReg' (Synoptic Climate Classification and Spatial Regionalization ofEnvironmental Data) Set of functions to compute different types of synoptic classification methods and for analysing their effect on environmental variables. More information about the methods used in Lemus-Canovas et al. 2019 , Martin-Vide et al. 2008 , Jenkinson and Collison 1977. 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Package: r-cran-synrnaseqnet Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 141 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-parmigene, r-cran-genkern, r-cran-igraph, r-cran-kernsmooth Filename: pool/dists/focal/main/r-cran-synrnaseqnet_1.0-1.ca2004.1_all.deb Size: 112932 MD5sum: 7ba9ba963c1867f4df5bb28c4aedd5bf SHA1: a6f156320d1356241748ed51ed2841bca717be71 SHA256: 772eb85b26d8ceaf747f8e073b23a13335cf2295cbec4a9b64c8df4968449662 SHA512: e23ce416394c45b7a5929975df754b7431b27f6ab12185e67d8eea7d071ddc1d853f4d807c667c0020c8be49a77dc89ecc513265f5bf70c0be7d361133b39570 Homepage: https://cran.r-project.org/package=synRNASeqNet Description: CRAN Package 'synRNASeqNet' (Synthetic RNA-Seq Network Generation and Mutual InformationEstimates) It implements various estimators of mutual information, such as the maximum likelihood and the Millow-Madow estimator, various Bayesian estimators, the shrinkage estimator, and the Chao-Shen estimator. It also offers wrappers to the kNN and kernel density estimators. Furthermore, it provides various index of performance evaluation such as precision, recall, FPR, F-Score, ROC-PR Curves and so on. Lastly, it provides a brand new way of generating synthetic RNA-Seq Network with known dependence structure. Package: r-cran-syntaxr Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr Suggests: r-cran-covr, r-cran-haven, r-cran-testthat Filename: pool/dists/focal/main/r-cran-syntaxr_0.8.0-1.ca2004.1_all.deb Size: 23324 MD5sum: 10667d94a5e748fe93aef8290fa130cb SHA1: 6fb373dfa199500326d28f775e054e7eab4759ab SHA256: e6d20b206ac93285670ce566bb7a928934d15ecd324cf14f1389600c0811a899 SHA512: fa7d0aebc5393eb745d8a8313d1b4eb03e3a50741cde5c5ea695b73c3e72307378204bb953526f93e89f5c9c0ec9c1947d4732af512bad10c054ffe58aa19665 Homepage: https://cran.r-project.org/package=syntaxr Description: CRAN Package 'syntaxr' (An 'SPSS' Syntax Generator for Multi-Variable Manipulation) A set of functions for generating 'SPSS' syntax files from the R environment. Package: r-cran-syntenyplotter Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2862 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-syntenyplotter_1.0.0-1.ca2004.1_all.deb Size: 2341464 MD5sum: 59a63b61f13cefad9c83af2733fad578 SHA1: b7110e2199d3a6eebfb9b10fc81f3c4495e79bab SHA256: 0d52bb27d41c922a935389d9c1405863f099492f4b7c5ed470c88cf8971f203f SHA512: a17db51ee299ce2fe071288208ce25898ce3b277e6c6e7ea22744e9502706f063c4d424aaab5bfcd1e0e126db85ab783a13c201d1815d4b418f3a31d95535b0c Homepage: https://cran.r-project.org/package=syntenyPlotteR Description: CRAN Package 'syntenyPlotteR' (Genome Synteny Visualization) Draw syntenic relationships between genome assemblies. There are 3 functions which take a tab delimited file containing alignment data for syntenic blocks between genomes to produce either a linear alignment plot, an evolution highway style plot, or a painted ideogram representing syntenic relationships. There is also a function to convert alignment data in the DESCHRAMBLER/inferCAR format to the required data structure. Package: r-cran-synth Architecture: all Version: 1.1-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 170 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-kernlab, r-cran-optimx, r-cran-rgenoud Filename: pool/dists/focal/main/r-cran-synth_1.1-8-1.ca2004.1_all.deb Size: 131372 MD5sum: 1b712e29710709245d44bfece7bd5bc6 SHA1: 9b819ff77038b11cd732cc94908fc869f64baae6 SHA256: 9b9e03c1b3b9016bbe2ea39008dd3d3eafcf439f4c4fd1ef8937afefcd06a644 SHA512: 576d0da6fc49128ed6eaed584a50e4d5063aa7a502c741f0abe0398fc26c78115c2d56a516245ca958540f145c47991054b3f36e1a9173a9c04e2cd502808ea1 Homepage: https://cran.r-project.org/package=Synth Description: CRAN Package 'Synth' (Synthetic Control Group Method for Comparative Case Studies) Implements the synthetic control group method for comparative case studies as described in Abadie and Gardeazabal (2003) and Abadie, Diamond, and Hainmueller (2010, 2011, 2014). The synthetic control method allows for effect estimation in settings where a single unit (a state, country, firm, etc.) is exposed to an event or intervention. It provides a data-driven procedure to construct synthetic control units based on a weighted combination of comparison units that approximates the characteristics of the unit that is exposed to the intervention. A combination of comparison units often provides a better comparison for the unit exposed to the intervention than any comparison unit alone. Package: r-cran-synthcast Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 313 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-synth, r-cran-forcats Suggests: r-cran-knitr, r-cran-covr, r-cran-testthat, r-cran-rmarkdown, r-cran-badger Filename: pool/dists/focal/main/r-cran-synthcast_0.2.1-1.ca2004.1_all.deb Size: 235684 MD5sum: 10fcfa4888cd0c0b859c70be188c6e27 SHA1: 2a18c2b94acc38f3f6ebd22af19754b4db9418cb SHA256: e961ba790f31f4b163608d8e5bb29322ee4c8011e6a4f6540227214a9dee738e SHA512: 3cbeeccd60c212ccfc352a082b1ae661d5e1f399048730a14b5c00f99c9e44335a7e52915ea2005923cf6e6fa3ee8af3242e560015cedac53c5d5dbb46d98405 Homepage: https://cran.r-project.org/package=SynthCast Description: CRAN Package 'SynthCast' (Synthetic Control Method to Forecast Series) Not a new method implementation. Usage of the Synthetic Control Method, see Abadie et al. (2011) , as an ad-hoc approach to forecast series with panel in a specific context. The context being: There are units in different stages of a certain journey, there the assumption that the units’ behavior throw out the journey are similar is valid and there are not enough data to use traditional forecasting methods. For a usage example see the package home page documentation. Package: r-cran-synthesis Architecture: all Version: 1.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3129 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass Suggests: r-cran-zoo, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-devtools Filename: pool/dists/focal/main/r-cran-synthesis_1.2.5-1.ca2004.1_all.deb Size: 1745604 MD5sum: edf2315398f58d79a15578124aba5b8d SHA1: 8831e6da0a174a45823419f5691a590bcb4dc0ae SHA256: 8f41fd6b9be1e735cf03933ee819f4002bd71a080c0438b663e50833beb4a34d SHA512: b9fc6be5d09f4c11bdfb9742d2879c1cf9e5796530c2b22a17e3891a84ba55bc196044aa6e68f6b6852d96498cfe9415dc7729d3d7e41d6380802190280b57b3 Homepage: https://cran.r-project.org/package=synthesis Description: CRAN Package 'synthesis' (Generate Synthetic Data from Statistical Models) Generate synthetic time series from commonly used statistical models, including linear, nonlinear and chaotic systems. Applications to testing methods can be found in Jiang, Z., Sharma, A., & Johnson, F. (2019) and Jiang, Z., Sharma, A., & Johnson, F. (2020) associated with an open-source tool by Jiang, Z., Rashid, M. M., Johnson, F., & Sharma, A. (2020) . Package: r-cran-synthesisr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 841 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringdist Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-synthesisr_0.3.0-1.ca2004.1_all.deb Size: 265036 MD5sum: 147daa871eab577316a0efbd1b7b0ae7 SHA1: 1b06aea5256f72228edb8dc4a4ad39e588e3ffe7 SHA256: fbdf2f90feaed5e8dc680f641897a6f8a7248360905927ddc13403fdf51bf1ad SHA512: 78169adef506ba653ae674d9ae7d94dded747e1feff6a073b738ca5ee1aca60c24730d836721f82406b485f2221020db178299fb251c0bc60425a560156d60ca Homepage: https://cran.r-project.org/package=synthesisr Description: CRAN Package 'synthesisr' (Import, Assemble, and Deduplicate Bibliographic Datasets) A critical first step in systematic literature reviews and mining of academic texts is to identify relevant texts from a range of sources, particularly databases such as 'Web of Science' or 'Scopus'. These databases often export in different formats or with different metadata tags. 'synthesisr' expands on the tools outlined by Westgate (2019) to import bibliographic data from a range of formats (such as 'bibtex', 'ris', or 'ciw') in a standard way, and allows merging and deduplication of the resulting dataset. Package: r-cran-synthesizer Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 213 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-randomforest Suggests: r-cran-tinytest, r-cran-simplermarkdown Filename: pool/dists/focal/main/r-cran-synthesizer_0.4.0-1.ca2004.1_all.deb Size: 123784 MD5sum: fde68675f2097d41b6b729b1deb82b2b SHA1: e420fbbcc594b067da815a4703a0a0c971418eea SHA256: 626e9dfe2eab41b61e998d72df96bb9687ea909c5b25b04c40c99e2352af8263 SHA512: 1162469b128c82c41fa549926116edb92a2d7565a00465ad196384952ca35a102f2935418c80cb9c60dfe2dc124f62f4956bcbbafaf57c502e4301eb623722cb Homepage: https://cran.r-project.org/package=synthesizer Description: CRAN Package 'synthesizer' (Synthesize Data Based on Empirical Quantile Functions and RankOrder Matching) Data is synthesized using a combination of inverse transform sampling using the empirical quantile functions for each variable, and then copying the rank order structure from the original dataset. The syntesizer method has a tunable parameter allowing to gradually move from realistic and possibly unsafe synthetic data to decorrelated data of less utility. Package: r-cran-synthetic Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5067 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-magrittr, r-cran-rlang, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rcolorbrewer, r-cran-actuar Filename: pool/dists/focal/main/r-cran-synthetic_1.1.0-1.ca2004.1_all.deb Size: 3593748 MD5sum: 6ac3bdbedc22ed73963697a2362f46a7 SHA1: 22619db37bd61d580a1e0161a9cf013c38648ab9 SHA256: 495ccecb3c1334beabaecc20afdbc26c18d168ca7f888a47206d82065fe27084 SHA512: 009876596f9f302e60e319621193ec6c5810c7150fe9188b628bdc59a61e20823c48399b93f80e1bfc0f9e684873811f8394f2e57900f399e78024465a1a5e12 Homepage: https://cran.r-project.org/package=SynthETIC Description: CRAN Package 'SynthETIC' (Synthetic Experience Tracking Insurance Claims) Creation of an individual claims simulator which generates various features of non-life insurance claims. An initial set of test parameters, designed to mirror the experience of an Auto Liability portfolio, were set up and applied by default to generate a realistic test data set of individual claims (see vignette). The simulated data set then allows practitioners to back-test the validity of various reserving models and to prove and/or disprove certain actuarial assumptions made in claims modelling. The distributional assumptions used to generate this data set can be easily modified by users to match their experiences. Reference: Avanzi B, Taylor G, Wang M, Wong B (2020) "SynthETIC: an individual insurance claim simulator with feature control" . Package: r-cran-synthpop Architecture: all Version: 1.9-1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2128 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lattice, r-cran-mass, r-cran-nnet, r-cran-ggplot2, r-cran-rpart, r-cran-party, r-cran-foreign, r-cran-plyr, r-cran-proto, r-cran-polspline, r-cran-randomforest, r-cran-ranger, r-cran-classint, r-cran-mipfp, r-cran-survival, r-cran-stringr, r-cran-rmutil, r-cran-broman, r-cran-forcats Filename: pool/dists/focal/main/r-cran-synthpop_1.9-1.1-1.ca2004.1_all.deb Size: 1841336 MD5sum: 41b1ffa9cef4f0091a6713c856ab26c2 SHA1: bab289fd82700478d8a630aa096355b75a23be3c SHA256: f11c5766a6be19966683524a6984e0c68c17ff4d8c1c7b073efb635af0fffe88 SHA512: d4e99e9f6550a61f0a5a17ba7842dfd3ece639b97e1836be42a047e7e3bac0fcf1670f2f50ebefaffab42f58e48549607aa9733a5ee21a3e86bfe5f46502c477 Homepage: https://cran.r-project.org/package=synthpop Description: CRAN Package 'synthpop' (Generating Synthetic Versions of Sensitive Microdata forStatistical Disclosure Control) A tool for producing synthetic versions of microdata containing confidential information so that they are safe to be released to users for exploratory analysis. The key objective of generating synthetic data is to replace sensitive original values with synthetic ones causing minimal distortion of the statistical information contained in the data set. Variables, which can be categorical or continuous, are synthesised one-by-one using sequential modelling. Replacements are generated by drawing from conditional distributions fitted to the original data using parametric or classification and regression trees models. Data are synthesised via the function syn() which can be largely automated, if default settings are used, or with methods defined by the user. Optional parameters can be used to influence the disclosure risk and the analytical quality of the synthesised data. For a description of the implemented method see Nowok, Raab and Dibben (2016) . Functions to assess identity and attribute disclosure for the original and for the synthetic data are included in the package, and their use is illustrated in a vignette on disclosure (Practical Privacy Metrics for Synthetic Data). 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All functions compare an observed data set to one or a set of partially synthetic data sets derived from the observed data to (1) check that data sets have identical attributes, (2) calculate overall and specific variable perturbation rates, (3) check for potential logical inconsistencies, and (4) calculate confidence intervals and standard errors of desired variables in multiple imputed data sets. Confidence interval and standard error formulas have options for either synthetic data sets or multiple imputed data sets. For more information on the formulas and methods used, see Reiter & Raghunathan (2007) . 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Also performs enumeration and counting of semistandard Young tableaux, enumeration of skew semistandard Young tableaux, enumeration of Gelfand-Tsetlin patterns, and computation of Kostka numbers. 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Music syntax can be entered directly in character strings, for example to quickly transcribe short pieces of music. The package contains functions for directly performing various mathematical, logical and organizational operations and musical transformations on special object classes that facilitate working with music data and notation. The same music data can be organized in tidy data frames for a familiar and powerful approach to the analysis of large amounts of structured music data. Functions are available for mapping seamlessly between these formats and their representations of musical information. The package also provides an API to 'LilyPond' () for transcribing musical representations in R into tablature ("tabs") and sheet music. 'LilyPond' is open source music engraving software for generating high quality sheet music based on markup syntax. The package generates 'LilyPond' files from R code and can pass them to the 'LilyPond' command line interface to be rendered into sheet music PDF files or inserted into R markdown documents. The package offers nominal MIDI file output support in conjunction with rendering sheet music. The package can read MIDI files and attempts to structure the MIDI data to integrate as best as possible with the data structures and functionality found throughout the package. 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For example, 'tabs' can model how island archipelagos expand or contract with changing sea levels or how alpine biomes shift in response to tree line movements. It provides functionality to account for various geophysical processes such as crustal deformation and other tectonic changes, allowing for a more accurate representation of biogeographic system dynamics. For more information see De Groeve et al. (2025) . Package: r-cran-tabshiftr Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1511 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-checkmate, r-cran-rlang, r-cran-tibble, r-cran-dplyr, r-cran-tidyr, r-cran-magrittr, r-cran-tidyselect, r-cran-testthat, r-cran-crayon, r-cran-purrr, r-cran-stringr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bookdown, r-cran-readr, r-cran-covr Filename: pool/dists/focal/main/r-cran-tabshiftr_0.4.1-1.ca2004.1_all.deb Size: 592380 MD5sum: 052d01a7f39d33a6ff2da2ad5e13a778 SHA1: d4f9766f3ff39158ca2a0b307f5bc50cfc7dd841 SHA256: 3fff4e704e899ddf660ee3850d988326dc151368a474aa1022891eb05519c3fd SHA512: fff5529603a45dcdd7b448c995a4b7d1136feb506889cb930bbce9f91ec29ffc533a5314dd8ddc90009d04212242da15295d6125547eceecc31a242c74925841 Homepage: https://cran.r-project.org/package=tabshiftr Description: CRAN Package 'tabshiftr' (Reshape Disorganised Messy Data) Helps the user to build and register schema descriptions of disorganised (messy) tables. Disorganised tables are tables that are not in a topologically coherent form, where packages such as 'tidyr' could be used for reshaping. The schema description documents the arrangement of input tables and is used to reshape them into a standardised (tidy) output format. Package: r-cran-tabtibble Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-cran-vctrs Suggests: r-cran-dplyr, r-cran-glue, r-cran-pander, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-tabtibble_0.0.1-1.ca2004.1_all.deb Size: 26728 MD5sum: c9aa03cd5a4eccb62cb3ec2362adef87 SHA1: 6babe929bde8a5c37670e51fd008e1f192e57b50 SHA256: e53425ce5f2b44a3837e4636c802e99c6d129c8fa0827cc3a1d609576bff46c6 SHA512: ce0641b3e0e89b1287f5ed63dac71eba1a70ba44aa588fe2dd75cb65b6f2d9b7b62b72a74f5c15cea4ceb73e072c5d94e2c16a2787d35b7b8befef763799db0d Homepage: https://cran.r-project.org/package=tabtibble Description: CRAN Package 'tabtibble' (Simplify Reporting Many Tables) Simplify reporting many tables by creating tibbles of tables. 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Package: r-cran-tabula Architecture: all Version: 3.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2293 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-arkhe, r-cran-khroma Suggests: r-cran-folio, r-cran-fontquiver, r-cran-knitr, r-cran-markdown, r-cran-rsvg, r-cran-svglite, r-cran-tinysnapshot, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-tabula_3.3.1-1.ca2004.1_all.deb Size: 1047716 MD5sum: f1a8e2ed0b36bee67a10ef5fa1d6d727 SHA1: 2dd246c1ed6ff2a399a9748eb7d09630c075f5e5 SHA256: ebe9437b9c3fd2b24ff147419092317b07d528a5a446c331c22d87d4f16a5fa0 SHA512: b7689eb7fd21fb5eda9a6a8e39737286df22e5a6e7c0f88459986cf3d217d0a83b628fbabaf0d9fd40dea662b13b91a87c5b2ed8a7ad609419b69348f4bdc17f Homepage: https://cran.r-project.org/package=tabula Description: CRAN Package 'tabula' (Analysis and Visualization of Archaeological Count Data) An easy way to examine archaeological count data. 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It allows to easily visualize count data and statistical thresholds: rank vs abundance plots, heatmaps, Ford (1962) and Bertin (1977) diagrams, etc. Package: r-cran-tabulapdf Architecture: all Version: 1.0.5-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 13935 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-png, r-cran-readr, r-cran-rjava Suggests: r-cran-knitr, r-cran-miniui, r-cran-shiny, r-cran-testthat, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-tabulapdf_1.0.5-5-1.ca2004.1_all.deb Size: 12518504 MD5sum: c3c7922dc33593dae76fdcdb9039292e SHA1: d9b8c977df174194d8ab73ebca2b64e2f8cc2fd2 SHA256: 1a4ddd67e6bbd478f39f44db1200d3ac65c47293939f0d3abe4867a3283ea87a SHA512: 5e55c108f8a1f5b961614da9f1cb12d68adbb5d627785ea21c95be2e511c12a906d63fe98b40f93617d7223611e2d11c9117d63f9e7d816e2adddc19ae9e2051 Homepage: https://cran.r-project.org/package=tabulapdf Description: CRAN Package 'tabulapdf' (Extract Tables from PDF Documents) Bindings for the 'Tabula' 'Java' library, which can extract tables from PDF files. This tool can reduce time and effort in data extraction processes in fields like investigative journalism. It allows for automatic and manual table extraction, the latter facilitated through a 'Shiny' interface, enabling manual areas selection\ with a computer mouse for data retrieval. Package: r-cran-tabularaster Architecture: all Version: 0.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2324 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-fasterize, r-cran-magrittr, r-cran-raster, r-cran-silicate, r-cran-spatstat.geom, r-cran-tibble Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-spelling Filename: pool/dists/focal/main/r-cran-tabularaster_0.7.2-1.ca2004.1_all.deb Size: 2031924 MD5sum: d565629a81a0a978ba3b8365298668e5 SHA1: 543655befc734d73e644432d5311e8dd2ae7e5dc SHA256: d6372914ba8429ab09becef348095a851ba36c12206961306f09111c59cf989d SHA512: 3266042e6443e0815e8f2a5a34f8f42b4472bef4eb88a4501e19d305e6035e45b4ae7072e483869f33251c8ff7bbaed4fae76888d93378a4ed6191c4b7570c9f Homepage: https://cran.r-project.org/package=tabularaster Description: CRAN Package 'tabularaster' (Tidy Tools for 'Raster' Data) Facilities to work with vector and raster data in efficient repeatable and systematic work flow. Missing functionality in existing packages is included here to allow extraction from raster data with 'simple features' and 'Spatial' types and to make extraction consistent and straightforward. Extract cell numbers from raster data and return the cells as a data frame rather than as lists of matrices or vectors. The functions here allow spatial data to be used without special handling for the format currently in use. Package: r-cran-tabularmaps Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggforce, r-cran-ggplot2, r-cran-purrr, r-cran-rlang Suggests: r-cran-countrycode, r-cran-zipangu, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tabularmaps_0.1.0-1.ca2004.1_all.deb Size: 202792 MD5sum: 607cdda101b356e3e99ee5a312ea3b39 SHA1: 527403d5affa511b8cbad19bcc974990828008de SHA256: e4a49e3a5e184ab1f1c831aac3aeea80b87363d93e009ef88d77372cedd2a458 SHA512: 6f0b64a298ea5b399deb4981cb5d2bc7d91b49faa848246573ab751aeca7deac4994b89e7e3c77e1ce049ea5367d49ef66e46e366b676ce5a4f2cbb9842d06eb Homepage: https://cran.r-project.org/package=tabularmaps Description: CRAN Package 'tabularmaps' (Create Tile-Grid Geographical Maps) The 'tabularmap' is one of the visualization methods for efficiently displaying data consisting of multiple elements by tiling them. When dealing with geospatial, it corrects for differences in visibility between areas. Package: r-cran-tabulator Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertthat, r-cran-dplyr, r-cran-data.table, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-stringr, r-cran-tibble, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-tabulator_1.0.0-1.ca2004.1_all.deb Size: 23736 MD5sum: 2e45202e89cbf8fee44ce448966eb508 SHA1: 591866f4001a7c9a99ab8c520ee7fc66659bd528 SHA256: 132ee4a32958cda527d43d7c85c3eb569ee42a81ee2ec16c3bbe9254d8d0011d SHA512: ba82236f18ea003ac8e60e8a177597c4ef00cd1c29fcf6326b8d5d9162b2bece4147e713f424ead466c043d0d4882bb46480a4bafc5aea0d3152b527291c05b5 Homepage: https://cran.r-project.org/package=tabulator Description: CRAN Package 'tabulator' (Efficient Tabulation with Stata-Like Output) Efficient tabulation with Stata-like output. For each unique value of the variable, it shows the number of observations with that value, proportion of observations with that value, and cumulative proportion, in descending order of frequency. Accepts data.table, tibble, or data.frame as input. Efficient with big data: if you give it a data.table, tab() uses data.table syntax. Package: r-cran-tabulog Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 100 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-yaml Suggests: r-cran-lubridate, r-cran-knitr, r-cran-readr Filename: pool/dists/focal/main/r-cran-tabulog_0.1.1-1.ca2004.1_all.deb Size: 43264 MD5sum: 0c16b564b7fe185110ad62f146233b54 SHA1: 494820c8125e5e818347287a7750d277ad32146e SHA256: 53ec92c41a2e50dd1d37b9a788d77f5fa55f331f2efbef995b3b2386c7bc8c47 SHA512: 24ec35e7566d5302ad6e08add0e9440d5e33133f1c88dad727b00936680274e50cd16aa30c0a1eaa521e90491ce0f3409da568fe28882562bae42da822fdde05 Homepage: https://cran.r-project.org/package=tabulog Description: CRAN Package 'tabulog' (Parsing Semi-Structured Log Files into Tabular Format) Convert semi-structured log files (such as 'Apache' access.log files) into a tabular format (data.frame) using a standard template system. Package: r-cran-tabusearch Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tabusearch_1.1.1-1.ca2004.1_all.deb Size: 26188 MD5sum: 2817dc1047f0a9769d69e6ed64d2c0d3 SHA1: 0053bcfbf421c7aa71b76a3ac97ddaaad4fd7e99 SHA256: 9cba9a377db389d7aed7cd0a032eb9f556d44b30ac8e4d5f27d93584206189cb SHA512: 93b0dce937560d4f5804231f545ca6b184fec693ef16a7efa7c6444be9ef42eb38dc5cef8d2b6855c996215106afe6af02a4cc0b3fdd0ac539ff3ec6a68e27be Homepage: https://cran.r-project.org/package=tabuSearch Description: CRAN Package 'tabuSearch' (Tabu Search Algorithm for Binary Configurations) Tabu search algorithm for binary configurations. A basic version of the algorithm as described by Fouskakis and Draper (2007) . Package: r-cran-tabxplor Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1187 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-stringr, r-cran-crayon, r-cran-forcats, r-cran-magrittr, r-cran-purrr, r-cran-rlang, r-cran-tibble, r-cran-tidyr, r-cran-vctrs, r-cran-cli, r-cran-tidyselect, r-cran-stringi, r-cran-pillar, r-cran-kableextra, r-cran-desctools, r-cran-data.table Suggests: r-cran-fansi, r-cran-htmltools, r-cran-jmvcore, r-cran-knitr, r-cran-openxlsx, r-cran-r6, r-cran-ggpubr, r-cran-ggplot2, r-cran-cowplot, r-cran-gtable, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-testthat, r-cran-labelled Filename: pool/dists/focal/main/r-cran-tabxplor_1.3.0-1.ca2004.1_all.deb Size: 746820 MD5sum: b5bb5bd40f7bfd602f9e89ed521ef04a SHA1: f985d589cabdff2ae8eaf1783f513aba10e6a6fb SHA256: 8c0fe0bae92afa6bb07232eed2288af4c18096bb2811ed7068d6d7472b57cf54 SHA512: 2a7acec074fa42c5519635d5fa677700843d02de040171e16fbe2aa3bb436df148b7c4c5f9fe7f2c920bf8ad0d2a296002e6b009c5ba16e6f544db9af80df409 Homepage: https://cran.r-project.org/package=tabxplor Description: CRAN Package 'tabxplor' (User-Friendly Tables with Color Helpers for Data Exploration) Make it easy to deal with multiple cross-tables in data exploration, by creating them, manipulating them, and adding color helpers to highlight important informations (differences from totals, comparisons between lines or columns, contributions to variance, confidence intervals, odds ratios, etc.). All functions are pipe-friendly and render data frames which can be easily manipulated. In the same time, time-taking operations are done with 'data.table' to go faster with big dataframes. Tables can be exported with formats and colors to 'Excel', plot and html. Package: r-cran-tacmagic Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3033 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-r.matlab Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-tacmagic_0.3.1-1.ca2004.1_all.deb Size: 502428 MD5sum: 3026f32c89f53e550de6bec25d797c60 SHA1: 5393686ad7dbd7e1240b4f26dbc80ebc081fea25 SHA256: 9d02099857bdf5ea19eff2092cfc0842c9436d67c2a61c9111feba8ff94ff8f0 SHA512: c4890f0dfd6b3a81cd18b38090cd547475e705bb4c89e9d35d28c5c23a3055e8eef1c9af88ee2be2e091c7632140d207e6fc02b7c8941e7ac8b9ad5f683ea89f Homepage: https://cran.r-project.org/package=tacmagic Description: CRAN Package 'tacmagic' (Positron Emission Tomography Time-Activity Curve Analysis) To facilitate the analysis of positron emission tomography (PET) time activity curve (TAC) data, and to encourage open science and replicability, this package supports data loading and analysis of multiple TAC file formats. Functions are available to analyze loaded TAC data for individual participants or in batches. Major functionality includes weighted TAC merging by region of interest (ROI), calculating models including standardized uptake value ratio (SUVR) and distribution volume ratio (DVR, Logan et al. 1996 ), basic plotting functions and calculation of cut-off values (Aizenstein et al. 2008 ). Please see the walkthrough vignette for a detailed overview of 'tacmagic' functions. 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This framework mobilized a study of the relationship between the moments describing the shape of the distributions: the skewness and the kurtosis (SKR). The SKR allows the identification of commonalities in the shape of trait distributions across contrasting communities. Derived from the SKR, we developed mathematical parameters that summarise the complex pattern of distributions by assessing (i) the R², (ii) the Y-intercept, (iii) the slope, (iv) the functional stability of community (TADstab), and, (v) the distance from specific distribution families (i.e., the distance from the skew-uniform family a limit to the highest degree of evenness: TADeve). 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Package: r-cran-tanb Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-fdrtool Filename: pool/dists/focal/main/r-cran-tanb_0.1-1.ca2004.1_all.deb Size: 19516 MD5sum: b202b8f2e3dde2bd05d1f6ab20f2111c SHA1: 10e4a84c6b8717f2f21588e1ebb7086a45788489 SHA256: b37c3ac78a785f0f3830b44e92cb6bd7f53db16f98609ea92a7f92cfd5fbd311 SHA512: 8db1f8180f4ae62e30c9b965cd8919962c2ace0f1ea60d4d57c2b99d06922f1cd5477edeb56aa42242baa2050df489897d5cff430f1ed124f0aa3676f2461433 Homepage: https://cran.r-project.org/package=TanB Description: CRAN Package 'TanB' (The TanB Distribution) Density, distribution function, quantile function, random generation and survival function for the Tangent Burr Type XII Distribution as defined by SOUZA, L. New Trigonometric Class of Probabilistic Distributions. 219 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics and Information, Federal Rural University of Pernambuco, Recife, Pernambuco, 2015 (available at ) and BRITO, C. C. R. Method Distributions generator and Probability Distributions Classes. 241 p. Thesis (Doctorate in Biometry and Applied Statistics) - Department of Statistics University of Pernambuco, Recife, Pernambuco, 2014 (available upon request). Package: r-cran-tandem Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 165 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-matrix Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tandem_1.0.3-1.ca2004.1_all.deb Size: 95004 MD5sum: 400fc98a247a6f2ad1784f9336d03ec6 SHA1: bf26e4417e6964ca1e4f44ad3c7dc1b67bf6e21f SHA256: 1d0f15df0bc1c502455a6faabc96bc68919ffc7df2bce215a77a38b52df3dc7f SHA512: 67c78ee9ac196d12d4d5bb99ebe6c750b7aef77ab290da5439f2958113cbda18b3340ffe02b82c0282b5f1173d6b25162733fef7ad94936e10302a9dcaf784c3 Homepage: https://cran.r-project.org/package=TANDEM Description: CRAN Package 'TANDEM' (A Two-Stage Approach to Maximize Interpretability of DrugResponse Models Based on Multiple Molecular Data Types) A two-stage regression method that can be used when various input data types are correlated, for example gene expression and methylation in drug response prediction. In the first stage it uses the upstream features (such as methylation) to predict the response variable (such as drug response), and in the second stage it uses the downstream features (such as gene expression) to predict the residuals of the first stage. In our manuscript (Aben et al., 2016, ), we show that using TANDEM prevents the model from being dominated by gene expression and that the features selected by TANDEM are more interpretable. 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Package: r-cran-tangles Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1650 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-terra, r-cran-sf, r-cran-digest Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tangles_2.0.1-1.ca2004.1_all.deb Size: 1529228 MD5sum: 00a3384f29441201cd897b198e972762 SHA1: b33a20d732e113a3c5a5eb3b0b9f02bf036553b6 SHA256: df3efe1725b30ba478f8c69863e1e61d3d49a7f66ebed668d181ec44a500f884 SHA512: e6d73fe3c2c580e2432e48344c4a32de6e3a1c2e872f841f173aed6f03dfd18e17ae3b89ce524b9dfbc0d63bd316fcaf40e49d928cda3909f5cb5e573d9b44b1 Homepage: https://cran.r-project.org/package=tangles Description: CRAN Package 'tangles' (Anonymisation of Spatial Point Patterns and Grids) Methods for anonymisation of spatial datasets while preserving spatial structure and relationships. Original coordinates or raster geometries are transformed using randomized or predefined vertical shifts, horizontal shifts, and rotations. Compatible with point-based data in 'matrix', 'data.frame', or 'sf' formats, as well as 'terra' raster objects. Supports reversible anonymisation workflows, hash-based validation, shapefile export, and consistent tangling across related datasets using stored transformation sequences. Approach informed by the De-Identification Decision Making Framework (CM O’Keefe, S Otorepec, M Elliot, E Mackey, and K O’Hara 2017) . Package: r-cran-tangpoemr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jiebar Filename: pool/dists/focal/main/r-cran-tangpoemr_0.1.0-1.ca2004.1_all.deb Size: 20312 MD5sum: 9e75df40f850c6a588dc0a07433896c8 SHA1: 74acf01035ddd6f2a3a5e04c9fc1b6aaea6bfc89 SHA256: 15ba804dbed7f941d469d9b3ff20429b83686f2587623fa9e589d9d5ef6aa3eb SHA512: 18a0824d219c288d0ce7387f410fdd91d7d5148a31365c157cec453339dc38bad7a0e7de2d1acc523f8cbc173e59086892b571d9cc79cd6554fdf414773b3766 Homepage: https://cran.r-project.org/package=TangPoemR Description: CRAN Package 'TangPoemR' (Write Chinese Tang Poems) Write Chinese Tang Poems automatically. Package: r-cran-tangram.pipe Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 463 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr Suggests: r-cran-knitr, r-cran-kableextra, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tangram.pipe_1.1.2-1.ca2004.1_all.deb Size: 183912 MD5sum: 3e8d8301b21abf4675c407469ad2c681 SHA1: 9b8d37cab7db371618415cf2a47ce2f045e703b0 SHA256: fede2ee73e41d3edf638c65b87a829b9ce021c8f2e4160ed7a088bf5cf44ba0b SHA512: 21274eefec743c8440e46218a535afedededd2c7db597f9f729fb324a849df487582e81e93ef87e34cc44196e90f7ce4370b22dd53e69e14599d830e6f722ddb Homepage: https://cran.r-project.org/package=tangram.pipe Description: CRAN Package 'tangram.pipe' (Row-by-Row Table Building) Builds tables with customizable rows. Users can specify the type of data to use for each row, as well as how to handle missing data and the types of comparison tests to run on the table columns. 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Package: r-cran-taper Architecture: all Version: 0.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 401 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-nlme, r-cran-pracma Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-taper_0.5.3-1.ca2004.1_all.deb Size: 336120 MD5sum: c838f1b595c5ad305ab03589903b468d SHA1: 532ce6bf0414e77e341b5e44087967f776172963 SHA256: 278a3ce650edd00e29e29e3273c0e67cb6942cc0074c51ce7fbc01dfeb79c9bc SHA512: 6264758031e9caebf1a0d720974d0270cd3d6b9df3864d06f03f60298d07a02e7ae8624b629b6a6d5a992f86fa42fbd248e952ee11892885a76d093c8d7a694d Homepage: https://cran.r-project.org/package=TapeR Description: CRAN Package 'TapeR' (Flexible Tree Taper Curves Based on Semiparametric Mixed Models) Implementation of functions for fitting taper curves (a semiparametric linear mixed effects taper model) to diameter measurements along stems. Further functions are provided to estimate the uncertainty around the predicted curves, to calculate timber volume (also by sections) and marginal (e.g., upper) diameters. For cases where tree heights are not measured, methods for estimating additional variance in volume predictions resulting from uncertainties in tree height models (tariffs) are provided. The example data include the taper curve parameters for Norway spruce used in the 3rd German NFI fitted to 380 trees and a subset of section-wise diameter measurements of these trees. The functions implemented here are detailed in Kublin, E., Breidenbach, J., Kaendler, G. (2013) . Package: r-cran-tapkee Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-scatterplot3d, r-cran-rgl, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-tapkee_1.2-1.ca2004.1_all.deb Size: 225056 MD5sum: 695b05e1acd97c5cd115d6ea81673502 SHA1: 76973dd2e80965c51f6253b226c0f9d2cf4e75fc SHA256: 25e2776a1108a44fa93a61b39bb385dc0e25906f1afb35b7acb1d70ac5b9a301 SHA512: ac25954cc6e66178b1f7b954887b6b1def064d6e30f65b7324929d8ca1905031b88563f229e847f7f3b874a1bc636a0c898230e348da738f8ada750ed7fe9110 Homepage: https://cran.r-project.org/package=tapkee Description: CRAN Package 'tapkee' (Wrapper for 'tapkee' Dimension Reduction Library) Wrapper for using 'tapkee' command line utility, it allows to run it from inside R and catch the results for further analysis and plotting. 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Package: r-cran-tapnet Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 309 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-bipartite, r-cran-mpsem, r-cran-phytools, r-cran-vegan Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-tapnet_0.3-1.ca2004.1_all.deb Size: 272760 MD5sum: a3d1315bcbd9bb27358ca418a1c87911 SHA1: 132a9d84f899178da1663ba2c06a9463eb61f919 SHA256: f658b71e566eec263e32f724d13fa465a868dfd1881265e61cff69d0df3cf542 SHA512: c3f76c8a6ee9b48bff7f57dfd702c0c9d99588e2c96016dd5f9ca39810c21040bc7297c3aa161af733c8e4f6ed6afc1e2cf51025c32374fe83b27ab8a94a490d Homepage: https://cran.r-project.org/package=tapnet Description: CRAN Package 'tapnet' (Trait Matching and Abundance for Predicting Bipartite Networks) Functions to produce, fit and predict from bipartite networks with abundance, trait and phylogenetic information. Its methods are described in detail in Benadi, G., Dormann, C.F., Fruend, J., Stephan, R. & Vazquez, D.P. (2021) Quantitative prediction of interactions in bipartite networks based on traits, abundances, and phylogeny. The American Naturalist, in press. Package: r-cran-tar Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-tar_1.0-1.ca2004.1_all.deb Size: 155020 MD5sum: 6a8440b3780a2d61a91dbb41a339267a SHA1: a98664510a56cabf6431bef03caf1d126d1919b1 SHA256: 00955663ae4b415fd6085ee45f60f440d781aab1c6bc5cf1c12ba9b58a4630b3 SHA512: 5630f1c19ad0b7a71eabe04d2a06e2d0ded947587c427776f9f88c192a78647dee71c1c645cab59d9d77fabcf0e6af9a5434a204046d5a8ccb23c71f48d1d4dc Homepage: https://cran.r-project.org/package=TAR Description: CRAN Package 'TAR' (Bayesian Modeling of Autoregressive Threshold Time Series Models) Identification and estimation of the autoregressive threshold models with Gaussian noise, as well as positive-valued time series. The package provides the identification of the number of regimes, the thresholds and the autoregressive orders, as well as the estimation of remain parameters. The package implements the methodology from the 2005 paper: Modeling Bivariate Threshold Autoregressive Processes in the Presence of Missing Data . 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As an extension to 'targets', the 'tarchetypes' package provides convenient user-side functions to make 'targets' easier to use. By establishing reusable archetypes for common kinds of targets and pipelines, these functions help express complicated reproducible pipelines concisely and compactly. The methods in this package were influenced by the 'targets' R package. by Will Landau (2018) . Package: r-cran-tarchives Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-callr, r-cran-fs, r-cran-rlang, r-cran-targets, r-cran-usethis, r-cran-withr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tarchives_0.1.1-1.ca2004.1_all.deb Size: 61868 MD5sum: b5ef8120ef50d25162d301aa9afed6fa SHA1: c03b8ea71fab1d026a78bd2444ba585d343c0f09 SHA256: 5660f5713ecf7d99a6f62eaa96140ab74e8d361db7cfe3b2280da24e09df4333 SHA512: 18a48fd286931d4dfbe2c622d12b7ad63df34eed34d5d97afc8349d86d71344bb8a2f8203179f47add79388e194e616a992e4d3e42e80698b22b4dfe33900cd3 Homepage: https://cran.r-project.org/package=tarchives Description: CRAN Package 'tarchives' (Make Your 'targets' Pipelines into a Package) Runs 'targets' pipeline in '/inst/tarchives' and stores the results in the R user directory. This means that the user does not have to run the process repeatedly, and the developer has the flexibility to update the data as versions are updated. Package: r-cran-targets Architecture: all Version: 1.11.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2877 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-base64url, r-cran-callr, r-cran-cli, r-cran-codetools, r-cran-data.table, r-cran-igraph, r-cran-knitr, r-cran-prettyunits, r-cran-ps, r-cran-r6, r-cran-rlang, r-cran-secretbase, r-cran-tibble, r-cran-tidyselect, r-cran-vctrs, r-cran-yaml Suggests: r-cran-autometric, r-cran-bslib, r-cran-clustermq, r-cran-crew, r-cran-curl, r-cran-dt, r-cran-dplyr, r-cran-fst, r-cran-future, r-cran-future.batchtools, r-cran-future.callr, r-cran-gargle, r-cran-googlecloudstorager, r-cran-gt, r-cran-keras, r-cran-markdown, r-cran-nanonext, r-cran-rmarkdown, r-cran-parallelly, r-cran-paws.common, r-cran-paws.storage, r-cran-pkgload, r-cran-processx, r-cran-qs2, r-cran-reprex, r-cran-rstudioapi, r-cran-r.utils, r-cran-shiny, r-cran-shinybusy, r-cran-shinywidgets, r-cran-tarchetypes, r-cran-testthat, r-cran-torch, r-cran-usethis, r-cran-visnetwork Filename: pool/dists/focal/main/r-cran-targets_1.11.3-1.ca2004.1_all.deb Size: 2515992 MD5sum: 58154a803bcc5e3623d712d5b96fea5f SHA1: f4215a9c053b73db40f654cf759be3880094b275 SHA256: 5a7dc69b12259eafbebceca079eecb0597ae67b5eedf6ef40d6ad3ac70b7df6a SHA512: 2316bc95bee52a87794af29a150db2f9d0d03e60ee6224d1690bce05689304562fe93d21e751dcf9e2f0505c4d3dde0283e8fe63b6b76ae45713671d2923e5e7 Homepage: https://cran.r-project.org/package=targets Description: CRAN Package 'targets' (Dynamic Function-Oriented 'Make'-Like Declarative Pipelines) Pipeline tools coordinate the pieces of computationally demanding analysis projects. The 'targets' package is a 'Make'-like pipeline tool for statistics and data science in R. The package skips costly runtime for tasks that are already up to date, orchestrates the necessary computation with implicit parallel computing, and abstracts files as R objects. If all the current output matches the current upstream code and data, then the whole pipeline is up to date, and the results are more trustworthy than otherwise. The methodology in this package borrows from GNU 'Make' (2015, ISBN:978-9881443519) and 'drake' (2018, ). Package: r-cran-tariff Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tariff_1.0.5-1.ca2004.1_all.deb Size: 55096 MD5sum: d37226297306ab179d80783ad15c0598 SHA1: a2b80f332cd942c654cdde1a22837515196c6866 SHA256: abb03d717c45ae2159548b774ef75e86cb3a14eb8d1f9326c086d47435c38647 SHA512: 9ac9533bc0b0f242d8d1a2069e6e7ede8e49bf8f9a57b78a180239d64459bb322164b6457e5044fbe4d77d6b04333ee0327d39e2515e7fc4568ca31aaeff7363 Homepage: https://cran.r-project.org/package=Tariff Description: CRAN Package 'Tariff' (Replicate Tariff Method for Verbal Autopsy) Implement the Tariff algorithm for coding cause-of-death from verbal autopsies. The Tariff method was originally proposed in James et al (2011) and later refined as Tariff 2.0 in Serina, et al. (2015) . Note that this package was not developed by authors affiliated with the Institute for Health Metrics and Evaluation and thus unintentional discrepancies may exist between the this implementation and the implementation available from IHME. Package: r-cran-tashiny Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-shiny, r-cran-igraph, r-cran-tm, r-cran-snowballc, r-cran-dplyr, r-cran-wordcloud2 Filename: pool/dists/focal/main/r-cran-tashiny_0.1.0-1.ca2004.1_all.deb Size: 71048 MD5sum: c681a09a23b85440ca6dcd3562992fdc SHA1: 4accc85a8e4383d4e79e3d91fa437eacc0d68f38 SHA256: 0dfadb242e2e0728c5034851076b01c235c1f68f83a76f5f334a1d8443b8c48d SHA512: 033c2116a46de00f0bb3e533f9983d42e14c3062eace949e476237f4de40c9495b84698bbb4cdb51402c782e3e2eef6009d7bcdf70bc70441cf2699d276741bf Homepage: https://cran.r-project.org/package=TAShiny Description: CRAN Package 'TAShiny' ('Text Analyzer Shiny') Interactive shiny application for working with textmining and text analytics. Various visualizations are provided. Package: r-cran-tashu Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 159 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-lubridate, r-cran-dplyr, r-cran-randomforest, r-cran-plyr, r-cran-reshape2, r-cran-rcolorbrewer, r-cran-drat Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tashu_0.1.1-1.ca2004.1_all.deb Size: 82992 MD5sum: 032d4d30a0b4a445a8153bdc6b11b391 SHA1: 239ebf8ac340bcaa26469c68785d827a44b5bf1f SHA256: ab6cee6d8f26463e5b4f9229f59a2fab7593aaa877fe3b94f636e0c77ee0153c SHA512: 20d1d41b4376b4847b9e0d54ea0e92a58201e6292c03d987a97079510d8516007863ad576a8bffed8c11ec3492a35b337689c703dd102d31353e30fc7f0cc6f5 Homepage: https://cran.r-project.org/package=tashu Description: CRAN Package 'tashu' (Analysis and Prediction of Bicycle Rental Amount) Provides functions for analyzing citizens' bicycle usage pattern and predicting rental amount on specific conditions. Functions on this package interacts with data on 'tashudata' package, a 'drat' repository. 'tashudata' package contains rental/return history on public bicycle system('Tashu'), weather for 3 years and bicycle station information. To install this data package, see the instructions at . top10_stations(), top10_paths() function visualizes image showing the most used top 10 stations and paths. daily_bike_rental() and monthly_bike_rental() shows daily, monthly amount of bicycle rental. create_train_dataset(), create_test_dataset() is data processing function for prediction. Bicycle rental history from 2013 to 2014 is used to create training dataset and that on 2015 is for test dataset. Users can make random-forest prediction model by using create_train_model() and predict amount of bicycle rental in 2015 by using predict_bike_rental(). Package: r-cran-tastypie Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4937 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-scales, r-cran-rcolorbrewer, r-cran-shadowtext, r-cran-tibble, r-cran-packcircles, r-cran-fmsb Suggests: r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat, r-cran-jpeg, r-cran-patternplot Filename: pool/dists/focal/main/r-cran-tastypie_0.1.1-1.ca2004.1_all.deb Size: 3078572 MD5sum: 7207c70e2d8692a01c328ab27cdd60cc SHA1: 7efec2df98da2a46b6094851a417d4a2cbd527c9 SHA256: da88936d6713241e9e380aedb7b70378ab4ca901adbf2d84c2e12d6151544e8f SHA512: e6f8976f8903ecd0951510099fb743169461526f31a52df153c7bbb110a8ca682661892b068762f9a38f14bedc69332515be90ba3c3b1d5fe469ae5977c9f6ce Homepage: https://cran.r-project.org/package=tastypie Description: CRAN Package 'tastypie' (Easy Pie Charts) You only need to type 'why pie charts are bad' on Google to find thousands of articles full of (valid) reasons why other types of charts should be preferred over this one. Therefore, because of the little use due to the reasons already mentioned, making pie charts (and related) in R is not straightforward, so other functions are needed to simplify things. In this R package there are useful functions to make 'tasty' pie charts immediately by exploiting the many cool templates provided. Package: r-cran-tatest Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 383 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tatest_1.0-1.ca2004.1_all.deb Size: 345768 MD5sum: 563e52472405551f3d7775bc4c9a0018 SHA1: 21b0c215f10875a9890cbda63870545ee82800ed SHA256: 489c23e552dccdf0dca0ee85e9f4d36c048d63eb74ff16d1212cdb4bb39711ae SHA512: 26715a0862654970d00e9558db98a451cf21eaa666593fae0ccd02b7d4a7a18b2a94fb1c528a22203dea3a64e192b81465b324ec7911b5a815fb3010c78209ab Homepage: https://cran.r-project.org/package=tatest Description: CRAN Package 'tatest' (Two-Group Ta-Test) The ta-test is a modified two-sample or two-group t-test of Gosset (1908). In small samples with less than 15 replicates,the ta-test significantly reduces type I error rate but has almost the same power with the t-test and hence can greatly enhance reliability or reproducibility of discoveries in biology and medicine. The ta-test can test single null hypothesis or multiple null hypotheses without needing to correct p-values. Package: r-cran-tatoo Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 504 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-assertthat, r-cran-magrittr, r-cran-data.table, r-cran-openxlsx, r-cran-stringi, r-cran-colt, r-cran-crayon, r-cran-withr Suggests: r-cran-testthat, r-cran-rprojroot, r-cran-kableextra, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tatoo_1.1.2-1.ca2004.1_all.deb Size: 349144 MD5sum: e516b3e8bc875774df73c7a12a544172 SHA1: 6b17ff945090182a60e85d61621eb7c4ef8bd280 SHA256: 0880dca5d753dadf474a2099133069d04e037fd66a1eea87de6f6de232e58a0c SHA512: f2e14c520a440d6523065949581885a27e3ff694218b1b96e745fd32b552cfdb381da9e0ff1503c9c8c773a218f9c15e6097976057ee6700c3fe41c359cdb3e0 Homepage: https://cran.r-project.org/package=tatoo Description: CRAN Package 'tatoo' (Combine and Export Data Frames) Functions to combine data.frames in ways that require additional effort in base R, and to add metadata (id, title, ...) that can be used for printing and xlsx export. The 'Tatoo_report' class is provided as a convenient helper to write several such tables to a workbook, one table per worksheet. Tatoo is built on top of 'openxlsx', but intimate knowledge of that package is not required to use tatoo. Package: r-cran-tatooheene Architecture: all Version: 0.19.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-assertthat, r-cran-tidyr Suggests: r-cran-cbsodatar, r-cran-lubridate, r-cran-here, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tatooheene_0.19.0-1.ca2004.1_all.deb Size: 68956 MD5sum: b907cccfb76ac44ff077e6c375ac0354 SHA1: 9d55a46c77f899ff3aec5c5711b84c2f37ea8057 SHA256: ce5a1ac4e19b6dd4a21b7aa99a0ee6380488da89e49ffd2fe8540809124081b1 SHA512: 3dcac637180839e9afece025d0a27d7ee768587dce751a3cf45e75729e213624b563088c8d1027f146c41de8c16dcadeecdc83b1c48a1befd1d712cc014c05e3 Homepage: https://cran.r-project.org/package=tatooheene Description: CRAN Package 'tatooheene' (Technology Appraisal Toolbox for Health Economic Evaluations inthe Netherlands) Functions to support economic modelling in R based on the methods of the Dutch guideline for economic evaluations in healthcare , CBS data , and OECD data . Package: r-cran-tauprocess Architecture: all Version: 2.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-tauprocess_2.1.3-1.ca2004.1_all.deb Size: 58356 MD5sum: f27c7742a3d546265555ff6d4e19c402 SHA1: 3e45a2e36b33af2b3b58aaabcb1d6d3153519ee9 SHA256: 1ed485f96e3ef63f0ce0134badb6dffe21dfc4a9d0bf611b8d8be9e9e22e36ab SHA512: 534a1d16eb26444e54b646a99e102a49f09154c9c67260da4770ed7f34a6f6f073b186a5e78f3e07e25c2900f545ca4ca26261ae1b97456e28a6d588490f9153 Homepage: https://cran.r-project.org/package=tauProcess Description: CRAN Package 'tauProcess' (Tau Measure with Right-Censored Data) A clinically meaningful measures of treatment effects for right-censored data are provided, based on the concept of Kendall's tau, along with the corresponding inference procedures. Two plots of tau processes, with the option to account for the cure fraction or not, are available. The plots of tau processes serve as useful graphical tools for monitoring the relative performances over time. Package: r-cran-tauturri Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 421 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-magrittr, r-cran-plyr, r-cran-purrr, r-cran-tibble Suggests: r-cran-covr, r-cran-dplyr, r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-tauturri_0.3.0-1.ca2004.1_all.deb Size: 313160 MD5sum: a4642f83fc79cbbee28715351cb607ee SHA1: e88e5fe7d8ac1e6974c8576cc8279c611a1644a9 SHA256: 912955e903e3aad75f2aa88676e45acc55851fe79d98e15f339de8a6202998a3 SHA512: 120bd840999d6f805e89f3e582945855acfcd0717baa8811e8bfab1c900dbcef577448afdaccd3ed59a21c859290849eb8c64acc3a0af0e1b5e085f9c20bcbc3 Homepage: https://cran.r-project.org/package=tauturri Description: CRAN Package 'tauturri' (Get Data Out of 'Tautulli' (Formerly 'PlexPy')) 'Tautulli' () is a monitoring application for 'Plex' Media Servers () which collects a lot of data about media items and server usage such as play counts. This package interacts with the 'Tautulli' API of any specified server to get said data into R. The 'Tautulli' API documentation is available at . Package: r-cran-taxa Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 509 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-vctrs, r-cran-dplyr, r-cran-magrittr, r-cran-tibble, r-cran-rlang, r-cran-stringr, r-cran-crayon, r-cran-pillar, r-cran-viridislite, r-cran-cli Suggests: r-cran-roxygen2, r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-taxa_0.4.3-1.ca2004.1_all.deb Size: 362624 MD5sum: 6d44ddde4c3684e9c2457c6a867b9712 SHA1: b1d1940b871c9e91464de221a9853553320e711f SHA256: c4382f9b2212ce85655c2b4cb4c70e2b14c71428d1f25777bb2b7301fc373646 SHA512: 8a18eba36b230d8faadd164a3224959b1c3cbd82c4365e6465cdf82ce17240b9e8ea19bc5b7865a5f6a491d49812d6900b688f3f312e8b84f51fe76ac0c85a61 Homepage: https://cran.r-project.org/package=taxa Description: CRAN Package 'taxa' (Classes for Storing and Manipulating Taxonomic Data) Provides classes for storing and manipulating taxonomic data. Most of the classes can be treated like base R vectors (e.g. can be used in tables as columns and can be named). Vectorized classes can store taxon names and authorities, taxon IDs from databases, taxon ranks, and other types of information. More complex classes are provided to store taxonomic trees and user-defined data associated with them. Package: r-cran-taxadb Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 646 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dbi, r-cran-duckdb, r-cran-tibble, r-cran-dplyr, r-cran-dbplyr, r-cran-rlang, r-cran-magrittr, r-cran-stringi, r-cran-contentid, r-cran-memoise Suggests: r-cran-spelling, r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-purrr, r-cran-crayon, r-cran-rsqlite Filename: pool/dists/focal/main/r-cran-taxadb_0.2.1-1.ca2004.1_all.deb Size: 297636 MD5sum: be856551c148834f2105f278574a06d2 SHA1: a3f0f48eb44cbcef2d8ef5816f26c7f8e77de919 SHA256: 4c830ad773ac6ace45f48dc4a788bed0928dd23e59d7b35536ae5558ea3a2519 SHA512: 58a8f83307f51c8bd75f5e3ce41c71a79e7192443cf2bff4707e1db015255ce95fbacdcc0ed84534b98996f9625781ffaf2384d37b26992e774ed2ef174b0ad8 Homepage: https://cran.r-project.org/package=taxadb Description: CRAN Package 'taxadb' (A High-Performance Local Taxonomic Database Interface) Creates a local database of many commonly used taxonomic authorities and provides functions that can quickly query this data. Package: r-cran-taxalight Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-thor, r-cran-contentid Suggests: r-cran-jsonlite, r-cran-spelling, r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-progress, r-cran-utf8, r-cran-crayon Filename: pool/dists/focal/main/r-cran-taxalight_0.1.5-1.ca2004.1_all.deb Size: 51164 MD5sum: c3730514521de841a0ede85219537730 SHA1: 362916b325d13083d5b58496c44f65250d0a518b SHA256: dcbbc566d9d79ac803c0e11170b2a55f84a7500ba409b87f21eee2f6353a033a SHA512: 97c8133b91690067ab5121112fecbd4e349b59d1e74c346d32a61269806cf324326225774086c3cb879cc10e40fdec484259252d816efa60e2b6bc39a56f8250 Homepage: https://cran.r-project.org/package=taxalight Description: CRAN Package 'taxalight' (A Lightweight and Lightning-Fast Taxonomic Naming Interface) Creates a local Lightning Memory-Mapped Database ('LMDB') of many commonly used taxonomic authorities and provides functions that can quickly query this data. Supported taxonomic authorities include the Integrated Taxonomic Information System ('ITIS'), National Center for Biotechnology Information ('NCBI'), Global Biodiversity Information Facility ('GBIF'), Catalogue of Life ('COL'), and Open Tree Taxonomy ('OTT'). Name and identifier resolution using 'LMDB' can be hundreds of times faster than either relational databases or internet-based queries. Precise data provenance information for data derived from naming providers is also included. Package: r-cran-taxanorm Architecture: all Version: 2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 805 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-bioc-microbiome, r-bioc-phyloseq, r-bioc-s4vectors, r-bioc-biocgenerics, r-cran-vegan, r-cran-mass, r-cran-future, r-cran-future.apply, r-cran-matrixstats, r-cran-pscl, r-cran-parallelly, r-cran-ggplot2 Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-taxanorm_2.4-1.ca2004.1_all.deb Size: 717160 MD5sum: 54f2a388309e04c1833e1b9e7d33171f SHA1: 19d76ccda7bdf593f610eeccbadc760d6513a403 SHA256: 88b6f757952bd73339bdda81974bbdf4bd7efb856c5f8e3f5923a66aba0a4ee3 SHA512: 08be8d1926807be99490476736df28fed8b8cf951cd6645977a21d5bc4d571ad92489a39933df9bc0d1ca9d43db537396732388b2c4b7871c6b2999f83566f4e Homepage: https://cran.r-project.org/package=TaxaNorm Description: CRAN Package 'TaxaNorm' (Feature-Wise Normalization for Microbiome Sequencing Data) A novel feature-wise normalization method based on a zero-inflated negative binomial model. This method assumes that the effects of sequencing depth vary for each taxon on their mean and also incorporates a rational link of zero probability and taxon dispersion as a function of sequencing depth. Ziyue Wang, Dillon Lloyd, Shanshan Zhao, Alison Motsinger-Reif (2023) . Package: r-cran-taxicabca Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-ga, r-cran-testthat Filename: pool/dists/focal/main/r-cran-taxicabca_0.1.1-1.ca2004.1_all.deb Size: 80740 MD5sum: 986ee6b672f90c3e31c36c7f4c7a42e8 SHA1: 024107973139e08ae4e0f761bbfff4e52435923b SHA256: 4a40d1691a74e029ed533587834aff87779f43bb4c700d74f431d85e9f195b21 SHA512: 8084145480e173c732028aec3e48ddc02a5a6de4d8dc213d5e815bdee49fc0ecac9eee0773794f4eb25a5cc5e129f25fcdeaaadab0aa4f064085dbd8717e846b Homepage: https://cran.r-project.org/package=TaxicabCA Description: CRAN Package 'TaxicabCA' (Taxicab Correspondence Analysis) Computation and visualization of Taxicab Correspondence Analysis, Choulakian (2006) . Classical correspondence analysis (CA) is a statistical method to analyse 2-dimensional tables of positive numbers and is typically applied to contingency tables (Benzecri, J.-P. (1973). L'Analyse des Donnees. Volume II. L'Analyse des Correspondances. Paris, France: Dunod). Classical CA is based on the Euclidean distance. Taxicab CA is like classical CA but is based on the Taxicab or Manhattan distance. For some tables, Taxicab CA gives more informative results than classical CA. Package: r-cran-taxize Architecture: all Version: 0.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1745 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-crul, r-cran-xml2, r-cran-jsonlite, r-cran-ape, r-cran-zoo, r-cran-data.table, r-cran-tibble, r-cran-rredlist, r-cran-rotl, r-cran-ritis, r-cran-worrms, r-cran-natserv, r-cran-wikitaxa, r-cran-r6, r-cran-crayon, r-cran-cli, r-cran-phangorn, r-cran-lifecycle, r-cran-curl, r-cran-stringi Suggests: r-cran-testthat, r-cran-vegan, r-cran-vcr Filename: pool/dists/focal/main/r-cran-taxize_0.10.0-1.ca2004.1_all.deb Size: 1542732 MD5sum: 7172e7daae143d01ee8dcbec5ad75f02 SHA1: 022b08326efbb5665eeaa2cb1466fbc8f914b2f3 SHA256: 84371e1e5dc4c4f65b05ab4303884f46ae7552ee6e47f3400bd2982b4e42b6eb SHA512: c906101342b2ad1f1211f33c95bf8eb5393b1acbdad88eeae7050af44281f74951b205492eb48b9cd6fdcc30df7be0d20147cdee14c69c41390ea7fb5b32f1fa Homepage: https://cran.r-project.org/package=taxize Description: CRAN Package 'taxize' (Taxonomic Information from Around the Web) Interacts with a suite of web application programming interfaces (API) for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more. Some of the services supported include 'NCBI E-utilities' (), 'Encyclopedia of Life' (), 'Global Biodiversity Information Facility' (), and many more. Links to the API documentation for other supported services are available in the documentation for their respective functions in this package. 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This package provides functions to import species lists from 'Turboveg' () and the possibility to create backups from resulting R-objects. Also quick displays are implemented as summary-methods. 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Taxonbridge is useful for the creation and analysis of custom taxonomies based on the NCBI taxonomy and GBIF backbone taxonomy. 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Package: r-cran-taylor Architecture: all Version: 3.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4917 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-ggplot2, r-cran-glue, r-cran-lifecycle, r-cran-rlang, r-cran-scales, r-cran-tibble, r-cran-vctrs Suggests: r-cran-bookdown, r-cran-dplyr, r-cran-knitr, r-cran-palmerpenguins, r-cran-patchwork, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tidyr, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-taylor_3.2.0-1.ca2004.1_all.deb Size: 1955520 MD5sum: 55f6de808f05d5267b09f85e49e22e6c SHA1: a4975c659cb9065af4d2863c7fd856258c445147 SHA256: f9e992edc02d7c643ef1f3216a483256c7d31e41bdf3d197fbcdc523c07d502b SHA512: 5b0653ec6e7585b6266e5428fa2be1cb62ffa66de69652a14248b09ff49e2bb2c78076781d2207e1a3a0c1bdda8e1d83476e6a0f92f701a43b7f96bf2d551f49 Homepage: https://cran.r-project.org/package=taylor Description: CRAN Package 'taylor' (Lyrics and Song Data for Taylor Swift's Discography) A comprehensive resource for data on Taylor Swift songs. Data is included for all officially released studio albums, extended plays (EPs), and individual singles are included. Data comes from 'Genius' (lyrics) and 'Spotify' (song characteristics). Additional functions are included for easily creating data visualizations with color palettes inspired by Taylor Swift's album covers. Package: r-cran-taylorrussell Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mvtnorm, r-cran-shiny, r-cran-shinywidgets Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-taylorrussell_1.2.1-1.ca2004.1_all.deb Size: 37644 MD5sum: 7be292aceb8222720545d2ce9787c50a SHA1: cc36ddfdf19080c4ddc849a46d2fc28399e239c4 SHA256: 2d20a15bea81867e511a96e58920b593bd229605333265465091cda361a36b92 SHA512: 038abf6b128fe55738adaf5657ff027a2249d59c39a6eaefecf40a2aa782bdec147b179d170182df8ce2176cc30fdc473fc5eb440fa65cc6da53ca6fa18df51b Homepage: https://cran.r-project.org/package=TaylorRussell Description: CRAN Package 'TaylorRussell' (A Taylor-Russell Function for Multiple Predictors) The Taylor Russell model is a widely used method for assessing test validity in personnel selection tasks. The three functions in this package extend this model in a number of notable ways. TR() estimates test validity for a single selection test via the original Taylor Russell model. It extends this model by allowing users greater flexibility in argument choice. For example, users can specify any three of the four parameters (base rate, selection ratio, criterion validity, and positive predictive value) of the Taylor Russell model and estimate the remaining parameter (see the help file for examples). The TaylorRussell() function generalizes the original Taylor Russell model to allow for multiple selection tests (predictors). To our knowledge, this is the first generalization of the Taylor Russell model to allow for three or more selection tests (it is also the first to correctly handle models with two selection tests). TRDemo() is a 'shiny' program for illustrating the underlying logic of the Taylor Russell model. Taylor, HC and Russell, JT (1939) "The relationship of validity coefficients to the practical effectiveness of tests in selection: Discussion and tables" . 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The package is designed to assist users in visualizing and interpreting experimental data through a user-friendly interface. Each application is launched via a simple function, and users can upload data in 'Excel' format for analysis. For more information, refer to Singh, R.K. and Chaudhary, B.D. (1977, ISBN:9788176633079). 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Package: r-cran-tbea Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 447 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ape, r-cran-rfit, r-cran-boot, r-cran-coda Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tbea_1.6.1-1.ca2004.1_all.deb Size: 292688 MD5sum: 87437d813f8b008002f551e23624eb23 SHA1: 85d240f122a1be0224068e343951b1cda731c05d SHA256: 03da16cbe5a75e9bf4d24d985aba6567eae3dd217e433a74bca26c8c84e7afa5 SHA512: 1d7d98a27a57cdfdfde2836f456d7b54753e0a4e67abac6b7ac47281ddb4b092600e6e35d07d82b3e9c4ba1d9b61e21763ce9b24e71b05fae9bd7e9886782026 Homepage: https://cran.r-project.org/package=tbea Description: CRAN Package 'tbea' (Pre- And Post-Processing in Bayesian Evolutionary Analyses) Functions are provided for prior specification in divergence time estimation using fossils as well as other kinds of data. It provides tools for interacting with the input and output of Bayesian platforms in evolutionary biology such as 'BEAST2', 'MrBayes', 'RevBayes', or 'MCMCTree'. It Implements a simple measure similarity between probability density functions for comparing prior and posterior Bayesian densities, as well as code for calculating the combination of distributions using conflation of Hill (2008). Functions for estimating the origination time in collections of distributions using the x-intercept (e.g., Draper and Smith, 1998) and stratigraphic intervals (Marshall 2010) are also available. Hill, T. 2008. "Conflations of probability distributions". Transactions of the American Mathematical Society, 363:3351-3372. , Draper, N. R. and Smith, H. 1998. "Applied Regression Analysis". 1--706. Wiley Interscience, New York. , Marshall, C. R. 2010. "Using confidence intervals to quantify the uncertainty in the end-points of stratigraphic ranges". Quantitative Methods in Paleobiology, 291--316. . 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The TBF methodology has been well developed and implemented for the generalised linear model [Held et al. (2015) ] and for the Cox model [Held et al. (2016) ]. 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Package: r-cran-tbma Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 61 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-ranger, r-cran-zoo, r-cran-rcpproll Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tbma_0.1.0-1.ca2004.1_all.deb Size: 28008 MD5sum: 79c3b859d999bafab2d3d74e1eef27cd SHA1: f51477c151f8ad046256c2c33e29cc1bfc193659 SHA256: 1e99fe378703992beb8ad9ef052d3cfa0a8c62cafe15b84f9d1251109109ecf1 SHA512: 661a4068a84e605093938b46145c7fd3c174eac74b3b55cd58c4d54536846c511ae7f51854e6daebd1d2f51fe1015e3c66ba13be9bbef4350486fce893089025 Homepage: https://cran.r-project.org/package=tbma Description: CRAN Package 'tbma' (Tree-Based Moving Average Forecasting Model) We provide a forecasting model for time series forecasting problems with predictors. The offered model, which is based on a submitted research and called tree-based moving average (TBMA), is based on the integration of the moving average approach to tree-based ensemble approach. The tree-based ensemble models can capture the complex correlations between the predictors and response variable but lack in modelling time series components. The integration of the moving average approach to the tree-based ensemble approach helps the TBMA model to handle both correlations and autocorrelations in time series data. This package provides a tbma() forecasting function that utilizes the ranger() function from the 'ranger' package. With the help of the ranger() function, various types of tree-based ensemble models, such as extremely randomized trees and random forests, can be used in the TBMA model. Package: r-cran-tboot Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 327 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-quadprog, r-cran-kernlab Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-mass, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-tboot_0.2.1-1.ca2004.1_all.deb Size: 177388 MD5sum: 3806a4b7afdefc21c7ad424e5f4d5052 SHA1: a9041b63b1c72bb923f125ad4b966b58fdef3719 SHA256: 8e3427358e6b3a7a1dde6c120659ca9f14feb7593d9a165f1bbd0ba9b361953b SHA512: 14fe751fdd1e7a223ebfe22cf618350c1c3e609cf1bb003544eb22e242ed2daf79ea8f70ab1eebc22ed20234ca26189ae1c17994770765e8b86aac9144843525 Homepage: https://cran.r-project.org/package=tboot Description: CRAN Package 'tboot' (Tilted Bootstrap) Creates simulated clinical trial data with realistic correlation structures and assumed efficacy levels by using a tilted bootstrap resampling approach. 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Package: r-cran-tbox Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1022 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-checkmate, r-cran-clipr, r-cran-knitr, r-cran-rmarkdown Suggests: r-cran-htm2txt, r-cran-pdftools, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-tbox_0.2.2-1.ca2004.1_all.deb Size: 295408 MD5sum: a47651b46d3258c69c9365c4d602e5b2 SHA1: 5a1c6130613435368b7732f91fcf3b92db50541b SHA256: 0182c8b4021858ea60fc4ddedf9c526db54dcd80eb234dee3c7ee97bb5208d02 SHA512: e3487b33a8dbd7d02a71126d8b567755808a9d40fe7e75963bed0de0b2cf40e2ef24c3303feec2f6480fdb69a598ac727ba4cc61645f3d7605bbf942406f71aa Homepage: https://cran.r-project.org/package=TBox Description: CRAN Package 'TBox' (Useful Functions for Programming and Generating Documents) Tools to help developers and producers manipulate R objects and outputs. 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The TCA framework further allows to test the features in the data for different statistical relations with an outcome of interest while modeling source-specific effects; particularly, it allows to look for statistical relations between source-specific signals and an outcome. For example, TCA can deconvolve bulk tissue-level DNA methylation data (methylation sites by individuals) into a three-dimensional tensor of cell-type-specific methylation levels for each individual (i.e. methylation sites by individuals by cell types) and it allows to detect cell-type-specific statistical relations (associations) with phenotypes. For more details see Rahmani et al. (2019) . Package: r-cran-tcensreg Architecture: all Version: 0.1.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 355 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-maxlik, r-cran-rdpack Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-ggplot2, r-cran-viridis, r-cran-future.apply, r-cran-tictoc, r-cran-censreg, r-cran-truncreg, r-cran-microbenchmark Filename: pool/dists/focal/main/r-cran-tcensreg_0.1.7-1.ca2004.1_all.deb Size: 187580 MD5sum: b19f7c550d7761caeec6c3c2c0fd0273 SHA1: a88c72918c2f1b8462f5135d1f9c3bb214b49576 SHA256: 8bb54c5e56592130253d44be074e9cf741c6722a59b15dceba7976dc958ac527 SHA512: 8533688c383b40b5b47aaf9e53ceea5fc2a64f63f557b0e967388111883f024ed542030e4e4da895e58f19ba430a72cf0bb3c38199abb9f6c801df5b9cc322d4 Homepage: https://cran.r-project.org/package=tcensReg Description: CRAN Package 'tcensReg' (MLE of a Truncated Normal Distribution with Censored Data) Maximum likelihood estimation (MLE) of parameters assuming an underlying left truncated normal distribution with left censoring described in Williams, J, Kim, H, and Crespi, C. (2020) . Censoring is assumed to occur above the truncation threshold meaning that only censored observations are observed. Additional maximum likelihood estimation procedures are implemented to solve left censored only and left truncated only problems. Package: r-cran-tcftt Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tcftt_0.1.0-1.ca2004.1_all.deb Size: 47284 MD5sum: baeef35c6a207289f215a8a4ea4642e7 SHA1: 713b832a3e928ec4ecad432732f8e9c1c1fdd954 SHA256: 1aab6e3a69bebe25523adb4f1375b6e341534afcdb7be24b62c133579fb397a8 SHA512: 9232b79c80fefeb7a91459de5eeca551b48613f20358a807562c2c3af5f841b55a154b2677e0693d85e9dcb8b6d041d247908bb1a68c71c7fc147ccb0da5b484 Homepage: https://cran.r-project.org/package=tcftt Description: CRAN Package 'tcftt' (Two-Sample Tests for Skewed Data) The classical two-sample t-test works well for the normally distributed data or data with large sample size. The tcfu() and tt() tests implemented in this package provide better type-I-error control with more accurate power when testing the equality of two-sample means for skewed populations having unequal variances. These tests are especially useful when the sample sizes are moderate. The tcfu() uses the Cornish-Fisher expansion to achieve a better approximation to the true percentiles. The tt() provides transformations of the Welch's t-statistic so that the sampling distribution become more symmetric. For more technical details, please refer to Zhang (2019) . Package: r-cran-tcgaretriever Architecture: all Version: 1.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1144 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-httr, r-cran-reshape2, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-tcgaretriever_1.9.1-1.ca2004.1_all.deb Size: 555336 MD5sum: 9c88898aa055cb9364af28c86fa37f36 SHA1: 4edf4f380ba94509b300237771c76db5e2048dc5 SHA256: 5628aa29c58e235ded35a2a230f9657676d2d2a50ffeda57ad438af83529514a SHA512: b76866769fa499d312dd18e36d6c86b490e344c05b78906cc1f57c7bed19720a1e40c8a4ae11056dbf008461022e4633187298b0de09a5274633bdd3eb6a662e Homepage: https://cran.r-project.org/package=TCGAretriever Description: CRAN Package 'TCGAretriever' (Retrieve Genomic and Clinical Data from CBioPortal IncludingTCGA Data) The Cancer Genome Atlas (TCGA) is a program aimed at improving our understanding of Cancer Biology. 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Method is detailed in: Hejblum, Skinner & Thiebaut (2015) . Package: r-cran-tciapathfinder Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 158 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-oro.dicom, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tciapathfinder_1.0.6-1.ca2004.1_all.deb Size: 83748 MD5sum: 97a6e864100a122fef9205a45c5ea5b8 SHA1: f7b7abf0a3526b700ef47882a2ce550a41744e2d SHA256: ee2cbddee970d6a2b9828d5ae4de5b5e800943d4e7baef44b4c5450db3dc1f8a SHA512: 4c6baeb1488d5fa86973dc5dc622e8755cff330743c3fd70e2356622cb6371ad379c565065b452abb4d78f614937fb4791c5f5697b56b20d1d4d8e9efd3adad8 Homepage: https://cran.r-project.org/package=TCIApathfinder Description: CRAN Package 'TCIApathfinder' (Client for the Cancer Imaging Archive REST API) A wrapper for The Cancer Imaging Archive's REST API. 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Package: r-cran-tcl Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 267 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-erm, r-cran-psychotools, r-cran-ltm, r-cran-numderiv, r-cran-mass, r-cran-matrix, r-cran-lattice, r-cran-rlang Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tcl_0.2.1-1.ca2004.1_all.deb Size: 225460 MD5sum: a56f91f365b5a6d4c8b7f2ce13c95762 SHA1: b6308087cb8e43496c19b80eaf01becffb25192f SHA256: ef4f720a7b71e97622a50d876a08bd1a849f55d9b349e87a29bc78814f142e47 SHA512: 17f6dff698d017fd052dd0f248e6d08683df7154353e9764181fb9345d2134f8b10d5ebf515aaf8690b6555a12c30b38b0df23e8ecc2af865f2c60c1907e5dbc Homepage: https://cran.r-project.org/package=tcl Description: CRAN Package 'tcl' (Testing in Conditional Likelihood Context) An implementation of hypothesis testing in an extended Rasch modeling framework, including sample size planning procedures and power computations. Provides 4 statistical tests, i.e., gradient test (GR), likelihood ratio test (LR), Rao score or Lagrange multiplier test (RS), and Wald test, for testing a number of hypotheses referring to the Rasch model (RM), linear logistic test model (LLTM), rating scale model (RSM), and partial credit model (PCM). Three types of functions for power and sample size computations are provided. Firstly, functions to compute the sample size given a user-specified (predetermined) deviation from the hypothesis to be tested, the level alpha, and the power of the test. Secondly, functions to evaluate the power of the tests given a user-specified (predetermined) deviation from the hypothesis to be tested, the level alpha of the test, and the sample size. Thirdly, functions to evaluate the so-called post hoc power of the tests. This is the power of the tests given the observed deviation of the data from the hypothesis to be tested and a user-specified level alpha of the test. Power and sample size computations are based on a Monte Carlo simulation approach. It is computationally very efficient. The variance of the random error in computing power and sample size arising from the simulation approach is analytically derived by using the delta method. Draxler, C., & Alexandrowicz, R. W. (2015), . Package: r-cran-tcltk2 Architecture: all Version: 1.6.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5271 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tcltk2_1.6.1-1.ca2004.1_all.deb Size: 1048404 MD5sum: b1c53f6884c805390076103845b740c0 SHA1: e41fb47568995da38137c44774b4d98c0fa224ba SHA256: c2e6a5b97c6f84a7193a66d36ea34706cda0ec38c67d27df22e1109b94fbd497 SHA512: c55037ce70153cee65acc8a122e9e80f80db48264ffb02406ac8011fff2fd8fa2cfa79db294c3b2db87d9c06e13f45fbdb79c454605337d76724a99a37138b9b Homepage: https://cran.r-project.org/package=tcltk2 Description: CRAN Package 'tcltk2' (Tcl/Tk Additions) A series of additional Tcl commands and Tk widgets to supplement the tcltk package. Package: r-cran-tcomp Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 575 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mcomp, r-cran-forecast Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-dplyr, r-cran-xtable Filename: pool/dists/focal/main/r-cran-tcomp_1.0.1-1.ca2004.1_all.deb Size: 493800 MD5sum: af34bd0cd5c5957a04fba4666af16b40 SHA1: dd3609b40c1e670f3e011ed6829cc4c56a076b49 SHA256: 614f2429169a027536000925fcb69c76ffea7141e18c5edc3da3806467666e0e SHA512: d478f13eaa625c1283be906973f83bb2a77d8b7bbc31c4e7b08de653bac53095fc91179138e6eec63e78edec8b6f5c2ddd22c583e1045b8ecc7e82a77eab94c7 Homepage: https://cran.r-project.org/package=Tcomp Description: CRAN Package 'Tcomp' (Data from the 2010 Tourism Forecasting Competition) The 1311 time series from the tourism forecasting competition conducted in 2010 and described in Athanasopoulos et al. (2011) . 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The original tcplFit() function in the tcpl R package performed basic concentration-response curvefitting to 3 models. With tcplfit2, the core tcpl concentration-response functionality has been expanded to process diverse high-throughput screen (HTS) data generated at the US Environmental Protection Agency, including targeted ToxCast, high-throughput transcriptomics (HTTr) and high-throughput phenotypic profiling (HTPP). tcplfit2 can be used independently to support analysis for diverse chemical screening efforts. Package: r-cran-tcpmor Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-semipar Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tcpmor_1.0-1.ca2004.1_all.deb Size: 24640 MD5sum: 0e30de2ae45ff2989f4e35f55c80dfa9 SHA1: 37ccc28b5ead5bf83b5e2fabe7f9b9fb2330df3a SHA256: 63d8f8d8cfc45fb9ca72e096b723f8b6166667d98366588c926617715a0b266f SHA512: df36c8a687999e8eae7b41ca92a684b3f582340c72c7f6fb1f53d3f455e8ef3f520b4e11955d686740cc0290107db4f82c8ceb5f2038286b94d4cedaa8a20d94 Homepage: https://cran.r-project.org/package=TCPMOR Description: CRAN Package 'TCPMOR' (Two Cut-Points with Maximum Odds Ratio) Enables the computation of the 'two cut-points with maximum odds ratio (OR) value method' for data analysis, particularly suited for binary classification tasks. Users can identify optimal cut-points in a continuous variable by maximizing the odds ratio while maintaining an equal risk level, useful for tasks such as medical diagnostics, risk assessment, or predictive modeling. 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Package: r-cran-tcsinvest Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 583 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-data.table, r-cran-jsonlite, r-cran-websocket Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-tcsinvest_0.1.1-1.ca2004.1_all.deb Size: 370348 MD5sum: a43fc7d25061d53cae22a2207196f66c SHA1: 148c63aef7b7dc113b35dd09462dd616cb056a24 SHA256: f5ed3766f1d4aebcdd92c39ced694519b7aaf3cbe36b6f02e0cf52ff7b1a6d0d SHA512: 1a6e564c698d78c44906eecd3e13ad5f7e64bad4c1b17f089842fe6429f4a1efce0638ca3cce53458979d1ccd358fd48ddafa2e199620e1c91b595eb6b24e649 Homepage: https://cran.r-project.org/package=tcsinvest Description: CRAN Package 'tcsinvest' (R API for Tinkoff Investments) R functions for Tinkoff Investments API . Using this package, analysts and traders can interact with account and market data from within R. Clients for both REST and Streaming protocols implemented. Package: r-cran-tcxr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xml Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tcxr_0.1.0-1.ca2004.1_all.deb Size: 19388 MD5sum: 49763931c0919d16e073f5e2af3d0fc8 SHA1: e030271a8ac3fe4c5816fdd133eeed4e4ad1cde5 SHA256: d9548f639401e063ee549d9ec9ce34cf11a5b58faf09efefc8a27d5423deb806 SHA512: be52150371b8f520f26f85c46838a769d399def5e044be97eb0f4d9cbd521f48514fcf70c9a965d95280a366c8fba32ec5d22f271d2abad2bfd25917f19df999 Homepage: https://cran.r-project.org/package=tcxr Description: CRAN Package 'tcxr' (Parse and Analyze TCX Files) Framework provides functions to parse 'Training Center XML (TCX)' files and extract key activity metrics such as total distance, total time, calories burned, maximum altitude, and power values (watts). This package is useful for analyzing workout and training data from devices that export 'TCX' format. Package: r-cran-td Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rcppsimdjson Suggests: r-cran-tinytest, r-cran-xts Filename: pool/dists/focal/main/r-cran-td_0.0.6-1.ca2004.1_all.deb Size: 81748 MD5sum: 25abd3f777f8c02192ce61803d8ab2eb SHA1: 2e7037a7ab0f08771f5ae63e1fd983a967ade8ae SHA256: c90a317d4172cc68a906fc3a7f062e2c900cc293963b6ad4886c4a78ea6fac76 SHA512: 01229ee3d1200b971d0f2f7b0c3ea77f7bb1d9520fe5bb5425f4897128937c06a44e5b9e6063ce508949057449e61aa6e523b33b86075cd1f8f0b973c2f919ca Homepage: https://cran.r-project.org/package=td Description: CRAN Package 'td' (Access to the 'twelvedata' Financial Data API) The 'twelvedata' REST service offers access to current and historical data on stocks, standard as well as digital 'crypto' currencies, and other financial assets covering a wide variety of course and time spans. See for details, to create an account, and to request an API key for free-but-capped access to the data. Package: r-cran-tdamapper Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-fastcluster, r-cran-igraph Filename: pool/dists/focal/main/r-cran-tdamapper_1.0-1.ca2004.1_all.deb Size: 25980 MD5sum: 3b4202fb87f354eced40c9681c46acec SHA1: 2d3b89c4bb3b1d03bb40e9f218366452377327ca SHA256: caf3ae29d5c8a45d6e7ea1e2c608794631cc6aabac5031af6fb239d9a42e7768 SHA512: aef53cfb1d82b4dc00ea77b22470dacc280504189a92963d336e0bf0d240a8fb057868edeb190a35a51573ac24849ee5d82051b285641c1db9c8360196a64d1c Homepage: https://cran.r-project.org/package=TDAmapper Description: CRAN Package 'TDAmapper' (Analyze High-Dimensional Data Using Discrete Morse Theory) Topological Data Analysis using Mapper (discrete Morse theory). Generate a 1-dimensional simplicial complex from a filter function defined on the data: 1. Define a filter function (lens) on the data. 2. Perform clustering within within each level set and generate one node (vertex) for each cluster. 3. For each pair of clusters in adjacent level sets with a nonempty intersection, generate one edge between vertices. The function mapper1D uses a filter function with codomain R, while the the function mapper2D uses a filter function with codomain R^2. Package: r-cran-tdarec Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1141 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-recipes, r-cran-dials, r-cran-rlang, r-cran-vctrs, r-cran-scales, r-cran-tibble, r-cran-purrr, r-cran-tidyr, r-cran-magrittr Suggests: r-cran-ripserr, r-cran-tda, r-cran-tdavec, r-cran-testthat, r-cran-modeldata, r-cran-tdaunif, r-cran-knitr, r-cran-rmarkdown, r-cran-tidymodels, r-cran-ranger Filename: pool/dists/focal/main/r-cran-tdarec_0.2.0-1.ca2004.1_all.deb Size: 819572 MD5sum: cc8ac9c6d636b5c0e93810aeb69a27fa SHA1: 25b300accbf62f2db52bbef290ade4f4bfc73827 SHA256: 06b3d667949253f198323c32c835a3b5aedb4e1c41eb5c55a474e59f42b5cbdd SHA512: b1a0915ee8840c8c54b2db7fa9144c0ad06559f3336a7ed0c7c12303502190bedb58e1affe37de7cbd1d0ad1bdedadcb79df45499a553ddb68b9ce7d4a9a0a62 Homepage: https://cran.r-project.org/package=tdarec Description: CRAN Package 'tdarec' (A 'recipes' Extension for Persistent Homology and ItsVectorizations) Topological data analytic methods in machine learning rely on vectorizations of the persistence diagrams that encode persistent homology, as surveyed by Ali &al (2000) . Persistent homology can be computed using 'TDA' and 'ripserr' and vectorized using 'TDAvec'. The Tidymodels package collection modularizes machine learning in R for straightforward extensibility; see Kuhn & Silge (2022, ISBN:978-1-4920-9644-3). These 'recipe' steps and 'dials' tuners make efficient algorithms for computing and vectorizing persistence diagrams available for Tidymodels workflows. Package: r-cran-tdaunif Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 509 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-tdaunif_0.2.0-1.ca2004.1_all.deb Size: 343436 MD5sum: 98b6bdadc0af3a1e6890d800ad8f5b98 SHA1: 27ec2f772b358184598b56357fa94d684215ffc7 SHA256: bdb3505c9a614b0194116d77e58ffb41f8cd60d8f796deaf2eead7ddea75210c SHA512: 65247286813c3837d4e50b737f862b1e6610790a5ecf3fce72be14e1035aed833ae26ce78ee95b3caf58b988260263d9dda21165922e789e43f79b29d36ff69c Homepage: https://cran.r-project.org/package=tdaunif Description: CRAN Package 'tdaunif' (Uniform Manifold Samplers for Topological Data Analysis) Uniform random samples from simple manifolds, sometimes with noise, are commonly used to test topological data analytic (TDA) tools. 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Package: r-cran-tdbook Architecture: all Version: 0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3307 Depends: r-base-core (>= 4.2.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tdbook_0.0.6-1.ca2004.1_all.deb Size: 3263200 MD5sum: 6205efe5006ea71fa33f4a6824c8ef09 SHA1: ed7bcdee1e755559ffa9ddbffdc960542902ad4d SHA256: 98c41d08e00f18cbd92303b672e243e5b9ce00031fbc28e1816e0834782fc857 SHA512: 1e28a17e27061eef6d27693e247cc4183f4529082b8c1854104c637192fff3f0af79772082ce5e678d1873531d53227d52bea10d3c9d897dc36e7b72af1bda76 Homepage: https://cran.r-project.org/package=TDbook Description: CRAN Package 'TDbook' (Companion Package for the Book "Data Integration, Manipulationand Visualization of Phylogenetic Trees" by Guangchuang Yu(2022, ISBN:9781032233574)) The companion package that provides all the datasets used in the book "Data Integration, Manipulation and Visualization of Phylogenetic Trees" by Guangchuang Yu (2022, ISBN:9781032233574). 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As the LCDM subsumes many other diagnostic classification models (DCMs), many other DCMs can be estimated longitudinally via the TDCM. The 'TDCM' package includes functions to estimate the single-group and multigroup TDCM, summarize results of interest including item parameters, growth proportions, transition probabilities, transitional reliability, attribute correlations, model fit, and growth plots. 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Package: r-cran-telegram Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-httr, r-cran-jsonlite, r-cran-curl Filename: pool/dists/focal/main/r-cran-telegram_0.7.1-1.ca2004.1_all.deb Size: 183236 MD5sum: d6e109736ec289076444bb14b96f2328 SHA1: 5ade4d16d8512456342487e0cc77eb3d6031fc85 SHA256: 77746145ade69c982a5e4c6546759d69ab5d58fd33c829884a3667ae9c4c52ca SHA512: d7195719eb2975497595ef468d2d15c324280349fd7c3f2e6faa3854be78a950c69bc0dd0805223a527d61d2c02f57fff024995e3e37ac70947b6ea9c2d655a8 Homepage: https://cran.r-project.org/package=telegram Description: CRAN Package 'telegram' (R Wrapper Around the Telegram Bot API) A simple wrapper around the Telegram Bot API () to access Telegram's messaging facilities with ease (e.g. you send messages, images, files from R to your smartphone). Package: r-cran-telemetr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1678 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-lubridate, r-cran-zoo, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rerddap, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-telemetr_1.0-1.ca2004.1_all.deb Size: 1499664 MD5sum: 4e6e2aa26e19d10038a6086814c2221b SHA1: 57bb3b1f3e0a182bdbc50a813d8fdf14a9243ac9 SHA256: 8c30a030d22edd97f86066303971f5f93ef5b3f53927a4f39def260eaa467134 SHA512: fa5dc662c00afcc8534811024b5071df71e5e66a10aee5db23efb91f5e14fde4b52bb6413d67b0f5eae7f7db625caaedf6080fadfe300e4b56233439554c2a27 Homepage: https://cran.r-project.org/package=telemetR Description: CRAN Package 'telemetR' (Filter and Analyze Generalised Telemetry Data from Organisms) Analyze telemetry datasets generalized to allow any technology. The filtering steps check for false positives caused by reflected transmissions from surfaces and false pings from other noise generating equipment. The filters are based on JSATS filtering algorithms found in package 'filteRjsats' but have been generalized to allow the user to define many of the filtering variables. Additionally, this package contains scripts used to help identify an optimal maximum blanking period as defined in Capello et al (2015) . The functions were written according to their manuscript description, but have not been reviewed by the authors for accuracy. It is included here as is, without warranty. Package: r-cran-telescope Architecture: all Version: 0.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1668 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-abind, r-cran-bayesm, r-cran-dirichletreg, r-cran-extradistr, r-cran-mcmcpack, r-cran-mvtnorm Suggests: r-cran-invgamma, r-cran-klar, r-cran-knitr, r-cran-mclust, r-cran-polca, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-telescope_0.2-0-1.ca2004.1_all.deb Size: 996636 MD5sum: a233dc3ecae5a215cb4cbf66a5603178 SHA1: a864ad78249c2d95a72fe73231aea928e5c72723 SHA256: 5fc49cac7406f4c577186200c21d6da3ca0a89b8608bd747c51dfc9b713ae48a SHA512: 779433d56051793fa7f9c529cb363c684317f191bcfae1efca0f5ab328da365a933dc667394738b40731129c68a2d4b43dc18603d5b70eb9af44b8e240c5574d Homepage: https://cran.r-project.org/package=telescope Description: CRAN Package 'telescope' (Bayesian Mixtures with an Unknown Number of Components) Fits Bayesian finite mixtures with an unknown number of components using the telescoping sampler and different component distributions. For more details see Frühwirth-Schnatter et al. (2021) . Package: r-cran-telp Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tcltk2, r-cran-tm, r-cran-wordcloud, r-cran-rcolorbrewer, r-cran-arules, r-cran-arulesviz, r-cran-ggplot2, r-cran-gridextra Filename: pool/dists/focal/main/r-cran-telp_1.0.3-1.ca2004.1_all.deb Size: 87608 MD5sum: 502928cbe534049a4ee938df0e492519 SHA1: d8d5818e5458fa1c3472af7ee680a0043e6ebc4e SHA256: 14a2cfeb420035555c25a1aef833601bb51c817d59e9b32253e94126cb8a7fda SHA512: 62291cc49137ba58ce4eeb0d697c3318afebc75c68f3e0f1f98206d0890ee9ea45f9b72414c203e6c71ee0ff30e02d915e1c2a3d6b0a342508ac3cb8626d4d39 Homepage: https://cran.r-project.org/package=TELP Description: CRAN Package 'TELP' (Social Representation Theory Application: The Free Evocation ofWords Technique) Using The Free Evocation of Words Technique method with some functions, this package will make a social representation and other analysis. 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Package: r-cran-telraamstats Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2634 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-config, r-cran-dplyr, r-cran-ggplot2, r-cran-httr, r-cran-jsonlite, r-cran-lubridate, r-cran-paletteer, r-cran-purrr, r-cran-reshape2, r-cran-rlang, r-cran-scales, r-cran-tidyr, r-cran-yaml Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-telraamstats_1.1.2-1.ca2004.1_all.deb Size: 2358468 MD5sum: ff3842cf0ab025b95f44133b0c89030e SHA1: c761e8e9301e69d87b8cd93528d12a639d162430 SHA256: c19436ff12a303a50c463708f12574c54f3b4965df6a6684ec10a2bf7c23a33d SHA512: f7f4031a54621ca81619f18525615f9a9ec1d648bf6d37c1230849d2dce378bafb854ba9263b51ed99e0f2dc90adb86dc2539af21c21acda8f6613e4787c0b95 Homepage: https://cran.r-project.org/package=telraamStats Description: CRAN Package 'telraamStats' (Retrieval and Visualization of Mobility Data from 'Telraam'Sensors) Streamline the processing of 'Telraam' data, sourced from open data mobility sensors. 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Package: r-cran-tempcont Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nlme Filename: pool/dists/focal/main/r-cran-tempcont_0.1.0-1.ca2004.1_all.deb Size: 48764 MD5sum: be92c3abcd3773b2c0137027b1b7b6ac SHA1: 0201781d04aa3ef9c0f096c21d90cdc13d30a699 SHA256: 485eb4dc20fcbd5c462e166b8baddb5ad9357efd88ac05bb8276ed1cf87d3740 SHA512: 87a82f7b4d20c76a7fb1cd119180c4a2364d83119b6552050263143d6fa90c97c4f7a157b06c6bb3349bd5469ff537c77544e72349aea02912727c223198da65 Homepage: https://cran.r-project.org/package=TempCont Description: CRAN Package 'TempCont' (Temporal Contributions on Trends using Mixed Models) Method to estimate the effect of the trend in predictor variables on the observed trend of the response variable using mixed models with temporal autocorrelation. See Fernández-Martínez et al. (2017 and 2019) . Package: r-cran-tempdisagg Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 600 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-tsbox, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-tempdisagg_1.1.1-1.ca2004.1_all.deb Size: 383268 MD5sum: 59032cc2031df4df022a9e87e2be92e7 SHA1: 3b3740224fc47b4e758cefc0d1ff62143dccd902 SHA256: 323edfc8da2182d9fcdb82b2b6ecd821dec7e83e415c1d92a05055447cc36ebd SHA512: 9cbb913e6db9f1b1df7c40c196a87af1192b5b06e7bf028a8922b563ed6de0cf634bd67eaabfc508124494c1c5ffe6ee6f0f4cbb982fdfd7ebde2cc7683e5323 Homepage: https://cran.r-project.org/package=tempdisagg Description: CRAN Package 'tempdisagg' (Methods for Temporal Disaggregation and Interpolation of TimeSeries) Temporal disaggregation methods are used to disaggregate and interpolate a low frequency time series to a higher frequency series, where either the sum, the mean, the first or the last value of the resulting high frequency series is consistent with the low frequency series. Temporal disaggregation can be performed with or without one or more high frequency indicator series. Contains the methods of Chow-Lin, Santos-Silva-Cardoso, Fernandez, Litterman, Denton and Denton-Cholette, summarized in Sax and Steiner (2013) . Supports most R time series classes. Package: r-cran-temperatureresponse Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-broom, r-cran-dplyr, r-cran-rootsolve, r-cran-minpack.lm, r-cran-aiccmodavg, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-temperatureresponse_0.2-1.ca2004.1_all.deb Size: 69620 MD5sum: b31794652581ef950433b501cdebecc0 SHA1: fe2874cad11e3dc1561b54cc579b0e0a8c430da5 SHA256: acc2a59ef34b7dcd5f7e8ba0670e8f0b2b133aebdf179767d9671116c7cfa1d2 SHA512: c9f9dd7f1945bf19557e590e395de145e09ada9acd4348a8b6e9a07728ea36c8f095990dcec06b5d5af2ee6ffdaf0cbb2a80e3dbeed3dc7de24f9d5039fc9ccd Homepage: https://cran.r-project.org/package=temperatureresponse Description: CRAN Package 'temperatureresponse' (Temperature Response) Fits temperature response models to rate measurements taken at different temperatures. Etienne Low-Decarie,Tobias G. Boatman, Noah Bennett,Will Passfield,Antonio Gavalas-Olea,Philipp Siegel, Richard J. Geider (2017) . Package: r-cran-templateicar Architecture: all Version: 0.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 530 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-abind, r-cran-fmritools, r-cran-fmriscrub, r-cran-foreach, r-cran-ica, r-cran-matrix, r-cran-matrixstats, r-cran-pesel, r-cran-squarem Suggests: r-cran-ciftitools, r-cran-excursions, r-cran-rnifti, r-cran-oro.nifti, r-cran-gifti, r-cran-covr, r-cran-doparallel, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-templateicar_0.10.0-1.ca2004.1_all.deb Size: 480856 MD5sum: e7212e946b1f05361819451a97dcdc83 SHA1: 28785430d2f9cf2b9b107dfb47a3cd0d02e13a28 SHA256: 1e45075402b3a453b3adc74831a61be02982b23a79851d403703cf8c1efc8106 SHA512: 3d3aefef4df2a664332b990cf530d4570adbd57e2dc170f2b7ccda50e1775dffaf7d2e95f4eec70b0e6ff6c45cfca1b2c7ab431440faae2fed47235463c8af7a Homepage: https://cran.r-project.org/package=templateICAr Description: CRAN Package 'templateICAr' (Estimate Brain Networks and Connectivity with ICA and EmpiricalPriors) Implements the template ICA (independent components analysis) model proposed in Mejia et al. (2020) and the spatial template ICA model proposed in proposed in Mejia et al. (2022) . Both models estimate subject-level brain as deviations from known population-level networks, which are estimated using standard ICA algorithms. Both models employ an expectation-maximization algorithm for estimation of the latent brain networks and unknown model parameters. Includes direct support for 'CIFTI', 'GIFTI', and 'NIFTI' neuroimaging file formats. Package: r-cran-templates Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 82 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-stringr, r-cran-magrittr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-templates_0.4.0-1.ca2004.1_all.deb Size: 28576 MD5sum: f4759629d2158d1475d1aadf6634c1a4 SHA1: 4e2d77e41226af853a3de8c62eff157676e80cee SHA256: 01898422029e4f7df7a81e18988ac73b0438380a934051c4fb94f79770b1e54a SHA512: 1d75172ec652ccbfd59f7bbaf3570a381950ce99a0c4a04917c2e69f4aa50ad1d893ef3e116a205c68e50eee972144e977386dc2f6385b6fe89d861256e87de0 Homepage: https://cran.r-project.org/package=templates Description: CRAN Package 'templates' (A System for Working with Templates) Provides tools to work with template code and text in R. It aims to provide a simple substitution mechanism for R-expressions inside these templates. Templates can be written in other languages like 'SQL', can simply be represented by characters in R, or can themselves be R-expressions or functions. Package: r-cran-templr Architecture: all Version: 0.2-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 120 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-remotes, r-cran-xml2, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-future Filename: pool/dists/focal/main/r-cran-templr_0.2-0-1.ca2004.1_all.deb Size: 80424 MD5sum: 290706c221c989f333850d68a651e447 SHA1: 57dc7896f806459288b24bf262f150945f9c15a8 SHA256: 529378eada6dd400a89a41b60494b5de0afdf5ff676990aa933bb11324cc708f SHA512: edc1cef0317479f7d835427e3e8ea6488a2924213599e9fd7c989633a1d34a3ae3ed9952000d02fe4088556817de392f1eb8e747a922a064389c42e784f6d982 Homepage: https://cran.r-project.org/package=templr Description: CRAN Package 'templr' (MASCOTNUM Algorithms Template Tools) Helper functions for MASCOTNUM algorithm template, for design of numerical experiments practice: algorithm template parser to support MASCOTNUM specification , 'ask & tell' decoupling injection (inspired by ) to use "crimped" algorithms (like uniroot(), optim(), ...) from outside R, basic template examples: Brent algorithm for 1 dim root finding and L-BFGS-B from base optim(). Package: r-cran-tempor Architecture: all Version: 1.0.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1700 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-doparallel, r-cran-foreach, r-cran-pls Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tempor_1.0.4.4-1.ca2004.1_all.deb Size: 1024840 MD5sum: fab6f04aad4932c37e37a8378497d6ee SHA1: 6c6c3d30a85a6011f596702d004e41bb35c7f324 SHA256: 6f3b9956fe9558b42bed1745e936444ab764490db617856ec28ba35160f6cf7e SHA512: 557ad975dd7ee1317f17a6ee80aeb0738579bab42aef439c77c9bb887e81903214b3a2f3026d8ba82f2569830b5e72fb49e80086d253c805a959276ea4e38367 Homepage: https://cran.r-project.org/package=tempoR Description: CRAN Package 'tempoR' (Characterizing Temporal Dysregulation) TEMPO (TEmporal Modeling of Pathway Outliers) is a pathway-based outlier detection approach for finding pathways showing significant changes in temporal expression patterns across conditions. Given a gene expression data set where each sample is characterized by an age or time point as well as a phenotype (e.g. control or disease), and a collection of gene sets or pathways, TEMPO ranks each pathway by a score that characterizes how well a partial least squares regression (PLSR) model can predict age as a function of gene expression in the controls and how poorly that same model performs in the disease. TEMPO v1.0.3 is described in Pietras (2018) . Package: r-cran-temporal Architecture: all Version: 0.3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 648 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-expint, r-cran-numderiv, r-cran-tidyr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-withr Filename: pool/dists/focal/main/r-cran-temporal_0.3.0.1-1.ca2004.1_all.deb Size: 593852 MD5sum: 815354d855e730d365f4141bd8d5ccc7 SHA1: e339a190a422f2f563a443646153cfb3b3403134 SHA256: 291a102ba5e296b922d6f13c6b5619c56e0fd9a9558d35a6d591ebaf24175fcf SHA512: d2874c55079bdd1c843d8eb704782929849e44779154020fbcb451da983b10147f91776ede5129fde83e392de16530a4360279abee7e7fd080b6b6d4bced0b79 Homepage: https://cran.r-project.org/package=Temporal Description: CRAN Package 'Temporal' (Parametric Time to Event Analysis) Performs maximum likelihood based estimation and inference on time to event data, possibly subject to non-informative right censoring. FitParaSurv() provides maximum likelihood estimates of model parameters and distributional characteristics, including the mean, median, variance, and restricted mean. CompParaSurv() compares the mean, median, and restricted mean survival experiences of two treatment groups. Candidate distributions include the exponential, gamma, generalized gamma, log-normal, and Weibull. Package: r-cran-temporalgssa Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-temporalgssa_1.0.1-1.ca2004.1_all.deb Size: 25064 MD5sum: 5ea62ba20444be840ae717d79f371df0 SHA1: 5db86e04a148814cfc8adab5e0723833d10432ac SHA256: 80bb9513e1bb20c51cc10da1d5c3dc62f38b2f673bb686f3833e4e4998aac58e SHA512: c97ce5200ab733b7eabf3bbb6aca4a770e1f56ef1b876e6851905068d1f926a552c40445a2a3635733a1457c9b2056ee5ae8627b6d70449a0287e385853be8de Homepage: https://cran.r-project.org/package=TemporalGSSA Description: CRAN Package 'TemporalGSSA' (Outputs Temporal Profile of Molecules from Stochastic SimulationAlgorithm Generated Datasets) The data that is generated from independent and consecutive 'GillespieSSA' runs for a generic biochemical network is formatted as rows and constitutes an observation. The first column of each row is the computed timestep for each run. Subsequent columns are used for the number of molecules of each participating molecular species or "metabolite" of a generic biochemical network. In this way 'TemporalGSSA', is a wrapper for the R-package 'GillespieSSA'. The number of observations must be at least 30. This will generate data that is statistically significant. 'TemporalGSSA', transforms this raw data into a simulation time-dependent and metabolite-specific trial. Each such trial is defined as a set of linear models (n >= 30) between a timestep and number of molecules for a metabolite. Each linear model is characterized by coefficients such as the slope, arbitrary constant, etc. The user must enter an integer from 1-4. These specify the statistical modality utilized to compute a representative timestep (mean, median, random, all). These arguments are mandatory and will be checked. Whilst, the numeric indicator "0" indicates suitability, "1" prompts the user to revise and re-enter their data. An optional logical argument controls the output to the console with the default being "TRUE" (curtailed) whilst "FALSE" (verbose). The coefficients of each linear model are averaged (mean slope, mean constant) and are incorporated into a metabolite-specific linear regression model as the dependent variable. The independent variable is the representative timestep chosen previously. The generated data is the imputed molecule number for an in silico experiment with (n >=30) observations. These steps can be replicated with multiple set of observations. The generated "technical replicates" can be statistically evaluated (mean, standard deviation) and will constitute simulation time-dependent molecules for each metabolite. For SSA-generated datasets with varying simulation times 'TemporalGSSA' will generate a simulation time-dependent trajectory for each metabolite of the biochemical network under study. The relevant publication with the mathematical derivation of the algorithm is (2022, Journal of Bioinformatics and Computational Biology) . The algorithm has been deployed in the following publications (2021, Heliyon) and (2016, Journal of Theoretical Biology) . Package: r-cran-tempr Architecture: all Version: 0.10.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 305 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tempr_0.10.1.1-1.ca2004.1_all.deb Size: 249196 MD5sum: 2fb40101facba6eb9122b9c73ef553a7 SHA1: d00fb507aa5beae3cfcae261b6f40858f0574df3 SHA256: f58404a7223b2ec81d57505e7560eb124eb025000f10b90706d12de31e31f623 SHA512: 238c8a55ffd625882e9f60c97419fb463c00376201b3fea9de00b42e5c22f90bff7acc4c2c6e1d2f8bab90570f1ef71ab360c2b682f12a31e54613599030842e Homepage: https://cran.r-project.org/package=tempR Description: CRAN Package 'tempR' (Temporal Sensory Data Analysis) Analysis and visualization of data from temporal sensory methods, including for temporal check-all-that-apply (TCATA) and temporal dominance of sensations (TDS). Methods are mainly from manuscripts by Castura, J.C., Antúnez, L., Giménez, A., and Ares, G. (2016) , Castura, Baker, and Ross (2016) , and Pineau et al. (2009) . Package: r-cran-tempstable Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1059 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-copula, r-cran-doparallel, r-cran-foreach, r-cran-gsl, r-cran-hypergeo, r-cran-moments, r-cran-numderiv, r-cran-stabledist, r-cran-stableestim, r-cran-rootsolve, r-cran-vgam Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-v8 Filename: pool/dists/focal/main/r-cran-tempstable_0.2.2-1.ca2004.1_all.deb Size: 883740 MD5sum: 282f2c3a37125032fc5b601b4e61ea88 SHA1: 82e315786534899bc200edbfa9156afe6e9070fe SHA256: cf86e1eb350c56bb4e4bad753fee773d4e1808cbb14f9ede062f1fd360760bc5 SHA512: a49f8d42021283f9881acd5749c1ff507e25c901bbbd332304862ce464091ee0cd7273e23b3b9cd42cf311c20b68ee0b96ecc6fb3bc12d377882b16601cd3815 Homepage: https://cran.r-project.org/package=TempStable Description: CRAN Package 'TempStable' (A Collection of Methods to Estimate Parameters of DifferentTempered Stable Distributions) A collection of methods to estimate parameters of different tempered stable distributions (TSD). Currently, there are seven different tempered stable distributions to choose from: Tempered stable subordinator distribution, classical TSD, generalized classical TSD, normal TSD, modified TSD, rapid decreasing TSD, and Kim-Rachev TSD. The package also provides functions to compute density and probability functions and tools to run Monte Carlo simulations. This package has already been used for the estimation of tempered stable distributions (Massing (2023) ). The following references form the theoretical background for various functions in this package. References for each function are explicitly listed in its documentation: Bianchi et al. (2010) Bianchi et al. (2011) Carrasco (2017) Feuerverger (1981) Hansen et al. (1996) Hansen (1982) Hofert (2011) Kawai & Masuda (2011) Kim et al. (2008) Kim et al. (2009) Kim et al. (2010) Kuechler & Tappe (2013) Rachev et al. (2011) . Package: r-cran-tempted Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3239 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-np, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-tempted_0.1.1-1.ca2004.1_all.deb Size: 3124408 MD5sum: d2830783eb0378ef0eb89c32b0d66ede SHA1: 571d0787cd47bbd310c9dfdf3ac20516f386eea0 SHA256: f6d9b0c8cd59375fb2be4b2914526e697d3144d30f398480728b0289891635bb SHA512: 762dfcc5a159cf866254dd1d9003d271e92db355be7ca35203fe793088ca10e72b7be90349f8492f8009d3cf970f0adebb2318d917d2535d988b59b7bb8e864f Homepage: https://cran.r-project.org/package=tempted Description: CRAN Package 'tempted' (Temporal Tensor Decomposition, a Dimensionality Reduction Toolfor Longitudinal Multivariate Data) TEMPoral TEnsor Decomposition (TEMPTED), is a dimension reduction method for multivariate longitudinal data with varying temporal sampling. It formats the data into a temporal tensor and decomposes it into a summation of low-dimensional components, each consisting of a subject loading vector, a feature loading vector, and a continuous temporal loading function. These loadings provide a low-dimensional representation of subjects or samples and can be used to identify features associated with clusters of subjects or samples. TEMPTED provides the flexibility of allowing subjects to have different temporal sampling, so time points do not need to be binned, and missing time points do not need to be imputed. Package: r-cran-tendril Architecture: all Version: 2.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1832 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-plyr, r-cran-reshape2, r-cran-magrittr, r-cran-scales, r-cran-plotly Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-tendril_2.0.4-1.ca2004.1_all.deb Size: 1262740 MD5sum: 8aa08892e8d13e28b90a0a890730b740 SHA1: a74191ce7a19127e29de61a17d37f17fb537772c SHA256: 520ef0516d67c7320ef33669e8e300c0cfcca40a29f5b7f1a477e2df9d88e876 SHA512: d3f9a60107b6a3d6c67a23f1c081ebe1ac3beb77d0540d67866167ff8b4fdd4cbe42f11dab5148481d11ed2abed367f1de67a02971e3f5610833b932bfaf54db Homepage: https://cran.r-project.org/package=Tendril Description: CRAN Package 'Tendril' (Compute and Display Tendril Plots) Compute the coordinates to produce a tendril plot. In the tendril plot, each tendril (branch) represents a type of events, and the direction of the tendril is dictated by on which treatment arm the event is occurring. If an event is occurring on the first of the two specified treatment arms, the tendril bends in a clockwise direction. If an event is occurring on the second of the treatment arms, the tendril bends in an anti-clockwise direction. Ref: Karpefors, M and Weatherall, J., "The Tendril Plot - a novel visual summary of the incidence, significance and temporal aspects of adverse events in clinical trials" - JAMIA 2018; 25(8): 1069-1073 . Package: r-cran-tenispolar Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tenispolar_0.1.4-1.ca2004.1_all.deb Size: 21440 MD5sum: c4c7f176c5a87a0ae42054eb557f76d6 SHA1: 37e21e28dfe857fad096467ed09de3c2faa9ad2d SHA256: 940f1bd4a158caa0fd4f100ecfc8458f25cc2859a8c31e08aa18c5b6ab2197c7 SHA512: 24b6b76a8a34444d4d5c1380e75b58eb87a2a23e0e7328ec3e76f0aea0223749653a51055cdfb8e4329e92671f2180433ce9545344c2a6971b5a8abe1290e2bc Homepage: https://cran.r-project.org/package=tenispolaR Description: CRAN Package 'tenispolaR' (Provides ZENIT-POLAR Substitution Cipher Method of Encryption) Implementation of ZENIT-POLAR substitution cipher method of encryption using by default the TENIS-POLAR cipher. This last cipher of encryption became famous through the collection of Brazilian books "Os Karas" by the author Pedro Bandeira. For more details, see "A Cryptographic Dictionary" (GC&CS, 1944). Package: r-cran-tenm Architecture: all Version: 0.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2696 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-terra, r-cran-sf, r-cran-purrr, r-cran-dplyr, r-cran-stringr, r-cran-rgl, r-cran-future, r-cran-tidyr, r-cran-furrr, r-cran-lubridate Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tenm_0.5.1-1.ca2004.1_all.deb Size: 1000688 MD5sum: b8ca10b4498400ecf01abbf3cb8b00b8 SHA1: 94cff438b412e224b4eea941ae4e4ba722e8aec1 SHA256: aba4f47f3ba2c8a40ecc4a02c69c7d5a0be37c05cb87668e62b244322775eb77 SHA512: c3735c6c382083de279703ac171423dc7ab91db214b6adbd51036b0fd642af42186dab52d377452fa6603a43b7b9afdf20cff1541c67c0eac2914de4263024cc Homepage: https://cran.r-project.org/package=tenm Description: CRAN Package 'tenm' (Temporal Ecological Niche Models) Implements methods and functions to calibrate time-specific niche models (multi-temporal calibration), letting users execute a strict calibration and selection process of niche models based on ellipsoids, as well as functions to project the potential distribution in the present and in global change scenarios.The 'tenm' package has functions to recover information that may be lost or overlooked while applying a data curation protocol. This curation involves preserving occurrences that may appear spatially redundant (occurring in the same pixel) but originate from different time periods. A novel aspect of this package is that it might reconstruct the fundamental niche more accurately than mono-calibrated approaches. The theoretical background of the package can be found in Peterson et al. (2011). Package: r-cran-tensor Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tensor_1.5.1-1.ca2004.1_all.deb Size: 15104 MD5sum: fa30455052362643f9521f44872f9e6a SHA1: eab4a141b156c1d4e1385d46b4cd69ad6b7c15e5 SHA256: 11a357ec8122cfab1f2f1882d0ee6f7e4508731d702a9a348ca7d3df411d555e SHA512: 17edf0ae97ec959d65e0e7e69d2df1e7973799223c3f7db6ff5a966f3edd1d9f9d21e7449649430229019a2195b5610c56078b8518f618c97e8df9e09b4cbeee Homepage: https://cran.r-project.org/package=tensor Description: CRAN Package 'tensor' (Tensor Product of Arrays) The tensor product of two arrays is notionally an outer product of the arrays collapsed in specific extents by summing along the appropriate diagonals. Package: r-cran-tensorbf Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tensor Filename: pool/dists/focal/main/r-cran-tensorbf_1.0.2-1.ca2004.1_all.deb Size: 95936 MD5sum: def6c2907ab8ad35e8e859b87e401a0f SHA1: eed9eba3b2278885798f49416a2a65da3f59fb5e SHA256: d38ce48e2b1250b4dd6e57687004adf8b6f9bb2390047f6f7d4941be501b3af9 SHA512: f9477958708bcdfee4cf3a0d9eb5cb90f11e1939d24ec88d9740f6d6a06c6a2788d541b4d76de13c5cc96ce9b01bcf0d918c85179ee98723f28b445b0b3a2868 Homepage: https://cran.r-project.org/package=tensorBF Description: CRAN Package 'tensorBF' (Bayesian Tensor Factorization) Bayesian Tensor Factorization for decomposition of tensor data sets using the trilinear CANDECOMP/PARAFAC (CP) factorization, with automatic component selection. The complete data analysis pipeline is provided, including functions and recommendations for data normalization and model definition, as well as missing value prediction and model visualization. The method performs factorization for three-way tensor datasets and the inference is implemented with Gibbs sampling. Package: r-cran-tensorcomplete Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pracma, r-cran-tensorregress, r-cran-mass Filename: pool/dists/focal/main/r-cran-tensorcomplete_0.2.0-1.ca2004.1_all.deb Size: 88016 MD5sum: 5699fa42401939e12c296d7021f98986 SHA1: 3526acf5d54c94a0894defa7854bd6a047d22320 SHA256: 919761605e5ba529d6fd4fa4d4a4e04b8cfd14695de8a8cdad8b5a93827927b8 SHA512: 02cf45663b3f78e2b8e777c8db2e667bb6a5a669b2606b55cc8d7742916f0b28136b36677e1aa7cdcc930ff9e33dee695432b2d5632c7e454e9e6765b35fc6e7 Homepage: https://cran.r-project.org/package=TensorComplete Description: CRAN Package 'TensorComplete' (Tensor Noise Reduction and Completion Methods) Efficient algorithms for tensor noise reduction and completion. This package includes a suite of parametric and nonparametric tools for estimating tensor signals from noisy, possibly incomplete observations. The methods allow a broad range of data types, including continuous, binary, and ordinal-valued tensor entries. The algorithms employ the alternating optimization. The detailed algorithm description can be found in the following three references. Package: r-cran-tensorflow Architecture: all Version: 2.16.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 274 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-config, r-cran-processx, r-cran-reticulate, r-cran-tfruns, r-cran-yaml, r-cran-tfautograph, r-cran-rstudioapi, r-cran-lifecycle Suggests: r-cran-testthat, r-cran-keras3, r-cran-pillar, r-cran-withr, r-cran-callr Filename: pool/dists/focal/main/r-cran-tensorflow_2.16.0-1.ca2004.1_all.deb Size: 205408 MD5sum: 94caeb3fcfaacf8181d2a41866580e4c SHA1: 4fd6ac0aa905b9097e953a6ccbf3d7110c43d139 SHA256: c7124a5665b10276f269db52468a447dcb5e118e04a941d7915127f5149ae980 SHA512: 40b6445a04fc493b00bb70b1f1e37f33cfcd80acd28243d1bb56166fede514bc3a51c5ff652c8306dac081407d3cb0877f47758093c51bd510e0cb22a31186d8 Homepage: https://cran.r-project.org/package=tensorflow Description: CRAN Package 'tensorflow' (R Interface to 'TensorFlow') Interface to 'TensorFlow' , an open source software library for numerical computation using data flow graphs. Nodes in the graph represent mathematical operations, while the graph edges represent the multidimensional data arrays (tensors) communicated between them. The flexible architecture allows you to deploy computation to one or more 'CPUs' or 'GPUs' in a desktop, server, or mobile device with a single 'API'. 'TensorFlow' was originally developed by researchers and engineers working on the Google Brain Team within Google's Machine Intelligence research organization for the purposes of conducting machine learning and deep neural networks research, but the system is general enough to be applicable in a wide variety of other domains as well. Package: r-cran-tensorfun Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-climprojdiags, r-cran-psychtools, r-cran-mass Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tensorfun_0.1.1-1.ca2004.1_all.deb Size: 40228 MD5sum: 294eee0e4fbecf58fbc2a6c9babe5fbf SHA1: e44634bcf04d8a2b5294af0e0b5c7b2e64b34156 SHA256: 08fea01bc8b43740b125178eeb3fb1b85873ac8ae6819ccb6b62ed965f8e07cb SHA512: 6267c91a41819009b45c62aebd9fe42f97ec977c41832f41c1c12dae925290292ce8e1721cfa955e80e10071b73fe421924e3f410d3677fb9e84ecc02f9befa7 Homepage: https://cran.r-project.org/package=tensorFun Description: CRAN Package 'tensorFun' (Basic Functions to Handle Tensor Data in Array Class) Basic functions to handle higher-order tensor data. See Kolda and Bader (2009) for details on tensor. While existing packages on tensor data extend the base 'array' class to some S4 classes, this package serves as an alternative resort to handle tensor only as 'array' class. Some functionalities related to missingness and rearrangement, discussed in Bai and Ng (2021) , are also supported. Package: r-cran-tensorpreave Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1030 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rtensor, r-cran-mass, r-cran-pracma Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tensorpreave_1.1.0-1.ca2004.1_all.deb Size: 964984 MD5sum: 07ae8708214879fa47c46b1b717b25d4 SHA1: 8bbbf401109424e05043d5c4101a27e7898fc5fb SHA256: 0f8afde3822d92680b8816d1fe43c8f0b3b55a8167e750f316c2f95865ec962b SHA512: fc9bc65196a2a9483b3d8e8d5a136a35e4aa584d0fd9aba7ecb52dd79145fe12fd94b781f84e5d11da92498887f06326e74726b1330486adf2acc74e066f1309 Homepage: https://cran.r-project.org/package=TensorPreAve Description: CRAN Package 'TensorPreAve' (Rank and Factor Loadings Estimation in Time Series Tensor FactorModels) A set of functions to estimate rank and factor loadings of time series tensor factor models. A tensor is a multidimensional array. To analyze high-dimensional tensor time series, factor model is a major dimension reduction tool. 'TensorPreAve' provides functions to estimate the rank of core tensors and factor loading spaces of tensor time series. More specifically, a pre-averaging method that accumulates information from tensor fibres is used to estimate the factor loading spaces. The estimated directions corresponding to the strongest factors are then used for projecting the data for a potentially improved re-estimation of the factor loading spaces themselves. A new rank estimation method is also implemented to utilizes correlation information from the projected data. See Chen and Lam (2023) for more details. Package: r-cran-tensorr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 868 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-assertive.base, r-cran-assertive.properties, r-cran-assertive.types, r-cran-matrix, r-cran-purrr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tensorr_0.1.1-1.ca2004.1_all.deb Size: 503564 MD5sum: a5d8672a91a0df3d2180d4dddfdf2b9c SHA1: bed8d370642423b0160e26f4fcb5b6fc45b5a226 SHA256: 0d88bf200a879354150afb8ed34dd42886e75d6976d9d5126805dcd31d773c86 SHA512: 1f36c65f1f395c0d031a33c2e754f5e779ae3c0b99cc08db566fbcf327cfe172dd314bbcf6b00ea6f5112b03cd2dfcfa399a2ebfb649d6f7ef01e510bd406e76 Homepage: https://cran.r-project.org/package=tensorr Description: CRAN Package 'tensorr' (Sparse Tensors in R) Provides methods to manipulate and store sparse tensors. Tensors are multidimensional generalizations of matrices (two dimensional) and vectors (one dimensional). Package: r-cran-tensorregress Architecture: all Version: 5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 572 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pracma, r-cran-mass Filename: pool/dists/focal/main/r-cran-tensorregress_5.1-1.ca2004.1_all.deb Size: 519448 MD5sum: 68a38b83e0833c212547f15ab4376196 SHA1: 48771cf6894ae7f9760c6d6a03979c1584efa29d SHA256: 73fb45d78a162d3f1f8b2ce10f81f9f47ea2d65363aa0fa1f1b2a6fa7687a7c4 SHA512: c4622d633d9435408d6750f99890319d606e77505d515b2c6009fe2b64adfd219f813b25785f967a37c73c3959d472b14290a21452154a53fe57a21562d972cf Homepage: https://cran.r-project.org/package=tensorregress Description: CRAN Package 'tensorregress' (Supervised Tensor Decomposition with Side Information) Implement the alternating algorithm for supervised tensor decomposition with interactive side information. Details can be found in the publication Hu, Jiaxin, Chanwoo Lee, and Miaoyan Wang. "Generalized Tensor Decomposition with features on multiple modes." Journal of Computational and Graphical Statistics, Vol. 31, No. 1, 204-218, 2022 . Package: r-cran-tensortest2d Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3371 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-abind, r-cran-glmnet, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tensortest2d_1.1.2-1.ca2004.1_all.deb Size: 3416776 MD5sum: f743e17cc45e2bb7f42273b05eaf0f5a SHA1: 4faa644d29336504943267fd0e1eb45879bc2163 SHA256: 492a5a58470ec55b172f79343b01922f48216a91ba93097effb32d16d212871a SHA512: 971aa243d85fcf35903c21b6d8184bec0f86fd66795659ac7716ef9c56cfe1f6c7c80e73d879f6f4846ac30ed285bc9fb05dc07e945c8e679d4daa378932a67e Homepage: https://cran.r-project.org/package=TensorTest2D Description: CRAN Package 'TensorTest2D' (Fitting Second-Order Tensor Data) An implementation of fitting generalized linear models on second-order tensor type data. The functions within this package mainly focus on parameter estimation, including parameter coefficients and standard deviation. Package: r-cran-tensortools Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4703 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-raster, r-cran-png, r-cran-wavethresh, r-cran-gsignal, r-cran-matrix, r-cran-matrixcalc Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tensortools_1.0.0-1.ca2004.1_all.deb Size: 4449696 MD5sum: e4e75f74e5a64d7b594beb8fe06cd1a3 SHA1: e448ee0013aaec73cc84a56e4427d4f4149d5096 SHA256: 86edcb17a5760d8365a4f8847762cce17472b1326655f0f681f7410309c760d1 SHA512: 9cb61bb09a8b8b184a1f8859625dac84263dd7d5b3745eb9dac145ec55912f089f3c13cabada37accc1617bdc749a3bc6f70560c78f8e1224aa79863295f7392 Homepage: https://cran.r-project.org/package=TensorTools Description: CRAN Package 'TensorTools' (Multilinear Algebra) A set of tools for basic tensor operators. A tensor in the context of data analysis in a multidimensional array. The tools in this package rely on using any discrete transformation (e.g. Fast Fourier Transform (FFT)). Standard tools included are the Eigenvalue decomposition of a tensor, the QR decomposition and LU decomposition. Other functionality includes the inverse of a tensor and the transpose of a symmetric tensor. Functionality in the package is outlined in Kernfeld, E., Kilmer, M., and Aeron, S. (2015) . 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Package: r-cran-tepr Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5591 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-tidyselect, r-cran-ggplot2, r-cran-pracma, r-cran-ggrepel, r-cran-matrixstats, r-cran-rlang, r-cran-magrittr, r-cran-purrr, r-bioc-rtracklayer, r-bioc-genomicranges, r-bioc-genomeinfodb, r-cran-valr, r-cran-tibble Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tepr_1.1.8-1.ca2004.1_all.deb Size: 3664572 MD5sum: 16e861e40b118d0d607b4540c10c75c1 SHA1: 4c0f5755cc5bf53e739a24b80dd467abdcdedb20 SHA256: dbbf92b630f5d286758e1150e29ce28fd7d3d096ec0c7992a61b2f89a89860e5 SHA512: 6efe67e43decef464f85eb48e6953fa427bef857527eedafa57d694ff8b060fa816d97aa9725416312a1663a293f06baedeb4ebf5f7a5e05984100958e3673d2 Homepage: https://cran.r-project.org/package=tepr Description: CRAN Package 'tepr' (Transcription Elongation Profiling) The general principle relies on calculating the cumulative signal of nascent RNA sequencing over the gene body of any given gene or transcription unit. 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Package: r-cran-teqr Architecture: all Version: 6.0-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 91 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-teqr_6.0-0-1.ca2004.1_all.deb Size: 61360 MD5sum: 5d492c5358cc2a2d427831f19578d40a SHA1: a0aa0d786516fd49989dfa5d54299584dc57fa1e SHA256: ba80b76d686532ebde96eadd9e320ea372f2e087c882f54cc5fde5386dbdab90 SHA512: 4954ff9f0ba371e685dbad140b0581404f1bfe1caabdbd8069c460dfdf5b87d5da6557198981817d857c35432b78b21a51333a1a2baac1d50c529086060b9146 Homepage: https://cran.r-project.org/package=TEQR Description: CRAN Package 'TEQR' (Target Equivalence Range Design) The TEQR package contains software to calculate the operating characteristics for the TEQR and the ACT designs.The TEQR (toxicity equivalence range) design is a toxicity based cumulative cohort design with added safety rules. 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(2022) ). This package provides an interface for 'RBMI' uses the 'tern' framework by Zhu et al. (2023) and tabulate results easily using 'rtables' by Becker et al. (2023). 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Package: r-cran-ternary Architecture: all Version: 2.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6457 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-plottools, r-cran-rcpphungarian, r-cran-shiny, r-cran-sp Suggests: r-cran-colourpicker, r-cran-knitr, r-cran-readxl, r-cran-rmarkdown, r-cran-shinyjs, r-cran-spelling, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-ternary_2.3.4-1.ca2004.1_all.deb Size: 2842908 MD5sum: 6a174b6fe8abb2584938063d471b23b4 SHA1: c7028e273695ec121eb6abd4125b3ac8a40d6cb7 SHA256: 313195353ae3c972cfc5fae79d45265b6e25e81e632f258d5e894c1de294a307 SHA512: 2634c5e3210b4587e54eaaee89982d0fffecc29971445ca3d30ddad46d366945969828c31a3272b00d46f0d3d68ddeebb8048e20ea6980c85bd6fc16dcec6ff5 Homepage: https://cran.r-project.org/package=Ternary Description: CRAN Package 'Ternary' (Create Ternary and Holdridge Plots) Plots ternary diagrams (simplex plots / Gibbs triangles) and Holdridge life zone plots using the standard graphics functions. 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Have fun and enjoy. References: Spaethe (1991, ISBN:3-211-82348-4) "Die Sicherheit tragender Baukonstruktionen", AU,BECK (2001) "Estimation of small failure probabilities in high dimensions by subset simulation." , Breitung (1989) "Asymptotic approximations for probability integrals." . Package: r-cran-tesselle Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dimensio, r-cran-folio, r-cran-isopleuros, r-cran-kairos, r-cran-khroma, r-cran-nexus, r-cran-tabula Filename: pool/dists/focal/main/r-cran-tesselle_1.6.0-1.ca2004.1_all.deb Size: 102048 MD5sum: ab96e60c55577fd0d35b67d5e12dcc1c SHA1: 71c5ff4d73e5ba6b266b358dd6aeef89ef2647be SHA256: fb935130f21c31dd9724d42f019c5940f9a7cd5c87e655bc8ebeb092fdba12e5 SHA512: e07cc30cb21be9bedb46b0863eb7259d596ead72be86e6007e4c5f0dbd174144f9a8127366c358c05ad9c55c4012f0cf8d5f35f4b4b4c4392b9cef53e12ac65c Homepage: https://cran.r-project.org/package=tesselle Description: CRAN Package 'tesselle' (Easily Install and Load 'tesselle' Packages) Easy install and load key packages from the 'tesselle' suite in a single step. The 'tesselle' suite is a collection of packages for research and teaching in archaeology. These packages focus on quantitative analysis methods developed for archaeology. The 'tesselle' packages are designed to work seamlessly together and to complement general-purpose and other specialized statistical packages. These packages can be used to explore and analyze common data types in archaeology: count data, compositional data and chronological data. Learn more about 'tesselle' at . Package: r-cran-test2norm Architecture: all Version: 0.3.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mfp2 Filename: pool/dists/focal/main/r-cran-test2norm_0.3.0.1-1.ca2004.1_all.deb Size: 59224 MD5sum: 73b8c0a630a565732b8fde7f356d8be0 SHA1: c29905016b5f4e7858cff756aa41a0760ee3bc06 SHA256: a422bbdde574d70198b3e365b76a3825c1ebde916fda600a6c6de9feac01c67b SHA512: 8fe76fea3b5b492b94a0fdd2836f3ec7f7bb6d5d5e816fc4c6e3bef6c97786f39eac9e36e55335a7723271d31f16a4583ccc24b58949a2474356effe6881f10d Homepage: https://cran.r-project.org/package=test2norm Description: CRAN Package 'test2norm' (Normative Standards for Cognitive Tests) Package test2norm contains functions to generate formulas for normative standards applied to cognitive tests. It takes raw test scores (e.g., number of correct responses) and converts them to scaled scores and demographically adjusted scores, using methods described in Heaton et al. (2003) & Heaton et al. (2009, ISBN:9780199702800). The scaled scores are calculated as quantiles of the raw test scores, scaled to have the mean of 10 and standard deviation of 3, such that higher values always correspond to better performance on the test. The demographically adjusted scores are calculated from the residuals of a model that regresses scaled scores on demographic predictors (e.g., age). The norming procedure makes use of the mfp2() function from the 'mfp2' package to explore nonlinear associations between cognition and demographic variables. Package: r-cran-testanaapp Architecture: all Version: 1.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 674 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-mirt, r-cran-shinydashboard, r-cran-estcrm, r-cran-shiny, r-cran-dt, r-cran-golem, r-cran-officedown, r-cran-stringr, r-cran-dplyr, r-cran-brucer, r-cran-officer, r-cran-openxlsx, r-cran-rmarkdown, r-cran-plotrix, r-cran-cowplot, r-cran-flextable, r-cran-shinycssloaders, r-cran-tidyr, r-cran-difr, r-cran-lordif, r-cran-latticeextra, r-cran-semplot Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-testanaapp_1.1.2-1.ca2004.1_all.deb Size: 567544 MD5sum: 6ff589f4168215499b2b085574867b6d SHA1: 69d3c18fbfd729d8ac1f4a33f5fcb60361c2f84d SHA256: 3f90d9d4ea2d531b0a5553ed8984623472348abd61d378713109036a0e528765 SHA512: 521b7bd3994eef280c8c0b567c55a335335b76da70583770b18929c98077bb0d2b7eee00823b1d310d80508d2bca7fda65bfb1419895deb68a1d3f94febd89dc Homepage: https://cran.r-project.org/package=TestAnaAPP Description: CRAN Package 'TestAnaAPP' (A 'shiny' App for Test Analysis and Visualization) This application provides exploratory and confirmatory factor analysis, classical test theory, unidimensional and multidimensional item response theory, and continuous item response model analysis, through the 'shiny' interactive interface. In addition, it offers rich functionalities for visualizing and downloading results. Users can download figures, tables, and analysis reports via the interactive interface. Package: r-cran-testarguments Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 539 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-ggplot2, r-cran-reshape2, r-cran-plyr, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-markdown Filename: pool/dists/focal/main/r-cran-testarguments_0.0.1-1.ca2004.1_all.deb Size: 368524 MD5sum: 4a3c3f19dfa12adecbbeed2d19d1e196 SHA1: 165f34971e13e33dfb56969b4772ded9dba24f72 SHA256: 5fdbc84b46581efe8ac11a5fd531394e8b05015cba961bc51c2247d9eeb64aee SHA512: 9c266a2df329704cf1d84148fe593cbe5db4584d36e4c18f0ba45c91fae919107727806aec975fa058205b3d57b7ac2f8f086d16d8a782468eb5b0fd5a404f98 Homepage: https://cran.r-project.org/package=testarguments Description: CRAN Package 'testarguments' (Test (Multiple) Arguments of a User-Defined Prediction Algorithm) Finding the best values for user-specified arguments of a prediction algorithm can be difficult, particularly if there is an interaction between argument levels. This package automates the testing of any user-defined prediction algorithm over an arbitrary number of arguments. It includes functions for testing the algorithm over the given arguments with respect to an arbitrary number of user-defined diagnostics, visualising the results of these tests, and finding the optimal argument combinations with respect to each diagnostic. Package: r-cran-testassay Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-testassay_0.1.1-1.ca2004.1_all.deb Size: 54648 MD5sum: eb2ddf8f774272351142a4e506b004f2 SHA1: 0413657652ea1c060f7987b14cc65927d5907acb SHA256: b59c6fd16b81ff14de97ef4043c9a1d4f00f7d634c82385c07215b23cb158b95 SHA512: 27d51cae44ed55202076bfd21f5f7de23d6a3aac3a76562ceb769aa3a77c9823555bb1764205c352b0a0cd525c984adb198751c073866632434453aa83ccb3e7 Homepage: https://cran.r-project.org/package=testassay Description: CRAN Package 'testassay' (A Hypothesis Testing Framework for Validating an Assay forPrecision) A common way of validating a biological assay for is through a procedure, where m levels of an analyte are measured with n replicates at each level, and if all m estimates of the coefficient of variation (CV) are less than some prespecified level, then the assay is declared validated for precision within the range of the m analyte levels. Two limitations of this procedure are: there is no clear statistical statement of precision upon passing, and it is unclear how to modify the procedure for assays with constant standard deviation. We provide tools to convert such a procedure into a set of m hypothesis tests. This reframing motivates the m:n:q procedure, which upon completion delivers a 100q% upper confidence limit on the CV. Additionally, for a post-validation assay output of y, the method gives an ``effective standard deviation interval'' of log(y) plus or minus r, which is a 68% confidence interval on log(mu), where mu is the expected value of the assay output for that sample. Further, the m:n:q procedure can be straightforwardly applied to constant standard deviation assays. We illustrate these tools by applying them to a growth inhibition assay. This is an implementation of the methods described in Fay, Sachs, and Miura (2018) . Package: r-cran-testcomparer Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 252 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-testcomparer_1.1.1-1.ca2004.1_all.deb Size: 131564 MD5sum: ba138ff731e55a305f126ee2b25cf7ba SHA1: 301a8132e57a47a306399537369b42481eddd071 SHA256: 7e88a7c47f0aef9080abd9a6680a8737eb7099a48cd03a1fa346597f96768e9e SHA512: ceec04c13d1900b31884e0a491eff97a5e260b2188d926d301ce36dac010375ab0fce477e96147c1df0ed722e18bc3a3c9cba8e6207d692a8f620645b8a4cf05 Homepage: https://cran.r-project.org/package=testCompareR Description: CRAN Package 'testCompareR' (Comparing Two Diagnostic Tests with Dichotomous Results usingPaired Data) Provides a method for comparing the results of two binary diagnostic tests using paired data. Users can rapidly perform descriptive and inferential statistics in a single function call. Options permit users to select which parameters they are interested in comparing and methods for correction for multiple comparisons. Confidence intervals are calculated using the methods with the best coverage. Hypothesis tests use the methods with the best asymptotic performance. A summary of the methods is available in Roldán-Nofuentes (2020) . This package is targeted at clinical researchers who want to rapidly and effectively compare results from binary diagnostic tests. Package: r-cran-testcorr Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 945 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ggplot2, r-cran-scales, r-cran-reshape2, r-cran-forcats, r-cran-knitr, r-cran-xts, r-cran-zoo Suggests: r-cran-testthat, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-testcorr_0.3.0-1.ca2004.1_all.deb Size: 797616 MD5sum: 45c896c4edb1fbf079db53c98a88cc93 SHA1: 28655e6e9e9e4956b304d6d75fdcab5e1fb22711 SHA256: f9ce6ed27b328b9d65dd7d7984fe1505ba39974180a242a4949744e9bb88a9e4 SHA512: 7aba4d0681798ba98ae8ded20d5f832fed4036a42f4b5a825aa13a3987f247bc35e7788abf69a2ace4fb071dfab12747593fa0411643aa7d81962ec46e24b811 Homepage: https://cran.r-project.org/package=testcorr Description: CRAN Package 'testcorr' (Testing Zero Correlation) Computes the test statistics for examining the significance of autocorrelation in univariate time series, cross-correlation in bivariate time series, Pearson correlations in multivariate series and test statistics for i.i.d. property of univariate series given in Dalla, Giraitis and Phillips (2022), , . 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An extension of the 'testthat' unit testing framework with a family of functions and reporting tools for checking and validating data frames. Package: r-cran-testdataimputation Architecture: all Version: 2.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mice, r-cran-amelia Filename: pool/dists/focal/main/r-cran-testdataimputation_2.3-1.ca2004.1_all.deb Size: 65080 MD5sum: 251e4b903c86765dcb392d1b74348480 SHA1: 5b495fd0ade352a78b8a80dece9f70c353db80e4 SHA256: fd6fb4dea19348cc5a23cbaec6c67a2d6fa27aab4566d2ab2497df300fe5afb5 SHA512: 2b95d2027e57190a580c67c968a7376bcd9de727f590ba073d104758914141cf002fc774126abd9fd47eedc40ad0bd28288ed1cb0dce48c77f16ea9b54faf48a Homepage: https://cran.r-project.org/package=TestDataImputation Description: CRAN Package 'TestDataImputation' (Missing Item Responses Imputation for Test and Assessment Data) Functions for imputing missing item responses for dichotomous and polytomous test and assessment data. This package enables missing imputation methods that are suitable for test and assessment data, including: listwise (LW) deletion (see De Ayala et al. 2001 ), treating as incorrect (IN, see Lord, 1974 ; Mislevy & Wu, 1996 ; Pohl et al., 2014 ), person mean imputation (PM), item mean imputation (IM), two-way (TW) and response function (RF) imputation, (see Sijtsma & van der Ark, 2003 ), logistic regression (LR) imputation, predictive mean matching (PMM), and expectation–maximization (EM) imputation (see Finch, 2008 ). Package: r-cran-testdimorph Architecture: all Version: 0.5.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 404 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-corrplot, r-cran-dplyr, r-cran-ggplot2, r-cran-morpho, r-cran-multcompview, r-cran-tidyr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-testdimorph_0.5.8-1.ca2004.1_all.deb Size: 318556 MD5sum: 859e84b8b068e3e06ddad1df339f5f19 SHA1: f84c3b847df14892efd1b7236d44737ab028dde0 SHA256: 0acf83c5da57b74564762ae50a57c012227bca1d90a9be779c9e806d52f65d59 SHA512: 878ed1096de4edb4e5f5a187c1fe7bfb6d031c4c216a6b192a7382f84b8fe58069ad365bf00f97bbaeffc827aed4a45e469a3bc8e7f8eeabe95fc453d299a0ab Homepage: https://cran.r-project.org/package=TestDimorph Description: CRAN Package 'TestDimorph' (Analysis of the Interpopulation Difference in Degree of SexualDimorphism Using Summary Statistics) Offers a solution for the unavailability of raw data in most anthropological studies by facilitating the calculations of several sexual dimorphism related analyses using the published summary statistics of metric data (mean, standard deviation and sex specific sample size) as illustrated by the works of Relethford, J. H., & Hodges, D. C. (1985) , Greene, D. L. (1989) and Konigsberg, L. W. (1991) . Package: r-cran-testdriver Architecture: all Version: 0.5.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-testdriver_0.5.3-1.ca2004.1_all.deb Size: 227992 MD5sum: 1cc1291b8b9107bab9aa281f19053dad SHA1: ba47486f8cbddc6af9d6857ecdde00d032c605da SHA256: 629c2d9f119e87aed1185c59a0401a4c820693d53f2f824073ec0c764dcecfac SHA512: 3d6e766a8181057c0397631603756f3f9cb846d317f2710a5e7d5914fc16b284d78fa6e0e07d2585460a5858a3d6737f93b5c593a3c0fe110751e4832a6be2c9 Homepage: https://cran.r-project.org/package=testDriveR Description: CRAN Package 'testDriveR' (Teaching Data for Statistics and Data Science) Provides data sets for teaching statistics and data science courses. It includes a sample of data from John Edmund Kerrich's famous coinflip experiment. These are data that I used for statistics. The package also contains an R Markdown template with the required formatting for assignments in my former courses. 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The test equivalently expressed the hypothesis as a function of the log contrasts of the population variances. A box-type acceptance region is constructed to test the hypothesis. See Cahoy (2010) \doi{10.1016/j.csda.2010.04.012}. 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Package: r-cran-testex Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 207 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-withr, r-cran-callr, r-cran-roxygen2, r-cran-spelling, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-testex_0.2.0-1.ca2004.1_all.deb Size: 126864 MD5sum: 70e884f42db0962980c9d9e6add7a7f9 SHA1: 7d54fe485531b61ef113c45de76febdbf8eef3a5 SHA256: 26306d1027ce3450e16294c700462e7f3593715db8d120c57ac8553c99a2bc8c SHA512: 90914059f16523aa0c5b071e369438c0888ab7b529157121ae2b8d9679a9bb64b4254799dd499bf7b3817946c7763cf73da75d5de5b1ac67d2f56eea7e70e7aa Homepage: https://cran.r-project.org/package=testex Description: CRAN Package 'testex' (Add Tests to Examples) Add tests in-line in examples. Provides standalone functions for facilitating easier test writing in Rd files. However, a more familiar interface is provided using 'roxygen2' tags. Tools are also provided for facilitating package configuration and use with 'testthat'. Package: r-cran-testfunctions Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 327 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-contourfunctions, r-cran-numderiv, r-cran-rmarkdown Suggests: r-cran-knitr, r-cran-covr, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-testfunctions_0.2.2-1.ca2004.1_all.deb Size: 218612 MD5sum: 736391190d9cc6547b1184f9a7097ca6 SHA1: a7038958239e2a50589744731e97ca52a1c57fb9 SHA256: 722c701eb11875804cd238787590c4d2cb65e7d304b89cafeead90224b14c2af SHA512: b4d36b330726adebbcf196ae11f90fa43a0aa5423a6ac416ba9c300a5ee845d59cf801c810b6b6c7640b2c242d6eb62bbf03b92a360fe95c57020454ca8a230f Homepage: https://cran.r-project.org/package=TestFunctions Description: CRAN Package 'TestFunctions' (Test Functions for Simulation Experiments and EvaluatingOptimization and Emulation Algorithms) Test functions are often used to test computer code. They are used in optimization to test algorithms and in metamodeling to evaluate model predictions. This package provides test functions that can be used for any purpose. 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Please refer to Liu et al. (2013) for more details. 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(2021) , 'feasts' O'Hara-Wild, M., Hyndman, R., and Wang, E. (2021) , 'tsfeatures' Hyndman, R., Kang, Y., Montero-Manso, P., Talagala, T., Wang, E., Yang, Y., and O'Hara-Wild, M. (2020) , 'tsfresh' Christ, M., Braun, N., Neuffer, J., and Kempa-Liehr A.W. (2018) , 'TSFEL' Barandas, M., et al. (2020) , and 'Kats' Facebook Infrastructure Data Science (2021) . 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Package: r-cran-thermalsampler Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 471 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tidyr, r-cran-dplyr, r-cran-purrr, r-cran-rlang, r-cran-mass, r-cran-magrittr, r-cran-ggplot2, r-cran-cowplot, r-cran-envstats, r-cran-sn, r-cran-janitor, r-cran-testthat Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-thermalsampler_0.1.2-1.ca2004.1_all.deb Size: 263708 MD5sum: 02bb1744efb18abca4cc0d0ecfafcbea SHA1: f5bd4ec4e239aa77b41f12b6e82fbf9f339cd040 SHA256: 79a09df1a0bf7d90b5e156c4111022de8e8a5ad04814773d2666cd4033607696 SHA512: 778d90d7c1ffe4695454911766b0a2da03eeacf62ce33052aa00ad6f1e7df20573063fe4dceb651b07a7eb309e62e20605054bd606b5d6e77083877d6a2c2965 Homepage: https://cran.r-project.org/package=ThermalSampleR Description: CRAN Package 'ThermalSampleR' (Calculate Sample Sizes Required for Critical Thermal LimitsExperiments) We present a range of simulations to aid researchers in determining appropriate sample sizes when performing critical thermal limits studies (e.g. CTmin/CTmin experiments). A number of wrapper functions are provided for plotting and summarising outputs from these simulations. This package is presented in van Steenderen, C.J.M., Sutton, G.F., Owen, C.A., Martin, G.D., and Coetzee, J.A. Sample size assessments for thermal physiology studies: An R package and R Shiny application. 2023. Physiological Entomology. . The GUI version of this package is available on the R Shiny online server at: , or it is accessible via GitHub at . We would like to thank Grant Duffy (University of Otago, Dundedin, New Zealand) for granting us permission to use the source code for the Test of Total Equivalency function. 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Written primarily for research purposes in biological applications of thermal images. v1 included the base calculations for converting thermal image binary values to temperatures. v2 included additional equations for providing heat transfer calculations and an import function for thermal image files (v2.2.3 fixed error importing thermal image to windows OS). v3. Added numerous functions for converting thermal image, videos, rewriting and exporting. v3.1. Added new functions to convert files. v3.2. Fixed the various functions related to finding frame times. v4.0. fixed an error in atmospheric attenuation constants, affecting raw2temp and temp2raw functions. Recommend update for use with long distance calculations. v.4.1.3 changed to frameLocates to reflect change to as.character() to format(). 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Package: r-cran-threeboost Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix Suggests: r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-threeboost_1.1-1.ca2004.1_all.deb Size: 44804 MD5sum: 7c653b04a405d584e04ba7c18e18c66a SHA1: aa85a0092f8268317ba5cbd9290b8ca67aac3b53 SHA256: 0ce13b75f14238e739a8bdbdba80136a0a3bac917b8c9c256ef1ac1b384d183f SHA512: c8b435ac7df6cb72afbd8505f3c03aa77bbc8aa690d28f94055bc3e91360dcb12cc66dc0dbe74f68a83e46962153e6e89ae805494299c6510c6022b1b2ea9ba2 Homepage: https://cran.r-project.org/package=threeboost Description: CRAN Package 'threeboost' (Thresholded variable selection and prediction based onestimating equations) This package implements a thresholded version of the EEBoost algorithm described in [Wolfson (2011, JASA)]. 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The viewer widget can be either standalone or embedded into 'R-shiny' applications. The standalone version only require a web browser with 'WebGL2' support (for example, 'Chrome', 'Firefox', 'Safari'), and can be inserted into any websites. The 'R-shiny' support allows the 3D viewer to be dynamically generated from reactive user inputs. Please check the publication by Wang, Magnotti, Zhang, and Beauchamp (2023, ) for electrode localization. This viewer has been fully adopted by 'RAVE' , an interactive toolbox to analyze 'iEEG' data by Magnotti, Wang, and Beauchamp (2020, ). Please check 'citation("threeBrain")' for details. 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A testing platform was established by the four major execution functions, namely 'LimitBuy', 'LimitSell', 'MarketBuy' and 'MarketSell', which enclosed all tedious aspects (such as queueing for order executions and calculate actual executed volumes) for order execution using tick data. Such that one can focus on the logic of strategies, rather than its execution. 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Package: r-cran-tidecurves Architecture: all Version: 0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-chron, r-cran-data.table, r-cran-fields Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tidecurves_0.0.5-1.ca2004.1_all.deb Size: 86220 MD5sum: 76b75f08994dcd183f1b22f5eadcba0c SHA1: f389a921ab444aa30df43da6c5b0699264c3956d SHA256: 73cab4fca5c06c603fdb0b410ba441a3ed5a030da1c399b83b980299cf95b677 SHA512: 3696def4425f24a97b12e14ad4d39b859e1af0549c93fb1fa883aff2894ad119c6132418f014d481882d66f7c63b59fc4f8bce4f9298c52932e74e24da79cc7d Homepage: https://cran.r-project.org/package=TideCurves Description: CRAN Package 'TideCurves' (Analysis and Prediction of Tides) Tidal analysis of evenly spaced observed time series (time step 1 to 60 min) with or without shorter gaps using the harmonic representation of inequalities. The analysis should preferably cover an observation period of at least 19 years. For shorter periods low frequency constituents are not taken into account, in accordance with the Rayleigh-Criterion. The main objective of this package is to synthesize or predict a tidal time series. Package: r-cran-tideharmonics Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1889 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tideharmonics_0.1-1-1.ca2004.1_all.deb Size: 1164960 MD5sum: b1af7e159588f05e0849c3d643185671 SHA1: 8773434e068da3e786533c7a67d6ac5c75cce7fe SHA256: 3b852c7789bcaa061e34f8016dc37d82ab9c9108d8a786677b6ec20c254d5a21 SHA512: c738bc40f1de56d2337099b907f97e29e13946271d10d31974c435d9e93923c9e7294d2c1794ef79dfe773b6e34c516ada972f157c37d7c2ce8411767635a46d Homepage: https://cran.r-project.org/package=TideHarmonics Description: CRAN Package 'TideHarmonics' (Harmonic Analysis of Tides) Implements harmonic analysis of tidal and sea-level data. Over 400 harmonic tidal constituents can be estimated, all with daily nodal corrections. Time-varying mean sea-levels can also be used. Package: r-cran-tides Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 291 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tides_2.1-1.ca2004.1_all.deb Size: 201892 MD5sum: 29376fc6c753cb75516b3455de09e471 SHA1: d7d6b19356b6202e8b5e0ac1d2b164beb4d033ee SHA256: e29c394ffff7d6e0b27db90ebe2c56ab28321e3ad780cf997bab2da8f121f515 SHA512: 4eadd99c2d6acb1c8bffa280274e93ea1483763efedd8adb5421d9bb390e600976117721139d7a1abb70efb7fea84a106ebfe15018072b530685fae62a9b15e4 Homepage: https://cran.r-project.org/package=Tides Description: CRAN Package 'Tides' (Quasi-Periodic Time Series Characteristics) Calculate Characteristics of Quasi-Periodic Time Series, e.g. Estuarine Water Levels. Package: r-cran-tidetables Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 272 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-chron, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tidetables_0.0.3-1.ca2004.1_all.deb Size: 219328 MD5sum: 11316a19c5699ae65ab4736622476ba8 SHA1: 6ee44a9c94a4f3e3321e65c840f982ff8b054869 SHA256: 5e3d5d8685602d4dd29d3c01352f955ce4d2ac7f17d9a6f8158d76242b5c8fb7 SHA512: 10b14282e091369562b867f44b79ceb5810f573116f6866a6b74144f10b6afa510bb7eb1862f29251fd39283958942cb2204f27a15d92ea681146e7626d8b2cd Homepage: https://cran.r-project.org/package=TideTables Description: CRAN Package 'TideTables' (Tide Analysis and Prediction of Predominantly Semi-Diurnal Tides) Tide analysis and prediction of predominantly semi-diurnal tides with two high waters and two low waters during one lunar day (~24.842 hours, ~1.035 days). The analysis should preferably cover an observation period of at least 19 years. For shorter periods, for example, the nodal cycle can not be taken into account, which particularly affects the height calculation. The main objective of this package is to produce tide tables. 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Package: r-cran-tidycdisc Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4604 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-cicerone, r-cran-config, r-cran-dplyr, r-cran-dt, r-cran-ggally, r-cran-ggcorrplot, r-cran-ggplot2, r-cran-glue, r-cran-golem, r-cran-gt, r-cran-haven, r-cran-ideafilter, r-cran-plotly, r-cran-purrr, r-cran-rlang, r-cran-rmarkdown, r-cran-shiny, r-cran-shinyjs, r-cran-shinywidgets, r-cran-sjlabelled, r-cran-stringr, r-cran-survival, r-cran-tidyr, r-cran-timevis, r-cran-tippy Suggests: r-cran-knitr, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tidycdisc_0.2.1-1.ca2004.1_all.deb Size: 3420688 MD5sum: 80c4e49dc21e39a46ed27aac2c41346c SHA1: e3955126cca7d2226743ad1cc2b58bef1dff8fd8 SHA256: db51a744f8228cb5c5f92877b562bb406e97e7d6ce10a851a8945db262648fa6 SHA512: b6ed435a2dd2e92c0b91a2ecde5c213e1664f7fae125b61f79a9a449bd2f8dc809a8bf300127408f17b66b58bf000511fe2d73afb301bdff87254654ec09b29d Homepage: https://cran.r-project.org/package=tidyCDISC Description: CRAN Package 'tidyCDISC' (Quick Table Generation & Exploratory Analyses on ADaM-IshDatasets) Provides users a quick exploratory dive into common visualizations without writing a single line of code given the users data follows the Analysis Data Model (ADaM) standards put forth by the Clinical Data Interchange Standards Consortium (CDISC) . Prominent modules/ features of the application are the Table Generator, Population Explorer, and the Individual Explorer. The Table Generator allows users to drag and drop variables and desired statistics (frequencies, means, ANOVA, t-test, and other summary statistics) into bins that automagically create stunning tables with validated information. The Population Explorer offers various plots to visualize general trends in the population from various vantage points. Plot modules currently include scatter plot, spaghetti plot, box plot, histogram, means plot, and bar plot. Each plot type allows the user to plot uploaded variables against one another, and dissect the population by filtering out certain subjects. Last, the Individual Explorer establishes a cohesive patient narrative, allowing the user to interact with patient metrics (params) by visit or plotting important patient events on a timeline. All modules allow for concise filtering & downloading bulk outputs into html or pdf formats to save for later. Package: r-cran-tidycensus Architecture: all Version: 1.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3602 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr, r-cran-sf, r-cran-dplyr, r-cran-tigris, r-cran-stringr, r-cran-jsonlite, r-cran-purrr, r-cran-rvest, r-cran-tidyr, r-cran-rappdirs, r-cran-readr, r-cran-xml2, r-cran-units, r-cran-rlang, r-cran-crayon, r-cran-tidyselect Suggests: r-cran-ggplot2, r-cran-survey, r-cran-srvyr, r-cran-terra Filename: pool/dists/focal/main/r-cran-tidycensus_1.7.1-1.ca2004.1_all.deb Size: 3510300 MD5sum: 9f2f738f85fc705cbd33b84d8f14158c SHA1: a02544a8fc572b2c5a1060df0e52919a441c5585 SHA256: 43cbd59bbb40a43d7623aaf7985c3946dab3e2e467eb778ee756ce1350a5a601 SHA512: b202ff4a043812e19a8a8588e02c4f35a303d32802b039c1b564671de8dde3af756627436cfad17be73033453fde8a6d4388052ebebe6442647311b031ccfac3 Homepage: https://cran.r-project.org/package=tidycensus Description: CRAN Package 'tidycensus' (Load US Census Boundary and Attribute Data as 'tidyverse' and'sf'-Ready Data Frames) An integrated R interface to several United States Census Bureau APIs () and the US Census Bureau's geographic boundary files. Allows R users to return Census and ACS data as tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping and spatial analysis. Package: r-cran-tidychangepoint Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1151 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-broom, r-cran-changepoint, r-cran-cli, r-cran-dplyr, r-cran-ga, r-cran-ggplot2, r-cran-lifecycle, r-cran-memoise, r-cran-patchwork, r-cran-purrr, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-tsibble, r-cran-vctrs, r-cran-wbs, r-cran-xts, r-cran-zoo Suggests: r-cran-bench, r-cran-knitr, r-cran-here, r-cran-multitaper, r-cran-readr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tidychangepoint_1.0.0-1.ca2004.1_all.deb Size: 683036 MD5sum: f9774d3ff21038ed18aef8efe23fef69 SHA1: ba2441449db503ccdfb3b461ea4082c2c7be1c12 SHA256: 9094d8a9cff1a9997540409d7ed1f3c4ea1de48029eea1099800767599524b89 SHA512: 11a83697882a818ba145297670588338ab96233f598285c42717e82be307923f3d577bcaf9b4fa3edfbae1e1c49b3b1b2b78dc3baf93fb5e03ca139ffedc1795 Homepage: https://cran.r-project.org/package=tidychangepoint Description: CRAN Package 'tidychangepoint' (A Tidy Framework for Changepoint Detection Analysis) Changepoint detection algorithms for R are widespread but have different interfaces and reporting conventions. This makes the comparative analysis of results difficult. We solve this problem by providing a tidy, unified interface for several different changepoint detection algorithms. We also provide consistent numerical and graphical reporting leveraging the 'broom' and 'ggplot2' packages. Package: r-cran-tidycharts Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1778 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-knitr, r-cran-magick, r-cran-rsvg, r-cran-rlang, r-cran-testthat, r-cran-htmlwidgets, r-cran-lubridate, r-cran-stringr Suggests: r-cran-rmarkdown, r-cran-palmerpenguins, r-cran-tidyverse, r-cran-dplyr, r-cran-covr Filename: pool/dists/focal/main/r-cran-tidycharts_0.1.3-1.ca2004.1_all.deb Size: 464556 MD5sum: f9c88fe7ed75e8d75009b8175b56e79f SHA1: 31473a03899673ebc6834b5619d0ddb297988513 SHA256: 102ba369fc279ea99191a3641c4c6db7711fcfa774338e8b8d3e4dceb35438c1 SHA512: 9b8e546063151f1001fcb5854e1bb17474bdfdc7e0ee6ede4a96ec7f48b4aaea28e5966ad95d883d69cb960c631e5d4fa07f2582ed2f4712c4b9a5bf3e71dac5 Homepage: https://cran.r-project.org/package=tidycharts Description: CRAN Package 'tidycharts' (Generate Tidy Charts Inspired by 'IBCS') There is a wide range of R packages created for data visualization, but still, there was no simple and easily accessible way to create clean and transparent charts - up to now. The 'tidycharts' package enables the user to generate charts compliant with International Business Communication Standards ('IBCS'). It means unified bar widths, colors, chart sizes, etc. Creating homogeneous reports has never been that easy! Additionally, users can apply semantic notation to indicate different data scenarios (plan, budget, forecast). What's more, it is possible to customize the charts by creating a personal color pallet with the possibility of switching to default options after the experiments. We wanted the package to be helpful in writing reports, so we also made joining charts in a one, clear image possible. All charts are generated in SVG format and can be shown in the 'RStudio' viewer pane or exported to HTML output of 'knitr'/'markdown'. Package: r-cran-tidyclust Architecture: all Version: 0.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1164 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-dials, r-cran-dplyr, r-cran-flexclust, r-cran-foreach, r-cran-generics, r-cran-glue, r-cran-hardhat, r-cran-modelenv, r-cran-parsnip, r-cran-philentropy, r-cran-prettyunits, r-cran-rlang, r-cran-rsample, r-cran-tibble, r-cran-tidyr, r-cran-tune, r-cran-vctrs Suggests: r-cran-cluster, r-cran-clusterr, r-cran-clustmixtype, r-cran-covr, r-cran-klar, r-cran-knitr, r-cran-modeldata, r-cran-rcpphungarian, r-cran-recipes, r-cran-rmarkdown, r-cran-testthat, r-cran-workflows Filename: pool/dists/focal/main/r-cran-tidyclust_0.2.4-1.ca2004.1_all.deb Size: 458820 MD5sum: 9b9f06c4ab81709e852774afaf116fdd SHA1: ba9c6eca5805347b0f3d39f8a44fa1c5f882f46c SHA256: b93d7f7ce13a67baae1d7481f1f5b8ddd4b929cef9d1c52fce66efee5ab02a39 SHA512: 48f0b1bf3a113e82977f77cc7be5c787da887a25367b44cbfd9d198e659f4e54497c3acb9320602bfd6573ea5ea4b7edb480fe936c036eaea26bb751b400fb2a Homepage: https://cran.r-project.org/package=tidyclust Description: CRAN Package 'tidyclust' (A Common API to Clustering) A common interface to specifying clustering models, in the same style as 'parsnip'. Creates unified interface across different functions and computational engines. 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The package wraps the 'cmprsk' package, and exports functions for univariate cumulative incidence estimates and competing risk regression. Methods follow those introduced in Fine and Gray (1999) . 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This includes functions for univariate and bivariate data analysis, index generation and reliability computation, and intercoder reliability tests. All functions follow the style and syntax of the tidyverse, and are construed to perform their computations on multiple variables at once. Functions for univariate and bivariate data analysis comprise summary statistics for continuous and categorical variables, as well as several tests of bivariate association including effect sizes. Functions for data modification comprise index generation and automated reliability analysis of index variables. Functions for intercoder reliability comprise tests of several intercoder reliability estimates, including simple and mean pairwise percent agreement, Krippendorff's Alpha (Krippendorff 2004, ISBN: 9780761915454), and various Kappa coefficients (Brennan & Prediger 1981 ; Cohen 1960 ; Fleiss 1971 ). 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This collection of packages is useful for anyone doing data science, data analysis, or quantitative consulting. The functions in these packages range from data cleaning, data validation, data binning, statistical modeling, and file exporting. 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It allows users to retrieve detailed information on countries, including names, regions, continents, populations, currencies, calling codes, and more, all in a tidy data format. The package is designed to work seamlessly within the 'tidyverse' ecosystem, making it easy to filter, arrange, and visualize country-level data in R. 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Package: r-cran-tidycwl Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4041 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite, r-cran-yaml, r-cran-dplyr, r-cran-magrittr, r-cran-visnetwork, r-cran-htmlwidgets, r-cran-webshot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-shiny Filename: pool/dists/focal/main/r-cran-tidycwl_1.0.7-1.ca2004.1_all.deb Size: 562596 MD5sum: 97a69e9615f62f5368cbaa83eb55bb04 SHA1: 2a51ca24be068b015579614a4e4f8968e428b853 SHA256: 3e38707e3976afed0ecdbc59616ac89b91e28bf61039d08e5e62d6329efe9fce SHA512: 12b86d1d0bbcac72c2f5a55abcc4cfee0006ebb3966b2a8e63dde2e60b48065a146dc28829b4d22906e23865ebb5ca94377b93a22010774a98459e7af3280c64 Homepage: https://cran.r-project.org/package=tidycwl Description: CRAN Package 'tidycwl' (Tidy Common Workflow Language Tools and Workflows) The Common Workflow Language is an open standard for describing data analysis workflows. This package takes the raw Common Workflow Language workflows encoded in JSON or 'YAML' and turns the workflow elements into tidy data frames or lists. A graph representation for the workflow can be constructed and visualized with the parsed workflow inputs, outputs, and steps. Users can embed the visualizations in their 'Shiny' applications, and export them as HTML files or static images. 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Package: r-cran-tidysdm Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4307 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tidymodels, r-cran-spatialsample, r-cran-dalex, r-cran-dials, r-cran-dplyr, r-cran-ggplot2, r-cran-lubridate, r-cran-magrittr, r-cran-maxnet, r-cran-parsnip, r-cran-patchwork, r-cran-recipes, r-cran-rsample, r-cran-rlang, r-cran-stars, r-cran-sf, r-cran-terra, r-cran-tibble, r-cran-tune, r-cran-workflows, r-cran-workflowsets, r-cran-yardstick Suggests: r-cran-blockcv, r-cran-data.table, r-cran-dalextra, r-cran-doparallel, r-cran-earth, r-cran-kernlab, r-cran-knitr, r-cran-overlapping, r-cran-pastclim, r-cran-ranger, r-cran-rgbif, r-cran-rmarkdown, r-cran-spelling, r-cran-stacks, r-cran-testthat, r-cran-tidyterra, r-cran-vdiffr, r-cran-xgboost, r-cran-ggpattern, r-cran-rhpcblasctl Filename: pool/dists/focal/main/r-cran-tidysdm_1.0.0-1.ca2004.1_all.deb Size: 3458932 MD5sum: ed7acc2088f5aebee33778c88baa5f74 SHA1: dd1a9cb2d2bbb7916b8c6398ba2ebd2decc4e721 SHA256: 22809a5e2b6f640d9c95fd296a0bca8e2ca55f51db192a1e4889e03a5872e1b9 SHA512: d905a577e2c98bdc40c546c2936e055cc7e78647a402085b3e741b7cdaab37d1ae19158971668c9008226b8e13c0a73f1e2b6bc50792c5445cfbddff9d4f7428 Homepage: https://cran.r-project.org/package=tidysdm Description: CRAN Package 'tidysdm' (Species Distribution Models with Tidymodels) Fit species distribution models (SDMs) using the 'tidymodels' framework, which provides a standardised interface to define models and process their outputs. 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This package provides a tile generator function for creating map tile sets for use with packages such as 'leaflet'. In addition to generating map tiles based on a common raster layer source, it also handles the non-geographic edge case, producing map tiles from arbitrary images. These map tiles, which have a non-geographic, simple coordinate reference system (CRS), can also be used with 'leaflet' when applying the simple CRS option. Map tiles can be created from an input file with any of the following extensions: tif, grd and nc for spatial maps and png, jpg and bmp for basic images. This package requires 'Python' and the 'gdal' library for 'Python'. 'Windows' users are recommended to install 'OSGeo4W' () as an easy way to obtain the required 'gdal' support for 'Python'. 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You can create forest data structures from data frames and process them based on their hierarchies. Package: r-cran-time.slots Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-ggfittext, r-cran-ggplot2, r-cran-lubridate, r-cran-scales Suggests: r-cran-testthat, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-time.slots_0.2.0-1.ca2004.1_all.deb Size: 20568 MD5sum: 021d2f1e3873c26f334cfed0097125ea SHA1: b5ef35d55c4065b59646cd4486992f786316d1c5 SHA256: 382527ad2c83a88ecb6ed9a6f2bf009408fb7ebaef8070c3c013b052b383d3e3 SHA512: de0a1401695671732f59226082244b1196596e2d2c85ddb7e26529396bb7d680d5093128cf98209a76ba4892257c260784e619273a721ba41204d45cfc943e18 Homepage: https://cran.r-project.org/package=time.slots Description: CRAN Package 'time.slots' (Display Data in a Weekly Calendar View) Generate weekly timetables as a ggplot2 layer. Add informative timeslots with elements such as title, key-value pairs, or colour to reveal trends. Package: r-cran-timedate Architecture: all Version: 4041.110-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1831 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-runit Filename: pool/dists/focal/main/r-cran-timedate_4041.110-1.ca2004.1_all.deb Size: 1224060 MD5sum: 8a7bbc421a0bcb09c1ff4e7a567d26dc SHA1: 1650ce448cb58df6e202b7ca9080773bbf727e03 SHA256: 2c61c9f46bf60fb65ef4ef1d8cecc50f780d4c81df180032beca95fc969b76ee SHA512: 60e8df41897e1a505cf4b4d6d13d4138346f591357e6d7536fc4a80c8fce41a18d612e2d13782c6d5e962cc64ea228757c1a853f33d424683757609cacb61e70 Homepage: https://cran.r-project.org/package=timeDate Description: CRAN Package 'timeDate' (Rmetrics - Chronological and Calendar Objects) The 'timeDate' class fulfils the conventions of the ISO 8601 standard as well as of the ANSI C and POSIX standards. Beyond these standards it provides the "Financial Center" concept which allows to handle data records collected in different time zones and mix them up to have always the proper time stamps with respect to your personal financial center, or alternatively to the GMT reference time. It can thus also handle time stamps from historical data records from the same time zone, even if the financial centers changed day light saving times at different calendar dates. Package: r-cran-timedelay Architecture: all Version: 1.0.11-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 151 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-timedelay_1.0.11-1.ca2004.1_all.deb Size: 122552 MD5sum: 22428a60bae07bc29b2f8293aa874555 SHA1: 15fabae05690298743130a73c5300866d969d1ea SHA256: 34806fbf428d0e8552a6ee879c36387b5eec64a8960adf8d9e0b1ce745305c70 SHA512: 13573d76ac96f6ad8a970df5bb502fcdfc6d3a722d7e2d65d1581cc27dc2d3c82f33025499a601e63c0c4b6195c24a4af1981c9167fd4add972bfa5ef08a942a Homepage: https://cran.r-project.org/package=timedelay Description: CRAN Package 'timedelay' (Time Delay Estimation for Stochastic Time Series ofGravitationally Lensed Quasars) We provide a toolbox to estimate the time delay between the brightness time series of gravitationally lensed quasar images via Bayesian and profile likelihood approaches. The model is based on a state-space representation for irregularly observed time series data generated from a latent continuous-time Ornstein-Uhlenbeck process. Our Bayesian method adopts scientifically motivated hyper-prior distributions and a Metropolis-Hastings within Gibbs sampler, producing posterior samples of the model parameters that include the time delay. A profile likelihood of the time delay is a simple approximation to the marginal posterior distribution of the time delay. Both Bayesian and profile likelihood approaches complement each other, producing almost identical results; the Bayesian way is more principled but the profile likelihood is easier to implement. A new functionality is added in version 1.0.9 for estimating the time delay between doubly-lensed light curves observed in two bands. See also Tak et al. (2017) , Tak et al. (2018) , Hu and Tak (2020) . Package: r-cran-timedepfrail Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 290 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-timedepfrail_0.1.0-1.ca2004.1_all.deb Size: 258868 MD5sum: a2febd680379ab91f53be15cd599a5b7 SHA1: bf4f9612fad5326e6c2bc4bbf56410bcdffa3cfd SHA256: c8440344d2c76fc3a490f0131cd35e9893e95c95373f0413f555a2bba829af3b SHA512: ddc5ef0307a574e8aab9c2a123b0c9203ae1e73c756265082f87edb86559dc82a4a1e175ac7c7353acff375284bab5fa86c0172560adc62a77f84bd92255b1b8 Homepage: https://cran.r-project.org/package=TimeDepFrail Description: CRAN Package 'TimeDepFrail' (Time Dependent Shared Frailty Cox Model) Fits time-dependent shared frailty Cox model (specifically the adapted Paik et al.'s Model) based on the paper "Centre-Effect on Survival After Bone Marrow Transplantation: Application of Time-Dependent Frailty Models", by C.M. Wintrebert, H. Putter, A.H. Zwinderman and J.C. van Houwelingen (2004) . Package: r-cran-timedeppar Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 216 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-timedeppar_1.0.3-1.ca2004.1_all.deb Size: 188444 MD5sum: b4c9a617aafa9a41e97c8031f9712b11 SHA1: 88b74fd6f49b70cd79e7e391154f4c0d2cddef3e SHA256: fd0ffab5909f1549378be240542346b32abd255e74dece238b7638c9ecfc8da9 SHA512: c115651715a8a6dc128d5743ec7eb5825fd22e879ad7de7611ecb1c5a40be5f450d6c812514446b8f1a89e045ee70a7e86f31a794a616d2a49dfd0fb537c1386 Homepage: https://cran.r-project.org/package=timedeppar Description: CRAN Package 'timedeppar' (Infer Constant and Stochastic, Time-Dependent Model Parameters) Infer constant and stochastic, time-dependent parameters to consider intrinsic stochasticity of a dynamic model and/or to analyze model structure modifications that could reduce model deficits. The concept is based on inferring time-dependent parameters as stochastic processes in the form of Ornstein-Uhlenbeck processes jointly with inferring constant model parameters and parameters of the Ornstein-Uhlenbeck processes. The package also contains functions to sample from and calculate densities of Ornstein-Uhlenbeck processes. References: Tomassini, L., Reichert, P., Kuensch, H.-R. Buser, C., Knutti, R. and Borsuk, M.E. (2009), A smoothing algorithm for estimating stochastic, continuous-time model parameters and its application to a simple climate model, Journal of the Royal Statistical Society: Series C (Applied Statistics) 58, 679-704, Reichert, P., and Mieleitner, J. (2009), Analyzing input and structural uncertainty of nonlinear dynamic models with stochastic, time-dependent parameters. Water Resources Research, 45, W10402, Reichert, P., Ammann, L. and Fenicia, F. (2021), Potential and challenges of investigating intrinsic uncertainty of hydrological models with time-dependent, stochastic parameters. Water Resources Research 57(8), e2020WR028311, Reichert, P. (2022), timedeppar: An R package for inferring stochastic, time-dependent model parameters, in preparation. Package: r-cran-timeel Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 218 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-km.ci, r-cran-prodlim, r-cran-survival, r-cran-testthat Filename: pool/dists/focal/main/r-cran-timeel_0.9.1-1.ca2004.1_all.deb Size: 187628 MD5sum: e7ba9352f6f3a3fe5114af96b75c5030 SHA1: 12cfee33aa923994aac530ef432a86d3b9f2e6eb SHA256: f19ce788a1860952160de1fe279bcc92e7684f9707776c9f67171d5322521313 SHA512: ab5be9450f6aa5ef3d55e324132558628b19dc54942a70d122a0a1d1aabbcbf10b81222199a7cb2f57631503f673cce6984dd3dea018e057f63bd25edc161c39 Homepage: https://cran.r-project.org/package=timeEL Description: CRAN Package 'timeEL' (Time to Event Analysis via Empirical Likelihood Inference) Computation of t-year survival probabilities and t-year risks with right censored survival data. 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This can be used to create many predictor variables out of a single time variable, which can then be used in a regression or decision tree. Also includes function plotCalendarHeatmap which draws a calendar and overlays a heatmap based on values. 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Confidence intervals of AUCs and tests for comparing AUCs of two rival markers measured on the same subjects can be computed, using the iid-representation of the AUC estimator. Plot functions for time-dependent ROC curves and AUC curves are provided. Time-dependent Positive Predictive Values (PPV) and Negative Predictive Values (NPV) can also be computed. See Blanche et al. (2013) and references therein for the details of the methods implemented in the package. Package: r-cran-timesboot Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-boot Filename: pool/dists/focal/main/r-cran-timesboot_1.0-1.ca2004.1_all.deb Size: 22524 MD5sum: 93274bb875d910d90aeb859dd6279386 SHA1: 6c1005c140a679816ce72ddc9aac61070364a82d SHA256: 307c85671aff552edc46b578abf02dfcf9b9791e660e6482ade621666e81dfd4 SHA512: 271f37f098046e789f0a9952176205d54b344d99afb6a512cfab83da7b89184bf986a7ea0a6a430a60e06ee1aeb053d6cca3e8b9b950bb5352bdb118692ff841 Homepage: https://cran.r-project.org/package=timesboot Description: CRAN Package 'timesboot' (Bootstrap computations for time series objects) Computes bootstrap CI for the sample ACF and periodogram Package: r-cran-timeseq Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 123 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gss, r-cran-mgcv, r-cran-lattice, r-cran-pheatmap, r-cran-reshape Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-timeseq_1.0.4-1.ca2004.1_all.deb Size: 64408 MD5sum: 7afbaaa2428766c2ca2798072bf22b0c SHA1: eb121c145a6b5a4d041951212afa32e8f30a9da0 SHA256: 4fa3a29c5240f9d73f7ad6ec818c907daf664918beb3de2476984beee93f06c8 SHA512: e9343e085018fc77f6d1652ec1f9fb9977e2e934d50d9adc9da8f255e5a6f04061df10903eb696036c37a7fc79d8231a7dbe832692c650cad635c182859fb7f0 Homepage: https://cran.r-project.org/package=timeSeq Description: CRAN Package 'timeSeq' (Detecting Differentially Expressed Genes in Time Course RNA-SeqData) A negative binomial mixed-effects (NBME) model to detect nonparallel differential expression(NPDE) genes and parallel differential expression(PDE) genes in the time course RNA-seq data. 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Calculate time series model and forecast parameters in budget time series data of municipalities across Europe, according to the 'OpenBudgets.eu' data model. There are functions for measuring deterministic and stochastic trend of the input time series data with 'ACF', 'PACF', 'Phillips Perron' test, 'Augmented Dickey Fuller (ADF)' test, 'Kwiatkowski-Phillips-Schmidt-Shin (KPSS)' test, 'Mann Kendall' test for monotonic trend and 'Cox and Stuart' trend test, decomposing with local regression models or 'stl' decomposition, fitting the appropriate 'arima' model and provide forecasts for the input 'OpenBudgets.eu' time series fiscal data. Also, can be used generally to extract visualization parameters convert them to 'JSON' format and use them as input in a different graphical interface. 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Package: r-cran-timeseriesdatasets Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2141 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-timeseriesdatasets_0.1.0-1.ca2004.1_all.deb Size: 849256 MD5sum: 30d8bd782b46e688dee55db4fd8cd7a2 SHA1: 435cb8c6662f912f483bd0f2b5e99bedf8163d95 SHA256: 6262ff001094b6165d21dff722281e1de39e9faa9b8e0c955f17e839fc4bbcf0 SHA512: 68da6780075818d071a8726e17953b304ccc7be656e639c771191a9a492938ae34aa06fab30c43f4fc3e8ce401e0de04677d3575784daa1450f9b2dd4fca42be Homepage: https://cran.r-project.org/package=timeSeriesDataSets Description: CRAN Package 'timeSeriesDataSets' (Time Series Data Sets) Provides a diverse collection of time series datasets spanning various fields such as economics, finance, energy, healthcare, and more. 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The 'timeseriesdb' package was designed to manage a large catalog of time series from official statistics which are typically published on a monthly, quarterly or yearly basis. Thus timeseriesdb is optimized to handle updates caused by data revision as well as elaborate, multi-lingual meta information. Package: r-cran-timetk Architecture: all Version: 2.9.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4165 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-recipes, r-cran-rsample, r-cran-dplyr, r-cran-ggplot2, r-cran-forcats, r-cran-stringr, r-cran-plotly, r-cran-lubridate, r-cran-padr, r-cran-purrr, r-cran-readr, r-cran-stringi, r-cran-tibble, r-cran-tidyr, r-cran-xts, r-cran-zoo, r-cran-rlang, r-cran-tidyselect, r-cran-slider, r-cran-anytime, r-cran-timedate, r-cran-forecast, r-cran-tsfeatures, r-cran-hms, r-cran-generics Suggests: r-cran-modeltime, r-cran-glmnet, r-cran-workflows, r-cran-parsnip, r-cran-tune, r-cran-knitr, r-cran-rmarkdown, r-cran-broom, r-cran-scales, r-cran-testthat, r-cran-fracdiff, r-cran-timeseries, r-cran-tseries, r-cran-trelliscopejs Filename: pool/dists/focal/main/r-cran-timetk_2.9.0-1.ca2004.1_all.deb Size: 3142312 MD5sum: c66e2cf45db2e5069d2be06b6c9893cf SHA1: 5809c4a21fb5a80f67b8e501b0eb894972b4eb27 SHA256: c57af99ed25f233c458ab348d1f5bfd9cf78dff503dcfc24a7e505879bc7d974 SHA512: aea82791fe4385f9de60381bd3006ae858d692683ee8c1c7bbf279d02dadf8a4ee5d73ee7f62646ac13eacda64db68d159e04d5afb08f0d9fc4591a1e2eceead Homepage: https://cran.r-project.org/package=timetk Description: CRAN Package 'timetk' (A Tool Kit for Working with Time Series) Easy visualization, wrangling, and feature engineering of time series data for forecasting and machine learning prediction. Consolidates and extends time series functionality from packages including 'dplyr', 'stats', 'xts', 'forecast', 'slider', 'padr', 'recipes', and 'rsample'. Package: r-cran-timetree Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-phangorn Filename: pool/dists/focal/main/r-cran-timetree_1.0-1.ca2004.1_all.deb Size: 27084 MD5sum: 498fabd60323f9f4dd8fad473168ad69 SHA1: 53075fe8c72e7b4170143e827d0941032977caaa SHA256: ee13e64173fa79c2f4736b401c261d9005cd5571155f2b6906c6158c519d2118 SHA512: 709163489f6f00facd93bfb9abf183f93e881c16649567d9a9586d6262fcdb1617a44b652a861eb8564ea3d9bdb02eeff73d7aa96474718c6ea1f3d46c343525 Homepage: https://cran.r-project.org/package=timetree Description: CRAN Package 'timetree' (Interface to the TimeTree of Life Webpage) A interface to the TimeTree of Life Webpage (www.timetree.org). TimeTree is a public database for information on the evolutionary timescale of life. This package includes functions for searching divergence time for taxa or all nodes of a phylogeny. Package: r-cran-timevarconcurrentmodel Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-bolstad2, r-cran-fda Filename: pool/dists/focal/main/r-cran-timevarconcurrentmodel_1.0-1.ca2004.1_all.deb Size: 31276 MD5sum: 2559bd4321e30c0220ac1ba70c4a5a6d SHA1: 0e4f31e1ba14883a31589f6f552f88a880de6335 SHA256: a8fefc5485d5ba94b50632baff2982dcc180b038245708cc6831cff160baa469 SHA512: c18f0548580f67677cea33b20e6f84f31091d2ca7f4e6c8541070a124cabcc58950fb8cae8bf83e482d9c656de32f0a292f1d12261ad54fcb4dcec74a5924e33 Homepage: https://cran.r-project.org/package=TimeVarConcurrentModel Description: CRAN Package 'TimeVarConcurrentModel' (Concurrent Multivariate Models with Time-Varying Coefficients) Provides a hypothesis test and variable selection algorithm for use in time-varying, concurrent regression models. The hypothesis test function is also accompanied by a plotting function which will show the estimated beta(s) and confidence band(s) from the hypothesis test. The hypothesis test function helps the user identify significant covariates within the scope of a time-varying concurrent model. The plots will show the amount of area that falls outside the confidence band(s) which is used for the test statistic within the hypothesis test. Package: r-cran-timevarcorr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 409 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lpridge Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-timevarcorr_0.1.1-1.ca2004.1_all.deb Size: 362436 MD5sum: 05d25ce266cea6c927eb765c21b29a44 SHA1: b1e2d5f10d1860003a18322938652bcf67ae42ce SHA256: 60bf122352a1d17283a3fcb212c0dd9614c2f5ba20d1a39e9bd8e67c1121b464 SHA512: 0fed4886fe85ee5b0a5562c18833e7a507f2bb54af038ec0d7dce763f570e46c707ecbc0dbc582f76548a123322ff6edc66460836cbf04f3a983f716db7b9b6d Homepage: https://cran.r-project.org/package=timevarcorr Description: CRAN Package 'timevarcorr' (Time Varying Correlation) Computes how the correlation between 2 time-series changes over time. To do so, the package follows the method from Choi & Shin (2021) . It performs a non-parametric kernel smoothing (using a common bandwidth) of all underlying components required for the computation of a correlation coefficient (i.e., x, y, x^2, y^2, xy). An automatic selection procedure for the bandwidth parameter is implemented. Alternative kernels can be used (Epanechnikov, box and normal). Both Pearson and Spearman correlation coefficients can be estimated and change in correlation over time can be tested. Package: r-cran-timevis Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1051 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-htmltools, r-cran-htmlwidgets, r-cran-jsonlite, r-cran-magrittr, r-cran-rmarkdown, r-cran-shiny Suggests: r-cran-lubridate, r-cran-testthat, r-cran-shinydisconnect Filename: pool/dists/focal/main/r-cran-timevis_2.1.0-1.ca2004.1_all.deb Size: 529908 MD5sum: d0e8849129cca1b67d2de7b6d03be8f0 SHA1: 87853988b0ec5c81f4cbb759a9e39aa8bdcd33e1 SHA256: 7bf38b8bd17be7ec6d26c97bb0e77fe81cd728e30cde7b53fb79a1e54f8ece93 SHA512: df25c2c555c601e24be10010aae005d0b15ff4f1af06a143ce0878895b8facf63904272976b01e554adb7b5f9f8b2a96700661a0d5af13d87526d57fc744ff08 Homepage: https://cran.r-project.org/package=timevis Description: CRAN Package 'timevis' (Create Interactive Timeline Visualizations in R) Create rich and fully interactive timeline visualizations. Timelines can be included in Shiny apps or R markdown documents. 'timevis' includes an extensive API to manipulate a timeline after creation, and supports getting data out of the visualization into R. Based on the 'vis.js' Timeline JavaScript library. Package: r-cran-timevizpro Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-shiny, r-cran-countrycode, r-cran-sparkline, r-cran-ggplot2, r-cran-ggiraph, r-cran-dplyr Suggests: r-cran-openxlsx, r-cran-htmltools, r-cran-htmlwidgets, r-cran-dt Filename: pool/dists/focal/main/r-cran-timevizpro_1.0.1-1.ca2004.1_all.deb Size: 38900 MD5sum: 251a9f5390f8f5abe7c9521b79eb4a18 SHA1: b8c01c0063d57ebc7ab2ef2cfec0c7025bcb2733 SHA256: 45973456e9f5bd8453a61d8c2d446d20c1aa5bc87c056afd1fca5951557d943c SHA512: 7f07531aba89d80084ed6f401b3df15aa98956450d4cf8a0f77162b9ce4cc657ad6462b9380f571443902aca5261ca30ce0b25bd73a6c1d43761b166aed0c07c Homepage: https://cran.r-project.org/package=TimeVizPro Description: CRAN Package 'TimeVizPro' (Dynamic Data Explorer: Visualize and Forecast with 'TimeVizPro') Unleash the power of time-series data visualization with ease using our package. Designed with simplicity in mind, it offers three key features through the 'shiny' package output. The first tab shows time- series charts with forecasts, allowing users to visualize trends and changes effortlessly. The second one displays Averages per country presented in tables with accompanying sparklines, providing a quick and attractive overview of the data. The last tab presents A customizable world map colored based on user-defined variables for any chosen number of countries, offering an advanced visual approach to understanding geographical data distributions. This package operates with just a few simple arguments, enabling users to conduct sophisticated analyses without the need for complex programming skills. Transform your time-series data analysis experience with our user-friendly tool. Package: r-cran-timevtree Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 154 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-timevtree_0.3.1-1.ca2004.1_all.deb Size: 124564 MD5sum: e99950e6dea8edee5dea44aad00e9451 SHA1: ef17402f59518b34c8c581a21563edfbcc6ca997 SHA256: 5da0db6b6b11ebeb5fc2a589b1eb31d4bbb14c289eccd8c27e1162e587324f3a SHA512: ddad4803add4b268d804d1dfc29b41e9a57b4d393adb6d7be7b8d1a04544e774a735523cc6693db01992019f3068956611f12e8d3e5bef43540b035629814fbc Homepage: https://cran.r-project.org/package=TimeVTree Description: CRAN Package 'TimeVTree' (Survival Analysis of Time Varying Coefficients Using aTree-Based Approach) Estimates time varying regression effects under Cox type models in survival data using classification and regression tree. The codes in this package were originally written in S-Plus for the paper "Survival Analysis with Time-Varying Regression Effects Using a Tree-Based Approach," by Xu, R. and Adak, S. (2002) , Biometrics, 58: 305-315. Development of this package was supported by NIH grants AG053983 and AG057707, and by the UCSD Altman Translational Research Institute, NIH grant UL1TR001442. The content is solely the responsibility of the authors and does not necessarily represent the official views of the NIH. The example data are from the Honolulu Heart Program/Honolulu Asia Aging Study (HHP/HAAS). 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This package also contains helper functions to compile 'LaTeX' documents, and install missing 'LaTeX' packages automatically. Package: r-cran-tinythemes Architecture: all Version: 0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2 Suggests: r-cran-hrbrthemes, r-cran-patchwork Filename: pool/dists/focal/main/r-cran-tinythemes_0.0.3-1.ca2004.1_all.deb Size: 25132 MD5sum: 986a4c6cafa6ea2aa0cb3d9964993e6a SHA1: 3310173178981c994d979967e7cfc71071195545 SHA256: 77f33b41eb40de1e2e87a738fd91ac204509c60b01ef4a50f3624a26c07187f7 SHA512: d2d8d822323cb16831841d819cbcf8652b7dad82f217ceaff467204668d75f16c8815e6baa53ba0db800f6d438366e2709468eb70705b8ffcdb4f6532f3ba586 Homepage: https://cran.r-project.org/package=tinythemes Description: CRAN Package 'tinythemes' (Lightweight Repackaging of 'Themes' for 'ggplot2') Themes for 'ggplot2' are a convenient way to style plots. The 'hrbrthemes' package contains a particularly nice one, but brings along a significant tail of dependencies. So this (currently experimental) package brings along just the 'theme_ipsum_rc' theme using the 'Roboto' 'Condensed' font. Should the font not be installed on your system, see the help in the package 'hrbrthemes' on how to install 'Roboto Condensed'. Package: r-cran-tinytiger Architecture: all Version: 0.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 271 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-curl, r-cran-sf Suggests: r-cran-knitr, r-cran-rappdirs, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tinytiger_0.0.10-1.ca2004.1_all.deb Size: 202352 MD5sum: 41f1b53690d186c14fb72cc868a85817 SHA1: 426f5e838ebe67adb5d0fae0c911b414a5764d16 SHA256: 68baa7d1f4d662a67a07b46f0dc6f8ff620d5348cd0241c3388fdf9fccf62910 SHA512: 0cf8998543a768d59c06bb6909cc426abf303d3ab41fb2968d95e27d9618cbcb52fd31c1c40b300c8f05bb6b723aca423a132ac5cb8c01a528775bbd4a88577b Homepage: https://cran.r-project.org/package=tinytiger Description: CRAN Package 'tinytiger' (Lightweight Interface to TIGER/Line Shapefiles) Download geographic shapes from the United States Census Bureau TIGER/Line Shapefiles . Functions support downloading and reading in geographic boundary data. All downloads can be set up with a cache to avoid multiple downloads. Data is available back to 2000 for most geographies. Package: r-cran-tip Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 659 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rlang, r-cran-igraph, r-cran-network, r-cran-ggplot2, r-cran-ggally, r-cran-laplacesdemon, r-cran-changepoint, r-cran-doparallel, r-cran-foreach, r-cran-mniw Suggests: r-cran-knitr, r-cran-sna, r-cran-mcclust, r-cran-smfilter, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tip_0.1.0-1.ca2004.1_all.deb Size: 254448 MD5sum: c6e236f00ed60d9893a08406624a37bd SHA1: ffef3375ba88923c7b06862dabf304fed2f2f07d SHA256: a0a61ade48f463e3a1adfe3200bb81519abcc43db3e1a0e884013f2aaf9d8102 SHA512: e66f4792d48b9a530f7740f81683d8c846f07b3930de4759ff2dfafbca7315a8a1d800716df235a72c10b8d90c45dbf8f2adbaf82caf284b992730ea3f7183c7 Homepage: https://cran.r-project.org/package=tip Description: CRAN Package 'tip' (Bayesian Clustering Using the Table Invitation Prior (TIP)) Cluster data without specifying the number of clusters using the Table Invitation Prior (TIP) introduced in the paper "Clustering Gene Expression Using the Table Invitation Prior" by Charles W. Harrison, Qing He, and Hsin-Hsiung Huang (2022) . TIP is a Bayesian prior that uses pairwise distance and similarity information to cluster vectors, matrices, or tensors. Package: r-cran-tipa Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-optimx Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tipa_1.0.8-1.ca2004.1_all.deb Size: 26072 MD5sum: ff0d71e720deb9b5e026779ead38f027 SHA1: 5e4e2fd585d0cf1de380b4a8f791a1f0ea465278 SHA256: 27c64fa940cc9344c681556914f78c9110f18c01f23c9480635e57455fd6acc3 SHA512: 765e82f215558a3fa84fd10d69b6e02804fe7d2488ca5602c9337b08bbaa2edcdd3d9f2d35b785d7918978d2e849bcdee65ff4f4f973779b1b7be90e5578ebaa Homepage: https://cran.r-project.org/package=tipa Description: CRAN Package 'tipa' (Tau-Independent Phase Analysis for Circadian Time-Course Data) Accurately estimates phase shifts by accounting for period changes and for the point in the circadian cycle at which the stimulus occurs. See Tackenberg et al. (2018) . Package: r-cran-tipdatingbeast Architecture: all Version: 1.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1328 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mclust, r-cran-teachingdemos, r-cran-desctools Filename: pool/dists/focal/main/r-cran-tipdatingbeast_1.1-0-1.ca2004.1_all.deb Size: 1112352 MD5sum: 0e638fc43b881526eafddd36e55f6e19 SHA1: 084d087782d6a8ae8d22ecfb6c6b0853701eae98 SHA256: dcd15d5ba087085a7041f7d53ace1db5330bd40de93270812ea8051260c4a526 SHA512: 18cdfbea50b17890f78babc3a656a62adaff1ac914e766449f6ad2880b5982dc266edab5c85eb23f0870665794e2b72f9128319f0b191c20deea1d1d9dafff67 Homepage: https://cran.r-project.org/package=TipDatingBeast Description: CRAN Package 'TipDatingBeast' (Using Tip Dates with Phylogenetic Trees in BEAST) Assists performing tip-dating of phylogenetic trees with BEAST BEAST is a popular software for phylogenetic analysis. The package assists the implementation of various phylogenetic tip- dating tests using BEAST. It contains two main functions. The first one allows preparing date randomization analyses, which assess the temporal signal of a data set. The second function allows performing leave-one-out analyses, which test for the consistency between independent calibration sequences and allow pinpointing those leading to potential bias. The included tutorial provides detailed step-by-step instructions. An expanded description of the package can be found in article: Rieux, A. and Khatchikian, C.E. (2017), TIPDATINGBEAST: an R package to assist the implementation of phylogenetic tip-dating tests using BEAST. Molecular Ecology Resources, 17: 608-613. . Package: r-cran-tipmap Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2433 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-purrr, r-cran-ggplot2, r-cran-rbest, r-cran-assertthat, r-cran-furrr, r-cran-future Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr, r-cran-tibble, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tipmap_0.5.2-1.ca2004.1_all.deb Size: 721752 MD5sum: cc83551f29daf1d682120a53ec9cdd5c SHA1: d6baa4ac29a73174ec69177bcd7f30f70eadb37b SHA256: 261ec042a189ee67b8e8e650bb6f4446bb49da519792f6ccc24e4d138794f85b SHA512: f7f772cdddc86a2fc21bbfbc5b1b0a961e7ff825a6eb45bb76299d66aa6b75cd8948be8d4d7161a482acfe75079b888495dac8f8278a1a8ffb54524990687574 Homepage: https://cran.r-project.org/package=tipmap Description: CRAN Package 'tipmap' (Tipping Point Analysis for Bayesian Dynamic Borrowing) Tipping point analysis for clinical trials that employ Bayesian dynamic borrowing via robust meta-analytic predictive (MAP) priors. Further functions facilitate expert elicitation of a primary weight of the informative component of the robust MAP prior and computation of operating characteristics. Intended use is the planning, analysis and interpretation of extrapolation studies in pediatric drug development, but applicability is generally wider. Package: r-cran-tippingpoint Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2815 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-rcolorbrewer, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-bayessurv Filename: pool/dists/focal/main/r-cran-tippingpoint_1.2.0-1.ca2004.1_all.deb Size: 2022728 MD5sum: 13a12501a0340a39b152c127b02a41a5 SHA1: bd8bca4720adb3f2ae16705d22683a9292f411f9 SHA256: 546e73be980ff4e9db2f5aabe13704e9c59052745e554baded4a328794a0e4ef SHA512: 75acd8eec9be658c9c7800c3d66145cf6d41eefd02ddda4ed76ea849615d0abe31ed42ea8c8b1e9c86901df305adccff16940ebe4078c6a5d4b401d0b040fa8c Homepage: https://cran.r-project.org/package=TippingPoint Description: CRAN Package 'TippingPoint' (Enhanced Tipping Point Displays the Results of SensitivityAnalysis for Missing Data) Using the idea of "tipping point" (proposed in Gregory Campbell, Gene Pennello and Lilly Yue(2011) ) to visualize the results of sensitivity analysis for missing data, the package provides a set of functions to list out all the possible combinations of missing values in two treatment arms, calculate corresponding estimated treatment effects and p values, and draw a colored heat-map. It could deal with randomized experiments with a binary outcome or a continuous outcome. In addition, the package provides a visualized method to compare various imputation methods by adding the rectangles or convex hulls on the basic plot. Package: r-cran-tippy Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 127 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets, r-cran-htmltools, r-cran-shiny, r-cran-jsonlite Filename: pool/dists/focal/main/r-cran-tippy_0.1.0-1.ca2004.1_all.deb Size: 44004 MD5sum: 3166715f85da9ca1701f6f501f1f2029 SHA1: 84d2c64a38743349b22c1f43fe278756f091c7aa SHA256: 169724c8a6c314493a55fa552b5ac2a17aba2cbaf3f43ab214b2cfada17f6bfb SHA512: 749d3146771712a290a0e2a8d83bb92e8fb255413a3b1e7ee8659e6b33ca4f739a3b257d5237dc54c74a20965bf01a4f8586cfe25cba05cfe5db5ec7223a3077 Homepage: https://cran.r-project.org/package=tippy Description: CRAN Package 'tippy' (Add Tooltips to 'R markdown' Documents or 'Shiny' Apps) 'Htmlwidget' of 'Tippyjs' to add tooltips to 'Shiny' apps and 'R markdown' documents. Package: r-cran-tipr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 355 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-cli, r-cran-glue, r-cran-purrr, r-cran-rlang, r-cran-sensemakr, r-cran-tibble Suggests: r-cran-broom, r-cran-dplyr, r-cran-mass, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tipr_1.0.2-1.ca2004.1_all.deb Size: 291644 MD5sum: a837a7b9c35c6ca36386619a36c1983f SHA1: feef5f6fcc0db85e567d6c70f93e4aee5838440d SHA256: a7f050d2f5c8f5a21de054920bf97f4ac1ba036b1612118164917e9c84659146 SHA512: d64813091e59f66ba6135a3b56a24ecfdd107eb8c304defcc22413c08a10f31170fb527809268da430b99a0aef8ddbcdf4aad9b88d475db576f4fdc250c4beb8 Homepage: https://cran.r-project.org/package=tipr Description: CRAN Package 'tipr' (Tipping Point Analyses) The strength of evidence provided by epidemiological and observational studies is inherently limited by the potential for unmeasured confounding. We focus on three key quantities: the observed bound of the confidence interval closest to the null, the relationship between an unmeasured confounder and the outcome, for example a plausible residual effect size for an unmeasured continuous or binary confounder, and the relationship between an unmeasured confounder and the exposure, for example a realistic mean difference or prevalence difference for this hypothetical confounder between exposure groups. Building on the methods put forth by Cornfield et al. (1959), Bross (1966), Schlesselman (1978), Rosenbaum & Rubin (1983), Lin et al. (1998), Lash et al. (2009), Rosenbaum (1986), Cinelli & Hazlett (2020), VanderWeele & Ding (2017), and Ding & VanderWeele (2016), we can use these quantities to assess how an unmeasured confounder may tip our result to insignificance. Package: r-cran-titan2 Architecture: all Version: 2.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2936 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-glue, r-cran-cowplot, r-cran-ggridges, r-cran-purrr, r-cran-tibble, r-cran-cli Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-titan2_2.4.3-1.ca2004.1_all.deb Size: 2434648 MD5sum: d9bf686f5f001920d3d82f4126f3a7bb SHA1: 4ee54be2f26186bbe960d01ca3685f570e1e1137 SHA256: 9fbd1193e0571194531350d8a09ee1115cbb0def10cc82fa14e4c28b779d8056 SHA512: d96b8f5ae0d8102bce41979d84a5f99307b0db3bb4eaffacc6a71b6ffac374ba439123c81f3d98f3f163c5a9836a9e8b4b51ceb281b2649bc5f12a330a6930f3 Homepage: https://cran.r-project.org/package=TITAN2 Description: CRAN Package 'TITAN2' (Threshold Indicator Taxa Analysis) Uses indicator species scores across binary partitions of a sample set to detect congruence in taxon-specific changes of abundance and occurrence frequency along an environmental gradient as evidence of an ecological community threshold. Relevant references include Baker and King (2010) , King and Baker (2010) , and Baker and King (2013) . Package: r-cran-titanic Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 190 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-dplyr Filename: pool/dists/focal/main/r-cran-titanic_0.1.0-1.ca2004.1_all.deb Size: 80560 MD5sum: daeb52d1633775ce945e3fbce0860657 SHA1: 09e68e6fe461ecea2bec64b9a976698c7fb7a2a8 SHA256: 3ff61da3592319ef0bdaac8de41e74d8640c3f0494c0df701d24f7366a19a82c SHA512: 47bb2c07983529fa58c893e507504f134d3cb154d1f9a126830238f956a6dd179a18fdf63cbead1fd455c4aaf5d9fdd99d5edf20a312c207d0b2b4fcde1d3fbc Homepage: https://cran.r-project.org/package=titanic Description: CRAN Package 'titanic' (Titanic Passenger Survival Data Set) This data set provides information on the fate of passengers on the fatal maiden voyage of the ocean liner "Titanic", summarized according to economic status (class), sex, age and survival. Whereas the base R Titanic data found by calling data("Titanic") is an array resulting from cross-tabulating 2201 observations, these data sets are the individual non-aggregated observations and formatted in a machine learning context with a training sample, a testing sample, and two additional data sets that can be used for deeper machine learning analysis. These data sets are also the data sets downloaded from the Kaggle competition and thus lowers the barrier to entry for users new to R or machine learing. Package: r-cran-titegboin Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 88 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-titegboin_0.4.0-1.ca2004.1_all.deb Size: 59304 MD5sum: 8098c6f9d08f0b8b7873c04c242d8670 SHA1: 63004d8878d2344147dfe07c1a7b4592a0131e8c SHA256: fbc9be14eb0087b6bd94adf743649fbd444a116ec05faaa92cb820d0eb25d886 SHA512: 6971309ec9f5df6f32241d332c6a3b198dd83f8f18c53929ee3592673e8602a2ae2dfaf5ba716724932ace9860768da395593ee1b294eba043adf0cfcdb0ce22 Homepage: https://cran.r-project.org/package=TITEgBOIN Description: CRAN Package 'TITEgBOIN' (Time-to-Event Dose-Finding Design for Multiple Toxicity Grades) In some phase I trials, the design goal is to find the dose associated with a certain target toxicity rate or the dose with a certain weighted sum of rates of various toxicity grades. 'TITEgBOIN' provides the set up and calculations needed to run a dose-finding trial using bayesian optimal interval (BOIN) (Yuan et al. (2016) ), generalized bayesian optimal interval (gBOIN) (Mu et al. (2019) ), time-to-event bayesian optimal interval (TITEBOIN) (Lin et al. (2020) ) and time-to-event generalized bayesian optimal interval (TITEgBOIN) (Takeda et al. (2022) ) designs. 'TITEgBOIN' can conduct tasks: run simulations and get operating characteristics; determine the dose for the next cohort; select maximum tolerated dose (MTD). These functions allow customization of design characteristics to vary sample size, cohort sizes, target dose limiting toxicity (DLT) rates or target normalized equivalent toxicity score (ETS) rates to account for discrete toxicity score, and incorporate safety and/or stopping rules. Package: r-cran-titeir Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-iso Filename: pool/dists/focal/main/r-cran-titeir_0.1.0-1.ca2004.1_all.deb Size: 27004 MD5sum: 1e811bc21028b386bbc7fae4bb1a8ccc SHA1: 147f90af9c2e33559af5a0131abd458dac69e72c SHA256: 195fac1fe81655700539eedd78f1a16035f10392643cf5bb1decdac7ca5a5d98 SHA512: 229aec2a70c854fbba1a769f44e98750164f5df5c6120c7e5b829743443ed51bc2d841ee12b1fc7f554001489d892dd5fca56544453bdfbd365356dc59de00e5 Homepage: https://cran.r-project.org/package=titeIR Description: CRAN Package 'titeIR' (Isotonic Designs for Phase 1 Trials with Late-Onset Toxicities) Functions to design phase 1 trials using an isotonic regression based design incorporating time-to-event information. Simulation and design functions are available, which incorporate information about followup and DLTs, and apply isotonic regression to devise estimates of DLT probability. 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Options include the titration of mixtures, the ability to overlay two or more titration curves, and the ability to show equivalence points. 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Tsiatis AA, Davidian M, Holloway ST (2023) . 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Package: r-cran-tlcar Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 125 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tlcar_0.1.0-1.ca2004.1_all.deb Size: 50108 MD5sum: 155a6af503bd876dacf68b65b3cdb164 SHA1: 90612e2ec2489e8a055f65bc839b9798462e8dea SHA256: 25b1d3b838285d7eb9eaa91e657d641509af71dc454f1db1c57718a9f83b5273 SHA512: 734c3c818e7f663c0912890ad59ae08c5d10bd121fda6080d4984b58bb63795bb8e8142eadd49d07ee3130112a871cf98b274c34ed7fe5cc5a40478385047ffc Homepage: https://cran.r-project.org/package=TLCAR Description: CRAN Package 'TLCAR' (Computation of Topp-Leone Cauchy Rayleigh (TLCAR )distribution's properties) Provides a comprehensive suite of statistical tools for analyzing, simulating, and computing properties of the Topp-Leone Cauchy Rayleigh (TLCAR) distribution, a versatile distribution amalgamating features of the Topp-Leone, Cauchy, and Rayleigh distributions, ideal for modeling intricate, heterogeneous data across scientific domains. 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Package: r-cran-tm.plugin.europresse Architecture: all Version: 1.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlp, r-cran-tm, r-cran-xml Filename: pool/dists/focal/main/r-cran-tm.plugin.europresse_1.4.1-1.ca2004.1_all.deb Size: 33452 MD5sum: e09a4627d9a453692069e41e78aed707 SHA1: 56da449e2ab58507c03e18cec7247c62c03ba3bb SHA256: 1f358eabd8b089c5225b3ed530c0d5ba0117973654cbb3dd63851605a403e6be SHA512: b98373b5eaf94dd2f762e2eb4d126dfe2a7b57c982528092160d6d13ec416ff91d1857ad950e8aa0e0b8a349bdd08a79dc0cac7c367c30a910e2b97e2cfbd9e0 Homepage: https://cran.r-project.org/package=tm.plugin.europresse Description: CRAN Package 'tm.plugin.europresse' (Import Articles from 'Europresse' Using the 'tm' Text MiningFramework) Provides a 'tm' Source to create corpora from articles exported from the 'Europresse' content provider as HTML files. 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Package: r-cran-tm.plugin.factiva Architecture: all Version: 1.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 219 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlp, r-cran-tm, r-cran-xml2, r-cran-rvest Filename: pool/dists/focal/main/r-cran-tm.plugin.factiva_1.8.1-1.ca2004.1_all.deb Size: 63104 MD5sum: 6f2442a719906b0c3a462662ac0bd696 SHA1: db9260fd5ae0b553566facb371cb9f3a36408a31 SHA256: c3563350474f96bdf1adb5a46fd61ea360b499811b62e599d37e495893d505cc SHA512: 84ab82ada6321dcfaec454f3908b47dfd10a3dd2c9a1b1033d33b4cd68ec83ec15344003928ac24f3080f8627cbb103a7a58baed15aacd1d264156caa10c27ec Homepage: https://cran.r-project.org/package=tm.plugin.factiva Description: CRAN Package 'tm.plugin.factiva' (Import Articles from 'Factiva' Using the 'tm' Text MiningFramework) Provides a 'tm' Source to create corpora from articles exported from the Dow Jones 'Factiva' content provider as XML or HTML files. It is able to read both text content and meta-data information (including source, date, title, author, subject, geographical coverage, company, industry, and various provider-specific fields). Package: r-cran-tm.plugin.korpus Architecture: all Version: 0.4-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2097 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-korpus, r-cran-sylly, r-cran-tm, r-cran-nlp Suggests: r-cran-korpus.lang.en, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tm.plugin.korpus_0.4-2-1.ca2004.1_all.deb Size: 974868 MD5sum: 1ebf20eed4261507dcd0eb73523599fc SHA1: 85df9e7e815513534927cb6e9d892b4c049b4743 SHA256: b26990b1938e59e2c91cbf7c8af2c781238837eb8a089123e04f345fe12edd21 SHA512: 3cb48f5c4a7c60bb2e92b61478269c851b03c5db71acf172b179ceafc25a1a7f0cc9ddee9dc4e474a22be3806f3161c0b793359f44326f00912340504e7c3bf3 Homepage: https://cran.r-project.org/package=tm.plugin.koRpus Description: CRAN Package 'tm.plugin.koRpus' (Full Corpus Support for the 'koRpus' Package) Enhances 'koRpus' text object classes and methods to also support large corpora. Hierarchical ordering of corpus texts into arbitrary categories will be preserved. Provided classes and methods also improve the ability of using the 'koRpus' package together with the 'tm' package. To ask for help, report bugs, suggest feature improvements, or discuss the global development of the package, please subscribe to the koRpus-dev mailing list (). Package: r-cran-tm.plugin.lexisnexis Architecture: all Version: 1.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlp, r-cran-tm, r-cran-xml2, r-cran-isocodes Filename: pool/dists/focal/main/r-cran-tm.plugin.lexisnexis_1.4.2-1.ca2004.1_all.deb Size: 35088 MD5sum: aa41265f3d8ae4a79522286f7b11eed5 SHA1: 726aa6b8ca647244f621e44a11715164d7dedd52 SHA256: 029e523baef75d3912b46e57609c1c456e48e6bec517368a4c4cff0dbaed6f85 SHA512: 6d90611ce4b4ba1253a971a6a6b013e5389a81cc2bb74ccaeb02d711e048819beebc8c847cf9350afcb640aeb1bf6df3b721ab6541e943fa5afabb940043ce91 Homepage: https://cran.r-project.org/package=tm.plugin.lexisnexis Description: CRAN Package 'tm.plugin.lexisnexis' (Import Articles from 'LexisNexis' Using the 'tm' Text MiningFramework) Provides a 'tm' Source to create corpora from articles exported from the 'LexisNexis' content provider as HTML files. It is able to read both text content and meta-data information (including source, date, title, author and pages). Note that the file format is highly unstable: there is no warranty that this package will work for your corpus, and you may have to adjust the code to adapt it to your particular format. Package: r-cran-tm.plugin.mail Architecture: all Version: 0.3-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 105 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nlp, r-cran-tm, r-cran-reticulate Filename: pool/dists/focal/main/r-cran-tm.plugin.mail_0.3-0-1.ca2004.1_all.deb Size: 65972 MD5sum: eb8ee1b51588d4ac3c732d04c49b88b4 SHA1: e2e30eaab7b8addf6c7d19228aa408cee26a0ce6 SHA256: 49ae143b304f780e3b37adb7f6bddf005930e455ff687314d7d2aa7f8e1fa610 SHA512: c57579820f341d8d8e22f95f1c3617511467322414a59504832d0487c0ced3aebdbdfa441db72d96d39e98b29c5a85f5d7e1773dfb66ffcf6d2983636709da01 Homepage: https://cran.r-project.org/package=tm.plugin.mail Description: CRAN Package 'tm.plugin.mail' (Text Mining E-Mail Plug-in) A plug-in for the tm text mining framework providing mail handling functionality. Package: r-cran-tm.plugin.webmining Architecture: all Version: 1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 390 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-nlp, r-cran-tm, r-cran-boilerpiper, r-cran-rcurl, r-cran-xml, r-cran-rjsonio Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tm.plugin.webmining_1.3-1.ca2004.1_all.deb Size: 338444 MD5sum: 7fed62c8c379e7bf28caf49b212a5f72 SHA1: 07406e01f68a008352cf6d4a72e6288cfc76fbac SHA256: 78032d852da45be40807c7b564050eaddc49cd795f2538e4d53c1871eab5cc25 SHA512: 9195073f8f3c437883b2ad05123d63e55780836bb73654b2c2f2480dcf519b9bfce5a56e31f36bef2e0bbe2582cbbf9350f6d81804772497f5d55560b25aeae6 Homepage: https://cran.r-project.org/package=tm.plugin.webmining Description: CRAN Package 'tm.plugin.webmining' (Retrieve Structured, Textual Data from Various Web Sources) Facilitate text retrieval from feed formats like XML (RSS, ATOM) and JSON. Also direct retrieval from HTML is supported. As most (news) feeds only incorporate small fractions of the original text tm.plugin.webmining even retrieves and extracts the text of the original text source. Package: r-cran-tm1r Architecture: all Version: 1.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 146 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-jsonlite, r-cran-httr Filename: pool/dists/focal/main/r-cran-tm1r_1.1.8-1.ca2004.1_all.deb Size: 115708 MD5sum: 8a9fc7cfe222027e97ad697c693b2d52 SHA1: 66abe928e162b6df24367ecf52bb9a4ab0b12707 SHA256: 0c79700cbb69252b0ff5270d277982d034cb37997bbf7ad7e8fabb793183be9e SHA512: a637fc2080d7615e185a8283aad67cb8ab9d9d3c6fcd36dd253b557b17df0964e9f883dc89f65e7835402168e246dfd0a10bbec6fc63ac4bb0076a9290f4b9f5 Homepage: https://cran.r-project.org/package=tm1r Description: CRAN Package 'tm1r' (The Integration Between 'IBM COGNOS TM1' and R) Useful functions to connect to 'TM1' instance from R via REST API. With the functions in the package, data can be imported from 'TM1' via mdx view or native view, data can be sent to 'TM1', processes and chores can be executed, and cube and dimension metadata information can be taken. Package: r-cran-tmap.cartogram Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tmap, r-cran-sf, r-cran-cartogram Suggests: r-cran-knitr, r-cran-transformr, r-cran-gifski Filename: pool/dists/focal/main/r-cran-tmap.cartogram_0.2-1.ca2004.1_all.deb Size: 73656 MD5sum: 40942ad8bc8beefbe79dd2b04f7df7a0 SHA1: cad5192c1561a62585615d038483cec95c5b83e1 SHA256: deeb5f98ae1cd49d1e54e0d8058b478a6658c9cc3c3e69a614b1f0d938ff5f89 SHA512: 93f67357f5a0cf61c017a44bdcc08f06745686b892156758bf203a0966559b134d4e3c2a7ccff6689208644b4c08e7653052c843e665a0101193ec82fcc93bf9 Homepage: https://cran.r-project.org/package=tmap.cartogram Description: CRAN Package 'tmap.cartogram' (Extension to 'tmap' for Creating Cartograms) Provides new layer functions to 'tmap' for creating various types of cartograms. A cartogram is a type of thematic map in which geographic areas are resized or distorted based on a quantitative variable, such as population. The goal is to make the area sizes proportional to the selected variable while preserving geographic positions as much as possible. Package: r-cran-tmap.glyphs Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 113 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tmap, r-cran-data.table Filename: pool/dists/focal/main/r-cran-tmap.glyphs_0.1-1.ca2004.1_all.deb Size: 78512 MD5sum: d020498af3e374825ba915809d3340cc SHA1: 69567f28f1163c0d053e4cc69b18ee0a8ad44d3f SHA256: 1d4a6a87bbe497e8d073fa8ad3498317d754855bb35b528a953c3a1b35641767 SHA512: ed9bafb22f6965bdb8e105c6ecb2f83a5234748dda38e88a8b90b92a5e51dc2f1b8247915f65354406c09927ad72c9fb1e8c5e6500c1f1259cc52268fcd50720 Homepage: https://cran.r-project.org/package=tmap.glyphs Description: CRAN Package 'tmap.glyphs' (Extension to 'tmap' for Creating Glyphs) Provides new layer functions to 'tmap' for drawing glyphs. A glyph is a small chart (e.g., donut chart) shown at specific map locations to visualize multivariate or time-series data. The functions work with the syntax of 'tmap' and allow flexible control over size, layout, and appearance. Package: r-cran-tmap.networks Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-tmap, r-cran-sf, r-cran-sfnetworks, r-cran-data.table, r-cran-igraph Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-tmap.networks_0.1-1.ca2004.1_all.deb Size: 91852 MD5sum: 6077508c725551852cf8ec80bb0e5b7e SHA1: e67d2fe3513742a56c84324fbdd6438e1f96e79e SHA256: 4c9db9beef7e681d28ccd4a5d745eb70ebd890e783e6d69f72daf6da4643e19a SHA512: 7962f7c0d1a7b1c3cea0d468af8f356b001918e1ba519c5562c6469c4a946905993309545d3dc92633d809e52a047d36a9147024672e6b2d97827ecd4208438d Homepage: https://cran.r-project.org/package=tmap.networks Description: CRAN Package 'tmap.networks' (Extension to 'tmap' for Creating Network Visualizations) Provides functions for visualizing networks with 'tmap'. It supports 'sfnetworks' objects natively but is not limited to them. Useful for adding network layers such as edges and nodes to 'tmap' maps. More features may be added in future versions. Package: r-cran-tmap Architecture: all Version: 4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4294 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-classint, r-cran-cli, r-cran-cols4all, r-cran-data.table, r-cran-htmltools, r-cran-htmlwidgets, r-cran-base64enc, r-cran-leafem, r-cran-leafgl, r-cran-leaflegend, r-cran-leaflet, r-cran-leafsync, r-cran-maptiles, r-cran-rlang, r-cran-sf, r-cran-stars, r-cran-s2, r-cran-tmaptools, r-cran-units, r-cran-servr Suggests: r-cran-av, r-cran-transformr, r-cran-colorspace, r-cran-ggplot2, r-cran-gifski, r-cran-knitr, r-cran-shiny, r-cran-terra, r-cran-testthat, r-cran-widgetframe, r-cran-lobstr, r-cran-rsvg, r-cran-rstudioapi Filename: pool/dists/focal/main/r-cran-tmap_4.1-1.ca2004.1_all.deb Size: 4199952 MD5sum: 9445448c2ffcff6435ccf2ba88a1c34a SHA1: 04c6065d93a9828d5fa9f9abb4892ea892db5d53 SHA256: 5520ecd56a1ec2fd62d5ef5a33fe1c988e4464b6201749456d9bcb519be77e2b SHA512: 226a7ee1a73c0d359a7f755c13479ff88faa8eb213d4bc5753c7f7f3ce7db5524e4df50fdac6a9f0909ffc165725a1c2f8fb0b1e5d93bf23bc7d2f9c013a7ec9 Homepage: https://cran.r-project.org/package=tmap Description: CRAN Package 'tmap' (Thematic Maps) Thematic maps are geographical maps in which spatial data distributions are visualized. This package offers a flexible, layer-based, and easy to use approach to create thematic maps, such as choropleths and bubble maps. Package: r-cran-tmaptools Architecture: all Version: 3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 200 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-lwgeom, r-cran-stars, r-cran-units, r-cran-magrittr, r-cran-rcolorbrewer, r-cran-viridislite, r-cran-dichromat, r-cran-xml Suggests: r-cran-tmap, r-cran-cols4all, r-cran-rmapshaper, r-cran-osmdata, r-cran-openstreetmap, r-cran-raster, r-cran-png, r-cran-shiny, r-cran-shinyjs Filename: pool/dists/focal/main/r-cran-tmaptools_3.2-1.ca2004.1_all.deb Size: 172108 MD5sum: 7aabb0fe159326b26ebfb7c8e8f39988 SHA1: e4e504ace18d3336bd190420daee9616e1fe8b75 SHA256: 42ea66b5f6dcd64280abb5145463da8fe3a1648af8a372668c84dfec58055547 SHA512: 1c8126e34c64ebc7083c5ebeb77c6d4c68680cb494522e4dd8bacd0d01e4fe96a97b94e7d8c273776492c308150fcbd8fd177d0aa7e83a046e2fbf69eb0ce65a Homepage: https://cran.r-project.org/package=tmaptools Description: CRAN Package 'tmaptools' (Thematic Map Tools) Set of tools for reading and processing spatial data. The aim is to supply the workflow to create thematic maps. This package also facilitates 'tmap', the package for visualizing thematic maps. Package: r-cran-tmcalculator Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 111 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tmcalculator_1.0.3-1.ca2004.1_all.deb Size: 81916 MD5sum: 3e949deae0307099576dad1e4eedba1b SHA1: f9ec4508c7985769486927f07905888c05c6adba SHA256: 73e034bfbe29bb18da5d6b1231c786fa0e052136f7080fd2c33e33597585fb71 SHA512: d31ed8a30cedfe3f4b585b2b007d1248882b8f7a3fd4d02321b60a12dc7f1af32b67ea90d04d82ada5a34d6c3dc3d6c13491e6dda221d0724e67b4bd0a53b59d Homepage: https://cran.r-project.org/package=TmCalculator Description: CRAN Package 'TmCalculator' (Melting Temperature of Nucleic Acid Sequences) This tool is extended from methods in Bio.SeqUtils.MeltingTemp of python. The melting temperature of nucleic acid sequences can be calculated in three method, the Wallace rule (Thein & Wallace (1986) ), empirical formulas based on G and C content (Marmur J. (1962) , Schildkraut C. (2010) , Wetmur J G (1991) , Untergasser,A. (2012) , von Ahsen N (2001) ) and nearest neighbor thermodynamics (Breslauer K J (1986) , Sugimoto N (1996) , Allawi H (1998) , SantaLucia J (2004) , Freier S (1986) , Xia T (1998) , Chen JL (2012) , Bommarito S (2000) , Turner D H (2010) , Sugimoto N (1995) , Allawi H T (1997) , Santalucia N (2005) ), and it can also be corrected with salt ions and chemical compound (SantaLucia J (1996) , SantaLucia J(1998) , Owczarzy R (2004) , Owczarzy R (2008) ). Package: r-cran-tmdb Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 362 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-jsonlite, r-cran-stringi Filename: pool/dists/focal/main/r-cran-tmdb_1.1-1.ca2004.1_all.deb Size: 290728 MD5sum: 81a66e7246a0af94f94469959dbe0f8b SHA1: 24aa5a8479a539b10c27fc7984793b0202467185 SHA256: 737099ed0aaa726fba468254c478831eb0a4522823af2ddfbf4d9221a311720d SHA512: 5253aeeb8a387fb966d24f2737da439d62b1c85cc5b3501c671790f1e4a91ef3499ba67379fb929df9cbd4abc393a0ecaf4ea9c7d1e038941d9ef516cbcdadb4 Homepage: https://cran.r-project.org/package=TMDb Description: CRAN Package 'TMDb' (Access to TMDb API) Provides an R-interface to the TMDb API (see TMDb API on ). The Movie Database (TMDb) is a popular user editable database for movies and TV shows (see ). Package: r-cran-tmisc Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 136 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-tibble, r-cran-rstudioapi, r-cran-magrittr Suggests: r-cran-ggplot2, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-tmisc_1.0.1-1.ca2004.1_all.deb Size: 89300 MD5sum: 2c277eda62b418200a77e6c035f8d881 SHA1: a6918dab444d177333622f554d53edba478c4987 SHA256: 640d7207ba8e12678b5f8c1f77c615160ed3ec32b634fc9b2ffd60545d9348ab SHA512: 1d85f2181560bf82e792da0e3f32423facab8f4439caf13a03761b23caec67d7c9603260d7927bc1cdec8b62ef633d339bb0321170ed39b947fe221e25c50cdc Homepage: https://cran.r-project.org/package=Tmisc Description: CRAN Package 'Tmisc' (Turner Miscellaneous) Miscellaneous utility functions for data manipulation, data tidying, and working with gene expression data. Package: r-cran-tml Architecture: all Version: 2.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2141 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-matrix, r-cran-rcppalgos, r-cran-rfast, r-cran-combinat, r-cran-gtools, r-cran-lpsolve, r-cran-lpsolveapi, r-cran-misctools, r-cran-phangorn, r-cran-rcdd, r-cran-rgl, r-cran-ape, r-cran-phytools, r-cran-maps, r-cran-cluster, r-cran-rocr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tml_2.3.0-1.ca2004.1_all.deb Size: 2113484 MD5sum: d055d1e56c7dee8b7479539c7a3dd0f3 SHA1: 4a41b180604b586872705e5251726d846320cd79 SHA256: 63434abc243b9b1e7646b6103b19fe9c945ddeddfbf67e06d0449acdd4517152 SHA512: cf5a79424331765d89eb2eb02a4ce2c81dd8cd801d9e59b3d4443cf9dc14a7b7f48052dfd9f7f20215dd1d2a7a39c3c831f72b1bd644d0d00bbbb7df6b4b0a2f Homepage: https://cran.r-project.org/package=TML Description: CRAN Package 'TML' (Tropical Geometry Tools for Machine Learning) Suite of tropical geometric tools for use in machine learning applications. These methods may be summarized in the following references: Yoshida, et al. (2022) , Barnhill et al. (2023) , Barnhill and Yoshida (2023) , Aliatimis et al. (2023) , Yoshida et al. (2022) , and Yoshida et al. (2019) . 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The TOC method is a modification of the ROC method which measures the ability of an index variable to diagnose either presence or absence of a characteristic. The diagnosis depends on whether the value of an index variable is above a threshold. Each threshold generates a two-by-two contingency table, which contains four entries: hits (H), misses (M), false alarms (FA), and correct rejections (CR). While ROC shows for each threshold only two ratios, H/(H + M) and FA/(FA + CR), TOC reveals the size of every entry in the contingency table for each threshold (Pontius Jr., R.G., Si, K. 2014. ). 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Package: r-cran-tongfen Architecture: all Version: 0.3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2017 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-tidyr, r-cran-sf, r-cran-tibble, r-cran-rlang, r-cran-purrr, r-cran-stringr, r-cran-readr, r-cran-lifecycle Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-rcolorbrewer, r-cran-ggplot2, r-cran-geojsonsf, r-cran-cancensus, r-cran-tidycensus, r-cran-spelling, r-cran-readxl, r-cran-scales Filename: pool/dists/focal/main/r-cran-tongfen_0.3.6-1.ca2004.1_all.deb Size: 1636040 MD5sum: 1778388c33b5ad1de038eaddee039660 SHA1: a9688332776b99d71dfa7fcbcf7a7affe1559fed SHA256: 3971ed024e41461369016af050ebbd74a671de1eb90e802889c54cdf21b7a319 SHA512: c5993c2d1e6c0f1e1c44c9ebd21b6884b16574bac22012f77cd32770e1e863d0f1a6df6f5327a83cd4d41db290a4d550536ffda9cdde0623e90126d924d010de Homepage: https://cran.r-project.org/package=tongfen Description: CRAN Package 'tongfen' (Make Data Based on Different Geographies Comparable) Several functions to allow comparisons of data across different geographies, in particular for Canadian census data from different censuses. 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The chumbley_non_random() test follows the paper "An Improved Version of a Tool Mark Comparison Algorithm" by Hadler and Morris (2017) . This is an extension of the Chumbley score as previously described in "Validation of Tool Mark Comparisons Obtained Using a Quantitative, Comparative, Statistical Algorithm" by Chumbley et al (2010) . fixed_width_no_modeling() is based on correlation measures in a diamond shaped area of the toolmark as described in Hadler (2017). Package: r-cran-tools4uplift Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 304 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-biasedurn, r-cran-dplyr, r-cran-glmnet, r-cran-latticeextra, r-cran-lhs Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-tools4uplift_1.0.0-1.ca2004.1_all.deb Size: 278284 MD5sum: 91cced5f0cc85dd25436e78ada00231b SHA1: e72f3e0df5934c79da8c65bca53b026ad5489f73 SHA256: 4c669bfae33cada50cd6b613c2753aaca4c33f05b8630216bff5ee2156bf8a1d SHA512: 4f3783f9fb85b1dc722781ca34766114e9f71e34980408b65aa23c0b3112c407bb0a84951644ed3471388d977d605833d728d0031757605c517054c45e00ab05 Homepage: https://cran.r-project.org/package=tools4uplift Description: CRAN Package 'tools4uplift' (Tools for Uplift Modeling) Uplift modeling aims at predicting the causal effect of an action such as a marketing campaign on a particular individual. 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Package: r-cran-toolsforcoda Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 278 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mass, r-cran-calibrate, r-cran-correlplot Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-toolsforcoda_1.1.0-1.ca2004.1_all.deb Size: 135100 MD5sum: e346ab6912ddd7152a33bffdbb6c9a42 SHA1: c45c3cbc94ba13a3df73a98178a9a6838728def7 SHA256: 67d9d68154af5b99ba63ca2ea91c9a76896d70d6924deb46ac9ae6577bf641ff SHA512: f6902f2f4037c3f01c4bc15cec7dd9325a396a67cdfa04639b0f05477948288fd60dd452496f13fa66ef80a0343cd0c84376ec271a86d9eb4586dd2654de5b01 Homepage: https://cran.r-project.org/package=ToolsForCoDa Description: CRAN Package 'ToolsForCoDa' (Multivariate Tools for Compositional Data Analysis) Provides functions for multivariate analysis with compositional data. Includes a function for doing compositional canonical correlation analysis. 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Package: r-cran-toolstability Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 383 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-data.table, r-cran-rdpack, r-cran-nortest Suggests: r-cran-testthat, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-pkgdown, r-cran-pander, r-cran-xml, r-cran-httr, r-cran-rcurl, r-cran-covr Filename: pool/dists/focal/main/r-cran-toolstability_0.1.3-1.ca2004.1_all.deb Size: 317784 MD5sum: 0bfb4e75bb85f5fccaa38053524685ac SHA1: 22033a49f48f119472db0b84eb9d2a98bbcaaf31 SHA256: 80074ce51085f8c5f6d4b50117ad45ea93f5a335a579f974e719fac6045d3cda SHA512: 0014ddfce2b4ffd7ec97c2159626d4894ff7ef82fe703c3f55e5702eb511f9870c315077414b84092cf6ee42cff3f1f5ea123f05ef15d13f5b7ab5949d450f8f Homepage: https://cran.r-project.org/package=toolStability Description: CRAN Package 'toolStability' (Tool for Stability Indices Calculation) Tools to calculate stability indices with parametric, non-parametric and probabilistic approaches. The basic data format requirement for 'toolStability' is a data frame with 3 columns including numeric trait values, genotype,and environmental labels. Output format of each function is the dataframe with chosen stability index for each genotype. Function "table_stability" offers the summary table of all stability indices in this package. This R package toolStability is part of the main publication: Wang, Casadebaig and Chen (2023) . Analysis pipeline for main publication can be found on github: . Sample dataset in this package is derived from another publication: Casadebaig P, Zheng B, Chapman S et al. (2016) . For detailed documentation of dataset, please see on Zenodo . Indices used in this package are from: Döring TF, Reckling M (2018) . Eberhart SA, Russell WA (1966) . Eskridge KM (1990) . Finlay KW, Wilkinson GN (1963) . Hanson WD (1970) Genotypic stability. . Lin CS, Binns MR (1988). Nassar R, Hühn M (1987). Pinthus MJ (1973) . Römer T (1917). Shukla GK (1972). Wricke G (1962). 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Package: r-cran-tower Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glue, r-cran-purrr, r-cran-stringr, r-cran-curl, r-cran-jsonlite, r-cran-rlang Suggests: r-cran-testthat, r-cran-shiny Filename: pool/dists/focal/main/r-cran-tower_0.2.0-1.ca2004.1_all.deb Size: 55168 MD5sum: 46424623aadb64b7d4a8d6057a540aa5 SHA1: 38af2a5538cc2f8a2c2be171f5d4606b98855a07 SHA256: 632034dcd7ea5c094e1805865d6828653dad3c8b3816327a49a2f4723948b8d1 SHA512: feec8c983bbea17957421d57cb840d6aca3a46c8c1cefc4e1802c26b5e51ecc51ad61554e02f596d9b017b72d94ab4ff1acf528179ea95094b6bc4e715adbaa2 Homepage: https://cran.r-project.org/package=tower Description: CRAN Package 'tower' (Easy Middle Ware Library for 'shiny') The best way to implement middle ware for 'shiny' Applications. 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Based on the notion of regression averaging (Matloff (2017, ISBN: 9781498710916)). Package: r-cran-toxcrit Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-toxcrit_1.0-1.ca2004.1_all.deb Size: 13720 MD5sum: 1ef74c5c9e26901d0a0b4ebb3c6724f4 SHA1: 755fad5d9368c51a6b3e644ff818547bdff3df45 SHA256: 008c1446d18e79537db60cbdb34eff7176eeb586f482361e924f416672c7cda3 SHA512: 67719b5139481a83d2310f5c240bb3f3084c8b433bd77f01e6a3ef055967dab046841ca40f5a390caa7ca2b4e7e1541f4f711421044343304af10eb402f0866d Homepage: https://cran.r-project.org/package=ToxCrit Description: CRAN Package 'ToxCrit' (Calculates Safety Stopping Boundaries for a Single-Arm Trialusing Bayes) Computation of stopping boundaries for a single-arm trial using a Bayesian criterion; i.e., for each m<=n (n= total patient number of the trial) the smallest number of observed toxicities is calculated leading to the termination of the trial/accrual according to the specified criteria. The probabilities of stopping the trial/accrual at and up until (resp.) the m-th patient (m<=n) is also calculated. This design is more conservative than the frequentist approach (using Clopper Pearson CIs) which might be preferred as it concerns safety.See also Aamot et.al.(2010) "Continuous monitoring of toxicity in clinical trials - simulating the risk of stopping prematurely" . 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'toxpiR' allows for more customization than the 'ToxPi GUI' () and integration into existing workflows for greater ease-of-use, reproducibility, and transparency. toxpiR package behaves nearly identically to the GUI; the package documentation includes notes about all differences. The vignettes download example files from . 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References include: "Sen, S., Chandra, N. and Maiti, S. S. (2018). On properties and applications of a two-parameter XGamma distribution. Journal of Statistical Theory and Applications, 17(4): 674--685. ." "Wani, M. A., Ahmad, P. B., Para, B. A. and Elah, N. (2023). A new regression model for count data with applications to health care data. International Journal of Data Science and Analytics. ." 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Package: r-cran-tractor.base Architecture: all Version: 3.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3285 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ore, r-cran-reportr, r-cran-shades, r-cran-rnifti Suggests: r-cran-mmand, r-cran-loder, r-cran-divest, r-cran-jsonlite, r-cran-yaml, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-tractor.base_3.4.2-1.ca2004.1_all.deb Size: 2787816 MD5sum: 377100a6e2bbbb36e0b2cf6e1d481b3a SHA1: c6a521d57c9cac0b25433670fe221704d24b6cbc SHA256: 66bc01ab3a3a750780b14de02299dbe3ac9ff6908596af3d02bb3c0e86f70462 SHA512: 17b11db1871c77066e759a9ca59a5b40d5a2c35a51e833331f804ae9b44a949e07bc9f8b4899cc340abd3915ac333f0cc84902f67eb0bdd50e8322152d435e7a Homepage: https://cran.r-project.org/package=tractor.base Description: CRAN Package 'tractor.base' (Read, Manipulate and Visualise Magnetic Resonance Images) Functions for working with magnetic resonance images. Reading and writing of popular file formats (DICOM, Analyze, NIfTI-1, NIfTI-2, MGH); interactive and non-interactive visualisation; flexible image manipulation; metadata and sparse image handling. 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Package: r-cran-trade Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1967 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-antitrust Suggests: r-cran-bb, r-cran-competitiontoolbox, r-cran-rmarkdown, r-cran-bookdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-trade_0.8.1-1.ca2004.1_all.deb Size: 820248 MD5sum: 5bea5027126298768f4cf2b1c689efb2 SHA1: f64f87fa08727aa725d1507847583b4d82cdbbbd SHA256: e4d4acce995b4c6b315fda49f1a2336e73769fbb0a8c6f2123c74d1494743dee SHA512: e19759e4c218448cf8a50f41bcb85dceedbe2195f1a9170c1d5ffa7e09126cd793eeb5f897a3a71fec592e1655a9bd92f378329c11a20629b30b3472bcbd8804 Homepage: https://cran.r-project.org/package=trade Description: CRAN Package 'trade' (Tools for Trade Practitioners) A collection of tools for trade practitioners, including the ability to calibrate different consumer demand systems and simulate the effects of tariffs and quotas under different competitive regimes. 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This package aims at choosing the best model for a particular dataset, regarding its discriminant power and runtime. Package: r-cran-tradepolicy Architecture: all Version: 0.7.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1705 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magrittr, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-purrr, r-cran-fixest, r-cran-sandwich, r-cran-broom, r-cran-msm, r-cran-knitr, r-cran-formula Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-tradepolicy_0.7.0-1.ca2004.1_all.deb Size: 1483848 MD5sum: a79a6bf12166ab481131813ceef5ab10 SHA1: 3a5f0dfc933d0dd787d90237b8f8f2bd9f904718 SHA256: 9b6ca877e59a572bface0afe1070296617edd4416bc849af4b66510102892c45 SHA512: a2fcc1d9afec7096ebccd854230ba1d2f66e791bb298fc4d8b00b7b43ad17b2d7a4499fbe9e8c80c9fdf3978ac457195d962ea05f5b32d867f4ea007fb16125e Homepage: https://cran.r-project.org/package=tradepolicy Description: CRAN Package 'tradepolicy' (Replication of 'An Advanced Guide To Trade Policy Analysis') Datasets from Yotov, et al. (2016, ISBN:978-92-870-4367-2) "An Advanced Guide to Trade Policy Analysis" and functions to report regression summaries with clustered robust standard errors. Package: r-cran-trader Architecture: all Version: 1.2-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 251 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplr Filename: pool/dists/focal/main/r-cran-trader_1.2-6-1.ca2004.1_all.deb Size: 217304 MD5sum: 0c8bf17cbb2a84c45dcd7df5ab38b332 SHA1: 33d0a91e078814080c9b94d48b919c3788f79492 SHA256: 4284519c22ec0dafc72da187b743c598ba091a9e8101bad5bb33608ed8594fd5 SHA512: 9bff2883d0529a4e3472e4d5e203e14f06e5ab89b8108ade7bb6dcd1820d7aaab2d860b1c1e8cbad7e1c28d68f78eba5ff269860ffd08aad0a4f375ee4a0c30e Homepage: https://cran.r-project.org/package=TRADER Description: CRAN Package 'TRADER' (Tree Ring Analysis of Disturbance Events in R) Tree Ring Analysis of Disturbance Events in R (TRADER) package provides functions for disturbance reconstruction from tree-ring data, e.g. boundary line, absolute increase, growth averaging methods. Package: r-cran-tradestatistics Architecture: all Version: 5.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 435 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-crul, r-cran-data.table, r-cran-digest, r-cran-jsonlite, r-cran-memoise Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-tibble, r-cran-vcr Filename: pool/dists/focal/main/r-cran-tradestatistics_5.0.0-1.ca2004.1_all.deb Size: 354576 MD5sum: 575eebb4b3d93146f2197eda488e6037 SHA1: 7e14e329ef6b6e07625de47a1510ac149779ec1a SHA256: 9efd1d02410bf853d4f5dd58ca5b86efb17f52d9ecbad896a9fedad75f5a1b5a SHA512: e68e89c72e317b843d2ec182a0ce5df6fc7d4741779b712fa6d8f77147d3f7146879ce08d0823f91ae12af4c05955cc5afb4bbae99e1d802f400e110eb6c78e8 Homepage: https://cran.r-project.org/package=tradestatistics Description: CRAN Package 'tradestatistics' (Open Trade Statistics API Wrapper and Utility Program) Access 'Open Trade Statistics' API from R to download international trade data. Package: r-cran-trading Architecture: all Version: 3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1132 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-reticulate, r-cran-performanceanalytics, r-cran-data.table, r-cran-ggplot2, r-cran-readxl, r-cran-rcppalgos Filename: pool/dists/focal/main/r-cran-trading_3.2-1.ca2004.1_all.deb Size: 712756 MD5sum: 5c76048e360710aa0edf135b89882465 SHA1: a2c69219b858b83da5d55764a83eecf4cafe15d9 SHA256: bfd1bf9befcd9e90798f2dfbf913700595a51be01aec36f6ca09fb4554235f57 SHA512: 1539c0b5b85f01a3430ee96e83e59388ff17ab07f85ff37992ae83cdd8d2620799da9ac01017babe0559a05f26713cddcf773cc292bd453c56b0480a57a585ca Homepage: https://cran.r-project.org/package=Trading Description: CRAN Package 'Trading' (Trade Objects, Advanced Correlation & Beta Estimates, BettingStrategies) Contains performance analysis metrics of track records including entropy-based correlation and dynamic beta based on a state/space algorithm. The normalized sample entropy method has been implemented which produces accurate entropy estimation even on smaller datasets. On a separate stream, trades from the five major assets classes and also functionality to use pricing curves, rating tables, Credit Support Annex and add-on tables. The implementation follows an object oriented logic whereby each trade inherits from more abstract classes while also the curves/tables are objects. Furthermore, odds calculators and P&L back-testing functionality has been implemented for the most widely used betting/trading strategies including martingale, 'DAlembert', 'Labouchere' and Fibonacci. Back testing has also been included for the 'EuroMillions', the 'EuroJackpot', the UK Lotto, the Set For Life and the UK 'ThunderBall' lotteries. Furthermore, some basic functionality about climate risk has been included. Package: r-cran-trafficbde Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 122 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-data.table, r-cran-descriptivestats.obeu, r-cran-dplyr, r-cran-lubridate, r-cran-rcurl, r-cran-zoo Suggests: r-cran-devtools, r-cran-knitr, r-cran-neuralnet, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-trafficbde_0.1.2-1.ca2004.1_all.deb Size: 57856 MD5sum: 78556a12740b1664972d485afecbe32f SHA1: 9177f8cb1d10dca6106061c77004b09e41889642 SHA256: 72426e1b3c7579f08b6350077070c99808280462656f5c27669768b4651fc292 SHA512: a4512cb80ff766019cd91951bdcd0b6b8b45b191a874d7d9c0731eb3a11aea75cdf7da07dbc2f7d3acfc0a6d4b4a83d628033f594f72b426447c39ea538c1f67 Homepage: https://cran.r-project.org/package=TrafficBDE Description: CRAN Package 'TrafficBDE' (Traffic Predictions Using Neural Networks) Estimate and return either the traffic speed or the car entries in the city of Thessaloniki using historical traffic data. It's used in transport pilot of the 'BigDataEurope' project. There are functions for processing these data, training a neural network, select the most appropriate model and predict the traffic speed or the car entries for a selected time date. Package: r-cran-trafo Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 738 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fnn, r-cran-moments, r-cran-pryr, r-cran-lmtest Suggests: r-cran-testthat, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-trafo_1.0.1-1.ca2004.1_all.deb Size: 697640 MD5sum: 947c678926c80f7aa2acb11c1a672a7e SHA1: 5e6a16c0aaf9d8441b2f660ab6471f979ef5a8d2 SHA256: a2abf32eb629bf8de7a212b35b509c314159180d036bbac32e1f8b67df507d78 SHA512: 49b7dde48f6c6b72b20c7d1b2bcae468f533e8afb09b2b58226726207ab430e0ea1b5c340b00728d17f7e289560f74a4d88c5ce5c203f1f47aab585640c0c2bf Homepage: https://cran.r-project.org/package=trafo Description: CRAN Package 'trafo' (Estimation, Comparison and Selection of Transformations) Estimation, selection and comparison of several families of transformations. The families of transformations included in the package are the following: Bickel-Doksum (Bickel and Doksum 1981 ), Box-Cox, Dual (Yang 2006 ), Glog (Durbin et al. 2002 ), gpower (Kelmansky et al. 2013 ), Log, Log-shift opt (Feng et al. 2016 ), Manly, modulus (John and Draper 1980 ), Neglog (Whittaker et al. 2005 ), Reciprocal and Yeo-Johnson. The package simplifies to compare linear models with untransformed and transformed dependent variable as well as linear models where the dependent variable is transformed with different transformations. Furthermore, the package employs maximum likelihood approaches, moments optimization and divergence minimization to estimate the optimal transformation parameter. Package: r-cran-trainer Architecture: all Version: 2.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 240 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-neuralnet, r-cran-rpart, r-cran-xgboost, r-cran-randomforest, r-cran-e1071, r-cran-kknn, r-cran-dplyr, r-cran-mass, r-cran-ada, r-cran-nnet, r-cran-stringr, r-cran-adabag, r-cran-glmnet, r-cran-rocr, r-cran-gbm, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-trainer_2.2.2-1.ca2004.1_all.deb Size: 202040 MD5sum: 3b8174260b57d28ce0652b5d70ee63bd SHA1: c3010a5c3c4e03f0513725e68f2bbad48477d02d SHA256: ba43b1661e2ad508f65a7eb6b18e71f6c90d35833d6596ecebcc603aca007b4a SHA512: 79ae2e585ec6c7f8cfaf7bbab2de882f48a139c86377b250c5b400be0b90a53dbfe10881cdd4c18aa05b9137b852eb7b7c43e66ff9d5f27ecc63a450b20a25da Homepage: https://cran.r-project.org/package=traineR Description: CRAN Package 'traineR' (Predictive (Classification and Regression) Models Homologator) Methods to unify the different ways of creating predictive models and their different predictive formats for classification and regression. It includes methods such as K-Nearest Neighbors Schliep, K. P. (2004) , Decision Trees Leo Breiman, Jerome H. Friedman, Richard A. Olshen, Charles J. Stone (2017) , ADA Boosting Esteban Alfaro, Matias Gamez, Noelia García (2013) , Extreme Gradient Boosting Chen & Guestrin (2016) , Random Forest Breiman (2001) , Neural Networks Venables, W. N., & Ripley, B. D. (2002) , Support Vector Machines Bennett, K. P. & Campbell, C. (2000) , Bayesian Methods Gelman, A., Carlin, J. B., Stern, H. S., & Rubin, D. B. (1995) , Linear Discriminant Analysis Venables, W. N., & Ripley, B. D. (2002) , Quadratic Discriminant Analysis Venables, W. N., & Ripley, B. D. (2002) , Logistic Regression Dobson, A. J., & Barnett, A. G. (2018) and Penalized Logistic Regression Friedman, J. H., Hastie, T., & Tibshirani, R. (2010) . 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There are few data feeds available, the simplest of them is Darwin, which provides real-time arrival and departure predictions, platform numbers, delay estimates, schedule changes and cancellations. Other data feeds provide historical data, Historic Service Performance (HSP), and much more. 'trainR' simplifies the data retrieval, so that the users can focus on their analyses. For more details visit . 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Based on the approach described in "Marginal Structural Models with Latent Class Growth Analysis of Treatment Trajectories" Diop, A., Sirois, C., Guertin, J.R., Schnitzer, M.E., Candas, B., Cossette, B., Poirier, P., Brophy, J., Mésidor, M., Blais, C. and Hamel, D., (2023) . Package: r-cran-trajr Architecture: all Version: 1.5.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1422 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-signal, r-cran-plotrix Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-readr, r-cran-sp, r-cran-mass, r-cran-covr Filename: pool/dists/focal/main/r-cran-trajr_1.5.1-1.ca2004.1_all.deb Size: 671128 MD5sum: 6c908ec228c4034fbf3764dc5081fd98 SHA1: 2f3d405b09feb4057b042fde7b1f1eb5164d3cf4 SHA256: f10475b6f04f7225e43972af609d0d186e0def41dfa777e0f7ecad7198ea5bd7 SHA512: 798a1b8d95652c8b8771713fa492556a5a97bb5f32af1e47f1b176ac782cce317b697635a58b6f2c924ac4fb2280d0105cc73eea0c68ce323bf43631c019c71d Homepage: https://cran.r-project.org/package=trajr Description: CRAN Package 'trajr' (Animal Trajectory Analysis) A toolbox to assist with statistical analysis of animal trajectories. It provides simple access to algorithms for calculating and assessing a variety of characteristics such as speed and acceleration, as well as multiple measures of straightness or tortuosity. Some support is provided for 3-dimensional trajectories. McLean & Skowron Volponi (2018) . 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Available models include Cox models, some parametric survival models (Weibull, etc.), models for ordered categorical variables, normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression (Lohse et al., 2017, ). The underlying theory is described in Hothorn et al. (2018) . An extension to transformation models for clustered data is provided (Barbanti and Hothorn, 2022, ). Multivariate conditional transformation models (Klein et al, 2022, ) and shift-scale transformation models (Siegfried et al, 2023, ) can be fitted as well. The package contains an implementation of a doubly robust score test, described in Kook et al. (2024, ). 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Available models include a fully parametric version of the Cox model, other parametric survival models (Weibull, etc.), models for binary and ordered categorical variables, normal and transformed-normal (Box-Cox type) linear models, and continuous outcome logistic regression. Hyperparameter tuning is facilitated through model-based optimization functionalities from package 'mlrMBO'. The accompanying vignette describes the methodology used in 'tramnet' in detail. Transformation models and model-based optimization are described in Hothorn et al. (2019) and Bischl et al. (2016) , respectively. 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Package: r-cran-trampr Architecture: all Version: 1.0-10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 652 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-trampr_1.0-10-1.ca2004.1_all.deb Size: 480324 MD5sum: fc227a00e6603f8ceec96a4404996a56 SHA1: 22df4320eebeb5374d0f62a10e2eff789b249016 SHA256: f344842d6bb765c77e2b5a545cbd1848ea4fbeed8dd3093c18c20b354ca1f136 SHA512: f28096a7fd9a4840c206695e1d7082ac41dbe9205adab63797a3faef896ea456387f0f005cd73054f89b5adea724990a420434946ec3e4bd98531862015840d2 Homepage: https://cran.r-project.org/package=TRAMPR Description: CRAN Package 'TRAMPR' ('TRFLP' Analysis and Matching Package for R) Matching terminal restriction fragment length polymorphism ('TRFLP') profiles between unknown samples and a database of known samples. 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Applicable to models from packages 'tram' and 'cotram'. Application to shift-scale transformation models are described in Siegfried et al. (2024, ). Package: r-cran-transcriber Architecture: all Version: 0.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 86 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-transcriber_0.0.0-1.ca2004.1_all.deb Size: 30816 MD5sum: 2b3350a2c64a0c331c7604304d818613 SHA1: 235379967259d2641265f1e28219af924127a9aa SHA256: b91296ec610bf6682be82ae5ac6b34f37b134c8522e70106d447e3857d2ca00b SHA512: 753a7c426e8c1b5c85075fa62a2571a7c52e8090d3f9291c4b88fae869a429ca55c9565634c22ed1957c912d31f0f04c1ddd346759f6748efa7a1a4eedd4fb2f Homepage: https://cran.r-project.org/package=transcribeR Description: CRAN Package 'transcribeR' (Automated Transcription of Audio Files Through the HP IDOL API) Transcribes audio to text with the HP IDOL API. Includes functions to upload files, retrieve transcriptions, and monitor jobs. Package: r-cran-transda Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 102 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-transda_1.0.1-1.ca2004.1_all.deb Size: 70196 MD5sum: 3e2ec3f289ad8c33ccdf3c108644e113 SHA1: a6876ac54b050899b58bb735bc270132bc74f957 SHA256: 6b20e75db0acea1e99c0606d6427336ce55a5bd8809840667ce48a70d36f549f SHA512: c0c5f678e29681b58b495cace3f0ca7955bd020d0965cae6042a962ce97cfbe0934fb21a4e91300ae4f0becda209dfeb7a73732e72db19275e922aee494c4867 Homepage: https://cran.r-project.org/package=transDA Description: CRAN Package 'transDA' (Transformation Discriminant Analysis) Performs transformation discrimination analysis and non-transformation discrimination analysis. 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The default text pipeline is Cross-Encoder's DistilRoBERTa and default image/video pipeline is Open AI's CLIP . All other zero-shot classification model pipelines can be implemented using their model name from . Package: r-cran-transform.hazards Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 235 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-timereg, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-transform.hazards_0.1.1-1.ca2004.1_all.deb Size: 62844 MD5sum: fd4ff20d5564e6a078f2dcaca2dd3d16 SHA1: 62e2b1fa966eed9eee572e62d4f0076a2658b51e SHA256: ee914f6007f8e4d0340e5fbc418a3a4bc1a7e0dde2785505668070ea4b6708c0 SHA512: c2d4ea8cdf7d14a01d6f4dfbbe489f8afd9a3814ffbd4b837f85304023c9b6dcb77d1d033814b611a889f8f94e3eafde1a552988585b7829a7f52d77777f9412 Homepage: https://cran.r-project.org/package=transform.hazards Description: CRAN Package 'transform.hazards' (Transforms Cumulative Hazards to Parameter Specified by ODESystem) Targets parameters that solve Ordinary Differential Equations (ODEs) driven by a vector of cumulative hazard functions. The package provides a method for estimating these parameters using an estimator defined by a corresponding Stochastic Differential Equation (SDE) system driven by cumulative hazard estimates. By providing cumulative hazard estimates as input, the package gives estimates of the parameter as output, along with pointwise (co)variances derived from an asymptotic expression. Examples of parameters that can be targeted in this way include the survival function, the restricted mean survival function, cumulative incidence functions, among others; see Ryalen, Stensrud, and Røysland (2018) , and further applications in Stensrud, Røysland, and Ryalen (2019) and Ryalen et al. (2021) . Package: r-cran-transform Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-transform_1.0-1.ca2004.1_all.deb Size: 102140 MD5sum: c7c8fd83c18198f6517b2e4d84366602 SHA1: 5f787ec370c38fda4e9c90f27f229500355b8636 SHA256: 8331e7997029c71ec179abed11d34aabd4c143fb66b2534566ab006c7f9aeed8 SHA512: f45adc05883b4ee9325fb2e4fbdc931440660d262ae48836ee8decefaf44fcfa26909732ff88bbb56f39d9d965f57b6024903748b76133bf4e22c0252e47fcb5 Homepage: https://cran.r-project.org/package=Transform Description: CRAN Package 'Transform' (Statistical Transformations) Performs various statistical transformations; Box-Cox and Log (Box and Cox, 1964) , Glog (Durbin et al., 2002) , Neglog (Whittaker et al., 2005) , Reciprocal (Tukey, 1957), Log Shift (Feng et al., 2016) , Bickel-Docksum (Bickel and Doksum, 1981) , Yeo-Johnson (Yeo and Johnson, 2000) , Square Root (Medina et al., 2019), Manly (Manly, 1976) , Modulus (John and Draper, 1980) , Dual (Yang, 2006) , Gpower (Kelmansky et al., 2013) . It also performs graphical approaches, assesses the success of the transformation via tests and plots. Package: r-cran-transformer Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-attention Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-transformer_0.2.0-1.ca2004.1_all.deb Size: 21324 MD5sum: 06d72186842350ee2fe5a58dc75b5c94 SHA1: e298d2db33466382d0a83e237fef93e141836762 SHA256: a4da45842d1657fc000a16ed2d7b9473c2237195568082a5b3c70fa329819f5b SHA512: f421d4671f02b9970c44a2a58b950848c71f4fa65935d274846878882d41a450a274cc523267676d58e36130b1dedf93e6d45aa3e2df2aff6c72a7b427760bd2 Homepage: https://cran.r-project.org/package=transformer Description: CRAN Package 'transformer' (Implementation of Transformer Deep Neural Network with Vignettes) Transformer is a Deep Neural Network Architecture based i.a. on the Attention mechanism (Vaswani et al. (2017) ). Package: r-cran-transformerforecasting Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-keras, r-cran-tensorflow, r-cran-magrittr, r-cran-reticulate Suggests: r-cran-dplyr, r-cran-knitr, r-cran-lubridate, r-cran-readr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-transformerforecasting_0.1.0-1.ca2004.1_all.deb Size: 69760 MD5sum: 9913fd54f46acca9d05302628fd529d1 SHA1: 5435390bd77f2ac5c019023e776ff154010b8b02 SHA256: 8aa2276ad0b289d868b8585bfe091d16451fcbc03805893b81b357418a3fe197 SHA512: 06c1412d0065f2109c1100da0d87811fdd02b383f57b6fdff42ed38654b62f27cd8bf18da2d47189061735dc7cba935fbc4088d3bbd7c35852dfca25da553471 Homepage: https://cran.r-project.org/package=transformerForecasting Description: CRAN Package 'transformerForecasting' (Transformer Deep Learning Model for Time Series Forecasting) Time series forecasting faces challenges due to the non-stationarity, nonlinearity, and chaotic nature of the data. Traditional deep learning models like Recurrent Neural Network (RNN), Long Short-Term Memory (LSTM), and Gated Recurrent Unit (GRU) process data sequentially but are inefficient for long sequences. To overcome the limitations of these models, we proposed a transformer-based deep learning architecture utilizing an attention mechanism for parallel processing, enhancing prediction accuracy and efficiency. This paper presents user-friendly code for the implementation of the proposed transformer-based deep learning architecture utilizing an attention mechanism for parallel processing. References: Nayak et al. (2024) and Nayak et al. (2024) . Package: r-cran-transformmos Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-transformmos_0.1.0-1.ca2004.1_all.deb Size: 15524 MD5sum: 8097358f1a9412e80187645461fc22c0 SHA1: 4ae505d04bd86d6acf3d1e8a52e0a05e567c552a SHA256: 57c5d8e74ff15efb6d37f9c5b04144a46f14ec6dba3758fb46828b6f156478d9 SHA512: 6c8059a0ee03e5c439bcb8a4eb17b8aea02dbe850140bdd51d4086692f4c70e2f9c45fb8743babec24b46abda3f3db0ec51c5b591c27c2098a9a6aefbc8cd4c2 Homepage: https://cran.r-project.org/package=transformmos Description: CRAN Package 'transformmos' (Transform MOS Values to be Robust for using Rank BasedStatistics) Implementation of the transformation of the Mean Opinion Scores (MOS) to be used before applying the rank based statistical techniques. The method and its necessity is described in: Babak Naderi, Sebastian Möller (2020) . Package: r-cran-transgraph Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1210 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mass, r-cran-rtensor, r-cran-tlasso, r-cran-glasso, r-cran-clime, r-cran-doparallel, r-cran-expm, r-cran-heteroggm, r-cran-dcov, r-cran-huge, r-cran-evaluationmeasures Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-transgraph_1.0.1-1.ca2004.1_all.deb Size: 668492 MD5sum: 5f31e5009d6b488630f1a4a4d5b0ff26 SHA1: 31849bade4858d555ff8eea4860f3faa7b0b4c05 SHA256: 1c264429eea2b093a5995cf883fcc1c4ad9054a377dd02c5f2f9272002be13db SHA512: 0b62e73725f8b0070eba35570708380423b082711348b01733f1b3a98d627c9e4a421135c396e1d1def836a0730507810c6ad6e0e236e031e6fd56d20f34312f Homepage: https://cran.r-project.org/package=TransGraph Description: CRAN Package 'TransGraph' (Transfer Graph Learning) Transfer learning, aiming to use auxiliary domains to help improve learning of the target domain of interest when multiple heterogeneous datasets are available, has always been a hot topic in statistical machine learning. The recent transfer learning methods with statistical guarantees mainly focus on the overall parameter transfer for supervised models in the ideal case with the informative auxiliary domains with overall similarity. In contrast, transfer learning for unsupervised graph learning is in its infancy and largely follows the idea of overall parameter transfer as for supervised learning. In this package, the transfer learning for several complex graphical models is implemented, including Tensor Gaussian graphical models, non-Gaussian directed acyclic graph (DAG), and Gaussian graphical mixture models. Notably, this package promotes local transfer at node-level and subgroup-level in DAG structural learning and Gaussian graphical mixture models, respectively, which are more flexible and robust than the existing overall parameter transfer. As by-products, transfer learning for undirected graphical model (precision matrix) via D-trace loss, transfer learning for mean vector estimation, and single non-Gaussian learning via topological layer method are also included in this package. Moreover, the aggregation of auxiliary information is an important issue in transfer learning, and this package provides multiple user-friendly aggregation methods, including sample weighting, similarity weighting, and most informative selection. Reference: Ren, M., Zhen Y., and Wang J. (2022) "Transfer learning for tensor graphical models". Ren, M., He X., and Wang J. (2023) "Structural transfer learning of non-Gaussian DAG". Zhao, R., He X., and Wang J. (2022) "Learning linear non-Gaussian directed acyclic graph with diverging number of nodes". 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Package: r-cran-translation.ko Architecture: all Version: 0.0.1.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2080 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-translation.ko_0.0.1.5.2-1.ca2004.1_all.deb Size: 497148 MD5sum: 00e41d6c20ccba5a05cbb9a62b65b735 SHA1: c061fd1864187d02f12af23bd1c160cef8800570 SHA256: 9e7df20f9f7d54c808d1965c83120831ee81fd67c634c4a5bca0558b70603b73 SHA512: 2a23df1701658142635238f4c580aac2c682c7bb136430e36bae1c517d924fa3a2afedd3768adce2988a6625a2c07e4fd531033553ad5c5de46bb007c240fbfd Homepage: https://cran.r-project.org/package=translation.ko Description: CRAN Package 'translation.ko' (R Manuals Literally Translated in Korean) R version 2.1.0 and later support Korean translations of program messages. The continuous efforts have been made by The R Documentation files are licensed under the General Public License, version 2 or 3. This means that the pilot project to translate them into Korean has permission to reproduce them and translate them. This work is done with GNU 'gettext' utilities. The portable object template is updated a weekly basis or whenever changes are necessary. Comments and corrections via email to the maintainer is of course most welcome. In order to voluntarily participate in or offer your help with this translation, please contact the maintainer. To check the change and progress of Korean translation, please visit . 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'traumar' provides robust functions driven by the academic literature to automate the calculation of relevant metrics to individuals desiring to measure the performance of their trauma center or even a trauma system. 'traumar' also provides some helper functions for the data analysis journey. Users can refer to the following publications for descriptions of the methods used in 'traumar'. TRISS methodology, including probability of survival, and the W, M, and Z Scores - Flora (1978) , Boyd et al. (1987, PMID:3106646), Llullaku et al. (2009) , Singh et al. (2011) , Baker et al. (1974, PMID:4814394), and Champion et al. (1989) . For the Relative Mortality Metric, see Napoli et al. (2017) , Schroeder et al. (2019) , and Kassar et al. (2016) . For more information about methods to calculate over- and under-triage in trauma hospital populations and samples, please see the following publications - Peng & Xiang (2016) , Beam et al. (2022) , Roden-Foreman et al. (2017) . 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It focuses on the construction and calculation of the parametric value of the residual effect designs balanced for carryover effects, also referred to as crossover designs, change-over designs, or repeated measurements designs (Aggarwal and Jha, 2010). The primary objective of the package is to generate a new class of Balanced Ternary Residual Effect Designs (BTREDs), balanced for carryover effects tailored explicitly for situations where the number of periods is less than or equal to the number of treatments. In addition, the package provides four new classes of Partially Balanced Ternary Residual Effect Designs (PBTREDs), constructed using incomplete block designs, initial sequences, and rectangular association scheme. In addition, one extra function is included to help study the parametric properties of a given residual effect design. 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Package: r-cran-treedata.table Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2334 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lazyeval, r-cran-ape, r-cran-geiger, r-cran-data.table Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-treedata.table_0.1.0-1.ca2004.1_all.deb Size: 1630984 MD5sum: fadeba78a3b7b8116115dd44ea134a71 SHA1: a9f08b2698c3d29b93513ff011991a69172a479e SHA256: 4eed9c819f5027ba186d2f026b9a431eb1f49a8b569d5c77808f7221541fa857 SHA512: a655c6471d90d4e1f7afdb161a15a7476ddad278fe8793f93a21922b01679d4127115f4d9e5248a371fa3212f89ee05eb851f3ce406faac6c6068e04479840a8 Homepage: https://cran.r-project.org/package=treedata.table Description: CRAN Package 'treedata.table' (Manipulation of Matched Phylogenies and Data using 'data.table') An implementation that combines trait data and a phylogenetic tree (or trees) into a single object of class treedata.table. The resulting object can be easily manipulated to simultaneously change the trait- and tree-level sampling. Currently implemented functions allow users to use a 'data.table' syntax when performing operations on the trait dataset within the treedata.table object. Package: r-cran-treedater Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 361 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-limsolve Suggests: r-cran-lubridate, r-cran-ggplot2, r-cran-foreach, r-cran-iterators, r-cran-mgcv, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-treedater_0.5.0-1.ca2004.1_all.deb Size: 220464 MD5sum: 0902a17d6dd9da7226629ceac809fa2f SHA1: a15bc0706a52da29db9b55d1be2965fde7ea2b34 SHA256: da41ff9d7c7769fc778454b4f68566fa31d31fc1aa290a11c695d6080d0b1c1f SHA512: 36ce10c6c0f672d37ab0aeee26d0f52f9b0771049e5f025aabe7b4efb4abf7f7f7970bba988df48c14e577033362cd2b1c4d668953c0b6ecd29f0110e2255e5d Homepage: https://cran.r-project.org/package=treedater Description: CRAN Package 'treedater' (Fast Molecular Clock Dating of Phylogenetic Trees with RateVariation) Functions for estimating times of common ancestry and molecular clock rates of evolution using a variety of evolutionary models, parametric and nonparametric bootstrap confidence intervals, methods for detecting outlier lineages, root-to-tip regression, and a statistical test for selecting molecular clock models. The methods are described in Volz, E.M. and S.D.W. Frost (2017) . Package: r-cran-treedbalance Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 211 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-rgl Filename: pool/dists/focal/main/r-cran-treedbalance_1.0.1-1.ca2004.1_all.deb Size: 176812 MD5sum: f1fdc1551126f92f83c261bb5a6f3cf9 SHA1: d3030286a9f29c3eef824e6c90273f891a8f480f SHA256: 93af6b4ff7ca0917e4874ff640ea7332a85cfdf90ed7257b44f990eeefedadbf SHA512: f2dacc01fec3fe953022186a38fa81a38889bac56d7a8c4317460b0e678de3f3abfe51efb0288d3aaca256e094569e70fe8a518190c9e9c015d7257acc09cca3 Homepage: https://cran.r-project.org/package=treeDbalance Description: CRAN Package 'treeDbalance' (Computation of 3D Tree Imbalance) The main goal of the R package 'treeDbalance' is to provide functions for the computation of several measurements of 3D node imbalance and their respective 3D tree imbalance indices, as well as to introduce the new 'phylo3D' format for rooted 3D tree objects. Moreover, it encompasses an example dataset of 3D models of 63 beans in 'phylo3D' format. Please note that this R package was developed alongside the project described in the manuscript 'Measuring 3D tree imbalance of plant models using graph-theoretical approaches' by M. Fischer, S. Kersting, and L. Kühn (2023) , which provides precise mathematical definitions of the measurements. Furthermore, the package contains several helpful functions, for example, some auxiliary functions for computing the ancestors, descendants, and depths of the nodes, which ensures that the computations can be done in linear time. Most functions of 'treeDbalance' require as input a rooted tree in the 'phylo3D' format, an extended 'phylo' format (as introduced in the R package 'ape' 1.9 in November 2006). Such a 'phylo3D' object must have at least two new attributes next to those required by the 'phylo' format: 'node.coord', the coordinates of the nodes, as well as 'edge.weight', the literal weight or volume of the edges. Optional attributes are 'edge.diam', the diameter of the edges, and 'edge.length', the length of the edges. For visualization purposes one can also specify 'edge.type', which ranges from normal cylinder to bud to leaf, as well as 'edge.color' to change the color of the edge depiction. This project was supported by the joint research project DIG-IT! funded by the European Social Fund (ESF), reference: ESF/14-BM-A55-0017/19, and the Ministry of Education, Science and Culture of Mecklenburg-Western Pomerania, Germany, as well as by the the project ArtIGROW, which is a part of the WIR!-Alliance 'ArtIFARM – Artificial Intelligence in Farming' funded by the German Federal Ministry of Education and Research (FKZ: 03WIR4805). Package: r-cran-treedep Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 384 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lubridate, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-treedep_0.1.3-1.ca2004.1_all.deb Size: 282276 MD5sum: f5332c769c9066e0836c0f19bb4ce025 SHA1: 8a46f507658a33eb582b21d66ea7e4f12bd27b91 SHA256: 19086ee0f64616828314ed54ebfcfeb366bc8896428dff7d7fd2adc16e1db545 SHA512: 042644586a8be97e60d44d8b8e5a1aad77168e79f9c29baae0661abac12cb399ab1541fc1414ac66545ad8ba09ac2f48c2f8bae16956e5cc7b31bef2ae0477fa Homepage: https://cran.r-project.org/package=TreeDep Description: CRAN Package 'TreeDep' (Air Pollution Removal by Dry Deposition on Trees) The model estimates air pollution removal by dry deposition on trees. It also estimates or uses hourly values for aerodynamic resistance, boundary layer resistance, canopy resistance, stomatal resistance, cuticular resistance, mesophyll resistance, soil resistance, friction velocity and deposition velocity. It also allows plotting graphical results for a specific time period. The pollutants are nitrogen dioxide, ozone, sulphur dioxide, carbon monoxide and particulate matter. Baldocchi D (1994) . Farquhar GD, von Caemmerer S, Berry JA (1980) Planta 149: 78-90. Hirabayashi S, Kroll CN, Nowak DJ (2015) i-Tree Eco Dry Deposition Model. Nowak DJ, Crane DE, Stevens JC (2006) . US EPA (1999) PCRAMMET User's Guide. EPA-454/B-96-001. Weiss A, Norman JM (1985) Agricultural and Forest Meteorology 34: 205—213. Package: r-cran-treediagram Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-ape, r-cran-cowplot, r-cran-tree, r-cran-stringr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-treediagram_0.1.1-1.ca2004.1_all.deb Size: 51544 MD5sum: 33e974cb50f337e15af04902385699b5 SHA1: 9b7584c4263f00e9aafe533f9d8bf327a7bdeac4 SHA256: ad1446021c64a28d7ee010d953d798b1061258f5da485b77b101c961d97ffc87 SHA512: d9c41c6ee5b1c50646da518b4954384f266f136e4a23dfb7214322838e2ab803b6661b440920ca79acc83528a8c6bc9b74fc2ba2aa8060dca6c15fd7baa99c6f Homepage: https://cran.r-project.org/package=TreeDiagram Description: CRAN Package 'TreeDiagram' (Tree Diagram) Visualizing cuts for either axis-align or non axis-align tree methods (e.g. decision tree, random tessellation process). 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Package: r-cran-treeheatr Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1925 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggparty, r-cran-ggplot2, r-cran-partykit, r-cran-dplyr, r-cran-ggnewscale, r-cran-gtable, r-cran-tidyr, r-cran-cluster, r-cran-yardstick, r-cran-seriation Suggests: r-cran-forcats, r-cran-knitr, r-cran-rmarkdown, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-treeheatr_0.2.1-1.ca2004.1_all.deb Size: 1347808 MD5sum: 829a2592801df1cdbfb434ee5ef140b9 SHA1: 4c868b785a4116acd117adbd4e1bb7da95c989bf SHA256: 1e0d7341dec1e7a46c3452a3b890da2ad6a3700ab848d6eb64e97fe0bb582af7 SHA512: 2babff37bf1f57d3be605eea0d5584b6eb981e0705cff2fb2cfbce12a8bee78920eac6a0c8499ae3962d8ec9a5b0b15b8bbfc46889d032d449e6380a4adcbf13 Homepage: https://cran.r-project.org/package=treeheatr Description: CRAN Package 'treeheatr' (Heatmap-Integrated Decision Tree Visualizations) Creates interpretable decision tree visualizations with the data represented as a heatmap at the tree's leaf nodes. 'treeheatr' utilizes the customizable 'ggparty' package for drawing decision trees. Package: r-cran-treelet Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-treelet_1.1-1.ca2004.1_all.deb Size: 48528 MD5sum: 22bf2cfc5e37e58c5b16d7b900c33829 SHA1: 60edb66450d247551d7f7ba8c2c72cbf5b0ceb53 SHA256: 09bd37512956a79cd0417bedf385ec2406e70677bdd2395e32193da97c571232 SHA512: 095526b19813f8e289da12b07d81f11455acbc3b0d1771bf4ba0a47802d07c6b04cb08da8cc13d51ece6746f4f0cc7b664fe3a1b311df6a0b68dd9a8bb43ce08 Homepage: https://cran.r-project.org/package=treelet Description: CRAN Package 'treelet' (An Adaptive Multi-Scale Basis for High-Dimensional, Sparse andUnordered Data) Treelets provides a novel construction of multi-scale bases that extends wavelets to non-smooth signals. It returns a multi-scale orthonormal basis, where the final computed basis functions are supported on nested clusters in a hierarchical tree. Both the tree and the basis, which are constructed simultaneously, reflect the internal structure of the data. Package: r-cran-treemap Architecture: all Version: 2.4-4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 410 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-colorspace, r-cran-data.table, r-cran-ggplot2, r-cran-gridbase, r-cran-igraph, r-cran-rcolorbrewer, r-cran-shiny Suggests: r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-treemap_2.4-4-1.ca2004.1_all.deb Size: 322932 MD5sum: 1943326813d759782ac3dae52a1bab84 SHA1: eb2a19d65ae80294d7c66b9329a2ee21bb0f4284 SHA256: 8a1d71559023faf468914bc5db10c3dccc041d3669f6b6a456e34d9fbe739b70 SHA512: f93e0d9dfee78611d7f679e1bf5a9da22c9045ad9b795956e42c90651ab93c417d5a023f3e9fa721f000415d03198437d4b4aa7a7508476cec1e2e749d6b1eb6 Homepage: https://cran.r-project.org/package=treemap Description: CRAN Package 'treemap' (Treemap Visualization) A treemap is a space-filling visualization of hierarchical structures. This package offers great flexibility to draw treemaps. Package: r-cran-treemapify Architecture: all Version: 2.5.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 663 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-ggfittext, r-cran-cli Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr, r-cran-spelling Filename: pool/dists/focal/main/r-cran-treemapify_2.5.6-1.ca2004.1_all.deb Size: 544448 MD5sum: 4e79ca7eb5160c33a5618a27189cd2a2 SHA1: 9a7889bafc68f558139b30347681885219b66bb9 SHA256: 3e108f1dcb36d681786518307d47cd7d0bfe1784505b0a8399da838c75abc6de SHA512: 6d54ef10d0bc5c3b002898fd76d075d33d733f3387a5f2eba13274d23f06bfcb050c557beb7096d3bc653c8769077d758bc916dd2cde571d833ba93cb45fe5af Homepage: https://cran.r-project.org/package=treemapify Description: CRAN Package 'treemapify' (Draw Treemaps in 'ggplot2') Provides 'ggplot2' geoms for drawing treemaps. Package: r-cran-treeminer Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 890 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-future, r-cran-future.apply, r-cran-cli Suggests: r-cran-testthat, r-cran-tidyr, r-cran-comorbidity, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-treeminer_1.0.3-1.ca2004.1_all.deb Size: 731800 MD5sum: e452c8d629c8e533ff8b1c5ecf4d5463 SHA1: a3cf56d4ae16eb2576e6531a39b00a019ce95b9e SHA256: 704238ad8cc1c4e37458e861f5bb2ce12397e93c90dd1f74b25749d1f52422fc SHA512: 47a324fc66ee908fc06d175346c2e62a8ec2e108aeb7be24d4e053ae9ab231df59725392dd7be55df52d9fdabb1bf5f66eae076c601ae0f62e1e7eaf1e13258b Homepage: https://cran.r-project.org/package=TreeMineR Description: CRAN Package 'TreeMineR' (Tree-Based Scan Statistics) Implementation of unconditional Bernoulli Scan Statistic developed by Kulldorff et al. (2003) for hierarchical tree structures. Tree-based Scan Statistics are an exploratory method to identify event clusters across the space of a hierarchical tree. Package: r-cran-treepar Architecture: all Version: 3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 210 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-matrix, r-cran-subplex, r-cran-treesim, r-cran-desolve Filename: pool/dists/focal/main/r-cran-treepar_3.3-1.ca2004.1_all.deb Size: 181084 MD5sum: e85d5cbddc834312f7fed463fd65ea02 SHA1: 247e7fadc44ab09ebf6ee60368b07f7c3af11b2d SHA256: 673f3dd9387f7b0c42628487a8bb9177d00865fcf71c1a868ffc7e25d9a9f6c1 SHA512: 7cfe0f28bd1034d7ac481504aa18673e31e5474e55080369ea929d1d13c1e918f8d51899f88888f0094049840b6aac109e28bcd92ebea4bd33f6d1668d92efff Homepage: https://cran.r-project.org/package=TreePar Description: CRAN Package 'TreePar' (Estimating birth and death rates based on phylogenies) (i) For a given species phylogeny on present day data which is calibrated to calendar-time, a method for estimating maximum likelihood speciation and extinction processes is provided. The method allows for non-constant rates. Rates may change (1) as a function of time, i.e. rate shifts at specified times or mass extinction events (likelihood implemented as LikShifts, optimization as bd.shifts.optim and visualized as bd.shifts.plot) or (2) as a function of the number of species, i.e. density-dependence (likelihood implemented as LikDD and optimization as bd.densdep.optim) or (3) extinction rate may be a function of species age (likelihood implemented as LikAge and optimization as bd.age.optim.matlab). Note that the methods take into account the whole phylogeny, in particular it accounts for the "pull of the present" effect. (1-3) can take into account incomplete species sampling, as long as each species has the same probability of being sampled. For a given phylogeny on higher taxa (i.e. all but one species per taxa are missing), where the number of species is known within each higher taxa, speciation and extinction rates can be estimated under model (1) (implemented within LikShifts and bd.shifts.optim with groups !=0). (ii) For a given phylogeny with sequentially sampled tips, e.g. a virus phylogeny, rates can be estimated under a model where rates vary across time using bdsky.stt.optim based on likelihood LikShiftsSTT (extending LikShifts and bd.shifts.optim). Furthermore, rates may vary as a function of host types using LikTypesSTT (multitype branching process extending functions in R package diversitree). This function can furthermore calculate the likelihood under an epidemiological model where infected individuals are first exposed and then infectious. Package: r-cran-treeplotarea Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1186 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-fritools, r-cran-sf Suggests: r-cran-checkmate, r-cran-pkgload, r-cran-plotrix, r-cran-rmarkdown, r-cran-rprojroot, r-cran-runit, r-cran-testthat, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-treeplotarea_2.1.0-1.ca2004.1_all.deb Size: 1062528 MD5sum: d895997e11fa09dce920805f0fb595a5 SHA1: 4f137034863fb0f7ce3aa3a55bc03863d3567bc0 SHA256: 16c7a1ee5784d7ca4167e060dbf2bca069d2905d19669d3704a569652956a94c SHA512: 7c34e64a27f0a4948f5122de157fe54c7f124eebfad433384dc4609ca1923de766efb374efe5771426cc5d1158035d25a58b874c9a98463a193c0956daf52a1d Homepage: https://cran.r-project.org/package=treePlotArea Description: CRAN Package 'treePlotArea' (Correction Factors for Tree Plot Areas Intersected by StandBoundaries) The German national forest inventory uses angle count sampling, a sampling method first published as `Bitterlich, W.: Die Winkelzählmessung. Allgemeine Forst- und Holzwirtschaftliche Zeitung, 58. Jahrg., Folge 11/12 vom Juni 1947` and extended by Grosenbaugh () as probability proportional to size sampling. When plots are located near stand boundaries, their sizes and hence their probabilities need to be corrected. Package: r-cran-treeringshape Architecture: all Version: 3.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1167 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble, r-cran-sf Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-waldo Filename: pool/dists/focal/main/r-cran-treeringshape_3.0.5-1.ca2004.1_all.deb Size: 857864 MD5sum: 8db71a948500eb05c367fe6e767bd082 SHA1: 14fba12f92ff27bdda74e82b6d3699c72752a8df SHA256: 26ff58aa3e81217390a559d46a8f976fa18c27c3fecda1420089511570079820 SHA512: 2a80b00150a802a255fe1d1dca902e35869d73fe27a93202768be3816ecb3fccedc914598fd504759ff89b4d36633156eb9799d407709117b0b7234db2a21354 Homepage: https://cran.r-project.org/package=TreeRingShape Description: CRAN Package 'TreeRingShape' (Recording Tree-Ring Shapes of Tree Disks with Manual Digitizingand Interpolating Model) Record all tree-ring Shapefile of tree disk with GIS soft 'Qgis' and interpolating model from high resolution tree disk image. Package: r-cran-treesim Architecture: all Version: 2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 202 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ape, r-cran-geiger Filename: pool/dists/focal/main/r-cran-treesim_2.4-1.ca2004.1_all.deb Size: 173572 MD5sum: de4af2dfa70e7f291da7dc7749024059 SHA1: 8a08a59ca824a175fcda96bf685b10ef6e5bff97 SHA256: f73117323dedd607de942adb52f0e5cfd0d7d945305cd85e13c5d831b105c755 SHA512: 99e606fe3770ee484c464f3e05d41ffcdfa47cfb120fc1e41361ef67a618512e71dcfcc51f60450886a1330b72d7a245b2e5c447bcb70d65a159fb254a9a44e9 Homepage: https://cran.r-project.org/package=TreeSim Description: CRAN Package 'TreeSim' (Simulating Phylogenetic Trees) Simulation methods for phylogenetic trees where (i) all tips are sampled at one time point or (ii) tips are sampled sequentially through time. (i) For sampling at one time point, simulations are performed under a constant rate birth-death process, conditioned on having a fixed number of final tips (sim.bd.taxa()), or a fixed age (sim.bd.age()), or a fixed age and number of tips (sim.bd.taxa.age()). When conditioning on the number of final tips, the method allows for shifts in rates and mass extinction events during the birth-death process (sim.rateshift.taxa()). The function sim.bd.age() (and sim.rateshift.taxa() without extinction) allow the speciation rate to change in a density-dependent way. The LTT plots of the simulations can be displayed using LTT.plot(), LTT.plot.gen() and LTT.average.root(). TreeSim further samples trees with n final tips from a set of trees generated by the common sampling algorithm stopping when a fixed number m>>n of tips is first reached (sim.gsa.taxa()). This latter method is appropriate for m-tip trees generated under a big class of models (details in the sim.gsa.taxa() man page). For incomplete phylogeny, the missing speciation events can be added through simulations (corsim()). (ii) sim.rateshifts.taxa() is generalized to sim.bdsky.stt() for serially sampled trees, where the trees are conditioned on either the number of sampled tips or the age. Furthermore, for a multitype-branching process with sequential sampling, trees on a fixed number of tips can be simulated using sim.bdtypes.stt.taxa(). This function further allows to simulate under epidemiological models with an exposed class. The function sim.genespeciestree() simulates coalescent gene trees within birth-death species trees, and sim.genetree() simulates coalescent gene trees. Package: r-cran-treesimgm Architecture: all Version: 2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 257 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-treesim, r-cran-ape Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-treesimgm_2.5-1.ca2004.1_all.deb Size: 154700 MD5sum: af54744ba37ec0a04568b237ae463d9e SHA1: ad1110bc61b0337ecf4eed5cec7afe7b318ee038 SHA256: c054b5cf756b72a2c50166e42a18f7af961d94d242f4339f3871eecec1139e6c SHA512: ad35af17676b537ca3cb250a5a8b7e11a3af6cb413d37acc005dd92ff387a2179e51bf20475ec37e41830b83a3c0b7fbd98e4ecc69ff507286d20138cb222de7 Homepage: https://cran.r-project.org/package=TreeSimGM Description: CRAN Package 'TreeSimGM' (Simulating Phylogenetic Trees under General Bellman Harris andLineage Shift Model) Provides a flexible simulation tool for phylogenetic trees under a general model for speciation and extinction. Trees with a user-specified number of extant tips, or a user-specified stem age are simulated. It is possible to assume any probability distribution for the waiting time until speciation and extinction. Furthermore, the waiting times to speciation / extinction may be scaled in different parts of the tree, meaning we can simulate trees with clade-dependent diversification processes. At a speciation event, one species splits into two. We allow for two different modes at these splits: (i) symmetric, where for every speciation event new waiting times until speciation and extinction are drawn for both daughter lineages; and (ii) asymmetric, where a speciation event results in one species with new waiting times, and another that carries the extinction time and age of its ancestor. The symmetric mode can be seen as an vicariant or allopatric process where divided populations suffer equal evolutionary forces while the asymmetric mode could be seen as a peripatric speciation where a mother lineage continues to exist. Reference: O. Hagen and T. Stadler (2017). TreeSimGM: Simulating phylogenetic trees under general Bellman Harris models with lineage-specific shifts of speciation and extinction in R. Methods in Ecology and Evolution. . Package: r-cran-treeslicer Architecture: all Version: 1.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3370 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-ape, r-cran-doparallel, r-cran-foreach, r-cran-ggplot2, r-cran-sf Suggests: r-cran-devtools, r-cran-ggpubr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-treeslicer_1.0.3-1.ca2004.1_all.deb Size: 2650332 MD5sum: 54c46ab51efcdc39ce0e37adf9825217 SHA1: ec4d315047089844f80b604c13dc640944ce0e20 SHA256: ce95c1ad011f84e76ff52e08675de73c119446d30d23d48a5c062a5d9fb110ff SHA512: 24455fc6e481435c95617c540114b28ab68b0dbea57d001cfced9e0bbcecea009bbe3a8eb1befc778d9fe7947d2385082652291a6296964f91141657c617ab0d Homepage: https://cran.r-project.org/package=treesliceR Description: CRAN Package 'treesliceR' (To Slice Phylogenetic Trees and Infer Evolutionary Patterns OverTime) Provide a range of functions with multiple criteria for cutting phylogenetic trees at any evolutionary depth. It enables users to cut trees in any orientation, such as rootwardly (from root to tips) and tipwardly (from tips to its root), or allows users to define a specific time interval of interest. It can also be used to create multiple tree pieces of equal temporal width. Moreover, it allows the assessment of novel temporal rates for various phylogenetic indexes, which can be quickly displayed graphically. Package: r-cran-treestartr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 107 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-phytools, r-cran-ape Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-treestartr_0.1.0-1.ca2004.1_all.deb Size: 58828 MD5sum: a345758efb53426bed40ddb54a352e49 SHA1: fc12a47418fb27970f2ef06caa90ce3d7f8ef7e0 SHA256: 9e582f86ce751c24ffd6326ba375023430d07baae607c080da86cf050f7a66bc SHA512: 1e75994ba1f8cdd0de14345514e31cce73d3107e3d868bf0817c2de5b4f10fbbb3a8e767693384b4861e5fd9c702a99efbcebc03272e0752276448d4ed2bcf9f Homepage: https://cran.r-project.org/package=treestartr Description: CRAN Package 'treestartr' (Generate Starting Trees for Combined Molecular, Morphologicaland Stratigraphic Data) Combine a list of taxa with a phylogeny to generate a starting tree for use in total evidence dating analyses. 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This package provides methods that make it easy to create a Trelliscope display specification for TrelliscopeJS. High-level functions are provided for creating displays from within 'tidyverse' or 'ggplot2' workflows. Low-level functions are also provided for creating new interfaces. Package: r-cran-trellor Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 275 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-curl, r-cran-httr, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tibble, r-cran-testthat Filename: pool/dists/focal/main/r-cran-trellor_0.8.0-1.ca2004.1_all.deb Size: 164948 MD5sum: 1e018f10b7b24d128f928283d7ccb0b0 SHA1: b5cbc07f86c0255541c8fac8e9f7808dd33d4955 SHA256: 56fc472494c5b7affd6609585ec03cfd8068b83317f43bfd264608071c22a511 SHA512: 10f9d6a7fa08ffb4f6de0d29b42d2c58d40d36865c425c4d258e6e5855348136af53daf291a59a2f4ea5cccde6a3d115b329af887afede89be775947cab6f028 Homepage: https://cran.r-project.org/package=trelloR Description: CRAN Package 'trelloR' (Access the Trello API) An R client for the Trello API. Supports free-tier features such as access to private boards, creating and updating cards and other resources, and downloading data in a structured way. Package: r-cran-tremendousr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 260 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-cli, r-cran-crayon, r-cran-crul, r-cran-jsonlite Suggests: r-cran-testthat, r-cran-clipr, r-cran-vcr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tremendousr_1.0.0-1.ca2004.1_all.deb Size: 186072 MD5sum: fc496b4b6cf46d81109708b09b69c0aa SHA1: c912c42e40177c029888f4ba13c464f243ec53d4 SHA256: ef8f7e54f6093ab62c5d4943b4d96d61041680c2b79ebb06ad344e31e807e55b SHA512: 6348da3439da1ea6121de32d12cfac5c5fe74cdf99e4af3eaff1066d168d95d35755e0936b0aaad8dd0aad60c591a86e038a143af2a1344a662a120c3f58151e Homepage: https://cran.r-project.org/package=tremendousr Description: CRAN Package 'tremendousr' (Easily Send Rewards and Incentives with 'Tremendous' from R) A slightly-opinionated R interface for the 'Tremendous' API (). In addition to supporting GET and POST requests, 'tremendousr' has, dare I say, tremendously intuitive functions for sending digital rewards and incentives directly from R. Package: r-cran-trenchr Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4440 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-desolve, r-cran-msm, r-cran-rdpack, r-cran-zoo Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-trenchr_1.1.1-1.ca2004.1_all.deb Size: 2612600 MD5sum: 0be16587ab80bbe4919e72ba4c8d7a22 SHA1: f0c80847c71d71686a183829f5ec2441e228da03 SHA256: 89ff817e3e1b7a3ed6c00ce06e41ce9b53a22b7bea49cafab3ec2bac53b8e042 SHA512: b1068f001ac0a4f45e57fc8a3c63b7915d276cd54eb815b0aa978b8e6f2d9177ced4d88e4f2e88cfae8ba65a70185c5345aca57a13c9e92dd17d221e7ec0d697 Homepage: https://cran.r-project.org/package=TrenchR Description: CRAN Package 'TrenchR' (Tools for Microclimate and Biophysical Ecology) Tools for translating environmental change into organismal response. Microclimate models to vertically scale weather station data to organismal heights. The biophysical modeling tools include both general models for heat flows and specific models to predict body temperatures for a variety of ectothermic taxa. Additional functions model and temporally partition air and soil temperatures and solar radiation. Utility functions estimate the organismal and environmental parameters needed for biophysical ecology. 'TrenchR' focuses on relatively simple and modular functions so users can create transparent and flexible biophysical models. Many functions are derived from Gates (1980) and Campbell and Norman (1988) . Package: r-cran-trendchange Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-trendchange_1.2-1.ca2004.1_all.deb Size: 29508 MD5sum: 8eadb32c35d3b0fa40e6a13ffc8fd9ca SHA1: e5ad704750ab5f2e752e36b8d67c84aa03ded8e3 SHA256: d3706d3e526c0722549621124d700beda873f42e161a779c39c10de4bed3606f SHA512: ab7ecb8b30456f513e4f65c24e9246be8081cff915eccfcb03167bb39dd4e596aa2aaa5193bc6194c9cd58bb87a5b2af2f5e6dd3721b19e3646fcba8e78b55c1 Homepage: https://cran.r-project.org/package=trendchange Description: CRAN Package 'trendchange' (Innovative Trend Analysis and Time-Series Change Point Analysis) Innovative Trend Analysis is a graphical method to examine the trends in time series data. Sequential Mann-Kendall test uses the intersection of prograde and retrograde series to indicate the possible change point in time series data. Distribution free cumulative sum charts indicate location and significance of the change point in time series. Zekai, S. (2011). . Grayson, R. B. et al. (1996). Hydrological Recipes: Estimation Techniques in Australian Hydrology. Cooperative Research Centre for Catchment Hydrology, Australia, p. 125. Sneyers, S. (1990). On the statistical analysis of series of observations. Technical note no 5 143, WMO No 725 415. Secretariat of the World Meteorological Organization, Geneva, 192 pp. Package: r-cran-trendeval Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 147 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-trending, r-cran-yardstick, r-cran-rsample, r-cran-tibble Suggests: r-cran-testthat, r-cran-dplyr, r-cran-outbreaks Filename: pool/dists/focal/main/r-cran-trendeval_0.1.1-1.ca2004.1_all.deb Size: 100552 MD5sum: 2bea55ffdbeded71dadf9e14115b77f6 SHA1: 6ebc533b7215505ba33aff00b70ee05449c8a2eb SHA256: 5479a9f10cb07036b4137acc59c128d1f1792b34c9f3f36f5c80fb47c2338874 SHA512: 0b1a35cbef9d3278733c96cd790149befeee0431f8cf944f8d64e5f87bd73fccbb0824d699b3ceb13aef9fed5e67e7c329adf123a281a0c153b5f1c8efc4fa3d Homepage: https://cran.r-project.org/package=trendeval Description: CRAN Package 'trendeval' (Evaluate Trending Models) Provides a coherent interface for evaluating models fit with the trending package. This package is part of the RECON () toolkit for outbreak analysis. 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Package: r-cran-trendlsw Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 296 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-wavethresh, r-cran-locits Suggests: r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-trendlsw_1.0.2-1.ca2004.1_all.deb Size: 258196 MD5sum: 8eef2f116c6f426b58518a4a70d2b661 SHA1: ef08b7323c2ea77a73956602f640706c0f6096ec SHA256: b8939f940443de611417118d7dcfda9646ca5d4a8cfd305cf2426e6691668ace SHA512: 3b4e6ebcf990122d5f89df482a29fec90d931cd719c9adc38c0de317ed3a23e214aa0e9eaf068676e9a8ada7ea158257d22f341add5d269abc5056ff3e59191c Homepage: https://cran.r-project.org/package=TrendLSW Description: CRAN Package 'TrendLSW' (Wavelet Methods for Analysing Locally Stationary Time Series) Fitting models for, and simulation of, trend locally stationary wavelet (TLSW) time series models, which take account of time-varying trend and dependence structure in a univariate time series. The TLSW model, and its estimation, is described in McGonigle, Killick and Nunes (2022a) , (2022b) . New users will likely want to start with the TLSW function. Package: r-cran-trendsegmentr Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-trendsegmentr_1.3.0-1.ca2004.1_all.deb Size: 68832 MD5sum: 25a731d4a7bbb215b8670117a1010f94 SHA1: d06401614209cc0c80eb0b1e21a1360f5346a6e6 SHA256: cedaa0aff14c1f5f168fb25fdff7fc3165c76e34f349b40f5632b598fc58056a SHA512: 7b4d4e7e87cef5af9b4ec793e0ec556c3b92a5b7777b870267615eb54f15cbf4301759c60c13a72d916277832607bea0f9550a6b63109ac5b8ff6dff09da106d Homepage: https://cran.r-project.org/package=trendsegmentR Description: CRAN Package 'trendsegmentR' (Linear Trend Segmentation) Performs the detection of linear trend changes for univariate time series by implementing the bottom-up unbalanced wavelet transformation proposed by H. Maeng and P. Fryzlewicz (2023). 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Package: r-cran-trendslr Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 210 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-changepoint, r-cran-forecast, r-cran-plyr, r-cran-rssa, r-cran-tseries, r-cran-zoo, r-cran-imputets Filename: pool/dists/focal/main/r-cran-trendslr_1.0-1.ca2004.1_all.deb Size: 176348 MD5sum: f5428af7acb538fbfea034ff5383eb2f SHA1: bcba4331e99df7ca708e26b7ed8aeec74762804e SHA256: 66cd2917f2ac072beba73216c310cafeeb81f18419119de379ff894a1a71d26c SHA512: 81cd9999fda5ae9188d5aea0c8d9f7de4b00acabd1b6c4c7eaa02a6efe3cd705280b67f20427ea54a5a005eeafac6be1b9aac7efcda7288efed5da2a967687f8 Homepage: https://cran.r-project.org/package=TrendSLR Description: CRAN Package 'TrendSLR' (Estimating Trend, Velocity and Acceleration from Sea LevelRecords) Analysis of annual average ocean water level time series, providing improved estimates of trend (mean sea level) and associated real-time velocities and accelerations. Improved trend estimates are based on singular spectrum analysis methods. Various gap-filling options are included to accommodate incomplete time series records. The package also includes a range of diagnostic tools to inspect the components comprising the original time series which enables expert interpretation and selection of likely trend components. A wide range of screen and plot to file options are available in the package. Package: r-cran-trendtm Architecture: all Version: 2.0.21-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-softimpute, r-cran-capushe, r-cran-fda Filename: pool/dists/focal/main/r-cran-trendtm_2.0.21-1.ca2004.1_all.deb Size: 50628 MD5sum: d23a0a8eea1a080f43a23a5f8c927a84 SHA1: a2e23bd220d8eab64eb86f6c62ccb033acd8cd42 SHA256: 4fd8389bc18d66e81d9c4ec1e1fe71152c4f9267f96365ba3017614f2dc00a33 SHA512: 5180def07098b636287dfd5452031432b7e8ed010694420bc408f91d247ef1d69dc530475de46d126c8685549fc09ba65d424a49b362f98ab5f931f48287f1e7 Homepage: https://cran.r-project.org/package=TrendTM Description: CRAN Package 'TrendTM' (Trend of High-Dimensional Time Series Matrix Estimation) Matrix factorization for multivariate time series with both low rank and temporal structures. The procedure is the one proposed by Alquier, P. and Marie, N. "Matrix factorization for multivariate time series analysis." Electronic Journal of Statistics, 13(2), 4346-4366 (2019). Package: r-cran-trendtwosub Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 230 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-usethis Filename: pool/dists/focal/main/r-cran-trendtwosub_0.0.2-1.ca2004.1_all.deb Size: 73892 MD5sum: 89a746a534da39b3b47f1c631da9d15f SHA1: 99d5513d4ddb238219203bd62816082eb6be3ada SHA256: 44f86249527ef08981009d71c2d3bb21ba1fcafae876f883cde326dcfd8d6a3a SHA512: 47631991ff4cc70ab71d2766a8a0d727bf5769b0f391095107a6f93c67be1eb7e54dbc0f7a7ed588ebdefe557993d5e21502b0fa210a971eba20fe301225bd64 Homepage: https://cran.r-project.org/package=Trendtwosub Description: CRAN Package 'Trendtwosub' (Two Sample Order Free Trend Nonparametric Inference) Non-parametric trend comparison of two independent samples with sequential subsamples. For more details, please refer to Wang, Stapleton, and Chen (2018) . Package: r-cran-trendyy Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gtrendsr, r-cran-magrittr, r-cran-dplyr, r-cran-purrr, r-cran-crayon, r-cran-stringr, r-cran-tibble Filename: pool/dists/focal/main/r-cran-trendyy_0.1.1-1.ca2004.1_all.deb Size: 26520 MD5sum: 0d470f5797d3a4fce0ef6ce5bfc83922 SHA1: 110e82d08bdeab1729b306d64e1bcbc4e73050da SHA256: 276fdf5230d4b3bca07ee40696ebdfd4677c761ae5f287ac5e32a6ccaab64a3d SHA512: e3f0ea9d9ad6052af6e406a8a1688b5c34843c096b8374278df2cb44599590cf8bd8079197935dcba0387778d03efe4ee255a3327a0f9cee8ce4c44ebff87a32 Homepage: https://cran.r-project.org/package=trendyy Description: CRAN Package 'trendyy' (A Tidy Wrapper Around 'gtrendsR') Access Google Trends information. This package provides a tidy wrapper to the 'gtrendsR' package. Use four spaces when indenting paragraphs within the Description. Package: r-cran-tres Architecture: all Version: 1.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4267 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-manifoldoptim, r-cran-mass, r-cran-pracma, r-cran-rtensor Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tres_1.1.5-1.ca2004.1_all.deb Size: 4276764 MD5sum: 4f95c01d53a96be1735e9f3c958ff58b SHA1: 3d18aa567cd4674964f1c07a4671e713695a33a7 SHA256: 02b483687b581bdcf44b91cc785c054a8636e966f72ce49e93dba0fd7905fa6c SHA512: 305d3fc6916e208546b9593d7ba0efca5735e9662fac5b233db215d2192aa1ff1916cabbc1e3b77b98a61e98c64f7411b613b9248cb7f732ea6d2362ffb3a0c1 Homepage: https://cran.r-project.org/package=TRES Description: CRAN Package 'TRES' (Tensor Regression with Envelope Structure) Provides three estimators for tensor response regression (TRR) and tensor predictor regression (TPR) models with tensor envelope structure. The three types of estimation approaches are generic and can be applied to any envelope estimation problems. The full Grassmannian (FG) optimization is often associated with likelihood-based estimation but requires heavy computation and good initialization; the one-directional optimization approaches (1D and ECD algorithms) are faster, stable and does not require carefully chosen initial values; the SIMPLS-type is motivated by the partial least squares regression and is computationally the least expensive. For details of TRR, see Li L, Zhang X (2017) . For details of TPR, see Zhang X, Li L (2017) . For details of 1D algorithm, see Cook RD, Zhang X (2016) . For details of ECD algorithm, see Cook RD, Zhang X (2018) . For more details of the package, see Zeng J, Wang W, Zhang X (2021) . Package: r-cran-trexr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3573 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-chron, r-cran-zoo, r-cran-solar, r-cran-lubridate, r-cran-lhs, r-cran-doparallel, r-cran-foreach, r-cran-tibble, r-cran-dplyr, r-cran-sensitivity, r-cran-randtoolbox, r-cran-boot, r-cran-dosnow, r-cran-msm, r-cran-magrittr Suggests: r-cran-shiny, r-cran-plotly Filename: pool/dists/focal/main/r-cran-trexr_1.0.0-1.ca2004.1_all.deb Size: 2048708 MD5sum: a06317238be75c7516a428447ae0a7ba SHA1: b43a67377f2ed152ec13861b5492320f0fc9479a SHA256: 793ea29803e1d119caa50fa719199579ca86bea01c558a885bf866ca09e62a6a SHA512: 2cc20763312c0215921d1b1a6e1dccfac07b9191639aef3622a83a16728bc9d5698a8f5a71202b99589491764c3ec8fed96225202640f173e4cda9470b672eba Homepage: https://cran.r-project.org/package=TREXr Description: CRAN Package 'TREXr' (Tree Sap Flow Extractor) Performs data assimilation, processing and analyses on sap flow data obtained with the thermal dissipation method (TDM). The package includes functions for gap filling time-series data, detecting outliers, calculating data-processing uncertainties and generating uniform data output and visualisation. The package is designed to deal with large quantities of data and to apply commonly used data-processing methods. The functions have been validated on data collected from different tree species across the northern hemisphere (Peters et al. 2018 ). 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The package is based on the paper Machkour, Muma, and Palomar (2022) . Package: r-cran-tri.hierarchical.ibds Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tri.hierarchical.ibds_1.0.0-1.ca2004.1_all.deb Size: 76220 MD5sum: 4025c9c945bf6e32f83234f5ffb4b4da SHA1: a3a7bc346b6da3b543945629603f6303f70be48b SHA256: e3df4632123f1a9b617f399e382a7ac545eefb7b6ece395701ce7c3f7316dd24 SHA512: ebbd67a2366ffee063f6178b3c111a8ba590928b712bfb201acb60d9e67b14be4c301cd8ba98fb829cce0a2e475936b33b9205c1678062af724058babd3e2e15 Homepage: https://cran.r-project.org/package=Tri.Hierarchical.IBDs Description: CRAN Package 'Tri.Hierarchical.IBDs' (Tri-Hierarchical IBDs (Tri- Hierarchical Incomplete BlockDesigns)) Tri-hierarchical incomplete block design is defined as an arrangement of v treatments each replicated r times in a three system of blocks if, each block of the first system contains m_1 blocks of second system and each block of the second system contains m_2 blocks of the third system. Ignoring the first and second system of blocks, it leaves an incomplete block design with b_3 blocks of size k_3i units; ignoring first and third system of blocks, it leaves an incomplete block design with b_2 blocks each of size k_2i units and ignoring the second and third system of blocks, it leaves an incomplete block design with b_1 blocks each of size k_1 units. For dealing with experimental circumstances where there are three nested sources of variation, a tri-hierarchical incomplete block design can be adopted. Tri - hierarchical incomplete block designs can find application potential in obtaining mating-environmental designs for breeding trials. To know more about nested block designs one can refer Preece (1967) . This package includes series1(), series2(), series3() and series4() functions. This package generates tri-hierarchical designs with six component designs under certain parameter restrictions. Package: r-cran-triact Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 18055 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-r6, r-cran-data.table, r-cran-checkmate, r-cran-lubridate Suggests: r-cran-signal, r-cran-tibble, r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-triact_0.3.1-1.ca2004.1_all.deb Size: 2123364 MD5sum: 5cabb79acd8bca67669d0b30e1bf6c9e SHA1: 860972bbfe876c915d0c2a4fb52294c29dc082a4 SHA256: e13abe0305028f65852e88ec087e3d853cda7844e18359c15f33da5cb009c6db SHA512: a52f60caefa27054cf706867c5539269e0ef5bde8c113439ff388592590ec335aa3974ca7695fc8f225727a2e3daccedaa31ec7fa68db045baba8ae784409ac6 Homepage: https://cran.r-project.org/package=triact Description: CRAN Package 'triact' (Analyzing the Lying Behavior of Cows from Accelerometer Data) Assists in analyzing the lying behavior of cows from raw data recorded with a triaxial accelerometer attached to the hind leg of a cow. Allows the determination of common measures for lying behavior including total lying duration, the number of lying bouts, and the mean duration of lying bouts. Further capabilities are the description of lying laterality and the calculation of proxies for the level of physical activity of the cow. Reference: Simmler M., Brouwers S. P. (2024) . Package: r-cran-triadsim Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1633 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-snpstats, r-cran-foreach, r-cran-doparallel Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-triadsim_0.3.0-1.ca2004.1_all.deb Size: 656672 MD5sum: 6440304403ddffc745c110deb3471353 SHA1: ef312e82763ecad67e57135ec664a0a2bf186145 SHA256: c80f9fa6be468f70252015980214230595354cf4dc496e0e66330292164e5896 SHA512: 2396769485994a9966d74d6870a54610f3d964a31c8514eee3453e22e60ac17d74ee782a1d4fcb61ffaf1c8677050d098ac833886fa0f1477475de0b8feccf84 Homepage: https://cran.r-project.org/package=TriadSim Description: CRAN Package 'TriadSim' (Simulating Triad Genomewide Genotypes) Simulate genotypes for case-parent triads, case-control, and quantitative trait samples with realistic linkage diequilibrium structure and allele frequency distribution. For studies of epistasis one can simulate models that involve specific SNPs at specific sets of loci, which we will refer to as "pathways". TriadSim generates genotype data by resampling triad genotypes from existing data. The details of the method is described in the manuscript under preparation "Simulating Autosomal Genotypes with Realistic Linkage Disequilibrium and a Spiked in Genetic Effect" Shi, M., Umbach, D.M., Wise A.S., Weinberg, C.R. Package: r-cran-triangle Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 172 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-assertthat Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-mass Filename: pool/dists/focal/main/r-cran-triangle_1.0-1.ca2004.1_all.deb Size: 104276 MD5sum: 7e1dd82b79f2b188353bd12337df9525 SHA1: c80341d8a7f50bc89a0d90a255c4822bd609cb57 SHA256: 244afb8af4de8243367e611d5c8b7f722099a7bd3d40c41fc62cfe07ce2f38cc SHA512: 768a066188d0bb18ce1039940ec10f0083c2f90731cb3551fbd0baf79896ee8884d813282069b9c018db37406d461fe5c65a9d8e5bef4624eb1dd4e6f391d4f6 Homepage: https://cran.r-project.org/package=triangle Description: CRAN Package 'triangle' (Distribution Functions and Parameter Estimates for the TriangleDistribution) Provides the "r, q, p, and d" distribution functions for the triangle distribution. Also includes maximum likelihood estimation of parameters. 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This task (known as triangulation) however requires onerous calculations - these calculations are automated by this package. Package: r-cran-tribe Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-lazyeval, r-cran-magrittr, r-cran-rlang, r-cran-rstudioapi Suggests: r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tribe_0.1.8-1.ca2004.1_all.deb Size: 57956 MD5sum: 28d975887ba3a371bb725cf90ab730dd SHA1: 481e899ed506e7bbb8290d1c41b17320e4874f28 SHA256: 69a0431736d51d09f533f52fed20a53341ae75c4f7996c7b8889f5a1cd87fd39 SHA512: 33b8cd283cc759148364dd79225b442ad33ced7a86e8b49f9fc608da562fa376b2907caf870b80c7bfd972cd0930f756b75a661a2301ddf799b08b9b05887ac8 Homepage: https://cran.r-project.org/package=tribe Description: CRAN Package 'tribe' (Play with the Tribe of Attributes) Functions to make manipulation of object attributes easier. It also contains a few functions that extend the 'dplyr' package for data manipulation, and it provides new pipe operators, including the pipe '%@>%' similar to the 'magrittr' '%>%', but with the additional functionality to enable attributes propagation. Package: r-cran-tricolore Architecture: all Version: 1.2.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2037 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-ggtern, r-cran-rlang, r-cran-shiny, r-cran-assertthat Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-sf, r-cran-leaflet, r-cran-httpuv, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-tricolore_1.2.4-1.ca2004.1_all.deb Size: 763164 MD5sum: a5a4f3108bae4cb946674461fb85d522 SHA1: 5be90cac1ecca0eb3e438757c5c10893337da0e9 SHA256: 46e9fb8f4152998c8a5db44d2fec530db8a6c2bf24274716679651083786b99f SHA512: e4cebfc51851f1da3418f2c9b81b64e0856224368e34aae1e7ef97935fffbf2140d2336b63ba8810b864cbf84fdf5dd852adda614b69d6ab38c045033a9855c5 Homepage: https://cran.r-project.org/package=tricolore Description: CRAN Package 'tricolore' (A Flexible Color Scale for Ternary Compositions) Compositional data consisting of three-parts can be color mapped with a ternary color scale. Such a scale is provided by the tricolore packages with options for discrete and continuous colors, mean-centering and scaling. See Jonas Schöley (2021) "The centered ternary balance scheme. A technique to visualize surfaces of unbalanced three-part compositions" , Jonas Schöley, Frans Willekens (2017) "Visualizing compositional data on the Lexis surface" , and Ilya Kashnitsky, Jonas Schöley (2018) "Regional population structures at a glance" . Package: r-cran-triggerstrategy Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 124 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-ga, r-cran-ldbounds, r-cran-mvtnorm, r-cran-nleqslv Filename: pool/dists/focal/main/r-cran-triggerstrategy_1.2.0-1.ca2004.1_all.deb Size: 94944 MD5sum: 0dd6ca3a23b4f15796c6fbd1176dd937 SHA1: aaafeccba905f3b7ba4be544bd353977bcf0467c SHA256: bc6e19daa8566c498699918a89f0ebbec43dd3a3abbf6b6bc52eddca35c09009 SHA512: 174837f8905c570588af0235117c394472a479cb0ca9daba9e5a59f4b98a0ecdc0524e40e9f012bbe287114cd16b576592d4ee9c9ce081930a6b89300cb7f2e1 Homepage: https://cran.r-project.org/package=triggerstrategy Description: CRAN Package 'triggerstrategy' (Trigger Strategy in Clinical Trials) The trigger strategy is a general framework for a multistage statistical design with multiple hypotheses, allowing an adaptive selection of interim analyses. The selection of interim stages can be associated with some prespecified endpoints which serve as the trigger. This selection allows us to refine the critical boundaries in hypotheses testing procedures, and potentially increase the statistical power. This package includes several trial designs using the trigger strategy. See Gou, J. (2023), "Trigger strategy in repeated tests on multiple hypotheses", Statistics in Biopharmaceutical Research, 15(1), 133-140, and Gou, J. (2022), "Sample size optimization and initial allocation of the significance levels in group sequential trials with multiple endpoints", Biometrical Journal, 64(2), 301-311. 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Package: r-cran-trigpoints Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1055 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sf, r-cran-tibble Filename: pool/dists/focal/main/r-cran-trigpoints_1.0.0-1.ca2004.1_all.deb Size: 1041000 MD5sum: d7d4caf287eed3f021149181c6626a36 SHA1: e7c7ca8bec6f596f0d792113d0b7f8db343ef1ea SHA256: 5fbeec47c7440522968562fd053b1300cf9dfcdbd9f3dc8edd55b2021960b969 SHA512: 850d4813dee9ca8c4b46f31dc27c8a44f9fc3e95ddf65f73ef5db13b7447adc2a329b1c36a18f8f8d264056d5afb3a285970af31850287d5b19f8ecd1a8677f7 Homepage: https://cran.r-project.org/package=trigpoints Description: CRAN Package 'trigpoints' (Data Set of Trig Points in Great Britain in British NationalGrid Coordinates) A complete data set of historic GB trig points in British National Grid (OSGB36) coordinate reference system. Trig points (aka triangulation stations) are fixed survey points used to improve the accuracy of map making in Great Britain during the 20th Century. Trig points are typically located on hilltops so still serve as a useful navigational aid for walkers and hikers today. Package: r-cran-trimatch Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2096 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ez, r-cran-ggplot2, r-cran-reshape2, r-cran-scales, r-cran-gridextra, r-cran-psagraphics, r-cran-psych, r-cran-randomforest Suggests: r-cran-bookdown, r-cran-knitr, r-cran-mass, r-cran-rmarkdown, r-cran-xtable Filename: pool/dists/focal/main/r-cran-trimatch_1.0.0-1.ca2004.1_all.deb Size: 2029104 MD5sum: c1ff67e0edb358e4e82682d26d2656f5 SHA1: f6c2f54459c17ec34ee85a6f0b091a2182895334 SHA256: b29e6f2c03d8daa527565709216254a3809072c5af5613c872d5a22d652672cf SHA512: fd50489b127ccdcaedca6115cbb9d4ccf01a7ec2d1c0d5a51502f11ab16ab88175be1cf14c66e5974bb2984658c93cbd7eb7a0ec475851806d8908c5ad747a8e Homepage: https://cran.r-project.org/package=TriMatch Description: CRAN Package 'TriMatch' (Propensity Score Matching of Non-Binary Treatments) Propensity score matching for non-binary treatments. Package: r-cran-trimcluster Architecture: all Version: 0.1-6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.5.0), r-api-4.0 Suggests: r-cran-fpc Filename: pool/dists/focal/main/r-cran-trimcluster_0.1-6-1.ca2004.1_all.deb Size: 20660 MD5sum: d61c96df5e4e826f9cad77d5e406ecb4 SHA1: 25c2e6b321d840e26790e558ffcb52eda612fa89 SHA256: af440d42334fae40f128d956d87282d58eed8e94429bef2cd635eeaa0e4b8253 SHA512: 08cb61c9caf028844ee63567b61b382ef3aaf434d462967246f75a55b2abe32258687d75055d86de64f47cf5815ee9a13bab9f92d9d26f2ffd643be5ca8703c0 Homepage: https://cran.r-project.org/package=trimcluster Description: CRAN Package 'trimcluster' (Cluster Analysis with Trimming) Trimmed k-means clustering. The method is described in Cuesta-Albertos et al. (1997) . Package: r-cran-trimetstops Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 235 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-trimetstops_0.1.0-1.ca2004.1_all.deb Size: 199920 MD5sum: 3d937c29f57db9c5af4c55d5eba20ea3 SHA1: db78b53fe49b6719d2414ebb8095c869928e9a54 SHA256: fc0fd4d49b375368cd58563c5060762d15e4a64d8fa50102267af70647f5620f SHA512: 58fe7b3cd9c99174896a983958db2feacecdd6d93177181bea05af2dfdd61c817f62979cf752ba8341b9cffebd48a98eda83deb03ccc88a0d56a45f438bf1a1a Homepage: https://cran.r-project.org/package=trimetStops Description: CRAN Package 'trimetStops' (Information on all of the TriMet Stops in the Portland MetroArea) Information on all of the TriMet stops in the Portland Metro Area. It includes information such as the longitude, latitude, cross street, and direction of the stop. TriMet has catalogued these stops, 6880 in total. Package: r-cran-trimmer Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 138 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-crayon, r-cran-cli, r-cran-pryr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-trimmer_0.8.1-1.ca2004.1_all.deb Size: 70460 MD5sum: 2aebd03382c823c3ad4657e7dc0be5bb SHA1: 0252bfcf0c50e3ff20a9d86db4c9d28699526933 SHA256: 5150c9ff7e8379b68e7e9bcd2389fa48dd049faa450c502cb2cf8b66073849d1 SHA512: 4fd1ccbd7a630e54741e0982fb714ee61168abe1ddab56d291e1ea7d67e94c3fee42020ca5ce2265bdc6b70c2cd8a74569f0dd0a0b5a8d50a72bc28d555a5900 Homepage: https://cran.r-project.org/package=trimmer Description: CRAN Package 'trimmer' (Trim an Object) A lightweight toolkit to reduce the size of a list object. The object is minimized by recursively removing elements from the object one-by-one. 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Package: r-cran-trinroc Architecture: all Version: 0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 457 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-rgl, r-cran-gridextra Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-mass, r-cran-reshape Filename: pool/dists/focal/main/r-cran-trinroc_0.7-1.ca2004.1_all.deb Size: 305668 MD5sum: ca2e360d13b639e5f6511d505cad54e7 SHA1: cf3a0845a3ef0776325ad9781a0d9652b6f3c15d SHA256: 746e9f39bef39a6dd518a57905e0632f3a637ddc10caa6771d4792d70cf18d20 SHA512: 212d041c0d54713381007317a9239ebb6342d323267eac952da20582dfc00f1f9d26d1d8aaf850ea38f3e56a40eb19f43f6516b83560fba3df54f9ede7bae306 Homepage: https://cran.r-project.org/package=trinROC Description: CRAN Package 'trinROC' (Statistical Tests for Assessing Trinormal ROC Data) Several statistical test functions as well as a function for exploratory data analysis to investigate classifiers allocating individuals to one of three disjoint and ordered classes. In a single classifier assessment the discriminatory power is compared to classification by chance. In a comparison of two classifiers the null hypothesis corresponds to equal discriminatory power of the two classifiers. See also "ROC Analysis for Classification and Prediction in Practice" by Nakas, Bantis and Gatsonis (2023), ISBN 9781482233704. Package: r-cran-triogxe Architecture: all Version: 0.1-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 191 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-msm, r-cran-mgcv, r-cran-gtools Filename: pool/dists/focal/main/r-cran-triogxe_0.1-1-1.ca2004.1_all.deb Size: 163604 MD5sum: fbd6940628770dbc33bbefd7c056ea25 SHA1: c7f42fca8e3118bcc68adf09775c745e697a41e3 SHA256: f56e5b6057af173ebcff49e2727ddb12652e4badb4be08663543ede74b486f08 SHA512: fecd82341c676faeed7b1aecfbc78f4e8d29512bf9fdde01c75dd584277b3e042b0e1672f619bdd3d3afb571d5183c1f0a6de11354f4474fdc8fad7123a1901f Homepage: https://cran.r-project.org/package=trioGxE Description: CRAN Package 'trioGxE' (A data smoothing approach to explore and test gene-environmentinteraction in case-parent trio data) The package contains functions that 1) estimates gene-environment interaction between a SNP and a continuous non-genetic attribute by fitting a generalized additive model to case-parent trio data, 2) produces graphical displays of estimated interaction, 3) performs permutation test of gene-environment interaction; 4) simulates informative case-parent trios. Package: r-cran-trip Architecture: all Version: 1.10.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3853 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-geodist, r-cran-mass, r-cran-raster, r-cran-reproj, r-cran-sp, r-cran-spatstat.geom, r-cran-spatstat.explore, r-cran-glue, r-cran-viridis, r-cran-traipse, r-cran-crsmeta, r-cran-dplyr, r-cran-rlang Suggests: r-cran-adehabitatlt, r-cran-knitr, r-cran-testthat, r-cran-covr, r-cran-rmarkdown, r-cran-lubridate, r-cran-maps, r-cran-spelling, r-cran-lattice Filename: pool/dists/focal/main/r-cran-trip_1.10.0-1.ca2004.1_all.deb Size: 1713656 MD5sum: b9d8d2500b9f781f47a0f1004f40d756 SHA1: cf1dc36cff562ed8fdd8a8a87168f1f6586bba50 SHA256: 9b2acbee2805be32ef81002bdb135b0ee03e861fdf29aca7873d8c682bb69540 SHA512: a1725e7487f50133a7dfd7bc68c553798ce20ae58bb91a1695c820bca3623c06847fb03c788bc27d0d30c3f05de2b1b4dd0f76f69866be3aaf5587c466699faf Homepage: https://cran.r-project.org/package=trip Description: CRAN Package 'trip' (Tracking Data) Access and manipulate spatial tracking data, with straightforward coercion from and to other formats. Filter for speed and create time spent maps from tracking data. There are coercion methods to convert between 'trip' and 'ltraj' from 'adehabitatLT', and between 'trip' and 'psp' and 'ppp' from 'spatstat'. Trip objects can be created from raw or grouped data frames, and from types in the 'sp', sf', 'amt', 'trackeR', 'mousetrap', and other packages, Sumner, MD (2011) . Package: r-cran-tripestimation Architecture: all Version: 0.0-46-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 212 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-lattice, r-cran-mgcv, r-cran-reproj, r-cran-sp, r-cran-zoo Filename: pool/dists/focal/main/r-cran-tripestimation_0.0-46-1.ca2004.1_all.deb Size: 170164 MD5sum: 32cd7ef1817cec72f411f290bbbccd27 SHA1: bdb3450dee7a4dd3f3edaa7eff40f357e1ed7618 SHA256: ccd0a9c32c8fadcc300ed35d43068865f0af10ac0d81da6740230584e980da72 SHA512: e69adbb4c8938985fb436b6728e90ebb11635a6ed68ea9d0412da55ebae82577dcbea2a0f51b89fc9a540adb54080b708e7d422f7bb8df8fad4956e28adcca97 Homepage: https://cran.r-project.org/package=tripEstimation Description: CRAN Package 'tripEstimation' (Metropolis Sampler and Supporting Functions for EstimatingAnimal Movement from Archival Tags and Satellite Fixes) Data handling and estimation functions for animal movement estimation from archival or satellite tags. Helper functions are included for making image summaries binned by time interval from Markov Chain Monte Carlo simulations. Package: r-cran-tripler Architecture: all Version: 1.5.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 950 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-reshape2, r-cran-plyr Suggests: r-cran-lme4, r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-tripler_1.5.4-1.ca2004.1_all.deb Size: 578112 MD5sum: bd458608a076681722729ecbfaffddd1 SHA1: 68437a64427337c3ab2207cfdfc5964c1a446895 SHA256: 239fa6125969af20893afac4bda91c1a0b63b623eff01a33a43c50cd1d229d73 SHA512: d391c3a2f4dc4f177c248c1e4c7686bd4cd18650e77df70891a663e6f3fc6ab0e439b83b5322f0e9bf32192021bf90658c3d31be6493d58baeaab79dc0982d86 Homepage: https://cran.r-project.org/package=TripleR Description: CRAN Package 'TripleR' (Social Relation Model (SRM) Analyses for Single or MultipleGroups) Social Relation Model (SRM) analyses for single or multiple round-robin groups are performed. These analyses are either based on one manifest variable, one latent construct measured by two manifest variables, two manifest variables and their bivariate relations, or two latent constructs each measured by two manifest variables. Within-group t-tests for variance components and covariances are provided for single groups. For multiple groups two types of significance tests are provided: between-groups t-tests (as in SOREMO) and enhanced standard errors based on Lashley and Bond (1997) . Handling for missing values is provided. Package: r-cran-triplesmatch Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcbalance, r-cran-rlemon, r-cran-mass, r-cran-optmatch, r-cran-rlang Suggests: r-cran-testthat, r-cran-sensitivityfull, r-cran-informedsen, r-cran-matrix Filename: pool/dists/focal/main/r-cran-triplesmatch_1.1.0-1.ca2004.1_all.deb Size: 111300 MD5sum: 8b9ef15cf0cc68a6675c41bd1b631a41 SHA1: 23b21a6fdc94dc08ccdd21d09aae41ff7e9e6d9f SHA256: 211715f7cc407ce2cd235bed91f8eb865bdecb0dafbc8fee373a468b9afdb9f1 SHA512: 17ff09ed511838e3ae4d92e12e01d51d131805f3f92c2396870b80c4637969299174cc401955839818ececd67f4cc881a597061817418b26027795f5c5ce422c Homepage: https://cran.r-project.org/package=triplesmatch Description: CRAN Package 'triplesmatch' (Match Triples Consisting of Two Controls and a Treated Unit orVice Versa) Attain excellent covariate balance by matching two treated units and one control unit or vice versa within strata. Using such triples, as opposed to also allowing pairs of treated and control units, allows easier interpretation of the two possible weights of observations and better insensitivity to unmeasured bias in the test statistic. Using triples instead of matching in a fixed 1:2 or 2:1 ratio allows for the match to be feasible in more situations. The 'rrelaxiv' package, which provides an alternative solver for the underlying network flow problems, carries an academic license and is not available on CRAN, but may be downloaded from 'GitHub' at . The 'Gurobi' commercial optimization software is required to use the two functions [infsentrip()] and [triplesIP()]. These functions are not essential to the main purpose of this package. A free academic license can be obtained at . The 'gurobi' R package can then be installed following the instructions at . Package: r-cran-triplot Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 206 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-dalex, r-cran-glmnet, r-cran-ggdendro, r-cran-patchwork Suggests: r-cran-testthat, r-cran-knitr, r-cran-randomforest, r-cran-mlbench, r-cran-ranger, r-cran-gbm, r-cran-covr Filename: pool/dists/focal/main/r-cran-triplot_1.3.0-1.ca2004.1_all.deb Size: 159356 MD5sum: fa33935e41fbda12e8643d4d544211af SHA1: c0b92e33444705369af47d2a89cfff7b1877a667 SHA256: a06db633bd87b549ca7661ac4f2e6bf9c1d20ff65b1912593de4e9e8925dd7db SHA512: 08307aa1a96a19344755aac534451a1cfc8fd8a4a793f31bc6d2a65130589e7bd8a2af402dec91f2796598142ec115e32b03d4e70b79f032361e52851bd1f632 Homepage: https://cran.r-project.org/package=triplot Description: CRAN Package 'triplot' (Explaining Correlated Features in Machine Learning Models) Tools for exploring effects of correlated features in predictive models. The predict_triplot() function delivers instance-level explanations that calculate the importance of the groups of explanatory variables. The model_triplot() function delivers data-level explanations. The generic plot function visualises in a concise way importance of hierarchical groups of predictors. All of the the tools are model agnostic, therefore works for any predictive machine learning models. Find more details in Biecek (2018) . Package: r-cran-tripsanddipr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tripsanddipr_0.1.0-1.ca2004.1_all.deb Size: 17068 MD5sum: 6c7e7a7fed750aa0b4987b91b657581b SHA1: 721f5ee0beee9104886b65c83f9f56488c5c2f69 SHA256: e5190b132821e893e95d590ad7faf227c13f436016ec6e6736c2213e5834c6e4 SHA512: f9bc4d51a0eaec69c6aefde4ec7ab0e64ace5f99c086b6a0864b0b7b0e635f15fb1a7d2450dc716cc30b50627c7c031c90d51aca5c7d36deaac34faa87d91f73 Homepage: https://cran.r-project.org/package=tripsAndDipR Description: CRAN Package 'tripsAndDipR' (Identification of 2n and 3n Samples from Amplicon SequencingData) Uses read counts for biallelic single nucleotide polymorphisms (SNPs) to compare the likelihoods for the observed read counts given that a sample is either diploid or triploid. 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This package first implements a parametrized family of such diversity measures which apply on probability distributions. Sometimes called "True Diversity", this family contains famous measures such as the richness, the Shannon entropy, the Herfindahl-Hirschman index, and the Berger-Parker index. Second, the package allows to apply these measures on probability distributions resulting from random walks between the levels of tripartite graphs. By defining an initial distribution at a given level of the graph and a path to follow between the three levels, the probability of the walker's position within the final level is then computed, thus providing a particular instance of diversity to measure. 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In tropical algebra, the tropical sum of two numbers is their minimum and the tropical product of two numbers is their ordinary sum. For more information see also I. Simon (1988) Recognizable sets with multiplicities in the tropical semi ring: Volume 324 Lecture Notes I Computer Science, pages 107-120 . 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Package: r-cran-trophicposition Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2475 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-coda, r-cran-data.table, r-cran-ggplot2, r-cran-gridextra, r-cran-hdrcde, r-cran-mcmcglmm, r-cran-plyr, r-cran-rjags, r-cran-rcolorbrewer Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-trophicposition_0.8.0-1.ca2004.1_all.deb Size: 1779216 MD5sum: efbaaef497b7b9c18994ae3591935a83 SHA1: e4f48af24151227ba761c5d68199a3c25ea6125a SHA256: 2628e15fc1edb0dd309027bbd35f48b9bd26c9892140ec049a8e130676fe3c2c SHA512: 5c98a189b03307a47cb3e7a1d1dfaaf9fa2aa94cb5a97d82a6346ee375aa8a08680c4244f3eeaa99a162572b32d6fcae8addbe15063e0f18442baeca14274624 Homepage: https://cran.r-project.org/package=tRophicPosition Description: CRAN Package 'tRophicPosition' (Bayesian Trophic Position Estimation with Stable Isotopes) Estimates the trophic position of a consumer relative to a baseline species. It implements a Bayesian approach which combines an interface to the 'JAGS' MCMC library of 'rjags' and stable isotopes. Users are encouraged to test the package and send bugs and/or errors to trophicposition-support@googlegroups.com. Package: r-cran-trotter Architecture: all Version: 0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 196 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-trotter_0.6-1.ca2004.1_all.deb Size: 154112 MD5sum: 07ffdc0d19e0ead274f56d8c213de12b SHA1: 3fcc4d438fa13521bc5e5a01eb7ac3641424d1b3 SHA256: b47368ca95b2487f3279fa916c5032629fbb4ebe61536b68e7ef849650132dc1 SHA512: c9522e119bae8f8ee22ed8680545cb80ea03db0c2766ca134495c766acff5ea167c0e69a7f76a309a68849edb1bc9385e14a20ff2cd877b6b6b9dfbb17bbb2f8 Homepage: https://cran.r-project.org/package=trotter Description: CRAN Package 'trotter' (Pseudo-Vectors Containing All Permutations, Combinations andSubsets of Objects Taken from a Vector) Class definitions and constructors for pseudo-vectors containing all permutations, combinations and subsets of objects taken from a vector. Simplifies working with structures commonly encountered in combinatorics. Package: r-cran-troubblme4solver Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 406 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4 Suggests: r-cran-nlme, r-cran-ggplot2, r-cran-minqa Filename: pool/dists/focal/main/r-cran-troubblme4solver_0.1.2-1.ca2004.1_all.deb Size: 354352 MD5sum: a44c134150f240d769d5ab5efcfed51d SHA1: 330ac6105a64f43a185bdc57498477adc6aa92ec SHA256: 49968c5e21c201b4292231d59068520c7a85607734cd536bdff833885f6b877b SHA512: fda8f9419fc23bf94ff8da1672f1af04c9da723edde072855c187b7cab3c3f24ae0d0bebc514b86d8230cf8651fcb95b396655b650136509f2c89260ad9e1751 Homepage: https://cran.r-project.org/package=trouBBlme4SolveR Description: CRAN Package 'trouBBlme4SolveR' (Troubles Solver for 'lme4') The main function of the package aims to update 'lmer()'/'glmer()' models depending on their warnings, so trying to avoid convergence and singularity problems. 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Retrieve available releases for items that you are subscribed to and download these with ease. For more information on the API, see . Package: r-cran-truelies Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 106 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-hdrcde Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-mass, r-cran-purrr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-truelies_0.2.0-1.ca2004.1_all.deb Size: 71216 MD5sum: f574ef8ce2ad86e30017950e4514c48a SHA1: 87dc4bbd6331cd43e758cfb3a15c7e564334c6f7 SHA256: 70c3bc18ef937911ae1bfaeacdc1f9b47fa67c844d4756a47b25c70328f71f0b SHA512: f7baf6436e476ade4ea662ea0f3fc59cd02d988311f31af32045ddb9fd4cd259116fb780960cbb9d5fd7c8172e68ee04ba3c05c98c5951c08bc362dd75d7a75e Homepage: https://cran.r-project.org/package=truelies Description: CRAN Package 'truelies' (Bayesian Methods to Estimate the Proportion of Liars in CoinFlip Experiments) Implements Bayesian methods, described in Hugh-Jones (2019) , for estimating the proportion of liars in coin flip-style experiments, where subjects report a random outcome and are paid for reporting a "good" outcome. Package: r-cran-trueskill Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 305 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-trueskill_0.1-1.ca2004.1_all.deb Size: 258156 MD5sum: 4e36fa3ab0a9f85c4f6ed3b48adf6da6 SHA1: 19ba37acbbb86684cd224f197838dad76d29f4ce SHA256: 4ad6d5db6ced281d3e284fbeab7b837a30e8efc2342bf05469858ed291bc2084 SHA512: b9371ec4cc7c5cdecc98185b6fec0a17f9c4d6a6fa2accbd0843109e940b9f25ea4dfd525f1d3479d26d7b4248865b412e040b3c926a09f572e7b76b7ba86879 Homepage: https://cran.r-project.org/package=trueskill Description: CRAN Package 'trueskill' (Implementation the TrueSkill algorithm in R) An implementation of the TrueSkill algorithm (Herbrich, R., Minka, T. and Grapel, T) in R; a Bayesian skill rating system with inference by approximate message passing on a factor graph. Used by Xbox to rank gamers and identify appropriate matches. http://research.microsoft.com/en-us/projects/trueskill/default.aspx Current version allows for one player per team. Will update as time permits. Requires R version 3.0 as it is written with Reference Classes. URL: https://github.com/bhoung/trueskill-in-r Acknowledgements to Doug Zongker and Heungsub Lee for their python implementations of the algorithm and for the liberal reuse of Doug's code comments (@dougz and @sublee on github). Package: r-cran-trueskillthroughtime Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 355 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-hash Filename: pool/dists/focal/main/r-cran-trueskillthroughtime_1.0.0-1.ca2004.1_all.deb Size: 289836 MD5sum: 508fa176054de557e28e0763c344303a SHA1: ed7b459801686eefaf8bb9497eb39cb77ef8d6a4 SHA256: a58836d9b4ad7dcf7fe545f36e932b329f09ae114106b1df3bde4bd5a6ee7a8b SHA512: 9508678694084063e0d69e367ad79ecdaa7d89b58c31c2e19f98b98a52f71b9eedee09462f19cbdcf0916fb699e2614dbb680d8fe519a83e73b0373a220e3fbb Homepage: https://cran.r-project.org/package=TrueSkillThroughTime Description: CRAN Package 'TrueSkillThroughTime' (Skill Estimation Based on a Single Bayesian Network) Most estimators implemented by the video game industry cannot obtain reliable initial estimates nor guarantee comparability between distant estimates. TrueSkill Through Time solves all these problems by modeling the entire history of activities using a single Bayesian network allowing the information to propagate correctly throughout the system. This algorithm requires only a few iterations to converge, allowing millions of observations to be analyzed using any low-end computer. Landfried G, Mocskos E (2025). "TrueSkill Through Time: Reliable Initial Skill Estimates and Historical Comparability with Julia, Python, and R." . The core ideas implemented in this project were developed by Dangauthier P, Herbrich R, Minka T, Graepel T (2007). "Trueskill through time: Revisiting the history of chess.". Package: r-cran-truh Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 134 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rfast, r-cran-cluster, r-cran-doparallel, r-cran-foreach, r-cran-iterators, r-cran-fpc Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-truh_1.0.0-1.ca2004.1_all.deb Size: 55240 MD5sum: 6813723910cd53b242cbbe3745cd22e8 SHA1: 17ea2ea7e6fe923544d809b6ced57e1845013cde SHA256: cc6a65fe6ac1763786b266020d2ae7bab818a976dc70c96c586d038a3b1334fd SHA512: 4a2d542e28818c0c18bf3520b0c03f913c48edb81d2e786e4d623b40d0075b88cef9ab080f5ad18787b9cf287a0da27199711e41e9a844b3e44bc8f65f2cc9a8 Homepage: https://cran.r-project.org/package=truh Description: CRAN Package 'truh' (Two-Sample Nonparametric Testing Under Heterogeneity) Implements the TRUH test statistic for two sample testing under heterogeneity. 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Provides functions that make it easy to inspect various subject-generated ID codes (SGIC) for plausibility. Also helps with inspecting other common identifiers, ensuring that your data stays clean and reliable. 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The illusory truth effect is the observation that people rate repeated statements as more likely to be true than novel statements. We tested the trajectory of the illusory truth effect by collecting truth ratings for statements repeated across four time intervals: immediately, one day, one week, and one month following initial presentation. The package contains the anonymized data from the study along with stimulus materials, as well as functions for analyzing the data, running simulations, and calculating power. Further details about the project are available at , which includes Stage 1 of the Registered Report at the Journal of Cognition (). 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Package: r-cran-tsallisqexp Architecture: all Version: 0.9-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 348 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tsallisqexp_0.9-5-1.ca2004.1_all.deb Size: 307412 MD5sum: 6e65bcf109057f882d8a294afd3d11aa SHA1: 2680ddfb3ebe1f6d1a41f5a24302bcaf4194f4a7 SHA256: fc13f2b9a3d1d29c0816e42a533e59cfe20a0cf582928da72a0dcba0366ff997 SHA512: db484656dd95dd4fd890ff391724c7981efac8d9846166bb2fd10b7139c6f71f2ba5f4d898d25b33a9c93c937d341691a4010ec9b1c685c1ce260049b6fc8ecd Homepage: https://cran.r-project.org/package=tsallisqexp Description: CRAN Package 'tsallisqexp' (Tsallis q-Exp Distribution) Tsallis distribution also known as the q-exponential family distribution. Provide distribution d, p, q, r functions, fitting and testing functions. Project initiated by Paul Higbie and based on Cosma Shalizi's code. Package: r-cran-tsann Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-forecast, r-cran-gtools Filename: pool/dists/focal/main/r-cran-tsann_0.1.0-1.ca2004.1_all.deb Size: 19644 MD5sum: 01923bae7206e44f7dcf6616e8e1dcb0 SHA1: 08c2bf5a7986ab5886d0fc487cbe5b1438287f08 SHA256: c6306313c6c77c6e12c6e7f12f458d006807b26c502eaf44e70c4d6d3c3a95e9 SHA512: 5d7c477b879aa2b2fc325bff98ee080d89d4796c61f108c82e183bf71d9e198527f859ec8b33e29122ba2a001934992cb9930997109b1ca91b10136f05d57635 Homepage: https://cran.r-project.org/package=TSANN Description: CRAN Package 'TSANN' (Time Series Artificial Neural Network) The best ANN structure for time series data analysis is a demanding need in the present era. This package will find the best-fitted ANN model based on forecasting accuracy. 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Package: r-cran-tsci Architecture: all Version: 3.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-xgboost, r-cran-rfast, r-cran-ranger, r-cran-fastdummies Suggests: r-cran-fda, r-cran-mass, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-tsci_3.0.4-1.ca2004.1_all.deb Size: 178544 MD5sum: 6a4f2cab7467433d242cd04b782c4c80 SHA1: e3189a9dde3dd0a1d76a02c0cc226210e33992df SHA256: 07c2bae1ff5560e856423a45ab3516d5009288400747bcaea949a62867807f58 SHA512: 20b76faf35296933c2d4700399ce4d1ecff265e3d3f679acb0769d009b82ccc9ae4c4b64a256881ceeaba05cabcbf4c3d06eed47e02353308caee71f744b589b Homepage: https://cran.r-project.org/package=TSCI Description: CRAN Package 'TSCI' (Tools for Causal Inference with Possibly Invalid InstrumentalVariables) Two stage curvature identification with machine learning for causal inference in settings when instrumental variable regression is not suitable because of potentially invalid instrumental variables. Based on Guo and Buehlmann (2022) "Two Stage Curvature Identification with Machine Learning: Causal Inference with Possibly Invalid Instrumental Variables" . The vignette is available in Carl, Emmenegger, Bühlmann and Guo (2023) "TSCI: two stage curvature identification for causal inference with invalid instruments" . Package: r-cran-tsclust Architecture: all Version: 1.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 468 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-pdc, r-cran-cluster, r-cran-locpol, r-cran-kernsmooth, r-cran-dtw, r-cran-longitudinaldata, r-cran-forecast Filename: pool/dists/focal/main/r-cran-tsclust_1.3.2-1.ca2004.1_all.deb Size: 441076 MD5sum: deab3a48b3862ebcda6b6ff54d740292 SHA1: 3e30db387d2afe44fbd5a235b261ec4b212d439d SHA256: 5ee8bc18b606ab429f773e87c642389a70ae0fa267b0e50b24f73e45801b864a SHA512: 2d9cc2b7a4cd94e55755bde9a941ce31dad76f4b0ab0ff4bcdfaed3ee5ae691361380af8918df6034772c33d8bdfd4fa0cca986ab6b7f941988e030365bd9b14 Homepage: https://cran.r-project.org/package=TSclust Description: CRAN Package 'TSclust' (Time Series Clustering Utilities) A set of measures of dissimilarity between time series to perform time series clustering. 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Package: r-cran-tsdata Architecture: all Version: 2016.8-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1399 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-tframe, r-cran-tframeplus, r-cran-tfplot, r-cran-tsdbi, r-cran-tssql, r-cran-tspostgresql, r-cran-tsmysql, r-cran-tssqlite, r-cran-tsodbc, r-cran-tssdmx, r-cran-tsmisc, r-cran-tscompare, r-cran-zoo, r-cran-xts, r-cran-tseries, r-cran-writexls, r-cran-dbi, r-cran-rpostgresql, r-cran-rsqlite, r-cran-rmysql, r-cran-rodbc, r-cran-rjsdmx Filename: pool/dists/focal/main/r-cran-tsdata_2016.8-1-1.ca2004.1_all.deb Size: 1207996 MD5sum: c24aa3ed624cd88f380b305227be353f SHA1: b8c18e66ff83d55cbee8173ae9df113fdebcfe95 SHA256: b1b64358142691a212fed4312a26600c2e026972fb8796f6402233e8b2c71fb6 SHA512: f03b10ce4bd5556fb2ff10dbe42d7949e3a9b996778faf480c81e84dd218a247cfd1f63acae05323db753d81ba42a1806236f31601cdfdf4cc963ba183ffcd5d Homepage: https://cran.r-project.org/package=TSdata Description: CRAN Package 'TSdata' ('TSdbi' Illustration) Illustrates the various 'TSdbi' packages with a vignette using time series data from several sources. The vignette also illustrates some simple time series manipulation and plotting using packages 'tframe' and 'tfplot'. Package: r-cran-tsdataleaks Architecture: all Version: 2.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 345 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tibble, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-slider, r-cran-purrr, r-cran-cowplot, r-cran-plyr, r-cran-viridis Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tsdataleaks_2.1.1-1.ca2004.1_all.deb Size: 226520 MD5sum: a8759fc4b19513d453dda58a990071df SHA1: dff559e21b32e2c062937b0846a1d215ad9f39da SHA256: 7baca4d590d2b118ca9c2fb0c3d0aa140bf42c36630954d22e716b192575c12d SHA512: b4aaa1fdd07edf1a6af5b0d0e5dc83df9178e9ae56a3170619f1d10fc3b76f42d16e87569b82bfc05b912ddf0704ebde3a2b1504bb863866a9bbbe44d5564286 Homepage: https://cran.r-project.org/package=tsdataleaks Description: CRAN Package 'tsdataleaks' (Exploit Data Leakages in Time Series Forecasting Competitions) Forecasting competitions are of increasing importance as a mean to learn best practices and gain knowledge. Data leakage is one of the most common issues that can often be found in competitions. Data leaks can happen when the training data contains information about the test data. For example: randomly chosen blocks of time series are concatenated to form a new time series, scale-shifts, repeating patterns in time series, white noise is added in the original time series to form a new time series, etc. 'tsdataleaks' package can be used to detect data leakages in a collection of time series. Package: r-cran-tsdb Architecture: all Version: 1.1-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-datetimeutils, r-cran-fastmatch, r-cran-zoo Suggests: r-cran-data.table, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-tsdb_1.1-0-1.ca2004.1_all.deb Size: 61100 MD5sum: 7d17029dd79d2826f2433dfe2e2a8459 SHA1: 91cfdd20f6adc9d3d1d634b9b01664cefc34d9ac SHA256: 38effb546683e38c09592b21f9341f8a51e3f478a221224ba3ac55890a0d7d33 SHA512: 7f767d43c032de955838042dacd54693ffa317003c191178eb9faf7fbc139aabbab8ed4b652cacb9014bd927fb7cbafa1470841d89769943127cf8431c8d9935 Homepage: https://cran.r-project.org/package=tsdb Description: CRAN Package 'tsdb' (Terribly-Simple Data Base for Time Series) A terribly-simple data base for numeric time series, written purely in R, so no external database-software is needed. Series are stored in plain-text files (the most-portable and enduring file type) in CSV format. Timestamps are encoded using R's native numeric representation for 'Date'/'POSIXct', which makes them fast to parse, but keeps them accessible with other software. The package provides tools for saving and updating series in this standardised format, for retrieving and joining data, for summarising files and directories, and for coercing series from and to other data types (such as 'zoo' series). Package: r-cran-tsdbi Architecture: all Version: 2017.4-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 407 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tframe Suggests: r-cran-zoo, r-cran-tseries, r-cran-tis, r-cran-tfplot, r-cran-tframeplus Filename: pool/dists/focal/main/r-cran-tsdbi_2017.4-1-1.ca2004.1_all.deb Size: 311940 MD5sum: f3e578c80551cf6e46a16ef0ab6cf3db SHA1: c9fd35f33770faffc25686d0d9a65d04bfe4b514 SHA256: 233ffab52ad559d3c99df1171024303f11db9b2e04671cab3642b6d8db37e8d9 SHA512: d591bb5eee695b3ca18fbade3eab66b1cf9d68b740807709bfcba35a810ddcf054128cf2f9525a26f3b02b5fcbde3047b2c80f25c828050acf34a93770f55b19 Homepage: https://cran.r-project.org/package=TSdbi Description: CRAN Package 'TSdbi' (Time Series Database Interface) Provides a common interface to time series databases. The objective is to define a standard interface so users can retrieve time series data from various sources with a simple, common, set of commands, and so programs can be written to be portable with respect to the data source. The SQL implementations also provide a database table design, so users needing to set up a time series database have a reasonably complete way to do this easily. The interface provides for a variety of options with respect to the representation of time series in R. The interface, and the SQL implementations, also handle vintages of time series data (sometime called editions or real-time data). There is also a (not yet well tested) mechanism to handle multilingual data documentation. Comprehensive examples of all the 'TS*' packages is provided in the vignette Guide.pdf with the 'TSdata' package. Package: r-cran-tsdecomp Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 237 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tsdecomp_0.2-1.ca2004.1_all.deb Size: 201928 MD5sum: e3b4026622c3de983183a18e29282ddf SHA1: 904b97cf810d097c439c00aaf46bd6559ca895f1 SHA256: b99ad50edd0a8b7aba35de93dd5b742d422e63b987e39ac7acf874eda5fbe933 SHA512: 2f170dd1758ce3cad78fb1906728e6408f36b260cee1af25e3549e8443b9f23ff739930779b3ee146be4e3e02b5eaee8113457fa9923f85fb1e03c0d1369addf Homepage: https://cran.r-project.org/package=tsdecomp Description: CRAN Package 'tsdecomp' (Decomposition of Time Series Data) ARIMA-model-based decomposition of quarterly and monthly time series data. The methodology is developed and described, among others, in Burman (1980) and Hillmer and Tiao (1982) . Package: r-cran-tsdeeplearning Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-keras, r-cran-tensorflow, r-cran-reticulate, r-cran-tsutils, r-bioc-biocgenerics, r-cran-magrittr Filename: pool/dists/focal/main/r-cran-tsdeeplearning_0.1.0-1.ca2004.1_all.deb Size: 37436 MD5sum: 0fc797e7fd7adf8c2e50790d21ac192e SHA1: 3f4eb0e27c8d7d69b9c9df564d6323a247759b3d SHA256: bf3e5e5e9febb102169da01b136b90e59a4effc971d53c1a8a2542c410a4d4ed SHA512: de744f2c009a249df674b8020593a077bcc961e4e1558cafb06a9a341ad9f0a807a91bbc8e9fe96349e821fb301e2232e7f59cf2c11bc8f5bcf6bc45bc7bd9a0 Homepage: https://cran.r-project.org/package=TSdeeplearning Description: CRAN Package 'TSdeeplearning' (Deep Learning Model for Time Series Forecasting) RNNs are preferred for sequential data like time series, speech, text, etc. but when dealing with long range dependencies, vanishing gradient problems account for their poor performance. LSTM and GRU are effective solutions which are nothing but RNN networks with the abilities of learning both short-term and long-term dependencies. Their structural makeup enables them to remember information for a long period without any difficulty. LSTM consists of one cell state and three gates, namely, forget gate, input gate and output gate whereas GRU comprises only two gates, namely, reset gate and update gate. This package consists of three different functions for the application of RNN, LSTM and GRU to any time series data for its forecasting. For method details see Jaiswal, R. et al. (2022). . Package: r-cran-tsdf Architecture: all Version: 1.1-8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 998 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-tsdf_1.1-8-1.ca2004.1_all.deb Size: 423440 MD5sum: da7132d8b5fda23bd9fa02b356ff544c SHA1: b69505a0593a03b3f5c9a4077d6aa0021a2e6b37 SHA256: 879ac1996fc5b2280e45d83e1b9edd69d74ef2fd3e44c7f372152fb4c9a4a173 SHA512: a574751d2bfebb2701a98380bbb37744af20cb0ee585de112ead1d2789f4b75667fad467996c85d7f7eb945c2d03a580cf651fbce4d1aa8bd96d411ba977350d Homepage: https://cran.r-project.org/package=tsdf Description: CRAN Package 'tsdf' (Two-/Three-Stage Designs for Phase 1&2 Clinical Trials) Calculate optimal Zhong's two-/three-stage Phase II designs (see Zhong (2012) ). Generate Target Toxicity decision table for Phase I dose-finding (two-/three-stage). This package also allows users to run dose-finding simulations based on customized decision table. Package: r-cran-tsdisagg2 Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 445 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-r.rsp Filename: pool/dists/focal/main/r-cran-tsdisagg2_0.1.0-1.ca2004.1_all.deb Size: 342432 MD5sum: 97a7a65b9d72a6a0d60f414bf8a32f15 SHA1: b357c8eab96d0e1b85999f2bfe3ca8dd5e57b89b SHA256: 491b8df0e13ff7c1f03d55d911206367e0282f536df31518442f481705248154 SHA512: 8a2b3c3c7ee4b93cfe4b4dd6002be4741c825578d3a30e6686fe07e1eaed67cc41707f088a80f85f99ab26a046e15284233fffdd69e8c42c6f4e6a3981058ced Homepage: https://cran.r-project.org/package=tsdisagg2 Description: CRAN Package 'tsdisagg2' (Time Series Disaggregation) Disaggregates low frequency time series data to higher frequency series. Implements the following methods for temporal disaggregation: Boot, Feibes and Lisman (1967) , Chow and Lin (1971) , Fernandez (1981) and Litterman (1983) . Package: r-cran-tsdisaggregation Architecture: all Version: 2.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rdpack, r-cran-zoo, r-cran-lars, r-cran-matrix, r-cran-withr Filename: pool/dists/focal/main/r-cran-tsdisaggregation_2.0.0-1.ca2004.1_all.deb Size: 63576 MD5sum: 9ca3c30689c2c5d9ec7b46ba5c014e65 SHA1: 2807531568ae82282264f19cc95152148849321f SHA256: e64bbc9f5c4b36e3f695a72ef0a612e605ce1c528723789c94ca1222e73047ab SHA512: 18c458ac5f9766902f2e400a8a6d1477afed2459be3088cb827b865aea2d10cf17ea5c626983b9b9dc6f45af6f1c802a006bcd81177f45ce407398632ddd1c41 Homepage: https://cran.r-project.org/package=TSdisaggregation Description: CRAN Package 'TSdisaggregation' (High-Dimensional Temporal Disaggregation) First - Generates (potentially high-dimensional) high-frequency and low-frequency series for simulation studies in temporal disaggregation; Second - a toolkit utilizing temporal disaggregation and benchmarking techniques with a low-dimensional matrix of indicator series previously proposed in Dagum and Cholette (2006, ISBN:978-0-387-35439-2) ; and Third - novel techniques proposed by Mosley, Gibberd and Eckley (2021) for disaggregating low-frequency series in the presence of high-dimensional indicator matrices. Package: r-cran-tsdt Architecture: all Version: 1.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 526 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-mlbench, r-cran-hash, r-cran-party, r-cran-rpart, r-cran-survival, r-cran-survrm2, r-cran-modeltools Filename: pool/dists/focal/main/r-cran-tsdt_1.0.8-1.ca2004.1_all.deb Size: 457196 MD5sum: a1433ede3b0cc3461db62dc360e1eff9 SHA1: 2d6288eb941615dab7a85c08b438c8e11b162408 SHA256: 7bde639c95874e6ff219ffc2bbaafb7db484992b21c2ae837043c4e7fb7bc065 SHA512: 09b3aa68bdbda4c3a5a8226a36a75f79ff57463142595149d18e45849ebd37ba4caf944cbd766ba822c7914a33d5644af50ea7c49d3467b321f61e9ef61b6764 Homepage: https://cran.r-project.org/package=TSDT Description: CRAN Package 'TSDT' (Treatment-Specific Subgroup Detection Tool) Implements a method for identifying subgroups with superior response relative to the overall sample. Package: r-cran-tse Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tse_0.1.0-1.ca2004.1_all.deb Size: 58732 MD5sum: 94ee174d63dd02001590c83550e7725f SHA1: 96522df47cf4ae7e07cf116c0c562c5d4739d2a0 SHA256: 4650c77cea4a22a130c64c3e686ecefcc32813616d89b5cf46201a2100871094 SHA512: be530acb74bac8c26438327c263d6fd9dafea7c85bbd585656f1d8f976e1e1ba08010da950950d17487611ef8baf98f0a19122fe7ba18b721b93add330884cbc Homepage: https://cran.r-project.org/package=TSE Description: CRAN Package 'TSE' (Total Survey Error) Calculates total survey error (TSE) for one or more surveys, using common scale-dependent and/or scale-independent metrics. On TSE, see: Weisberg, Herbert (2005, ISBN:0-226-89128-3); Biemer, Paul (2010) . Package: r-cran-tseal Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1868 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bigmemory, r-cran-caret, r-cran-checkmate, r-cran-magrittr, r-cran-mass, r-cran-parallelly, r-cran-pryr, r-cran-statcomp, r-cran-synchronicity, r-cran-waveslim, r-cran-wdm Suggests: r-cran-spelling, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tseal_0.1.3-1.ca2004.1_all.deb Size: 1870036 MD5sum: 56f989a4afb1e3ee3e88f9cfb2e62644 SHA1: 0336edaad013712ba5bb1f59dfb31ec47f656f53 SHA256: 7295b7f9f9b7d2a087c5394d37388501c3f64d55fd6e289f48d407c8fba72b80 SHA512: b265cdab348ed75499276a56e70ddece7b52192ce25ef55566062fda73e59b0038a1426ddf01c335a4d8f2ce3de51701f4ff8281ed1d93afbb605b55d18abd53 Homepage: https://cran.r-project.org/package=TSEAL Description: CRAN Package 'TSEAL' (Time Series Analysis Library) The library allows to perform a multivariate time series classification based on the use of Discrete Wavelet Transform for feature extraction, a step wise discriminant to select the most relevant features and finally, the use of a linear or quadratic discriminant for classification. Note that all these steps can be done separately which allows to implement new steps. Velasco, I., Sipols, A., de Blas, C. S., Pastor, L., & Bayona, S. (2023) . Percival, D. B., & Walden, A. T. (2000,ISBN:0521640687). Maharaj, E. A., & Alonso, A. M. (2014) . Package: r-cran-tseind Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tseind_0.1.0-1.ca2004.1_all.deb Size: 57900 MD5sum: e21fe07b37b2aad6702239fbc2709be5 SHA1: f4b49b62f3865edeaba9c3cb0857bdf6c40d9a30 SHA256: 786b4c7bfbea776cb4579e353707c3543392252887ff843f84c24b6b44fc9763 SHA512: c619c3eab58c53e10330e6aa45588042da29f2816659530657062dbc888ea744e80e515b9f2cb1d2f410eec826693b51ca8d00889a85b93916850694bdd12fa1 Homepage: https://cran.r-project.org/package=TSEind Description: CRAN Package 'TSEind' (Total Survey Error (Independent Samples)) Calculates total survey error (TSE) for one or more surveys, using both scale-dependent and scale-independent metrics. Package works directly from the data set, with no hand calculations required: just upload a properly structured data set (see TESTIND and its documentation), properly input column names (see functions documentation), and run your functions. For more on TSE, see: Weisberg, Herbert (2005, ISBN:0-226-89128-3); Biemer, Paul (2010) ; Biemer, Paul et.al. (2017, ISBN:9781119041672); etc. Package: r-cran-tsensembler Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 618 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xts, r-cran-zoo, r-cran-rcpproll, r-cran-ranger, r-cran-glmnet, r-cran-earth, r-cran-kernlab, r-cran-cubist, r-cran-gbm, r-cran-pls, r-cran-monmlp, r-cran-doparallel, r-cran-foreach, r-cran-xgboost, r-cran-softimpute Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tsensembler_0.1.0-1.ca2004.1_all.deb Size: 496236 MD5sum: 43a19ba5e7313554ec652f5c03213880 SHA1: e1f3612e289874eb08de4d2b25d321bd33d45370 SHA256: 5c70cfc79cc3752c44c118aa1b927b6c69aea8904429a156c438b04e05f80cfb SHA512: 782103cdde7c90c2914c386cc2fdcceb6e78a8ef9981804ae2a270e50f9236f47f8da43c5e698581dd2b306af0924617e3575763c254540b556c0dd9018fe162 Homepage: https://cran.r-project.org/package=tsensembler Description: CRAN Package 'tsensembler' (Dynamic Ensembles for Time Series Forecasting) A framework for dynamically combining forecasting models for time series forecasting predictive tasks. It leverages machine learning models from other packages to automatically combine expert advice using metalearning and other state-of-the-art forecasting combination approaches. The predictive methods receive a data matrix as input, representing an embedded time series, and return a predictive ensemble model. The ensemble use generic functions 'predict()' and 'forecast()' to forecast future values of the time series. Moreover, an ensemble can be updated using methods, such as 'update_weights()' or 'update_base_models()'. A complete description of the methods can be found in: Cerqueira, V., Torgo, L., Pinto, F., and Soares, C. "Arbitrated Ensemble for Time Series Forecasting." to appear at: Joint European Conference on Machine Learning and Knowledge Discovery in Databases. Springer International Publishing, 2017; and Cerqueira, V., Torgo, L., and Soares, C.: "Arbitrated Ensemble for Solar Radiation Forecasting." International Work-Conference on Artificial Neural Networks. Springer, 2017 . Package: r-cran-tsentiment Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-reshape2, r-cran-wordcloud, r-cran-ggplot2, r-cran-httr, r-cran-syuzhet, r-cran-tidytext, r-cran-dplyr, r-cran-tibble, r-cran-stringi Filename: pool/dists/focal/main/r-cran-tsentiment_1.0.5-1.ca2004.1_all.deb Size: 41768 MD5sum: 0ddaaa2c37c63616c32549b05f001663 SHA1: 37817e741fcae469c1c1f363b267e7e7a32c759a SHA256: 0b86800bf59d827587561c1fa05271f43b0974cd440584f309c27185abd9178a SHA512: db0cb2debd91bcd524d0af6f21dd9bbf5249e3543bf345d9ff2220db01957ece96e2593142c7e885b8af4e085a316040c2a9de3b332b00bbf0553808ad2dc2f7 Homepage: https://cran.r-project.org/package=tsentiment Description: CRAN Package 'tsentiment' (Fetching Tweet Data for Sentiment Analysis) Which uses Twitter APIs for the necessary data in sentiment analysis, acts as a middleware with the approved Twitter Application. A special access key is given to users who subscribe to the application with their Twitter account. With this special access key, the user defined keyword for sentiment analysis can be searched in twitter recent searches and results can be obtained( more information ). In addition, a service named tsentiment-services has been developed to provide all these operations ( for more information ). After the successful results obtained and in line with the permissions given by the user, the results of the analysis of the word cloud and bar graph saved in the user folder directory can be seen. In each analysis performed, the previous analysis visual result is deleted and this is the basic information you need to know as a practice rule. 'tsentiment' package provides a free service that acts as a middleware for easy data extraction from Twitter, and in return, the user rate limit is reduced by 30 requests from the total limit and the remaining requests are used. These 30 requests are reserved for use in application analytics. For information about endpoints, you can refer to the limit information in the "GET search/tweets" row in the Endpoints column in the list at . Package: r-cran-tseriesmma Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tseriesmma_0.1.1-1.ca2004.1_all.deb Size: 15816 MD5sum: c9b415c884e4d1019708ea9dfc9145ab SHA1: 200957ce962c6d5f8cf55e522a6e7036106667dc SHA256: 4d443907aeaf6434a40cc7b5cfe132d94904a5a316c362d1c82953952239bc43 SHA512: 8bdc783dd7a5a92816286b079e493c3bdd39e456b87a408aba173363e166d5273d6c3b260451e0fe3f0d4d36781fd186f5e5be61f4812acf7b1cc39cc1f44f76 Homepage: https://cran.r-project.org/package=TSeriesMMA Description: CRAN Package 'TSeriesMMA' (Multiscale Multifractal Analysis of Time Series Data) Multiscale multifractal analysis (MMA) (Gierałtowski et al., 2012) is a time series analysis method, designed to describe scaling properties of fluctuations within the signal analyzed. The main result of this procedure is the so called Hurst surface h(q,s) , which is a dependence of the local Hurst exponent h (fluctuation scaling exponent) on the multifractal parameter q and the scale of observation s (data window width). 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Package: r-cran-tsewgt Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-tsewgt_0.1.0-1.ca2004.1_all.deb Size: 58008 MD5sum: 545bd33381b769948f9795a765feed68 SHA1: aa547cbc849edd21645abf009f1ffe52020f999c SHA256: d832552525966e292fc64527d3755c34b61f7bd9e83179e85b9cad4573c276da SHA512: 7a84002a96ef8e93dbd888b3faaf0abce63d25945982b49bd99a22ba0fcf8606c730a2b3e7ef4fd63337e7da5a93d43613871728652f011e8da21f9150c93e79 Homepage: https://cran.r-project.org/package=TSEwgt Description: CRAN Package 'TSEwgt' (Total Survey Error Under Multiple, Different Weighting Schemes) Calculates total survey error (TSE) for a survey under multiple, different weighting schemes, using both scale-dependent and scale-independent metrics. Package works directly from the data set, with no hand calculations required: just upload a properly structured data set (see TESTWGT and its documentation), properly input column names (see functions documentation), and run your functions. For more on TSE, see: Weisberg, Herbert (2005, ISBN:0-226-89128-3); Biemer, Paul (2010) ; Biemer, Paul et.al. (2017, ISBN:9781119041672); etc. Package: r-cran-tsf Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fracdiff, r-cran-forecast Filename: pool/dists/focal/main/r-cran-tsf_0.1.1-1.ca2004.1_all.deb Size: 21272 MD5sum: bf66841f03207d7da25d1569758b25e6 SHA1: 691e3cff3b5fd6a19983d5b47b68d14cff51e458 SHA256: 5248a6c34070db1042555290cb10aa18467f4dcec048316f45a67aff4bbaa14b SHA512: e6d659adc61412af3ef7e43379257b130665b5767558d6730364a6149b1311ff53a0d740fc96e35ca4380b8f0fa54b0e1eb172bb2040d48807f2dac292d4a1e7 Homepage: https://cran.r-project.org/package=TSF Description: CRAN Package 'TSF' (Two Stage Forecasting (TSF) for Long Memory Time Series inPresence of Structural Break) Forecasting of long memory time series in presence of structural break by using TSF algorithm by Papailias and Dias (2015) . Package: r-cran-tsfame Architecture: all Version: 2015.4-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 244 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tsdbi, r-cran-dbi, r-cran-tframe, r-cran-tframeplus, r-cran-fame, r-cran-tis Suggests: r-cran-tseries, r-cran-tfplot, r-cran-zoo Filename: pool/dists/focal/main/r-cran-tsfame_2015.4-1-1.ca2004.1_all.deb Size: 163980 MD5sum: 1ab8cdee3088cf55263e608a781169c4 SHA1: 0524375c86a5df65535093a815134d3158194326 SHA256: 431392e68341e5882db09b9b6ffbdd059382092d5a577ae2f747fbb296d02c58 SHA512: bb170128b8bd6183a725e4897027290080049323709ed3bca57a11084c7f6cf8ea50230ede95e08ee4dc3444e3d401f15c9103354595c601ff8b42b91a0db4dd Homepage: https://cran.r-project.org/package=TSfame Description: CRAN Package 'TSfame' ('TSdbi' Extensions for Fame) A 'fame' interface for 'TSdbi'. Comprehensive examples of all the 'TS*' packages is provided in the vignette Guide.pdf with the 'TSdata' package. Package: r-cran-tsfeatures Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 377 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fracdiff, r-cran-forecast, r-cran-purrr, r-cran-rcpproll, r-cran-tibble, r-cran-tseries, r-cran-urca, r-cran-future, r-cran-furrr Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-tidyr, r-cran-dplyr, r-cran-mcomp, r-cran-ggally Filename: pool/dists/focal/main/r-cran-tsfeatures_1.1.1-1.ca2004.1_all.deb Size: 239052 MD5sum: be277e4b8bf0d1e52b9cd1701dd274c9 SHA1: 4b5a93220a36228b084c258ef3e9a80617a46c11 SHA256: 62914bc7cada1f84a84b41eed1a3e81715a4983c70b0b05cfcc5d76c391bf2f7 SHA512: 810cd80417ca168910ae45602a6de04ff5510fbb117a8803661b062602ffd91ed9d2960510049460a1415dc6b3a8d4580067e7d463723da372ccbcf2b2f6ecf1 Homepage: https://cran.r-project.org/package=tsfeatures Description: CRAN Package 'tsfeatures' (Time Series Feature Extraction) Methods for extracting various features from time series data. The features provided are those from Hyndman, Wang and Laptev (2013) , Kang, Hyndman and Smith-Miles (2017) and from Fulcher, Little and Jones (2013) . Features include spectral entropy, autocorrelations, measures of the strength of seasonality and trend, and so on. Users can also define their own feature functions. Package: r-cran-tsfngm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 46 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tsfngm_0.1.0-1.ca2004.1_all.deb Size: 15584 MD5sum: 09e3fdafec6e64bdba964aea1bb773d4 SHA1: 26cc842df673fc5847ed35b27ff02795f2209412 SHA256: 0c74ed8934a388959a45eadf6aa3aab31609df7dddc61a1a801afecaad05576d SHA512: 305c65222e9b8a3caff844c17725d8c5450ca05d9ac09318e5f9a3f8507ffd04f90325ce32a400f55cc9f57be7e49a4041a60ed36720d6d962d8b939e5354c27 Homepage: https://cran.r-project.org/package=tsfngm Description: CRAN Package 'tsfngm' (Time Series Forecasting using Nonlinear Growth Models) Nonlinear growth models are extremely useful in gaining insight into the underlying mechanism. These models are generally 'mechanistic,' with parameters that have biological meaning. This package allows you to fit and forecast time series data using nonlinear growth models. Package: r-cran-tsgc Architecture: all Version: 0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1208 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-kfas, r-cran-xts, r-cran-ggplot2, r-cran-ggthemes, r-cran-zoo, r-cran-magrittr, r-cran-scales, r-cran-dplyr, r-cran-tidyr Suggests: r-cran-ggfortify, r-cran-knitr, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-ggforce, r-cran-gridextra, r-cran-latex2exp, r-cran-here, r-cran-timetk, r-cran-testthat, r-cran-purrr, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-tsgc_0.0-1.ca2004.1_all.deb Size: 839852 MD5sum: 257c67b2e0ae949062f8b16e608d86cc SHA1: 748469e77bcc3ade8d6cee2c6280982d21c2517b SHA256: 0b9aa39f098d1e29465f6233153a1eea5eabcf8c753196837d79d2b320dc24de SHA512: 1b3a030af2983d5fff7538bee78a9c824d2b8006a153afd73eb991cf289db4b7c167b733b0df43fd865c2dce9ad5223f7445432b43e860656c34aff960eab61b Homepage: https://cran.r-project.org/package=tsgc Description: CRAN Package 'tsgc' (Time Series Methods Based on Growth Curves) The 'tsgc' package provides comprehensive tools for the analysis and forecasting of epidemic trajectories. It is designed to model the progression of an epidemic over time while accounting for the various uncertainties inherent in real-time data. Underpinned by a dynamic Gompertz model, the package adopts a state space approach, using the Kalman filter for flexible and robust estimation of the non-linear growth pattern commonly observed in epidemic data. The reinitialization feature enhances the model’s ability to adapt to the emergence of new waves. The forecasts generated by the package are of value to public health officials and researchers who need to understand and predict the course of an epidemic to inform decision-making. Beyond its application in public health, the package is also a useful resource for researchers and practitioners in fields where the trajectories of interest resemble those of epidemics, such as innovation diffusion. The package includes functionalities for data preprocessing, model fitting, and forecast visualization, as well as tools for evaluating forecast accuracy. The core methodologies implemented in 'tsgc' are based on well-established statistical techniques as described in Harvey and Kattuman (2020) , Harvey and Kattuman (2021) , and Ashby, Harvey, Kattuman, and Thamotheram (2024) . Package: r-cran-tsgs Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-caret, r-bioc-edger, r-cran-fastmatch, r-cran-genalg, r-cran-kernlab, r-cran-e1071 Filename: pool/dists/focal/main/r-cran-tsgs_1.0-1.ca2004.1_all.deb Size: 59520 MD5sum: 5c9de7c4c90a88f8a5afaeb1ae4bc37a SHA1: e74a3b819c334fb586fb57ce188e671af2473d7c SHA256: 0177d94b315b2672c309c35c30064a4effe522e0b7b4692e50ccb30f275c140e SHA512: 65df0d58cd984dd6491c7b6dfed4d20a3fdc0676e80a57bb349974ac6b22b3bbfbbbf6c631c4232c727b79d1f559a8de90c9d029c9eb112cfd52704b4c6e295b Homepage: https://cran.r-project.org/package=TSGS Description: CRAN Package 'TSGS' (Trait Specific Gene Selection using SVM and GA) Obtaining relevant set of trait specific genes from gene expression data is important for clinical diagnosis of disease and discovery of disease mechanisms in plants and animals. This process involves identification of relevant genes and removal of redundant genes as much as possible from a whole gene set. This package returns the trait specific gene set from the high dimensional RNA-seq count data by applying combination of two conventional machine learning algorithms, support vector machine (SVM) and genetic algorithm (GA). GA is used to control and optimize the subset of genes sent to the SVM for classification and evaluation. Genetic algorithm uses repeated learning steps and cross validation over number of possible solution and selects the best. The algorithm selects the set of genes based on a fitness function that is obtained via support vector machines. Using SVM as the classifier performance and the genetic algorithm for feature selection, a set of trait specific gene set is obtained. Package: r-cran-tsgsis Architecture: all Version: 0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-mass Filename: pool/dists/focal/main/r-cran-tsgsis_0.1-1.ca2004.1_all.deb Size: 30200 MD5sum: 9b8e4e6d69b3bd133beda7b603e1e28a SHA1: 82a96bf55a4afb8a7f7013ada765c52e68460aea SHA256: fc25068eb841ce1d0c2a0f3bb08a711a42fd4835217846b350f261cfdd480c3d SHA512: 13ec800144d674e98c98572d3f947edf50b7e26251183b30634a4969f829751a185410162f2d03de2e37decb922bd15ddd029d37e439d3b12f13b2689f481b10 Homepage: https://cran.r-project.org/package=TSGSIS Description: CRAN Package 'TSGSIS' (Two Stage-Grouped Sure Independence Screening) To provide a high dimensional grouped variable selection approach for detection of whole-genome SNP effects and SNP-SNP interactions, as described in Fang et al. (2017, under review). 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These datasets are useful for learning and demonstrating how tidy temporal data can tidied, visualised, and forecasted. Package: r-cran-tsibbletalk Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 853 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-crosstalk, r-cran-dendextend, r-cran-dplyr, r-cran-glue, r-cran-lubridate, r-cran-plotly, r-cran-r6, r-cran-rlang, r-cran-shiny, r-cran-tsibble, r-cran-vctrs Suggests: r-cran-fabletools, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-tsibbletalk_0.1.0-1.ca2004.1_all.deb Size: 647448 MD5sum: 67afcfbd1394932899cdde1e04a3f6fe SHA1: 7222b89064025aad1c35f1c480b0752445473abb SHA256: 720390976ec4586d4794f4576da7795ef798b3d81dc9dbcafc5eb0a4407c3199 SHA512: 520316c959f6c900d4cf440b185cdd897051dd4620e94a0d3892a365100434340fee18d9cb4adda4f43e79bf99d08caed0eb93c2332a1a601eeaeefad9115544 Homepage: https://cran.r-project.org/package=tsibbletalk Description: CRAN Package 'tsibbletalk' (Interactive Graphics for Tsibble Objects) A shared tsibble data easily communicates between htmlwidgets on both client and server sides, powered by 'crosstalk'. A shiny module is provided to visually explore periodic/aperiodic temporal patterns. Package: r-cran-tsintermittent Architecture: all Version: 1.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 143 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-mapa Filename: pool/dists/focal/main/r-cran-tsintermittent_1.10-1.ca2004.1_all.deb Size: 111600 MD5sum: 006ac6e27d43380a2c13d07797a89f1b SHA1: 73b9297e7f252cee32672d760897a0133318b136 SHA256: 067824c16bc56e85f510e5bcb531f972ccf90a027ed333e567ff50a72e6ef891 SHA512: 7d3e9604aa1ca5131c6b5e8afd8327924afc2b21f091387c51eb62bd1c76472d2ec88ac32aea7c8f54525aa6a402617efcfec31ebfc733383f7140c12aa3b353 Homepage: https://cran.r-project.org/package=tsintermittent Description: CRAN Package 'tsintermittent' (Intermittent Time Series Forecasting) Time series methods for intermittent demand forecasting. Includes Croston's method and its variants (Moving Average, SBA), and the TSB method. Users can obtain optimal parameters on a variety of loss functions, or use fixed ones (Kourenztes (2014) ). Intermittent time series classification methods and iMAPA that uses multiple temporal aggregation levels are also provided (Petropoulos & Kourenztes (2015) ). Package: r-cran-tsir Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 373 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-kernlab, r-cran-reshape2 Filename: pool/dists/focal/main/r-cran-tsir_0.4.3-1.ca2004.1_all.deb Size: 344932 MD5sum: f3c3425c55ef37d3d13e4df8f37866be SHA1: 53a29bd372cc31dc5941609a59a00afdc0f8cef4 SHA256: 7e4bd6a0abad4f585b65c43a83775d0cbe1646a26dcb1f33a03d617113ca295b SHA512: a2af1d3b81ffd823edf77d4d21342c7cc64f7b47a38dae86bb0207c9ea719e87f520173b198e03b1015bdff42c654bdd06100628db9df92aa2bd4c6c6a0c7ca3 Homepage: https://cran.r-project.org/package=tsiR Description: CRAN Package 'tsiR' (An Implementation of the TSIR Model) An implementation of the time-series Susceptible-Infected-Recovered (TSIR) model using a number of different fitting options for infectious disease time series data. The manuscript based on this package can be found here . The method implemented here is described by Finkenstadt and Grenfell (2000) . Package: r-cran-tslstm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 54 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-keras, r-cran-tensorflow, r-cran-tsutils Filename: pool/dists/focal/main/r-cran-tslstm_0.1.0-1.ca2004.1_all.deb Size: 23392 MD5sum: 2246cf70c6a86d3c3dd06f158be73a42 SHA1: 23bbf1cd9fbd1020fc969d589aaa02d49db0f632 SHA256: aeb97f237dc9cd2a216f5f56c8784ffe19ad9f570d4f349c6b00fe97ee495ef1 SHA512: 3c2fdee3b11992f4653b5c24fe39ba5b5bf16b479af7b09b7ac40f71ad060e83fefbc5a0d751949829d3b101d215122fd2fd872af35b8ebddf87e040b7cc2e92 Homepage: https://cran.r-project.org/package=TSLSTM Description: CRAN Package 'TSLSTM' (Long Short Term Memory (LSTM) Model for Time Series Forecasting) The LSTM (Long Short-Term Memory) model is a Recurrent Neural Network (RNN) based architecture that is widely used for time series forecasting. Min-Max transformation has been used for data preparation. Here, we have used one LSTM layer as a simple LSTM model and a Dense layer is used as the output layer. Then, compile the model using the loss function, optimizer and metrics. This package is based on Keras and TensorFlow modules and the algorithm of Paul and Garai (2021) . 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Customizable configurations for the model are allowed, improving the capabilities and usability of this model compared to other packages. This package is based on 'keras' and 'tensorflow' modules and the algorithm of Paul and Garai (2021) . Package: r-cran-tslstmx Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-tensorflow, r-cran-allmetrics, r-cran-keras, r-cran-reticulate Filename: pool/dists/focal/main/r-cran-tslstmx_0.1.0-1.ca2004.1_all.deb Size: 66972 MD5sum: a05ade10d85b7cdf30e04ba0a74a809d SHA1: e77e7e3b2144dfca7d3c0df5a9a71830d1edb914 SHA256: bc60f70c187419ff52c42ce9d3bad4598c33c9c192db944328cd2d6b3948c33b SHA512: 55c409e910900c5474d8e0ab7158311591f52d41a2b3cb126f0b852f29ae381cb40997e133bf101bac891bc3858d2c6759e9414a7d69715904c3088dc0fd28d5 Homepage: https://cran.r-project.org/package=tsLSTMx Description: CRAN Package 'tsLSTMx' (Predict Time Series Using LSTM Model Including ExogenousVariable to Denote Zero Values) It is a versatile tool for predicting time series data using Long Short-Term Memory (LSTM) models. 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Package: r-cran-tsmcp Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-plus, r-cran-lars Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-tsmcp_1.0-1.ca2004.1_all.deb Size: 43748 MD5sum: c1510a8ac77060b7d45839064a03534c SHA1: 2e9b0faf8342ff6f97bb67cf84cd6560232fc42b SHA256: 6c9ff3816dc716c8db39f5342bb6d55cc861433b3116eba99d471c881384a64d SHA512: da9aab18beb2e1cf3c2df8dd6c81364e9c1c8c9ad631640a02e8fb65ff59c9d2ebf04481be658b000bedb0a6fb160ba14158b090d95f9a166a2998ea28c3ef0f Homepage: https://cran.r-project.org/package=TSMCP Description: CRAN Package 'TSMCP' (Fast Two Stage Multiple Change Point Detection) A novel and fast two stage method for simultaneous multiple change point detection and variable selection for piecewise stationary autoregressive (PSAR) processes and linear regression model. 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Package: r-cran-tsmethods Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 129 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-zoo, r-cran-xts, r-cran-data.table Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-tsmethods_1.0.2-1.ca2004.1_all.deb Size: 93484 MD5sum: c52136f53d9c152b4835809f88bacd08 SHA1: 5fdc1ae4e20b410ea7131cc6f305212ce705c3b9 SHA256: 75b0d8d7c23cc79b685e2977bae773e20fb4f29e4ae816b0c34114b5a27539ea SHA512: eef227d5a477dd90ece13ab9cadc4de09574913aa1297b3c1661b3e866fa39d3d1ba5401aeab9feb6c8e83408b2d0b019152bda08ca570919e37c302024bed34 Homepage: https://cran.r-project.org/package=tsmethods Description: CRAN Package 'tsmethods' (Time Series Methods) Generic methods for use in a time series probabilistic framework, allowing for a common calling convention across packages. Additional methods for time series prediction ensembles and probabilistic plotting of predictions is included. 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Package: r-cran-tsmining Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 923 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-foreach, r-cran-ggplot2, r-cran-plyr, r-cran-reshape2 Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-tsmining_1.0-1.ca2004.1_all.deb Size: 633340 MD5sum: e20cfc23c41fd3e43d2ff8d650d2ae7e SHA1: 781dd859e22475c52026e4a51250208242c78b29 SHA256: 4bafa8ce774a618b5f7d716e62fc54aadc8b3f84131cadcd39e51af56894b954 SHA512: f5abc32fd1af820aebfd3203a1d7a4bbb82c34334bc08c58602e4831eafca0a0e0ec0416614f768299067a42b712949d556577c2f0bf433fbf3879b77482c18b Homepage: https://cran.r-project.org/package=TSMining Description: CRAN Package 'TSMining' (Mining Univariate and Multivariate Motifs in Time-Series Data) Implementations of a number of functions used to mine numeric time-series data. 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Package: r-cran-tspredit Architecture: all Version: 1.2.727-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 262 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-desctools, r-cran-e1071, r-cran-elmnnrcpp, r-cran-fnn, r-cran-forecast, r-cran-hht, r-cran-kfas, r-cran-mfilter, r-cran-nnet, r-cran-randomforest, r-cran-wavelets, r-cran-dplyr, r-cran-daltoolbox Filename: pool/dists/focal/main/r-cran-tspredit_1.2.727-1.ca2004.1_all.deb Size: 216092 MD5sum: 92518d46f5c3fc501b103c19584413d6 SHA1: 2d1f3d99d52626ffb7b2891b3a5502ee033331b8 SHA256: 9949a2d787a8100f6d5f9eea32c8032a76b2768c6f445e2ed6c4bc76712dfecd SHA512: 4c33620f63d016c28f0bf872bd10051684ca3990658fb132cb2ecbefa008a7223ac9db29de04abaea2a3c8f3e72be95354e60c3445bf4e08ae8b095128e7db8f Homepage: https://cran.r-project.org/package=tspredit Description: CRAN Package 'tspredit' (Time Series Prediction with Integrated Tuning) Time series prediction is a critical task in data analysis, requiring not only the selection of appropriate models, but also suitable data preprocessing and tuning strategies. 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Package: r-cran-tsqn Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 83 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-robustbase, r-cran-mass, r-cran-fracdiff Filename: pool/dists/focal/main/r-cran-tsqn_1.0.0-1.ca2004.1_all.deb Size: 53144 MD5sum: 621168042f980c314a6b87ff0a114ab6 SHA1: beb8bd5990ff2a29eccbf63086db64cf25aa24f4 SHA256: 48925387c0f79f038b1379251c56828d040c05d2a4c814322f1f4566508bf940 SHA512: 5153f54007774ad8f4f7c5637dbca31fbfb4e1a83f8c33f77620ae09f47dffad8bacfd329e7f999e3051b05364b9ba42817314887bdbbf642eadee06b13a6fe2 Homepage: https://cran.r-project.org/package=tsqn Description: CRAN Package 'tsqn' (Applications of the Qn Estimator to Time Series (Univariate andMultivariate)) Time Series Qn is a package with applications of the Qn estimator of Rousseeuw and Croux (1993) to univariate and multivariate Time Series in time and frequency domains. More specifically, the robust estimation of autocorrelation or autocovariance matrix functions from Ma and Genton (2000, 2001) , and Cotta (2017) are provided. The robust pseudo-periodogram of Molinares et. al. (2009) is also given. This packages also provides the M-estimator of the long-memory parameter d based on the robustification of the GPH estimator proposed by Reisen et al. (2017) . Package: r-cran-tsriadditive Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 95 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-survival Filename: pool/dists/focal/main/r-cran-tsriadditive_1.0.0-1.ca2004.1_all.deb Size: 68864 MD5sum: 43e85fec86b5dd2a00de7b1309a29989 SHA1: 2d06d93759fc7b00c8e9fb2407892ceb019d30c6 SHA256: 1db08b6ac9e64514c0bf845cfa90dd9f130f18c6ba7b33781187c21864765e40 SHA512: 88e360dbacce8a15ab5158b00722ca3f89b712d42b4cf523b8edd1ed1ad24a140635b5fa536ee135e205744e5edecacfb690905d1389224bcc92b9d1cf81ab4f Homepage: https://cran.r-project.org/package=tsriadditive Description: CRAN Package 'tsriadditive' (Two Stage Residual Inclusion Additive Hazards Estimator) Additive hazards models with two stage residual inclusion method are fitted under either survival data or competing risks data. The estimator incorporates an instrumental variable and therefore can recover causal estimand in the presence of unmeasured confounding under some assumptions. A.Ying, R. Xu and J. Murphy. (2019) . Package: r-cran-tsrobprep Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-mass, r-cran-matrix, r-cran-mclust, r-cran-quantreg, r-cran-rdpack, r-cran-texttinyr, r-cran-zoo Filename: pool/dists/focal/main/r-cran-tsrobprep_0.3.2-1.ca2004.1_all.deb Size: 184856 MD5sum: 6032017ab1dde19e6f6ebabc4488e716 SHA1: 3a98ebea1e1937ad7eecf32e330cde91932b9891 SHA256: 0a06c1d94c40dce87faecac05ba54b059b4b944278a6e50e3371e54fdf4996a9 SHA512: 025392c83c9d20fd059ed630ecc5ab08423174c51a21f3b0a4eda5e0c4124a60e5166bd010170b5ae40e586448e8d1d8ba83f1bd1c37089bf17d3ffa737e3393 Homepage: https://cran.r-project.org/package=tsrobprep Description: CRAN Package 'tsrobprep' (Robust Preprocessing of Time Series Data) Methods for handling the missing values outliers are introduced in this package. The recognized missing values and outliers are replaced using a model-based approach. The model may consist of both autoregressive components and external regressors. The methods work robust and efficient, and they are fully tunable. The primary motivation for writing the package was preprocessing of the energy systems data, e.g. power plant production time series, but the package could be used with any time series data. For details, see Narajewski et al. (2021) . Package: r-cran-tss.restrend Architecture: all Version: 0.3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 351 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bfast, r-cran-broom, r-cran-strucchange, r-cran-ggplot2, r-cran-rcpproll, r-cran-mblm Suggests: r-cran-rgl, r-cran-car Filename: pool/dists/focal/main/r-cran-tss.restrend_0.3.1-1.ca2004.1_all.deb Size: 297700 MD5sum: e90aec056c628c6e0aeb017a7bdf3b43 SHA1: a2233938b4325d28096c423da3bde9709df68b20 SHA256: 6b53d55fe3a232488a9ca73d3fd74019960b1a2ae667b72cbeb9f11d25d16beb SHA512: 97a5d8e2cf950790fc3fd3e5c9b90e1c1ac0449d235257706051020e2c8f4ed14d96f127ebe904a91a9bfd9563dcc9471d1f89f26d98e7820366b5dd7fe5ec15 Homepage: https://cran.r-project.org/package=TSS.RESTREND Description: CRAN Package 'TSS.RESTREND' (Time Series Segmentation of Residual Trends) Time Series Segmented Residual Trends is a method for the automated detection of land degradation from remotely sensed vegetation and climate datasets. 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Package: r-cran-tssdmx Architecture: all Version: 2016.8-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 255 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tsdbi, r-cran-dbi, r-cran-tframe, r-cran-tframeplus, r-cran-rjsdmx, r-cran-rjava Suggests: r-cran-tfplot Filename: pool/dists/focal/main/r-cran-tssdmx_2016.8-1-1.ca2004.1_all.deb Size: 150264 MD5sum: 6401bb868f1aa39f6b6f2f399299d5db SHA1: 5884d9de4a7c63610f67275d7ba79d0284eeb8ef SHA256: a3d1e12d8c35dc5d6af35335c0140ec945fe6df8874fecd18d44e8ad254180d4 SHA512: 752d36f54a277a83c6f3566065710041521f7b829b631004d6967160e75f62673bd252a6d81e92c42ed1aa209365323ce499174afa0518c8ebc1a18b8f8e8e78 Homepage: https://cran.r-project.org/package=TSsdmx Description: CRAN Package 'TSsdmx' ('TSdbi' Extension to Connect with 'SDMX') Methods to retrieve data in the Statistical Data and Metadata Exchange ('SDMX') format from several database. (For example, 'EuroStat', the European Central Bank, the Organisation for Economic Co-operation and Development, the 'Unesco' Institute for Statistics, and the International Labor Organization.) This is a wrapper for package 'RJSDMX'. Comprehensive examples of all the 'TS*' packages is provided in the vignette Guide.pdf with the 'TSdata' package. Package: r-cran-tsselect Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 55 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-forecast Filename: pool/dists/focal/main/r-cran-tsselect_0.1.8-1.ca2004.1_all.deb Size: 20912 MD5sum: d8df4c5deb83aac51f9d3862daf6ea40 SHA1: 838b9524e139773a4ad2eb752cb4deb2ad7994d4 SHA256: 4cf32263bd6ba7c235dcb41674e2483a0b5e6f818fea0666a95614ff8ea5bb16 SHA512: 360292541020f06ebbc9bc0631f4b4fb62fe7faf6906237704f3ff7d4f42eaa3736b47608d2793fa402b3d5a140fd78e802f94e3e63a588e57e8fdf19bc375bf Homepage: https://cran.r-project.org/package=tsSelect Description: CRAN Package 'tsSelect' (Execution of Time Series Models) Execution of various time series models and choosing the best one either by a specific error metric or by picking the best one by majority vote. The models are based on the "forecast" package, written by Prof. Rob Hyndman. Package: r-cran-tssim Architecture: all Version: 0.2.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 117 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dsa, r-cran-forecast, r-cran-mvtnorm, r-cran-timedate, r-cran-tsbox, r-cran-xts, r-cran-zoo Filename: pool/dists/focal/main/r-cran-tssim_0.2.7-1.ca2004.1_all.deb Size: 87904 MD5sum: 7b84735ec66c18fa3cf62f3d50228cd8 SHA1: fa1fd8dd6689f6e589addeeade93a2ddc5b3cc5c SHA256: 07436bd0e63446d4a203037c86dda81621d24a1f772a554f366f74b94428b0c9 SHA512: 65b5300234bdec86bc9157e803e333b52af632e2e5f055a4115a88f56cf6fe9335eabd4ce5bbcb494e9f8f726983ee9643e4ca147eb1fcb2ff704908a71e23c4 Homepage: https://cran.r-project.org/package=tssim Description: CRAN Package 'tssim' (Simulation of Daily and Monthly Time Series) Flexible simulation of time series using time series components, including seasonal, calendar and outlier effects. Main algorithm described in Ollech, D. (2021) . Package: r-cran-tssmoothing Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 459 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass, r-cran-gridextra, r-cran-matrix Filename: pool/dists/focal/main/r-cran-tssmoothing_0.1.0-1.ca2004.1_all.deb Size: 436044 MD5sum: 5d66270788f8260a2fe2ad00323ee2ee SHA1: fb947bcfdc3cdc0b956b116db9f402eb5a21496f SHA256: 8ec1a2b369df7aace31ea2e3f4985156ecc9d9f83e534caa85217594cd670aa0 SHA512: 99561b57025aadd82fdebc5cb8e484259f838ff7a9784becaba15d76fc55b1dab5478cdc794be611ce87fe517c86ae51e15b14d1a0b1d3b8291dec17d1d79f6f Homepage: https://cran.r-project.org/package=TSsmoothing Description: CRAN Package 'TSsmoothing' (Trend Estimation of Univariate and Bivariate Time Series withControlled Smoothness) It performs the smoothing approach provided by penalized least squares for univariate and bivariate time series, as proposed by Guerrero (2007) and Gerrero et al. (2017). This allows to estimate the time series trend by controlling the amount of resulting (joint) smoothness. --- Guerrero, V.M (2007) . Guerrero, V.M; Islas-Camargo, A. and Ramirez-Ramirez, L.L. (2017) . Package: r-cran-tssql Architecture: all Version: 2017.4-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 112 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dbi, r-cran-tframe, r-cran-tsdbi, r-cran-tframeplus, r-cran-zoo Suggests: r-cran-tseries, r-cran-tis, r-cran-tfplot, r-cran-rmysql, r-cran-rsqlite Filename: pool/dists/focal/main/r-cran-tssql_2017.4-1-1.ca2004.1_all.deb Size: 64480 MD5sum: f5ffa4500b30100ec61834f0bbbac187 SHA1: c4e63952c177769ef2c3b47181323a4bd0fd1cb8 SHA256: 995d986a7271e00bde3f06305d514f86008deb18446b3c454dfa71224b9a5f45 SHA512: 86f2fa9ce670577dcdeb109a5bacc5ffad9bb3d76bb3c411513282a22a69efbb6d11600afdefb6676bb2f6abce7c114b269bcdb30bb2dfa54834272222d5f80e Homepage: https://cran.r-project.org/package=TSsql Description: CRAN Package 'TSsql' (Generic SQL Helper Functions for 'TSdbi' SQL Plugins) Standard SQL query functions used by SQL plugins packages for the 'TSdbi' interface to time series databases. 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Package: r-cran-tstools Architecture: all Version: 0.4.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2038 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-zoo, r-cran-data.table, r-cran-jsonlite, r-cran-xts, r-cran-yaml Suggests: r-cran-knitr, r-cran-openxlsx, r-cran-reshape2, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tstools_0.4.3-1.ca2004.1_all.deb Size: 1349484 MD5sum: ad7c01d156c3ecc13316a07fc7a20e66 SHA1: ddb213f548516c892879a67513c9f9c2a1ba18d9 SHA256: 5967799a8c775ca6e758292aa5d2bcd508b7819310fc5fb2d58316451ab77236 SHA512: 626245bce355bd46b741ed781939d978035b183995c729d4da6cb14ab91a1778f235d9c5547f419eca7b2d5ad2c4cd9b9d8c2972753725602ff1429d2da441d0 Homepage: https://cran.r-project.org/package=tstools Description: CRAN Package 'tstools' (A Time Series Toolbox for Official Statistics) Plot official statistics' time series conveniently: automatic legends, highlight windows, stacked bar chars with positive and negative contributions, sum-as-line option, two y-axes with automatic horizontal grids that fit both axes and other popular chart types. 'tstools' comes with a plethora of defaults to let you plot without setting an abundance of parameters first, but gives you the flexibility to tweak the defaults. In addition to charts, 'tstools' provides a super fast, 'data.table' backed time series I/O that allows the user to export / import long format, wide format and transposed wide format data to various file types. 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A common observation in this type of data is that some genes respond with quick, transient dynamics, while other genes change their expression slowly over time. The existing methods for detecting significant expression dynamics often fail when the expression dynamics show a large heterogeneity. Moreover, these methods often cannot cope with irregular and sparse measurements. The method proposed here is specifically designed for the analysis of perturbation responses. It combines different scores to capture fast and transient dynamics as well as slow expression changes, and performs well in the presence of low replicate numbers and irregular sampling times. The results are given in the form of tables including links to figures showing the expression dynamics of the respective transcript. These allow to quickly recognise the relevance of detection, to identify possible false positives and to discriminate early and late changes in gene expression. An extension of the method allows the analysis of the expression dynamics of functional groups of genes, providing a quick overview of the cellular response. The performance of this package was tested on microarray data derived from lung cancer cells stimulated with epidermal growth factor (EGF). Paper: Albrecht, Marco, et al. (2017). 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These models are described further in Tan, Shiyko, Li, Li & Dierker (2012) . We thank Kaylee Litson, Patricia Berglund, Yajnaseni Chakraborti, and Hanjoo Kim for their valuable help with testing the package and the documentation. The development of this package was part of a research project supported by National Institutes of Health grants P50 DA039838 from the National Institute of Drug Abuse and 1R01 CA229542-01 from the National Cancer Institute and the NIH Office of Behavioral and Social Science Research. Content is solely the responsibility of the authors and does not necessarily represent the official views of the funding institutions mentioned above. This software is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. Package: r-cran-tvgarch Architecture: all Version: 2.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 280 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-garchx, r-cran-zoo, r-cran-numderiv Filename: pool/dists/focal/main/r-cran-tvgarch_2.4.2-1.ca2004.1_all.deb Size: 246716 MD5sum: 70c8488477590812c5c9775735d879c7 SHA1: ba66353be387328ae4774d417eff6b3aa5172b54 SHA256: eb74e92ac04d813153e207367c7a8a3e81e79719d578388ff7e5f0042111e0e2 SHA512: 73db8c1a5424560bd1a0734280198e6dfa00c40f0a43f52edf246bb0fe3192e3b54e582ae7e610ba55ca769637c5751549b984bfaa91ae4120f95c9c4bbcf297 Homepage: https://cran.r-project.org/package=tvgarch Description: CRAN Package 'tvgarch' (Time Varying GARCH Modelling) Simulation, estimation and inference for univariate and multivariate TV(s)-GARCH(p,q,r)-X models, where s indicates the number and shape of the transition functions, p is the ARCH order, q is the GARCH order, r is the asymmetry order, and 'X' indicates that covariates can be included; see Campos-Martins and Sucarrat (2024) . In the multivariate case, variances are estimated equation by equation and dynamic conditional correlations are allowed. The TV long-term component of the variance as in the multiplicative TV-GARCH model of Amado and Terasvirta (2013) introduces non-stationarity whereas the GARCH-X short-term component describes conditional heteroscedasticity. Maximisation by parts leads to consistent and asymptotically normal estimates. 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Estimation and inference for the mediation effect in a time-varying mediation model. BMC Med Res Methodol. 2022;22(1):1-12. 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See for details. Package: r-cran-twiddler Architecture: all Version: 0.5-0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-twiddler_0.5-0-1.ca2004.1_all.deb Size: 45040 MD5sum: be6cd6c2ff6695c85511403c617afc7a SHA1: d43061577cb17893bfa069fc7f61a3d3d40c1711 SHA256: 492c7695d537d55be07647d0d389d028c2e5fcba632d65ed580c6e069e63a900 SHA512: 1fa7b7677ecef9cf45e5c6bdc0357e984989f03c211f397b56a3cfc75ee6abc334b2a02fc961281ce1b6bc8e8d35baf95f8eadea5599b4f59f835d5e96ac172d Homepage: https://cran.r-project.org/package=twiddler Description: CRAN Package 'twiddler' (Interactive manipulation of R expressions) Twiddler is an interactive tool that automatically creates a Tcl/Tk GUI for manipulating variables in any R expression. See the documentation of the function twiddle to get started. Package: r-cran-twig Architecture: all Version: 1.0.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2316 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-foreach, r-cran-reshape2, r-cran-abind, r-cran-doparallel Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-twig_1.0.0.0-1.ca2004.1_all.deb Size: 1926496 MD5sum: 81135219c4d152acc5986b0a40ec22ff SHA1: 7ef5be3d69ff40cf68cf4ab8e8010e9e630ddd05 SHA256: 13bf1a225b46cfc7b575a18770dc9c796ee7d518afce48f0765a757aaa314e48 SHA512: d879469e99aa89a1939ea5b93a8719ea3310fcb1d59e2a1b80b793d9e7f5c8f854eb09b112b18ee3531e8df0aa9276e97a257cb2e1f3c0d6d417cda2cb51839c Homepage: https://cran.r-project.org/package=twig Description: CRAN Package 'twig' (For Streamlining Decision and Economic Evaluation Models usingGrammar of Modeling) Provides tools for building decision and cost-effectiveness analysis models. 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Package: r-cran-twilio Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-purrr, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-lubridate Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-twilio_0.1.0-1.ca2004.1_all.deb Size: 25812 MD5sum: 8f18ecce665131b4c86898fa4954e186 SHA1: 7d1759c5bf669556be50f0c379832eb692b734a5 SHA256: 7ea13f9e399b974ef7da6824aa3e0de6c176b9e02a7551e3cd6e50369fcf517e SHA512: 7fdf3ed836813c64db4545c35f2a35ea18627a5e9991f0d4fe809461625907b0fc4f6e30cc7a0ed6fa44b7b17caf9a6818bb821c2d8b2ff6649343d7bb924645 Homepage: https://cran.r-project.org/package=twilio Description: CRAN Package 'twilio' (An Interface to the Twilio API for R) The Twilio web service provides an API for computer programs to interact with telephony. 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Collect, pre-process and analyze the contents of tweets using LDA and structural topic models (STM). Comes with visualizing capabilities like tweet and hashtag maps and built-in support for 'LDAvis'. Package: r-cran-twitter Architecture: all Version: 1.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 707 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-bit64, r-cran-rjson, r-cran-dbi, r-cran-httr Suggests: r-cran-rsqlite, r-cran-rmysql Filename: pool/dists/focal/main/r-cran-twitter_1.1.9-1.ca2004.1_all.deb Size: 596912 MD5sum: 1fdbf54519da11a1702287c93a98f738 SHA1: 22850e27c554c2858acf673b0875af67b9754f86 SHA256: 5b48af94f4ebf2500e651dcee6a54fa90e0bb8f064d8f0e8789e98ef79035203 SHA512: 2b43eae573f8de332d232a507476a73464b450cc92a1b1890e0a4550b6d3f5267cfc623d31ed460a38267309c726bba198f053ce323396eacebafe71e053fb8b Homepage: https://cran.r-project.org/package=twitteR Description: CRAN Package 'twitteR' (R Based Twitter Client) Provides an interface to the Twitter web API. Package: r-cran-twitteradsr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-jsonlite Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-tidyr, r-cran-curl Filename: pool/dists/focal/main/r-cran-twitteradsr_0.1.0-1.ca2004.1_all.deb Size: 22224 MD5sum: 90718422c9df6627d38df173f5aabab3 SHA1: e6699a24dae7e5963d7c1ed9e55bf0b997dd677d SHA256: f2d74841d85416aec7b825f96e451fdd5a8dbc60cdcbec38c732d9b4f50e1c00 SHA512: 05cbdc29de356c6b78f55a85d751af3f15e6b63c7a9a1fea12e47d647b5ea777c1d7cbddf0dabca164400b0810a3a17d92c268c70ab58a09297ec55a221b98cb Homepage: https://cran.r-project.org/package=twitteradsR Description: CRAN Package 'twitteradsR' (Get Twitter Ads Data via the 'Windsor.ai' API) Collect your data on digital marketing campaigns from Twitter Ads using the 'Windsor.ai' API . Package: r-cran-twitterautomatedtrading Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 184 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-curl, r-cran-dplyr, r-cran-jsonlite, r-cran-lubridate, r-cran-plyr, r-cran-purrr, r-cran-tibble, r-cran-twitter, r-cran-naptime, r-cran-tidytext, r-cran-magrittr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-twitterautomatedtrading_0.1.0-1.ca2004.1_all.deb Size: 122724 MD5sum: 81790849e73076aa1b2f962f9710ebc6 SHA1: dfcf9ae8c8113ba365b2ed982bafe4e3eb168c9e SHA256: bad135cc6645d4c1b67a3a827d9ceba4b52768eb0e39bd5f5dcc2aaa27288860 SHA512: bd95222452c914c43e53d5d48a2b0e0d127c3c42b669d6dc54259c9288c31b55a56e0fbe318560cd66e3f7e1ed56a7dd2994384540ae95d283eed27fe36e0acb Homepage: https://cran.r-project.org/package=TwitterAutomatedTrading Description: CRAN Package 'TwitterAutomatedTrading' (Automated Trading Using Tweets) Provides an integration to the 'metatrader 5'. The functionalities carry out automated trading using sentiment indexes computed from 'twitter' and/or 'stockwits'. The sentiment indexes are based on the ph.d. dissertation "Essays on Economic Forecasting Models" (Godeiro,2018) The integration between the 'R' and the 'metatrader 5' allows sending buy/sell orders to the brokerage. Package: r-cran-twitterwidget Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 142 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-htmlwidgets Filename: pool/dists/focal/main/r-cran-twitterwidget_0.1.1-1.ca2004.1_all.deb Size: 38876 MD5sum: e2713dfaca767c7b05189f0c054894ea SHA1: 2055fcb322d4823da082c46dec902e12fff5b8c6 SHA256: 783ad6402a6f941e91c6e5980a70a6249a867f3fed5b27ad9363fe7cd0763b00 SHA512: 62068de9fa2ad77e9fb1c79fe854d6479bb1fc0a7a3e2693fa4ed22a2fb91a6493a6c5577bfba2dfd1810cdb65b4b4244c6d5c6472b44deaeb9a32adc4681da6 Homepage: https://cran.r-project.org/package=twitterwidget Description: CRAN Package 'twitterwidget' (Render a Twitter Status in R Markdown Pages) Include the Twitter status widgets in HTML pages created using R markdown. The package uses the Twitter javascript APIs to embed in your document Twitter cards associated to specific statuses. The main targets are regular HTML pages or dashboards. Package: r-cran-twl Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2397 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-mcmcpack, r-cran-corrplot, r-cran-rfast Filename: pool/dists/focal/main/r-cran-twl_1.0-1.ca2004.1_all.deb Size: 1989908 MD5sum: 251ea8b0e6134820018a3ae85bec4cf2 SHA1: 9537adf3a337ee1d26b9d291ea3b1e7121a72d33 SHA256: 5c6b62cd5eae6d138e48d436cbf805653d40622b7f140c596744852f66a81037 SHA512: 400d7226e20c0fd7a710ba0dec0dddd306a3b9f3c84efea8d509e4981edd0ac1b821d4e1c12741b86269fb5fb34238ffc0cfdcb0e83e2d6d788de1f75fe66a3b Homepage: https://cran.r-project.org/package=twl Description: CRAN Package 'twl' (Two-Way Latent Structure Clustering Model) Implementation of a Bayesian two-way latent structure model for integrative genomic clustering. The model clusters samples in relation to distinct data sources, with each subject-dataset receiving a latent cluster label, though cluster labels have across-dataset meaning because of the model formulation. A common scaling across data sources is unneeded, and inference is obtained by a Gibbs Sampler. The model can fit multivariate Gaussian distributed clusters or a heavier-tailed modification of a Gaussian density. Uniquely among integrative clustering models, the formulation makes no nestedness assumptions of samples across data sources -- the user can still fit the model if a study subject only has information from one data source. The package provides a variety of post-processing functions for model examination including ones for quantifying observed alignment of clusterings across genomic data sources. Run time is optimized so that analyses of datasets on the order of thousands of features on fewer than 5 datasets and hundreds of subjects can converge in 1 or 2 days on a single CPU. See "Swanson DM, Lien T, Bergholtz H, Sorlie T, Frigessi A, Investigating Coordinated Architectures Across Clusters in Integrative Studies: a Bayesian Two-Way Latent Structure Model, 2018, , Cold Spring Harbor Laboratory" at for model details. Package: r-cran-twn Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2498 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tibble, r-cran-dplyr, r-cran-crayon, r-cran-rlang, r-cran-stringr Suggests: r-cran-testthat, r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-tidyr, r-cran-readr Filename: pool/dists/focal/main/r-cran-twn_0.2.5-1.ca2004.1_all.deb Size: 2270180 MD5sum: f90c4dcc11573042156b57b614a128a4 SHA1: 42082e3d8820964b841629607932c5d62a41f35b SHA256: 00b0364a96356d27a00e9be42ddfb1cac6dedaf1a9c246551a8fb0676dc00eb5 SHA512: 098a8f4b3bb2af51d327e1c246218e2a9061858602ef2ed5a1923ca4737e670f1fa6c21d93458b26b44582e897a52440461e6f64e46ef1091b935f128e295be8 Homepage: https://cran.r-project.org/package=twn Description: CRAN Package 'twn' (Taxa Waterbeheer Nederland voor R) The TWN-list (Taxa Waterbeheer Nederland) is the Dutch standard for naming taxons in Dutch Watermanagement. This package makes it easier to use the TWN-list for ecological analyses. It consists of two parts. First it makes the TWN-list itself available in R. Second, it has a few functions that make it easy to perform some basic and often recurring tasks for checking and consulting taxonomic data from the TWN-list. Package: r-cran-twoarmsurvsim Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 171 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-blockrand, r-cran-dplyr, r-cran-survival, r-cran-simsurv Filename: pool/dists/focal/main/r-cran-twoarmsurvsim_0.2-1.ca2004.1_all.deb Size: 139844 MD5sum: 3403e824f50cc428e67612f35c3fa71b SHA1: a9d99dc8bf281678570fb5531ab54da6d596af09 SHA256: 0514c5f857cc8a83a39ce27d8f6e8134198fe3bd891954087f07257b07411d30 SHA512: 629af48ff0f242f9661898ccb85d9fb5ac5223739bfae7e810995bb817b18d5f208094f06d56a8e3c924b491597edd3dc25715aa562c809ffda62105e153731d Homepage: https://cran.r-project.org/package=TwoArmSurvSim Description: CRAN Package 'TwoArmSurvSim' (Simulate Survival Data for Randomized Clinical Trials) A system to simulate clinical trials with time to event endpoints. Event simulation is based on Cox models allowing for covariates in addition to the treatment or group factor. 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Package: r-cran-twopexp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 69 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-twopexp_0.1.0-1.ca2004.1_all.deb Size: 38632 MD5sum: 23b8e85e200ff781863d2251504239c8 SHA1: 0c63dffe8c8ab53fdb467c493dc51e3a0bac886d SHA256: 51f8caddabd99de09894595850266d233bcc8a3063c0afa21b104b48f4878c02 SHA512: 87b32ec2ef7b572ca45334201ca37cb1a7ce6c3e2ce12942e3ea491355dbd413f3f0fe884d089335d3dcf36e28ef9c81aa2e4e8d8159ef7260ac1316b493a20e Homepage: https://cran.r-project.org/package=twopexp Description: CRAN Package 'twopexp' (The Two Parameter Exponential Distribution) Density, distribution function, quantile function, and random generation function, maximum likelihood estimation (MLE), penalized maximum likelihood estimation (PMLE), the quartiles method estimation (QM), and median rank estimation (MEDRANK) for the two-parameter exponential distribution. 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Package: r-cran-tworegression Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4715 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-gridextra, r-cran-pautilities, r-cran-proc, r-cran-rcpproll, r-cran-rlang, r-cran-lubridate, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-tworegression_1.0.0-1.ca2004.1_all.deb Size: 738352 MD5sum: 617f6a845877ec9e3d46c53289861feb SHA1: f4cf64ccee7a203d7c10962bbe4e36fac506e827 SHA256: 364a8d7f833bba6d1a0ba3ba0361afb24e05f63912b6932548ffe1f45f38a84e SHA512: 12dac8e7299421ff4ca827bf049f4773e50eb5f5ca206f288626237cbe34392f34e02727d8973a068de194a70b75e635f2d5f128ab1f224edf062a901b25f6e4 Homepage: https://cran.r-project.org/package=TwoRegression Description: CRAN Package 'TwoRegression' (Develop and Apply Two-Regression Algorithms) Facilitates development and application of two-regression algorithms for research-grade wearable devices. It provides an easy way for users to access previously-developed algorithms, and also to develop their own. Initial motivation came from Hibbing PR, LaMunion SR, Kaplan AS, & Crouter SE (2018) . However, other algorithms are now supported. Please see the associated references in the package documentation for full details of the algorithms that are supported. 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Clément de Chaisemartin, Xavier D'Haultfœuille (2020) . Package: r-cran-twowaytests Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 169 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-onewaytests, r-cran-ggplot2, r-cran-nortest, r-cran-car, r-cran-wesanderson, r-cran-mass Suggests: r-cran-wrs2 Filename: pool/dists/focal/main/r-cran-twowaytests_1.5-1.ca2004.1_all.deb Size: 137372 MD5sum: c98fea226a2985e15a78b881c7597b3c SHA1: 6c68d1aa3b4e7cf138f6c9ff10a4f7ed38c3ed69 SHA256: 7523493e8e1e7d9648b8ae8b5d8c397274ee4e4099694f7a6818b2cb18972dff SHA512: e856b2113a3280d317ab7a7fb19e2b822fed5b412c8e0b60905f4ee2b99c4b21fcc560baf5b32d7734895bf794fd9f421308bc3eb731f91a677a605200f2c96d Homepage: https://cran.r-project.org/package=twowaytests Description: CRAN Package 'twowaytests' (Two-Way Tests in Independent Groups Designs) Performs two-way tests in independent groups designs. 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Package: r-cran-tww Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-tww_0.1.0-1.ca2004.1_all.deb Size: 21904 MD5sum: b0d33f42b2054c7461834fa7496b5373 SHA1: 6311e2c64de93d5ba11b315b92d4f18f40dce98a SHA256: 4a17d9883da38775a3c791ebf8b985ecd0a230932b3a637b1c43fdbd588de1a2 SHA512: 054ec34ac154e838a23b179a3baa78748e9ceea8dd440a29f415f8214a8d1f7bfdbef569c1a222b252106ece4cafa889c20233d49bae142572780f47e4b9f96d Homepage: https://cran.r-project.org/package=TWW Description: CRAN Package 'TWW' (Growth Models) A model for the growth of self-limiting populations using three, four, or five parameter functions, which have wide applications in a variety of fields. The dependent variable in a dynamical modeling could be the population size at time x, where x is the independent variable. 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Package: r-cran-txshift Architecture: all Version: 0.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 250 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-stringr, r-cran-data.table, r-cran-assertthat, r-cran-mvtnorm, r-cran-hal9001, r-cran-haldensify, r-cran-lspline, r-cran-ggplot2, r-cran-scales, r-cran-latex2exp, r-cran-rdpack Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-covr, r-cran-future, r-cran-future.apply, r-cran-origami, r-cran-ranger, r-cran-rsolnp, r-cran-nnls Filename: pool/dists/focal/main/r-cran-txshift_0.3.8-1.ca2004.1_all.deb Size: 148672 MD5sum: ecdbfd0085a75d5681d5fd7f7bc45650 SHA1: 145635fba496b51295adf2157518a7ca20729631 SHA256: ee2f11d06f582dfbaaf944120a2b0cc2de94f3a59d072f0946bdbdcb07737d8e SHA512: e0013431198a7b8814722886f3ae9a0977a30b8d25d549c0a93fae8309c5edf3205a77412b87efd3f4b09a8983562713ed74e5a8dfff0fdf8b7fb31ea1ed6ca2 Homepage: https://cran.r-project.org/package=txshift Description: CRAN Package 'txshift' (Efficient Estimation of the Causal Effects of StochasticInterventions) Efficient estimation of the population-level causal effects of stochastic interventions on a continuous-valued exposure. 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Package: r-cran-ucbthesis Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1005 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-knitr, r-cran-stringr Filename: pool/dists/focal/main/r-cran-ucbthesis_1.0-1.ca2004.1_all.deb Size: 324448 MD5sum: dc652a5d702d984bf0ede175439b372d SHA1: 906246e0eddf783af1f39a6857ce41e2d586b69c SHA256: bed0ea74a11a990ebaf4ac76f9b384266e1e794ea698ce2972789f6161bf4d63 SHA512: 22108d8f4f1639ea75748b35795d94b04ea8553f33f27086827cd7110765d792ccf77b1ce43dc431ca35d318445cb8011c81c7e401f086b1f98f915248cd5768 Homepage: https://cran.r-project.org/package=ucbthesis Description: CRAN Package 'ucbthesis' (UC Berkeley graduate division thesis template) This package contains latex, knitr and R Markdown templates that adhere to the UC Berkeley Graduate Division's thesis guidelines. The templates are located in the inst/ directory. 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The UCI measures the extent to which the spatial organization of a city or region varies from extreme polycentric to extreme monocentric in a continuous scale from 0 to 1. Values closer to 0 indicate more polycentric patterns and values closer to 1 indicate a more monocentric urban form. 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It optimally maps data points into a polygon that represents the CIELab colour space. Since Euclidean distance approximates relative perceptual differences in CIELab color space, the result is a color encoding that aims to capture much of the structure of the original data. Package: r-cran-ucimlrepo Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 680 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-httr2 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-ucimlrepo_0.0.2-1.ca2004.1_all.deb Size: 660880 MD5sum: 4115168c0aabbb67b13a8f729d513925 SHA1: 29e1701bbf13ecb4ededf13c476e5ac3268cb9d5 SHA256: a56be45c9cc4b921cc04bd1504e0c32eeee2664cc9eb9eda85baf99529362d6c SHA512: 80d5cac13ab573eb41998015ed484708239cbde1f84dd43df429df39fec1e846fb4e8c4440f831c51fb58bcd045de9af8e4bed0b50c2333767b54f783c011697 Homepage: https://cran.r-project.org/package=ucimlrepo Description: CRAN Package 'ucimlrepo' (Explore UCI ML Repository Datasets) Find and import datasets from the University of California Irvine Machine Learning (UCI ML) Repository into R. Supports working with data from UCI ML repository inside of R scripts, notebooks, and 'Quarto'/'RMarkdown' documents. Access the UCI ML repository directly at . Package: r-cran-uclust Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 187 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dendextend, r-cran-robcor Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-uclust_1.0.0-1.ca2004.1_all.deb Size: 160496 MD5sum: d5a17ec5ce553c73ab316505b90e5530 SHA1: d317b3afe6cad5a9fbce05d6b37b2eb140cc63f7 SHA256: 964720c7246ca44fcb153a660ed5522776de003dd73fffdf3d71d21b4d0c0271 SHA512: bd2fba0fda943c845385af404793e61b21e1087ee07bfa193e2f20d27155cbebf554e542fc32cf2ece0615d7d54fd6c9f18a48f8a083cfadf434369b07c57c60 Homepage: https://cran.r-project.org/package=uclust Description: CRAN Package 'uclust' (Clustering and Classification Inference with U-Statistics) Clustering and classification inference for high dimension low sample size (HDLSS) data with U-statistics. The package contains implementations of nonparametric statistical tests for sample homogeneity, group separation, clustering, and classification of multivariate data. The methods have high statistical power and are tailored for data in which the dimension L is much larger than sample size n. See Gabriela B. Cybis, Marcio Valk and Sílvia RC Lopes (2018) , Marcio Valk and Gabriela B. Cybis (2020) , Debora Z. Bello, Marcio Valk and Gabriela B. Cybis (2021) . Package: r-cran-ucr.columnnames Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ucr.columnnames_0.1.0-1.ca2004.1_all.deb Size: 18220 MD5sum: 1f7c18d473dc1836833d9dd7c43112e5 SHA1: aa396c9e4fc4645b560c3152df28a378bb72b3b4 SHA256: 1ac9987ce8357c11e2d99ae5bff70581337a8c79f99dc11b7a932d85d12e2807 SHA512: 175574e5795468643e092e94dcd0b82d48530e17181cd9fdb1c2f87b777e097c6812d6bb98151f4d9e108306cd0ce3c7f762c34d6f5dfbfe8992d8882b3de62e Homepage: https://cran.r-project.org/package=UCR.ColumnNames Description: CRAN Package 'UCR.ColumnNames' (Fixes Column Names for Uniform Crime Report "Offenses Known andClearance by Arrest" Datasets) Changes the column names of the inputted dataset to the correct names from the Uniform Crime Report codebook for the "Offenses Known and Clearance by Arrest" datasets from 1998-2014. Package: r-cran-ucscxenashiny Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7809 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-digest, r-cran-dplyr, r-cran-ezcox, r-cran-forcats, r-cran-ggplot2, r-cran-ggpubr, r-cran-httr, r-cran-magrittr, r-cran-ppcor, r-cran-psych, r-cran-purrr, r-cran-rlang, r-cran-shiny, r-cran-stringr, r-cran-tibble, r-cran-tidyr, r-cran-ucscxenatools Suggests: r-cran-covr, r-cran-cowplot, r-cran-dt, r-cran-furrr, r-cran-future, r-cran-ggrepel, r-cran-ggstatsplot, r-cran-knitr, r-cran-pacman, r-cran-plotly, r-cran-plyr, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-rtsne, r-cran-scales, r-cran-survival, r-cran-survminer, r-cran-testthat, r-cran-umap Filename: pool/dists/focal/main/r-cran-ucscxenashiny_2.1.0-1.ca2004.1_all.deb Size: 3262924 MD5sum: b8c829d1580906cae66179dc0d35a055 SHA1: 140eab511cb0dd6440c41d567002f2b3bc9a9a1d SHA256: 3e20a37d445311a6e084672ccf37e288a0b2a9d021f85daee0ea8cc3faedf88c SHA512: 43d4a09c8f0a5403b751e43e28da93970b4fc8960deebf47af229255b1eee5e820826e58506085f142a5c12ca04e4e7cdff39ca4ca4b8f60c3a4c69d7ba0b1cd Homepage: https://cran.r-project.org/package=UCSCXenaShiny Description: CRAN Package 'UCSCXenaShiny' (Interactive Analysis of UCSC Xena Data) Provides functions and a Shiny application for downloading, analyzing and visualizing datasets from UCSC Xena (), which is a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others. Package: r-cran-ucscxenatools Architecture: all Version: 1.4.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 844 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-digest, r-cran-dplyr, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-readr, r-cran-rlang Suggests: r-cran-covr, r-cran-dt, r-cran-knitr, r-cran-prettydoc, r-cran-rmarkdown, r-cran-shiny, r-cran-shinydashboard, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ucscxenatools_1.4.8-1.ca2004.1_all.deb Size: 673224 MD5sum: 56f8e3b0cdd8591489fe4e5b32695b0a SHA1: 178f4fcd33ed7ac880cc6829dd11e6ace1eab7a9 SHA256: 199dd6baf6aaba0be57c9c94a61a5a01232676b6583b9ec18550554050201b93 SHA512: 45e102b8ebaf86b85d5cdbe50ca8b02599d6373c4a6cd891f25f5049944c45dced3d90777cc1ce76de7eaf9e14eb2e4bc72ba535d427c4fc6ad6c7a79d2171fe Homepage: https://cran.r-project.org/package=UCSCXenaTools Description: CRAN Package 'UCSCXenaTools' (Download and Explore Datasets from UCSC Xena Data Hubs) Download and explore datasets from UCSC Xena data hubs, which are a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others. Databases are normalized so they can be combined, linked, filtered, explored and downloaded. Package: r-cran-ucsfindustrydocs Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 96 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-arrow, r-cran-data.table, r-cran-httr, r-cran-jsonlite, r-cran-magrittr, r-cran-dplyr, r-cran-r6, r-cran-stringr Suggests: r-cran-mockery, r-cran-testthat Filename: pool/dists/focal/main/r-cran-ucsfindustrydocs_0.1.0-1.ca2004.1_all.deb Size: 64940 MD5sum: 6ab226766fbd870cd6711ec4eb0d9c6f SHA1: 4a187a0bc6f16c97be2a9a86396cd0715c39df56 SHA256: 4167f87c1cc43e0c33009fca629aa59c9658c2a8e4ea589e6307c5d4555eef17 SHA512: 2c4437332b528971bed4552b9251da86871d2b2f2333375d6ec94a377b2188dd8fd1f7a298c414c2fb07249515a04326d12f42379b714a8c10b237dc90dc9d3a Homepage: https://cran.r-project.org/package=ucsfindustrydocs Description: CRAN Package 'ucsfindustrydocs' (UCSF Industry Documents Library API Wrapper) Serves as a R wrapper for the University of California San Francisco's [Industry Documents Digital Library] API. The API, and this wrapper, serve to pull metadata about of items within the digital library. For more information the API, see the [API's documentation]. Package: r-cran-udapi Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 48 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-curl Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-udapi_0.1.3-1.ca2004.1_all.deb Size: 15864 MD5sum: b3f2c78130e1b7f7c47306e6febc8e83 SHA1: 6120cfb18518146e4f3bd1a6509329c0c4f214bb SHA256: 715c5f5777f3410659435ab6cde7bdb233e9f2847704c8da57aef34c523c027b SHA512: bafd14da894350c0ea7da8306da6a38fe60d942ba78dcdd730901c11d44aad54719e6e1d74f990861fc311bf4d868159ad2f2c012e2c471352f2f38860a53b4b Homepage: https://cran.r-project.org/package=udapi Description: CRAN Package 'udapi' (Urban Dictionary API Client) A client for the Urban Dictionary API. Package: r-cran-udderquarterinfectiondata Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 78 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-udderquarterinfectiondata_1.0.0-1.ca2004.1_all.deb Size: 40032 MD5sum: 652a3e9159dab2f915ecd55885ad6ea7 SHA1: dc95a68a36f55939cfb4172ea26f6df56c8d84ad SHA256: 79dbc17ee7cbea5385ab9aca84b031b8fcba0dccde50cfcf0a946a74b647fa0c SHA512: 58299ef0ddec62ee89bd55d17badf45f14ab01abb1d0db9c15b44c63567bc299e2d542f682aa3ea7d55939af4858c00767f602d70d4c914c2e0d45aaf2fe2e32 Homepage: https://cran.r-project.org/package=UdderQuarterInfectionData Description: CRAN Package 'UdderQuarterInfectionData' (Udder Quarter Infection Data) The udder quarter infection data set contains infection times of individual cow udder quarters with Corynebacterium bovis (Laevens et al. 1997 ). Obviously, the four udder quarters are clustered within a cow, and udder quarters are sampled only approximately monthly, generating interval-censored data. The data set contains both covariates that change within a cow (e.g., front and rear udder quarters) and covariates that change between cows (e.g., parity [the number of previous calvings]). The correlation between udder infection times within a cow also is of interest, because this is a measure of the infectivity of the agent causing the disease. Various models have been applied to address the problem of interdependence for right-censored event times. These models, as applied to this data set, can be found back in the publications found in the reference list. Package: r-cran-uei Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 45 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-factominer, r-cran-factoextra, r-cran-metrics Filename: pool/dists/focal/main/r-cran-uei_0.1.0-1.ca2004.1_all.deb Size: 14364 MD5sum: 75ddeb4b0a1d53cdb02661a3ac5979a8 SHA1: 0daba795fdae7108e3779c973f2a2d988cac8323 SHA256: eaef68b1af7a9815e8c6154688c6f140a19eedcaa1047d0d289a44c3caa4cc0b SHA512: 8e029a5c998faf16d3dbc14bd4072aa188b5144aec4ed3a4625c32bc56482760056b4d90d2a5f67edb5af41487cf0174173e66f9f44a263adab566be1ef7cd4e Homepage: https://cran.r-project.org/package=UEI Description: CRAN Package 'UEI' (Compute Uniform Error Index) Uniform Error Index is the weighted average of different error measures. Uniform Error Index utilizes output from different error function and gives more robust and stable error values. This package has been developed to compute Uniform Error Index from ten different loss function like Error Square, Square of Square Error, Quasi Likelihood Error, LogR-Square, Absolute Error, Absolute Square Error etc. The weights are determined using Principal Component Analysis (PCA) algorithm of Yeasin and Paul (2024) . Package: r-cran-ufrisk Architecture: all Version: 1.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 478 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-esemifar, r-cran-fracdiff, r-cran-rugarch, r-cran-smoots Filename: pool/dists/focal/main/r-cran-ufrisk_1.0.7-1.ca2004.1_all.deb Size: 429972 MD5sum: 14254cc4d7ee01567e9218823ddc56c8 SHA1: 49c4476c4de60554e8a25a410bc27025467a13cc SHA256: ba8830b298d6098f3a1166ed35b7cf0762d168fd9601f878c2ca3cbbb5971b40 SHA512: 0f85dbcb33c8c23950a0722aa49e0f80dd9cb8ad84fcea71544553139ea77a74debf8ab8f9d2157f4b184f3d853efb7a6aafce2ab88958bc1c009394a66cf225 Homepage: https://cran.r-project.org/package=ufRisk Description: CRAN Package 'ufRisk' (Risk Measure Calculation in Financial TS) Enables the user to calculate Value at Risk (VaR) and Expected Shortfall (ES) by means of various parametric and semiparametric GARCH-type models. For the latter the estimation of the nonparametric scale function is carried out by means of a data-driven smoothing approach. Model quality, in terms of forecasting VaR and ES, can be assessed by means of various backtesting methods such as the traffic light test for VaR and a newly developed traffic light test for ES. The approaches implemented in this package are described in e.g. Feng Y., Beran J., Letmathe S. and Ghosh S. (2020) as well as Letmathe S., Feng Y. and Uhde A. (2021) . Package: r-cran-ufs Architecture: all Version: 0.5.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1064 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-digest, r-cran-diptest, r-cran-dplyr, r-cran-gparotation, r-cran-ggplot2, r-cran-ggrepel, r-cran-ggridges, r-cran-gridextra, r-cran-gtable, r-cran-htmltools, r-cran-kableextra, r-cran-knitr, r-cran-pander, r-cran-plyr, r-cran-pwr, r-cran-rmdpartials, r-cran-scales, r-cran-suppdists Suggests: r-cran-bootes, r-cran-car, r-cran-careless, r-cran-ggally, r-cran-jmvcore, r-cran-lavaan, r-cran-mass, r-cran-mbess, r-cran-psych, r-cran-rio, r-cran-remotes, r-cran-rmarkdown, r-cran-rstudioapi, r-cran-viridis Filename: pool/dists/focal/main/r-cran-ufs_0.5.12-1.ca2004.1_all.deb Size: 949952 MD5sum: a3b8f2941faef75829128eddfd3f9a04 SHA1: adffec9e50b3f12c7ac48e71384092e07c774f65 SHA256: d20d310951849f7fca0587763eea750cf7ac34bd7c8b33281003cf98cecaac0d SHA512: 3f0d9643e76bad5dcb3659216f2729cc42a03dea776da9d86249e7c087453f82a34dc2296797e534de10c78597478b1920c77828451ad2bc53fb0a2792c28fd6 Homepage: https://cran.r-project.org/package=ufs Description: CRAN Package 'ufs' (A Collection of Utilities) This is a new version of the 'userfriendlyscience' package, which has grown a bit unwieldy. Therefore, distinct functionalities are being 'consciously uncoupled' into different packages. This package contains the general-purpose tools and utilities (see the 'behaviorchange' package, the 'rosetta' package, and the soon-to-be-released 'scd' package for other functionality), and is the most direct 'successor' of the original 'userfriendlyscience' package. For example, this package contains a number of basic functions to create higher level plots, such as diamond plots, to easily plot sampling distributions, to generate confidence intervals, to plan study sample sizes for confidence intervals, and to do some basic operations such as (dis)attenuate effect size estimates. 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Package: r-cran-umoments Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 329 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-umoments_1.0.1-1.ca2004.1_all.deb Size: 279180 MD5sum: 16e68a1d01c86263e2d3a7ad592b085b SHA1: 9bad7cdce49e989c1d0bd31421c4a736245e3eee SHA256: dfe4c5524805b85a998f2ddf91ee40295fff0928c241285a7be66ce501e9b2a4 SHA512: 84f0ad4c94826ffc68eb9576d5dda7c6f44e17d9b43c26305aa2c1c81b54dbcea18a0150ce88f875c61c4a39d2e80190bb2c078fe898a572feec88e23cde4eef Homepage: https://cran.r-project.org/package=Umoments Description: CRAN Package 'Umoments' (Unbiased Central Moment Estimates) Calculates one-sample unbiased central moment estimates and two-sample pooled estimates up to 6th order, including estimates of powers and products of central moments. 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See Zhang and Coombes (2012) . Version 2.0 adds the ability to simulate realistic mixed-typed clinical data. 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Balabdaoui, Doss, and Durot (2021) study the unmatched regression setting where the univariate regression function is known to be monotone. This package implements methods for computing the estimator developed in Balabdaoui, Doss, and Durot (2021). The main method is an active-set-trust-region-based method. Package: r-cran-umx Architecture: all Version: 4.21.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5954 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-openmx, r-cran-cowplot, r-cran-diagrammer, r-cran-ggplot2, r-cran-kableextra, r-cran-knitr, r-cran-lavaan, r-cran-mass, r-cran-matrix, r-cran-mumin, r-cran-mvtnorm, r-cran-nlme, r-cran-polycor, r-cran-r2html, r-cran-rcurl, r-cran-scales, r-cran-xtable, r-cran-gert, r-cran-hrbrthemes, r-cran-openxlsx, r-cran-paran, r-cran-psych, r-cran-foreign, r-cran-psychtools, r-cran-pwr, r-cran-rmarkdown Suggests: r-cran-cocor, r-cran-devtools, r-cran-rhub, r-cran-spelling, r-cran-testthat, r-cran-gparotation Filename: pool/dists/focal/main/r-cran-umx_4.21.0-1.ca2004.1_all.deb Size: 4994692 MD5sum: 3f559fc2be2af33ccb71472dcd7a6c87 SHA1: 151bfc40e0679b0883e0d81fa1802f6eda71d29e SHA256: fc66c82e8c0311c73f9f0da3dbbf3a35c465a61d262e81c872995ee03a14c556 SHA512: 8b0b7e1dfc6e9e2a1167e7b001653f5f303cbf5977b6f432f35cf1474f5e9cd60429f85e921d868e4e0491ec93bc5dec9d343ebf249c1e57712124cb786dcef6 Homepage: https://cran.r-project.org/package=umx Description: CRAN Package 'umx' (Structural Equation Modeling and Twin Modeling in R) Quickly create, run, and report structural equation models, and twin models. See '?umx' for help, and umx_open_CRAN_page("umx") for NEWS. Timothy C. Bates, Michael C. Neale, Hermine H. Maes, (2019). umx: A library for Structural Equation and Twin Modelling in R. Twin Research and Human Genetics, 22, 27-41. . Package: r-cran-unalr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5500 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-d3r, r-cran-dplyr, r-cran-dt, r-cran-dygraphs, r-cran-echarts4r, r-cran-fmsb, r-cran-forcats, r-cran-ggplot2, r-cran-gt, r-cran-highcharter, r-cran-leaflet, r-cran-leaflet.extras, r-cran-plotly, r-cran-rlang, r-cran-sunburstr, r-cran-tidyr, r-cran-treemap, r-cran-cli, r-cran-data.tree, r-cran-ggspatial, r-cran-ggrepel, r-cran-gtextras, r-cran-htmltools, r-cran-jsonlite, r-cran-lifecycle, r-cran-magrittr, r-cran-maps, r-cran-scales, r-cran-sf, r-cran-sp, r-cran-stringr, r-cran-xts, r-cran-zoo, r-cran-htmlwidgets, r-cran-webshot, r-cran-png, r-cran-gridsvg, r-cran-xml Suggests: r-cran-testthat, r-cran-cowplot, r-cran-ggthemes, r-cran-magick, r-cran-pals, r-cran-readxl, r-cran-rsvg, r-cran-tibble, r-cran-viridis Filename: pool/dists/focal/main/r-cran-unalr_1.0.0-1.ca2004.1_all.deb Size: 5415744 MD5sum: 627ced8f90a784eeb1782ecdc2b99c9f SHA1: f35f9d3a9bc09c62c113c53ab0768db3721fec2d SHA256: a919568c315a19e9af333767629d4a0ca6b4276ae3c8436759033321920a549d SHA512: 8a684c1edfdaa6b48bd7ae7d0ae2af78d7f5113a30b8669633e06fbd78a099f03e715c1ec167c7f052b002d3169381c3ff1a83f4f16f04d05f21239477f546e9 Homepage: https://cran.r-project.org/package=UnalR Description: CRAN Package 'UnalR' (Una implementación de funciones de uso interno) Una herramienta rápida y consistente para la disposición de microdatos y la visualización de las cifras y estadísticas oficiales de la Universidad Nacional de Colombia . Contiene una biblioteca de funciones gráficas, tanto estáticas como interactivas, que ofrece numerosos tipos de gráficos con una sintaxis altamente configurable y simple. Entre estos encontramos la visualización de tablas HTML, series, gráficos de barras y circulares, mapas, etc. Todo lo anterior apoyado en bibliotecas de JavaScript. English: A fast and consistent tool for the arrangement of microdata and the visualization of official figures and statistics from the National University of Colombia . It includes a library of graphical functions, both static and interactive, offering numerous types of charts with a highly configurable and simple syntax. Among these, we find the visualization of HTML tables, series, bar and pie charts, maps, etc. It provides the capability to transition from the interactive to the dynamic world and from one library to another without changing function or syntax. Package: r-cran-unbalanced Architecture: all Version: 2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 167 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mlr, r-cran-foreach, r-cran-doparallel, r-cran-fnn, r-cran-rann Suggests: r-cran-randomforest, r-cran-rocr Filename: pool/dists/focal/main/r-cran-unbalanced_2.0-1.ca2004.1_all.deb Size: 137268 MD5sum: dbbe3fe1844cd53be905289ba3da477d SHA1: 41bba22aee35af74fce28c2b2988e0b62233fdbd SHA256: 264f6f868dc349d3d7740155308a291c6e6364d787b325146db101d552c69e7e SHA512: 28f0ddf9b327effd27dcd5d8dca63bed194b47e9c671e50ec7f186c5fbddbc2c7eab287ea3c20066c034d3d2787bc901ecdea3bef7782b2424e1a7985443a7cf Homepage: https://cran.r-project.org/package=unbalanced Description: CRAN Package 'unbalanced' (Racing for Unbalanced Methods Selection) A dataset is said to be unbalanced when the class of interest (minority class) is much rarer than normal behaviour (majority class). 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Package: r-cran-unival Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 87 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-psych Filename: pool/dists/focal/main/r-cran-unival_1.1.0-1.ca2004.1_all.deb Size: 55236 MD5sum: 692bdd0940946ca88dce1a4189cdaad7 SHA1: 9eb4bc4385eef3495d7c6c6774d336520ed3a8f5 SHA256: 0f9127a69ce21f8059ecd4ccd34d7f2e2fff2207fbbc2a4beb7913324442e194 SHA512: 74c497e1d02722a1c3e8a602df6bf13540828a28f47433434a627f25d76b7ad52a2137a16731bb2c971796958298d9757357cd757b67996c5c6ac2c779b04289 Homepage: https://cran.r-project.org/package=unival Description: CRAN Package 'unival' (Assessing Essential Unidimensionality Using External ValidityInformation) Assess essential unidimensionality using external validity information using the procedure proposed by Ferrando & Lorenzo-Seva (2019) . 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The package is compatible with K-means, fuzzy C means, EM clustering, and hierarchical clustering (single, average, and complete linkage). The details of the indices in this package can be found in: J. C. Bezdek, M. Moshtaghi, T. Runkler, C. Leckie (2016) , T. Calinski, J. Harabasz (1974) , C. H. Chou, M. C. Su, E. Lai (2004) , D. L. Davies, D. W. Bouldin (1979) , J. C. Dunn (1973) , F. Haouas, Z. Ben Dhiaf, A. Hammouda, B. Solaiman (2017) , M. Kim, R. S. Ramakrishna (2005) , S. H. Kwon (1998) , S. H. Kwon, J. Kim, S. H. Son (2021) , G. W. Miligan (1980) , M. K. Pakhira, S. Bandyopadhyay, U. Maulik (2004) , M. Popescu, J. C. Bezdek, T. C. Havens, J. M. Keller (2013) , S. Saitta, B. Raphael, I. Smith (2007) , A. Starczewski (2017) , Y. Tang, F. Sun, Z. Sun (2005) , N. Wiroonsri (2024) , N. Wiroonsri, O. Preedasawakul (2023) , C. H. Wu, C. S. Ouyang, L. W. Chen, L. W. Lu (2015) , X. Xie, G. Beni (1991) and Rousseeuw (1987) and Kaufman and Rousseeuw(2009) and C. Alok. (2010). 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The estimation via bootstrapping can simultaneously provide results of causal mediation on risk difference (RD), odds ratio (OR) and risk ratio (RR) scales with tests of the effects' difference. The estimation is also applicable to many other settings, e.g., moderated mediation, inconsistent covariates, panel data, etc. The high flexibility and compatibility make it possible to apply for any type of model, greatly meeting the needs of current empirical researches. 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The model uncertainty variance not pay attention to the accuracy of prediction, but focus on model selection uncertainty and providing more information of the model selection results. And to estimate the model measures, we propose an simplify and faster algorithm based on bootstrap method, which is proven to be effective and feasible by Monte-Carlo simulation. At the same time, we also made some optimizations and adjustments to the Model Confidence Bounds algorithm, so that it can be applied to the time series model selection method. The consistency of the algorithm result is also verified by Monte-Carlo simulation. We propose a new procedure, called model uncertainty variance, which can quantify the uncertainty of model selection on Autoregressive Moving Average models. The model uncertainty variance focuses on model selection uncertainty and providing more information of the model selection results. To estimate the model uncertainty variance, we propose an simplified and faster algorithm based on bootstrap method, which is proven to be effective and feasible by Monte-Carlo simulation. At the same time, we also made some optimizations and adjustments to the Model Confidence Bounds algorithm, so that it can be applied to the time series model selection method. The consistency of the algorithm result is also verified by Monte-Carlo simulation. Please see Li,Y., Luo,Y., Ferrari,D., Hu,X. and Qin,Y. (2019) Model Confidence Bounds for Variable Selection. Biometrics, 75:392-403. for more information. 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These contributions were derived from variance partitioning analysis (VPA) and hierarchical partitioning (HP), applying the algorithm of Lai J., Zou Y., Zhang J., Peres-Neto P. (2022) Generalizing hierarchical and variation partitioning in multiple regression and canonical analyses using the rdacca.hp R package.Methods in Ecology and Evolution, 13: 782-788 . 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Package: r-cran-usa.state.boundaries Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6207 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-spelling, r-cran-sf, r-cran-install.load, r-cran-drat, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-usa.state.boundaries_1.0.1-1.ca2004.1_all.deb Size: 6317124 MD5sum: 3c416f13b2d8b5fd152dc9fb6e427122 SHA1: 86d8637be1b70125ed9d7960b0a9dfac0ae2bd90 SHA256: 4edc01e82691d23b135f246c7cb0d8425332a2c84c56525cbefb4c1bb3ebe103 SHA512: cea55c77f8207818c94b9d98da296d66005d614db9ce63848b412e15c7a35626b3dde38a07f184d1b23e8f6029654892b04115386dc1117a68b664dd5e80cca5 Homepage: https://cran.r-project.org/package=USA.state.boundaries Description: CRAN Package 'USA.state.boundaries' (WGS84 Datum Map of the USA, Including Puerto Rico and the U.S.Virgin Islands) Contains a WGS84 datum map of the USA, which includes all Commonwealth and State boundaries & also includes Puerto Rico and the U.S. Virgin Islands. 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The functions are designed to translate statistical approaches to applied user experience research. 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The 'vaccineff_data' class manages key features for preparing, visualizing, and organizing cohort data, as well as estimating vaccine effectiveness. The results and model performance are assessed using the 'vaccineff' class. Package: r-cran-vachette Architecture: all Version: 0.40.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1185 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-tidyr, r-cran-dplyr, r-cran-magrittr, r-cran-prospectr, r-cran-hmisc, r-cran-purrr, r-cran-minpack.lm, r-cran-progress, r-cran-rlang, r-cran-photobiology Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-mrgsolve, r-cran-tidyvpc, r-cran-testthat, r-cran-learnr Filename: pool/dists/focal/main/r-cran-vachette_0.40.1-1.ca2004.1_all.deb Size: 436080 MD5sum: 0db82c1ca74ba3ec99eda31f6558431f SHA1: 1d3c9b2bdc04de63656e5b32da759e4f9dfeaf18 SHA256: aa9a5b186e5c8f1a03bd00f1bd28bc39e5fcfa223c57b931f9c8b609269bad0a SHA512: b4125fb7537d465b5b419cea3700c17d03a871c3e519899ee3b2439597b3a42f9ebd563bf944c5062389ae89a2ab262ae7ae92d80883a455efd450357b8d25f8 Homepage: https://cran.r-project.org/package=vachette Description: CRAN Package 'vachette' (A Method for Visualization of Pharmacometric Models) A method to visualize pharmacometric analyses which are impacted by covariate effects. Variability-aligned covariate harmonized-effects and time-transformation equivalent ('vachette') facilitates intuitive overlays of data and model predictions, allowing for comprehensive comparison without dilution effects. 'vachette' improves upon previous methods Lommerse et al. (2021) , enabling its application to all pharmacometric models and enhancing Visual Predictive Checks (VPC) by integrating data into cohesive plots that can highlight model misspecification. Package: r-cran-vacuum Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 177 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-magrittr Suggests: r-cran-testthat, r-cran-ggplot2, r-cran-knitr, r-cran-tidyr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-vacuum_0.1.0-1.ca2004.1_all.deb Size: 76608 MD5sum: 26aabc5f98b0e35fe5e60aee2796a84f SHA1: 97dad5ba459ea1ce4076d4a0c57569eac1fdd473 SHA256: bdf8415ae2246e8e721505ef55dd01863035cc853ee83231f8983ca44c94d4c2 SHA512: 0af18eecd7a7c01a5af685bd518850ecfc51ea13a9a0ffd74e3b944c30798ce5aff0856446c0027b4b5e7776a1a6a2d42874e2a74232b0bf7897b14deeb0ba85 Homepage: https://cran.r-project.org/package=vacuum Description: CRAN Package 'vacuum' (Tukey's Vacuum Cleaner) An implementation of three procedures developed by John Tukey: FUNOP (FUll NOrmal Plot), FUNOR-FUNOM (FUll NOrmal Rejection-FUll NOrmal Modification), and vacuum cleaner. 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Package: r-cran-vader Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 174 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tm Suggests: r-cran-spelling Filename: pool/dists/focal/main/r-cran-vader_0.2.1-1.ca2004.1_all.deb Size: 145816 MD5sum: fdceaf88ef9dfc84402771e598fa254c SHA1: 74c16d8e8345fc333eb8c6f1e977449108e61a9f SHA256: d998c8035927cefeaca7f0c7f68dcd5b97908e68e0ba5f487a473a454b444260 SHA512: f9b9a592463ccb92f9069403bb4a48ad3d4692ade898d5fcfab4a8ef6d732d9b453d39d4f281c50fb53aa058885c5e61cff917a716c3ef11b2dce00001e8e6d9 Homepage: https://cran.r-project.org/package=vader Description: CRAN Package 'vader' (Valence Aware Dictionary and sEntiment Reasoner (VADER)) A lexicon and rule-based sentiment analysis tool that is specifically attuned to sentiments expressed in social media, and works well on texts from other domains. Hutto & Gilbert (2014) . Package: r-cran-vaersndvax Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 655 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-vaersvax, r-cran-data.table, r-cran-dplyr, r-cran-rpivottable Filename: pool/dists/focal/main/r-cran-vaersndvax_1.0.4-1.ca2004.1_all.deb Size: 629356 MD5sum: a415790ee60876d64cfadfeea7835a97 SHA1: 64e45f1d58375d278a2d00de1a5c3245678a77b2 SHA256: ceac648b93ea09e8de357b7f8a819afafa754d957383a1d734574cc18dd8fe73 SHA512: 0bb9bfd1f90dcfb340f31f6ad035680f5647e9ee562e51846c1f094bac752da10ecea01d50953155eeab387edade73bbc5137b16235db6a193555a964556c81f Homepage: https://cran.r-project.org/package=vaersNDvax Description: CRAN Package 'vaersNDvax' (Non-Domestic Vaccine Adverse Event Reporting System (VAERS)Vaccine Data for Present) Non-Domestic VAERS vaccine data for 01/01/2016 - 06/14/2016. If you want to explore the full VAERS data for 1990 - Present (data, symptoms, and vaccines), then check out the 'vaersND' package from the URL below. The URL and BugReports below correspond to the 'vaersND' package, of which 'vaersNDvax' is a small subset (2016 only). 'vaersND' is not hosted on CRAN due to the large size of the data set. To install the Suggested 'vaers' and 'vaersND' packages, use the following R code: 'devtools::install_git("https://gitlab.com/iembry/vaers.git", build_vignettes = TRUE)' and 'devtools::install_git("https://gitlab.com/iembry/vaersND.git", build_vignettes = TRUE)'. "VAERS is a national vaccine safety surveillance program co-sponsored by the US Centers for Disease Control and Prevention (CDC) and the US Food and Drug Administration (FDA). VAERS is a post-marketing safety surveillance program, collecting information about adverse events (possible side effects) that occur after the administration of vaccines licensed for use in the United States." For more information about the data, visit . For information about vaccination/immunization hazards, visit . Package: r-cran-vaersvax Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 196 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-vaersndvax, r-cran-dplyr, r-cran-data.table, r-cran-pivottabler, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-vaersvax_1.0.5-1.ca2004.1_all.deb Size: 159920 MD5sum: 9bdda686bc8882c96de77d208c1fc2ff SHA1: 2d3cea5ccb5442917dc90bae8833ad5f2702fa0f SHA256: ad2ac4b76febad46060407f5e78f9df2fbd38624f64b1f9d975bf91acacc60e2 SHA512: bbeb2d70f9bbdfa734d7ce5d9d9ec5204e71ea315449b08523456a50404805ec49bd9ebf90aa35d41ca61fe802f6eb7ef564160a75e01819aba82751b1642079 Homepage: https://cran.r-project.org/package=vaersvax Description: CRAN Package 'vaersvax' (US Vaccine Adverse Event Reporting System (VAERS) Vaccine Datafor Present) US VAERS vaccine data for 01/01/2018 - 06/14/2018. If you want to explore the full VAERS data for 1990 - Present (data, symptoms, and vaccines), then check out the 'vaers' package from the URL below. The URL and BugReports below correspond to the 'vaers' package, of which 'vaersvax' is a small subset (2018 only). 'vaers' is not hosted on CRAN due to the large size of the data set. To install the Suggested 'vaers' and 'vaersND' packages, use the following R code: 'devtools::install_git("", build_vignettes = TRUE)' and 'devtools::install_git("", build_vignettes = TRUE)'. "The Vaccine Adverse Event Reporting System (VAERS) is a national early warning system to detect possible safety problems in U.S.-licensed vaccines. VAERS is co-managed by the Centers for Disease Control and Prevention (CDC) and the U.S. Food and Drug Administration (FDA)." For more information about the data, visit . For information about vaccination/immunization hazards, visit . 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In brief, the VA framework provides a fully or at least closed to fully tractable lower bound approximation to the marginal likelihood of a GAM when it is parameterized as a mixed model (using penalized splines, say). In doing so, the VA framework aims offers both the stability and natural inference tools available in the mixed model approach to GAMs, while achieving computation times comparable to that of using the penalized likelihood approach to GAMs. See Hui et al. (2018) . Package: r-cran-valaddin Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 348 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-lazyeval Suggests: r-cran-magrittr, r-cran-testthat, r-cran-stringr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-valaddin_1.0.2-1.ca2004.1_all.deb Size: 183628 MD5sum: 6bfb85bf38e0b2607749f65e0e3fa920 SHA1: e9711345722a8b015f947d1d1193620f8f6abbdc SHA256: b5a095c4af30baa18c4a8bd70f3be208b29ad6ae17171d3de043a13107385315 SHA512: 091c587a918fe7e07c23138d59e4ca23a6e74d7b4f446668dc4bfa7f71c4fb4368c19b505ff5812774656e873c9053d3361c666c1ab8d07ed37d7ea849d516c4 Homepage: https://cran.r-project.org/package=valaddin Description: CRAN Package 'valaddin' (Functional Input Validation) A set of basic tools to transform functions into functions with input validation checks, in a manner suitable for both programmatic and interactive use. Package: r-cran-valection Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 170 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-testthat Filename: pool/dists/focal/main/r-cran-valection_1.0.0-1.ca2004.1_all.deb Size: 131192 MD5sum: cb9ad6e0ed1f5f21e9581bbe451cc78e SHA1: 2820edc3fd3e61661bcb7b5696771166f6cac1ee SHA256: 3b74b746da2e1fd1070732987572ff7dba98f49f39c2ab8b374c4a421b59c1d4 SHA512: 9d557c2057940c22e1a19e47b8903922885f46c1363d3b45dd9677950eeec29715caeed08684b6fe583ae49bb15babdc4425cd091946f826ffe5d73f0a4298ea Homepage: https://cran.r-project.org/package=valection Description: CRAN Package 'valection' (Sampler for Verification Studies) A binding for the 'valection' program which offers various ways to sample the outputs of competing algorithms or parameterizations, and fairly assess their performance against each other. The 'valection' C library is required to use this package and can be downloaded from: . Cooper CI, et al; Valection: Design Optimization for Validation and Verification Studies; Biorxiv 2018; . Package: r-cran-valentine Architecture: all Version: 2025.2.14-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 574 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-cli, r-cran-ellmer, r-cran-glue, r-cran-rlang Filename: pool/dists/focal/main/r-cran-valentine_2025.2.14-1.ca2004.1_all.deb Size: 540404 MD5sum: 204acb3af4ddeefcaa493e9ca70d3122 SHA1: 1aea095553a527ee400bc21368516e8f484b3177 SHA256: 6e3b5eea2580892943f512dfcafb220589ab2781ec8db4902255cd0e97c4d5aa SHA512: 017bf5080acf9363a498ba512b8b602d523db22368db27a59febec70c7ddd45879cc78b73aacbca49af170cf3ec0459016ee8c331fdb1c9e8a4747cc94820680 Homepage: https://cran.r-project.org/package=valentine Description: CRAN Package 'valentine' (Spread the Love for R Packages with Poetry) Uses large language models to create poems about R packages. Currently contains the roses() function to make "roses are red, ..." style poems and the prompt() function to only assemble the prompt without submitting it to the model. Package: r-cran-valerie Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 9115 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-bioc-genomicalignments, r-bioc-genomicranges, r-bioc-iranges, r-bioc-rsamtools, r-cran-plyr, r-cran-ggplot2, r-cran-pheatmap, r-cran-ggplotify, r-cran-ggpubr, r-cran-scales Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-valerie_1.1.0-1.ca2004.1_all.deb Size: 4462580 MD5sum: 2747fabe8ca377716b98f344b6c45978 SHA1: ea421ab127c069e2053718a143156fa7292872eb SHA256: 51c70738c354fe01b3feb53767549e703f2500f7413737c735a85b882bf9b181 SHA512: a1f0397edbadeb25a6f422742ae724552f9663adc45b7b63a687ab42b0342e55f21348ea336a1cf1c092ef712bad08cdb07455260f90b610a5600729c287d6f4 Homepage: https://cran.r-project.org/package=VALERIE Description: CRAN Package 'VALERIE' (Visualising Splicing at Single-Cell Resolution) Alternative splicing produces a variety of different protein products from a given gene. 'VALERIE' enables visualisation of alternative splicing events from high-throughput single-cell RNA-sequencing experiments. 'VALERIE' computes percent spliced-in (PSI) values for user-specified genomic coordinates corresponding to alternative splicing events. PSI is the proportion of sequencing reads supporting the included exon/intron as defined by Shiozawa (2018) . PSI are inferred from sequencing reads data based on specialised infrastructures for representing and computing annotated genomic ranges by Lawrence (2013) . Computed PSI for each single cell are subsequently presented in the form of a heatmap implemented using the 'pheatmap' package by Kolde (2010) . Board overview of the mean PSI difference and associated p-values across different user-defined groups of single cells are presented in the form of a line graph using the 'ggplot2' package by Wickham (2007) . Package: r-cran-valet Architecture: all Version: 0.9.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-magrittr, r-cran-httr, r-cran-dplyr, r-cran-readr, r-cran-purrr, r-cran-jsonlite Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-valet_0.9.1-1.ca2004.1_all.deb Size: 25684 MD5sum: c73c6962632ae05bb75ea05998c7b72f SHA1: 956452ed72f782fe9483078ad2ae5d0b02664732 SHA256: ec02e82530d93842057f73706d5bce1e4a2b16b3d9414d74928d0d15390b2cb2 SHA512: bfa9615a986360673dd82b9fddae23c5644be904c173f83c5b74b2e808bb46cd2356f513047f17b3bf4638229170c796dff3fcb5d316b0d23df7a4e0bc619c1a Homepage: https://cran.r-project.org/package=valet Description: CRAN Package 'valet' (Provide R Client to the Bank of Canada's Valet API) The Bank of Canada updated their Valet API , and no R client currently exists. This provides access to all of Valet's endpoints and serves responses in wide format easy for researchers to handle but also provides tools to access API responses as a list. Package: r-cran-valh Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 301 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-jsonlite, r-cran-googlepolylines, r-cran-curl, r-cran-sf Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-valh_0.1.0-1.ca2004.1_all.deb Size: 100672 MD5sum: 49c83c404a9b6d7d79e3077fa87f6166 SHA1: 94b839438f63b8bcd4eca837a6b26808a38a2222 SHA256: b33fcb403e62a90222a0f355a57470263e74ed3fbf0e295604bba25f4be56ad3 SHA512: 46ff9a07bfe1ab59fdd676bbe81cf057cf4e7b4d2d9b8b08b338a2353ac0c2a4d30f72161c8b4d541ac25a9596b84e47f40bdad0f32aab44eca49ebf14742272 Homepage: https://cran.r-project.org/package=valh Description: CRAN Package 'valh' (Interface Between R and the OpenStreetMap-Based Routing ServiceValhalla) An interface between R and the 'Valhalla' API. 'Valhalla' is a routing service based on 'OpenStreetMap' data. See for more information. This package enables the computation of routes, trips, isochrones and travel distances matrices (travel time and kilometer distance). Package: r-cran-valhallr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 484 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-purrr, r-cran-jsonlite, r-cran-dplyr, r-cran-magrittr, r-cran-tibble, r-cran-tidyr, r-cran-sf, r-cran-leaflet, r-cran-ggplot2, r-cran-htmltools, r-cran-stringr, r-cran-ggspatial, r-cran-geojsonio, r-cran-rlang, r-cran-cairo Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-valhallr_0.1.0-1.ca2004.1_all.deb Size: 317584 MD5sum: 8c955b1ed02439f43df3517f592ac027 SHA1: 98cfe3ef524434125cd958ddfdf6943208b1493b SHA256: 093c41b417e492e7a40d6c5f5763fc093684994812d93c7545be01d90b2262b4 SHA512: 1ecf24d699ce9238d82e8946e42c83e46283d843261ef72c0c4eeb478a35344e46268daef465b42eedf72182e0858254f10bb3ebf4826c31a66474fb73fd0b9f Homepage: https://cran.r-project.org/package=valhallr Description: CRAN Package 'valhallr' (A Tidy Interface to the 'Valhalla' Routing Engine) An interface to the 'Valhalla' routing engine’s application programming interfaces (APIs) for turn-by-turn routing, isochrones, and origin-destination analyses. Also includes several user-friendly functions for plotting outputs, and strives to follow "tidy" design principles. Please note that this package requires access to a running instance of 'Valhalla', which is open source and can be downloaded from . Package: r-cran-validann Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-moments Suggests: r-cran-nnet, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-validann_1.2.1-1.ca2004.1_all.deb Size: 104192 MD5sum: 65996b5957fd4c5bec2bc52b51bb8073 SHA1: 950ed50ebb5cba8fa8eeaede7a3c290b7abff336 SHA256: 0aca1cb9149137d28c6592b438da0d0302ff29030f3dc06f0184a098bd27e3c1 SHA512: d21b8bfaab1957557c4ed2169bf10704568d1d07bbf0546baf28bc1e1eb039fa34e1be9705149eb709d75ed3fe7aebd4df69ca14154fd0188b82ce79ddca0855 Homepage: https://cran.r-project.org/package=validann Description: CRAN Package 'validann' (Validation Tools for Artificial Neural Networks) Methods and tools for analysing and validating the outputs and modelled functions of artificial neural networks (ANNs) in terms of predictive, replicative and structural validity. Also provides a method for fitting feed-forward ANNs with a single hidden layer. 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Answers essential questions about a data set after initial import or modification. What are the unique or missing values? What columns form a primary key? What are the properties of the numeric or categorical columns? What kind of overlap or mapping exists between 2 columns? Package: r-cran-validatedb Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 220 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-validate, r-cran-dplyr, r-cran-dbplyr Suggests: r-cran-testthat, r-cran-rsqlite, r-cran-covr Filename: pool/dists/focal/main/r-cran-validatedb_0.1.4-1.ca2004.1_all.deb Size: 172484 MD5sum: cabca18c0db677d161ac8873f168903d SHA1: 780bdcc09386338e37662b4a1e26aee12eb46625 SHA256: 2c6366a422fe5eaef522151c8c4ea39a46034d187a7bbaf5a23aa8101b58f070 SHA512: 1786f1313f8b8114b0f863f0fcaa46dc9b1386829dd1d0fd6eaf06ab8b5d168bad6564ce4eb19de3343168e35689baf6ef0f8105d6a6e86289e5018af0848c0f Homepage: https://cran.r-project.org/package=validatedb Description: CRAN Package 'validatedb' (Validate Data in a Database using 'validate') Check whether records in a database table are valid using validation rules in R syntax specified with R package 'validate'. R validation checks are automatically translated to SQL using 'dbplyr'. Package: r-cran-validateit Architecture: all Version: 1.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 299 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-pymturkr, r-cran-rlang, r-cran-tm, r-cran-here, r-cran-snowballc Suggests: r-cran-roxygen2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-validateit_1.2.1-1.ca2004.1_all.deb Size: 269840 MD5sum: 1cc22060b4b2ee7cd3ba679770c23faa SHA1: 50103de72f00f6665001238fddc1c909c5be303b SHA256: 5f4641966d21deb9cc3143df9526972608eda750de7db38020280b37f0bc82f2 SHA512: e542da8d55f54b31e3f5b13e869686fc1824ed5fa2844c85cdf4fcd8457b7244194c356dbd7f71b38db419441b7fc2cb277e0ba04e08ca104a5ea55cdbf2f526 Homepage: https://cran.r-project.org/package=validateIt Description: CRAN Package 'validateIt' (Validating Topic Coherence and Topic Labels) By creating crowd-sourcing tasks that can be easily posted and results retrieved using Amazon's Mechanical Turk (MTurk) API, researchers can use this solution to validate the quality of topics obtained from unsupervised or semi-supervised learning methods, and the relevance of topic labels assigned. This helps ensure that the topic modeling results are accurate and useful for research purposes. See Ying and others (2022) . For more information, please visit . Package: r-cran-validaters Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 155 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-truncnorm, r-cran-triangle, r-cran-reshape2, r-cran-data.table Filename: pool/dists/focal/main/r-cran-validaters_1.0.0-1.ca2004.1_all.deb Size: 125220 MD5sum: f9d8f07024e270185b330cebc47be832 SHA1: 9e9032a5e71ca54ff52f2510640668370c538a36 SHA256: aa579429d098d24def78e110ad1cec6e25b8c713776a118cdd3d1e92c83ab899 SHA512: 52f174a918742a0b96890bd61243a85de0dfab112310f01a1ebdfe27d3f5a4d4e79e736c1b2503d01198a00b8b6981233ac70da101323f2063d996a042169e9e Homepage: https://cran.r-project.org/package=validateRS Description: CRAN Package 'validateRS' (One-Sided Multivariate Testing Procedures for Rating Systems) An implementation of statistical tests for the validation of rating systems as described in the ECB Working paper ''Advances in multivariate back-testing for credit risk underestimation'', by F. Coppens, M. Mayer, L. Millischer, F. Resch, S. Sauer, K. Schulze (ECB WP series, forthcoming). Package: r-cran-validatesuggest Architecture: all Version: 0.3.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-validate, r-cran-whisker, r-cran-rpart Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-validatesuggest_0.3.2-1.ca2004.1_all.deb Size: 72744 MD5sum: 8a5774a171bc26ce6abf02525abfda5e SHA1: 9a60abd715a7431928e5f78e9f177eaaad2968d3 SHA256: bf4d32f2f27bcbe53da4f86f3e394fabaac6257a321237d3548383b72ac5738d SHA512: ef13711d5ccd55f19e92991e06b2c8bd9c7d1cfad5a088038211bcd56d7315aef2da428d63878bf1d360b88e139de83f20f0f24c2fa7ab2957f85e76494be8b9 Homepage: https://cran.r-project.org/package=validatesuggest Description: CRAN Package 'validatesuggest' (Generate Suggestions for Validation Rules) Generate suggestions for validation rules from a reference data set, which can be used as a starting point for domain specific rules to be checked with package 'validate'. Package: r-cran-validatetools Architecture: all Version: 0.5.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 157 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-validate, r-cran-lpsolveapi Suggests: r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-validatetools_0.5.2-1.ca2004.1_all.deb Size: 127812 MD5sum: 4db82581c67ae5df6ab18c9636b93201 SHA1: 9654942861e8aedeacd8ae1b9b3aa7558f3a94a0 SHA256: ac51a795d30146767e711b9f49fdb4447abee6a8fadbf33e646392850d05066b SHA512: 71e157c782441ad1e7ef9749bd7ec1a273ce68b8e9be01e96f479e25113e1edc2cff95995b3e70d2fcdefeefa52a89796cb157ecc42f35d7a731b3ca68d217fb Homepage: https://cran.r-project.org/package=validatetools Description: CRAN Package 'validatetools' (Checking and Simplifying Validation Rule Sets) Rule sets with validation rules may contain redundancies or contradictions. Functions for finding redundancies and problematic rules are provided, given a set a rules formulated with 'validate'. Package: r-cran-validiclust Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 58 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-diptest, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-validiclust_0.1.0-1.ca2004.1_all.deb Size: 28072 MD5sum: 7266d1b497bad1bb408a1f5b180ae036 SHA1: c427c24e5feab6f4536afe26ac37d5148823ae8b SHA256: 0aa613c1adc4b5abf2a82a30ef23d160868e7917a40167a11c9573c5e340bf44 SHA512: 19dfccb871302dd9636c5658900092e73f4c47ab24bef0e2433c6ce5bee573ae19d72c0d007ea4f9d1b4413c15951017b4962d920680958a957dd1e111b951e2 Homepage: https://cran.r-project.org/package=VALIDICLUST Description: CRAN Package 'VALIDICLUST' (VALID Inference for Clusters Separation Testing) Given a partition resulting from any clustering algorithm, the implemented tests allow valid post-clustering inference by testing if a given variable significantly separates two of the estimated clusters. Methods are detailed in: Hivert B, Agniel D, Thiebaut R & Hejblum BP (2022). "Post-clustering difference testing: valid inference and practical considerations", . Package: r-cran-validmind Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 71 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-glue, r-cran-reticulate, r-cran-dplyr, r-cran-plotly, r-cran-htmltools, r-cran-rmarkdown, r-cran-dt, r-cran-base64enc Filename: pool/dists/focal/main/r-cran-validmind_0.1.2-1.ca2004.1_all.deb Size: 40580 MD5sum: 6d64198bcf2f6af0e00d7e73709785fa SHA1: 36e3e3939f893be8316ab261a5205e41762d2eef SHA256: a26a28c2a747028d5f4578f7dfeaa3d4606b74e730f930d0f23939db89c98a68 SHA512: c6abac8200d22780511e4259ea99e7bf01a6da2b43ed7ae8cb7578e0143842d4ef6b4feedb657367874f6c68c9acf7d989a09ce62fdbcc78f4a7476cb4b82523 Homepage: https://cran.r-project.org/package=validmind Description: CRAN Package 'validmind' (Interface to the 'ValidMind' Platform) Deploy, execute, and analyze the results of models hosted on the 'ValidMind' platform . This package interfaces with the 'Python' client library in order to allow advanced diagnostics and insight into trained models all from an 'R' environment. Package: r-cran-valmetrics Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2043 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-roxygen2, r-cran-knitr, r-cran-markdown Filename: pool/dists/focal/main/r-cran-valmetrics_1.0.0-1.ca2004.1_all.deb Size: 1315644 MD5sum: 2f099210cfde741e619c74411fa709bc SHA1: aefb504c90c57d1d2ff67e117cbe85605f5cf759 SHA256: cbfd81d86ce8591331eeb449e3b4ca3003836e5f22982407830449c0c38ae0ad SHA512: 950a65263900344f7136659d2c2735dd1002573362afca02741db784447d9804949a8258636db6d2a8045a398d64dedfc33a75a6ecfedce972cdd5a57f2c267e Homepage: https://cran.r-project.org/package=valmetrics Description: CRAN Package 'valmetrics' (Metrics and Plots for Model Evaluation) Functions for metrics and plots for model evaluation. Based on vectors of observed and predicted values. Method: Kristin Piikki, Johanna Wetterlind, Mats Soderstrom and Bo Stenberg (2021). . Package: r-cran-valottery Architecture: all Version: 0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 292 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-valottery_0.0.1-1.ca2004.1_all.deb Size: 221376 MD5sum: b20e75fcf66b7446d12df90dd216c5bd SHA1: 1ada36f71ae4d2a93170f6fd1aa0861bd79588e7 SHA256: cdeb361f0f9b2abcf48490f23919797d02cc16afa63c23dc9eb6ca36153eea95 SHA512: 5508af2140afbd7c9e6469f80b9dd3bb23bb08892bd00406fc86a1fd45de4c5f11ade7fbd400aeb21dfd61011789f934010eb30d8101a1012116ea269632e766 Homepage: https://cran.r-project.org/package=valottery Description: CRAN Package 'valottery' (Results from the Virginia Lottery Draw Games) Historical results for the state of Virginia lottery draw games. Data were downloaded from https://www.valottery.com/. Package: r-cran-valueeq5d Architecture: all Version: 0.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 613 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-testthat Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-valueeq5d_0.7.2-1.ca2004.1_all.deb Size: 487052 MD5sum: dc1b34b2186e6e37d00dc142aa821c91 SHA1: 55d5c4e456705d1056fb0b703b09a00e255650ae SHA256: e431ff43e61abfa8e490b4f4b0f1728a83720c392e15c6ef2efbd6c1736720b4 SHA512: 144a42c713591551572222457a1993abb5f8d233820123b329ca5a5ca916384a609e0528c5d71cdb7ccfaf7ef5451df80168f28afb48e41dd6f15ef610f3e414 Homepage: https://cran.r-project.org/package=valueEQ5D Description: CRAN Package 'valueEQ5D' (Scoring EQ-5d Descriptive System) EQ-5D is a standard instrument () that measures the quality of life often used in clinical and economic evaluations of health care technologies. Both adult versions of EQ-5D (EQ-5D-3L and EQ-5D-5L) contain a descriptive system and visual analog scale. The descriptive system measures the patient's health in 5 dimensions: the 5L versions has 5 levels and 3L version has 3 levels. The descriptive system scores are usually converted to index values using country specific values sets (that incorporates the country preferences). This package allows the calculation of both descriptive system scores to the index value scores. The value sets for EQ-5D-3L are from the references mentioned in the website The value sets for EQ-5D-3L for a total of 31 countries are used for the valuation (see the user guide for a complete list of references). The value sets for EQ-5D-5L are obtained from references mentioned in the and other sources. The value sets for EQ-5D-5L for a total of 17 countries are used for the valuation (see the user guide for a complete list of references). The package can also be used to map 5L scores to 3L index values for 10 countries: Denmark, France, Germany, Japan, Netherlands, Spain, Thailand, UK, USA, and Zimbabwe. The value set and method for mapping are obtained from Van Hout et al (2012) . 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Each instrument and value set characterizes and values health differently. Identical health states can yield different utility values when valued using different value sets. The 'valueSetCompare' package facilitates comparisons of HRQoL value sets, enabling both theoretical and empirical comparisons. For empirical comparisons, it employs a novel simulation-based method by Jiang et al. (2022) , allowing users to investigate the responsiveness of HRQoL instruments across the entire health spectrum using cross-sectional data with external health anchors. 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This way, one may e.g. specify a VAR inducing a strong presence of long-term fluctuations in series 1 and in series 2, which are weakly correlated, but lagged by a number of time units to each other, while short-term fluctuations in series 1 and in series 2, are strongly present only in one of the two series, while they are strongly correlated to each other between the two series. Simulation from such models allows studying the behavior of data-analysis tools, such as estimation of the spectra, under different circumstances, as e.g. peaks in the spectra, generating bias, induced by leakage. 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(2024) , "Sequential Change Point Detection in High-dimensional Vector Auto-regressive Models". This package provides tools for detecting change points in the transition matrices of VAR models, effectively identifying shifts in temporal and cross-correlations within high-dimensional time series data. 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Package: r-cran-vared Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 47 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-vared_1.0.0-1.ca2004.1_all.deb Size: 16732 MD5sum: f8ba010084da53b3c0b1c3902f67c009 SHA1: f66026c2e3c31858654bf00180b0a29aaf23393a SHA256: 11762f9c9f81e28ad9f08a0ab2ad16ed6113ad5504ffe9101793e5560d1aeb7a SHA512: fc4648a6ceaf5bc6edba64ff35ecf32997a70b5b7c983792fe903fdd3ccee9a6c7c3d99c11e1874e6e0792546b53548baf89580a5f67e30dca004c6ba329614d Homepage: https://cran.r-project.org/package=VarED Description: CRAN Package 'VarED' (Variance Estimation using Difference-Based Methods) Generating functions for both optimal and ordinary difference sequences, and the difference-based estimation functions. Package: r-cran-vares Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 850 Depends: r-base-core (>= 4.2.2), r-api-4.0 Filename: pool/dists/focal/main/r-cran-vares_1.0.2-1.ca2004.1_all.deb Size: 712648 MD5sum: 8414172a041beedf2309a149e8036411 SHA1: 369711d4d9e5096984631646e00f1a888c6ffe53 SHA256: 953d13711d0eb1835a9de8e5d12f28caca803990792ebf0f7124064c350a8576 SHA512: 139e4196dc808577a8ed09271abb947db6165d27b32471d0828f0be5d143d6d8ba70d19fa69312ad8782ea1ca2ab24b47dc233228a213394fd3de06bfc4d9ad4 Homepage: https://cran.r-project.org/package=VaRES Description: CRAN Package 'VaRES' (Computes Value at Risk and Expected Shortfall for over 100Parametric Distributions) Computes Value at risk and expected shortfall, two most popular measures of financial risk, for over one hundred parametric distributions, including all commonly known distributions. Also computed are the corresponding probability density function and cumulative distribution function. See Chan, Nadarajah and Afuecheta (2015) for more details. Package: r-cran-varest Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 84 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sam, r-cran-caret, r-cran-lm.beta, r-cran-glmnet Filename: pool/dists/focal/main/r-cran-varest_0.1.0-1.ca2004.1_all.deb Size: 55252 MD5sum: 454176a0810035057b3a2004f453030c SHA1: dcac594ddab8ae294e42b919c8a85dba69ead945 SHA256: d241435912b046f3ee10c4d1059f8b31ce3a1ce84bc2683449854f7ee351083d SHA512: c4532de103d8a56c0e77697f7513a245620c81ddfdbcf5edbd287accbf99751db707e2ff76c87773a6bf4227592d84ab69095fd3b48aa6905d7e7e6f1583a31c Homepage: https://cran.r-project.org/package=varEst Description: CRAN Package 'varEst' (Variance Estimation) Error variance estimation in ultrahigh dimensional datasets with four different methods, viz. 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Package: r-cran-varfrompdb Architecture: all Version: 2.2.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 236 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-xml2r, r-cran-curl, r-cran-stringr, r-cran-stringi, r-cran-rismed Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-varfrompdb_2.2.10-1.ca2004.1_all.deb Size: 157824 MD5sum: f06b8e6e8782dd36dd4ca9fb42e99c81 SHA1: 9c33bd3d7e33e32254686ec9d8edea96a59b8680 SHA256: 680cef1ac8633f134c86fc0776290cafc4b0c6468bcf740c1174ed0c2368443c SHA512: 2ec6ad3258f888c3289e139ee5d98aa289678f19bae95f178ef6ac4ddbdfcf22b3fb6fa1f7d9835b681a1e04856022b4cbe89559508121516898f449dc400142 Homepage: https://cran.r-project.org/package=VarfromPDB Description: CRAN Package 'VarfromPDB' (Disease-Gene-Variant Relations Mining from the Public Databasesand Literature) Captures and compiles the genes and variants related to a disease, a phenotype or a clinical feature from the public databases including HPO (Human Phenotype Ontology, ), Orphanet , OMIM (Online Mendelian Inheritance in Man, ), ClinVar , and UniProt (Universal Protein Resource, ) and PubMed abstracts. HPO provides a standardized vocabulary of phenotypic abnormalities encountered in human disease. HPO currently contains approximately 11,000 terms and over 115,000 annotations to hereditary diseases. Orphanet is the reference portal for information on rare diseases and orphan drugs, whose aim is to help improve the diagnosis, care and treatment of patients with rare diseases. OMIM is a continuously updated catalog of human genes and genetic disorders and traits, with particular focus on the molecular relationship between genetic variation and phenotypic expression. ClinVar is a freely accessible, public archive of reports of the relationships among human variations and phenotypes, with supporting evidence. UniProt focuses on amino acid altering variants imported from Ensembl Variation databases. For Homo sapiens, the variants including human polymorphisms and disease mutations in the UniProt are manually curated from UniProtKB/Swiss-Prot. Additionally, PubMed provides the primary and latest source of the information. Text mining was employed to capture the information from PubMed abstracts. 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This package contains some functions to help user (especially data explorers) to make more sense of their variables and take the most out of variables and hardware resources. These functions are written and crafted since 2014 with years of experience in statistical data analysis on high-dimensional data, and for each of them there was a need. Functions in this package are supposed to be efficient and easy to use, hence they will be frequently updated to make them more convenient. 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The package also has functions for genotypic and phenotypic covariance, correlation and path analysis. Dataset has been added to facilitate example. For more information refer Singh, R.K. and Chaudhary, B.D. (1977, ISBN:81766330709788176633079). Package: r-cran-variables Architecture: all Version: 1.1-2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-variables_1.1-2-1.ca2004.1_all.deb Size: 43296 MD5sum: 9b14a4c30202cd6dc3bae83b09764bc0 SHA1: d7398c812ef70adda2efe663888822335200bc32 SHA256: f552a304d9297ef931c01c6be45a55bb585570c2433e4453aa1a0cb8104d8d85 SHA512: fc73dfa724214da21acec8ae13d1d7580029d8f45e60832ad4a09608d51f99317e307a24f54119f783effecfe459cc6ba4699cd1b9b4481c5237af06c2e235c0 Homepage: https://cran.r-project.org/package=variables Description: CRAN Package 'variables' (Variable Descriptions) Abstract descriptions of (yet) unobserved variables. 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Techniques for independent (iid) data, varying-coefficient models, and longitudinal data are implemented. The package currently contains three screen functions: screenIID(), screenLD() and screenVCM(), and six methods for simulating dataset: simulateDCSIS(), simulateLD, simulateMVSIS(), simulateMVSISNY(), simulateSIRS() and simulateVCM(). The package is based on the work of Li-Ping ZHU, Lexin LI, Runze LI, and Li-Xing ZHU (2011) , Runze LI, Wei ZHONG, & Liping ZHU (2012) , Jingyuan LIU, Runze LI, & Rongling WU (2014) Hengjian CUI, Runze LI, & Wei ZHONG (2015) , and Wanghuan CHU, Runze LI and Matthew REIMHERR (2016) . 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Also, functions for computing moments of the variance gamma distribution of any order about any location. In addition, there are functions for checking the validity of parameters and to interchange different sets of parameterizations for the variance gamma distribution. Package: r-cran-variantscan Architecture: all Version: 1.1.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1529 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-bioc-snprelate, r-cran-caret, r-cran-gam, r-cran-modelmetrics Suggests: r-cran-knitr, r-cran-testthat, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-variantscan_1.1.9-1.ca2004.1_all.deb Size: 227668 MD5sum: 9251cfdee739928f95b85db37a7d334f SHA1: d274d93d77c7e6af46d5b108593a61670da75b8f SHA256: 82adf2c6be6080ea4d7c19259ebce98824e54ad1a2a3166e3639f77eb3bb8f08 SHA512: 362a6f5182c26dd54681b0a838e36a751acb45857789912aecfcc1c95743bcca0ca066281adf313e0332a9d27f61523a92aec9e64c98e3df77d202e9db28ce35 Homepage: https://cran.r-project.org/package=VariantScan Description: CRAN Package 'VariantScan' (A Machine Learning Tool for Genetic Association Studies) Portable, scalable and highly computationally efficient tool for genetic association studies."VariantScan" provides a set of machine learning methods (Linear, Local Polynomial Regression Fitting and Generalized Additive Model with Local Polynomial Smoothing) for genetic association studies that test for disease or trait association with genetic variants (biomarkers, e.g.,genomic (genetic loci), transcriptomic (gene expressions), epigenomic (methylations), proteomic (proteins), metabolomic (metabolites)). It is particularly useful when local associations and complex nonlinear associations exist. Package: r-cran-variantspark Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1530 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sparklyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-variantspark_0.1.1-1.ca2004.1_all.deb Size: 1412720 MD5sum: 16b28ca773a33469eb928fc7d2e335d0 SHA1: 6a14e7e8992d7d67814f94e26f9108e10b501118 SHA256: 874e20e352fe2bd53c9f448d1292c9e1d3e4d5d4c0c0a6e8513af4a0850fbd8f SHA512: cc197545bb3ef95dd2cb0f458c2bb379a2945c89d2f8fcb575999a8585cb8951f1789aed66a85c1cff974faecc0ebd8a06c8a41aa0b319d04b71f16424f185eb Homepage: https://cran.r-project.org/package=variantspark Description: CRAN Package 'variantspark' (A 'Sparklyr' Extension for 'VariantSpark') This is a 'sparklyr' extension integrating 'VariantSpark' and R. 'VariantSpark' is a framework based on 'scala' and 'spark' to analyze genome datasets, see . It was tested on datasets with 3000 samples each one containing 80 million features in either unsupervised clustering approaches and supervised applications, like classification and regression. The genome datasets are usually writing in VCF, a specific text file format used in bioinformatics for storing gene sequence variations. So, 'VariantSpark' is a great tool for genome research, because it is able to read VCF files, run analyses and return the output in a 'spark' data frame. Package: r-cran-variationaldcm Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 199 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-mvtnorm Suggests: r-cran-knitr Filename: pool/dists/focal/main/r-cran-variationaldcm_2.0.1-1.ca2004.1_all.deb Size: 139060 MD5sum: 3e8eb5f60226a82e205294037f544835 SHA1: 585126175a5d8e7f49b88fe72085fead6479ebfb SHA256: ffa100983595a294b2bbdce7f2bdad29204b839f4bea6890132f5d9d93882ba8 SHA512: 511a0a0a8de0940c51cdb59aa99b6cee3214dd111791484740a15d94f7add0c9a5ed024e624757b23c23df08b13c71778eef3d172893ee2bd648d54ac1deb16e Homepage: https://cran.r-project.org/package=variationalDCM Description: CRAN Package 'variationalDCM' (Variational Bayesian Estimation for Diagnostic ClassificationModels) Enables computationally efficient parameters-estimation by variational Bayesian methods for various diagnostic classification models (DCMs). DCMs are a class of discrete latent variable models for classifying respondents into latent classes that typically represent distinct combinations of skills they possess. Recently, to meet the growing need of large-scale diagnostic measurement in the field of educational, psychological, and psychiatric measurements, variational Bayesian inference has been developed as a computationally efficient alternative to the Markov chain Monte Carlo methods, e.g., Yamaguchi and Okada (2020a) , Yamaguchi and Okada (2020b) , Yamaguchi (2020) , Oka and Okada (2023) , and Yamaguchi and Martinez (2023) . 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Series: Advanced Studies in Theoretical and Applied Econometrics. Springer 2014, p. 9-40. 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The package was package was originally inspired by the book "Visualizing Categorical Data" by Michael Friendly and is now the main support package for a new book, "Discrete Data Analysis with R" by Michael Friendly and David Meyer (2015). 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In particular, 'vcdExtra' extends mosaic, assoc and sieve plots from 'vcd' to handle 'glm()' and 'gnm()' models and adds a 3D version in 'mosaic3d'. Additionally, methods are provided for comparing and visualizing lists of 'glm' and 'loglm' objects. This package is now a support package for the book, "Discrete Data Analysis with R" by Michael Friendly and David Meyer. Package: r-cran-vchartr Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3801 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-htmlwidgets, r-cran-magrittr, r-cran-rlang, r-cran-scales Suggests: r-cran-bslib, r-cran-knitr, r-cran-geojsonio, r-cran-palmerpenguins, r-cran-rmarkdown, r-cran-sf, r-cran-shiny Filename: pool/dists/focal/main/r-cran-vchartr_0.1.4-1.ca2004.1_all.deb Size: 1757160 MD5sum: 8182b26bdffa79619c239cedf00b4e78 SHA1: a45f4b2aadba3c5384391bbb683ad0bd5bd5689c SHA256: 31a6d4d9053a3f375fda65e979e22808db423112a401d8c06b6af98bbf6dc93c SHA512: a528db0b0bd3f3aff7f242ef1067d423c36546e476af1c2a6fdb45a56d3ba90062961b6a26914d74ab7a5736f4c03ae3fe5b8b252fdac1cce58b36d47273bc5b Homepage: https://cran.r-project.org/package=vchartr Description: CRAN Package 'vchartr' (Interactive Charts with the 'JavaScript' 'VChart' Library) Provides an 'htmlwidgets' interface to 'VChart.js'. 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These methods do not assume effect size homogeneity. Subgroup effect size comparisons, general linear effect size contrasts, and linear models of effect sizes based on varying coefficient methods can be used to describe effect size heterogeneity. Varying coefficient meta-analysis methods do not require the unrealistic assumptions of the traditional fixed-effect and random-effects meta-analysis methods. For details see: Statistical Methods for Psychologists, Volume 5, . 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A port of the Ruby gem of the same name (). Works by hooking into the 'webmockr' R package for matching 'HTTP' requests by various rules ('HTTP' method, 'URL', query parameters, headers, body, etc.), and then caching real 'HTTP' responses on disk in 'cassettes'. Subsequent 'HTTP' requests matching any previous requests in the same 'cassette' use a cached 'HTTP' response. 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Also, some standard response surface designs can be generated. 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'vDiveR' allows visualization of the diversity motifs (index and its variants – major, minor and unique) for elucidation of the underlying inherent dynamics. Please refer for more information. 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This package addresses two common scenarios in functional data analysis: Variable Domain Data, where the observation domain differs across samples, and Partially Observed Data, where observations are incomplete over the domain of interest. 'VDPO' enhances the flexibility and applicability of functional data analysis in 'R'. See Amaro et al. (2024) . Package: r-cran-vdsm Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 118 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-plyr, r-cran-dplyr, r-cran-viridis, r-cran-gridextra, r-cran-knitr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-vdsm_0.1.1-1.ca2004.1_all.deb Size: 83488 MD5sum: 28a760c91e619de75c5b1f69ac0be07b SHA1: 4ef719c44079488f09cd8e8a0004397a1d6ba54d SHA256: 0e555e24ebfd7d2682d3925c315c3643c43734e333ff53ec348af60c6415d65e SHA512: 63285a64e869aaff459dca96ebe19109e2d0ef84161c71e13219b614ca2864edcc322ad1fccb0c8c4dc6645d936eda0ac8245127467ab57bf4c8be2854b298af Homepage: https://cran.r-project.org/package=VDSM Description: CRAN Package 'VDSM' (Visualization of Distribution of Selected Model) Although model selection is ubiquitous in scientific discovery, the stability and uncertainty of the selected model is often hard to evaluate. 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Package: r-cran-vectorcoder Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 85 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-readxl, r-cran-tidyverse, r-cran-ggplot2, r-cran-tidyr, r-cran-dplyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-vectorcoder_0.2.0-1.ca2004.1_all.deb Size: 36964 MD5sum: 3879e0b92aacdecd8e2263c8567c6dc1 SHA1: a0c499c6ef6ef2049333d95a09c21f2de758fe49 SHA256: 15f0549e26b6c47bb66d17cccb10566f889a2029df1fcd58da1bc2930e38ae4d SHA512: e8839c6420810b6af6100d39cb870672536a74bbc99a3fd1a08d644d2516a909961c0d5b180d3dec145e1f761a6a539a1ff106c7d402adc9917ceb74e240db72 Homepage: https://cran.r-project.org/package=VectorCodeR Description: CRAN Package 'VectorCodeR' (Easily Analyze Your Gait Patterns Using Vector Coding Technique) Facilitate the analysis of inter-limb and intra-limb coordination in human movement. 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Functions exist which enable building a valid 'spec' from scratch or importing a previously created 'spec' file. Functions also exist to export 'spec' files and to generate code which will enable plots to be embedded in properly configured web pages. The default behavior is to generate an 'htmlwidget'. 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Taxonomic harmonization (given appropriate taxonomic lists, e.g. the German taxonomic standard list "GermanSL", ). Package: r-cran-vegindexcalc Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-vegindexcalc_0.1.0-1.ca2004.1_all.deb Size: 20708 MD5sum: e790b2dfb6cd1e7b5bd7b88f26ea7cc6 SHA1: 89c9e8ee4f67c93811f3c938ce86d81269352953 SHA256: a8c022220db031c07963d19a74105ea5bd38cfdc47554cc97f22f8855c06aa3e SHA512: d754137b52137fc5ef1672c3b3440b0b9eec0276118a953e7124cc55764d43e4e1f7690089431f91f4b1ce992da22bf67b4e4645217b09b860ee281327b7a172 Homepage: https://cran.r-project.org/package=vegIndexCalc Description: CRAN Package 'vegIndexCalc' (Vegetation Indices (VIs) Calculation for Remote Sensing Analysis) It provides a comprehensive toolkit for calculating a suite of common vegetation indices (VIs) derived from remote sensing imagery. VIs are essential tools used to quantify vegetation characteristics, such as biomass, leaf area index (LAI) and photosynthetic activity, which are essential parameters in various ecological, agricultural, and environmental studies. Applications of this package include biomass estimation, crop monitoring, forest management, land use and land cover change analysis and climate change studies. For method details see, Deb,D.,Deb,S.,Chakraborty,D.,Singh,J.P.,Singh,A.K.,Dutta,P.and Choudhury,A.(2020). Utilizing this R package, users can effectively extract and analyze critical information from remote sensing imagery, enhancing their comprehension of vegetation dynamics and their importance in global ecosystems. The package includes the function vegetation_indices(). Package: r-cran-vegperiod Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 237 Depends: r-base-core (>= 4.2.0), r-api-4.0 Suggests: r-cran-curl, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-vegperiod_0.4.0-1.ca2004.1_all.deb Size: 122888 MD5sum: 8a4380fda998412fa61e37fe6bdd0cd8 SHA1: 2f67add4648e2bbe2ed86733a3a585c12c8b9d7e SHA256: a2324583617a997259e3b7fd83c1577098b66be7a9097b3acdf51783c2c7106f SHA512: 9c34e3d3198959854505fbc03e9c97fddb0f4534b64243e6906e5fe497a8a0466187b6e1a6afc3b51930cae0649d8be349c0244f31260df7883bc0d7edb274d2 Homepage: https://cran.r-project.org/package=vegperiod Description: CRAN Package 'vegperiod' (Determine Thermal Vegetation Periods) Collection of common methods to determine growing season length in a simple manner. Start and end dates of the vegetation periods are calculated solely based on daily mean temperatures and the day of the year. Package: r-cran-vegspecindex Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 73 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-vegspecindex_0.1.0-1.ca2004.1_all.deb Size: 43252 MD5sum: 28787e65fee28e3f37a826ea0d96c893 SHA1: cdabfded96f55a04bfe531fd57890d4386624a59 SHA256: 538013b9628ae8db868f3942ba2223cb7bc9c349bdd37ded467842cfba716d08 SHA512: 8fc34586880912a5d469557f22fb155923618e70e544dcc433619358d4d3052da2a8af5ee5ea2dea651c6219a5ebf3a996d0954a21e6c9594bf625f5e664adf7 Homepage: https://cran.r-project.org/package=VegSpecIndex Description: CRAN Package 'VegSpecIndex' (Vegetation and Spectral Indices for Environmental Assessment) Earth system dynamics, such as plant dynamics, water bodies, and fire regimes, are widely monitored using spectral indicators obtained from multispectral remote sensing products. There is a great need for spectral index catalogues and computing tools as a result of the quick rise of suggested spectral indices. Unfortunately, the majority of these resources lack a standard Application Programming Interface, are out-of-date, closed-source, or are not linked to a catalogue. We now introduce 'VegSpecIndex', a standardised list of spectral indices for studies of the earth system. A thorough inventory of spectral indices is offered by 'VegSpecIndex' and is connected to an R library. For every spectral index, 'VegSpecIndex' provides a comprehensive collection of information, such as names, formulae, and source references. The user community may add more items to the catalogue, which will keep 'VegSpecIndex' up to date and allow for further scientific uses. Additionally, the R library makes it possible to apply the catalogue to actual data, which makes it easier to employ remote sensing resources effectively across a variety of Earth system domains. 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The data are 100 replicates from a multiple imputation through chained equations as described in Van Buuren and Groothuis-Oudshoorn (2011) . With the replicates the user can examine four human rights violations that occurred in the Colombian conflict accounting for the impact of missing fields and fully missing observations. 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Here, the idea is to fit multiple variance functions to a data set and consequently assess which function reflects the relationship 'Var ~ Mean' best. For 'in-vitro diagnostic' ('IVD') assays modeling this relationship is of great importance when individual test-results are used for defining follow-up treatment of patients. Package: r-cran-vfprogression Architecture: all Version: 0.7.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-vfprogression_0.7.1-1.ca2004.1_all.deb Size: 85180 MD5sum: 805e5e417e47180575851ee7c4148eff SHA1: 601cb3c1d60f94694b91f09f7089f1e61bbbf2d2 SHA256: 5f78daa4de6a466c27bbd9cce645c6bc297bf102a54ae21a0fc9e8c0ea14e0ed SHA512: 52f3e93377c48488ba1ee2b34cc61f25ac262d450628b4128f404c85fb8a8cdbf157ec9ac48a09198155d31242e1ab7730fffe199318988995a6a8f1094943f3 Homepage: https://cran.r-project.org/package=vfprogression Description: CRAN Package 'vfprogression' (Visual Field (VF) Progression Analysis and Plotting Methods) Realization of published methods to analyze visual field (VF) progression. Introduction to the plotting methods (designed by author TE) for VF output visualization. A sample dataset for two eyes, each with 10 follow-ups is included. 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Package: r-cran-via Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1553 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-tinytest, r-cran-knitr, r-cran-rmarkdown, r-cran-terra, r-cran-sp, r-cran-sf Filename: pool/dists/focal/main/r-cran-via_0.2.0-1.ca2004.1_all.deb Size: 1383072 MD5sum: c2dab5ef3e7af0f1adb845186b81a286 SHA1: f170964865b00fcae7b3e11183f169111116a540 SHA256: 28f83109b5d4871123e957b507d9d473fd1ac1079272173f2ed0d95242ca624d SHA512: 0d2178f73c9d35d60d43658f698c5a02fd0150e56a3053b7c1eca4337be2fa042465e753f65313e60ef2cf7247b51ef15b557089a5f9a917eb80e435303e2d4d Homepage: https://cran.r-project.org/package=via Description: CRAN Package 'via' (Virtual Arrays) The base class 'VirtualArray' is defined, which acts as a wrapper around lists allowing users to fold arbitrary sequential data into n-dimensional, R-style virtual arrays. 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Aside from some standard model- specific variable importance measures, this package also provides model- agnostic approaches that can be applied to any supervised learning algorithm. These include 1) an efficient permutation-based variable importance measure, 2) variable importance based on Shapley values (Strumbelj and Kononenko, 2014) , and 3) the variance-based approach described in Greenwell et al. (2018) . A variance-based method for quantifying the relative strength of interaction effects is also included (see the previous reference for details). Package: r-cran-vipor Architecture: all Version: 0.4.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4686 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-testthat, r-cran-beeswarm, r-cran-lattice, r-cran-ggplot2, r-cran-beanplot, r-cran-vioplot, r-cran-ggbeeswarm Filename: pool/dists/focal/main/r-cran-vipor_0.4.7-1.ca2004.1_all.deb Size: 4505468 MD5sum: 08833b282fb0557a87da951e78cd1b95 SHA1: 7bb17c00106a42d2f8bed8503a3c32188d9e3d08 SHA256: a836f097d504e9f08dd84ee15a0f1072322bb50c7d74aa0c0376f7c6e28ff156 SHA512: 17852138bec5e66c763b3a668444b22fddb1d1ef6356feb0f2144b9e02b61478947ad03515263a29d1ab2e1ba9efbba29ef9ced6dcba55f2cbccc015f8f07520 Homepage: https://cran.r-project.org/package=vipor Description: CRAN Package 'vipor' (Plot Categorical Data Using Quasirandom Noise and DensityEstimates) Generate a violin point plot, a combination of a violin/histogram plot and a scatter plot by offsetting points within a category based on their density using quasirandom noise. Package: r-cran-viprodesign Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 94 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-bioc-biostrings, r-bioc-decipher, r-cran-cluster, r-cran-pathviewr, r-cran-dbscan, r-cran-ape Suggests: r-cran-optparse Filename: pool/dists/focal/main/r-cran-viprodesign_0.1.0-1.ca2004.1_all.deb Size: 40664 MD5sum: 1fee942dd92c5ea42f55999ff2fcaee4 SHA1: 21589e1130d2093e5a01949a6a3901dd8320dce1 SHA256: 86c1c0b486e8942c4be9645a8dba4fda48a9d40767b67d1b55201a4bef2c3b0c SHA512: e590e2916b107dc1834eb5b7af3331b201f5ace80bb108fc0aedacf34be076e917db991f871b54eaa3a55c1a8ed5ca65fb92ed2ff8748213bd50fc7567429ebf Homepage: https://cran.r-project.org/package=VIProDesign Description: CRAN Package 'VIProDesign' (A Comprehensive Tool for Protein Design) Provides tools for designing virus protein panels through sequence clustering and protein sequence analysis. The package includes functionality for filtering sequences, removing redundancy, identifying outliers, clustering sequences, and calculating entropy to evaluate clustering quality. A publication describing these methods is in preparation and will be added once available. Package: r-cran-viraldomain Architecture: all Version: 0.0.7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-applicable, r-cran-dplyr, r-cran-earth, r-cran-kknn, r-cran-magrittr, r-cran-parsnip, r-cran-ranger, r-cran-recipes, r-cran-tidyselect, r-cran-workflows Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-viraldomain_0.0.7-1.ca2004.1_all.deb Size: 31140 MD5sum: 951ab3e5fba50600ddf852cee311e54a SHA1: 8cf94ddf2f9a59f4dd49df83d751080d79453646 SHA256: dfc15de4b214a56271a1a6a39d547542e80124cbce3644713feb02e4e7b2f4a4 SHA512: 5964a370e79c6ae617299d63d5918acce950cfa04d5d1012a30112d1898f5607ceabfde336331e6f136811b70b72fb28b8249a30674abc6a0b9794e6cb58d022 Homepage: https://cran.r-project.org/package=viraldomain Description: CRAN Package 'viraldomain' (Applicability Domain Methods of Viral Load and CD4 Lymphocytes) Provides methods for assessing the applicability domain of models that predict viral load and CD4 (Cluster of Differentiation 4) lymphocyte counts. These methods help determine the extent of extrapolation when making predictions. Package: r-cran-viralmodels Architecture: all Version: 1.3.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 60 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-baguette, r-cran-cubist, r-cran-dials, r-cran-dplyr, r-cran-glmnet, r-cran-hardhat, r-cran-kernlab, r-cran-kknn, r-cran-magrittr, r-cran-parsnip, r-cran-purrr, r-cran-ranger, r-cran-recipes, r-cran-rsample, r-cran-rules, r-cran-tidyselect, r-cran-tune, r-cran-viraldomain, r-cran-workflows, r-cran-workflowsets Suggests: r-cran-earth, r-cran-nnet, r-cran-rpart, r-cran-testthat Filename: pool/dists/focal/main/r-cran-viralmodels_1.3.4-1.ca2004.1_all.deb Size: 29512 MD5sum: 4c720f1db210d60bb141ac93fc5b1088 SHA1: 2bf57afcfb2da4838f0838e24449e9325477de3f SHA256: 087a927f7f16038f69a5d1704ffb73e62c84273af21ac49e7a522cba137a80dc SHA512: d439808ae69a811ce81f2f0f3501ceb0328dd66f249ff5add48dc3461180d729fcdea97eec1cec6b73b9da5dd54fd201ff1f0b5b82c402cf4f5331343b6a055b Homepage: https://cran.r-project.org/package=viralmodels Description: CRAN Package 'viralmodels' (Viral Load and CD4 Lymphocytes Regression Models) Provides a comprehensive framework for building, evaluating, and visualizing regression models for analyzing viral load and CD4 (Cluster of Differentiation 4) lymphocytes data. It leverages the principles of the tidymodels ecosystem of Max Kuhn and Hadley Wickham (2020) to offer a user-friendly experience in model development. This package includes functions for data preprocessing, feature engineering, model training, tuning, and evaluation, along with visualization tools to enhance the interpretation of model results. It is specifically designed for researchers in biostatistics, computational biology, and HIV research who aim to perform reproducible and rigorous analyses to gain insights into disease dynamics. The main focus is on improving the understanding of the relationships between viral load, CD4 lymphocytes, and other relevant covariates to contribute to HIV research and the visibility of vulnerable seropositive populations. Package: r-cran-viralx Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 108 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dalex, r-cran-dalextra, r-cran-dplyr, r-cran-earth, r-cran-formula, r-cran-kknn, r-cran-parsnip, r-cran-plotmo, r-cran-plotrix, r-cran-recipes, r-cran-rsample, r-cran-teachingdemos, r-cran-vdiffr, r-cran-workflows Suggests: r-cran-cubist, r-cran-rules, r-cran-testthat Filename: pool/dists/focal/main/r-cran-viralx_1.3.0-1.ca2004.1_all.deb Size: 71820 MD5sum: 50a320084474c9269cd54918dace8454 SHA1: d0bf90a97b4e7eca5cc2a5c47bca0f620a9d12c3 SHA256: f6499e22301b7dc68307fd80d830abfd660760dfad91e6ce96e00a903e863841 SHA512: 0345436c7e5f4893d6501f495dfe5241f31a8edcf37fa2aee088380254504b7932e4b4aae752042b1a1e18c9932f323a521589f0a30c8ec2fa0224e226ff1da8 Homepage: https://cran.r-project.org/package=viralx Description: CRAN Package 'viralx' (Explainers for Regression Models in HIV Research) A dedicated viral-explainer model tool designed to empower researchers in the field of HIV research, particularly in viral load and CD4 (Cluster of Differentiation 4) lymphocytes regression modeling. Drawing inspiration from the 'tidymodels' framework for rigorous model building of Max Kuhn and Hadley Wickham (2020) , and the 'DALEXtra' tool for explainability by Przemyslaw Biecek (2020) . It aims to facilitate interpretable and reproducible research in biostatistics and computational biology for the benefit of understanding HIV dynamics. Package: r-cran-virf Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 49 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-rmgarch, r-cran-mgarchbekk, r-cran-gnm, r-cran-expm, r-cran-bigvar, r-cran-ks, r-cran-matrixcalc, r-cran-matlib Filename: pool/dists/focal/main/r-cran-virf_0.1.0-1.ca2004.1_all.deb Size: 19408 MD5sum: fc1bcf9f3b99d17735ba65fa66d7355e SHA1: f9bc9cd3ef73f4f6c7fe7b50f27b3b9cb4c3ab22 SHA256: c48d01084c207f47a90429474d5230ae83a335addfd572822a8ecd95bcee1654 SHA512: ab577c66bc0c0a832d486270d58312873cef9146624ef5b837e3aa215f5310e2597ec6bd9e62b2b75aeb0e8571c67276d7cc83b55f195580db97e0319cd446b3 Homepage: https://cran.r-project.org/package=VIRF Description: CRAN Package 'VIRF' (Computation of Volatility Impulse Response Function ofMultivariate Time Series) Computation of volatility impulse response function for multivariate time series model using algorithm by Jin, Lin and Tamvakis (2012) . Package: r-cran-viridis Architecture: all Version: 0.6.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3836 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-viridislite, r-cran-ggplot2, r-cran-gridextra Suggests: r-cran-hexbin, r-cran-scales, r-cran-mass, r-cran-knitr, r-cran-dichromat, r-cran-colorspace, r-cran-httr, r-cran-mapproj, r-cran-vdiffr, r-cran-svglite, r-cran-testthat, r-cran-covr, r-cran-rmarkdown, r-cran-maps, r-cran-terra Filename: pool/dists/focal/main/r-cran-viridis_0.6.5-1.ca2004.1_all.deb Size: 2990172 MD5sum: a25cce44e14026580cc1489fdbee0df6 SHA1: 9aa6ecdcc51704145bbe6dc36d7ffe556f78e3bb SHA256: ef46e21214a3b8d7d0f65b8f08aa65c7f28abbf504df4e026fd002fcce4ed943 SHA512: 61cf3cb7d5f68e2df5add95eebf48621645532e7810e76b54258efe92a2af361ed7e131c45cf4832a0ec3932b580caf86834001d68dfab7eefacb9c1258e2d78 Homepage: https://cran.r-project.org/package=viridis Description: CRAN Package 'viridis' (Colorblind-Friendly Color Maps for R) Color maps designed to improve graph readability for readers with common forms of color blindness and/or color vision deficiency. 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Package: r-cran-viridislite Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1351 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-hexbin, r-cran-ggplot2, r-cran-testthat, r-cran-covr Filename: pool/dists/focal/main/r-cran-viridislite_0.4.2-1.ca2004.1_all.deb Size: 1297360 MD5sum: a7633108be13147540887655bdba699c SHA1: 4b273e9bc2950854e07863ab310c3a8710b552d9 SHA256: d3367f2869a5987e6b2d6aaa6fde50a4e3d263f8f603e6443723fdca0b2dbfbc SHA512: 018142556f7d0aefff4268b436bcb824dcfb504822084471261c8ef0fe61821e3f7b190c13ebe12a6b91959e33a02de73d6ae8da4cf2e7a8315cf3a18e2eab22 Homepage: https://cran.r-project.org/package=viridisLite Description: CRAN Package 'viridisLite' (Colorblind-Friendly Color Maps (Lite Version)) Color maps designed to improve graph readability for readers with common forms of color blindness and/or color vision deficiency. The color maps are also perceptually-uniform, both in regular form and also when converted to black-and-white for printing. This is the 'lite' version of the 'viridis' package that also contains 'ggplot2' bindings for discrete and continuous color and fill scales and can be found at . Package: r-cran-virtualpollen Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3441 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-cowplot, r-cran-viridis, r-cran-mgcv, r-cran-plyr, r-cran-tidyr Suggests: r-cran-devtools, r-cran-formatr, r-cran-kableextra, r-cran-magrittr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-virtualpollen_1.0.1-1.ca2004.1_all.deb Size: 2843924 MD5sum: c34f34dda5386bdedfcd910800bbf764 SHA1: e89224c8913df357b3b69e55ff96ed6fe1155ab3 SHA256: c49c4c5858cbb720201a2e612077363281a0b26b6667c1ece7024ddc2a883dd9 SHA512: 9430f653dfc599cb98d960af401adaac071b932286db6afb93b231bd612daa9c630266dc1b5059065416a0b874dd8c9b30ef6f29129141d2c80e63d083a31c84 Homepage: https://cran.r-project.org/package=virtualPollen Description: CRAN Package 'virtualPollen' (Simulating Pollen Curves from Virtual Taxa with Different Lifeand Niche Traits) Tools to generate virtual environmental drivers with a given temporal autocorrelation, and to simulate pollen curves at annual resolution over millennial time-scales based on these drivers and virtual taxa with different life traits and niche features. It also provides the means to simulate quasi-realistic pollen-data conditions by applying simulated accumulation rates and given depth intervals between consecutive samples. Package: r-cran-virtualpop Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1267 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-msm, r-cran-hmdhfdplus Suggests: r-cran-knitr, r-cran-kableextra, r-cran-ggplot2, r-cran-foreign, r-cran-lubridate, r-cran-xml2, r-cran-eha, r-cran-survival, r-cran-survminer, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-virtualpop_2.1.0-1.ca2004.1_all.deb Size: 685252 MD5sum: cbd65b18497f12e7ff1a5cd0e9132e86 SHA1: bd658061156be71996d412932802826688178323 SHA256: f373bd73909a356f42882f0d62d07c0efa7773e6ae42958ee116d8ebcd803d08 SHA512: 82f1f043b7a8999062012accade0dfc4b9a2abf7002b4b12d01932845f3a50d61cc0f8123fad0d4e6442e90a07e2c853f91d095f98af465ddb848180eafde7e2 Homepage: https://cran.r-project.org/package=VirtualPop Description: CRAN Package 'VirtualPop' (Simulation of Populations by Sampling Waiting-Time Distributions) Constructs a virtual population from fertility and mortality rates for any country, calendar year and birth cohort in the Human Mortality Database and the Human Fertility Database . Fertility histories are simulated for every individual and their offspring, producing a multi-generation virtual population. Package: r-cran-virtualspecies Architecture: all Version: 1.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 273 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-terra, r-cran-ade4, r-cran-rnaturalearth, r-cran-raster, r-cran-viridis Filename: pool/dists/focal/main/r-cran-virtualspecies_1.6-1.ca2004.1_all.deb Size: 242908 MD5sum: a5d3af6630f5fb8e8e9be8d2665f8c0a SHA1: 4bff34cb7b7a03fcc87ad9587ac19e0b32a8b26a SHA256: 2bffa4dc43739644ea3416b89de26f8464529c3ad0c9ac20801e34058b9713f1 SHA512: 339bab8e3b727fed53edad7415ecfb0b4b0cacbd911bda21eb224a83a3470db8c6fbbefe847821c52e63184c6419992127e31cf4f7191aecc01a481b5efb2c39 Homepage: https://cran.r-project.org/package=virtualspecies Description: CRAN Package 'virtualspecies' (Generation of Virtual Species Distributions) Provides a framework for generating virtual species distributions, a procedure increasingly used in ecology to improve species distribution models. This package integrates the existing methodological approaches with the objective of generating virtual species distributions with increased ecological realism. Package: r-cran-virtuoso Architecture: all Version: 0.1.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 235 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-odbc, r-cran-processx, r-cran-dbi, r-cran-ini, r-cran-rappdirs, r-cran-curl, r-cran-fs, r-cran-digest, r-cran-ps Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-nycflights13, r-cran-testthat, r-cran-covr, r-cran-jsonld, r-cran-dplyr, r-cran-spelling Filename: pool/dists/focal/main/r-cran-virtuoso_0.1.8-1.ca2004.1_all.deb Size: 158880 MD5sum: 0b528abf3a221b2f8b2b25d49a5fce82 SHA1: 99d9b96c6aae16f3e33481c60389ed3500da8990 SHA256: a11887c57c7ae498857375765c47bf22b6e813c6204bf13e7f3de3812cf138c3 SHA512: b9d3c4ee5a99fa451842c5f1cd243d208eac55df7a82b3990f6aa4c39beb403421446beab134fdada96dc69a13b70b4bdb34febd825513aa2fdbfaadaf8a2d1e Homepage: https://cran.r-project.org/package=virtuoso Description: CRAN Package 'virtuoso' (Interface to 'Virtuoso' using 'ODBC') Provides users with a simple and convenient mechanism to manage and query a 'Virtuoso' database using the 'DBI' (Data-Base Interface) compatible 'ODBC' (Open Database Connectivity) interface. 'Virtuoso' is a high-performance "universal server," which can act as both a relational database, supporting standard Structured Query Language ('SQL') queries, while also supporting data following the Resource Description Framework ('RDF') model for Linked Data. 'RDF' data can be queried using 'SPARQL' ('SPARQL' Protocol and 'RDF' Query Language) queries, a graph-based query that supports semantic reasoning. This allows users to leverage the performance of local or remote 'Virtuoso' servers using popular 'R' packages such as 'DBI' and 'dplyr', while also providing a high-performance solution for working with large 'RDF' 'triplestores' from 'R.' The package also provides helper routines to install, launch, and manage a 'Virtuoso' server locally on 'Mac', 'Windows' and 'Linux' platforms using the standard interactive installers from the 'R' command-line. By automatically handling these setup steps, the package can make using 'Virtuoso' considerably faster and easier for a most users to deploy in a local environment. Managing the bulk import of triples from common serializations with a single intuitive command is another key feature of this package. Bulk import performance can be tens to hundreds of times faster than the comparable imports using existing 'R' tools, including 'rdflib' and 'redland' packages. Package: r-cran-viruslearner Architecture: all Version: 0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 263 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dials, r-cran-dplyr, r-cran-hardhat, r-cran-parsnip, r-cran-recipes, r-cran-rsample, r-cran-stacks, r-cran-tidyselect, r-cran-tune, r-cran-workflows, r-cran-workflowsets, r-cran-yardstick Suggests: r-cran-baguette, r-cran-broom, r-cran-cowplot, r-cran-factoextra, r-cran-factominer, r-cran-ggpubr, r-cran-kernlab, r-cran-kknn, r-cran-knitr, r-cran-nnet, r-cran-neuralnettools, r-cran-ranger, r-cran-rmarkdown, r-cran-rules, r-cran-testthat, r-cran-tidyverse, r-cran-vdiffr, r-cran-tidyr, r-cran-viraldomain, r-cran-vip Filename: pool/dists/focal/main/r-cran-viruslearner_0.0.2-1.ca2004.1_all.deb Size: 151608 MD5sum: f1be63b91e0dbf53973e30e4f4f33b82 SHA1: e90ad9f28eab91d896d16c673a1c89227f12293e SHA256: 274cf301a313ef20d785eb04bead12fbc6b9c895a851ced87d48a6c943f70adc SHA512: bd95e06d08be1b61561bcf0706f6b51c944c9bb32f778cb99b099dcec38842afbe8f2612514a930346bfa97a3cafc941cfa51000b2c3d20dcdca81990c3bbc5a Homepage: https://cran.r-project.org/package=viruslearner Description: CRAN Package 'viruslearner' (Ensemble Learning for HIV-Related Metrics) Advanced statistical modeling techniques for ensemble learning, specifically tailored to the analysis of lymphocyte counts and viral load data in the context of HIV research. Empowering researchers and practitioners, this tool provides a comprehensive solution for tasks such as analysis, prediction and risk calculation related to key viral metrics. The package incorporates cutting-edge ensemble learning principles, inspired by model stacking techniques of Simon P. Couch and Max Kuhn (2022) and adhering to tidy data principles, offering a robust and reproducible framework for HIV research. Package: r-cran-virusparies Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 606 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-chromote, r-cran-cowplot, r-cran-dplyr, r-cran-ggplot2, r-cran-gt, r-cran-readr, r-cran-rlang, r-cran-scales, r-cran-stringr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-virusparies_1.1.0-1.ca2004.1_all.deb Size: 452504 MD5sum: 0448b95f1cccc4fdae15e9396ab1d550 SHA1: 20f6a9290b4737376e6ebb77e86e9b72ff725a26 SHA256: 1499f15ec51912a086ac5fe9c13a95bd7c3ef0101ad7a99eb1d0a5072b86879f SHA512: 6b05d8e8584b22cb5f732e6976744ee9cfe2cd3766c76f1ea9307ee6cb7b34e9acff192d04e523845ff00f43a3f8f03364e78f4a78d83e16e30290e69be60d42 Homepage: https://cran.r-project.org/package=Virusparies Description: CRAN Package 'Virusparies' (Visualize and Process Output from 'VirusHunterGatherer') A collection of tools for downstream analysis of 'VirusHunterGatherer' output. Processing of hittables and plotting of results, enabling better interpretation, is made easier with the provided functions. Package: r-cran-virustotal Architecture: all Version: 0.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 739 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-httr, r-cran-plyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-lintr Filename: pool/dists/focal/main/r-cran-virustotal_0.2.2-1.ca2004.1_all.deb Size: 268408 MD5sum: 57fe206a9572c30264bdba310f503394 SHA1: eba87afe6ecb6ac5e428ebd4b0628a6a0ecb9434 SHA256: 4dcad4205bb8b71d8f28037f82be8725bbc1985a92878207f7541a98e1e93b82 SHA512: e4cde9758addcc165ad589d6c8654bd24be3d61ed1f5583c2d6e583c5227195fe2e95ac150909582d76dd8860b8b590372c8dd1baa264fc16a5112a5b43d94b7 Homepage: https://cran.r-project.org/package=virustotal Description: CRAN Package 'virustotal' (R Client for the VirusTotal API) Use VirusTotal, a Google service that analyzes files and URLs for viruses, worms, trojans etc., provides category of the content hosted by a domain from a variety of prominent services, provides passive DNS information, among other things. See for more information. Package: r-cran-visa Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 487 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-ggpmisc, r-cran-magrittr, r-cran-matrix, r-cran-plot3d, r-cran-plotly, r-cran-reshape2, r-cran-rcolorbrewer Suggests: r-cran-devtools, r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-stringi Filename: pool/dists/focal/main/r-cran-visa_1.0.0-1.ca2004.1_all.deb Size: 372584 MD5sum: fac253d58f1103e1d0c0a72d166e3342 SHA1: 100475f76f01b14bdabc5008403bd976678d74dd SHA256: ba46b4eb6c2c7b03c0cc3cb6b7a606c414568566d62f2ed737e42c395bc5455e SHA512: 036fe508673cf469f3b76a7263024b7a4b97289c97c808410e63f59205c173880aa137e9a1899cdf06c81f637154a3df96de1cacb432be63c06ed99f8325fb13 Homepage: https://cran.r-project.org/package=visa Description: CRAN Package 'visa' (Vegetation Imaging Spectroscopy Analyzer) Provides easy-to-use tools for data analysis and visualization for hyperspectral remote sensing (also known as imaging spectroscopy), with a particular focus on vegetation hyperspectral data analysis. It consists of a set of functions, ranging from the organization of hyperspectral data in the proper data structure for spectral feature selection, calculation of vegetation index, multivariate analysis, as well as to the visualization of spectra and results of analysis in the 'ggplot2' style. Package: r-cran-visachartr Architecture: all Version: 4.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 6609 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-htmlwidgets Suggests: r-cran-dplyr, r-cran-knitr, r-cran-rmarkdown, r-cran-tibble Filename: pool/dists/focal/main/r-cran-visachartr_4.0.1-1.ca2004.1_all.deb Size: 1524312 MD5sum: 6aeb5c9e09f8fbf570ba9924b6034236 SHA1: a3020f79ba110516ce00f496378dd4e3325617e3 SHA256: fd1f55099503108e7cf5c3fe9a2dc7ef8c70400c837f80d1fe4d84191f77957c SHA512: fdfacca205242a49ba9954378f48181c9d9ad15efd17e10489480770eb88a1e8d36265e064272e1e2ae2a2c7caf2f6ff0b08ce4d572e36e536b137bea18d6b85 Homepage: https://cran.r-project.org/package=visachartR Description: CRAN Package 'visachartR' (Wrapper for 'Visa Chart Components') Provides a set of wrapper functions for 'Visa Chart Components'. 'Visa Chart Components' is an accessibility focused, framework agnostic set of data experience design systems components for the web. Package: r-cran-visae Architecture: all Version: 0.2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 689 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-dplyr, r-cran-ggplot2, r-cran-shinyjs, r-cran-ca, r-cran-tidyr, r-cran-ggrepel, r-cran-rlang, r-cran-dt Suggests: r-cran-rmarkdown, r-cran-knitr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-visae_0.2.1-1.ca2004.1_all.deb Size: 447824 MD5sum: 6d5e2ac9bbdfbc2976f09989aa983a6d SHA1: a5955025f6640a9c063e5ff26819fd68c49c5fd3 SHA256: 27e01987ad7ff4e426966ceb9645c8115ef8e12f13e44565aa3de3e55f40d163 SHA512: 4d381c846b34de5752b43bf0e89a64a356f405e2944301fbe3833288072d21f9664a878d40c00a23371c00c48cb8f8666fce5339a17963b003d45ebafa54d9e6 Homepage: https://cran.r-project.org/package=visae Description: CRAN Package 'visae' (Visualization of Adverse Events) Implementation of 'shiny' app to visualize adverse events based on the Common Terminology Criteria for Adverse Events (CTCAE) using stacked correspondence analysis as described in Diniz et. al (2021). Package: r-cran-visaotr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 79 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rglpk, r-cran-e1071, r-cran-kernlab, r-cran-matrix, r-cran-mboost, r-cran-randomforest, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-visaotr_0.1.0-1.ca2004.1_all.deb Size: 45196 MD5sum: acfe9395226d7c6b6ce32c89013a3e27 SHA1: 4ffc418450b489e2b96a736883e79e8f19014d5c SHA256: 1386d75af28019081c17958a51925ca1dd0dce4496945f64d50ea41a62fc2335 SHA512: 1bc21070938d96119bce04e3e17df60cfe9704148f54145850e4021eeb147237a008a29341ac0a172b52aca3ebf2ffd277db987b46a7a9f1beafd3e2a8c89bf6 Homepage: https://cran.r-project.org/package=visaOTR Description: CRAN Package 'visaOTR' (Valid Improved Sparsity A-Learning for Optimal TreatmentDecision) Valid Improved Sparsity A-Learning (VISA) provides a new method for selecting important variables involved in optimal treatment regime from a multiply robust perspective. The VISA estimator achieves its success by borrowing the strengths of both model averaging (ARM, Yuhong Yang, 2001) and variable selection (PAL, Chengchun Shi, Ailin Fan, Rui Song and Wenbin Lu, 2018) . The package is an implementation of Zishu Zhan and Jingxiao Zhang. (2022+). Package: r-cran-viscollin Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 230 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-car, r-cran-corrgram, r-cran-corrplot, r-cran-dplyr, r-cran-lmtest, r-cran-knitr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-viscollin_0.1.2-1.ca2004.1_all.deb Size: 188380 MD5sum: 2fbffbfb5af21f0825c337d21b8eec06 SHA1: a4e63b018c42fc5914eeeb85a39c551e5b75e319 SHA256: 7a46cfa975e0c5cb9103b947d1a0726f69a7d612bafa6b4a739c05122dd233c4 SHA512: 3e47674d9881418188f6fdf745bbc0a3d071829cbe7f2504afb3eece3e7ee2dff837a59bd5909eb7f5945f28ec38b704214c6e96364406401f81adebf899fdd1 Homepage: https://cran.r-project.org/package=VisCollin Description: CRAN Package 'VisCollin' (Visualizing Collinearity Diagnostics) Provides methods to calculate diagnostics for multicollinearity among predictors in a linear or generalized linear model. It also provides methods to visualize those diagnostics following Friendly & Kwan (2009), "Where’s Waldo: Visualizing Collinearity Diagnostics", . These include better tabular presentation of collinearity diagnostics that highlight the important numbers, a semi-graphic tableplot of the diagnostics to make warning and danger levels more salient, and a "collinearity biplot" of the smallest dimensions of predictor space, where collinearity is most apparent. Package: r-cran-viscomp Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 603 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-circlize, r-cran-dplyr, r-cran-ggextra, r-cran-ggnewscale, r-cran-ggplot2, r-cran-hmisc, r-cran-mass, r-cran-netmeta, r-cran-plyr, r-cran-qgraph, r-cran-reshape2, r-cran-tibble, r-cran-tidyr Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-viscomp_1.0.0-1.ca2004.1_all.deb Size: 457464 MD5sum: b405b0091b958d1e34cfeb78e588eb21 SHA1: 1fc8fa084589c786f66e7184d1cd76cc35e3ec18 SHA256: 488254d0cfb883384bf3ddd34dec987a775502881dd32b18213adec3aa8ad094 SHA512: fcc2ae396d13315326c4fe4feb9c86ac12f1380f6562e1addc172a5c4c3d98379356d3a10921e94f3bc4dc4ba518f2601eeb42f9c78ee152675d1c7eb3ba3455 Homepage: https://cran.r-project.org/package=viscomp Description: CRAN Package 'viscomp' (Visualize Multi-Component Interventions in Network Meta-Analysis) A set of functions providing several visualization tools for exploring the behavior of the components in a network meta-analysis of multi-component (complex) interventions: - components descriptive analysis - heat plot of the two-by-two component combinations - leaving one component combination out scatter plot - violin plot for specific component combinations' effects - density plot for components' effects - waterfall plot for the interventions' effects that differ by a certain component combination - network graph of components - rank heat plot of components for multiple outcomes. The implemented tools are described by Seitidis et al. (2023) . Package: r-cran-viscov Architecture: all Version: 1.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 121 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-bayesm, r-cran-clustergeneration, r-cran-scatterplot3d, r-cran-kernsmooth, r-cran-trialr Filename: pool/dists/focal/main/r-cran-viscov_1.6.0-1.ca2004.1_all.deb Size: 87152 MD5sum: ef7aadd5f37570a149fc2e5a07ce202e SHA1: 2684205ea332cb7f7412cd4fe7b3eddbaa08c169 SHA256: 7154542fcac338b0fd5c34d59a1ff31fca958a402591bbbd289f49b91a73f67f SHA512: 754437f78ddbd7578bfb431bc136056b02d649ef9e1e27f9096e5e62662689034a437f07cfdd84f32515acb45055e34451df2bc1399d12f66390b5fabf8afca3 Homepage: https://cran.r-project.org/package=VisCov Description: CRAN Package 'VisCov' (Visualizing of Distributions of Covariance Matrices) Visualizing of distributions of covariance matrices. The package implements the methodology described in Tokuda, T., Goodrich, B., Van Mechelen, I., Gelman, A., & Tuerlinckx, F. (2012) . 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Package: r-cran-vise Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 935 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-tidyr, r-cran-scales, r-cran-cowplot, r-cran-shiny Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-plotly Filename: pool/dists/focal/main/r-cran-vise_0.1.3-1.ca2004.1_all.deb Size: 600160 MD5sum: d7a936090917e9e7cf62004396b856f7 SHA1: 297c8a36e76830651a3ef82ca5d9f013017c0daa SHA256: 96c4267dd67558acf59b2a81bed1ca1abbf7294599df021c05c3bbe6d4d7f462 SHA512: 56ef793877afa7fcb10da60d01a06ff6dfee9b0d5821260efe817b53c08e1705220e43e6e2f144d539da0a4e90f61d8f58df3710fc17438b6b5f4cae30536318 Homepage: https://cran.r-project.org/package=ViSe Description: CRAN Package 'ViSe' (Visualizing Sensitivity) Designed to help the user to determine the sensitivity of an proposed causal effect to unconsidered common causes. Users can create visualizations of sensitivity, effect sizes, and determine which pattern of effects would support a causal claim for between group differences. Number needed to treat formula from Kraemer H.C. & Kupfer D.J. (2006) . Package: r-cran-visielse Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1168 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-chron, r-cran-colorspace, r-cran-stringr, r-cran-ggplot2, r-cran-reshape2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-visielse_1.2.2-1.ca2004.1_all.deb Size: 674064 MD5sum: f877142080ec81c43f07084011040a73 SHA1: 0a96d15e2fff07d6c6aeebf61f745ed9a3683d35 SHA256: 820ae60bf753059777737fdf679d2daf612744f3c6c8c01120a62fab82f45694 SHA512: 64ac8c9aa185c9cfcd7aaf03ad0a750729e89a4dd55e0ca64dafa0d774216367d71bdee74d649a9b6a04003498d74cbf34914f89fe9b7ee363076b111515be03 Homepage: https://cran.r-project.org/package=ViSiElse Description: CRAN Package 'ViSiElse' (A Visual Tool for Behavior Analysis over Time) A graphical R package designed to visualize behavioral observations over time. Based on raw time data extracted from video recorded sessions of experimental observations, ViSiElse grants a global overview of a process by combining the visualization of multiple actions timestamps for all participants in a single graph. Individuals and/or group behavior can easily be assessed. Supplementary features allow users to further inspect their data by adding summary statistics (mean, standard deviation, quantile or statistical test) and/or time constraints to assess the accuracy of the realized actions. Package: r-cran-visitorcounts Architecture: all Version: 2.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1124 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rssa, r-cran-ggplot2, r-cran-zoo, r-cran-cowplot Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-visitorcounts_2.0.3-1.ca2004.1_all.deb Size: 817748 MD5sum: 5d672152565b4f922551b2194527889e SHA1: fea8e16445002a3acaca6ec565c69135d05489d5 SHA256: 96d36d7a26db676880db832680deff7e40020eef12ba02ae0f1f9dc5ca1e89aa SHA512: c861fd694fcf93722daf526943e2c0e7398309ae8e53db50b42f432a7035c564aa68e56dab69c55a4967837ce4ca8c310d0ead669f8a7f5f5090ffbb6f274aaa Homepage: https://cran.r-project.org/package=VisitorCounts Description: CRAN Package 'VisitorCounts' (Modeling and Forecasting Visitor Counts Using Social Media) Performs modeling and forecasting of park visitor counts using social media data and (partial) on-site visitor counts. 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Package: r-cran-vismeteor Architecture: all Version: 1.8.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1016 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-dbi Suggests: r-cran-usethis, r-cran-testthat, r-cran-rsqlite, r-cran-rpostgresql, r-cran-rmysql, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-vismeteor_1.8.5-1.ca2004.1_all.deb Size: 814012 MD5sum: c52a82efa7c1654027981daa583bd5b1 SHA1: c469f81e92f5c9e4d4faa56f65adb9a8f8b5ee52 SHA256: 35f12f7ce3b6cfaa92f121e9a0773e3e448476ee1123ed4a6fd10874294dbe27 SHA512: ca70342ff4e1d8aff9c040ae0d509a0178501035b481027ca430cf91d657e7d6cde03fe4c658ac4fc07067da3f7fd48e4ac45ccc5f18671804fdedfc05472d72 Homepage: https://cran.r-project.org/package=vismeteor Description: CRAN Package 'vismeteor' (Analysis of Visual Meteor Data) Provides a suite of analytical functionalities to process and analyze visual meteor observations from the Visual Meteor Database of the International Meteor Organization . 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Package: r-cran-visor Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 137 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-sf, r-cran-sfheaders Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-visor_0.1.0-1.ca2004.1_all.deb Size: 82192 MD5sum: 57bbe2905545b3f4193733133beeaca1 SHA1: 4e527182776c37be0e681fc66e7eeae462f8dfa9 SHA256: cc8a370235a48d78748fd49ea98b5be7d632d672a936d9a8ea2737e1b895e303 SHA512: 4588bd80c0c281af5ce0c14f886b843994653f6e7591ba9de0f474ac885fc7caeacda572864d0d6226443f1a7a59f0626a9e027b02cb1df4e9800d611d5555ed Homepage: https://cran.r-project.org/package=visor Description: CRAN Package 'visor' (Geospatial Tools for Visibility Analysis) Provides tools for visibility analysis in geospatial data. It offers functionality to perform isovist calculations, using arbitrary geometries as both viewpoints and occluders. 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Visual outputs - including box plots, bar charts, regression lines with confidence bands, mosaic plots, residual plots, and Q-Q plots - are annotated with relevant test statistics, assumption checks, and post-hoc analyses where applicable. The algorithmic workflow helps the user focus on the interpretation of test results rather than test selection. It is particularly suited for quick data analysis, e.g., in statistical consulting projects or educational settings. The test selection algorithm proceeds as follows: Input vectors of class numeric or integer are considered numerical; those of class factor are considered categorical. Assumptions of residual normality and homogeneity of variances are considered met if the corresponding test yields a p-value greater than the significance level alpha = 1 - conf.level. (1) When the response vector is numerical and the predictor vector is categorical, a test of central tendencies is selected. If the categorical predictor has exactly two levels, t.test() is applied when group sizes exceed 30 (Lumley et al. (2002) ). For smaller samples, normality of residuals is tested using shapiro.test(); if met, t.test() is used; otherwise, wilcox.test(). If the predictor is categorical with more than two levels, an aov() is initially fitted. Residual normality is evaluated using both shapiro.test() and ad.test(); residuals are considered approximately normal if at least one test yields a p-value above alpha. If this assumption is met, bartlett.test() assesses variance homogeneity. If variances are homogeneous, aov() is used; otherwise oneway.test(). Both tests are followed by TukeyHSD(). If residual normality cannot be assumed, kruskal.test() is followed by pairwise.wilcox.test(). (2) When both the response and predictor vectors are numerical, a simple linear regression model is fitted using lm(). (3) When both vectors are categorical, Cochran's rule (Cochran (1954) ) is applied to test independence either by chisq.test() or fisher.test(). 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Possible outputs include 'ggplot2' diagrams, 'plotly.js' graphs, 'Highcharts.js' widgets and data.frames. Results can be used in the 'RStudio' viewer pane, in 'RMarkdown' documents or in Shiny apps. In the interactive outputs created by vistime() and hc_vistime(), you can interact with the plot using mouse hover or zoom. Package: r-cran-vistree Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 140 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-partykit, r-cran-rpart, r-cran-colorspace Suggests: r-cran-covr, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-vistree_0.8.1-1.ca2004.1_all.deb Size: 75964 MD5sum: 9299c159bb1db5ffd38755a3d4f73962 SHA1: 2fa176805cf14235a1c22ca45e2e92fd5e9fb3c7 SHA256: 324c9a1b014eb77fc23735dfbe40429c7f3a8244d0eec9bf73bb0a8890a69308 SHA512: af6289898a4690ff3dca51c487607d03e541a0d42b05df4b4b9bf87a66376df1a494705674e21a64c1ddedf66a96ac9c21f84e92773545db6db2197266eab393 Homepage: https://cran.r-project.org/package=visTree Description: CRAN Package 'visTree' (Visualization of Subgroups for Decision Trees) Provides a visualization for characterizing subgroups defined by a decision tree structure. 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Package: r-cran-visualdom Architecture: all Version: 0.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 131 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-waveslim, r-cran-wavemulcor, r-cran-plot3d Filename: pool/dists/focal/main/r-cran-visualdom_0.8.0-1.ca2004.1_all.deb Size: 96652 MD5sum: 0bd1872a7d5089a149707543e2e0aae4 SHA1: 73e0091b663c9bb11c4d82a44ebac03920b1c8c8 SHA256: c5264f120ce4305dcbafd67e7404bd6bd239b56eb2dd2b2a690d27659a5fcd36 SHA512: c111eabac1b4788f992d629866e228cfb2361f222e98a9f11c9681e20ecd3ea04399d4f25d64b0efa6a1d7c3ebd1759e9087d09096fe961965fbca9013a7ba21 Homepage: https://cran.r-project.org/package=VisualDom Description: CRAN Package 'VisualDom' (Visualize Dominant Variables in Wavelet Multiple Correlation) Estimates and plots as a heat map the correlation coefficients obtained via the wavelet local multiple correlation 'WLMC' (Fernández-Macho 2018) and the 'dominant' variable/s, i.e., the variable/s that maximizes the multiple correlation through time and scale (Polanco-Martínez et al. 2020, Polanco-Martínez 2022). We improve the graphical outputs of WLMC proposing a didactic and useful way to visualize the 'dominant' variable(s) for a set of time series. The WLMC was designed for financial time series, but other kinds of data (e.g., climatic, ecological, etc.) can be used. The functions contained in 'VisualDom' are highly flexible since these contains several parameters to personalize the time series under analysis and the heat maps. In addition, we have also included two data sets (named 'rdata_climate' and 'rdata_Lorenz') to exemplify the use of the functions contained in 'VisualDom'. Methods derived from Fernández-Macho (2018) , Polanco-Martínez et al. (2020) and Polanco-Martínez (2023, in press). 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To evaluate and visualize the operating characteristics of Simon's two-stage design. 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Package 'FactoMineR' for multivariate reduction functions and package 'MBA' for interpolation functions are used. The package can be used to visualize the discriminant power of input variables and algorithmic modeling, explore outliers, compare algorithm behaviour, etc. It has been created initially for teaching purposes, but it has also many practical uses under the 'XAI' paradigm. 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Users can easily upload their datasets, perform analyses, and download the results as a well-formatted document, streamlining the process of data analysis and reporting in agricultural research.The experimental design methods are based on classical work by Fisher (1925) and Scheffe (1959). The correlation visualization approaches follow methods developed by Wei & Simko (2021) and Friendly (2002) . 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Typically, Granger causality and transfer entropy have an assumption of a fixed and constant time delay between the cause and effect. However, for a non-stationary time series, this assumption is not true. For example, considering two time series of velocity of person A and person B where B follows A. At some time, B stops tying his shoes, then running to catch up A. The fixed-lag assumption is not true in this case. We propose a framework that allows variable-lags between cause and effect in Granger causality and transfer entropy to allow them to deal with variable-lag non-stationary time series. Please see Chainarong Amornbunchornvej, Elena Zheleva, and Tanya Berger-Wolf (2021) when referring to this package in publications. 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This package offers an accessible and easy-to-use interface, including an interactive Shiny app, that simplifies the processing, extraction, analysis, and reporting of voice recording data in the behavioral and social sciences. The package includes batch processing capabilities to read and analyze multiple voice files in parallel, automates the extraction of key vocal features for further analysis, and automatically generates APA formatted reports for typical between-group comparisons in experimental social science research. A more extensive methodological introduction that inspired the development of the 'voiceR' package is provided in Hildebrand et al. 2020 . 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The graphic indicators, strategies, calculations, functions and all the discussions are for academic, research, and educational purposes only and should not be construed as investment advice and come with absolutely no Liability. Guy Cohen (“The Bible of Options Strategies (2nd ed.)”, 2015, ISBN: 9780133964028). Zura Kakushadze, Juan A. Serur (“151 Trading Strategies”, 2018, ISBN: 9783030027919). John C. Hull (“Options, Futures, and Other Derivatives (11th ed.)”, 2022, ISBN: 9780136939979). Package: r-cran-volcano3d Architecture: all Version: 2.0.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4800 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-plotly, r-cran-ggplot2, r-cran-ggpubr, r-cran-htmlwidgets, r-cran-magrittr, r-cran-rfast, r-cran-rlang, r-cran-matrixtests Suggests: r-bioc-deseq2, r-bioc-edger, r-bioc-limma, r-bioc-qvalue, r-bioc-summarizedexperiment, r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-usethis, r-cran-easylabel Filename: pool/dists/focal/main/r-cran-volcano3d_2.0.9-1.ca2004.1_all.deb Size: 1967832 MD5sum: 31f485a170705088c315864b757b7395 SHA1: 125ff34d254003916eac26a5f852cd5999997145 SHA256: 3eeb80e623c173122d46db42977a48780fc9f2fd8ddc12ff74df326647e3cf4c SHA512: 8f150f78610f787684936500028a5763c4391f0823a6ae399b17143355cb7e46748ac16853cd50e10b0198fe6af3c70887afd59114c266fcadb7eb3046cf047a Homepage: https://cran.r-project.org/package=volcano3D Description: CRAN Package 'volcano3D' (3D Volcano Plots and Polar Plots for Three-Class Data) Generates interactive plots for analysing and visualising three-class high dimensional data. It is particularly suited to visualising differences in continuous attributes such as gene/protein/biomarker expression levels between three groups. Differential gene/biomarker expression analysis between two classes is typically shown as a volcano plot. However, with three groups this type of visualisation is particularly difficult to interpret. This package generates 3D volcano plots and 3-way polar plots for easier interpretation of three-class data. Package: r-cran-volcanoplot Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-fmsb, r-cran-dplyr, r-cran-dt, r-cran-ggplot2, r-cran-tidyr, r-cran-shiny, r-cran-purrr Suggests: r-cran-safetygraphics, r-cran-safetydata Filename: pool/dists/focal/main/r-cran-volcanoplot_1.0.0-1.ca2004.1_all.deb Size: 39228 MD5sum: 2e35782546215f65e3b47b267c8bd17e SHA1: 99d10c056b0a545ff2f5bd6779bc2058302dfbdf SHA256: c5d8a756078bbe36cca30999b480bb762e6a4f70cb998fd76fe811489b6812b6 SHA512: 2132cb5985737a4981ac0ef7627f4caeec43dba507a53aa1ab2be74b4f1602d5252824776724e523c538e0f3d47680705f8251710617bde44eabafb3efb73938 Homepage: https://cran.r-project.org/package=volcanoPlot Description: CRAN Package 'volcanoPlot' (Volcano Plot for Clinical Trial Adverse Events) Interactive adverse event (AE) volcano plot for monitoring clinical trial safety. This tool allows users to view the overall distribution of AEs in a clinical trial using standard (e.g. MedDRA preferred term) or custom (e.g. Gender) categories using a volcano plot similar to proposal by Zink et al. (2013) . This tool provides a stand-along shiny application and flexible shiny modules allowing this tool to be used as a part of more robust safety monitoring framework like the Shiny app from the 'safetyGraphics' R package. 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Package: r-cran-volrisk Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 93 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-magrittr, r-cran-arrow, r-cran-dosnow, r-cran-foreach, r-cran-progress, r-cran-data.table, r-cran-stringr, r-cran-rstudioapi Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-volrisk_0.1.0-1.ca2004.1_all.deb Size: 57752 MD5sum: 65072a9127423ca510a9935bd3bac669 SHA1: d058ed3955299e16207bee51fbc1436dedb094c4 SHA256: c608c4e531a1ad9f45dee4d1228f86acf59a303c7b2185f9e95f11da52607b99 SHA512: e9d1f5bfdecde27aa72dda630e71edbbdce58de311239132a50ad5a15d5da76d71b80013f636fc41e0f461040d097b856473e8d894f42f6a062cc7e34635fae0 Homepage: https://cran.r-project.org/package=volrisk Description: CRAN Package 'volrisk' (Simulation of Life Reinsurance with Profit Commission) Simulates and evaluates stochastic scenarios of death and lapse events in life reinsurance contracts with profit commissions. 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Package: r-cran-walkscoreapi Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 92 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-walkscoreapi_1.2-1.ca2004.1_all.deb Size: 63220 MD5sum: 17b4a105a7d6bf3d8ae47752e73ac84a SHA1: 9ec6714571bb97c435a3cbc472ec5ce19ca75b79 SHA256: 037fa68eca72f0c68749ab0b9270de2efede813a4d780666938922b3db1749d7 SHA512: a18efb90c1978c126b4138f59b29729bb77ad56d7cf6e469417bbc40bcf3587c03e15cf9089e7179df0866d29c67b4fcb7a936950d732827ee1edee847a76610 Homepage: https://cran.r-project.org/package=walkscoreAPI Description: CRAN Package 'walkscoreAPI' (Walk Score and Transit Score API) A collection of functions to perform the Application Programming Interface (API) calls associated with the Walk Score website (www.walkscore.com) within the R environment. These functions can be used to query the Walk Score and Transit Score database for a wide variety of information using R scripts. This package includes the simple Walk Score and Transit Score API calls, which return the scores associated with an input location, as well as calls which return some data used to calculate the scores. These functions are especially useful for mass data collection and gathering Walk Score and Transit Score values for large lists of locations. Package: r-cran-wallace Architecture: all Version: 2.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2568 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-shiny, r-cran-leaflet, r-cran-dplyr, r-cran-dt, r-cran-ecospat, r-cran-enmeval, r-cran-geodata, r-cran-knitcitations, r-cran-leafem, r-cran-leaflet.extras, r-cran-magrittr, r-cran-markdown, r-cran-rcolorbrewer, r-cran-rjava, r-cran-rlang, r-cran-rmarkdown, r-cran-sf, r-cran-shinyalert, r-cran-shinyjs, r-cran-shinywidgets, r-cran-spocc, r-cran-spthin, r-cran-zip Suggests: r-cran-ade4, r-cran-bien, r-cran-dismo, r-cran-glue, r-cran-jsonlite, r-cran-knitr, r-cran-mapview, r-cran-maxnet, r-cran-occcite, r-cran-predicts, r-cran-rangemodelmetadata, r-cran-raster, r-cran-rgbif, r-cran-sp, r-cran-terra, r-cran-testthat Filename: pool/dists/focal/main/r-cran-wallace_2.2.0-1.ca2004.1_all.deb Size: 1795444 MD5sum: bf4ea24593be12e19fec7675fb572585 SHA1: 1ef91e1847cc5fbd0bb35f8a59404a0ad93b9b22 SHA256: 062d07603aa23dbb8efaacf9c2163ea8820be5dc61a77f6f69ee83b2b6e364c7 SHA512: ca29b324824b9de984b205ae4af227f53110e2bc771b015a8f3899517f107d76c37ee1fcfe1046b79cee1a219a3d49471e08a4fbdf5484e521df4344f772ed32 Homepage: https://cran.r-project.org/package=wallace Description: CRAN Package 'wallace' (A Modular Platform for Reproducible Modeling of Species Nichesand Distributions) The 'shiny' application Wallace is a modular platform for reproducible modeling of species niches and distributions. Wallace guides users through a complete analysis, from the acquisition of species occurrence and environmental data to visualizing model predictions on an interactive map, thus bundling complex workflows into a single, streamlined interface. An extensive vignette, which guides users through most package functionality can be found on the package's GitHub Pages website: . Package: r-cran-wallomicsdata Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3583 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-wallomicsdata_1.0-1.ca2004.1_all.deb Size: 3568936 MD5sum: baf54420c8294b501a3d79c64d4be208 SHA1: d5fb96894893d8eab7ece1a1fc55971ba068dc15 SHA256: 32dbfa710bdb4128683dad2e02544d7ab84b94a40dae874b2a2024687e85961e SHA512: 1b31c4f8eb9b585fcfa1f0a2d93e41aee38d817dd9d371c4c7bbac333bb1845542ddb36d65b5b0bcbc158005bb935f1e2d5f5b438e9e2110b221a03fa77a9aa4 Homepage: https://cran.r-project.org/package=WallomicsData Description: CRAN Package 'WallomicsData' (Datasets for Multi-Omics Integration in a Plant Abiotic StressContext) Datasets from the WallOmics project. Contains phenomics, metabolomics, proteomics and transcriptomics data collected from two organs of five ecotypes of the model plant Arabidopsis thaliana exposed to two temperature growth conditions. Exploratory and integrative analyses of these data are presented in Durufle et al (2020) and Durufle et al (2020) . Package: r-cran-wally Architecture: all Version: 1.0.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 217 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-prodlim, r-cran-riskregression, r-cran-data.table Suggests: r-cran-testthat, r-cran-survival Filename: pool/dists/focal/main/r-cran-wally_1.0.10-1.ca2004.1_all.deb Size: 109808 MD5sum: a12619141bdf37d54bf5f47a7fa83d7d SHA1: c864fec0af7c9e9e0ea5b5eadacf01add8aca2d3 SHA256: 4883b1ec9e8eac019dfb64c89cbb74086de58e8b9574a1eec23438b8be375e17 SHA512: 06a27965bd07d740413bdcd385a6dfe64ceaaffcd38ed5b2e09f65f753c9dfc784aa78474eb37b3de061097deaed48b1ff5ec8553fc8acdc7ed31622edd01e2d Homepage: https://cran.r-project.org/package=wally Description: CRAN Package 'wally' (The Wally Calibration Plot for Risk Prediction Models) A prediction model is calibrated if, roughly, for any percentage x we can expect that x subjects out of 100 experience the event among all subjects that have a predicted risk of x%. A calibration plot provides a simple, yet useful, way of assessing the calibration assumption. The Wally plot consists of a sequence of usual calibration plots. Among the plots contained within the sequence, one is the actual calibration plot which has been obtained from the data and the others are obtained from similar simulated data under the calibration assumption. It provides the investigator with a direct visual understanding of the shape and sampling variability that are common under the calibration assumption. The original calibration plot from the data is included randomly among the simulated calibration plots, similarly to a police lineup. If the original calibration plot is not easily identified then the calibration assumption is not contradicted by the data. The method handles the common situations in which the data contain censored observations and occurrences of competing events. Package: r-cran-walmartapi Architecture: all Version: 0.1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glue, r-cran-purrr, r-cran-httr, r-cran-tibble, r-cran-magrittr, r-cran-stringr, r-cran-dplyr Filename: pool/dists/focal/main/r-cran-walmartapi_0.1.5-1.ca2004.1_all.deb Size: 43524 MD5sum: f7fefa3746ca76c3912f1838ba755edf SHA1: 8c0132fbb88bfd758eedff877eac3e5fdd5c24b0 SHA256: 2fe77f60d805d9a69426768a5c1118d461195286889feb8b289cc9e3cd03ca8e SHA512: a43e73695f60b1c92f64d9ea014683b60598280b93551d874364d6a91041fe2576a63a62a5d2f52990c274f350d37d5031eea0afc6e4277d4df1f5b9c6e5b5c0 Homepage: https://cran.r-project.org/package=walmartAPI Description: CRAN Package 'walmartAPI' (Walmart Open API Wrapper) Provides API access to the Walmart Open API , that contains data about stores, Value of the day and products which includes names, sale prices, shipping rates and taxonomies. Package: r-cran-walrus Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 660 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-wrs2, r-cran-ggplot2, r-cran-jmvcore, r-cran-r6 Suggests: r-cran-mass Filename: pool/dists/focal/main/r-cran-walrus_1.0.5-1.ca2004.1_all.deb Size: 552484 MD5sum: 09464037574b28250cf044ace0a5f83d SHA1: 122ae1111396db7b5012ed91f2d9da020888ecd7 SHA256: f37ff1e314608d6d37c67ab527cfbf07fa5800a263040f679423a07f9e0b9946 SHA512: 9086934cfe6fab303fe5ce8ba08b4bbce4062307d57a8550b2ff064f912bf0808acd5aced4c9fee54726cb1b8a9024c40afe98c62b7b7d4f95d6b5fe1f6a64f4 Homepage: https://cran.r-project.org/package=walrus Description: CRAN Package 'walrus' (Robust Statistical Methods) A toolbox of common robust statistical tests, including robust descriptives, robust t-tests, and robust ANOVA. It is also available as a module for 'jamovi' (see for more information). Walrus is based on the WRS2 package by Patrick Mair, which is in turn based on the scripts and work of Rand Wilcox. These analyses are described in depth in the book 'Introduction to Robust Estimation & Hypothesis Testing'. Package: r-cran-wals Architecture: all Version: 0.2.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 385 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-formula, r-cran-mass, r-cran-rdpack Suggests: r-cran-aer, r-cran-bayesvarsel, r-cran-bms, r-cran-testthat Filename: pool/dists/focal/main/r-cran-wals_0.2.5-1.ca2004.1_all.deb Size: 339264 MD5sum: a177851cf93c617bc6af3f85e1120c6a SHA1: 2d5c5fb0674ee2bd35f40e62139c8b5600921568 SHA256: a19adb0452624e7a79c656e4ce1f92d7f5f3a5d14593b34339b1534fa4e8e74b SHA512: 52e92a9bd735316e756c725bd7d92ab608e0b6c340107504c892a2ce1e8dcba2fc505183c374f7a89b13c7c220b44b7bece1d4bbdac8b16cad84e5e661314dbc Homepage: https://cran.r-project.org/package=WALS Description: CRAN Package 'WALS' (Weighted-Average Least Squares Model Averaging) Implements Weighted-Average Least Squares model averaging for negative binomial regression models of Huynh (2024) , generalized linear models of De Luca, Magnus, Peracchi (2018) and linear regression models of Magnus, Powell, Pruefer (2010) , see also Magnus, De Luca (2016) . Weighted-Average Least Squares for the linear regression model is based on the original 'MATLAB' code by Magnus and De Luca , see also Kumar, Magnus (2013) and De Luca, Magnus (2011) . Package: r-cran-wamasim Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-wamasim_1.0.0-1.ca2004.1_all.deb Size: 68260 MD5sum: 3ffa065fba04d0ec60206458c2a5d671 SHA1: 17557af23ad62ed869a7ab3e9307076aa1d08a42 SHA256: 2704145678b53b8e942533093252ebcfad10b7c56ee42d6bbe813475142ebc9b SHA512: ba1fee5e1f599c47376fa32ee5d8c5f8dd03a72e0cb7ca9d692494337e392598af7e1e23c817693eb1efd1c471250d9da83804651ffbafded1863a79e31648d7 Homepage: https://cran.r-project.org/package=WaMaSim Description: CRAN Package 'WaMaSim' (Simulate Rehabilitation Strategies for Water DistributionSystems) The outcome of various rehabilitation strategies for water distribution systems can be modeled with the Water Management Simulator (WaMaSim). Pipe breaks and the corresponding damage and rehabilitation costs are simulated. It is mainly intended to be used as educational tool for the Water Infrastructure Experimental and Computer Laboratory at ETH Zurich, Switzerland. Package: r-cran-wand Architecture: all Version: 0.5.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 604 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-covr, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-wand_0.5.0-1.ca2004.1_all.deb Size: 178668 MD5sum: ec1148c1f71165d24dfb3b1c1863ce7f SHA1: f775ce18125aea2fc6512c54e63264dbecd58be7 SHA256: fcff8a126e05ece03182fbffc00649b4968c706ff62529520050866b8dd8a0fb SHA512: c51dc97d4331457225728d5928eba76fa2d105f25fb1223437eb48c35651c4cfb8765c1334da1d969aa7d02df9fa47a91c9552e128dea5ac893da8c0ca50b47f Homepage: https://cran.r-project.org/package=wand Description: CRAN Package 'wand' (Retrieve 'Magic' Attributes from Files and Directories) 'MIME' types are shorthand descriptors for file contents and can be determined from "magic" bytes in file headers, file contents or intuited from file extensions. Tools are provided to perform curated "magic" tests as well as mapping 'MIME' types from a database of over 1,500 extension mappings. Package: r-cran-wanova Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 72 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-car, r-cran-suppdists Suggests: r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-wanova_0.4.0-1.ca2004.1_all.deb Size: 40520 MD5sum: 489eeba90b090fc46da1b8c3d3c30679 SHA1: 1da2b929cf8d5d5a56d6f93d8ff544f0a8546231 SHA256: a409d3046a2c247a93283ac6add6230fb37cff226a67d5eed3c73d5e64ce6005 SHA512: 915dada234186b45d1018d3a68178ad65ddb62edd88b6871dd9e08e15ea2a8243ea7c3f5a5b1e2bf0c16e70b240d45d7b346cecb5b9eaa177511874b481b3f02 Homepage: https://cran.r-project.org/package=WAnova Description: CRAN Package 'WAnova' (Welch's Anova from Summary Statistics) Provides the functions to perform a Welch's one-way Anova with fixed effects based on summary statistics (sample size, means, standard deviation) and the Games-Howell post hoc test for multiple comparisons and provides the effect size estimator adjusted omega squared. In addition sample size estimation can be computed based on Levy's method, and a Monte Carlo simulation is included to bootstrap residual normality and homoscedasticity Welch, B. L. (1951) Kirk, R. E. (1996) Carroll, R. M., & Nordholm, L. A. (1975) Albers, C., & Lakens, D. (2018) Games, P. A., & Howell, J. F. (1976) Levy, K. J. (1978a) Show-Li, J., & Gwowen, S. (2014) . Package: r-cran-warabandi Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 149 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-lubridate, r-cran-readtext, r-cran-flextable Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-warabandi_0.1.0-1.ca2004.1_all.deb Size: 60476 MD5sum: 8f54e142da9aaf6d848ee1923759dc73 SHA1: ab6b605d5ef669e211d9e7905943026c7be8c996 SHA256: 791ee26fcf060979af44f7756cef7e25fa12e96de78f57e114b5d603ebe4969c SHA512: d8d8c4a6a1ad5068838977242dc36349d36db4f33d3cf6a466df1e7304797e2048177cbc392a7a0c2a8e4b371b634887c006a44a5db6665ab60c3bd5ae21dbe4 Homepage: https://cran.r-project.org/package=warabandi Description: CRAN Package 'warabandi' (Roster Generation of Turn for Weekdays:'warabandi') It generates the roster of turn for an outlet which is flowing (water) 24X7 or 168 hours towards the area under command or agricutural area (to be irrigated). The area under command is differentially owned by different individual farmers. The Outlet runs for free of cost to irrigate the area under command 24X7. So, flow time of the outlet has to be divided based on an area owned by an individual farmer and the location of his land or farm. This roster is known as 'warabandi' and its generation in agriculture practices is a very tedious task. Calculations of time in microseconds are more error-prone, especially whenever it is performed by hands. That division of flow time for an individual farmer can be calculated by 'warabandi'. However, it generates a full publishable report for an outlet and all the farmers who have farms subjected to be irrigated. It reduces error risk and makes a more reproducible roster. For more details about warabandi system you can found elsewhere in Bandaragoda DJ(1995) . Package: r-cran-warden Architecture: all Version: 1.2.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1902 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-purrr, r-cran-data.table, r-cran-foreach, r-cran-future, r-cran-dofuture, r-cran-flexsurv, r-cran-mass, r-cran-zoo, r-cran-progressr, r-cran-magrittr, r-cran-rlang, r-cran-tidyr Suggests: r-cran-dplyr, r-cran-ggplot2, r-cran-knitr, r-cran-rmarkdown, r-cran-kableextra, r-cran-diagrammer, r-cran-testthat, r-cran-survminer, r-cran-survival Filename: pool/dists/focal/main/r-cran-warden_1.2.2-1.ca2004.1_all.deb Size: 1033640 MD5sum: fcd969e4e1ffddcce27dc02b77d1fcc2 SHA1: d5d7bba8ec66678dd1d242f4168eff1cf643e0fa SHA256: dddb7ce01f39add7dbcd1a58c673ae67aef4adeaf2958d34bcc049c317e5bf31 SHA512: 62f4a41becf30a1286f185b0e2348e603f8136553943978b56bba3529a0f765d6ad631482e804e275d3271b86726f5cd79ddeecde4164306b79e29deaab7cb25 Homepage: https://cran.r-project.org/package=WARDEN Description: CRAN Package 'WARDEN' (Workflows for Health Technology Assessments in R using DiscreteEveNts) Toolkit to support and perform discrete event simulations without resource constraints in the context of health technology assessments (HTA). The package focuses on cost-effectiveness modelling and aims to be submission-ready to relevant HTA bodies in alignment with 'NICE TSD 15' . More details an examples can be found in the package website . Package: r-cran-warehousetools Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 133 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-dplyr, r-cran-clustersim Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-warehousetools_0.1.3-1.ca2004.1_all.deb Size: 104048 MD5sum: 605b4bc6027e9f615bc80bb9d91a23dd SHA1: f013bbfccdb22771d46b5e8c56494a4e5a0b777b SHA256: 1b5d605271e8f9f27d2528a0ccd4a4dc16dce911e5288b8d6f73cf82a5fd54ed SHA512: 654d4992e6f53bd4e49832d1be586c232e2ca841713753b0d02933ee2376d91d38f614cf72ccf458e8d2569db5f899a0fb104ec9d5459cf5d2a8989ec16dc070 Homepage: https://cran.r-project.org/package=warehouseTools Description: CRAN Package 'warehouseTools' (Heuristics for Solving the Traveling Salesman Problem inWarehouse Layouts) Heuristic methods to solve the routing problems in a warehouse management. Package includes several heuristics such as the Midpoint, Return, S-Shape and Semi-Optimal Heuristics for designation of the picker’s route in order picking. The heuristics aim to provide the acceptable travel distances while considering warehouse layout constraints such as aisles and shelves. It also includes implementation of the COPRAS (COmplex PRoportional ASsessment) method for supporting selection of locations to be visited by the picker in shared storage systems. The package is designed to facilitate more efficient warehouse routing and logistics operations. see: Bartholdi, J. J., Hackman, S. T. (2019). "WAREHOUSE & DISTRIBUTION SCIENCE. Release 0.98.1." The Supply Chain & Logistics Institute. H. Milton Stewart School of Industrial and Systems Engineering. Georgia Institute of Technology. . Package: r-cran-warn Architecture: all Version: 1.2-5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 139 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass Filename: pool/dists/focal/main/r-cran-warn_1.2-5-1.ca2004.1_all.deb Size: 110344 MD5sum: 43e9fcbee6703e1b28670040e4380ca6 SHA1: 9dd457723c3021c84b7c44b6e682614e1fd81648 SHA256: e059c973c5f79a6e5b791f32f0dd2ec5b6fe428e17a895e2b715c12ca03e86b2 SHA512: 4353af244a65d12943af9c12f24b732371dfd7430be8449b523b87c92c862958a3810417aa4c02673f4b5479b2793dd841d66e6b045d23c3f7c257627ed9276d Homepage: https://cran.r-project.org/package=WARN Description: CRAN Package 'WARN' (Weaning Age Reconstruction with Nitrogen Isotope Analysis) This estimates precise weaning ages for a given skeletal population by analyzing the stable nitrogen isotope ratios of them. Bone collagen turnover rates estimated anew and the approximate Bayesian computation (ABC) were adopted in this package. Package: r-cran-warpmix Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 76 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fda, r-cran-fields, r-cran-mass, r-cran-nlme, r-cran-lme4 Filename: pool/dists/focal/main/r-cran-warpmix_0.1.0-1.ca2004.1_all.deb Size: 45220 MD5sum: 67407faee8eea38d175882b2272eaad3 SHA1: de88b9aa20c95c367a502773e80917148bf2b3a6 SHA256: b2ef2628206c643280435198f96e04327b659682dff1ef4837157e07b30b2530 SHA512: 024beae132bbbec24df08eed2dde5c71115122b8b936d479969b41c478a03895ef586414740fdf9f3044ab7483c6e40b935bdbf8be8ccd523598a7c0ce49ce73 Homepage: https://cran.r-project.org/package=warpMix Description: CRAN Package 'warpMix' (Mixed Effects Modeling with Warping for Functional Data UsingB-Spline) Mixed effects modeling with warping for functional data using B- spline. Warping coefficients are considered as random effects, and warping functions are general functions, parameters representing the projection onto B- spline basis of a part of the warping functions. Warped data are modelled by a linear mixed effect functional model, the noise is Gaussian and independent from the warping functions. Package: r-cran-washdata Architecture: all Version: 0.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 884 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-spelling Filename: pool/dists/focal/main/r-cran-washdata_0.1.4-1.ca2004.1_all.deb Size: 762712 MD5sum: dc43b444edd5ca2f6ce56a9e62dfea27 SHA1: f69c6c27e49e6c301ea7ffe1d11b204b7b39c4d1 SHA256: 9fca69a1f487fe97f13e1586e0cb9697d471b32dcd58d6d4c0333d2a680f0739 SHA512: e4b5b50a21b3a5a1eb8de20799ff53cea591f6fa1fb192f72d4cb6cd995fd88413f611a7e6f301e08b6b377834999bddb0ac794730bb27546f7b83d01e812578 Homepage: https://cran.r-project.org/package=washdata Description: CRAN Package 'washdata' (Urban Water and Sanitation Survey Dataset) Urban water and sanitation survey dataset collected by Water and Sanitation for the Urban Poor (WSUP) with technical support from Valid International. These citywide surveys have been collecting data allowing water and sanitation service levels across the entire city to be characterised, while also allowing more detailed data to be collected in areas of the city of particular interest. These surveys are intended to generate useful information for others working in the water and sanitation sector. Current release version includes datasets collected from a survey conducted in Dhaka, Bangladesh in March 2017. This survey in Dhaka is one of a series of surveys to be conducted by WSUP in various cities in which they operate including Accra, Ghana; Nakuru, Kenya; Antananarivo, Madagascar; Maputo, Mozambique; and, Lusaka, Zambia. This package will be updated once the surveys in other cities are completed and datasets have been made available. Package: r-cran-washer Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 74 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-gplots Filename: pool/dists/focal/main/r-cran-washer_0.1.3-1.ca2004.1_all.deb Size: 40100 MD5sum: f80dc85e94c5df10f78453a54b4a0754 SHA1: 83c1ae562287f9053564338c4afecc6a8515ecd6 SHA256: 51cbd7b8c5e9f0d9ba47abd8ac5f35fbf53794f83f77fa1c2b3f40e507d5ddbe SHA512: 1232717854f0a154c33167e4a6fa63cd86838d2ce7e0824271e8448c4d95462a9d14a2403fabb764d5b6bfcbfea8bf323f545f8dedbe00ed726d9f30ec1c7c36 Homepage: https://cran.r-project.org/package=washeR Description: CRAN Package 'washeR' (Time Series Outlier Detection) Time series outlier detection with non parametric test. This is a new outlier detection methodology (washer): efficient for time saving elaboration and implementation procedures, adaptable for general assumptions and for needing very short time series, reliable and effective as involving robust non parametric test. You can find two approaches: single time series (a vector) and grouped time series (a data frame). For other informations: Andrea Venturini (2011) Statistica - Universita di Bologna, Vol.71, pp.329-344. For an informal explanation look at R-bloggers on web. 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Use 'washi' to easily style your 'ggplot2' plots and 'flextable' tables. Package: r-cran-washr Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 103 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-desc, r-cran-devtools, r-cran-cffr, r-cran-pkgdown, r-cran-rlang, r-cran-usethis Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-washr_1.0.1-1.ca2004.1_all.deb Size: 50332 MD5sum: 9a1ebbd4e527b476f1f00bef6a8e3755 SHA1: 040a49e1ef7a05a8dd036924c4594f5b8290ff94 SHA256: 65d76f64e105b1d0cf5a13e8817ced90dde7b506c7f02e7f973f4f84a39fea0d SHA512: 1873c8a815bd70777aaafb88715996e8503ec87367da2c44c675754cad736a1f000208b6472cd84c6817860437b614d9cd2c88adcbfddb69216dffa61da9e9d9 Homepage: https://cran.r-project.org/package=washr Description: CRAN Package 'washr' (Publication Toolkit for Water, Sanitation and Hygiene (WASH)Data) A toolkit to set up an R data package in a consistent structure. 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So this package offers functions that analyze and validate the raw data, which must be entered in a determined format; extract specific vectors and matrices from this raw database; normalize the input data; calculate rankings by intermediate methods; apply the lambda parameter for the main method; and a function that does everything at once. The package has an example database called choppers, with which the user can see how the input data should be organized so that everything works as recommended by the decision methods based on multiple criteria that this package solves. Basically, the data are composed of a set of alternatives, which will be ranked, a set of choice criteria, a matrix of values for each Alternative-Criterion relationship, a vector of weights associated with the criteria, since certain criteria are considered more important than others, as well as a vector that defines each criterion as cost or benefit, this determines the calculation formula, as there are those criteria that we want the highest possible value (e.g. durability) and others that we want the lowest possible value (e.g. price). 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This representation is formally similar to the representation of quantum mechanical states as wave functions, whose squared modulus is a probability density. This is described in more detail in "Wave function representation of probability distributions," by Madeleine B. Thompson . This package provides a reference implementation of the technique. Package: r-cran-waveletann Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-wavelets, r-cran-fracdiff, r-cran-forecast, r-cran-metrics Filename: pool/dists/focal/main/r-cran-waveletann_0.1.2-1.ca2004.1_all.deb Size: 19212 MD5sum: 20773656b412f58e0352425a91af7d44 SHA1: 44b2963fd438306cd5de27a0dd58375ab657be0c SHA256: 2dff5fb47946cdf61a51275678b6efe8a99e80049dc7986165dd68241ea5351c SHA512: f951b282ee7c799fa7ef179a225ebb3cee14c1f4fdb1bb0c6adac2db4ab6a769dc8b1bdfa7791f0fd64389dbd08baaa330adacfc45747bc4956b7d07cb894cd6 Homepage: https://cran.r-project.org/package=WaveletANN Description: CRAN Package 'WaveletANN' (Wavelet ANN Model) The wavelet and ANN technique have been combined to reduce the effect of data noise. This wavelet-ANN conjunction model is able to forecast time series data with better accuracy than the traditional time series model. This package fits hybrid Wavelet ANN model for time series forecasting using algorithm by Anjoy and Paul (2017) . Package: r-cran-waveletarima Architecture: all Version: 0.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-wavelets, r-cran-fracdiff, r-cran-forecast Filename: pool/dists/focal/main/r-cran-waveletarima_0.1.2-1.ca2004.1_all.deb Size: 19308 MD5sum: e31af6ad7356c013756c9e780af707f4 SHA1: 63928bfb488c488fec79458fc4d2979311f6bca4 SHA256: 5909a7811afc3419320ffa14dc0653e10f74505e6c14b4bc57c7a3bb05a8dd9f SHA512: ca253e5e394ab5e3c988ddef7dbc88f66862fb3631574058c6fdca551fee9afae491f5a921459f7d3f226586cbe8235536460681d1b8cda4f1d09811922446bf Homepage: https://cran.r-project.org/package=WaveletArima Description: CRAN Package 'WaveletArima' (Wavelet-ARIMA Model for Time Series Forecasting) Noise in the time-series data significantly affects the accuracy of the ARIMA model. Wavelet transformation decomposes the time series data into subcomponents to reduce the noise and help to improve the model performance. The wavelet-ARIMA model can achieve higher prediction accuracy than the traditional ARIMA model. This package provides Wavelet-ARIMA model for time series forecasting based on the algorithm by Aminghafari and Poggi (2012) and Paul and Anjoy (2018) . Package: r-cran-waveletcomp Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 569 Depends: r-base-core (>= 4.4.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-waveletcomp_1.2-1.ca2004.1_all.deb Size: 540148 MD5sum: bfeda74711b483b11c02aa4fe9c3b16d SHA1: 4206ff764264f64c73cd5273c87854281eba3166 SHA256: a6f30f3b9da5363a3f56631bbd2ff5b46636406a844343c53bb237d6c7d6897e SHA512: 6fc7a6d20fce39719dbd26c43141bc3d717dd95e2ca123d378e089efafd08e36684949e2def9cfbd38fc13e0fb7051a0022dba2e9ef0769c55cc4510746c0031 Homepage: https://cran.r-project.org/package=WaveletComp Description: CRAN Package 'WaveletComp' (Computational Wavelet Analysis) Wavelet analysis and reconstruction of time series, cross-wavelets and phase-difference (with filtering options), significance with simulation algorithms. Package: r-cran-waveletets Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 50 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-metrics, r-cran-tseries, r-cran-wavelets, r-cran-forecast, r-cran-caretforecast Filename: pool/dists/focal/main/r-cran-waveletets_0.1.0-1.ca2004.1_all.deb Size: 18904 MD5sum: 4211756dd0e74c663885744bf1e1025c SHA1: 44a67d09595a150ad5c832612e6c0d5ce00739d9 SHA256: d4c2cfcbdcd3795fc4d548f9ab10fd673936a20f7403a4d0d76aae2613f98113 SHA512: dbc62aeb0bd0dbe22b7968487e40a109f76edd633a8d487e893713ec1838f8042c541df426695bb6fbe8062e306d4145101e015a060164da0fc97e2fb610eaf7 Homepage: https://cran.r-project.org/package=WaveletETS Description: CRAN Package 'WaveletETS' (Wavelet Based Error Trend Seasonality Model) ETS stands for Error, Trend, and Seasonality, and it is a popular time series forecasting method. Wavelet decomposition can be used for denoising, compression, and feature extraction of signals. By removing the high-frequency components, wavelet decomposition can remove noise from the data while preserving important features. A hybrid Wavelet ETS (Error Trend-Seasonality) model has been developed for time series forecasting using algorithm of Anjoy and Paul (2017) . Package: r-cran-waveletgarch Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 67 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-wavelets, r-cran-fints, r-cran-forecast, r-cran-rugarch, r-cran-fracdiff Filename: pool/dists/focal/main/r-cran-waveletgarch_0.1.1-1.ca2004.1_all.deb Size: 36988 MD5sum: e5ff14ca32b87d41b115b584fb351e5f SHA1: deccd3fe3d84b1067e3790a2deee9180f6991450 SHA256: 168f0b35d98e35e4ff130bce3256dbe6fa1133babad917f20257f94f485cf930 SHA512: 203b3211361c78f5e8de3da7db66a6fa50096a51785adfefd4e9aec22602b05cd3e540a3e1e4e4e51e9b51c5f23cbc15ef924066adc2e435070c0925231e27df Homepage: https://cran.r-project.org/package=WaveletGARCH Description: CRAN Package 'WaveletGARCH' (Fit the Wavelet-GARCH Model to Volatile Time Series Data) Fits the combination of Wavelet-GARCH model for time series forecasting using algorithm by Paul (2015) . Package: r-cran-waveletgbm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-dplyr, r-cran-caretforecast, r-cran-metrics, r-cran-tseries, r-cran-wavelets, r-cran-gbm Filename: pool/dists/focal/main/r-cran-waveletgbm_0.1.0-1.ca2004.1_all.deb Size: 22580 MD5sum: 7c1c3019917ce39671f49ff3da40e723 SHA1: 62f9feb445d098f6f35f81d70fd03427197457e0 SHA256: c6a4134929f63f2654ca5f09c00d97301d9fd33d3245544e03935f80fd4d942b SHA512: 76e4fd57c3ee4bc0ed9870d76f0af386caccff86364ae7cee17a492bee41c44022b2216b7a31adbccba50277fc3037e133ce7b2ec35468506bd0122ec763c2f8 Homepage: https://cran.r-project.org/package=WaveletGBM Description: CRAN Package 'WaveletGBM' (Wavelet Based Gradient Boosting Method) Wavelet decomposition method is very useful for modelling noisy time series data. Wavelet decomposition using 'haar' algorithm has been implemented to developed hybrid Wavelet GBM (Gradient Boosting Method) model for time series forecasting using algorithm by Anjoy and Paul (2017) . Package: r-cran-waveletknn Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-dplyr, r-cran-caretforecast, r-cran-metrics, r-cran-tseries, r-cran-wavelets Filename: pool/dists/focal/main/r-cran-waveletknn_0.1.0-1.ca2004.1_all.deb Size: 22404 MD5sum: 1ec13e0e6632db0a90e468476f8cb7fd SHA1: 5525bb4038f218a016cc9b3aceca5c18992d5b37 SHA256: 16787a18d63c9fe1d6e602e0028c2643b2524a96e65b9ffd5ba9ba232a6292aa SHA512: 9ed8c8ab0faac84b16aa3ca8e97564b5a67994f9135dba24f5d8efde6029adf6117d071e59b4a53b44e0a81775f82b8c613a20fffb2f8ea20feb23655de23c93 Homepage: https://cran.r-project.org/package=WaveletKNN Description: CRAN Package 'WaveletKNN' (Wavelet Based K-Nearest Neighbor Model) The employment of the Wavelet decomposition technique proves to be highly advantageous in the modelling of noisy time series data. Wavelet decomposition technique using the "haar" algorithm has been incorporated to formulate a hybrid Wavelet KNN (K-Nearest Neighbour) model for time series forecasting, as proposed by Anjoy and Paul (2017) . Package: r-cran-waveletlstm Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 51 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-caret, r-cran-dplyr, r-cran-caretforecast, r-cran-tseries, r-cran-wavelets, r-cran-tslstm Filename: pool/dists/focal/main/r-cran-waveletlstm_0.1.0-1.ca2004.1_all.deb Size: 20424 MD5sum: 0957f93a9cfe3757291f88e2e1cb8343 SHA1: 198c4be0728dadd24ce34db22be2c140f7349a71 SHA256: eaea06250f60594dbd8b8c115b5fa5e45c3fe4d74b2e6971aa7996c8503fbe11 SHA512: 0b76b3eaedabb41bf1771ae177d1f98e0a710247725aa0141e61a7ef15e76408417f269c3b4c32d2068e0e0dc2e7f763544d50de6806623a49454b6cce1aae8d Homepage: https://cran.r-project.org/package=WaveletLSTM Description: CRAN Package 'WaveletLSTM' (Wavelet Based LSTM Model) A wavelet-based LSTM model is a type of neural network architecture that uses wavelet technique to pre-process the input data before passing it through a Long Short-Term Memory (LSTM) network. The wavelet-based LSTM model is a powerful approach that combines the benefits of wavelet analysis and LSTM networks to improve the accuracy of predictions in various applications. This package has been developed using the algorithm of Anjoy and Paul (2017) and Paul and Garai (2021) . Package: r-cran-waveletml Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 81 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-wavelets, r-cran-tseries, r-cran-forecast, r-cran-fgarch, r-cran-atsa, r-cran-fints, r-cran-lsts, r-cran-earth, r-cran-caret, r-cran-neuralnet, r-cran-e1071, r-cran-pso Filename: pool/dists/focal/main/r-cran-waveletml_0.1.0-1.ca2004.1_all.deb Size: 50468 MD5sum: 4f296b7a7d3842a9c2bbc68697cb1bbf SHA1: 4eca6b0abfa15e49ec998d770fc6908d3b201601 SHA256: 30da244e8449e63b50a05e6fc5f7a3bf5bb62739816c8e2218ad7f28926bcfb5 SHA512: 2ffbad94062432d0f53eb46d65bcf4fd9b15bbdf839237ad286a1878cb91f5c6bf6a6eb8cd240f57c83e89c52884b9a1e91d50d7a2d167b039182e8d8cf28821 Homepage: https://cran.r-project.org/package=WaveletML Description: CRAN Package 'WaveletML' (Wavelet Decomposition Based Hybrid Machine Learning Models) Wavelet decomposes a series into multiple sub series called detailed and smooth components which helps to capture volatility at multi resolution level by various models. Two hybrid Machine Learning (ML) models (Artificial Neural Network and Support Vector Regression have been used) have been developed in combination with stochastic models, feature selection, and optimization algorithms for prediction of the data. The algorithms have been developed following Paul and Garai (2021) . Package: r-cran-waveletmlbestfl Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-waveletml, r-cran-ceemdanml, r-cran-describedf Filename: pool/dists/focal/main/r-cran-waveletmlbestfl_0.1.0-1.ca2004.1_all.deb Size: 32784 MD5sum: 2f1a39acbb0d7d7ea57d75aa63131305 SHA1: 8411aacf866811c726c70a027e18884251148904 SHA256: a435c92a25e8dff4e82d1b460d04e5061a67f4ad78bc64bf7aa048720100805a SHA512: ceac34d6044b62b2edeb4f14b014c3194c2393c5ee08890c71cd38ae906c73a351263a214c51f6b90927b440b59847609183072f1e4a78372726f745eeb5f71f Homepage: https://cran.r-project.org/package=WaveletMLbestFL Description: CRAN Package 'WaveletMLbestFL' (The Best Wavelet Filter-Level for Prepared Wavelet-Based Models) Four filters have been chosen namely 'haar', 'c6', 'la8', and 'bl14' (Kindly refer to 'wavelets' in 'CRAN' repository for more supported filters). Levels of decomposition are 2, 3, 4, etc. up to maximum decomposition level which is ceiling value of logarithm of length of the series base 2. For each combination two models are run separately. Results are stored in 'input'. First five metrics are expected to be minimum and last three metrics are expected to be maximum for a model to be considered good. Firstly, every metric value (among first five) is searched in every columns and minimum values are denoted as 'MIN' and other values are denoted as 'NA'. Secondly, every metric (among last three) is searched in every columns and maximum values are denoted as 'MAX' and other values are denoted as 'NA'. 'output' contains the similar number of rows (which is 8) and columns (which is number filter-level combinations) as of 'input'. Values in 'output' are corresponding 'NA', 'MIN' or 'MAX'. Finally, the column containing minimum number of 'NA' values is denoted as the best ('FL'). In special case, if two columns having equal 'NA', it has been checked among these two columns which one is having least 'NA' in first five rows and has been inferred as the best. 'FL_metrics_values' are the corresponding metrics values. 'WARIGAANbest' is the data frame (dimension: 1*8) containing different metrics of the best filter-level combination. More details can be found in Garai and others (2023) . Package: r-cran-waveletrf Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-wavelets, r-cran-fracdiff, r-cran-forecast, r-cran-randomforest, r-cran-tsutils Filename: pool/dists/focal/main/r-cran-waveletrf_0.1.0-1.ca2004.1_all.deb Size: 21856 MD5sum: b80a896ce3882fb6f979ac6959fbc6a2 SHA1: dc1d276c7a1420c33dbbb81b6829e18af4b7c060 SHA256: fbb7d01ac086aec74615f64167aff9d9730c2e49a41df3492fc2df16ec9cae57 SHA512: 30a30d71c3edb59c360a12b070323b0fbda2529a8b3767572cf1cc3bfe6ca595aba24f34d2931874aabbc35bf3ec6174699c59932395f1911fd735c262ed0b82 Homepage: https://cran.r-project.org/package=WaveletRF Description: CRAN Package 'WaveletRF' (Wavelet-RF Hybrid Model for Time Series Forecasting) The Wavelet Decomposition followed by Random Forest Regression (RF) models have been applied for time series forecasting. The maximum overlap discrete wavelet transform (MODWT) algorithm was chosen as it works for any length of the series. The series is first divided into training and testing sets. In each of the wavelet decomposed series, the supervised machine learning approach namely random forest was employed to train the model. This package also provides accuracy metrics in the form of Root Mean Square Error (RMSE) and Mean Absolute Prediction Error (MAPE). This package is based on the algorithm of Ding et al. (2021) . Package: r-cran-waveletsvr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 52 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-wavelets, r-cran-fracdiff, r-cran-forecast, r-cran-e1071, r-cran-tsutils Filename: pool/dists/focal/main/r-cran-waveletsvr_0.1.0-1.ca2004.1_all.deb Size: 21692 MD5sum: 16d0e43784a7323adf281fa43c7f2073 SHA1: 65267cfd358261a2860ab88df26d28f25ca19da6 SHA256: c77a61898ae4c87e9d1dc4bdbb023f556f203e675bba5b9f925c8808fe48b9b6 SHA512: b798948d05482bb76abdd56f0da194796e5c335c2b7690fec8e82a5d62eb27160513a4128d6eead82216666de2f013dd891a7705d12a55d207979af015ddfa23 Homepage: https://cran.r-project.org/package=WaveletSVR Description: CRAN Package 'WaveletSVR' (Wavelet-SVR Hybrid Model for Time Series Forecasting) The main aim of this package is to combine the advantage of wavelet and support vector machine models for time series forecasting. This package also gives the accuracy measurements in terms of RMSE and MAPE. This package fits the hybrid Wavelet SVR model for time series forecasting The main aim of this package is to combine the advantage of wavelet and Support Vector Regression (SVR) models for time series forecasting. This package also gives the accuracy measurements in terms of Root Mean Square Error (RMSE) and Mean Absolute Prediction Error (MAPE). This package is based on the algorithm of Raimundo and Okamoto (2018) . Package: r-cran-wavemulcor Architecture: all Version: 3.1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2644 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-waveslim, r-cran-plot3d, r-cran-rcolorbrewer Suggests: r-cran-covr, r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-wavemulcor_3.1.2-1.ca2004.1_all.deb Size: 1680936 MD5sum: 5beb9dcebcba715fe71e8366e9b45f66 SHA1: fb639bca8108c88055cbf237274405f42c227fcb SHA256: 7acb0fe7534edd2a03749f07c81cf19d5082cb5c85ae23477e453d26667f47db SHA512: fcacf1fe91e40ac935a409a9f975b6be682e75b96c0a549aad7c8427fc6b3dd8ab7983a15f0687c05530368d0f0ff1c29d46bceebf2838589b5767218a5f3863 Homepage: https://cran.r-project.org/package=wavemulcor Description: CRAN Package 'wavemulcor' (Wavelet Routines for Global and Local Multiple Regression andCorrelation) Wavelet routines that calculate single sets of wavelet multiple regressions and correlations, and cross-regressions and cross-correlations from a multivariate time series. Dynamic versions of the routines allow the wavelet local multiple (cross-)regressions and (cross-)correlations to evolve over time. Package: r-cran-waver Architecture: all Version: 0.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sf, r-cran-geosphere Suggests: r-cran-lwgeom, r-cran-sp, r-cran-testthat Filename: pool/dists/focal/main/r-cran-waver_0.3.0-1.ca2004.1_all.deb Size: 33292 MD5sum: 4b0568a3f411b98f34c599d6ccd9b4f9 SHA1: 324a19c21e954f0bc03181d8147a919b74aea64c SHA256: dbe81f68ceb2a3da72fcb225fff70857335799e5c214a413d969d2541d774ad8 SHA512: 136077d5c88a4f65caa48a36e3ff91120bf1117dbff56a3ea6c19311834bb12f70429728cf9fb892c5f63ba463ed4fe76c60a0a1b4269221b40e21fecc8cfbf5 Homepage: https://cran.r-project.org/package=waver Description: CRAN Package 'waver' (Calculate Fetch and Wave Energy) Functions for calculating the fetch (length of open water distance along given directions) and estimating wave energy from wind and wave monitoring data. Package: r-cran-waverider Architecture: all Version: 0.4.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 943 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-desctools, r-cran-hmisc, r-cran-matrix, r-cran-colorednoise, r-cran-foreach, r-cran-matrixstats, r-cran-reshape2, r-cran-truncnorm, r-cran-astrochron, r-cran-rcolorbrewer, r-cran-colorramps, r-cran-viridis, r-cran-magick, r-cran-rlist, r-cran-trapezoid, r-cran-fancova, r-cran-decomposer, r-cran-dosnow Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-waverider_0.4.1-1.ca2004.1_all.deb Size: 883588 MD5sum: 1f903c55720b997bbce5a681ccfffc84 SHA1: c106f4730ec448f796f8f361122086a3d049b106 SHA256: fcfb925ac82967d54447aeaeab2c51df73eba2344f199ae50bdd8bad6c7a7bb8 SHA512: 65c62a4694f97fbdb17bd82211918f7823ff7182a34ed9f6b1e3cf73a9c72ad674eb541374438eb06a27e2866fcbf868e32de23143fa1c1660eada875f2d7895 Homepage: https://cran.r-project.org/package=WaverideR Description: CRAN Package 'WaverideR' (Extracting Signals from Wavelet Spectra) The continuous wavelet transform enables the observation of transient/non-stationary cyclicity in time-series. The goal of cyclostratigraphic studies is to define frequency/period in the depth/time domain. By conducting the continuous wavelet transform on cyclostratigraphic data series one can observe and extract cyclic signals/signatures from signals. These results can then be visualized and interpreted enabling one to identify/interpret cyclicity in the geological record, which can be used to construct astrochronological age-models and identify and interpret cyclicity in past and present climate systems. The 'WaverideR' R package builds upon existing literature and existing codebase. The list of articles which are relevant can be grouped in four subjects; cyclostratigraphic data analysis,example data sets,the (continuous) wavelet transform and astronomical solutions. References for the cyclostratigraphic data analysis articles are: Stephen Meyers (2019) . Mingsong Li, Linda Hinnov, Lee Kump (2019) Stephen Meyers (2012) Mingsong Li, Lee R. Kump, Linda A. Hinnov, Michael E. Mann (2018) . Wouters, S., Crucifix, M., Sinnesael, M., Da Silva, A.C., Zeeden, C., Zivanovic, M., Boulvain, F., Devleeschouwer, X. (2022) . Wouters, S., Da Silva, A.-C., Boulvain, F., and Devleeschouwer, X. (2021) . Huang, Norden E., Zhaohua Wu, Steven R. Long, Kenneth C. Arnold, Xianyao Chen, and Karin Blank (2009) . Cleveland, W. S. (1979) Hurvich, C.M., Simonoff, J.S., and Tsai, C.L. (1998) , Golub, G., Heath, M. and Wahba, G. (1979) . References for the example data articles are: Damien Pas, Linda Hinnov, James E. (Jed) Day, Kenneth Kodama, Matthias Sinnesael, Wei Liu (2018) . Steinhilber, Friedhelm, Abreu, Jacksiel, Beer, Juerg , Brunner, Irene, Christl, Marcus, Fischer, Hubertus, HeikkilA, U., Kubik, Peter, Mann, Mathias, Mccracken, K. , Miller, Heinrich, Miyahara, Hiroko, Oerter, Hans , Wilhelms, Frank. (2012 . Christian Zeeden, Frederik Hilgen, Thomas Westerhold, Lucas Lourens, Ursula Röhl, Torsten Bickert (2013) . References for the (continuous) wavelet transform articles are: Morlet, Jean, Georges Arens, Eliane Fourgeau, and Dominique Glard (1982a) . J. Morlet, G. Arens, E. Fourgeau, D. Giard (1982b) . Torrence, C., and G. P. Compo (1998), Gouhier TC, Grinsted A, Simko V (2021) . Angi Roesch and Harald Schmidbauer (2018) . Russell, Brian, and Jiajun Han (2016). Gabor, Dennis (1946) . J. Laskar, P. Robutel, F. Joutel, M. Gastineau, A.C.M. Correia, and B. Levrard, B. (2004) . Laskar, J., Fienga, A., Gastineau, M., Manche, H. (2011a) . References for the astronomical solutions articles are: Laskar, J., Gastineau, M., Delisle, J.-B., Farres, A., Fienga, A. (2011b . J. Laskar (2019) . Zeebe, Richard E (2017) . Zeebe, R. E. and Lourens, L. J. (2019) . Richard E. Zeebe Lucas J. Lourens (2022) . 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Cherasia et al., (2022) . Amaratunga et al., (2009) . 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The WCM algorithm attributed to Pervot et al.(1993) . The authors are grateful to SAC, ISRO, Ahmedabad for providing financial support to Dr. Prashant K Srivastava to conduct this research work. 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The package includes several weighting schemes which can be parameterized, as well as custom configuration options. Furthermore, users can decide whether they wish to positively or negatively affect the accuracy score as a result of applying weights to the confusion matrix. Functions are included to calculate accuracy metrics for imbalanced data. Finally, 'wconf' integrates well with the 'caret' package, but it can also work standalone when provided data in matrix form. References: Kuhn, M. (2008) "Building Perspective Models in R Using the caret Package" Monahov, A. (2021) "Model Evaluation with Weighted Threshold Optimization (and the mewto R package)" Monahov, A. (2024) "Improved Accuracy Metrics for Classification with Imbalanced Data and Where Distance from the Truth Matters, with the wconf R Package" Starovoitov, V., Golub, Y. (2020). New Function for Estimating Imbalanced Data Classification Results. Pattern Recognition and Image Analysis, 295–302 Van de Velden, M., Iodice D'Enza, A., Markos, A., Cavicchia, C. (2023) "A general framework for implementing distances for categorical variables" . 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Package: r-cran-weatheroz Architecture: all Version: 2.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1171 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-apsimx, r-cran-clock, r-cran-crayon, r-cran-crul, r-cran-curl, r-cran-data.table, r-cran-foreign, r-cran-jsonlite, r-cran-knitr, r-cran-lubridate, r-cran-magick, r-cran-sf, r-cran-stars, r-cran-terra, r-cran-xml2 Suggests: r-cran-covr, r-cran-dplyr, r-cran-ggplot2, r-cran-ggthemes, r-cran-gridextra, r-cran-mailr, r-cran-mapproj, r-cran-maps, r-cran-rmarkdown, r-cran-roxyglobals, r-cran-spelling, r-cran-testthat, r-cran-usethis, r-cran-vcr, r-cran-vdiffr, r-cran-withr Filename: pool/dists/focal/main/r-cran-weatheroz_2.0.1-1.ca2004.1_all.deb Size: 595924 MD5sum: dd8e99b7f48ed826eb6cb79308938b93 SHA1: 0e48419c50f41b369033ee61ff99a32d24fedf58 SHA256: e83d10f4ea3c5cb82f54d915d12bc38e8c4c597dd40081b4ca135f8c052681be SHA512: 4df1bed92dcbbef0aa09b82b8629669fb9be9cbc3d89977dc4516eedd52b68ff590e75f3260127120acb0c297eecf342a0ee605029d274daf7478446686a9c11 Homepage: https://cran.r-project.org/package=weatherOz Description: CRAN Package 'weatherOz' (An API Client for Australian Weather and Climate Data Resources) Provides automated downloading, parsing and formatting of weather data for Australia through API endpoints provided by the Department of Primary Industries and Regional Development ('DPIRD') of Western Australia and by the Science and Technology Division of the Queensland Government's Department of Environment and Science ('DES'). As well as the Bureau of Meteorology ('BOM') of the Australian government precis and coastal forecasts, and downloading and importing radar and satellite imagery files. 'DPIRD' weather data are accessed through public 'APIs' provided by 'DPIRD', , providing access to weather station data from the 'DPIRD' weather station network. Australia-wide weather data are based on data from the Australian Bureau of Meteorology ('BOM') data and accessed through 'SILO' (Scientific Information for Land Owners) Jeffrey et al. (2001) . 'DPIRD' data are made available under a Creative Commons Attribution 3.0 Licence (CC BY 3.0 AU) license . SILO data are released under a Creative Commons Attribution 4.0 International licence (CC BY 4.0) . 'BOM' data are (c) Australian Government Bureau of Meteorology and released under a Creative Commons (CC) Attribution 3.0 licence or Public Access Licence ('PAL') as appropriate, see for further details. Package: r-cran-weatherr Architecture: all Version: 0.1.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 56 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggmap, r-cran-lubridate, r-cran-rjsonio, r-cran-xml Filename: pool/dists/focal/main/r-cran-weatherr_0.1.3-1.ca2004.1_all.deb Size: 25880 MD5sum: a4d333e8d30fee953f6bc5e382fd1cee SHA1: 44bf8f5a2749fdd07f64c5d4772f3bac54287c30 SHA256: 297f0eadfcd23b127dcc25f0024f0209ea161454f9363b8fc18676facc908a8e SHA512: 8ced23e11938dcdcff6eb12699d2f305454894ff8e7be36c195a53787ba11335b81571a102cc80b78d7e1d41294fa543828086d8231a6b5b69a3368b8650d22f Homepage: https://cran.r-project.org/package=weatherr Description: CRAN Package 'weatherr' (Tools for Handling and Scraping Instant Weather Forecast Feeds) Handle instant weather forecasts and geographical information. It combines multiple sources of information to obtain instant weather forecasts. Package: r-cran-weathersentiment Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 63 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-tidyverse, r-cran-wordcloud, r-cran-sentimentr, r-cran-tidytext, r-cran-ggplot2, r-cran-stringr, r-cran-data.table, r-cran-rcolorbrewer, r-cran-tidyr Suggests: r-cran-dplyr, r-cran-syuzhet Filename: pool/dists/focal/main/r-cran-weathersentiment_1.0-1.ca2004.1_all.deb Size: 34132 MD5sum: d88dd9043afd54be244e0334f2b595dd SHA1: 78ec01a6cad7840da5f04c38dc739e58469b4604 SHA256: b53afa85d626c84df8738dffacd05d6e081856434fccc0b7b3330ed1d7753984 SHA512: ec1a2eec67d48df3e03a2ec146d1d3f7e349772e86c5eaaa8b25927d59175411766bb71b33ad101635bf16bf9e9a9471a5858a0c089439aba273ab81219b0406 Homepage: https://cran.r-project.org/package=WeatherSentiment Description: CRAN Package 'WeatherSentiment' (Comprehensive Analysis of Tweet Sentiments and Weather Data) A comprehensive suite of functions for processing, analyzing, and visualizing textual data from tweets is offered. Users can clean tweets, analyze their sentiments, visualize data, and examine the correlation between sentiments and environmental data such as weather conditions. Main features include text processing, sentiment analysis, data visualization, correlation analysis, and synthetic data generation. Text processing involves cleaning and preparing tweets by removing textual noise and irrelevant words. Sentiment analysis extracts and accurately analyzes sentiments from tweet texts using advanced algorithms. Data visualization creates various charts like word clouds and sentiment polarity graphs for visual representation of data. Correlation analysis examines and calculates the correlation between tweet sentiments and environmental variables such as weather conditions. Additionally, random tweets can be generated for testing and evaluating the performance of analyses, empowering users to effectively analyze and interpret 'Twitter' data for research and commercial purposes. Package: r-cran-weathr Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 99 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-httr2, r-cran-janitor, r-cran-jsonlite, r-cran-lubridate, r-cran-lutz, r-cran-magrittr, r-cran-purrr, r-cran-sf, r-cran-tibble Suggests: r-cran-gt, r-cran-snakecase, r-cran-tmap Filename: pool/dists/focal/main/r-cran-weathr_0.1.0-1.ca2004.1_all.deb Size: 66236 MD5sum: 6d2aab0937b4a01ae470cf86e58526ad SHA1: 9c05a712e44fda98ee2ceaaf956e65958406a628 SHA256: 66880b07bb90604d0c0078a1a1c9a08e2901b7f3b2441dd8f7c27271e0907fd5 SHA512: e6c375f32e5744fb17b0866b2867ef5be1d7fa1d249816d2ad7bdda605d6b61f7a870432a62a5631962a77722be80555d4ea01c7be5781686594df8929c6dfb7 Homepage: https://cran.r-project.org/package=weathR Description: CRAN Package 'weathR' (Interact with the U.S. National Weather Service API) Enables interaction with the National Weather Service application programming web-interface for fetching of real-time and forecast meteorological data. Users can provide latitude and longitude, Automated Surface Observing System identifier, or Automated Weather Observing System identifier to fetch recent weather observations and recent forecasts for the given location or station. Additionally, auxiliary functions exist to identify stations nearest to a point, convert wind direction from character to degrees, and fetch active warnings. Results are returned as simple feature objects whenever possible. Package: r-cran-webanalytics Architecture: all Version: 0.9.12-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3773 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-xtable, r-cran-data.table, r-cran-scales, r-cran-brew, r-cran-fs, r-cran-reshape2, r-cran-digest, r-cran-tinytex, r-cran-uaparserjs Suggests: r-cran-whoami, r-cran-testthat Filename: pool/dists/focal/main/r-cran-webanalytics_0.9.12-1.ca2004.1_all.deb Size: 1747844 MD5sum: eca56f960c2119ba50bf7ce4bcae8e4c SHA1: 1f2b8bf8da7655c7fb933104485297a6fdc9a044 SHA256: 1f89887c764cebde1f92276d0d0987f9b6242d22cc7db39079b39be34a40f155 SHA512: 19636a5faf886ec79034c9325ea435d8d5b0c77a8edd264fb9cb47c8bdf6c118f7df68c5a96143174de0c07086af6b84797b57d1717a6b17f81947a60da2a8f8 Homepage: https://cran.r-project.org/package=WebAnalytics Description: CRAN Package 'WebAnalytics' (Web Server Log Analysis) Provides Apache and IIS log analytics for transaction performance, client populations and workload definitions. Package: r-cran-webchem Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 437 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-xml2, r-cran-httr, r-cran-rvest, r-cran-jsonlite, r-cran-stringr, r-cran-dplyr, r-cran-purrr, r-cran-data.tree, r-cran-tibble, r-cran-base64enc, r-cran-rlang Suggests: r-cran-testthat, r-cran-rcdk, r-cran-covr, r-cran-robotstxt, r-cran-knitr, r-cran-rmarkdown, r-cran-plot.matrix, r-cran-usethis, r-cran-vcr Filename: pool/dists/focal/main/r-cran-webchem_1.3.0-1.ca2004.1_all.deb Size: 350408 MD5sum: 457e81dbea65204dc59997ccfdcf7827 SHA1: c1fc34a3df10a9ac849c5f831719fa44dc054960 SHA256: b32bdc249ffabbf58ee7b2fae852aff54a89dc950511bc0946b134da83f456a9 SHA512: 68d15159ae54f8439cc9ee0aaa97a6846df20fa10169a1fd1c22bdd5f3528add12b2a0ec7811f34fd6ca07317279e1a0ad368d31cd3d810d0b5d9e7a657b25a8 Homepage: https://cran.r-project.org/package=webchem Description: CRAN Package 'webchem' (Chemical Information from the Web) Chemical information from around the web. This package interacts with a suite of web services for chemical information. Sources include: Alan Wood's Compendium of Pesticide Common Names, Chemical Identifier Resolver, ChEBI, Chemical Translation Service, ChemSpider, ETOX, Flavornet, NIST Chemistry WebBook, OPSIN, PubChem, SRS, Wikidata. 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Package: r-cran-webdeveloper Architecture: all Version: 1.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 80 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-httpuv, r-cran-html5, r-cran-future, r-cran-promises, r-cran-readr, r-cran-stringi Filename: pool/dists/focal/main/r-cran-webdeveloper_1.0.5-1.ca2004.1_all.deb Size: 51408 MD5sum: f82c771922fc0556046c8f63523264f6 SHA1: 96c026c61b503745a0f13f8665ca5e953e16fbbb SHA256: 865c8c5fade84e37356330b06f7cdd06336d26f6f9129535d3ee7d437c2ac7cd SHA512: 1dbb9d1d619da14268b9931b3575e2d2c6913508e54fe722450bf9375a810dc3d46a3e016169ccb185a5c9066714390f6920d778c6205549f8612007e9911dc7 Homepage: https://cran.r-project.org/package=webdeveloper Description: CRAN Package 'webdeveloper' (Functions for Web Development) Organizational framework for web development in R including functions to serve static and dynamic content via HTTP methods, includes the html5 package to create HTML pages, and offers other utility functions for common tasks related to web development. Package: r-cran-webdriver Architecture: all Version: 1.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 229 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-callr, r-cran-base64enc, r-cran-curl, r-cran-debugme, r-cran-httr, r-cran-jsonlite, r-cran-r6, r-cran-showimage, r-cran-withr Suggests: r-cran-covr, r-cran-pingr, r-cran-rprojroot, r-cran-servr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-webdriver_1.0.6-1.ca2004.1_all.deb Size: 192680 MD5sum: c618acda6ded7e6f9eead28f48bc5136 SHA1: 6a21a2b56b29fd88052ac91e880e4c15eca92578 SHA256: 8969de17c32ee4757a939abbe0fd580492238452e24d4a200fa08f1096c59515 SHA512: 82a92db279d055d6b4de653abb0f708dbc1832ea3b6097955c45eabf8d2d50c3eaeb7f1b04a36823136dc29a315a957b448fada71fcf1656d1c298924041d695 Homepage: https://cran.r-project.org/package=webdriver Description: CRAN Package 'webdriver' ('WebDriver' Client for 'PhantomJS') A client for the 'WebDriver' 'API'. 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Package: r-cran-webmockr Architecture: all Version: 2.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 844 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-curl, r-cran-jsonlite, r-cran-magrittr, r-cran-r6, r-cran-urltools, r-cran-fauxpas, r-cran-rlang, r-cran-cli Suggests: r-cran-testthat, r-cran-xml2, r-cran-vcr, r-cran-crul, r-cran-httr, r-cran-httr2, r-cran-diffobj, r-cran-withr Filename: pool/dists/focal/main/r-cran-webmockr_2.1.0-1.ca2004.1_all.deb Size: 683492 MD5sum: 4d97d76a317a892ec9a5820ae1f34a7f SHA1: 71327ae02ffadf7a7c4922fb27adffb1e3ec4af9 SHA256: d5e53a2113f4d0bad62c01a3d67c0bb0dc34c0cb5ec2d0c7f7ceea393289570f SHA512: f2b66c9c77f35dd13da6cdd676761d11a650f40043cb5c5d46b5181de28927154f4d97cb48f2c49014fa6da4f7b8622181cadfc1d62b7071d5ed3e2c4d6454c9 Homepage: https://cran.r-project.org/package=webmockr Description: CRAN Package 'webmockr' (Stubbing and Setting Expectations on 'HTTP' Requests) Stubbing and setting expectations on 'HTTP' requests. 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Package: r-cran-webmorphr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1752 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-dplyr, r-cran-jsonlite, r-cran-magick, r-cran-geomorph, r-cran-httr, r-cran-progress, r-cran-rsvg, r-cran-ggplot2 Suggests: r-cran-shiny, r-cran-shinyjs, r-cran-shinydashboard, r-cran-shinywidgets, r-cran-dt, r-cran-gifski, r-cran-testthat, r-cran-usethis, r-cran-rmarkdown, r-cran-covr Filename: pool/dists/focal/main/r-cran-webmorphr_0.1.1-1.ca2004.1_all.deb Size: 1403548 MD5sum: d456ea2a4e5424786bb0e11134662656 SHA1: 15ccbb35da7edb32357982290bfb8bf3d2b38e7d SHA256: 4db003fe5728cf16c8013b9c4263f96246dae0b38410d3ff14bb77ecaff6f201 SHA512: 78ef562efc822929992b6134c75e763fe5f96446d5b0fb98f5f7b7d188e7bd4a0b462c3aa567e6c1bd351debbc99ec4f8db93eae4926787d63145638562036fe Homepage: https://cran.r-project.org/package=webmorphR Description: CRAN Package 'webmorphR' (Reproducible Stimuli) Create reproducible image stimuli, specialised for face images with 'psychomorph' or 'webmorph' templates. 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Additionally it also calculates rasters of KBA's (Key Biodiversity Area) criteria (A1a, A1b, A1e, and B1), Weighted endemism (WE), the EDGE (Evolutionarily Distinct and Globally Endangered) score, Evolutionary Distinctiveness (ED) and Extinction risk (ER). Farooq, H., Azevedo, J., Belluardo F., Nanvonamuquitxo, C., Bennett, D., Moat, J., Soares, A., Faurby, S. & Antonelli, A. (2020) . 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Package: r-cran-weibull4 Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 89 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-weibull4_1.0.0-1.ca2004.1_all.deb Size: 54576 MD5sum: b305a68355a1d998ee8eeaab85533617 SHA1: 3230fd5fe2f79e11bed89d5174adc4462e53f929 SHA256: b689b0d73291aa5c1259a3ed87abdb64fd82607a3162795f7ebb9f1026e99888 SHA512: d6870588f57a023c4a25b3e36be838c243585f17e8022246e26fc0742a11c95b3ac41eba9b08e31cfdd73ef0400056a481c6d047249d36f4b7c4fe7d03d1dc1d Homepage: https://cran.r-project.org/package=weibull4 Description: CRAN Package 'weibull4' (Fits Data into 4-Parameters Weibull Distribution) Performs a curve fit to 4-parameters Weibull distribution using Metropolis algorithm - Markov chain-Monte Carlo method. Special usage for fitting COVID-19 epidemic data on daily new cases and deaths. Also, builds the 4-parameters Weibull distribution curve using given parameters (shape, scale, location and area). Package: r-cran-weibullfit Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 239 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glue, r-cran-xtable, r-cran-sqldf, r-cran-r.oo, r-cran-fadist, r-cran-mixdist, r-cran-optimx, r-cran-ksamples, r-cran-e1071, r-cran-r.methodss3 Filename: pool/dists/focal/main/r-cran-weibullfit_0.1.0-1.ca2004.1_all.deb Size: 204764 MD5sum: ff5a4a23f585ce0f9258190bbc0c9584 SHA1: 5e9b4f86eda125ade05b0e79ff99f2202c62aa79 SHA256: 47eee82420c0ecbdf2798aa6738f7be9f22306ba1c879abf989cf4418bb2e09e SHA512: edff08a31881b2ead0c1bef621101cc43687651db9be6768605c32538c6c85dc974fa510da6d29d39cbd0521aff9a30ecf6936a6d5a7a6b0485b462e9a61a542 Homepage: https://cran.r-project.org/package=WeibullFit Description: CRAN Package 'WeibullFit' (Fits and Plots a Dataset to the Weibull Probability DistributionFunction) Provides a single function to fit data of an input data frame into one of the selected Weibull functions (w2, w3 and it's truncated versions), calculating the scale, location and shape parameters accordingly. The resulting plots and files are saved into the 'folder' parameter provided by the user. References: a) John C. Nash, Ravi Varadhan (2011). "Unifying Optimization Algorithms to Aid Software System Users: optimx for R" . Package: r-cran-weibullness Architecture: all Version: 1.24.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 4399 Depends: r-base-core (>= 4.3.0), r-api-4.0 Suggests: r-cran-bsgof Filename: pool/dists/focal/main/r-cran-weibullness_1.24.1-1.ca2004.1_all.deb Size: 3552512 MD5sum: 24dad94a0e66239ae856fcf98a8aff9a SHA1: b1034d7e755d8831710c7d17cd5b1729c180d476 SHA256: 6f0017f8d88b2491d80fdebb6bed0cb1537a4bc0b80d6762e147a5c80784575f SHA512: 713b0ca9c8650b04bced341d5f4a7f2d4ff6162462bcc5aa51bbf1313646b34ddd2baa81e38f170ea4cbbfced25fc0581dffe9dee7c40c2bf9d471f4d5a76336 Homepage: https://cran.r-project.org/package=weibullness Description: CRAN Package 'weibullness' (Goodness-of-Fit Test for Weibull Distribution (Weibullness)) Conducts a goodness-of-fit test for the Weibull distribution (referred to as the weibullness test) and furnishes parameter estimations for both the two-parameter and three-parameter Weibull distributions. Notably, the threshold parameter is derived through correlation from the Weibull plot. Additionally, this package conducts goodness-of-fit assessments for the exponential, Gumbel, and inverse Weibull distributions, accompanied by parameter estimations. For more details, see Park (2017) , Park (2018) , and Park (2023) . This work was supported by the National Research Foundation of Korea (NRF) grants funded by the Korea government (MSIT) (No. 2022R1A2C1091319, RS-2023-00242528). Package: r-cran-weibullr.alt Architecture: all Version: 0.7.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 135 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-weibullr Filename: pool/dists/focal/main/r-cran-weibullr.alt_0.7.2-1.ca2004.1_all.deb Size: 107032 MD5sum: b5f9da5324f7890592c078525738d25d SHA1: 9556f93d9ad8b2290b3b50839565915a23034061 SHA256: 93dbd3a21fb1cc9f81d9d60bb01138a52f9132fa7ce1ce392a38945d83076513 SHA512: 50a0df28db2ef65e03f3e08f19ec736a37da3202a87994adb68f18ae8a1d4cf8c70893e9593dc4d54f8140278c72ad258e4ed2ea238d71e20ecacd3b253750eb Homepage: https://cran.r-project.org/package=WeibullR.ALT Description: CRAN Package 'WeibullR.ALT' (Accelerated Life Testing Using 'WeibullR') Graphical data analysis of accelerated life tests. Methods derived from Wayne Nelson (1990, ISBN: 9780471522775), William Q. Meeker and Lois A. Escobar (1998, ISBN: 1-471-14328-6). Package: r-cran-weibullr.learnr Architecture: all Version: 0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3293 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-learnr, r-cran-reliagrowr, r-cran-weibullr, r-cran-weibullr.alt Suggests: r-cran-weibullr.plotly, r-cran-weibullr.shiny Filename: pool/dists/focal/main/r-cran-weibullr.learnr_0.2-1.ca2004.1_all.deb Size: 2015044 MD5sum: a1fe9d248905cf7929e8e469b8140fb5 SHA1: abc340fd6c17e354062a9ad49dd95a00f112594c SHA256: a1e16894b6f5d6c8eab84d9d0f86dc239899c439a9de0d45e3429f84c215a23d SHA512: 68038c71b7de740d01a69cb5c00c0684a4491b8e12ae50ebd0b9c086d33d7769fc2321067c5e72b8ee6f2fd036b1c6543e07ee14eaa42567d778d79c229cbbea Homepage: https://cran.r-project.org/package=WeibullR.learnr Description: CRAN Package 'WeibullR.learnr' (An Interactive Introduction to Life Data Analysis) An interactive introduction to Life Data Analysis that depends on 'WeibullR' by David Silkworth and Jurgen Symynck (2022) , a R package for Weibull Analysis, and 'learnr' by Garrick Aden-Buie et al. (2023) , a framework for building interactive learning modules in R. 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Package: r-cran-weibullr.shiny Architecture: all Version: 0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 314 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-magrittr, r-cran-reliagrowr, r-cran-weibullr, r-cran-weibullr.plotly, r-cran-shiny, r-cran-shinydashboard, r-cran-shinywidgets Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-shinytest2, r-cran-weibullr.learnr Filename: pool/dists/focal/main/r-cran-weibullr.shiny_0.3-1.ca2004.1_all.deb Size: 190068 MD5sum: f66ae92882fe873dd57dd65674d5e072 SHA1: 5d65442512eb86ed1175f9561fd26fec67e86f9b SHA256: 9b66a04e8e43ebc12c76d708c937090c800bbcee8b403861319a035d02e0cdb3 SHA512: 78ff316508eeebe3ef7669785813414f54bf2b5cc5d92731d862505367513fed782265927ad09b2323f9a77031a4459f22572bcc18ec1870ef0357950fdacc42 Homepage: https://cran.r-project.org/package=WeibullR.shiny Description: CRAN Package 'WeibullR.shiny' (A 'Shiny' App for Weibull Analysis) A 'Shiny' web application for life data analysis that depends on 'WeibullR' by David Silkworth and Jurgen Symynck (2022) , an R package for Weibull analysis. 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By specifying arguments, users can also estimate the modified model described in Vevea and Woods (2005), which may be more practical with small datasets. Users can also specify moderators to estimate a linear model. The package functionality allows users to easily extract the results of these analyses as R objects for other uses. In addition, the package includes a function to launch both models as a Shiny application. Although the Shiny application is also available online, this function allows users to launch it locally if they choose. 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Some improvements, namely trimmed means and Winsorized variances, and bootstrapping for calculating an empirical critical value, have been added to the classical formulation. The code departs from a previous SAS implementation by L.M. Lix and H.J. Keselman, available at and published in Keselman, H.J., Wilcox, R.R., and Lix, L.M. (2003) . 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The current version provides Elo and WElo rates for tennis, according to different systems of weights (games or sets) and scale factors (constant, proportional to the number of matches, with more weight on Grand Slam matches or matches played on a specific surface). Moreover, the package gives the possibility of estimating the (bootstrap) standard errors for the rates. Finally, the package includes betting functions that automatically select the matches on which place a bet. 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The WeMix package fits a weighted mixed model, also known as a multilevel, mixed, or hierarchical linear model (HLM). The weights could be inverse selection probabilities, such as those developed for an education survey where schools are sampled probabilistically, and then students inside of those schools are sampled probabilistically. Although mixed-effects models are already available in R, WeMix is unique in implementing methods for mixed models using weights at multiple levels. Both linear and logit models are supported. Models may have up to three levels. Random effects are estimated using the PIRLS algorithm from 'lme4pureR' (Walker and Bates (2013) ). 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'WhiteboxTools' can be used to perform common geographical information systems (GIS) analysis operations, such as cost-distance analysis, distance buffering, and raster reclassification. Remote sensing and image processing tasks include image enhancement (e.g. panchromatic sharpening, contrast adjustments), image mosaicing, numerous filtering operations, simple classification (k-means), and common image transformations. 'WhiteboxTools' also contains advanced tooling for spatial hydrological analysis (e.g. flow-accumulation, watershed delineation, stream network analysis, sink removal), terrain analysis (e.g. common terrain indices such as slope, curvatures, wetness index, hillshading; hypsometric analysis; multi-scale topographic position analysis), and LiDAR data processing. Suggested citation: Lindsay (2016) . 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The package also offers functions to simulate random orthogonal matrices, compute (correlation) loadings and explained variation. It also contains four example data sets (extended UCI wine data, TCGA LUSC data, nutrimouse data, extended pitprops data). 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Package: r-cran-wikifacts Architecture: all Version: 0.4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 119 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-magrittr, r-cran-rvest, r-cran-xml2 Suggests: r-cran-covr, r-cran-testthat Filename: pool/dists/focal/main/r-cran-wikifacts_0.4.2-1.ca2004.1_all.deb Size: 77044 MD5sum: cc3f7b953309552cc06b028910049cc1 SHA1: 5aaf584a6be7f6ee4a3a4ec018b27d2e3de8f01c SHA256: b7ff5aca405c531d9d2e231626fbd2766175f2ddc665657c1be411178f5c17fd SHA512: 272812bc7f60c0358c1bd7b6ed518f186f1df56d19af1e59f90887c6372f13c03dec276379758b3a52c4eaf3a7aa763a72dfbb2af3e80cec866334682831ad97 Homepage: https://cran.r-project.org/package=wikifacts Description: CRAN Package 'wikifacts' (Get Facts and Data from Wikipedia and Wikidata) Query Wikidata and get facts from current and historic Wikipedia main pages. 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Package: r-cran-wikipediar Architecture: all Version: 1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 132 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-xml, r-cran-httr Filename: pool/dists/focal/main/r-cran-wikipediar_1.1-1.ca2004.1_all.deb Size: 103992 MD5sum: c479bfd2232b16103a2babdf47e5a546 SHA1: 095b1c0d49c4891f374c2aada2779898021ad2fc SHA256: a95aceca5da30fbe3e90dd0e7a59e13a973feb7d54de99329cc2fabee60d8c40 SHA512: 4b087f819411b8207fb0fee565e246e737c7e6369e6f166ecb7fb7de99d3878cbfcd632ccf3710c4e4c4d672412d2f16dc22f10b632d290c29561d2d8c1ced5c Homepage: https://cran.r-project.org/package=WikipediaR Description: CRAN Package 'WikipediaR' (R-Based Wikipedia Client) Provides an interface to the Wikipedia web application programming interface (API), using internet connexion.Three functions provide details for a specific Wikipedia page : all links that are present, all pages that link to, all the contributions (revisions for main pages, and discussions for talk pages). 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This package provides tools for calculating a suite of indices used for quantifying dynamic interaction with wildlife telemetry data. For more information on each of the methods employed see the references within. The package (as of version >= 0.3) also has new tools for automating contact analysis in large tracking datasets. The package (as of version 1.0) uses the 'move2' class of objects for working with tracking dataset. 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It offers two core components: 1. A robust data retrieval and preparation infrastructure for wildfire, climate, and air quality index data and 2. A simple, informative, and interactive visualizations of the aforementioned datasets for California counties from 2011 through 2015. The sources of data are: wildfire data from Kaggle , climate data from the National Oceanic and Atmospheric Administration , and air quality data from the Environmental Protection Agency . 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This package utilizes the 'shiny' and 'plotly' frameworks to provide a user friendly dashboard for interactive plotting. Package: r-cran-windac Architecture: all Version: 1.2.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 238 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-sf, r-cran-mvtnorm Filename: pool/dists/focal/main/r-cran-windac_1.2.10-1.ca2004.1_all.deb Size: 201360 MD5sum: 5812fa333c6768c27b358df5c3481730 SHA1: 5dbb3fc7e77a8241ccc6fc2b29f1752cb47d93ff SHA256: 2665ceae7d6de9202575d6854b5673aa08b59c8b3818f177be675028df344ac5 SHA512: a101ef0da894897aecdc87c5325b15886799e7435e50a7fa179b79dd6d7bcfde3b8de24eb400a1467e864d8ddd8ceae389e7e2fa27d56d5518ddc41f34f259e3 Homepage: https://cran.r-project.org/package=windAC Description: CRAN Package 'windAC' (Area Correction Methods) Post-construction fatality monitoring studies at wind facilities are based on data from searches for bird and bat carcasses in plots beneath turbines. 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(2023) . Package: r-cran-winr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 126 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rdpack, r-cran-tidyr, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-winr_1.0.0-1.ca2004.1_all.deb Size: 89508 MD5sum: 6dc52b8a5848221cbbd141a5fcc43be0 SHA1: 979b1161c990b09958dac1dce649647fdddcbda6 SHA256: 08b0b6f420fbe6b005b2a57b60c9bb64b9dd3262fc96ffb9b4cc8b4130474b37 SHA512: 94d95f98aa5fbd831b85666c63cd583abb3066794549cc4eff88da2804de5432ebcd6b0a97c8ed102e949d2e0717c1483e4283d3df1037f2ef82bc3f208bf059 Homepage: https://cran.r-project.org/package=winr Description: CRAN Package 'winr' (Randomization-Based Covariance Adjustment of Win Statistics) A multi-visit clinical trial may collect participant responses on an ordinal scale and may utilize a stratified design, such as randomization within centers, to assess treatment efficacy across multiple visits. Baseline characteristics may be strongly associated with the outcome, and adjustment for them can improve power. The win ratio (ignores ties) and the win odds (accounts for ties) can be useful when analyzing these types of data from randomized controlled trials. This package provides straightforward functions for adjustment of the win ratio and win odds for stratification and baseline covariates, facilitating the comparison of test and control treatments in multi-visit clinical trials. For additional information concerning the methodologies and applied examples within this package, please refer to the following publications: 1. Weideman, A.M.K., Kowalewski, E.K., & Koch, G.G. (2024). “Randomization-based covariance adjustment of win ratios and win odds for randomized multi-visit studies with ordinal outcomes.” Journal of Statistical Research, 58(1), 33–48. . 2. Kowalewski, E.K., Weideman, A.M.K., & Koch, G.G. (2023). “SAS macro for randomization-based methods for covariance and stratified adjustment of win ratios and win odds for ordinal outcomes.” SESUG 2023 Proceedings, Paper 139-2023. 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Package: r-cran-wins Architecture: all Version: 1.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 504 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-copula, r-cran-ggplot2, r-cran-ggpubr, r-cran-reshape2, r-cran-survival, r-cran-stringr, r-cran-viridis Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-wins_1.5-1.ca2004.1_all.deb Size: 442584 MD5sum: 58764b3459da597768ce38b7e8dd2d5f SHA1: 11071a65326d3e50b3275c9815d4ffd453d0cd0e SHA256: b90d27c06143a698ed560a7047a11373e50cdba7555770973b7478e03b4303a6 SHA512: c637c600a960f86c895052e5fab090d7adcae945ed0400b0b74d8a5c2a5f4deab18314382890b4761321a04fc7b7fe223706323011f2b89f1140c5dbdeed7b57 Homepage: https://cran.r-project.org/package=WINS Description: CRAN Package 'WINS' (The R WINS Package) Calculate the win statistics (win ratio, net benefit and win odds) for prioritized multiple endpoints, plot the win statistics and win proportions over study time if at least one time-to-event endpoint is analyzed, and simulate datasets with dependent endpoints. The package can handle any type of outcomes (continuous, ordinal, binary, time-to-event) and allow users to perform stratified analysis, inverse probability of censoring weighting (IPCW) and inverse probability of treatment weighting (IPTW) analysis. 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These methods are used to calculate and compare treatment effects on ordered composite endpoints. The package handles event times, event indicators, and treatment arm indicators and supports calculations on observed and resampled data. Detailed explanations of each method and usage examples are provided in "Use of win time for ordered composite endpoints in clinical trials," by Troendle et al. (2024). For more information, see the package documentation or the vignette titled "Introduction to wintime." 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Acknowledgements: The author wish to thank Ministerio de Ciencia, Innovación y Universidades (grant PID2021-128228NB-I00) and Fundación Mapfre (grant 'Modelización espacial e intra-anual de la mortalidad en España. Una herramienta automática para el cálculo de productos de vida') for supporting this research. 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(2011) . Hyoung-Moon Kim. and Yu-Hyeong Jang. (2021) . Wang, M., Wang, W. (2017) . 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Simulation data for Norway spruce sawn timber from Austria and reference values of means and standard deviations of grade determining properties from literature for a number of European countries are provided, as well. 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The functions include estimations for the consequences of disturbances on revenues and costs. The underlying assortment tables are taken from Offer and Staupendahl (2018) with corresponding functions for salable and skidded volume derived in Fuchs et al. (2023). Wood revenue and harvest cost functions were taken from v. Bodelschwingh (2018). The consequences of disturbances refer to Dieter (2001), Moellmann and Moehring (2017), and Fuchs et al. (2022a, 2022b). For the full references see documentation of the functions, package README, and Fuchs et al. (2023). Apart from Dieter (2001) and Moellmann and Moehring (2017), all functions and factors are based on data from HessenForst, the forest administration of the Federal State of Hesse in Germany. 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If all letters are revealed before your guesses run out, you win this game; otherwise you fail. You may run multiple games to guess different words. Package: r-cran-wordr Architecture: all Version: 0.3.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 527 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-officer, r-cran-flextable, r-cran-xml2 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2, r-cran-testthat Filename: pool/dists/focal/main/r-cran-wordr_0.3.6-1.ca2004.1_all.deb Size: 301400 MD5sum: cbf2bcc3660b5f5df55d986292811c67 SHA1: 69a092802c158a70fa232f0e7f888179ed3fbf2a SHA256: 8996d449527abbf2843708dcbbf99192a652a4201893fbbf4aa51715b03d7132 SHA512: 7cba5b1b9cfa411b465af94d9d037aff80b30dabf2beb19b3b5db555024d9ed5d53b0dd76627f5ea114695dd36a73dce54f2e7142bf36432488c1868917178e7 Homepage: https://cran.r-project.org/package=WordR Description: CRAN Package 'WordR' (Rendering Word Documents with R Inline Code) Serves for rendering MS Word documents with R inline code and inserting tables and plots. Package: r-cran-words Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 680 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-words_1.0.1-1.ca2004.1_all.deb Size: 656852 MD5sum: 1d871c455972370933a24b91b32f78e8 SHA1: e104de10a18b9a411d2d48f11606b518dafc8fc2 SHA256: 9f1dad1499cad6937b9bd0aac9ee81f390578cf520e3ab8ac1030a2beaedf112 SHA512: ea2544fce7837a8e06d2d31a342b0a431f6844e02c36f438a0957308e3c60773935e3a47abfb91f6bc7b33277eea032243a2819b32daebf353cc206890481796 Homepage: https://cran.r-project.org/package=words Description: CRAN Package 'words' (List of English Words from the Scrabble Dictionary) List of english scrabble words as listed in the OTCWL2014 . Words are collated from the 'Word Game Dictionary' . 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Package: r-cran-workboots Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 442 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-assertthat, r-cran-dplyr, r-cran-generics, r-cran-lifecycle, r-cran-metrics, r-cran-purrr, r-cran-rlang, r-cran-rsample, r-cran-tibble, r-cran-tidyr, r-cran-vip, r-cran-workflows Suggests: r-cran-forcats, r-cran-ggplot2, r-cran-knitr, r-cran-readr, r-cran-recipes, r-cran-rmarkdown, r-cran-scales, r-cran-testthat, r-cran-tidymodels, r-cran-tune, r-cran-xgboost Filename: pool/dists/focal/main/r-cran-workboots_0.2.0-1.ca2004.1_all.deb Size: 251444 MD5sum: 3a5aa59c8e5aede01548b8714ee52c2c SHA1: 7df2f61158afdc547d3604764c922e506d1c4c54 SHA256: 0831815160e2a90225107dc494960f165a665267690f18c458ab7ba1136bf57e SHA512: 14274e7cdebf8773394bea512e4ab20abf8f1b3719cd8cf5425113ba3fb3b21cd4d87398c80ac8a0478b3c55c76f0c34c383c918891272b00472c5d81cf650a7 Homepage: https://cran.r-project.org/package=workboots Description: CRAN Package 'workboots' (Generate Bootstrap Prediction Intervals from a 'tidymodels'Workflow) Provides functions for generating bootstrap prediction intervals from a 'tidymodels' workflow. 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Package: r-cran-workflowsets Architecture: all Version: 1.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3219 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-cli, r-cran-dplyr, r-cran-generics, r-cran-ggplot2, r-cran-hardhat, r-cran-lifecycle, r-cran-parsnip, r-cran-pillar, r-cran-prettyunits, r-cran-purrr, r-cran-rlang, r-cran-rsample, r-cran-tibble, r-cran-tidyr, r-cran-tune, r-cran-vctrs, r-cran-withr, r-cran-workflows Suggests: r-cran-covr, r-cran-dials, r-cran-finetune, r-cran-kknn, r-cran-knitr, r-cran-modeldata, r-cran-recipes, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-tidyclust, r-cran-yardstick Filename: pool/dists/focal/main/r-cran-workflowsets_1.1.1-1.ca2004.1_all.deb Size: 2043736 MD5sum: 2d747e90e3b4445234e9adc84a0e5806 SHA1: 5ff6f3e70a20b3af34b42ab60a299bdcc45c6268 SHA256: 7faf529316768b6790f22c6e11ae3132995b980af9db6a7a04fb82e492dc9431 SHA512: f11142476935552e66f8808d87775a3053ef0ec6cdb687ad00fa6c5cbe281238485375bef4f5415e9d9dccab99011d20291d51404c63189f59a8fc826f2920ad Homepage: https://cran.r-project.org/package=workflowsets Description: CRAN Package 'workflowsets' (Create a Collection of 'tidymodels' Workflows) A workflow is a combination of a model and preprocessors (e.g, a formula, recipe, etc.) (Kuhn and Silge (2021) ). 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Package: r-cran-workloopr Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3794 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-pracma, r-cran-signal Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-dplyr, r-cran-ggplot2, r-cran-magrittr, r-cran-purrr, r-cran-tidyr Filename: pool/dists/focal/main/r-cran-workloopr_1.1.4-1.ca2004.1_all.deb Size: 733252 MD5sum: 04bde6a13e7aaa0a37e9a1a929454ae7 SHA1: 4946758a04e1b5352b4dfc35d0b298545cf7d3d2 SHA256: 6ef9b697f5f700da1ca84ec8ed29d88084a4d75a4d95ea3f59ff9f9acc3b5baa SHA512: 1f7ae45d2bf13917ab99562030eccd07f452dac1028964ab70269fc83e88a24e714059e03aca2d1dc447787cdaf5c5dfb07c0726cdb2d4fa7c7b044601eaf7af Homepage: https://cran.r-project.org/package=workloopR Description: CRAN Package 'workloopR' (Analysis of Work Loops and Other Data from Muscle PhysiologyExperiments) Functions for the import, transformation, and analysis of data from muscle physiology experiments. The work loop technique is used to evaluate the mechanical work and power output of muscle. Josephson (1985) modernized the technique for application in comparative biomechanics. Although our initial motivation was to provide functions to analyze work loop experiment data, as we developed the package we incorporated the ability to analyze data from experiments that are often complementary to work loops. There are currently three supported experiment types: work loops, simple twitches, and tetanus trials. Data can be imported directly from .ddf files or via an object constructor function. Through either method, data can then be cleaned or transformed via methods typically used in studies of muscle physiology. Data can then be analyzed to determine the timing and magnitude of force development and relaxation (for isometric trials) or the magnitude of work, net power, and instantaneous power among other things (for work loops). Although we do not provide plotting functions, all resultant objects are designed to be friendly to visualization via either base-R plotting or 'tidyverse' functions. This package has been peer-reviewed by rOpenSci (v. 1.1.0). Package: r-cran-worldbank Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 300 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-httr2 Suggests: r-cran-ggplot2, r-cran-scales, r-cran-testthat Filename: pool/dists/focal/main/r-cran-worldbank_0.6.0-1.ca2004.1_all.deb Size: 225680 MD5sum: 9bc89980b2f6894a0db34e057c979007 SHA1: 553ec2c3c957c17816e4d4f1eaccc9ec08ac95bd SHA256: cdd117af88204c1e1489d69b3e54b509b209184a0a676ce0425a3c0b5c8e30ed SHA512: 7ed611d5de34ff4c2ced15534f831ace7a94ef5e41ad1324ebbfd29fd5a431d33c8f9b81191bf050a07c48392c49dd344b37eb96cdc99eee298646135705753b Homepage: https://cran.r-project.org/package=worldbank Description: CRAN Package 'worldbank' (Client for World Banks's 'Indicators' and 'Poverty andInequality Platform (PIP)' APIs) Download and search data from the 'World Bank Indicators API', which provides access to nearly 16,000 time series indicators. See for further details about the API. 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Package: r-cran-worldfootballr Architecture: all Version: 0.6.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 662 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-dplyr, r-cran-glue, r-cran-httr, r-cran-janitor, r-cran-jsonlite, r-cran-lubridate, r-cran-magrittr, r-cran-progress, r-cran-purrr, r-cran-qdapregex, r-cran-readr, r-cran-rlang, r-cran-rstudioapi, r-cran-rvest, r-cran-stringi, r-cran-stringr, r-cran-tidyr, r-cran-tidyselect, r-cran-withr, r-cran-xml2, r-cran-tibble, r-cran-cli, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-worldfootballr_0.6.2-1.ca2004.1_all.deb Size: 598080 MD5sum: 7117f6a9f3af274c2d27194a732ac7be SHA1: b25076609767430572640a1f3fa96ef3fc4b35f2 SHA256: 38a93eecc87e036a382a9130bdf2acd4db7c384f83d7cd70f73e50e43fc9364d SHA512: c24f86accfbb06635ad553f7b50455027a6536d284531c7a2e56fe66b40166ac9af14310d6fb31ee4fbb0dcba240eedcb6eab88dc91ad56a934dda582d1d77d8 Homepage: https://cran.r-project.org/package=worldfootballR Description: CRAN Package 'worldfootballR' (Extract and Clean World Football (Soccer) Data) Allow users to obtain clean and tidy football (soccer) game, team and player data. 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Package: r-cran-worldmapr Architecture: all Version: 1.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1930 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-ggplot2, r-cran-dplyr, r-cran-sf, r-cran-countrycode, r-cran-ggfx Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-worldmapr_1.2.0-1.ca2004.1_all.deb Size: 1589668 MD5sum: c67b995ac6fb4ef3698e2b971bbd2fc6 SHA1: 696e3c6d6f35d413a29e2b81ed9a9d279e3d6618 SHA256: 5c01b3e7228eab8b877d31d214ba7cd91944a575702b510ea635c712abc210a6 SHA512: 15c60d1d46793cc047e6841d746a45719c66ee94f9bc5f25c4c16189427992109b6b39c1eb4ff8ca6db04b105c7f2fe4efc18c07add1cfa9a09bea3156365c78 Homepage: https://cran.r-project.org/package=WorldMapR Description: CRAN Package 'WorldMapR' (Worldwide or Coordinates-Based Heat Maps) Easily plot heat maps of the world, based on continuous or categorical data. Country labels can also be added to the map. Package: r-cran-worldmet Architecture: all Version: 0.9.9-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 259 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-doparallel, r-cran-dplyr, r-cran-foreach, r-cran-leaflet, r-cran-magrittr, r-cran-openair, r-cran-purrr, r-cran-readr, r-cran-tibble, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-worldmet_0.9.9-1.ca2004.1_all.deb Size: 225096 MD5sum: 9acef927509c34d36550751af43f7ed2 SHA1: faae98732763aaf2d516ffcea4241d6ab23215ed SHA256: fd00d2b5f7d42307df930e620a56a7d431c3949a6c97a885e440f5dd50a0c77b SHA512: 232708837fd90e51f674a176742e62f8d257b7478e2ce7a00a7a5d9c0ebf6df47bfa9f9b7399bcbfe5b82fc402d18aa298fa3e2ee63f8af5f773e133c806454c Homepage: https://cran.r-project.org/package=worldmet Description: CRAN Package 'worldmet' (Import Surface Meteorological Data from NOAA Integrated SurfaceDatabase (ISD)) Functions to import data from more than 30,000 surface meteorological sites around the world managed by the National Oceanic and Atmospheric Administration (NOAA) Integrated Surface Database (ISD, see ). Package: r-cran-worldriskpollr Architecture: all Version: 0.7.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.2.2), r-api-4.0, r-cran-magrittr, r-cran-dplyr, r-cran-tidyr, r-cran-labelled, r-cran-sjlabelled, r-cran-janitor, r-cran-rlang, r-cran-httr, r-cran-curl Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-worldriskpollr_0.7.4-1.ca2004.1_all.deb Size: 33916 MD5sum: ae216aaa976573d386d3e62c99b810ab SHA1: 89bb7b6b03a3a10cf7a10fb5b63da87028440beb SHA256: 257ddae9076fade50456e08ff1b1ab63ac2acb6982c56d6000c6336eb957c617 SHA512: 2f4922fb4420af149b9d00b5c3cd64147c5561d11681f957ed144219a61fb821d89982f2006a458c7c15b6772024ef1642c1e91a6791908da635face27a0ae72 Homepage: https://cran.r-project.org/package=worldriskpollr Description: CRAN Package 'worldriskpollr' (Aggregated Survey Data from the World Risk Poll) Provides users with programmatic access to aggregated survey data from the World Risk Poll, conveniently packaged for consumption by R users. It downloads formatted data from the Lloyd's Register Foundation World Risk Poll individual survey responses. It then processes this data and provides weighting functions for users to select questions of interest and aggregate to national levels, by gender, age, income, education urban/rural and household composition. The method of aggregation can be found at . More information about the World Risk Poll Survey can be found here . 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Wavelet quantile correlation is used to capture the dependency between two time series across quantiles and different frequencies. This method is useful in identifying potential hedges and safe-haven instruments for investment purposes. See Kumar and Padakandla(2022) for further details. 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Weighted quantile sum regression is a statistical technique to evaluate the effect of complex exposure mixtures on an outcome (Carrico et al. 2015 ). The model features a statistical power and Type I error (i.e., false positive) rate trade-off, as there is a machine learning step to determine the weights that optimize the linear model fit. This package provides an alternative method based on a permutation test that should reliably allow for both high power and low false positive rate when utilizing WQS regression (Day et al. 2022 ). 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The function status() counts rows that have missing values in grouping columns (returned by na() ), have non-unique combinations of grouping columns (returned by dup() ), and that are not locally sorted (returned by unsorted() ). Functions enumerate() and itemize() give sorted unique combinations of columns, with or without occurrence counts, respectively. Function ignore() drops columns in x that are present in y, and informative() drops columns in x that are entirely NA; constant() returns values that are constant, given a key. Data that have defined unique combinations of grouping values behave more predictably during merge operations. 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Package: r-cran-wrgraph Architecture: all Version: 1.3.10-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1678 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-lattice, r-cran-rcolorbrewer, r-cran-wrmisc Suggests: r-cran-dplyr, r-cran-factoextra, r-cran-factominer, r-cran-ggpubr, r-cran-knitr, r-bioc-limma, r-cran-rmarkdown, r-cran-sm Filename: pool/dists/focal/main/r-cran-wrgraph_1.3.10-1.ca2004.1_all.deb Size: 1233720 MD5sum: 4441903da1515bc96030d1555ee9d533 SHA1: b398af901889161fdcf4ff12a61758046b41687e SHA256: 0f4fc5d416e93b9ab231095d8821a4ad0e821e024fea61ad8acc8a9f7544c797 SHA512: 3fa4435248d333828769763b4ce7f81da3c640a1ddc7c4b7e509755c2a2eec46651accbc80ca80186dad5c5dedfb7c711502224d0a13d5f1eaf6f7ac24cb5455 Homepage: https://cran.r-project.org/package=wrGraph Description: CRAN Package 'wrGraph' (Graphics in the Context of Analyzing High-Throughput Data) Additional options for making graphics in the context of analyzing high-throughput data are available here. This includes automatic segmenting of the current device (eg window) to accommodate multiple new plots, automatic checking for optimal location of legends in plots, small histograms to insert as legends, histograms re-transforming axis labels to linear when plotting log2-transformed data, a violin-plot function for a wide variety of input-formats, principal components analysis (PCA) with bag-plots to highlight and compare the center areas for groups of samples, generic MA-plots (differential- versus average-value plots) , staggered count plots and generation of mouse-over interactive html pages. Package: r-cran-wrightmap Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 600 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-rcolorbrewer Filename: pool/dists/focal/main/r-cran-wrightmap_1.4-1.ca2004.1_all.deb Size: 232936 MD5sum: 7b51a0a7b4ff50133e62242424e05f00 SHA1: e4c993314abb5c624391498a1e44a81b65a6822d SHA256: 2bebe5ebc42f46a51af897a09e042fe2464a2c6f024342adcc13af7e863f324c SHA512: 7687dc40416c6a128afd31d703938b7f5990d60fdca2a1c35292313bfad22079d2b32911d316f8ac30fdf0973961e8a5da8b8255fcb98b0a78aa6455c56f36bb Homepage: https://cran.r-project.org/package=WrightMap Description: CRAN Package 'WrightMap' (IRT Item-Person Map with 'ConQuest' Integration) A powerful yet simple graphical tool available in the field of psychometrics is the Wright Map (also known as item maps or item-person maps), which presents the location of both respondents and items on the same scale. Wright Maps are commonly used to present the results of dichotomous or polytomous item response models. The 'WrightMap' package provides functions to create these plots from item parameters and person estimates stored as R objects. Although the package can be used in conjunction with any software used to estimate the IRT model (e.g. 'TAM', 'mirt', 'eRm' or 'IRToys' in 'R', or 'Stata', 'Mplus', etc.), 'WrightMap' features special integration with 'ConQuest' to facilitate reading and plotting its output directly.The 'wrightMap' function creates Wright Maps based on person estimates and item parameters produced by an item response analysis. The 'CQmodel' function reads output files created using 'ConQuest' software and creates a set of data frames for easy data manipulation, bundled in a 'CQmodel' object. The 'wrightMap' function can take a 'CQmodel' object as input or it can be used to create Wright Maps directly from data frames of person and item parameters. Package: r-cran-write.snns Architecture: all Version: 0.0-4.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 42 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-write.snns_0.0-4.2-1.ca2004.1_all.deb Size: 11288 MD5sum: f85e6e16bc48dbbeb6da0818f7e8fbd6 SHA1: 53ab9496e28e82dcdd54ae867ccaece7d8a8eb30 SHA256: a39166b67105fb7b3595a51ae51364b15b78b21ff37e56d3dd9d4ec8ea52c187 SHA512: b3f63a5c02a1020366f8fed4aaed29ab1739b96f254c2ef91f92d02901e6ac0bd22ac815f7696d32c446e02179e7f796d1599847a52920e1072428f191e11cb1 Homepage: https://cran.r-project.org/package=write.snns Description: CRAN Package 'write.snns' (Function for exporting data to SNNS pattern files) Function for writing a SNNS pattern file from a data.frame or matrix. Package: r-cran-writer Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 403 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dbi, r-cran-dplyr, r-cran-dbplyr, r-cran-glue, r-cran-cli, r-cran-rlang Suggests: r-cran-rsqlite, r-cran-testthat Filename: pool/dists/focal/main/r-cran-writer_0.1.0-1.ca2004.1_all.deb Size: 344780 MD5sum: 68539ed0d13ecb3acd9a7715968fb35e SHA1: c6d4cb3b88a6ff77d3f8a56caea841bcd22be5dc SHA256: ea4713944126d83ea5ca777100d368b076e6cbc7f51253427bfc5991e7f30a8d SHA512: 2af44857860b33ecdbb55db48a6c250caa9f7cad7fbcd4bc3415e076674bb5bedba10cb1ea2ede5e709b604d5ea1defa863679a19d1e12727bce1ba650c96825 Homepage: https://cran.r-project.org/package=writer Description: CRAN Package 'writer' (Write from Multiple Sources to a Database Table) Provides unified syntax to write data from lazy 'dplyr' 'tbl' or 'dplyr' 'sql' query or a dataframe to a database table with modes such as create, append, insert, update, upsert, patch, delete, overwrite, overwrite_schema. Package: r-cran-writexls Architecture: all Version: 6.8.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3821 Depends: r-base-core (>= 4.5.0), r-api-4.0 Filename: pool/dists/focal/main/r-cran-writexls_6.8.0-1.ca2004.1_all.deb Size: 554320 MD5sum: 2a01c45c1e1539c844d649e9a21324b7 SHA1: 795d87f7338833f6f79027dd8ecafa93a819c045 SHA256: 0d1d145e69f1c3c75bec7db7f5ee5da224dcce360a75176f9773b01311aa2926 SHA512: 150c58d2c9cf81ca0a4efd2d79ca9e0d2f8fa34cc935be77c0b166fc50dad51205cb338837ea016bc3b4bf3e06edd103aa85ec2ca80e1e68a45ff3e02f80646a Homepage: https://cran.r-project.org/package=WriteXLS Description: CRAN Package 'WriteXLS' (Cross-Platform Perl Based R Function to Create Excel 2003 (XLS)and Excel 2007 (XLSX) Files) Cross-platform Perl based R function to create Excel 2003 (XLS) and Excel 2007 (XLSX) files from one or more data frames. Each data frame will be written to a separate named worksheet in the Excel spreadsheet. The worksheet name will be the name of the data frame it contains or can be specified by the user. Package: r-cran-wrmisc Architecture: all Version: 1.15.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2411 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass Suggests: r-cran-bbmisc, r-cran-boot, r-cran-coin, r-cran-data.table, r-cran-data.tree, r-cran-fdrtool, r-cran-flexclust, r-cran-knitr, r-bioc-limma, r-cran-markdown, r-cran-mixdist, r-cran-nbclust, r-bioc-preprocesscore, r-bioc-qvalue, r-cran-rcpp, r-cran-rcolorbrewer, r-cran-readxl, r-cran-rmarkdown, r-cran-som, r-cran-stringi, r-cran-vgam, r-bioc-vsn, r-cran-wrgraph Filename: pool/dists/focal/main/r-cran-wrmisc_1.15.4-1.ca2004.1_all.deb Size: 1871032 MD5sum: bd6275bc32aef837d6e920e011a3569e SHA1: 8066d1bbe398ffa76335f0a64b9541b41785552c SHA256: 30e389ca83486879a7196e3f578449bbc7f65bb44b278ff3264f154bf3e6aa91 SHA512: 7c9a71c1fdd73904eb671fbedf9a159e4cfa440f6b27d1c77e74b1faad0146ecca5922de10bf0ac78d1e4cb609038edfc3cecb9df132f5f29a3dfdfa58a4c1a1 Homepage: https://cran.r-project.org/package=wrMisc Description: CRAN Package 'wrMisc' (Analyze Experimental High-Throughput (Omics) Data) The efficient treatment and convenient analysis of experimental high-throughput (omics) data gets facilitated through this collection of diverse functions. Several functions address advanced object-conversions, like manipulating lists of lists or lists of arrays, reorganizing lists to arrays or into separate vectors, merging of multiple entries, etc. Another set of functions provides speed-optimized calculation of standard deviation (sd), coefficient of variance (CV) or standard error of the mean (SEM) for data in matrixes or means per line with respect to additional grouping (eg n groups of replicates). A group of functions facilitate dealing with non-redundant information, by indexing unique, adding counters to redundant or eliminating lines with respect redundancy in a given reference-column, etc. Help is provided to identify very closely matching numeric values to generate (partial) distance matrixes for very big data in a memory efficient manner or to reduce the complexity of large data-sets by combining very close values. Other functions help aligning a matrix or data.frame to a reference using partial matching or to mine an experimental setup to extract patterns of replicate samples. Many times large experimental datasets need some additional filtering, adequate functions are provided. Convenient data normalization is supported in various different modes, parameter estimation via permutations or boot-strap as well as flexible testing of multiple pair-wise combinations using the framework of 'limma' is provided, too. Batch reading (or writing) of sets of files and combining data to arrays is supported, too. Package: r-cran-wrproteo Architecture: all Version: 1.13.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 7060 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-knitr, r-bioc-limma, r-cran-wrmisc Suggests: r-cran-data.table, r-cran-fdrtool, r-cran-kableextra, r-cran-mass, r-cran-rcolorbrewer, r-cran-readxl, r-bioc-rots, r-cran-rmarkdown, r-cran-r.utils, r-cran-sm, r-cran-wrgraph Filename: pool/dists/focal/main/r-cran-wrproteo_1.13.1-1.ca2004.1_all.deb Size: 5179004 MD5sum: ccdcd488b05f1a8f46ed61b27d633328 SHA1: 9f2ef6d78f5616f2dd3acf99621f178623ff65c6 SHA256: 386fbdd2e414a04a00a3adcc588d7919ea56604df8b7af0b63cd43e8dc2483b1 SHA512: 0687ebc73dac4b88be5fb445a48f51015da7b04f147f589975a3e13aef4f3738d022a25413f4feb6dd4a14cdf006ca23639157eca6374b7521387f769776e1d3 Homepage: https://cran.r-project.org/package=wrProteo Description: CRAN Package 'wrProteo' (Proteomics Data Analysis Functions) Data analysis of proteomics experiments by mass spectrometry is supported by this collection of functions mostly dedicated to the analysis of (bottom-up) quantitative (XIC) data. Fasta-formatted proteomes (eg from UniProt Consortium ) can be read with automatic parsing and multiple annotation types (like species origin, abbreviated gene names, etc) extracted. Initial results from multiple software for protein (and peptide) quantitation can be imported (to a common format): MaxQuant (Tyanova et al 2016 ), Dia-NN (Demichev et al 2020 ), Fragpipe (da Veiga et al 2020 ), ionbot (Degroeve et al 2021 ), MassChroq (Valot et al 2011 ), OpenMS (Strauss et al 2021 ), ProteomeDiscoverer (Orsburn 2021 ), Proline (Bouyssie et al 2020 ), AlphaPept (preprint Strauss et al ) and Wombat-P (Bouyssie et al 2023 . Meta-data provided by initial analysis software and/or in sdrf format can be integrated to the analysis. Quantitative proteomics measurements frequently contain multiple NA values, due to physical absence of given peptides in some samples, limitations in sensitivity or other reasons. Help is provided to inspect the data graphically to investigate the nature of NA-values via their respective replicate measurements and to help/confirm the choice of NA-replacement algorithms. Meta-data in sdrf-format (Perez-Riverol et al 2020 ) or similar tabular formats can be imported and included. Missing values can be inspected and imputed based on the concept of NA-neighbours or other methods. Dedicated filtering and statistical testing using the framework of package 'limma' can be run, enhanced by multiple rounds of NA-replacements to provide robustness towards rare stochastic events. Multi-species samples, as frequently used in benchmark-tests (eg Navarro et al 2016 , Ramus et al 2016 ), can be run with special options considering such sub-groups during normalization and testing. Subsequently, ROC curves (Hand and Till 2001 ) can be constructed to compare multiple analysis approaches. As detailed example the data-set from Ramus et al 2016 ) quantified by MaxQuant, ProteomeDiscoverer, and Proline is provided with a detailed analysis of heterologous spike-in proteins. Package: r-cran-wrs2 Architecture: all Version: 1.1-7-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1072 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-mass, r-cran-reshape, r-cran-plyr Suggests: r-cran-knitr, r-cran-car, r-cran-ggplot2, r-cran-colorspace, r-cran-mediation, r-cran-ggally, r-cran-codetools Filename: pool/dists/focal/main/r-cran-wrs2_1.1-7-1.ca2004.1_all.deb Size: 958856 MD5sum: 3e903b07881eb4207238570d6f606eb1 SHA1: 618f35ae896b2f4a5f63ad44ad5299b56a0ec09f SHA256: d2c5c8fe56e3d597b4c9f32aee73f48495fd5a066f2f61596b42b8c75cf6b5dc SHA512: 3afa56dcf6093878341ac33b366133991cbe902427fa7379996ace3dfaff6bf9a52591744de44e1bcddbfe0f9de2d3a04b8c1900f186a3ea94d30b8cbc459a8f Homepage: https://cran.r-project.org/package=WRS2 Description: CRAN Package 'WRS2' (A Collection of Robust Statistical Methods) A collection of robust statistical methods based on Wilcox' WRS functions. It implements robust t-tests (independent and dependent samples), robust ANOVA (including between-within subject designs), quantile ANOVA, robust correlation, robust mediation, and nonparametric ANCOVA models based on robust location measures. Package: r-cran-wrss Architecture: all Version: 3.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2287 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-hmisc, r-cran-nloptr, r-cran-ggplot2, r-cran-ggally, r-cran-network Filename: pool/dists/focal/main/r-cran-wrss_3.1-1.ca2004.1_all.deb Size: 2088104 MD5sum: 2458a5d68cd89f124659e36aeecd043b SHA1: 54cf9c9dbafab24a6accf4e04aaef79cbda653e9 SHA256: d5657fe4d8e03336c043c9fbdaec63b9047e3af742a8da9da448d2dec245854b SHA512: 7f071512d034891ead36a99a228510bf63ff5cb42824c9a02a982bbdd9f5e2c0b5d088e9116ff390f52bd42356d83b04eec1db04fdea5847c19f128cc9d3704f Homepage: https://cran.r-project.org/package=WRSS Description: CRAN Package 'WRSS' (Water Resources System Simulator) Water resources system simulator is a tool for simulation and analysis of large-scale water resources systems. 'WRSS' proposes functions and methods for construction, simulation and analysis of primary storage and hydropower water resources features (e.g. reservoirs, aquifers, and etc.) based on Standard Operating Policy (SOP). Package: r-cran-wrtdstidal Architecture: all Version: 1.1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 5433 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-ggplot2, r-cran-caret, r-cran-dplyr, r-cran-fields, r-cran-foreach, r-cran-forecast, r-cran-gridextra, r-cran-lubridate, r-cran-purrr, r-cran-quantreg, r-cran-rcolorbrewer, r-cran-survival, r-cran-tidyr Suggests: r-cran-doparallel, r-cran-egret, r-cran-magrittr, r-cran-plotly, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-wrtdstidal_1.1.4-1.ca2004.1_all.deb Size: 2272044 MD5sum: cbcbd316e4bf9dd5ea86201a28048450 SHA1: 0a4bdd7c7a2ca631185cbacf0603bb55120c6912 SHA256: e1c0621148c10d4680c6b4183714af3b901211a65a559d779379239e3bf515f6 SHA512: 37c9d254e318849dbf190524258ab1668044c6d601bd2d921032a7461b57a2a87155149dd57e88ecd392efa731acf7ffc55f64ea3fa1da8fd1d0e627d3415f71 Homepage: https://cran.r-project.org/package=WRTDStidal Description: CRAN Package 'WRTDStidal' (Weighted Regression for Water Quality Evaluation in Tidal Waters) An adaptation for estuaries (tidal waters) of weighted regression on time, discharge, and season to evaluate trends in water quality time series. Please see Beck and Hagy (2015) for details. Package: r-cran-wrtopdownfrag Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 522 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-wrmisc, r-cran-wrproteo Suggests: r-bioc-biocparallel, r-cran-knitr, r-bioc-preprocesscore, r-cran-rcolorbrewer, r-cran-rmarkdown, r-cran-wrgraph Filename: pool/dists/focal/main/r-cran-wrtopdownfrag_1.0.4-1.ca2004.1_all.deb Size: 405580 MD5sum: de320b13a1c890fb6ad6f1f68c0618dc SHA1: 2627d6d9ab597663ced37ebdcbc99b445ca98c94 SHA256: 6970a29f03446ce37451ebb991f44a6d3a44d539d9c674873f50cb62e096d168 SHA512: 052d1b9a625f94cdd04d89ab121ffda99de0da23803f06a029938887c7643e014df7a4245ac03282181c312265eeac2c70606c066b835a08e196580d0893d8f4 Homepage: https://cran.r-project.org/package=wrTopDownFrag Description: CRAN Package 'wrTopDownFrag' (Internal Fragment Identification from Top-Down Mass Spectrometry) Top-Down mass spectrometry aims to identify entire proteins as well as their (post-translational) modifications or ions bound (eg Chen et al (2018) ). The pattern of internal fragments (Haverland et al (2017) ) may reveal important information about the original structure of the proteins studied (Skinner et al (2018) and Li et al (2018) ). However, the number of possible internal fragments gets huge with longer proteins and subsequent identification of internal fragments remains challenging, in particular since the the accuracy of measurements with current mass spectrometers represents a limiting factor. This package attempts to deal with the complexity of internal fragments and allows identification of terminal and internal fragments from deconvoluted mass-spectrometry data. Package: r-cran-wsjplot Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 317 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-magrittr, r-cran-stringr, r-cran-scales, r-cran-dplyr Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-wsjplot_0.1.0-1.ca2004.1_all.deb Size: 250984 MD5sum: 7f2cd986e1bbb0c59fe461123988e0fe SHA1: 9d8e7b7f6409c58cf6e921f520c42f9360b402ef SHA256: 9ec1511a3e18782e21515d341a3790bc26b438678650ca1cabd41da91c3aeef0 SHA512: 4f687cef3523fb418f508cbbd64ab9af68f63d669aa1afc2381cc4fdd813ba554d6e138caa63b6d8a49a99cf1ffaa2cc8437111aaeda251f9068a22fec297632 Homepage: https://cran.r-project.org/package=wsjplot Description: CRAN Package 'wsjplot' (Style Time Series Plots Like the Wall Street Journal) Easily override the default visual choices in 'ggplot2' to make your time series plots look more like the Wall Street Journal. 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Package: r-cran-wsprv Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 53 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-glmnet, r-cran-mnormt Filename: pool/dists/focal/main/r-cran-wsprv_0.1.0-1.ca2004.1_all.deb Size: 23392 MD5sum: 0fbb13df1d511eabf92d866e0102a656 SHA1: b52f26eed13f762437cc76030525c6dcb0fc5a56 SHA256: a0bb613aabba10e91e2eaf4e28d0dca58244a55a78aae4f96777e6a32a00868d SHA512: 7f7519835f557752ffd255f0f9138a3d1a3006ce337c96ab1e414fce04d30185e7f99fdcdbdb470b8f6f5823cb6b52405d371b57ae83c4e45804a7030e33c1e3 Homepage: https://cran.r-project.org/package=wsprv Description: CRAN Package 'wsprv' (Weighted Selection Probability for Rare Variant Analysis) A weighted selection probability to locate rare variants associated with multiple phenotypes. Package: r-cran-wsyn Architecture: all Version: 1.0.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2209 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-fields, r-cran-mass Suggests: r-cran-knitr, r-cran-mvtnorm, r-cran-rmarkdown, r-cran-testthat, r-cran-vdiffr Filename: pool/dists/focal/main/r-cran-wsyn_1.0.4-1.ca2004.1_all.deb Size: 1843396 MD5sum: 4de885ad62dfee60692c6d42548f9205 SHA1: 33e46ca07b78d247ca219382dd19a0936e946ce4 SHA256: 3d4568188cd70e1c5b593a244fba7fd0d3d6e96699247f337302fb4d334314ce SHA512: 7e33d4cd4148df3d21501c868acea13a09f0dc5e5b8d577e352a4bca49af6ea88361ccd384dd39414170e20cf73b567244884f238b37a30d970d3f3ff6127cdf Homepage: https://cran.r-project.org/package=wsyn Description: CRAN Package 'wsyn' (Wavelet Approaches to Studies of Synchrony in Ecology and OtherFields) Tools for a wavelet-based approach to analyzing spatial synchrony, principally in ecological data. Some tools will be useful for studying community synchrony. See, for instance, Sheppard et al (2016) , Sheppard et al (2017) , Sheppard et al (2019) . Package: r-cran-wto Architecture: all Version: 2.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 280 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-igraph, r-cran-magrittr, r-cran-plyr, r-cran-som, r-cran-visnetwork, r-cran-reshape2, r-cran-rfast, r-cran-hiclimr Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-wto_2.1-1.ca2004.1_all.deb Size: 174000 MD5sum: 78235bcaaf8988440c9df636f36825ba SHA1: ed1a30acf4b972d30d3352ed2692c24c621f4790 SHA256: d637f8b856e2a86b09df3e65ab7f176982731ecc4e8b036d55fdca6f80bf79c3 SHA512: c6f355c42ef1f56188bab3067806e031978276b31d1c5fbf745aeaef84a85c85a2db989e0ee3ca6fc429971bce44802edd315c98acc90f47cadd424afde419c9 Homepage: https://cran.r-project.org/package=wTO Description: CRAN Package 'wTO' (Computing Weighted Topological Overlaps (wTO) & Consensus wTONetwork) Computes the Weighted Topological Overlap with positive and negative signs (wTO) networks given a data frame containing the mRNA count/ expression/ abundance per sample, and a vector containing the interested nodes of interaction (a subset of the elements of the full data frame). It also computes the cut-off threshold or p-value based on the individuals bootstrap or the values reshuffle per individual. It also allows the construction of a consensus network, based on multiple wTO networks. The package includes a visualization tool for the networks. More about the methodology can be found at . 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Package: r-cran-wux Architecture: all Version: 2.2-1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1886 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-sp, r-cran-ncdf4, r-cran-reshape, r-cran-abind, r-cran-fields, r-cran-rgdal, r-cran-rgeos, r-cran-class, r-cran-stringr, r-cran-hmisc, r-cran-gdata, r-cran-corpcor, r-cran-rworldmap Suggests: r-cran-lattice Filename: pool/dists/focal/main/r-cran-wux_2.2-1-1.ca2004.1_all.deb Size: 1774356 MD5sum: c102f9e760c69ee41659420d0ca41d89 SHA1: b9675602f982fd723950574107c2a0bb49aa0048 SHA256: 6aba5b446b1bd5459210fdd9dd38f10ed5dc6ea0cb200a8e221fbbf2b3e309fd SHA512: 38b7812835aeacdac40f58c7ae1e843386b40862a7db15f9dc7c7f759014159ad90c2ee908a279eb7363573c645a47a9b060bd0bbdaef091c27b3918b45cf963 Homepage: https://cran.r-project.org/package=wux Description: CRAN Package 'wux' (Wegener Center Climate Uncertainty Explorer) Methods to calculate and interpret climate change signals and time series from climate multi-model ensembles. Climate model output in binary 'NetCDF' format is read in and aggregated over a specified region to a data.frame for statistical analysis. Global Circulation Models, as the 'CMIP5' simulations, can be read in the same way as Regional Climate Models, as e.g. the 'CORDEX' or 'ENSEMBLES' simulations. The package has been developed at the 'Wegener Center for Climate and Global Change' at the University of Graz, Austria. Package: r-cran-wvplots Architecture: all Version: 1.3.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3673 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-wrapr, r-cran-ggplot2, r-cran-sigr, r-cran-cdata, r-cran-rqdatatable, r-cran-rquery, r-cran-rlang, r-cran-gridextra, r-cran-mgcv Suggests: r-cran-data.table, r-cran-knitr, r-cran-rmarkdown, r-cran-plotly, r-cran-hexbin, r-cran-tinytest Filename: pool/dists/focal/main/r-cran-wvplots_1.3.8-1.ca2004.1_all.deb Size: 2341008 MD5sum: 3caeb1f6537884e32273c50440ff28bc SHA1: f4a1670c57de0496d6835eb5c04d0bcfb0be73c8 SHA256: 1b0d2813ec87b9581e999c0ee750ab1c9f9bb87dca5612a5109499be1643e09c SHA512: 62e990350c13bf567cd184a3862081b0ee0fe98e23458cf7f2dbd4ab6b901e13a31ec55a3fd43448169aeb5d49dbb8a2642fd64247b3474234ef7a7c96956a2a Homepage: https://cran.r-project.org/package=WVPlots Description: CRAN Package 'WVPlots' (Common Plots for Analysis) Select data analysis plots, under a standardized calling interface implemented on top of 'ggplot2' and 'plotly'. Plots of interest include: 'ROC', gain curve, scatter plot with marginal distributions, conditioned scatter plot with marginal densities, box and stem with matching theoretical distribution, and density with matching theoretical distribution. Package: r-cran-wwgbook Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 98 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-wwgbook_1.0.2-1.ca2004.1_all.deb Size: 41724 MD5sum: 954e2d8795b835b6e6e257224a23bf8b SHA1: 5a82bd413ced6abaa8e3b6a6ea59772940722416 SHA256: d41d36d7faaf5613be9f6b2354b691c47ceb1d432862a67bbd47cf4ac230323c SHA512: 869ffca975981037de35632b5ad840c18eac092996db1ccc222cbf0a4f6eee71b00ba6358e508f1addbe32d3ecc15cfb232a69284d6c6a3ebca73c7b468af037 Homepage: https://cran.r-project.org/package=WWGbook Description: CRAN Package 'WWGbook' (Functions and Datasets for WWGbook) Book is "Linear Mixed Models: A Practical Guide Using Statistical Software" published in 2006 by Chapman Hall / CRC Press. Package: r-cran-wwntests Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 191 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-sde, r-cran-ftsa, r-cran-rainbow, r-cran-mass, r-cran-fda Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-compquadform, r-cran-tensora Filename: pool/dists/focal/main/r-cran-wwntests_1.1.0-1.ca2004.1_all.deb Size: 147188 MD5sum: bbd6780da70c4df5f7aaec7005e89b71 SHA1: 2cfa63bcaf73e6617dd4abc0760cf214849aed0b SHA256: 6ef5ac3509fc73beb93686f2c78b70a4764ad2ee6ead467f0e83b85fe5e40fbf SHA512: d04898356f74eebfb99ada9bbfcec1057ec70f06b226ce236eabba1891240cf6f350ab1a44708fe83db55cf7022978b954f3c40e54ab1144e2ce6a090dab44d6 Homepage: https://cran.r-project.org/package=wwntests Description: CRAN Package 'wwntests' (Hypothesis Tests for Functional Time Series) Provides a collection of white noise hypothesis tests for functional time series and related visualizations. These include tests based on the norms of autocovariance operators that are built under both strong and weak white noise assumptions. Additionally, tests based on the spectral density operator and on principal component dimensional reduction are included, which are built under strong white noise assumptions. Also, this package provides goodness-of-fit tests for functional autoregressive of order 1 models. These methods are described in Kokoszka et al. (2017) , Characiejus and Rice (2019) , Gabrys and Kokoszka (2007) , and Kim et al. (2023) respectively. Package: r-cran-wxgenr Architecture: all Version: 1.4.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2616 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lubridate, r-cran-msm, r-cran-sm, r-cran-dplyr, r-cran-plyr, r-cran-foreach, r-cran-doparallel, r-cran-magrittr, r-cran-dorng, r-cran-mc2d, r-cran-qmap, r-cran-tidyr Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-reshape2, r-cran-ggpubr, r-cran-moments, r-cran-seas, r-cran-padr, r-cran-hydrogof, r-cran-specsverification, r-cran-ggridges, r-cran-tigris, r-cran-terra, r-cran-stringr, r-cran-mapview, r-cran-xts, r-cran-sf, r-cran-lfstat, r-cran-feddata, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-wxgenr_1.4.4-1.ca2004.1_all.deb Size: 2049852 MD5sum: b656ad5dd9fe5447f6d44b4ebc2dfc85 SHA1: 8f5fe420480b1e46fae2a29022c93e32588e62d5 SHA256: ecdb1a3e0866289cbaf99014bd208dcf9bc1af6e828dda1a71468579e5549360 SHA512: b15c989959e842abc41be0db62d00249289d3c7d88c3eb5fcf4bd0fe0249e879e1a4973b4dfc25cab708aecefb9a171e238c25bf07a5ac293601db585c8d78a3 Homepage: https://cran.r-project.org/package=wxgenR Description: CRAN Package 'wxgenR' (A Stochastic Weather Generator with Seasonality) A weather generator to simulate precipitation and temperature for regions with seasonality. Users input training data containing precipitation, temperature, and seasonality (up to 26 seasons). Including weather season as a training variable allows users to explore the effects of potential changes in season duration as well as average start- and end-time dates due to phenomena like climate change. Data for training should be a single time series but can originate from station data, basin averages, grid cells, etc. Bearup, L., Gangopadhyay, S., & Mikkelson, K. (2021). "Hydroclimate Analysis Lower Santa Cruz River Basin Study (Technical Memorandum No ENV-2020-056)." Bureau of Reclamation. Gangopadhyay, S., Bearup, L. A., Verdin, A., Pruitt, T., Halper, E., & Shamir, E. (2019, December 1). "A collaborative stochastic weather generator for climate impacts assessment in the Lower Santa Cruz River Basin, Arizona." Fall Meeting 2019, American Geophysical Union. . Package: r-cran-wyz.code.metatesting Architecture: all Version: 1.1.22-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 303 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-tidyr, r-cran-wyz.code.offensiveprogramming, r-cran-crayon Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-wyz.code.metatesting_1.1.22-1.ca2004.1_all.deb Size: 221612 MD5sum: 57877e2759f388844b665677f9d59064 SHA1: c9f0188a820cb8638d99fb9cc693317ca8f028a8 SHA256: 6370cec385f319b892021c7290f99dca2ed9b6a18042fe5213732cfe0747d6b7 SHA512: b148d4493b238f12e68315fd08576c2a490837ee52615050460fc23a6f798128e4345ba376fbadea83fceed3c3aa9ef3444aec7acb7c72f5b27e4553c057e880 Homepage: https://cran.r-project.org/package=wyz.code.metaTesting Description: CRAN Package 'wyz.code.metaTesting' (Wizardry Code Meta Testing) Meta testing is the ability to test a function without having to provide its parameter values. Those values will be generated, based on semantic naming of parameters, as introduced by package 'wyz.code.offensiveProgramming'. Value generation logic can be completed with your own data types and generation schemes. This to meet your most specific requirements and to answer to a wide variety of usages, from general use case to very specific ones. While using meta testing, it becomes easier to generate stress test campaigns, non-regression test campaigns and robustness test campaigns, as generated tests can be saved and reused from session to session. Main benefits of using 'wyz.code.metaTesting' is ability to discover valid and invalid function parameter combinations, ability to infer valid parameter values, and to provide smart summaries that allows you to focus on dysfunctional cases. Package: r-cran-wyz.code.offensiveprogramming Architecture: all Version: 1.1.24-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 489 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-data.table, r-cran-tidyr, r-cran-stringr, r-cran-r6, r-cran-crayon Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-wyz.code.offensiveprogramming_1.1.24-1.ca2004.1_all.deb Size: 293824 MD5sum: 37ab29ccf94e035cb245fc691300ace6 SHA1: f74d5c255c005ec4aad8c18fda7dc6c8b090db14 SHA256: 7f5773059d6f1492f057ccdfc874a87ce0e81d6899144092eea76e1d84b1a170 SHA512: 6e71313d0bd361c3bc8577097eea2aaa7736f1ffa1400c0e31ab1d308f2a0452a14cbcfbfdb48a8e236c596e1c034f98e4a02dc8ce366093628028eaa791c4c6 Homepage: https://cran.r-project.org/package=wyz.code.offensiveProgramming Description: CRAN Package 'wyz.code.offensiveProgramming' (Wizardry Code Offensive Programming) Allows to turn standard R code into offensive programming code. Provides code instrumentation to ease this change and tools to assist and accelerate code production and tuning while using offensive programming code technics. Should improve code robustness and quality. Function calls can be easily verified on-demand or in batch mode to assess parameter types and length conformities. Should improve coders productivity as offensive programming reduces the code size due to reduced number of controls all along the call chain. Should speed up processing as many checks will be reduced to one single check. Package: r-cran-wyz.code.rdoc Architecture: all Version: 1.1.19-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3916 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-data.table, r-cran-tidyr, r-cran-wyz.code.offensiveprogramming, r-cran-stringr, r-cran-r6, r-cran-crayon, r-cran-digest Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-wyz.code.rdoc_1.1.19-1.ca2004.1_all.deb Size: 1484928 MD5sum: 63c6db552207eeb5750b29305c0692fb SHA1: b170e11b59c5a20ac8864285196b534fc210b8d9 SHA256: e0a66609dfb80e69b446bad3430606a61b46b596a075a912a93988cbed724407 SHA512: 2008993220ef1e04bfe4199b01d60eac75f8717736343eecaa6d55c7944cb6bf68f38c10f1f4e1657af8f5b4471bd1e1c25840bf928ede727d0edc51e1789537 Homepage: https://cran.r-project.org/package=wyz.code.rdoc Description: CRAN Package 'wyz.code.rdoc' (Wizardry Code Offensive Programming R Documentation) Allows to generate on-demand or by batch, any R documentation file, whatever is kind, data, function, class or package. It populates documentation sections, either automatically or by considering your input. Input code could be standard R code or offensive programming code. Documentation content completeness depends on the type of code you use. With offensive programming code, expect generated documentation to be fully completed, from a format and content point of view. With some standard R code, you will have to activate post processing to fill-in any section that requires complements. Produced manual page validity is automatically tested against R documentation compliance rules. Documentation language proficiency, wording style, and phrasal adjustments remains your job. 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Generated test files are complete and ready to run. Using 'wyz.code.testthat' you will earn a lot of time, reduce the number of errors in test case production, be able to test immediately generated files without any need to view or modify them, and enter a zero time latency between code implementation and industrial testing. As with 'testthat', you may complete provided test cases according to your needs to push testing further, but this need is nearly void when using 'wyz.code.offensiveProgramming'. 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It can be accessed from 'R' with this package and 'X13-ARIMA-SEATS' binaries are provided by the 'R' package 'x13binary'. 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Package: r-cran-xcertainty Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3264 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-nimble, r-cran-tidyr, r-cran-dplyr, r-cran-coda Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-stringr, r-cran-ggdist, r-cran-tidyverse Filename: pool/dists/focal/main/r-cran-xcertainty_1.0.1-1.ca2004.1_all.deb Size: 1292392 MD5sum: b64f3731d999624acacd7e1506372231 SHA1: 8905b0325a8e5e3ca0d6cfe84b844bb876a52b3c SHA256: 1bb3700552d5bea0edf5585bab5da3c3b6b04f48c82c2a5c8e804ddd4fda07d2 SHA512: 1924ed0e0f7bc3b8be0165925f26af154c177cb0df8e51dee25457d002b1673313d83f9f529b708ff4ab78eb6da8de4996a642166a9d320ef6e5aed5d70ba731 Homepage: https://cran.r-project.org/package=Xcertainty Description: CRAN Package 'Xcertainty' (Estimating Lengths and Uncertainty from Photogrammetric Imagery) Implementation of Bayesian models for estimating object lengths and morphological relationships between object lengths using photographic data collected from drones. 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Package: r-cran-xega Architecture: all Version: 0.9.0.8-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 208 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-parallelly, r-cran-filelock, r-cran-xegaselectgene, r-cran-xegabnf, r-cran-xegaderivationtrees, r-cran-xegagagene, r-cran-xegagpgene, r-cran-xegagegene, r-cran-xegadfgene, r-cran-xegapermgene, r-cran-xegapopulation Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-xega_0.9.0.8-1.ca2004.1_all.deb Size: 176176 MD5sum: f0c12457d0f81a2cfbf87ca8aa8be31c SHA1: f5d05a6703f338f5243a30c6e8283bcfa249003e SHA256: 0b870ae64a3e104c14f87dd8bb91a3aa36fccb9c7c126810f2440aa71456a39b SHA512: e8ad0a1a6ce9c1c05f5959a6f0a8436026098ea28a7c81bb5841d5bd80c1fd7c54f33b28382f8237b230c24d7265a396f60b0f6bf0ad9c31e17859aa2bd68b3a Homepage: https://cran.r-project.org/package=xega Description: CRAN Package 'xega' (Extended Evolutionary and Genetic Algorithms) Implementation of a scalable, highly configurable, and e(x)tended architecture for (e)volutionary and (g)enetic (a)lgorithms. Multiple representations (binary, real-coded, permutation, and derivation-tree), a rich collection of genetic operators, as well as an extended processing pipeline are provided for genetic algorithms (Goldberg, D. E. (1989, ISBN:0-201-15767-5)), differential evolution (Price, Kenneth V., Storn, Rainer M. and Lampinen, Jouni A. (2005) ), simulated annealing (Aarts, E., and Korst, J. (1989, ISBN:0-471-92146-7)), grammar-based genetic programming (Geyer-Schulz (1997, ISBN:978-3-7908-0830-X)), and grammatical evolution (Ryan, C., O'Neill, M., and Collins, J. J. (2018) ). All algorithms reuse basic adaptive mechanisms for performance optimization. Sequential or parallel execution (on multi-core machines, local clusters, and high-performance computing environments) is available for all algorithms. See . Package: r-cran-xegabnf Architecture: all Version: 1.0.0.5-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 153 Depends: r-base-core (>= 4.4.0), r-api-4.0 Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-xegabnf_1.0.0.5-1.ca2004.1_all.deb Size: 119436 MD5sum: 96e4ed71dd39e3a4896a8c327c58b6a6 SHA1: a184ce26a9cc67e069cf9695f93f41a37f7e6321 SHA256: a974c5944b19677b67882b060c2877ad5719ecaee69faf7096f476abd908da99 SHA512: 5dbf550e8b8804d74e18c9cf4cd26ca79d6138f253072ffcbf504f37e456459359eb1cd88c8d371ea65485a0d9c3f565fd07b2b9daad6443feab92a4246cb953 Homepage: https://cran.r-project.org/package=xegaBNF Description: CRAN Package 'xegaBNF' (Compile a Backus-Naur Form Specification into an R GrammarObject) Translates a BNF (Backus-Naur Form) specification of a context-free language into an R grammar object which consists of the start symbol, the symbol table, the production table, and a short production table. 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Package: r-cran-xegaderivationtrees Architecture: all Version: 1.0.0.6-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 167 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xegabnf Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-xegaderivationtrees_1.0.0.6-1.ca2004.1_all.deb Size: 129556 MD5sum: 0a161a97f3eba7cbf5fb35965ec5c3be SHA1: 8d29b2f6d2a50a6f84c7f740c1f1057edc72398d SHA256: 2f3775c2da6324bb1b4b775489c06deb803f8a03faf4e7d88a68cdacbf08b288 SHA512: b4de30b235e55ac760de29227139f759665189ec4cd021cf6de9030635f8e1656f56fc002b150fd9042b77e672bbf887dcd653c05b926cd4950ca5461495d438 Homepage: https://cran.r-project.org/package=xegaDerivationTrees Description: CRAN Package 'xegaDerivationTrees' (Generating and Manipulating Derivation Trees) Derivation tree operations are needed for implementing grammar-based genetic programming and grammatical evolution: Generating a random derivation trees of a context-free grammar of bounded depth, decoding a derivation tree, choosing a random node in a derivation tree, extracting a tree whose root is a specified node, and inserting a subtree into a derivation tree at a specified node. These operations are necessary for the initialization and for decoders of a random population of programs, as well as for implementing crossover and mutation operators. Depth-bounds are guaranteed by switching to a grammar without recursive production rules. For executing the examples, the package 'BNF' is needed. The basic tree operations for generating, extracting, and inserting derivation trees as well as the conditions for guaranteeing complete derivation trees have been presented in Geyer-Schulz (1997, ISBN:978-3-7908-0830-X). The use of random integer vectors for the generation of derivation trees has been introduced in Ryan, C., Collins, J. J., and O'Neill, M. (1998) for grammatical evolution. Package: r-cran-xegadfgene Architecture: all Version: 1.0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xegaselectgene Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-xegadfgene_1.0.0.3-1.ca2004.1_all.deb Size: 71100 MD5sum: bdbe814ef8050f82e7c3c3eb254244d4 SHA1: cc7dbc3637ce11ab3f1e73f3dbf8ccf84cbf0d8a SHA256: e37c06beefa1af63feb1a8e6a5d569e0be4a25dc1e5456f396a6b9a19ce17e1d SHA512: 608d5687302fcba371bcf0ddd7235433f056b6f48e0b8fe06333c407f70b34cb2a9221b1b702e5ee5678058b1df09b1a61786fe9d397163e1f4ea0d2e93323de Homepage: https://cran.r-project.org/package=xegaDfGene Description: CRAN Package 'xegaDfGene' (Gene Operations for Real-Coded Genes) Representation-dependent gene-level operations for genetic and evolutionary algorithms with real-coded genes are collected in this package. The common feature of the gene operations is that all of them are useful for derivation-free optimization algorithms. At the moment the package implements initialization, mutation, crossover, and replication operations for differential evolution as described in Price, Kenneth V., Storn, Rainer M. and Lampinen, Jouni A. (2005) . 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See Goldberg, D. E. (1989, ISBN:0-201-15767-5). For crossover operators, see Syswerda, G. (1989, ISBN:1-55860-066-3), Spears, W. and De Jong, K. (1991, ISBN:1-55860-208-9). For mutation operators, see Stanhope, S. A. and Daida, J. M. (1996, ISBN:0-18-201-031-7). Package: r-cran-xegagegene Architecture: all Version: 1.0.0.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 114 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-numbers, r-cran-xegaselectgene, r-cran-xegabnf, r-cran-xegaderivationtrees Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-xegagegene_1.0.0.3-1.ca2004.1_all.deb Size: 79596 MD5sum: fcc76dfb1c5b2e1f384a46284ff753cd SHA1: fcb7f89ff6124c5564214be96ae1e34f5ef09415 SHA256: 1b8d4ac054d5745daf3b66665b574a83bf88cbfb9ef09f409376233cec419252 SHA512: a82db3b013b6227f5adab0c68948a5e67adcc7914a2b5a51eccd533e7b4c05b7b0087fe51686945f640689232f69e2ad61c92d9201669c916e3736b43708c43a Homepage: https://cran.r-project.org/package=xegaGeGene Description: CRAN Package 'xegaGeGene' (Grammatical Evolution) Grammatical evolution (see O'Neil, M. and Ryan, C. (2003,ISBN:1-4020-7444-1)) uses decoders to convert linear (binary or integer genes) into programs. In addition, automatic determination of codon precision with a limited rule choice bias is provided. For a recent survey of grammatical evolution, see Ryan, C., O'Neill, M., and Collins, J. J. (2018) . Package: r-cran-xegagpgene Architecture: all Version: 1.0.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 109 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xegabnf, r-cran-xegaderivationtrees, r-cran-xegaselectgene Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-xegagpgene_1.0.0.2-1.ca2004.1_all.deb Size: 75420 MD5sum: 944aaac4d4fdaae6b9780937f7b853cd SHA1: cae0398380293ec890736d84e344e38c171d3259 SHA256: 82fef9bc9cf1810fab0d492afded64e967c2567ddf59a987e3a669337f2950ae SHA512: f3d7a22650aa11e3f13682dca773d64e37dbbb0a42684b6b3691390201f464187264fac0445d4c743221fbf8b6e70d8d6611916ea68e7696bea6ea94618fc6ae Homepage: https://cran.r-project.org/package=xegaGpGene Description: CRAN Package 'xegaGpGene' (Genetic Operations for Grammar-Based Genetic Programming) An implementation of the representation-dependent gene level operations of grammar-based genetic programming with genes which are derivation trees of a context-free grammar: Initialization of a gene with a complete random derivation tree, decoding of a derivation tree. Crossover is implemented by exchanging subtrees. Depth-bounds for the minimal and the maximal depth of the roots of the subtrees exchanged by crossover can be set. Mutation is implemented by replacing a subtree by a random subtree. The depth of the random subtree and the insertion node are configurable. For details, see Geyer-Schulz (1997, ISBN:978-3-7908-0830-X). Package: r-cran-xegapermgene Architecture: all Version: 1.0.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 116 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-xegaselectgene Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-xegapermgene_1.0.0.1-1.ca2004.1_all.deb Size: 84724 MD5sum: 9e55e5ca85923d74f546eee22b2f012e SHA1: 1a855f539880b1a76a75e336114a077e8ba72f53 SHA256: 79e25c76e8bc75884058e9237a57afe99e6c596899ec0c010098621a7a372044 SHA512: 73ef24f52346f5a3db8240acb19b6f6e38fd07cad7dd0c7dd344ebc485ab5dfe4251cde74dcc2f8aa30aca8790b0a6c7eedc05f5b5e311f6223e0a3664c71b23 Homepage: https://cran.r-project.org/package=xegaPermGene Description: CRAN Package 'xegaPermGene' (Operations on Permutation Genes) An implementation of representation-dependent gene level operations for genetic algorithms with genes representing permutations: Initialization of genes, mutation, and crossover. The crossover operation provided is position-based crossover (Syswerda, G., Chap. 21 in Davis, L. (1991, ISBN:0-442-00173-8). For mutation, several variants are included: Order-based mutation (Syswerda, G., Chap. 21 in Davis, L. (1991, ISBN:0-442-00173-8), randomized Lin-Kernighan heuristics (Croes, G. A. (1958) and Lin, S. and Kernighan. B. W. (1973) ), and randomized greedy operators. A random mix operator for mutation selects a mutation variant randomly. 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Second, evaluation functions for deterministic functions avoid recomputation. Evaluation of stochastic functions incrementally improve the estimation of the mean and variance of fitness values at almost no additional cost. Evaluation functions for gene repair handle error-correcting decoders. Third, timing and counting functions for profiling the algorithm pipeline are provided to assess bottlenecks in the algorithms. Fourth, a small collection of problem environments for function optimization, combinatorial optimization, and grammar-based genetic programming and grammatical evolution is provided for tutorial examples. The methods in the package are described by the following references: Baker, James E. (1987, ISBN:978-08058-0158-8), De Jong, Kenneth A. (1975) , Geyer-Schulz, Andreas (1997, ISBN:978-3-7908-0830-X), Grefenstette, John J. (1987, ISBN:978-08058-0158-8), Grefenstette, John J. and Baker, James E. (1989, ISBN:1-55860-066-3), Holland, John (1975, ISBN:0-472-08460-7), Lau, H. 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However, a user-friendly, reliable, and robust platform to extract color-based statistics and time-series from a large stack of images is still lacking. Here, we present an interactive open-source toolkit, called 'xROI', that facilitate the process time-series extraction and improve the quality of the final data. 'xROI' provides a responsive environment for scientists to interactively a) delineate regions of interest (ROI), b) handle field of view (FOV) shifts, and c) extract and export time series data characterizing image color (i.e. red, green and blue channel digital numbers for the defined ROI). Using 'xROI', user can detect FOV shifts without minimal difficulty. The software gives user the opportunity to readjust the mask files or redraw new ones every time an FOV shift occurs. 'xROI' helps to significantly improve data accuracy and continuity. 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Package: r-cran-yowie Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1407 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-tsibble Suggests: r-cran-ggplot2, r-cran-knitr, r-cran-markdown, r-cran-rmarkdown, r-cran-dplyr, r-cran-tidyr, r-cran-forcats, r-cran-janitor, r-cran-kableextra Filename: pool/dists/focal/main/r-cran-yowie_0.1.0-1.ca2004.1_all.deb Size: 1009968 MD5sum: d112cfe7a5e051fa3cae9c757b2f2289 SHA1: 18135f369b4f866d2c2f959d28c71727ab5fe292 SHA256: c60f9681c90be56eebce119879c5f27a2a50f1e264694874fae0c69af5e94f2d SHA512: d6f4800e195eb0d92dba73e5e1c55dec8ce8cbee493ee28753147308bc3453417b8d59592d7aab2a335bd454d2efe603444fd151e1223ce021235d1aa0fb56a3 Homepage: https://cran.r-project.org/package=yowie Description: CRAN Package 'yowie' (Longitudinal Wages Data from the National Longitudinal Survey ofYouth 1979) Longitudinal wages data sets and several demographic variables from the National Longitudinal Survey of Youth from 1979 to 2018. 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Package: r-cran-ypmodel Architecture: all Version: 1.4-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 416 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-ypmodel_1.4-1.ca2004.1_all.deb Size: 380112 MD5sum: 23fa0f1b56e5d363236ea99608406c56 SHA1: 44d7617b4cdfae712c9db873fb198d498e3fe97d SHA256: 0c5773bf5494564628fad2dc7734b5b9ae600dae01216782f76cda73fb305117 SHA512: 4f69bf6b5cfbdce88bb24d05fe50aa52aae8b970974c30c8994953ea694a3abdfe9f910ae2a7f449a70ca16ab81b62af36342e27cbe5d5609573f94ac8a6f9b2 Homepage: https://cran.r-project.org/package=YPmodel Description: CRAN Package 'YPmodel' (The Short-Term and Long-Term Hazard Ratio Model for SurvivalData) Inference procedures accommodate a flexible range of hazard ratio patterns with a two-sample semi-parametric model. 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You provide the data, tell get_zerotradeflow() which variables are of interest and it expands the base by creating the bilateral zero trade flow. The bases on the flow of trade between countries only report positive trade (greater than zero), however, for some analyzes of gravitacional models, data on zero flow is also necessary. Some examples for Gravity Model: Figueiredo and Loures (2016) and Yotov, Piermartini, Monteiro and Larch . Package: r-cran-zetadiv Architecture: all Version: 1.3.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 442 Depends: r-base-core (>= 4.5.0), r-api-4.0, r-cran-scam, r-cran-car, r-cran-mgcv, r-cran-vegan, r-cran-geodist, r-cran-nnls, r-cran-glm2 Filename: pool/dists/focal/main/r-cran-zetadiv_1.3.0-1.ca2004.1_all.deb Size: 409756 MD5sum: b16494277e6f5203085776cf23d13aea SHA1: a237fecbd5635e6b52019d03de0c3431b7cdbf4e SHA256: a5af8f2415e28e0f4e66d869d3ca389944fa78824b22a27d3e9d344bc1583c48 SHA512: af2fdb97363318adaee7c7877eaa22790f1270ed1616028b8b380640af24acd9ebdba4b6d53ead9998fc501a0aa3b69b1b403527517043034face39bd68dc383 Homepage: https://cran.r-project.org/package=zetadiv Description: CRAN Package 'zetadiv' (Functions to Compute Compositional Turnover Using Zeta Diversity) Functions to compute compositional turnover using zeta-diversity, the number of species shared by multiple assemblages. The package includes functions to compute zeta-diversity for a specific number of assemblages and to compute zeta-diversity for a range of numbers of assemblages. It also includes functions to explain how zeta-diversity varies with distance and with differences in environmental variables between assemblages, using generalised linear models, linear models with negative constraints, generalised additive models,shape constrained additive models, and I-splines. Package: r-cran-zetasuite Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 3807 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rcolorbrewer, r-cran-rtsne, r-cran-dplyr, r-cran-e1071, r-cran-ggplot2, r-cran-reshape2, r-cran-gridextra, r-cran-mixtools Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-zetasuite_1.0.1-1.ca2004.1_all.deb Size: 3807628 MD5sum: 40999559a0a85d78d23b2d8d5d81a3df SHA1: 462218587e646d5a79a77900759d9d7edfa0cd31 SHA256: f1d4b5e27f81c9b337c2ae28c5b64016cbe7a10c59d64a798bbbe681863b27e4 SHA512: e2a1337a9777d3a023f4b5e7c45362f1f7ba76e3f7206a12c22ae5e029118c31819aff8cde8677bfefc5f94fe31f4932c028141ee80e2f97dcabac911d4e810b Homepage: https://cran.r-project.org/package=ZetaSuite Description: CRAN Package 'ZetaSuite' (Analyze High-Dimensional High-Throughput Dataset and QualityControl Single-Cell RNA-Seq) The advent of genomic technologies has enabled the generation of two-dimensional or even multi-dimensional high-throughput data, e.g., monitoring multiple changes in gene expression in genome-wide siRNA screens across many different cell types (E Robert McDonald 3rd (2017) and Tsherniak A (2017) ) or single cell transcriptomics under different experimental conditions. We found that simple computational methods based on a single statistical criterion is no longer adequate for analyzing such multi-dimensional data. We herein introduce 'ZetaSuite', a statistical package initially designed to score hits from two-dimensional RNAi screens.We also illustrate a unique utility of 'ZetaSuite' in analyzing single cell transcriptomics to differentiate rare cells from damaged ones (Vento-Tormo R (2018) ). In 'ZetaSuite', we have the following steps: QC of input datasets, normalization using Z-transformation, Zeta score calculation and hits selection based on defined Screen Strength. Package: r-cran-zfit Architecture: all Version: 0.4.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 315 Depends: r-base-core (>= 4.2.2), r-api-4.0 Suggests: r-cran-dplyr, r-cran-estimatr, r-cran-mass, r-cran-pls, r-cran-testthat, r-cran-tibble Filename: pool/dists/focal/main/r-cran-zfit_0.4.0-1.ca2004.1_all.deb Size: 284652 MD5sum: 3cb9b9f18b98164a7de838aee8b81b35 SHA1: 9dcb2b915b6ace4e37662092a852fb4c485e9b25 SHA256: a043e510dd79c7359ad2d3ebca6e7015873aeec143b63e8fcda41648aa40265d SHA512: 0ce24ff2964bf782f8021f12c2c79770b83ef16e5b33993bbfb559588d8822dd7178e50233ec839f4283a9b125960c576371ca5eac35393931d40b2b68c2b2ee Homepage: https://cran.r-project.org/package=zfit Description: CRAN Package 'zfit' (Fit Models in a Pipe) Improve the usage of model fitting functions within a piped work flow. Package: r-cran-zibbseqdiscovery Architecture: all Version: 1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 246 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mcc Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-zibbseqdiscovery_1.0-1.ca2004.1_all.deb Size: 188664 MD5sum: 610932ba9e06cb8da89e5a274bd1f932 SHA1: 182df850d970a55a369937ece96bfc2bfed485e7 SHA256: 1cd738f55a3a5daeee618196475e0e586c4e20c16a09dc6e1908456941811929 SHA512: 50e09742b940054c94e639b92691e9f829d99622fb43c688478e65f12c05004b2ab2190c90074211a42b36a0a04da763e6cd4ba7e578e534536eadc0f465644f Homepage: https://cran.r-project.org/package=ZIBBSeqDiscovery Description: CRAN Package 'ZIBBSeqDiscovery' (Zero-Inflated Beta-Binomial Modeling of Microbiome Count Data) Microbiome count data (Operational Taxonomic Unit, OTUs) is usually overdispersed and has excessive zero counts. The 'ZIBBSeqDiscovery' assumes a zero-inflated beta-binomial model for the distribution of the count data, and employes link functions to adjust interested covariates. To fit the model, two approaches are proposed (i) a free approach which treats the overdispersion parameters for OTUs as independent, and (ii) a constrained approach which proposes a mean-overdispersion relationship to the count data. This package can be used to test the association between the composition of the microbiome counts and the interested covariates. Package: r-cran-zibr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 577 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-statmod Suggests: r-cran-betareg, r-cran-dplyr, r-cran-lme4, r-cran-nlme, r-cran-knitr, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-zibr_1.0.2-1.ca2004.1_all.deb Size: 362216 MD5sum: 3300380e5f1c8ad82a29cacb90109812 SHA1: d0ae6d946857f21a131772c906cc9c9a230c5589 SHA256: 9aaf5da3b910be9fe0a0744ecdcbf5fe559cfe930a6a1d25060aaedf4f773953 SHA512: 86b2be89413749e16e834322cab0ac28662627d7c08c67aaef289dd34342b58d38fe5a6810ae58b4430f1a93fb58e37f5684345df4b9c38a3c2ab3cdbaabe372 Homepage: https://cran.r-project.org/package=ZIBR Description: CRAN Package 'ZIBR' (A Zero-Inflated Beta Random Effect Model) A two-part zero-inflated Beta regression model with random effects (ZIBR) for testing the association between microbial abundance and clinical covariates for longitudinal microbiome data. Eric Z. Chen and Hongzhe Li (2016) . Package: r-cran-zibseq Architecture: all Version: 1.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 97 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-gamlss, r-cran-nlme, r-cran-gamlss.dist Filename: pool/dists/focal/main/r-cran-zibseq_1.2-1.ca2004.1_all.deb Size: 66176 MD5sum: 2005e3cbb50c17b73d987c96d18cf0e9 SHA1: 27e61a1ab77f10dae258ed7fed400198fd724080 SHA256: a754f03f3a2b7a4c5fd4673ee4405897d510150793322c33e81735e59ca58707 SHA512: 7c95db3eac6b3b5d3c0c9ba2def31b4837efef6c8a2ecf4fe0b514c0c5300b07c0f8f43db915586bccdebba6d621d32a547ddc5d092b10bbf9aa6ffc258f83d3 Homepage: https://cran.r-project.org/package=ZIBseq Description: CRAN Package 'ZIBseq' (Differential Abundance Analysis for Metagenomic Data viaZero-Inflated Beta Regression) Detects abundance differences across clinical conditions. Besides, it takes the sparse nature of metagenomic data into account and handles compositional data efficiently. Package: r-cran-zillowr Architecture: all Version: 1.0.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 152 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-rcurl, r-cran-xml Suggests: r-cran-covr, r-cran-dt, r-cran-knitr, r-cran-mockery, r-cran-rmarkdown, r-cran-spelling, r-cran-testthat, r-cran-withr Filename: pool/dists/focal/main/r-cran-zillowr_1.0.0-1.ca2004.1_all.deb Size: 62008 MD5sum: f2dd9865494b662b555dd7e215dcb801 SHA1: 303f4a2932aca33cbd7cd25fd6f1ea457a225df8 SHA256: c4a2886c900c1cab7188c301931d07eea1739d43efb67f04e278f3cc0ae950f5 SHA512: 52e8be5b9b45141d39287370ee65c3fc2c61a4a7a320deb0d6bb1042b2fe40abb8d5589b617979f8d173fab22d7550a0834392380a1daa7795f66bd6ccd8f36c Homepage: https://cran.r-project.org/package=ZillowR Description: CRAN Package 'ZillowR' (R Interface to Zillow Real Estate and Mortgage Data API) Zillow, an online real estate company, provides real estate and mortgage data for the United States through a REST API. The ZillowR package provides an R function for each API service, making it easy to make API calls and process the response into convenient, R-friendly data structures. See for the Zillow API Documentation. NOTE: Zillow deprecated their API on 2021-09-30, and this package is now deprecated as a result. Package: r-cran-zim4rv Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 710 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-data.table, r-cran-pscl, r-cran-compquadform, r-cran-skat, r-cran-rnomni Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-zim4rv_0.1.1-1.ca2004.1_all.deb Size: 246840 MD5sum: eca93072c88f46a6e675c076d1e305ec SHA1: d77ab96dfe888572ddf1dab66b78f7184f2a4caf SHA256: d6709a95176658b32a5d392588ff319e0d58bb19d3805ac336edb3291ed0cb69 SHA512: 15543bbab8ad50c3d5a638dae452eb0465ac46989409564cb46aebcbe04f98df522bc3d32e5c50ff9b16b9eaefb1582ba3c5c43b9f49a86e33b36f9a17ef5115 Homepage: https://cran.r-project.org/package=ZIM4rv Description: CRAN Package 'ZIM4rv' (Gene‐based Association Tests of Zero‐inflated Count Phenotypefor Rare Variants) Gene‐based association tests to model count data with excessive zeros and rare variants using zero-inflated Poisson/zero-inflated negative Binomial regression framework. This method was originally described by Fan, Sun, and Li in Genetic Epidemiology 46(1):73-86 . Package: r-cran-zim Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 179 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-mass Suggests: r-cran-pscl, r-cran-tsa Filename: pool/dists/focal/main/r-cran-zim_1.1.0-1.ca2004.1_all.deb Size: 142228 MD5sum: 8feb1e6dcf6d95cadbc74c2cb3a2881d SHA1: d3878b7c23d92e17f3c8a54052c588e744eb4f1a SHA256: 38eb6f0276c719181fa3d2f127c8c011f75af4b5830262a852c3f47ad60ca958 SHA512: c06633b5c3a401c95d8d13af4fa5bfb2eefb84bbfbc908ba18060f873318905baa389929981f1a18e1d61e98fafa9cb8c71af99df2a7285970576d9b6d1f4370 Homepage: https://cran.r-project.org/package=ZIM Description: CRAN Package 'ZIM' (Zero-Inflated Models (ZIM) for Count Time Series with ExcessZeros) Analyze count time series with excess zeros. Two types of statistical models are supported: Markov regression by Yang et al. (2013) and state-space models by Yang et al. (2015) . They are also known as observation-driven and parameter-driven models respectively in the time series literature. The functions used for Markov regression or observation-driven models can also be used to fit ordinary regression models with independent data under the zero-inflated Poisson (ZIP) or zero-inflated negative binomial (ZINB) assumption. Besides, the package contains some miscellaneous functions to compute density, distribution, quantile, and generate random numbers from ZIP and ZINB distributions. 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(2021) . Package: r-cran-zinarp Architecture: all Version: 0.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 75 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-progress Filename: pool/dists/focal/main/r-cran-zinarp_0.1.0-1.ca2004.1_all.deb Size: 39908 MD5sum: b126c36b22cb32285e039d7b0c1711d9 SHA1: ca322fca7c6496948199fd17216cd56bc3546b38 SHA256: 1cac05b934b00318962c50a5396be1845e9b82a287b500c89b98ddb08d8040f8 SHA512: d40411c8452911584ce30bb9ff905353a8b3ef9b2129da851da4e482778fbdadc4a234570be2f2723b2ee33a9a089c9e945582738c0e57dfb9ec553f9603c3c0 Homepage: https://cran.r-project.org/package=ZINARp Description: CRAN Package 'ZINARp' (Simulate INAR/ZINAR(p) Models and Estimate Its Parameters) Simulation, exploratory data analysis and Bayesian analysis of the p-order Integer-valued Autoregressive (INAR(p)) and Zero-inflated p-order Integer-valued Autoregressive (ZINAR(p)) processes, as described in Garay et al. (2020) . Package: r-cran-zipangu Architecture: all Version: 0.3.3-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 313 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-dplyr, r-cran-lifecycle, r-cran-lubridate, r-cran-magrittr, r-cran-memoise, r-cran-purrr, r-cran-rlang, r-cran-stringi, r-cran-stringr, r-cran-tibble, r-cran-arabic2kansuji Suggests: r-cran-curl, r-cran-testthat, r-cran-scales Filename: pool/dists/focal/main/r-cran-zipangu_0.3.3-1.ca2004.1_all.deb Size: 246808 MD5sum: ae390d72d396a53964805513b5cb2eaa SHA1: e3c553826305e0bc9159d82f67620128e19d804d SHA256: 107e6a13c353477804f2dac62eee11e3211b2a09adea87f062f89c4f05e5561f SHA512: be08ef767022363ba3ef437ef6f7a330bd4d43e88289f1b07a04284b458335a144758ca81ef131570d245c54dcd0756032ca04bf227955ef91c3e23bfa69e719 Homepage: https://cran.r-project.org/package=zipangu Description: CRAN Package 'zipangu' (Japanese Utility Functions and Data) Some data treated by the Japanese R user require unique operations and processing. These are caused by address, Kanji, and traditional year representations. 'zipangu' transforms specific to Japan into something more general one. 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Search ZIP codes by multiple geographies, including state, county, city & across time zones. Also included are functions for relating ZIP codes to Census data, geocoding & distance calculations. Package: r-cran-zipfa Architecture: all Version: 0.8.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 104 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-matrix, r-cran-doparallel, r-cran-foreach, r-cran-optimx, r-cran-trustoptim Filename: pool/dists/focal/main/r-cran-zipfa_0.8.1-1.ca2004.1_all.deb Size: 70728 MD5sum: b79c74e782e2280019721e5c2981b022 SHA1: a2f41bcbfec3020a2036ff142c7479f085352854 SHA256: 166a778819bed2bcb748c53ed54abe73cf68da09514033f5c39d46c446f00046 SHA512: 30701396bb61ec408eb11a5b56afe2e58c6051ef9b47145309a2401d8fa15be31dc5a19ba9e6c8f066fde7927f26f86d5c0081bb404f214a0fa14e73ddc63639 Homepage: https://cran.r-project.org/package=ZIPFA Description: CRAN Package 'ZIPFA' (Zero Inflated Poisson Factor Analysis) Estimation methods for zero-inflated Poisson factor analysis (ZIPFA) on sparse data. It provides estimates of coefficients in a new type of zero-inflated regression. It provides a cross-validation method to determine the potential rank of the data in the ZIPFA and conducts zero-inflated Poisson factor analysis based on the determined rank. Package: r-cran-zipfextr Architecture: all Version: 1.0.2-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 221 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-vgam Suggests: r-cran-testthat Filename: pool/dists/focal/main/r-cran-zipfextr_1.0.2-1.ca2004.1_all.deb Size: 165688 MD5sum: 4bcaac3efef753b7d5225775b36f611c SHA1: f879810973e028aec4881338cddfa5654150ae62 SHA256: ebd0bd9b302aa8422bc522d304920293e18aa28862292761b65887435cf04e08 SHA512: 44bdc7c71e47ee16e8e0d7c409b55c506a17970dc9ccd7808be9ce6754563296cf9262330e293dd0e040e2c53027cf1abca41afd3260ce61c3497e21ee1887d4 Homepage: https://cran.r-project.org/package=zipfextR Description: CRAN Package 'zipfextR' (Zipf Extended Distributions) Implementation of four extensions of the Zipf distribution: the Marshall-Olkin Extended Zipf (MOEZipf) Pérez-Casany, M., & Casellas, A. (2013) , the Zipf-Poisson Extreme (Zipf-PE), the Zipf-Poisson Stopped Sum (Zipf-PSS) and the Zipf-Polylog distributions. In log-log scale, the two first extensions allow for top-concavity and top-convexity while the third one only allows for top-concavity. All the extensions maintain the linearity associated with the Zipf model in the tail. Package: r-cran-zipfr Architecture: all Version: 0.6-70-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2714 Depends: r-base-core (>= 4.1.3), r-api-4.0 Filename: pool/dists/focal/main/r-cran-zipfr_0.6-70-1.ca2004.1_all.deb Size: 2452372 MD5sum: 3fcbb099213978ab2f4d21d0f1ce018c SHA1: d5824e4497df8a8e2e32e7d4f620a8185908d321 SHA256: bd46aa51cd469829fdd33fc001deef30cdf3795976c7eced867a746f6ab18dd5 SHA512: c4a147ce8f2cca6369c6b470cdc330f1d04bffbb6590a420d0d124bdab6938c53436d15e3bb10ccf9e422b9587b639c912d7ec1816087c87e82ef17daac2b0e0 Homepage: https://cran.r-project.org/package=zipfR Description: CRAN Package 'zipfR' (Statistical Models for Word Frequency Distributions) Statistical models and utilities for the analysis of word frequency distributions. The utilities include functions for loading, manipulating and visualizing word frequency data and vocabulary growth curves. The package also implements several statistical models for the distribution of word frequencies in a population. (The name of this package derives from the most famous word frequency distribution, Zipf's law.) 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These functions can be used to analyze microbiome count data with zero-inflation and overdispersion. The model is discussed in Jiang et al (2023) . 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These include accessing ZIP Code to ZIP Code Tabulation Area (ZCTA) crosswalks, retrieving demographic data for ZCTAs, and tabulating demographic data for three-digit ZCTAs. Package: r-cran-zipr Architecture: all Version: 0.1.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 66 Depends: r-base-core (>= 4.1.3), r-api-4.0 Suggests: r-cran-knitr, r-cran-rmarkdown, r-cran-devtools Filename: pool/dists/focal/main/r-cran-zipr_0.1.1-1.ca2004.1_all.deb Size: 19224 MD5sum: 56e0c409e553c813826454adfcb5a260 SHA1: 0aab06c8d0c6d59505a4a08c7998be5c1c9e02f4 SHA256: 44d1ec1f2edffb787aa9699e35f990191d53b1ab7d8760a30cf394eafafba855 SHA512: 6975f0a0d87b1e6b319e58b30cedc196f6e08bf67a672a0ffcce143523d67541bc558a72cb2bbc01c64deb0ac7ab320d7611ee931f3fa11b8c777de78993741d Homepage: https://cran.r-project.org/package=zipR Description: CRAN Package 'zipR' (Pythonic Zip() for R) Implements Python-style zip for R. Is a more flexible version of cbind. Package: r-cran-zipradius Architecture: all Version: 1.0.1-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1079 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-dplyr, r-cran-geosphere, r-cran-magrittr, r-cran-testthat, r-cran-rlang, r-cran-ggplot2 Suggests: r-cran-knitr, r-cran-rmarkdown Filename: pool/dists/focal/main/r-cran-zipradius_1.0.1-1.ca2004.1_all.deb Size: 947940 MD5sum: c546cb249d80dca86332a0382f6d0fc2 SHA1: 6fd55ddaea9cad2222e1c5a5a32f0f8e35886e89 SHA256: fd41d9d778a8452198e1353b3df9c9cdb00937fbd102e37789c391343ce0a331 SHA512: 60f96ba1d59386728fefd93019239b2532da271a3dbe2c28be33416321cf06b6847ca1ac596e3a5a1d83b39acdae815f90bdd38c8c954b08d85b7b969d51fa3e Homepage: https://cran.r-project.org/package=ZipRadius Description: CRAN Package 'ZipRadius' (Creates a Data Frame of US Zip Codes in a Given Radius from aGiven US Zip Code) Generates a data frame of US zip codes and their distance to the given zip code when given a starting zip code and a radius in miles. 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Provide a performance indicator based on Spearman correlation to quantify the part of correlation explained by the selected set of factors. See details for the method at the following preprint e.g.: . 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Package: r-cran-zlavian Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 205 Depends: r-base-core (>= 4.4.0), r-api-4.0, r-cran-lme4, r-cran-performance, r-cran-doparallel Suggests: r-cran-rmarkdown, r-cran-knitr Filename: pool/dists/focal/main/r-cran-zlavian_0.2.0-1.ca2004.1_all.deb Size: 133620 MD5sum: ccc9ab0658f9796dccaa94046c6c7b11 SHA1: bfad4d76b98859b16c447da24286bb403a1da864 SHA256: dceba7b7fc868fc2550a92370bda3035d101d0dd78320f9d35789080c27f6847 SHA512: 88c577018d760580aa8972e7a94706338285faf2e04cdb1876e2fd6d7a620da4f5eb67cb7d2dd1003b9905f729cf1bcf8e6f08458ad27731281b83a4aed8afd0 Homepage: https://cran.r-project.org/package=ZLAvian Description: CRAN Package 'ZLAvian' (Zipf's Law of Abbreviation in Animal Vocalisations) Assesses evidence for Zipf's Law of Abbreviation in animal vocalisation using IDs, note class and note duration. The package also provides a web plot function for visualisation. 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It supports storing, retrieving, comparing, and analyzing time series forecasts for prediction challenges of interest to the modeling community. This package provides functions for working with the 'Zoltar' API, including connecting and authenticating, getting meta information (projects, models, and forecasts, and truth), and uploading, downloading, and deleting forecast and truth data. Package: r-cran-zonator Architecture: all Version: 0.6.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 2596 Depends: r-base-core (>= 4.1.3), r-api-4.0, r-cran-ggplot2, r-cran-rcolorbrewer, r-cran-raster, r-cran-reshape2, r-cran-rgdal Suggests: r-cran-knitr, r-cran-rastervis, r-cran-rmarkdown, r-cran-testthat Filename: pool/dists/focal/main/r-cran-zonator_0.6.0-1.ca2004.1_all.deb Size: 1323420 MD5sum: 6e44fba0a22a6cc98f66da8af1716501 SHA1: 000dcd25d5c7c44c394b4c83858d938cc2c3b2f8 SHA256: 42f726660f5cc92f8e8aba19dc5780a55b987e34d93115df0543180bf6e3f950 SHA512: 184b71b1e70d9b073cf3b7773530e9a54574b6fd8b0a3511606d9e5569e06f1bcc2fa2566b564c1c3977db663c6f9ee82b3e0b2cc81ce073a50adc18a17d6298 Homepage: https://cran.r-project.org/package=zonator Description: CRAN Package 'zonator' (Utilities for Zonation Spatial Conservation PrioritizationSoftware) Create new analysis setups and deal with results of Zonation conservation prioritization software . 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The package supports new zoning systems that are documented in the accompanying paper, "ClockBoard: A zoning system for urban analysis", by Lovelace et al. (2022) . The functions are motivated by research into the merits of different zoning systems (Openshaw, 1977) . A flexible ClockBoard zoning system is provided, which breaks-up space by concentric rings and radial lines emanating from a central point. By default, the diameter of the rings grow according to the triangular number sequence (Ross & Knott, 2019) with the first 4 doughnuts (or annuli) measuring 1, 3, 6, and 10 km wide. These annuli are subdivided into equal segments (12 by default), creating the visual impression of a dartboard. Zones are labelled according to distance to the centre and angular distance from North, creating a simple geographic zoning and labelling system useful for visualising geographic phenomena with a clearly demarcated central location such as cities. 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Functions in this package allow users to read, manipulate, visualize, and analyze zooarchaeological data. Package: r-cran-zooid Architecture: all Version: 0.2.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 57 Depends: r-base-core (>= 4.3.0), r-api-4.0, r-cran-magick Filename: pool/dists/focal/main/r-cran-zooid_0.2.0-1.ca2004.1_all.deb Size: 25556 MD5sum: 6ff02c661af118ea6a09759641ba73e1 SHA1: 655be490b86add89d1b6ab22fc12937b7e2c6717 SHA256: ff58758c3535ea102351944cf483a80ad00d249118d8cbda33edafe4908394de SHA512: 900baa00d22467c7564ca3e5f6f3b824a4d4b5e01780a1ac570bf4e2ca3ef0128d91f8f31658d6a7784fb228561ef5d8572364ed0cb64b1c7ee170876ac0e5c3 Homepage: https://cran.r-project.org/package=ZooID Description: CRAN Package 'ZooID' (Load, Segment and Classify Zooplankton Images) This tool provides functions to load, segment and classify zooplankton images. The image processing algorithms and the machine learning classifiers in this package are (will be, since these have not been added yet) direct ports of an early 'python' implementation that can be found at . The model weights and datasets (also not added yet) that are a part of this package can also be found at Arick Grootveld, Eva R. Kozak, Carmen Franco-Gordo (2023) . 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Package: r-cran-zoolog Architecture: all Version: 1.1.0-1.ca2004.1 Priority: optional Section: gnu-r Maintainer: Dirk Eddelbuettel Installed-Size: 1347 Depends: r-base-core (>= 4.2.0), r-api-4.0, r-cran-stringi, r-cran-rdpack Suggests: r-cran-testthat, r-cran-knitr, r-cran-rmarkdown, r-cran-ggplot2 Filename: pool/dists/focal/main/r-cran-zoolog_1.1.0-1.ca2004.1_all.deb Size: 873812 MD5sum: 45d81215549440a9802e6771816c72ed SHA1: 22084336ebf7476cadc88f3214d43804e82533d9 SHA256: 07ca74d0a3a03af743d6ad5b4324ce935cf3116c41fed2731768692b17fc45a7 SHA512: 1ca66706dce018744996d405251fd9ffacdafb89abdf62b02902790506781988bfa39fb254da8e83927d97dcccdb1cee464088e5faa4f9eab4a27a07e9a442ce Homepage: https://cran.r-project.org/package=zoolog Description: CRAN Package 'zoolog' (Zooarchaeological Analysis with Log-Ratios) Includes functions and reference data to generate and manipulate log-ratios (also known as log size index (LSI) values) from measurements obtained on zooarchaeological material. 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